=============================================================================== About this build: this rebuild has been done as part of reproduce.debian.net where we aim to reproduce Debian binary packages distributed via ftp.debian.org, by rebuilding using the exact same packages as the original build on the buildds, as described in the relevant .buildinfo file from buildinfos.debian.net. For more information please go to https://reproduce.debian.net or join #debian-reproducible on irc.debian.org =============================================================================== Preparing download of sources for /srv/rebuilderd/tmp/rebuilderdL2mRss/inputs/iqtree_3.0.1+dfsg-1_amd64.buildinfo Source: iqtree Version: 3.0.1+dfsg-1 rebuilderd-worker node: osuosl44-amd64 +------------------------------------------------------------------------------+ | Downloading sources Thu, 09 Apr 2026 23:09:22 +0000 | +------------------------------------------------------------------------------+ Get:1 https://deb.debian.org/debian trixie InRelease [140 kB] Get:2 https://deb.debian.org/debian-security trixie-security InRelease [43.4 kB] Get:3 https://deb.debian.org/debian trixie-updates InRelease [47.3 kB] Get:4 https://deb.debian.org/debian trixie-proposed-updates InRelease [57.6 kB] Get:5 https://deb.debian.org/debian trixie-backports InRelease [54.0 kB] Get:6 https://deb.debian.org/debian forky InRelease [137 kB] Get:7 https://deb.debian.org/debian sid InRelease [187 kB] Get:8 https://deb.debian.org/debian experimental InRelease [91.7 kB] Get:9 https://deb.debian.org/debian trixie/main Sources [10.5 MB] Get:10 https://deb.debian.org/debian trixie/non-free-firmware Sources [6,552 B] Get:11 https://deb.debian.org/debian-security trixie-security/non-free-firmware Sources [696 B] Get:12 https://deb.debian.org/debian-security trixie-security/main Sources [126 kB] Get:13 https://deb.debian.org/debian trixie-updates/main Sources [2,788 B] Get:14 https://deb.debian.org/debian trixie-proposed-updates/main Sources [86.8 kB] Get:15 https://deb.debian.org/debian trixie-backports/non-free-firmware Sources [2,984 B] Get:16 https://deb.debian.org/debian trixie-backports/main Sources [189 kB] Get:17 https://deb.debian.org/debian forky/main Sources [10.8 MB] Get:18 https://deb.debian.org/debian forky/non-free-firmware Sources [8,300 B] Get:19 https://deb.debian.org/debian sid/non-free-firmware Sources [10.3 kB] Get:20 https://deb.debian.org/debian sid/main Sources [11.5 MB] Get:21 https://deb.debian.org/debian experimental/non-free-firmware Sources [2,568 B] Get:22 https://deb.debian.org/debian experimental/main Sources [422 kB] Fetched 34.4 MB in 4s (9,511 kB/s) Reading package lists... 'https://deb.debian.org/debian/pool/main/i/iqtree/iqtree_3.0.1%2bdfsg-1.dsc' iqtree_3.0.1+dfsg-1.dsc 2184 SHA256:74790818cc18c2b6faf1ec82fc233b5fd5486d3be8215b30e20ed22f45401e85 'https://deb.debian.org/debian/pool/main/i/iqtree/iqtree_3.0.1%2bdfsg.orig.tar.xz' iqtree_3.0.1+dfsg.orig.tar.xz 2553864 SHA256:c4cec0dfcd3d3fd8f47f4452c161b737bf0d994f701395043d8cbadb2e752c9e 'https://deb.debian.org/debian/pool/main/i/iqtree/iqtree_3.0.1%2bdfsg-1.debian.tar.xz' iqtree_3.0.1+dfsg-1.debian.tar.xz 22472 SHA256:5a241fde6f480bbb6cba2b6484354c4007a42f47e35175ab6cf2989f6cef629a c4cec0dfcd3d3fd8f47f4452c161b737bf0d994f701395043d8cbadb2e752c9e iqtree_3.0.1+dfsg.orig.tar.xz 5a241fde6f480bbb6cba2b6484354c4007a42f47e35175ab6cf2989f6cef629a iqtree_3.0.1+dfsg-1.debian.tar.xz 74790818cc18c2b6faf1ec82fc233b5fd5486d3be8215b30e20ed22f45401e85 iqtree_3.0.1+dfsg-1.dsc +------------------------------------------------------------------------------+ | Calling debrebuild Thu, 09 Apr 2026 23:09:26 +0000 | +------------------------------------------------------------------------------+ Rebuilding iqtree=3.0.1+dfsg-1 in /srv/rebuilderd/tmp/rebuilderdL2mRss/inputs now. + nice /usr/bin/debrebuild --buildresult=/srv/rebuilderd/tmp/rebuilderdL2mRss/out --builder=sbuild+unshare --cache=/srv/rebuilderd/cache -- /srv/rebuilderd/tmp/rebuilderdL2mRss/inputs/iqtree_3.0.1+dfsg-1_amd64.buildinfo /srv/rebuilderd/tmp/rebuilderdL2mRss/inputs/iqtree_3.0.1+dfsg-1_amd64.buildinfo contains a GPG signature which has NOT been validated Using defined Build-Path: /build/reproducible-path/iqtree-3.0.1+dfsg I: verifying dsc... successful! Get:1 http://deb.debian.org/debian unstable InRelease [187 kB] Get:2 http://snapshot.debian.org/archive/debian/20260406T144517Z unstable InRelease [187 kB] Get:3 http://deb.debian.org/debian unstable/main amd64 Packages [10.4 MB] Get:4 http://snapshot.debian.org/archive/debian/20260406T144517Z unstable/main amd64 Packages [10.4 MB] Fetched 21.1 MB in 2s (10.4 MB/s) Reading package lists... W: http://snapshot.debian.org/archive/debian/20260406T144517Z/dists/unstable/InRelease: Loading /etc/apt/trusted.gpg from deprecated option Dir::Etc::Trusted Get:1 http://deb.debian.org/debian unstable/main amd64 libperl5.40 amd64 5.40.1-7 [4317 kB] Fetched 4317 kB in 0s (150 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpls7_kr_x/libperl5.40_5.40.1-7_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 procps amd64 2:4.0.4-9+b1 [883 kB] Fetched 883 kB in 0s (75.7 MB/s) dpkg-name: info: moved 'procps_2%3a4.0.4-9+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmp_qzx3qpo/procps_4.0.4-9+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsepol2 amd64 3.10-1 [307 kB] Fetched 307 kB in 0s (28.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnt12hmf9/libsepol2_3.10-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libbrotli1 amd64 1.2.0-3 [320 kB] Fetched 320 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7rkiseq3/libbrotli1_1.2.0-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 dash amd64 0.5.12-12 [98.5 kB] Fetched 98.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmph5hl52cy/dash_0.5.12-12_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.22.1-2 [139 kB] Fetched 139 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqrg8j2jz/libgssapi-krb5-2_1.22.1-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libhwloc-dev amd64 2.13.0-2 [258 kB] Fetched 258 kB in 0s (12.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpndxln3ep/libhwloc-dev_2.13.0-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libunistring5 amd64 1.4.2-1 [480 kB] Fetched 480 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9o73rrsu/libunistring5_1.4.2-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libctf-nobfd0 amd64 2.46-3 [160 kB] Fetched 160 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_op4md39/libctf-nobfd0_2.46-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 build-essential amd64 12.12 [4624 B] Fetched 4624 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_0rtjmgw/build-essential_12.12_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libc6 amd64 2.42-14 [1790 kB] Fetched 1790 kB in 0s (115 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmfgtyj1i/libc6_2.42-14_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpam-modules amd64 1.7.0-5+b1 [179 kB] Fetched 179 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpe5kh1b9x/libpam-modules_1.7.0-5+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libevent-dev amd64 2.1.12-stable-10+b2 [308 kB] Fetched 308 kB in 0s (4985 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdcb7mlne/libevent-dev_2.1.12-stable-10+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 sysvinit-utils amd64 3.18-1 [29.7 kB] Fetched 29.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplbsip04l/sysvinit-utils_3.18-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.2-3 [918 kB] Fetched 918 kB in 0s (72.2 MB/s) dpkg-name: info: moved 'zlib1g-dev_1%3a1.3.dfsg+really1.3.2-3_amd64.deb' to '/srv/rebuilderd/tmp/tmpta37cela/zlib1g-dev_1.3.dfsg+really1.3.2-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 cpp amd64 4:15.2.0-5 [1564 B] Fetched 1564 B in 0s (0 B/s) dpkg-name: info: moved 'cpp_4%3a15.2.0-5_amd64.deb' to '/srv/rebuilderd/tmp/tmpflpe3nuy/cpp_15.2.0-5_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpcre2-8-0 amd64 10.46-1+b1 [298 kB] Fetched 298 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp92cd330m/libpcre2-8-0_10.46-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 liblsan0 amd64 16-20260322-1 [1280 kB] Fetched 1280 kB in 0s (90.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdbeovwyo/liblsan0_16-20260322-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libzstd1 amd64 1.5.7+dfsg-3+b1 [308 kB] Fetched 308 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphk0ujfzl/libzstd1_1.5.7+dfsg-3+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.15.0-1 [8812 B] Fetched 8812 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbi7nt8hx/dh-strip-nondeterminism_1.15.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxdmcp6 amd64 1:1.1.5-2 [27.9 kB] Fetched 27.9 kB in 0s (0 B/s) dpkg-name: info: moved 'libxdmcp6_1%3a1.1.5-2_amd64.deb' to '/srv/rebuilderd/tmp/tmpc1i6gs79/libxdmcp6_1.1.5-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-11 [55.2 kB] Fetched 55.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdz5pqjxw/libsasl2-2_2.1.28+dfsg1-11_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libncl2 amd64 2.1.21+git20210811.b1213a7-6+b1 [387 kB] Fetched 387 kB in 0s (4749 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp98z1q8ed/libncl2_2.1.21+git20210811.b1213a7-6+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 22 [12.2 kB] Fetched 12.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpszux4cff/dh-autoreconf_22_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libeigen3-dev all 3.4.0-5 [1034 kB] Fetched 1034 kB in 0s (39.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3ofdnwla/libeigen3-dev_3.4.0-5_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libncursesw6 amd64 6.6+20251231-1 [137 kB] Fetched 137 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmps67ii17u/libncursesw6_6.6+20251231-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpciaccess0 amd64 0.17-3+b4 [52.1 kB] Fetched 52.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzj5f3xks/libpciaccess0_0.17-3+b4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 tar amd64 1.35+dfsg-4 [817 kB] Fetched 817 kB in 0s (65.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdx2fa8zm/tar_1.35+dfsg-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libbsd0 amd64 0.12.2-2+b1 [132 kB] Fetched 132 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_vkxzy5j/libbsd0_0.12.2-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxext6 amd64 2:1.3.4-1+b4 [50.7 kB] Fetched 50.7 kB in 0s (0 B/s) dpkg-name: info: moved 'libxext6_2%3a1.3.4-1+b4_amd64.deb' to '/srv/rebuilderd/tmp/tmppjr1vy2r/libxext6_1.3.4-1+b4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 g++-x86-64-linux-gnu amd64 4:15.2.0-5 [1200 B] Fetched 1200 B in 0s (0 B/s) dpkg-name: info: moved 'g++-x86-64-linux-gnu_4%3a15.2.0-5_amd64.deb' to '/srv/rebuilderd/tmp/tmp6yjqqgmy/g++-x86-64-linux-gnu_15.2.0-5_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 ibverbs-providers amd64 61.0-2 [381 kB] Fetched 381 kB in 0s (16.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphibtflzd/ibverbs-providers_61.0-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 perl amd64 5.40.1-7 [267 kB] Fetched 267 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_mdr_2bu/perl_5.40.1-7_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20240727.1 [60.2 kB] Fetched 60.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpp615l0_z/autotools-dev_20240727.1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 cpp-x86-64-linux-gnu amd64 4:15.2.0-5 [5324 B] Fetched 5324 B in 0s (0 B/s) dpkg-name: info: moved 'cpp-x86-64-linux-gnu_4%3a15.2.0-5_amd64.deb' to '/srv/rebuilderd/tmp/tmp0so9t9dk/cpp-x86-64-linux-gnu_15.2.0-5_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgcc-15-dev amd64 15.2.0-16 [2718 kB] Fetched 2718 kB in 0s (135 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7gzmosf9/libgcc-15-dev_15.2.0-16_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.21-1 [332 kB] Fetched 332 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpu8gzgj__/m4_1.4.21-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-10 [1194 kB] Fetched 1194 kB in 0s (89.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp41sqyfwa/groff-base_1.23.0-10_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libevent-2.1-7t64 amd64 2.1.12-stable-10+b2 [184 kB] Fetched 184 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbgrkd6hx/libevent-2.1-7t64_2.1.12-stable-10+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libltdl-dev amd64 2.5.4-10 [168 kB] Fetched 168 kB in 0s (2625 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpabnwyyde/libltdl-dev_2.5.4-10_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260406T144517Z unstable/main amd64 xz-utils amd64 5.8.2-2 [706 kB] Fetched 706 kB in 0s (65.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpz54buksl/xz-utils_5.8.2-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-6 [494 kB] Fetched 494 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvv5ch7l7/autoconf_2.72-6_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libcrypt1 amd64 1:4.5.1-1 [98.0 kB] Fetched 98.0 kB in 0s (0 B/s) dpkg-name: info: moved 'libcrypt1_1%3a4.5.1-1_amd64.deb' to '/srv/rebuilderd/tmp/tmp0s_okjm1/libcrypt1_4.5.1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.194-4 [183 kB] Fetched 183 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdfsk0k3w/libelf1t64_0.194-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libngtcp2-crypto-ossl0 amd64 1.21.0-1 [25.9 kB] Fetched 25.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpswjpevfo/libngtcp2-crypto-ossl0_1.21.0-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 systemd-standalone-sysusers amd64 260.1-1 [334 kB] Fetched 334 kB in 0s (7755 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcb22dm0d/systemd-standalone-sysusers_260.1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libz3-4 amd64 4.13.3-1+b1 [8646 kB] Fetched 8646 kB in 0s (180 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6tuvc9q0/libz3-4_4.13.3-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-dev amd64 1.90.0.1 [3048 B] Fetched 3048 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpoxskkz_o/libboost-dev_1.90.0.1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libc-gconv-modules-extra amd64 2.42-14 [1094 kB] Fetched 1094 kB in 0s (87.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppuim3mqp/libc-gconv-modules-extra_2.42-14_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libitm1 amd64 16-20260322-1 [27.0 kB] Fetched 27.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp616nvv8a/libitm1_16-20260322-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libopenmpi40 amd64 5.0.10-1 [2018 kB] Fetched 2018 kB in 0s (16.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2_e9fsg3/libopenmpi40_5.0.10-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxcb1 amd64 1.17.0-2+b2 [144 kB] Fetched 144 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0tcoa79a/libxcb1_1.17.0-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsprng2-dev amd64 2.0a-19 [79.3 kB] Fetched 79.3 kB in 0s (2271 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphxvnz4t7/libsprng2-dev_2.0a-19_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 rpcsvc-proto amd64 1.4.3-1 [63.3 kB] Fetched 63.3 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpu__0y4oh/rpcsvc-proto_1.4.3-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260406T144517Z unstable/main amd64 libuuid1 amd64 2.42-1 [32.7 kB] Fetched 32.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprjk6tysj/libuuid1_2.42-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libisl23 amd64 0.27-2 [664 kB] Fetched 664 kB in 0s (63.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxn6osq37/libisl23_0.27-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 findutils amd64 4.10.0-3 [700 kB] Fetched 700 kB in 0s (65.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpowx8y3q_/findutils_4.10.0-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libjsoncpp26 amd64 1.9.6-5 [82.6 kB] Fetched 82.6 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4x3r3xl8/libjsoncpp26_1.9.6-5_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libamdhip64-6 amd64 6.4.3-5 [9385 kB] Fetched 9385 kB in 0s (29.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7w2murjv/libamdhip64-6_6.4.3-5_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libasan8 amd64 16-20260322-1 [2889 kB] Fetched 2889 kB in 0s (138 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2wm3w5mi/libasan8_16-20260322-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-11 [17.2 kB] Fetched 17.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfe_rcfli/libsasl2-modules-db_2.1.28+dfsg1-11_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libdrm-amdgpu1 amd64 2.4.131-1 [24.5 kB] Fetched 24.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpe7i8w1oi/libdrm-amdgpu1_2.4.131-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libudev1 amd64 260.1-1 [133 kB] Fetched 133 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpayy3eam8/libudev1_260.1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libquadmath0 amd64 16-20260322-1 [148 kB] Fetched 148 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpg_dd8giw/libquadmath0_16-20260322-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgmpxx4ldbl amd64 2:6.3.0+dfsg-5+b1 [330 kB] Fetched 330 kB in 0s (0 B/s) dpkg-name: info: moved 'libgmpxx4ldbl_2%3a6.3.0+dfsg-5+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmpvep8boee/libgmpxx4ldbl_6.3.0+dfsg-5+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsimde-dev all 0.8.4~rc3-5 [500 kB] Fetched 500 kB in 0s (7001 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphxpo75_e/libsimde-dev_0.8.4~rc3-5_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 pkgconf amd64 2.5.1-4 [33.6 kB] Fetched 33.6 kB in 0s (1968 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6x1z18j0/pkgconf_2.5.1-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libnl-route-3-200 amd64 3.12.0-2 [200 kB] Fetched 200 kB in 0s (11.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqhc2j1g0/libnl-route-3-200_3.12.0-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libnl-3-200 amd64 3.12.0-2 [62.2 kB] Fetched 62.2 kB in 0s (1092 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4e2a68w0/libnl-3-200_3.12.0-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 g++-15 amd64 15.2.0-16 [27.1 kB] Fetched 27.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkd58uudo/g++-15_15.2.0-16_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libssh2-1t64 amd64 1.11.1-2 [244 kB] Fetched 244 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjzgn0e7k/libssh2-1t64_1.11.1-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 login.defs all 1:4.19.3-2 [208 kB] Fetched 208 kB in 0s (3638 kB/s) dpkg-name: info: moved 'login.defs_1%3a4.19.3-2_all.deb' to '/srv/rebuilderd/tmp/tmpux4885ru/login.defs_4.19.3-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-2 [42.1 kB] Fetched 42.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpoelq3og6/libpipeline1_1.5.8-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgdbm-compat4t64 amd64 1.26-1+b1 [53.1 kB] Fetched 53.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpuefha15b/libgdbm-compat4t64_1.26-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libyaml-cpp0.8 amd64 0.8.0+dfsg-9 [131 kB] Fetched 131 kB in 0s (4736 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpgr121a4y/libyaml-cpp0.8_0.8.0+dfsg-9_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 make amd64 4.4.1-3 [463 kB] Fetched 463 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpry1_fejw/make_4.4.1-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Fetched 104 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpt36gc5h6/libarchive-zip-perl_1.68-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 mawk amd64 1.3.4.20260302-1 [142 kB] Fetched 142 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpb597o_z1/mawk_1.3.4.20260302-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260406T144517Z unstable/main amd64 libblkid1 amd64 2.42-1 [172 kB] Fetched 172 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnho1px7p/libblkid1_2.42-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpam-modules-bin amd64 1.7.0-5+b1 [49.8 kB] Fetched 49.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnck03h9u/libpam-modules-bin_1.7.0-5+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpkgconf7 amd64 2.5.1-4 [47.8 kB] Fetched 47.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9p381yp_/libpkgconf7_2.5.1-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 base-files amd64 14 [72.9 kB] Fetched 72.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphmpioqke/base-files_14_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.46-5+b1 [43.8 kB] Fetched 43.8 kB in 0s (0 B/s) dpkg-name: info: moved 'file_1%3a5.46-5+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmpcu40jlis/file_5.46-5+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libtasn1-6 amd64 4.21.0-2 [50.4 kB] Fetched 50.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmps6v4po5c/libtasn1-6_4.21.0-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 openmpi-bin amd64 5.0.10-1 [154 kB] Fetched 154 kB in 0s (1741 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp75pmhcbj/openmpi-bin_5.0.10-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 gcc-15-base amd64 15.2.0-16 [36.3 kB] Fetched 36.3 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8899jx7q/gcc-15-base_15.2.0-16_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpam0g amd64 1.7.0-5+b1 [70.4 kB] Fetched 70.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjamnknc1/libpam0g_1.7.0-5+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 cpp-15-x86-64-linux-gnu amd64 15.2.0-16 [12.1 MB] Fetched 12.1 MB in 0s (186 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdlxj5pof/cpp-15-x86-64-linux-gnu_15.2.0-16_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libtinfo6 amd64 6.6+20251231-1 [354 kB] Fetched 354 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6pyaqm70/libtinfo6_6.6+20251231-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 cmake amd64 4.3.1-1 [16.2 MB] Fetched 16.2 MB in 0s (192 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpv07nx1k6/cmake_4.3.1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 cpp-15 amd64 15.2.0-16 [1276 B] Fetched 1276 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8b7obvkv/cpp-15_15.2.0-16_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libkeyutils1 amd64 1.6.3-6+b1 [9784 B] Fetched 9784 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyopdc38e/libkeyutils1_1.6.3-6+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libibmad5 amd64 61.0-2 [44.9 kB] Fetched 44.9 kB in 0s (1365 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpphxc6xpv/libibmad5_61.0-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Fetched 22.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1eypvycq/intltool-debian_0.35.0+20060710.6_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsemanage2 amd64 3.10-1 [92.4 kB] Fetched 92.4 kB in 0s (2758 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyrkapwc0/libsemanage2_3.10-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libcbor0.10 amd64 0.10.2-2.1 [28.7 kB] Fetched 28.7 kB in 0s (905 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpr4qkd_nx/libcbor0.10_0.10.2-2.1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libacl1 amd64 2.3.2-3 [32.7 kB] Fetched 32.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcaw3eoj3/libacl1_2.3.2-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libibumad3 amd64 61.0-2 [30.2 kB] Fetched 30.2 kB in 0s (878 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpeksb0s1u/libibumad3_61.0-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libssl3t64 amd64 3.6.1-3 [2478 kB] Fetched 2478 kB in 0s (131 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_y7gz_lg/libssl3t64_3.6.1-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libopenmpi-dev amd64 5.0.10-1 [1028 kB] Fetched 1028 kB in 0s (9112 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmdzl00cp/libopenmpi-dev_5.0.10-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libhwloc-plugins amd64 2.13.0-2 [23.5 kB] Fetched 23.5 kB in 0s (1222 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpz4djjkvi/libhwloc-plugins_2.13.0-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 librdmacm1t64 amd64 61.0-2 [73.0 kB] Fetched 73.0 kB in 0s (232 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcb92l5f5/librdmacm1t64_61.0-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libamd-comgr3 amd64 7.0.2+dfsg-3 [13.9 MB] Fetched 13.9 MB in 0s (52.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxrlvzbx4/libamd-comgr3_7.0.2+dfsg-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libibverbs1 amd64 61.0-2 [64.2 kB] Fetched 64.2 kB in 0s (2062 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmptx4jprsr/libibverbs1_61.0-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgdbm6t64 amd64 1.26-1+b1 [78.9 kB] Fetched 78.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpppf5w7ma/libgdbm6t64_1.26-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsframe3 amd64 2.46-3 [84.7 kB] Fetched 84.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbbyl2t4w/libsframe3_2.46-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libtool all 2.5.4-10 [539 kB] Fetched 539 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2pyzq5p4/libtool_2.5.4-10_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libc-dev-bin amd64 2.42-14 [37.5 kB] Fetched 37.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmlicxspz/libc-dev-bin_2.42-14_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libcap-ng0 amd64 0.9.2-1 [16.5 kB] Fetched 16.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4bcn38zd/libcap-ng0_0.9.2-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 debianutils amd64 5.23.2 [92.4 kB] Fetched 92.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpw0b4dm2b/debianutils_5.23.2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libevent-pthreads-2.1-7t64 amd64 2.1.12-stable-10+b2 [54.3 kB] Fetched 54.3 kB in 0s (1070 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1_ornn5d/libevent-pthreads-2.1-7t64_2.1.12-stable-10+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 binutils-common amd64 2.46-3 [2632 kB] Fetched 2632 kB in 0s (135 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcv1kmac2/binutils-common_2.46-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libkrb5support0 amd64 1.22.1-2 [33.1 kB] Fetched 33.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplgs7x4n_/libkrb5support0_1.22.1-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxxhash0 amd64 0.8.3-2+b1 [28.1 kB] Fetched 28.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpp6cje21y/libxxhash0_0.8.3-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 dpkg-dev all 1.23.7 [1318 kB] Fetched 1318 kB in 0s (97.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp01zi06vk/dpkg-dev_1.23.7_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libjs-jquery all 3.7.1+dfsg+~3.5.33-1 [319 kB] Fetched 319 kB in 0s (12.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzq647bsd/libjs-jquery_3.7.1+dfsg+~3.5.33-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libprrte3 amd64 3.0.13-3 [451 kB] Fetched 451 kB in 0s (7668 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpze_bablv/libprrte3_3.0.13-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libltdl7 amd64 2.5.4-10 [415 kB] Fetched 415 kB in 0s (36.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpuzidju5o/libltdl7_2.5.4-10_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libtsan2 amd64 16-20260322-1 [2573 kB] Fetched 2573 kB in 0s (122 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmph_49ut6q/libtsan2_16-20260322-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-3+b1 [60.7 kB] Fetched 60.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpitv80lva/librtmp1_2.4+20151223.gitfa8646d.1-3+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libctf0 amd64 2.46-3 [92.2 kB] Fetched 92.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpom_5tukk/libctf0_2.46-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libnettle8t64 amd64 3.10.2-1 [307 kB] Fetched 307 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyawomed0/libnettle8t64_3.10.2-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libdebconfclient0 amd64 0.282+b2 [11.2 kB] Fetched 11.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpus7bxyzw/libdebconfclient0_0.282+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 adduser all 3.155 [212 kB] Fetched 212 kB in 0s (7828 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprh9_7sxd/adduser_3.155_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 init-system-helpers all 1.69 [39.3 kB] Fetched 39.3 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1ll4xl4g/init-system-helpers_1.69_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.31 [75.7 kB] Fetched 75.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4w3cfn1z/libdebhelper-perl_13.31_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libibverbs-dev amd64 61.0-2 [686 kB] Fetched 686 kB in 0s (15.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5ub2__oh/libibverbs-dev_61.0-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 linux-libc-dev all 6.19.11-1 [1972 kB] Fetched 1972 kB in 0s (114 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplfcdh8oc/linux-libc-dev_6.19.11-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 sed amd64 4.9-2 [329 kB] Fetched 329 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpw5m4xui6/sed_4.9-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libjs-jquery-ui all 1.13.2+dfsg-1 [250 kB] Fetched 250 kB in 0s (6031 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpq9w_crgl/libjs-jquery-ui_1.13.2+dfsg-1_all.deb' Downloading dependency 1 of 272: libperl5.40:amd64=5.40.1-7 Downloading dependency 2 of 272: procps:amd64=2:4.0.4-9+b1 Downloading dependency 3 of 272: libsepol2:amd64=3.10-1 Downloading dependency 4 of 272: libbrotli1:amd64=1.2.0-3 Downloading dependency 5 of 272: dash:amd64=0.5.12-12 Downloading dependency 6 of 272: libgssapi-krb5-2:amd64=1.22.1-2 Downloading dependency 7 of 272: libhwloc-dev:amd64=2.13.0-2 Downloading dependency 8 of 272: libunistring5:amd64=1.4.2-1 Downloading dependency 9 of 272: libctf-nobfd0:amd64=2.46-3 Downloading dependency 10 of 272: build-essential:amd64=12.12 Downloading dependency 11 of 272: libc6:amd64=2.42-14 Downloading dependency 12 of 272: libpam-modules:amd64=1.7.0-5+b1 Downloading dependency 13 of 272: libevent-dev:amd64=2.1.12-stable-10+b2 Downloading dependency 14 of 272: sysvinit-utils:amd64=3.18-1 Downloading dependency 15 of 272: zlib1g-dev:amd64=1:1.3.dfsg+really1.3.2-3 Downloading dependency 16 of 272: cpp:amd64=4:15.2.0-5 Downloading dependency 17 of 272: libpcre2-8-0:amd64=10.46-1+b1 Downloading dependency 18 of 272: liblsan0:amd64=16-20260322-1 Downloading dependency 19 of 272: libzstd1:amd64=1.5.7+dfsg-3+b1 Downloading dependency 20 of 272: dh-strip-nondeterminism:amd64=1.15.0-1 Downloading dependency 21 of 272: libxdmcp6:amd64=1:1.1.5-2 Downloading dependency 22 of 272: libsasl2-2:amd64=2.1.28+dfsg1-11 Downloading dependency 23 of 272: libncl2:amd64=2.1.21+git20210811.b1213a7-6+b1 Downloading dependency 24 of 272: dh-autoreconf:amd64=22 Downloading dependency 25 of 272: libeigen3-dev:amd64=3.4.0-5 Downloading dependency 26 of 272: libncursesw6:amd64=6.6+20251231-1 Downloading dependency 27 of 272: libpciaccess0:amd64=0.17-3+b4 Downloading dependency 28 of 272: tar:amd64=1.35+dfsg-4 Downloading dependency 29 of 272: libbsd0:amd64=0.12.2-2+b1 Downloading dependency 30 of 272: libxext6:amd64=2:1.3.4-1+b4 Downloading dependency 31 of 272: g++-x86-64-linux-gnu:amd64=4:15.2.0-5 Downloading dependency 32 of 272: ibverbs-providers:amd64=61.0-2 Downloading dependency 33 of 272: perl:amd64=5.40.1-7 Downloading dependency 34 of 272: autotools-dev:amd64=20240727.1 Downloading dependency 35 of 272: cpp-x86-64-linux-gnu:amd64=4:15.2.0-5 Downloading dependency 36 of 272: libgcc-15-dev:amd64=15.2.0-16 Downloading dependency 37 of 272: m4:amd64=1.4.21-1 Downloading dependency 38 of 272: groff-base:amd64=1.23.0-10 Downloading dependency 39 of 272: libevent-2.1-7t64:amd64=2.1.12-stable-10+b2 Downloading dependency 40 of 272: libltdl-dev:amd64=2.5.4-10 Downloading dependency 41 of 272: xz-utils:amd64=5.8.2-2 Downloading dependency 42 of 272: autoconf:amd64=2.72-6 Downloading dependency 43 of 272: libcrypt1:amd64=1:4.5.1-1 Downloading dependency 44 of 272: libelf1t64:amd64=0.194-4 Downloading dependency 45 of 272: libngtcp2-crypto-ossl0:amd64=1.21.0-1 Downloading dependency 46 of 272: systemd-standalone-sysusers:amd64=260.1-1 Downloading dependency 47 of 272: libz3-4:amd64=4.13.3-1+b1 Downloading dependency 48 of 272: libboost-dev:amd64=1.90.0.1 Downloading dependency 49 of 272: libc-gconv-modules-extra:amd64=2.42-14 Downloading dependency 50 of 272: libitm1:amd64=16-20260322-1 Downloading dependency 51 of 272: libopenmpi40:amd64=5.0.10-1 Downloading dependency 52 of 272: libxcb1:amd64=1.17.0-2+b2 Downloading dependency 53 of 272: libsprng2-dev:amd64=2.0a-19 Downloading dependency 54 of 272: rpcsvc-proto:amd64=1.4.3-1 Downloading dependency 55 of 272: libuuid1:amd64=2.42-1 Downloading dependency 56 of 272: libisl23:amd64=0.27-2 Downloading dependency 57 of 272: findutils:amd64=4.10.0-3 Downloading dependency 58 of 272: libjsoncpp26:amd64=1.9.6-5 Downloading dependency 59 of 272: libamdhip64-6:amd64=6.4.3-5 Downloading dependency 60 of 272: libasan8:amd64=16-20260322-1 Downloading dependency 61 of 272: libsasl2-modules-db:amd64=2.1.28+dfsg1-11 Downloading dependency 62 of 272: libdrm-amdgpu1:amd64=2.4.131-1 Downloading dependency 63 of 272: libudev1:amd64=260.1-1 Downloading dependency 64 of 272: libquadmath0:amd64=16-20260322-1 Downloading dependency 65 of 272: libgmpxx4ldbl:amd64=2:6.3.0+dfsg-5+b1 Downloading dependency 66 of 272: libsimde-dev:amd64=0.8.4~rc3-5 Downloading dependency 67 of 272: pkgconf:amd64=2.5.1-4 Downloading dependency 68 of 272: libnl-route-3-200:amd64=3.12.0-2 Downloading dependency 69 of 272: libnl-3-200:amd64=3.12.0-2 Downloading dependency 70 of 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librdmacm1t64:amd64=61.0-2 Downloading dependency 103 of 272: libamd-comgr3:amd64=7.0.2+dfsg-3 Downloading dependency 104 of 272: libibverbs1:amd64=61.0-2 Downloading dependency 105 of 272: libgdbm6t64:amd64=1.26-1+b1 Downloading dependency 106 of 272: libsframe3:amd64=2.46-3 Downloading dependency 107 of 272: libtool:amd64=2.5.4-10 Downloading dependency 108 of 272: libc-dev-bin:amd64=2.42-14 Downloading dependency 109 of 272: libcap-ng0:amd64=0.9.2-1 Downloading dependency 110 of 272: debianutils:amd64=5.23.2 Downloading dependency 111 of 272: libevent-pthreads-2.1-7t64:amd64=2.1.12-stable-10+b2 Downloading dependency 112 of 272: binutils-common:amd64=2.46-3 Downloading dependency 113 of 272: libkrb5support0:amd64=1.22.1-2 Downloading dependency 114 of 272: libxxhash0:amd64=0.8.3-2+b1 Downloading dependency 115 of 272: dpkg-dev:amd64=1.23.7 Downloading dependency 116 of 272: libjs-jquery:amd64=3.7.1+dfsg+~3.5.33-1 Downloading dependency 117 of 272: libprrte3:amd64=3.0.13-3 Downloading dependency 118 of 272: libltdl7:amd64=2.5.4-10 Downloading dependency 119 of 272: libtsan2:amd64=16-20260322-1 Downloading dependency 120 of 272: librtmp1:amd64=2.4+20151223.gitfa8646d.1-3+b1 Downloading dependency 121 of 272: libctf0:amd64=2.46-3 Downloading dependency 122 of 272: libnettle8t64:amd64=3.10.2-1 Downloading dependency 123 of 272: libdebconfclient0:amd64=0.282+b2 Downloading dependency 124 of 272: adduser:amd64=3.155 Downloading dependency 125 of 272: init-system-helpers:amd64=1.69 Downloading dependency 126 of 272: libdebhelper-perl:amd64=13.31 Downloading dependency 127 of 272: libibverbs-dev:amd64=61.0-2 Downloading dependency 128 of 272: linux-libc-dev:amd64=6.19.11-1 Downloading dependency 129 of 272: sed:amd64=4.9-2 Downloading dependency 130 of 272: libjs-jquery-ui:amd64=1.13.2+dfsg-1 Downloading dependency 131 of 272: libaudit1:amd64=1:4.1.2-1+b1Get:1 http://deb.debian.org/debian unstable/main amd64 libaudit1 amd64 1:4.1.2-1+b1 [60.2 kB] Fetched 60.2 kB in 0s (0 B/s) dpkg-name: info: moved 'libaudit1_1%3a4.1.2-1+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmpb2viskg4/libaudit1_4.1.2-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libc6-dev amd64 2.42-14 [1992 kB] Fetched 1992 kB in 0s (108 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmmi41e7j/libc6-dev_2.42-14_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libclang-common-21-dev amd64 1:21.1.8-7 [767 kB] Fetched 767 kB in 0s (71.4 MB/s) dpkg-name: info: moved 'libclang-common-21-dev_1%3a21.1.8-7_amd64.deb' to '/srv/rebuilderd/tmp/tmp0jg6rz9e/libclang-common-21-dev_21.1.8-7_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 hostname amd64 3.25 [11.0 kB] Fetched 11.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpv0a45nsp/hostname_3.25_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libhwasan0 amd64 16-20260322-1 [1580 kB] Fetched 1580 kB in 0s (107 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpd73v9kyt/libhwasan0_16-20260322-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libattr1 amd64 1:2.5.2-4 [23.0 kB] Fetched 23.0 kB in 0s (0 B/s) dpkg-name: info: moved 'libattr1_1%3a2.5.2-4_amd64.deb' to '/srv/rebuilderd/tmp/tmp3wguv3lj/libattr1_2.5.2-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libnuma-dev amd64 2.0.19-1+b1 [36.7 kB] Fetched 36.7 kB in 0s (2026 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvzb00r0z/libnuma-dev_2.0.19-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libubsan1 amd64 16-20260322-1 [1136 kB] Fetched 1136 kB in 0s (90.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7tebc3tg/libubsan1_16-20260322-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libfabric1 amd64 2.1.0-1.1+b1 [716 kB] Fetched 716 kB in 0s (12.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpskxyidlb/libfabric1_2.1.0-1.1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-2+b1 [68.8 kB] Fetched 68.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3yt8yyem/libuchardet0_0.0.8-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 base-passwd amd64 3.6.8 [54.6 kB] Fetched 54.6 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzr65cv2w/base-passwd_3.6.8_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.23.2-2 [770 kB] Fetched 770 kB in 0s (66.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp03fwjlyu/autopoint_0.23.2-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 ncurses-bin amd64 6.6+20251231-1 [445 kB] Fetched 445 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpz_qsvotu/ncurses-bin_6.6+20251231-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 ocl-icd-libopencl1 amd64 2.3.4-1 [43.0 kB] Fetched 43.0 kB in 0s (1174 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmybh1oe1/ocl-icd-libopencl1_2.3.4-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libp11-kit0 amd64 0.26.2-2 [470 kB] Fetched 470 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzvcnpkmx/libp11-kit0_0.26.2-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libmunge2 amd64 0.5.18-1 [18.8 kB] Fetched 18.8 kB in 0s (799 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpn4hcnmi7/libmunge2_0.5.18-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgfortran-15-dev amd64 15.2.0-16 [886 kB] Fetched 886 kB in 0s (77.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmcdv2hjv/libgfortran-15-dev_15.2.0-16_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libmpc3 amd64 1.3.1-3 [52.2 kB] Fetched 52.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzw525j_n/libmpc3_1.3.1-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 liblocale-gettext-perl amd64 1.07-8 [15.2 kB] Fetched 15.2 kB in 0s (1033 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpr6jnr4_w/liblocale-gettext-perl_1.07-8_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libhwloc15 amd64 2.13.0-2 [165 kB] Fetched 165 kB in 0s (2864 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpv0l6otgo/libhwloc15_2.13.0-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgmp10 amd64 2:6.3.0+dfsg-5+b1 [561 kB] Fetched 561 kB in 0s (0 B/s) dpkg-name: info: moved 'libgmp10_2%3a6.3.0+dfsg-5+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmp7lfh_8d2/libgmp10_6.3.0+dfsg-5+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libarchive13t64 amd64 3.8.5-1 [362 kB] Fetched 362 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3by1_y25/libarchive13t64_3.8.5-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.31 [932 kB] Fetched 932 kB in 0s (79.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpor77xpmp/debhelper_13.31_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpsm2-2 amd64 11.2.185-2.1 [181 kB] Fetched 181 kB in 0s (9401 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpto8evutu/libpsm2-2_11.2.185-2.1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 coreutils amd64 9.10-1 [3142 kB] Fetched 3142 kB in 0s (142 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprvlvks1r/coreutils_9.10-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260406T144517Z unstable/main amd64 util-linux amd64 2.42-1 [1222 kB] Fetched 1222 kB in 0s (91.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqwnv1d6x/util-linux_2.42-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsystemd0 amd64 260.1-1 [446 kB] Fetched 446 kB in 0s (31.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1e07wkdt/libsystemd0_260.1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libhsa-runtime64-1 amd64 6.4.3+dfsg-5 [678 kB] Fetched 678 kB in 0s (4717 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpx0wav3w3/libhsa-runtime64-1_6.4.3+dfsg-5_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libx11-data all 2:1.8.13-1 [346 kB] Fetched 346 kB in 0s (0 B/s) dpkg-name: info: moved 'libx11-data_2%3a1.8.13-1_all.deb' to '/srv/rebuilderd/tmp/tmpm3e_po5d/libx11-data_1.8.13-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libnghttp2-14 amd64 1.68.1-1 [72.0 kB] Fetched 72.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvvhywoyb/libnghttp2-14_1.68.1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 binutils-x86-64-linux-gnu amd64 2.46-3 [1058 kB] Fetched 1058 kB in 0s (85.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbirr4ixo/binutils-x86-64-linux-gnu_2.46-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost1.90-dev amd64 1.90.0-6 [11.3 MB] Fetched 11.3 MB in 0s (42.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmped5jcecz/libboost1.90-dev_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libncl-dev amd64 2.1.21+git20210811.b1213a7-6+b1 [600 kB] Fetched 600 kB in 0s (8203 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxd4hrbw8/libncl-dev_2.1.21+git20210811.b1213a7-6+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libbinutils amd64 2.46-3 [548 kB] Fetched 548 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpt1ipu_le/libbinutils_2.46-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.23.2-2 [1684 kB] Fetched 1684 kB in 0s (109 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmple09ardq/gettext_0.23.2-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 debconf all 1.5.92 [123 kB] Fetched 123 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplkhgs6g0/debconf_1.5.92_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libevent-core-2.1-7t64 amd64 2.1.12-stable-10+b2 [134 kB] Fetched 134 kB in 0s (3622 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpb5rjuy7s/libevent-core-2.1-7t64_2.1.12-stable-10+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgfortran5 amd64 16-20260322-1 [886 kB] Fetched 886 kB in 0s (76.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp350x5pcf/libgfortran5_16-20260322-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libcom-err2 amd64 1.47.4-1 [19.2 kB] Fetched 19.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkm33ix67/libcom-err2_1.47.4-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.26 [27.0 kB] Fetched 27.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_80so9wb/sensible-utils_0.0.26_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libcurl4t64 amd64 8.19.0-3 [408 kB] Fetched 408 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyiyeu44d/libcurl4t64_8.19.0-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libnuma1 amd64 2.0.19-1+b1 [22.5 kB] Fetched 22.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp23z6fn1w/libnuma1_2.0.19-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxau6 amd64 1:1.0.11-1+b1 [20.8 kB] Fetched 20.8 kB in 0s (0 B/s) dpkg-name: info: moved 'libxau6_1%3a1.0.11-1+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmph6y2bz_1/libxau6_1.0.11-1+b1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260406T144517Z unstable/main amd64 liblzma5 amd64 5.8.2-2 [327 kB] Fetched 327 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsfgpcu_6/liblzma5_5.8.2-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libdb5.3t64 amd64 5.3.28+dfsg2-11 [710 kB] Fetched 710 kB in 0s (66.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3n0hg5x1/libdb5.3t64_5.3.28+dfsg2-11_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.23.2-2 [242 kB] Fetched 242 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbzxch8s_/gettext-base_0.23.2-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 openssh-client amd64 1:10.2p1-6 [1005 kB] Fetched 1005 kB in 0s (7535 kB/s) dpkg-name: info: moved 'openssh-client_1%3a10.2p1-6_amd64.deb' to '/srv/rebuilderd/tmp/tmpsh2pqqab/openssh-client_10.2p1-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 help2man amd64 1.49.3 [198 kB] Fetched 198 kB in 0s (12.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp24k_x_2g/help2man_1.49.3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 passwd amd64 1:4.19.3-2 [1284 kB] Fetched 1284 kB in 0s (17.0 MB/s) dpkg-name: info: moved 'passwd_1%3a4.19.3-2_amd64.deb' to '/srv/rebuilderd/tmp/tmpdhb3af6d/passwd_4.19.3-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libstdc++6 amd64 16-20260322-1 [765 kB] Fetched 765 kB in 0s (65.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprw3wud6s/libstdc++6_16-20260322-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libdpkg-perl all 1.23.7 [669 kB] Fetched 669 kB in 0s (65.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpd_pbd_d0/libdpkg-perl_1.23.7_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libidn2-0 amd64 2.3.8-4+b1 [110 kB] Fetched 110 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdbk_21w5/libidn2-0_2.3.8-4+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 gcc amd64 4:15.2.0-5 [5160 B] Fetched 5160 B in 0s (0 B/s) dpkg-name: info: moved 'gcc_4%3a15.2.0-5_amd64.deb' to '/srv/rebuilderd/tmp/tmp2h7s2ci2/gcc_15.2.0-5_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 gcc-x86-64-linux-gnu amd64 4:15.2.0-5 [1436 B] Fetched 1436 B in 0s (0 B/s) dpkg-name: info: moved 'gcc-x86-64-linux-gnu_4%3a15.2.0-5_amd64.deb' to '/srv/rebuilderd/tmp/tmpz94sbeh7/gcc-x86-64-linux-gnu_15.2.0-5_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libaudit-common all 1:4.1.2-1 [14.3 kB] Fetched 14.3 kB in 0s (0 B/s) dpkg-name: info: moved 'libaudit-common_1%3a4.1.2-1_all.deb' to '/srv/rebuilderd/tmp/tmp1n1mss3c/libaudit-common_4.1.2-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxml2-16 amd64 2.15.2+dfsg-0.1 [641 kB] Fetched 641 kB in 0s (58.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpd75sw1ku/libxml2-16_2.15.2+dfsg-0.1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libze1 amd64 1.28.2-2 [795 kB] Fetched 795 kB in 0s (13.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpb31moiv_/libze1_1.28.2-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libngtcp2-16 amd64 1.21.0-1 [136 kB] Fetched 136 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpj_o_1rtr/libngtcp2-16_1.21.0-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libstdc++-15-dev amd64 15.2.0-16 [2779 kB] Fetched 2779 kB in 0s (122 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjcmwjuho/libstdc++-15-dev_15.2.0-16_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgomp1 amd64 16-20260322-1 [151 kB] Fetched 151 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmptsi9lkml/libgomp1_16-20260322-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgmp-dev amd64 2:6.3.0+dfsg-5+b1 [642 kB] Fetched 642 kB in 0s (62.5 MB/s) dpkg-name: info: moved 'libgmp-dev_2%3a6.3.0+dfsg-5+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmpzhsvr4f5/libgmp-dev_6.3.0+dfsg-5+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 openssl-provider-legacy amd64 3.6.1-3 [314 kB] Fetched 314 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpttzh2hoa/openssl-provider-legacy_3.6.1-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 perl-modules-5.40 all 5.40.1-7 [3012 kB] Fetched 3012 kB in 0s (126 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdgnehone/perl-modules-5.40_5.40.1-7_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 librhash1 amd64 1.4.6-1.1 [135 kB] Fetched 135 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpc7ktdmro/librhash1_1.4.6-1.1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libfido2-1 amd64 1.16.0-2+b1 [79.3 kB] Fetched 79.3 kB in 0s (1770 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpv4tezg1j/libfido2-1_1.16.0-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 pkgconf-bin amd64 2.5.1-4 [35.9 kB] Fetched 35.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp__xn9yk8/pkgconf-bin_2.5.1-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libx11-6 amd64 2:1.8.13-1 [829 kB] Fetched 829 kB in 0s (73.6 MB/s) dpkg-name: info: moved 'libx11-6_2%3a1.8.13-1_amd64.deb' to '/srv/rebuilderd/tmp/tmpw0qs34s2/libx11-6_1.8.13-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpam-runtime all 1.7.0-5 [249 kB] Fetched 249 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpc97iscd1/libpam-runtime_1.7.0-5_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libldap2 amd64 2.6.10+dfsg-1+b1 [195 kB] Fetched 195 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpowfqlcxr/libldap2_2.6.10+dfsg-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libucc1 amd64 1.7.0~rc1-1 [329 kB] Fetched 329 kB in 0s (5807 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpn9vizc8k/libucc1_1.7.0~rc1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libcc1-0 amd64 16-20260322-1 [45.8 kB] Fetched 45.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpoy5wf0xa/libcc1-0_16-20260322-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 googletest all 1.17.0-1 [522 kB] Fetched 522 kB in 0s (17.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpm6zezby2/googletest_1.17.0-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20260406T144517Z unstable/main amd64 libsmartcols1 amd64 2.42-1 [144 kB] Fetched 144 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkyszd74m/libsmartcols1_2.42-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 gfortran-15 amd64 15.2.0-16 [19.1 kB] Fetched 19.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpm2rfs_ta/gfortran-15_15.2.0-16_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libatomic1 amd64 16-20260322-1 [10.5 kB] Fetched 10.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpu48ugybk/libatomic1_16-20260322-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 mpi-default-dev amd64 1.20 [3504 B] Fetched 3504 B in 0s (181 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8mu6m7yf/mpi-default-dev_1.20_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libnghttp3-9 amd64 1.15.0-1 [67.2 kB] Fetched 67.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmyo8zna3/libnghttp3-9_1.15.0-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libyaml-cpp-dev amd64 0.8.0+dfsg-9 [171 kB] Fetched 171 kB in 0s (7107 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbrg_yl1v/libyaml-cpp-dev_0.8.0+dfsg-9_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 gzip amd64 1.13-1 [138 kB] Fetched 138 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpllamkcnp/gzip_1.13-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libkrb5-3 amd64 1.22.1-2 [337 kB] Fetched 337 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5zjqk294/libkrb5-3_1.22.1-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB] Fetched 19.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbpn2i4ag/libfile-stripnondeterminism-perl_1.15.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libmpfr6 amd64 4.2.2-3 [729 kB] Fetched 729 kB in 0s (66.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfavrcb0g/libmpfr6_4.2.2-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 dpkg amd64 1.23.7 [1531 kB] Fetched 1531 kB in 0s (104 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvgi9w2_p/dpkg_1.23.7_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpmix2t64 amd64 6.0.0+really5.0.9-3 [673 kB] Fetched 673 kB in 0s (12.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvxc3r09h/libpmix2t64_6.0.0+really5.0.9-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 g++-15-x86-64-linux-gnu amd64 15.2.0-16 [13.2 MB] Fetched 13.2 MB in 0s (185 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpp8wvod1g/g++-15-x86-64-linux-gnu_15.2.0-16_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 chrpath amd64 0.18-1 [13.5 kB] Fetched 13.5 kB in 0s (534 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqy_ky122/chrpath_0.18-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libdrm2 amd64 2.4.131-1 [39.9 kB] Fetched 39.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5th8gav1/libdrm2_2.4.131-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libucx0 amd64 1.20.1~rc1-2 [955 kB] Fetched 955 kB in 0s (6142 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplwjdr6q8/libucx0_1.20.1~rc1-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsemanage-common all 3.10-1 [6776 B] Fetched 6776 B in 0s (295 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6vrs6lgy/libsemanage-common_3.10-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libnl-route-3-dev amd64 3.12.0-2 [220 kB] Fetched 220 kB in 0s (5458 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9vm42ul8/libnl-route-3-dev_3.12.0-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 time amd64 1.9-0.4 [47.7 kB] Fetched 47.7 kB in 0s (1757 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_zlt9g_6/time_1.9-0.4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 diffutils amd64 1:3.12-1 [405 kB] Fetched 405 kB in 0s (0 B/s) dpkg-name: info: moved 'diffutils_1%3a3.12-1_amd64.deb' to '/srv/rebuilderd/tmp/tmp7vw5yj2p/diffutils_3.12-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 g++ amd64 4:15.2.0-5 [1344 B] Fetched 1344 B in 0s (0 B/s) dpkg-name: info: moved 'g++_4%3a15.2.0-5_amd64.deb' to '/srv/rebuilderd/tmp/tmp5uu2fso8/g++_15.2.0-5_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 gcc-16-base amd64 16-20260322-1 [35.5 kB] Fetched 35.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6nm44fdx/gcc-16-base_16-20260322-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libexpat1 amd64 2.7.5-1 [115 kB] Fetched 115 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp00ldroxl/libexpat1_2.7.5-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libfuse3-4 amd64 3.18.2-1 [103 kB] Fetched 103 kB in 0s (1704 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpm_8_vxa0/libfuse3-4_3.18.2-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libevent-openssl-2.1-7t64 amd64 2.1.12-stable-10+b2 [61.3 kB] Fetched 61.3 kB in 0s (1982 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyraykw0n/libevent-openssl-2.1-7t64_2.1.12-stable-10+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 grep amd64 3.12-1 [443 kB] Fetched 443 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5w4qj2e_/grep_3.12-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libllvm21 amd64 1:21.1.8-7 [28.3 MB] Fetched 28.3 MB in 0s (186 MB/s) dpkg-name: info: moved 'libllvm21_1%3a21.1.8-7_amd64.deb' to '/srv/rebuilderd/tmp/tmp8rze2y_1/libllvm21_21.1.8-7_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260406T144517Z unstable/main amd64 libmount1 amd64 2.42-1 [212 kB] Fetched 212 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmph8wdw4no/libmount1_2.42-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.22 [216 kB] Fetched 216 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphc0qb6xp/po-debconf_1.0.22_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 zlib1g amd64 1:1.3.dfsg+really1.3.2-3 [90.9 kB] Fetched 90.9 kB in 0s (0 B/s) dpkg-name: info: moved 'zlib1g_1%3a1.3.dfsg+really1.3.2-3_amd64.deb' to '/srv/rebuilderd/tmp/tmp33p21b3s/zlib1g_1.3.dfsg+really1.3.2-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 gfortran-15-x86-64-linux-gnu amd64 15.2.0-16 [12.8 MB] Fetched 12.8 MB in 0s (189 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5hpneyhz/gfortran-15-x86-64-linux-gnu_15.2.0-16_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 bash amd64 5.3-2 [1561 kB] Fetched 1561 kB in 0s (106 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvhvypkq8/bash_5.3-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.18.1-4 [877 kB] Fetched 877 kB in 0s (78.2 MB/s) dpkg-name: info: moved 'automake_1%3a1.18.1-4_all.deb' to '/srv/rebuilderd/tmp/tmpbmvf3c9e/automake_1.18.1-4_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 perl-base amd64 5.40.1-7 [1679 kB] Fetched 1679 kB in 0s (110 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5tlls8vt/perl-base_5.40.1-7_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 gcc-15 amd64 15.2.0-16 [540 kB] Fetched 540 kB in 0s (52.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpurnwtoss/gcc-15_15.2.0-16_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgcc-s1 amd64 16-20260322-1 [74.0 kB] Fetched 74.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpg2irhlqz/libgcc-s1_16-20260322-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libprrte-dev amd64 3.0.13-3 [3654 kB] Fetched 3654 kB in 1s (6281 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp039m2f6u/libprrte-dev_3.0.13-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libselinux1 amd64 3.10-1 [85.4 kB] Fetched 85.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6ff59k4a/libselinux1_3.10-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260406T144517Z unstable/main amd64 bsdextrautils amd64 2.42-1 [99.0 kB] Fetched 99.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplc9i4393/bsdextrautils_2.42-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 liblz4-1 amd64 1.10.0-8 [70.1 kB] Fetched 70.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppc30ldc0/liblz4-1_1.10.0-8_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgnutls30t64 amd64 3.8.12-3 [1520 kB] Fetched 1520 kB in 0s (105 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpv7hrpaxp/libgnutls30t64_3.8.12-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libuv1t64 amd64 1.51.0-2+b1 [156 kB] Fetched 156 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6eu2nv51/libuv1t64_1.51.0-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 ncurses-base all 6.6+20251231-1 [277 kB] Fetched 277 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0f4v1o3o/ncurses-base_6.6+20251231-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsprng2 amd64 2.0a-19 [76.0 kB] Fetched 76.0 kB in 0s (2195 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpycoanku7/libsprng2_2.0a-19_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 binutils amd64 2.46-3 [282 kB] Fetched 282 kB in 0s (22.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpd51ug8oc/binutils_2.46-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libseccomp2 amd64 2.6.0-2+b1 [52.2 kB] Fetched 52.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpa3wbqx7r/libseccomp2_2.6.0-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libc-bin amd64 2.42-14 [621 kB] Fetched 621 kB in 0s (61.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvzyswyrr/libc-bin_2.42-14_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.46-5+b1 [110 kB] Fetched 110 kB in 0s (0 B/s) dpkg-name: info: moved 'libmagic1t64_1%3a5.46-5+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmpj1md229z/libmagic1t64_5.46-5+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 openmpi-common all 5.0.10-1 [30.3 kB] Fetched 30.3 kB in 0s (1966 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxcjrnuwo/openmpi-common_5.0.10-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libmd0 amd64 1.1.0-2+b2 [36.2 kB] Fetched 36.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnwrc4poi/libmd0_1.1.0-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libproc2-0 amd64 2:4.0.4-9+b1 [66.1 kB] Fetched 66.1 kB in 0s (0 B/s) dpkg-name: info: moved 'libproc2-0_2%3a4.0.4-9+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmpbn626uvj/libproc2-0_4.0.4-9+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.1-1 [1469 kB] Fetched 1469 kB in 0s (102 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpuhmjtl54/man-db_2.13.1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libedit2 amd64 3.1-20251016-1 [93.6 kB] Fetched 93.6 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8_lt2wut/libedit2_3.1-20251016-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libdrm-common all 2.4.131-1 [9168 B] Fetched 9168 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpc1q657z3/libdrm-common_2.4.131-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgprofng0 amd64 2.46-3 [820 kB] Fetched 820 kB in 0s (73.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9fj9w27r/libgprofng0_2.46-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libnl-3-dev amd64 3.12.0-2 [105 kB] Fetched 105 kB in 0s (2219 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplcepo5n3/libnl-3-dev_3.12.0-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 gcc-15-x86-64-linux-gnu amd64 15.2.0-16 [23.4 MB] Fetched 23.4 MB in 0s (190 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpgmf42g85/gcc-15-x86-64-linux-gnu_15.2.0-16_amd64.deb' Downloading dependency 132 of 272: libc6-dev:amd64=2.42-14 Downloading dependency 133 of 272: libclang-common-21-dev:amd64=1:21.1.8-7 Downloading dependency 134 of 272: hostname:amd64=3.25 Downloading dependency 135 of 272: libhwasan0:amd64=16-20260322-1 Downloading dependency 136 of 272: libattr1:amd64=1:2.5.2-4 Downloading dependency 137 of 272: libnuma-dev:amd64=2.0.19-1+b1 Downloading dependency 138 of 272: libubsan1:amd64=16-20260322-1 Downloading dependency 139 of 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libaudit-common:amd64=1:4.1.2-1 Downloading dependency 186 of 272: libxml2-16:amd64=2.15.2+dfsg-0.1 Downloading dependency 187 of 272: libze1:amd64=1.28.2-2 Downloading dependency 188 of 272: libngtcp2-16:amd64=1.21.0-1 Downloading dependency 189 of 272: libstdc++-15-dev:amd64=15.2.0-16 Downloading dependency 190 of 272: libgomp1:amd64=16-20260322-1 Downloading dependency 191 of 272: libgmp-dev:amd64=2:6.3.0+dfsg-5+b1 Downloading dependency 192 of 272: openssl-provider-legacy:amd64=3.6.1-3 Downloading dependency 193 of 272: perl-modules-5.40:amd64=5.40.1-7 Downloading dependency 194 of 272: librhash1:amd64=1.4.6-1.1 Downloading dependency 195 of 272: libfido2-1:amd64=1.16.0-2+b1 Downloading dependency 196 of 272: pkgconf-bin:amd64=2.5.1-4 Downloading dependency 197 of 272: libx11-6:amd64=2:1.8.13-1 Downloading dependency 198 of 272: libpam-runtime:amd64=1.7.0-5 Downloading dependency 199 of 272: libldap2:amd64=2.6.10+dfsg-1+b1 Downloading dependency 200 of 272: libucc1:amd64=1.7.0~rc1-1 Downloading dependency 201 of 272: libcc1-0:amd64=16-20260322-1 Downloading dependency 202 of 272: googletest:amd64=1.17.0-1 Downloading dependency 203 of 272: libsmartcols1:amd64=2.42-1 Downloading dependency 204 of 272: gfortran-15:amd64=15.2.0-16 Downloading dependency 205 of 272: libatomic1:amd64=16-20260322-1 Downloading dependency 206 of 272: mpi-default-dev:amd64=1.20 Downloading dependency 207 of 272: libnghttp3-9:amd64=1.15.0-1 Downloading dependency 208 of 272: libyaml-cpp-dev:amd64=0.8.0+dfsg-9 Downloading dependency 209 of 272: gzip:amd64=1.13-1 Downloading dependency 210 of 272: libkrb5-3:amd64=1.22.1-2 Downloading dependency 211 of 272: libfile-stripnondeterminism-perl:amd64=1.15.0-1 Downloading dependency 212 of 272: libmpfr6:amd64=4.2.2-3 Downloading dependency 213 of 272: dpkg:amd64=1.23.7 Downloading dependency 214 of 272: libpmix2t64:amd64=6.0.0+really5.0.9-3 Downloading dependency 215 of 272: g++-15-x86-64-linux-gnu:amd64=15.2.0-16 Downloading dependency 216 of 272: chrpath:amd64=0.18-1 Downloading dependency 217 of 272: libdrm2:amd64=2.4.131-1 Downloading dependency 218 of 272: libucx0:amd64=1.20.1~rc1-2 Downloading dependency 219 of 272: libsemanage-common:amd64=3.10-1 Downloading dependency 220 of 272: libnl-route-3-dev:amd64=3.12.0-2 Downloading dependency 221 of 272: time:amd64=1.9-0.4 Downloading dependency 222 of 272: diffutils:amd64=1:3.12-1 Downloading dependency 223 of 272: g++:amd64=4:15.2.0-5 Downloading dependency 224 of 272: gcc-16-base:amd64=16-20260322-1 Downloading dependency 225 of 272: libexpat1:amd64=2.7.5-1 Downloading dependency 226 of 272: libfuse3-4:amd64=3.18.2-1 Downloading dependency 227 of 272: libevent-openssl-2.1-7t64:amd64=2.1.12-stable-10+b2 Downloading dependency 228 of 272: grep:amd64=3.12-1 Downloading dependency 229 of 272: libllvm21:amd64=1:21.1.8-7 Downloading dependency 230 of 272: libmount1:amd64=2.42-1 Downloading dependency 231 of 272: po-debconf:amd64=1.0.22 Downloading dependency 232 of 272: zlib1g:amd64=1:1.3.dfsg+really1.3.2-3 Downloading dependency 233 of 272: gfortran-15-x86-64-linux-gnu:amd64=15.2.0-16 Downloading dependency 234 of 272: bash:amd64=5.3-2 Downloading dependency 235 of 272: automake:amd64=1:1.18.1-4 Downloading dependency 236 of 272: perl-base:amd64=5.40.1-7 Downloading dependency 237 of 272: gcc-15:amd64=15.2.0-16 Downloading dependency 238 of 272: libgcc-s1:amd64=16-20260322-1 Downloading dependency 239 of 272: libprrte-dev:amd64=3.0.13-3 Downloading dependency 240 of 272: libselinux1:amd64=3.10-1 Downloading dependency 241 of 272: bsdextrautils:amd64=2.42-1 Downloading dependency 242 of 272: liblz4-1:amd64=1.10.0-8 Downloading dependency 243 of 272: libgnutls30t64:amd64=3.8.12-3 Downloading dependency 244 of 272: libuv1t64:amd64=1.51.0-2+b1 Downloading dependency 245 of 272: ncurses-base:amd64=6.6+20251231-1 Downloading dependency 246 of 272: libsprng2:amd64=2.0a-19 Downloading dependency 247 of 272: binutils:amd64=2.46-3 Downloading dependency 248 of 272: libseccomp2:amd64=2.6.0-2+b1 Downloading dependency 249 of 272: libc-bin:amd64=2.42-14 Downloading dependency 250 of 272: libmagic1t64:amd64=1:5.46-5+b1 Downloading dependency 251 of 272: openmpi-common:amd64=5.0.10-1 Downloading dependency 252 of 272: libmd0:amd64=1.1.0-2+b2 Downloading dependency 253 of 272: libproc2-0:amd64=2:4.0.4-9+b1 Downloading dependency 254 of 272: man-db:amd64=2.13.1-1 Downloading dependency 255 of 272: libedit2:amd64=3.1-20251016-1 Downloading dependency 256 of 272: libdrm-common:amd64=2.4.131-1 Downloading dependency 257 of 272: libgprofng0:amd64=2.46-3 Downloading dependency 258 of 272: libnl-3-dev:amd64=3.12.0-2 Downloading dependency 259 of 272: gcc-15-x86-64-linux-gnu:amd64=15.2.0-16 Downloading dependency 260 of 272: libhogweed6t64:amd64=3.10.2-1Get:1 http://deb.debian.org/debian unstable/main amd64 libhogweed6t64 amd64 3.10.2-1 [336 kB] Fetched 336 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkjhjs0j2/libhogweed6t64_3.10.2-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libbz2-1.0 amd64 1.0.8-6+b1 [40.4 kB] Fetched 40.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcmd8kh72/libbz2-1.0_1.0.8-6+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libffi8 amd64 3.5.2-4 [25.2 kB] Fetched 25.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmps8s4prcz/libffi8_3.5.2-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libprrte-bin amd64 3.0.13-3 [51.9 kB] Fetched 51.9 kB in 0s (3057 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfw5fjlka/libprrte-bin_3.0.13-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxnvctrl0 amd64 535.171.04-1+b3 [14.1 kB] Fetched 14.1 kB in 0s (746 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpx38y8ztq/libxnvctrl0_535.171.04-1+b3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libevent-extra-2.1-7t64 amd64 2.1.12-stable-10+b2 [108 kB] Fetched 108 kB in 0s (4254 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1uia1nz3/libevent-extra-2.1-7t64_2.1.12-stable-10+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libjansson4 amd64 2.14-2+b4 [40.1 kB] Fetched 40.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1bb4vq7y/libjansson4_2.14-2+b4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libk5crypto3 amd64 1.22.1-2 [81.1 kB] Fetched 81.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5nkza2v8/libk5crypto3_1.22.1-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.46-5+b1 [338 kB] Fetched 338 kB in 0s (0 B/s) dpkg-name: info: moved 'libmagic-mgc_1%3a5.46-5+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmp2z3spqzf/libmagic-mgc_5.46-5+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpsl5t64 amd64 0.21.5-1 [59.9 kB] Fetched 59.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_dkpwl71/libpsl5t64_0.21.5-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.16-4 [108 kB] Fetched 108 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvm6yn9vn/dwz_0.16-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 bzip2 amd64 1.0.8-6+b1 [41.0 kB] Fetched 41.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfhj1cy0v/bzip2_1.0.8-6+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 patch amd64 2.8-2 [134 kB] Fetched 134 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_r7yugzk/patch_2.8-2_amd64.deb' dpkg-buildpackage: info: source package debootsnap-dummy dpkg-buildpackage: info: source version 1.0 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Equivs Dummy Package Generator dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/debootsnap-dummy/ dh_install dh_installdocs dh_installchangelogs dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'debootsnap-dummy' in '../debootsnap-dummy_1.0_all.deb'. dpkg-genbuildinfo --build=binary -O../debootsnap-dummy_1.0_amd64.buildinfo dpkg-genchanges --build=binary -O../debootsnap-dummy_1.0_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) The package has been created. Attention, the package has been created in the /srv/rebuilderd/tmp/tmp446fhem5/cache directory, not in ".." as indicated by the message above! I: automatically chosen mode: unshare I: chroot architecture amd64 is equal to the host's architecture I: using /srv/rebuilderd/tmp/mmdebstrap.7AdfM0ljwJ as tempdir I: running --setup-hook directly: /usr/share/mmdebstrap/hooks/maybe-merged-usr/setup00.sh /srv/rebuilderd/tmp/mmdebstrap.7AdfM0ljwJ 127.0.0.1 - - [09/Apr/2026 23:11:02] code 404, message File not found 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./InRelease HTTP/1.1" 404 - Ign:1 http://localhost:37211 ./ InRelease 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./Release HTTP/1.1" 200 - Get:2 http://localhost:37211 ./ Release [462 B] 127.0.0.1 - - [09/Apr/2026 23:11:02] code 404, message File not found 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./Release.gpg HTTP/1.1" 404 - Ign:3 http://localhost:37211 ./ Release.gpg 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./Packages HTTP/1.1" 200 - Get:4 http://localhost:37211 ./ Packages [337 kB] Fetched 337 kB in 0s (23.1 MB/s) Reading package lists... usr-is-merged found but not real -- not running merged-usr setup hook I: skipping apt-get update because it was already run I: downloading packages with apt... 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./gcc-16-base_16-20260322-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./libc-gconv-modules-extra_2.42-14_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./libc6_2.42-14_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./libgcc-s1_16-20260322-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./mawk_1.3.4.20260302-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./base-files_14_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./libtinfo6_6.6%2b20251231-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./debianutils_5.23.2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./bash_5.3-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./libacl1_2.3.2-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./libattr1_2.5.2-4_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./libgmp10_6.3.0%2bdfsg-5%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./libpcre2-8-0_10.46-1%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./libselinux1_3.10-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./libzstd1_1.5.7%2bdfsg-3%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./zlib1g_1.3.dfsg%2breally1.3.2-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./libssl3t64_3.6.1-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./openssl-provider-legacy_3.6.1-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./libsystemd0_260.1-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./coreutils_9.10-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./dash_0.5.12-12_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./diffutils_3.12-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./libbz2-1.0_1.0.8-6%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./liblzma5_5.8.2-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./libmd0_1.1.0-2%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./tar_1.35%2bdfsg-4_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./dpkg_1.23.7_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./findutils_4.10.0-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./grep_3.12-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./gzip_1.13-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./hostname_3.25_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./ncurses-bin_6.6%2b20251231-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./libcrypt1_4.5.1-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./perl-base_5.40.1-7_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./sed_4.9-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./libaudit-common_4.1.2-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./libcap-ng0_0.9.2-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./libaudit1_4.1.2-1%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./libdb5.3t64_5.3.28%2bdfsg2-11_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./debconf_1.5.92_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./libpam0g_1.7.0-5%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./libpam-modules-bin_1.7.0-5%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./libpam-modules_1.7.0-5%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./libpam-runtime_1.7.0-5_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./libblkid1_2.42-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./libmount1_2.42-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./libsmartcols1_2.42-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./libudev1_260.1-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./libuuid1_2.42-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./util-linux_2.42-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./libdebconfclient0_0.282%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./base-passwd_3.6.8_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./init-system-helpers_1.69_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./libc-bin_2.42-14_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./ncurses-base_6.6%2b20251231-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:02] "GET /./sysvinit-utils_3.18-1_amd64.deb HTTP/1.1" 200 - I: extracting archives... I: running --extract-hook directly: /usr/share/mmdebstrap/hooks/maybe-merged-usr/extract00.sh /srv/rebuilderd/tmp/mmdebstrap.7AdfM0ljwJ 127.0.0.1 - - [09/Apr/2026 23:11:03] code 404, message File not found 127.0.0.1 - - [09/Apr/2026 23:11:03] "GET /./InRelease HTTP/1.1" 404 - Ign:1 http://localhost:37211 ./ InRelease 127.0.0.1 - - [09/Apr/2026 23:11:03] "GET /./Release HTTP/1.1" 304 - Hit:2 http://localhost:37211 ./ Release 127.0.0.1 - - [09/Apr/2026 23:11:03] code 404, message File not found 127.0.0.1 - - [09/Apr/2026 23:11:03] "GET /./Release.gpg HTTP/1.1" 404 - Ign:3 http://localhost:37211 ./ Release.gpg Reading package lists... usr-is-merged found but not real -- not running merged-usr extract hook I: installing essential packages... I: running --essential-hook directly: /usr/share/mmdebstrap/hooks/maybe-merged-usr/essential00.sh /srv/rebuilderd/tmp/mmdebstrap.7AdfM0ljwJ usr-is-merged was not installed in a previous hook -- not running merged-usr essential hook I: installing remaining packages inside the chroot... 127.0.0.1 - - [09/Apr/2026 23:11:12] "GET /./liblocale-gettext-perl_1.07-8_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:12] "GET /./libexpat1_2.7.5-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:12] "GET /./login.defs_4.19.3-2_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:12] "GET /./libbsd0_0.12.2-2%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:12] "GET /./libsemanage-common_3.10-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:12] "GET /./libsepol2_3.10-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:12] "GET /./libsemanage2_3.10-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:12] "GET /./passwd_4.19.3-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:12] "GET /./sensible-utils_0.0.26_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:12] "GET /./adduser_3.155_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:12] "GET /./libstdc%2b%2b6_16-20260322-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:12] "GET /./libuchardet0_0.0.8-2%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:12] "GET /./groff-base_1.23.0-10_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:12] "GET /./bsdextrautils_2.42-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:12] "GET /./libgdbm6t64_1.26-1%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:12] "GET /./libpipeline1_1.5.8-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:12] "GET /./libseccomp2_2.6.0-2%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:12] "GET /./man-db_2.13.1-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:12] "GET /./libncursesw6_6.6%2b20251231-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:12] "GET /./libproc2-0_4.0.4-9%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:12] "GET /./procps_4.0.4-9%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:12] "GET /./bzip2_1.0.8-6%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:12] "GET /./libmagic-mgc_5.46-5%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:12] "GET /./libmagic1t64_5.46-5%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:12] "GET /./file_5.46-5%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:12] "GET /./gettext-base_0.23.2-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:12] "GET /./systemd-standalone-sysusers_260.1-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:12] "GET /./libedit2_3.1-20251016-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:12] "GET /./libcbor0.10_0.10.2-2.1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:12] "GET /./libfido2-1_1.16.0-2%2bb1_amd64.deb HTTP/1.1" 200 - 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127.0.0.1 - - [09/Apr/2026 23:11:14] "GET /./openmpi-common_5.0.10-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:14] "GET /./libprrte3_3.0.13-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:14] "GET /./libprrte-bin_3.0.13-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:14] "GET /./openmpi-bin_5.0.10-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:14] "GET /./libgfortran5_16-20260322-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:14] "GET /./libgfortran-15-dev_15.2.0-16_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:14] "GET /./gfortran-15-x86-64-linux-gnu_15.2.0-16_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:14] "GET /./gfortran-15_15.2.0-16_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:14] "GET /./libnl-3-dev_3.12.0-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:14] "GET /./libnl-route-3-dev_3.12.0-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:14] "GET /./libibverbs-dev_61.0-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:14] "GET /./libjs-jquery_3.7.1%2bdfsg%2b%7e3.5.33-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:14] "GET /./libprrte-dev_3.0.13-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:14] "GET /./libjs-jquery-ui_1.13.2%2bdfsg-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:14] "GET /./libopenmpi-dev_5.0.10-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:14] "GET /./libncl-dev_2.1.21%2bgit20210811.b1213a7-6%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:14] "GET /./help2man_1.49.3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:14] "GET /./googletest_1.17.0-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:14] "GET /./mpi-default-dev_1.20_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:14] "GET /./libyaml-cpp-dev_0.8.0%2bdfsg-9_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:14] "GET /./time_1.9-0.4_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [09/Apr/2026 23:11:14] "GET /./debootsnap-dummy_1.0_all.deb HTTP/1.1" 200 - I: running --customize-hook directly: /srv/rebuilderd/tmp/tmp446fhem5/apt_install.sh /srv/rebuilderd/tmp/mmdebstrap.7AdfM0ljwJ Reading package lists... Building dependency tree... Reading state information... libperl5.40 is already the newest version (5.40.1-7). libperl5.40 set to manually installed. procps is already the newest version (2:4.0.4-9+b1). procps set to manually installed. libsepol2 is already the newest version (3.10-1). libsepol2 set to manually installed. libbrotli1 is already the newest version (1.2.0-3). libbrotli1 set to manually installed. dash is already the newest version (0.5.12-12). libgssapi-krb5-2 is already the newest version (1.22.1-2). libgssapi-krb5-2 set to manually installed. libhwloc-dev is already the newest version (2.13.0-2). libhwloc-dev set to manually installed. libunistring5 is already the newest version (1.4.2-1). libunistring5 set to manually installed. libctf-nobfd0 is already the newest version (2.46-3). libctf-nobfd0 set to manually installed. build-essential is already the newest version (12.12). build-essential set to manually installed. libc6 is already the newest version (2.42-14). libpam-modules is already the newest version (1.7.0-5+b1). libevent-dev is already the newest version (2.1.12-stable-10+b2). libevent-dev set to manually installed. sysvinit-utils is already the newest version (3.18-1). zlib1g-dev is already the newest version (1:1.3.dfsg+really1.3.2-3). zlib1g-dev set to manually installed. cpp is already the newest version (4:15.2.0-5). cpp set to manually installed. libpcre2-8-0 is already the newest version (10.46-1+b1). liblsan0 is already the newest version (16-20260322-1). liblsan0 set to manually installed. libzstd1 is already the newest version (1.5.7+dfsg-3+b1). dh-strip-nondeterminism is already the newest version (1.15.0-1). dh-strip-nondeterminism set to manually installed. libxdmcp6 is already the newest version (1:1.1.5-2). libxdmcp6 set to manually installed. libsasl2-2 is already the newest version (2.1.28+dfsg1-11). libsasl2-2 set to manually installed. libncl2 is already the newest version (2.1.21+git20210811.b1213a7-6+b1). libncl2 set to manually installed. dh-autoreconf is already the newest version (22). dh-autoreconf set to manually installed. libeigen3-dev is already the newest version (3.4.0-5). libeigen3-dev set to manually installed. libncursesw6 is already the newest version (6.6+20251231-1). libncursesw6 set to manually installed. libpciaccess0 is already the newest version (0.17-3+b4). libpciaccess0 set to manually installed. tar is already the newest version (1.35+dfsg-4). libbsd0 is already the newest version (0.12.2-2+b1). libbsd0 set to manually installed. libxext6 is already the newest version (2:1.3.4-1+b4). libxext6 set to manually installed. g++-x86-64-linux-gnu is already the newest version (4:15.2.0-5). g++-x86-64-linux-gnu set to manually installed. ibverbs-providers is already the newest version (61.0-2). ibverbs-providers set to manually installed. perl is already the newest version (5.40.1-7). perl set to manually installed. autotools-dev is already the newest version (20240727.1). autotools-dev set to manually installed. cpp-x86-64-linux-gnu is already the newest version (4:15.2.0-5). cpp-x86-64-linux-gnu set to manually installed. libgcc-15-dev is already the newest version (15.2.0-16). libgcc-15-dev set to manually installed. m4 is already the newest version (1.4.21-1). m4 set to manually installed. groff-base is already the newest version (1.23.0-10). groff-base set to manually installed. libevent-2.1-7t64 is already the newest version (2.1.12-stable-10+b2). libevent-2.1-7t64 set to manually installed. libltdl-dev is already the newest version (2.5.4-10). libltdl-dev set to manually installed. xz-utils is already the newest version (5.8.2-2). xz-utils set to manually installed. autoconf is already the newest version (2.72-6). autoconf set to manually installed. libcrypt1 is already the newest version (1:4.5.1-1). libelf1t64 is already the newest version (0.194-4). libelf1t64 set to manually installed. libngtcp2-crypto-ossl0 is already the newest version (1.21.0-1). libngtcp2-crypto-ossl0 set to manually installed. systemd-standalone-sysusers is already the newest version (260.1-1). systemd-standalone-sysusers set to manually installed. libz3-4 is already the newest version (4.13.3-1+b1). libz3-4 set to manually installed. libboost-dev is already the newest version (1.90.0.1). libboost-dev set to manually installed. libc-gconv-modules-extra is already the newest version (2.42-14). libitm1 is already the newest version (16-20260322-1). libitm1 set to manually installed. libopenmpi40 is already the newest version (5.0.10-1). libopenmpi40 set to manually installed. libxcb1 is already the newest version (1.17.0-2+b2). libxcb1 set to manually installed. libsprng2-dev is already the newest version (2.0a-19). libsprng2-dev set to manually installed. rpcsvc-proto is already the newest version (1.4.3-1). rpcsvc-proto set to manually installed. libuuid1 is already the newest version (2.42-1). libisl23 is already the newest version (0.27-2). libisl23 set to manually installed. findutils is already the newest version (4.10.0-3). libjsoncpp26 is already the newest version (1.9.6-5). libjsoncpp26 set to manually installed. libamdhip64-6 is already the newest version (6.4.3-5). libamdhip64-6 set to manually installed. libasan8 is already the newest version (16-20260322-1). libasan8 set to manually installed. libsasl2-modules-db is already the newest version (2.1.28+dfsg1-11). libsasl2-modules-db set to manually installed. libdrm-amdgpu1 is already the newest version (2.4.131-1). libdrm-amdgpu1 set to manually installed. libudev1 is already the newest version (260.1-1). libquadmath0 is already the newest version (16-20260322-1). libquadmath0 set to manually installed. libgmpxx4ldbl is already the newest version (2:6.3.0+dfsg-5+b1). libgmpxx4ldbl set to manually installed. libsimde-dev is already the newest version (0.8.4~rc3-5). libsimde-dev set to manually installed. pkgconf is already the newest version (2.5.1-4). pkgconf set to manually installed. libnl-route-3-200 is already the newest version (3.12.0-2). libnl-route-3-200 set to manually installed. libnl-3-200 is already the newest version (3.12.0-2). libnl-3-200 set to manually installed. g++-15 is already the newest version (15.2.0-16). g++-15 set to manually installed. libssh2-1t64 is already the newest version (1.11.1-2). libssh2-1t64 set to manually installed. login.defs is already the newest version (1:4.19.3-2). login.defs set to manually installed. libpipeline1 is already the newest version (1.5.8-2). libpipeline1 set to manually installed. libgdbm-compat4t64 is already the newest version (1.26-1+b1). libgdbm-compat4t64 set to manually installed. libyaml-cpp0.8 is already the newest version (0.8.0+dfsg-9). libyaml-cpp0.8 set to manually installed. make is already the newest version (4.4.1-3). make set to manually installed. libarchive-zip-perl is already the newest version (1.68-1). libarchive-zip-perl set to manually installed. mawk is already the newest version (1.3.4.20260302-1). libblkid1 is already the newest version (2.42-1). libpam-modules-bin is already the newest version (1.7.0-5+b1). libpkgconf7 is already the newest version (2.5.1-4). libpkgconf7 set to manually installed. base-files is already the newest version (14). file is already the newest version (1:5.46-5+b1). file set to manually installed. libtasn1-6 is already the newest version (4.21.0-2). libtasn1-6 set to manually installed. openmpi-bin is already the newest version (5.0.10-1). openmpi-bin set to manually installed. gcc-15-base is already the newest version (15.2.0-16). gcc-15-base set to manually installed. libpam0g is already the newest version (1.7.0-5+b1). cpp-15-x86-64-linux-gnu is already the newest version (15.2.0-16). cpp-15-x86-64-linux-gnu set to manually installed. libtinfo6 is already the newest version (6.6+20251231-1). cmake is already the newest version (4.3.1-1). cmake set to manually installed. cpp-15 is already the newest version (15.2.0-16). cpp-15 set to manually installed. libkeyutils1 is already the newest version (1.6.3-6+b1). libkeyutils1 set to manually installed. libibmad5 is already the newest version (61.0-2). libibmad5 set to manually installed. intltool-debian is already the newest version (0.35.0+20060710.6). intltool-debian set to manually installed. libsemanage2 is already the newest version (3.10-1). libsemanage2 set to manually installed. libcbor0.10 is already the newest version (0.10.2-2.1). libcbor0.10 set to manually installed. libacl1 is already the newest version (2.3.2-3). libibumad3 is already the newest version (61.0-2). libibumad3 set to manually installed. libssl3t64 is already the newest version (3.6.1-3). libopenmpi-dev is already the newest version (5.0.10-1). libopenmpi-dev set to manually installed. libhwloc-plugins is already the newest version (2.13.0-2). libhwloc-plugins set to manually installed. librdmacm1t64 is already the newest version (61.0-2). librdmacm1t64 set to manually installed. libamd-comgr3 is already the newest version (7.0.2+dfsg-3). libamd-comgr3 set to manually installed. libibverbs1 is already the newest version (61.0-2). libibverbs1 set to manually installed. libgdbm6t64 is already the newest version (1.26-1+b1). libgdbm6t64 set to manually installed. libsframe3 is already the newest version (2.46-3). libsframe3 set to manually installed. libtool is already the newest version (2.5.4-10). libtool set to manually installed. libc-dev-bin is already the newest version (2.42-14). libc-dev-bin set to manually installed. libcap-ng0 is already the newest version (0.9.2-1). debianutils is already the newest version (5.23.2). libevent-pthreads-2.1-7t64 is already the newest version (2.1.12-stable-10+b2). libevent-pthreads-2.1-7t64 set to manually installed. binutils-common is already the newest version (2.46-3). binutils-common set to manually installed. libkrb5support0 is already the newest version (1.22.1-2). libkrb5support0 set to manually installed. libxxhash0 is already the newest version (0.8.3-2+b1). libxxhash0 set to manually installed. dpkg-dev is already the newest version (1.23.7). dpkg-dev set to manually installed. libjs-jquery is already the newest version (3.7.1+dfsg+~3.5.33-1). libjs-jquery set to manually installed. libprrte3 is already the newest version (3.0.13-3). libprrte3 set to manually installed. libltdl7 is already the newest version (2.5.4-10). libltdl7 set to manually installed. libtsan2 is already the newest version (16-20260322-1). libtsan2 set to manually installed. librtmp1 is already the newest version (2.4+20151223.gitfa8646d.1-3+b1). librtmp1 set to manually installed. libctf0 is already the newest version (2.46-3). libctf0 set to manually installed. libnettle8t64 is already the newest version (3.10.2-1). libnettle8t64 set to manually installed. libdebconfclient0 is already the newest version (0.282+b2). adduser is already the newest version (3.155). adduser set to manually installed. init-system-helpers is already the newest version (1.69). libdebhelper-perl is already the newest version (13.31). libdebhelper-perl set to manually installed. libibverbs-dev is already the newest version (61.0-2). libibverbs-dev set to manually installed. linux-libc-dev is already the newest version (6.19.11-1). linux-libc-dev set to manually installed. sed is already the newest version (4.9-2). libjs-jquery-ui is already the newest version (1.13.2+dfsg-1). libjs-jquery-ui set to manually installed. libaudit1 is already the newest version (1:4.1.2-1+b1). libc6-dev is already the newest version (2.42-14). libc6-dev set to manually installed. libclang-common-21-dev is already the newest version (1:21.1.8-7). libclang-common-21-dev set to manually installed. hostname is already the newest version (3.25). libhwasan0 is already the newest version (16-20260322-1). libhwasan0 set to manually installed. libattr1 is already the newest version (1:2.5.2-4). libnuma-dev is already the newest version (2.0.19-1+b1). libnuma-dev set to manually installed. libubsan1 is already the newest version (16-20260322-1). libubsan1 set to manually installed. libfabric1 is already the newest version (2.1.0-1.1+b1). libfabric1 set to manually installed. libuchardet0 is already the newest version (0.0.8-2+b1). libuchardet0 set to manually installed. base-passwd is already the newest version (3.6.8). autopoint is already the newest version (0.23.2-2). autopoint set to manually installed. ncurses-bin is already the newest version (6.6+20251231-1). ocl-icd-libopencl1 is already the newest version (2.3.4-1). ocl-icd-libopencl1 set to manually installed. libp11-kit0 is already the newest version (0.26.2-2). libp11-kit0 set to manually installed. libmunge2 is already the newest version (0.5.18-1). libmunge2 set to manually installed. libgfortran-15-dev is already the newest version (15.2.0-16). libgfortran-15-dev set to manually installed. libmpc3 is already the newest version (1.3.1-3). libmpc3 set to manually installed. liblocale-gettext-perl is already the newest version (1.07-8). liblocale-gettext-perl set to manually installed. libhwloc15 is already the newest version (2.13.0-2). libhwloc15 set to manually installed. libgmp10 is already the newest version (2:6.3.0+dfsg-5+b1). libarchive13t64 is already the newest version (3.8.5-1). libarchive13t64 set to manually installed. debhelper is already the newest version (13.31). debhelper set to manually installed. libpsm2-2 is already the newest version (11.2.185-2.1). libpsm2-2 set to manually installed. coreutils is already the newest version (9.10-1). util-linux is already the newest version (2.42-1). libsystemd0 is already the newest version (260.1-1). libhsa-runtime64-1 is already the newest version (6.4.3+dfsg-5). libhsa-runtime64-1 set to manually installed. libx11-data is already the newest version (2:1.8.13-1). libx11-data set to manually installed. libnghttp2-14 is already the newest version (1.68.1-1). libnghttp2-14 set to manually installed. binutils-x86-64-linux-gnu is already the newest version (2.46-3). binutils-x86-64-linux-gnu set to manually installed. libboost1.90-dev is already the newest version (1.90.0-6). libboost1.90-dev set to manually installed. libncl-dev is already the newest version (2.1.21+git20210811.b1213a7-6+b1). libncl-dev set to manually installed. libbinutils is already the newest version (2.46-3). libbinutils set to manually installed. gettext is already the newest version (0.23.2-2). gettext set to manually installed. debconf is already the newest version (1.5.92). libevent-core-2.1-7t64 is already the newest version (2.1.12-stable-10+b2). libevent-core-2.1-7t64 set to manually installed. libgfortran5 is already the newest version (16-20260322-1). libgfortran5 set to manually installed. libcom-err2 is already the newest version (1.47.4-1). libcom-err2 set to manually installed. sensible-utils is already the newest version (0.0.26). sensible-utils set to manually installed. libcurl4t64 is already the newest version (8.19.0-3). libcurl4t64 set to manually installed. libnuma1 is already the newest version (2.0.19-1+b1). libnuma1 set to manually installed. libxau6 is already the newest version (1:1.0.11-1+b1). libxau6 set to manually installed. liblzma5 is already the newest version (5.8.2-2). libdb5.3t64 is already the newest version (5.3.28+dfsg2-11). gettext-base is already the newest version (0.23.2-2). gettext-base set to manually installed. openssh-client is already the newest version (1:10.2p1-6). openssh-client set to manually installed. help2man is already the newest version (1.49.3). help2man set to manually installed. passwd is already the newest version (1:4.19.3-2). passwd set to manually installed. libstdc++6 is already the newest version (16-20260322-1). libstdc++6 set to manually installed. libdpkg-perl is already the newest version (1.23.7). libdpkg-perl set to manually installed. libidn2-0 is already the newest version (2.3.8-4+b1). libidn2-0 set to manually installed. gcc is already the newest version (4:15.2.0-5). gcc set to manually installed. gcc-x86-64-linux-gnu is already the newest version (4:15.2.0-5). gcc-x86-64-linux-gnu set to manually installed. libaudit-common is already the newest version (1:4.1.2-1). libxml2-16 is already the newest version (2.15.2+dfsg-0.1). libxml2-16 set to manually installed. libze1 is already the newest version (1.28.2-2). libze1 set to manually installed. libngtcp2-16 is already the newest version (1.21.0-1). libngtcp2-16 set to manually installed. libstdc++-15-dev is already the newest version (15.2.0-16). libstdc++-15-dev set to manually installed. libgomp1 is already the newest version (16-20260322-1). libgomp1 set to manually installed. libgmp-dev is already the newest version (2:6.3.0+dfsg-5+b1). libgmp-dev set to manually installed. openssl-provider-legacy is already the newest version (3.6.1-3). perl-modules-5.40 is already the newest version (5.40.1-7). perl-modules-5.40 set to manually installed. librhash1 is already the newest version (1.4.6-1.1). librhash1 set to manually installed. libfido2-1 is already the newest version (1.16.0-2+b1). libfido2-1 set to manually installed. pkgconf-bin is already the newest version (2.5.1-4). pkgconf-bin set to manually installed. libx11-6 is already the newest version (2:1.8.13-1). libx11-6 set to manually installed. libpam-runtime is already the newest version (1.7.0-5). libldap2 is already the newest version (2.6.10+dfsg-1+b1). libldap2 set to manually installed. libucc1 is already the newest version (1.7.0~rc1-1). libucc1 set to manually installed. libcc1-0 is already the newest version (16-20260322-1). libcc1-0 set to manually installed. googletest is already the newest version (1.17.0-1). googletest set to manually installed. libsmartcols1 is already the newest version (2.42-1). gfortran-15 is already the newest version (15.2.0-16). gfortran-15 set to manually installed. libatomic1 is already the newest version (16-20260322-1). libatomic1 set to manually installed. mpi-default-dev is already the newest version (1.20). mpi-default-dev set to manually installed. libnghttp3-9 is already the newest version (1.15.0-1). libnghttp3-9 set to manually installed. libyaml-cpp-dev is already the newest version (0.8.0+dfsg-9). libyaml-cpp-dev set to manually installed. gzip is already the newest version (1.13-1). libkrb5-3 is already the newest version (1.22.1-2). libkrb5-3 set to manually installed. libfile-stripnondeterminism-perl is already the newest version (1.15.0-1). libfile-stripnondeterminism-perl set to manually installed. libmpfr6 is already the newest version (4.2.2-3). libmpfr6 set to manually installed. dpkg is already the newest version (1.23.7). libpmix2t64 is already the newest version (6.0.0+really5.0.9-3). libpmix2t64 set to manually installed. g++-15-x86-64-linux-gnu is already the newest version (15.2.0-16). g++-15-x86-64-linux-gnu set to manually installed. chrpath is already the newest version (0.18-1). chrpath set to manually installed. libdrm2 is already the newest version (2.4.131-1). libdrm2 set to manually installed. libucx0 is already the newest version (1.20.1~rc1-2). libucx0 set to manually installed. libsemanage-common is already the newest version (3.10-1). libsemanage-common set to manually installed. libnl-route-3-dev is already the newest version (3.12.0-2). libnl-route-3-dev set to manually installed. time is already the newest version (1.9-0.4). time set to manually installed. diffutils is already the newest version (1:3.12-1). g++ is already the newest version (4:15.2.0-5). g++ set to manually installed. gcc-16-base is already the newest version (16-20260322-1). libexpat1 is already the newest version (2.7.5-1). libexpat1 set to manually installed. libfuse3-4 is already the newest version (3.18.2-1). libfuse3-4 set to manually installed. libevent-openssl-2.1-7t64 is already the newest version (2.1.12-stable-10+b2). libevent-openssl-2.1-7t64 set to manually installed. grep is already the newest version (3.12-1). libllvm21 is already the newest version (1:21.1.8-7). libllvm21 set to manually installed. libmount1 is already the newest version (2.42-1). po-debconf is already the newest version (1.0.22). po-debconf set to manually installed. zlib1g is already the newest version (1:1.3.dfsg+really1.3.2-3). gfortran-15-x86-64-linux-gnu is already the newest version (15.2.0-16). gfortran-15-x86-64-linux-gnu set to manually installed. bash is already the newest version (5.3-2). automake is already the newest version (1:1.18.1-4). automake set to manually installed. perl-base is already the newest version (5.40.1-7). gcc-15 is already the newest version (15.2.0-16). gcc-15 set to manually installed. libgcc-s1 is already the newest version (16-20260322-1). libprrte-dev is already the newest version (3.0.13-3). libprrte-dev set to manually installed. libselinux1 is already the newest version (3.10-1). bsdextrautils is already the newest version (2.42-1). bsdextrautils set to manually installed. liblz4-1 is already the newest version (1.10.0-8). liblz4-1 set to manually installed. libgnutls30t64 is already the newest version (3.8.12-3). libgnutls30t64 set to manually installed. libuv1t64 is already the newest version (1.51.0-2+b1). libuv1t64 set to manually installed. ncurses-base is already the newest version (6.6+20251231-1). libsprng2 is already the newest version (2.0a-19). libsprng2 set to manually installed. binutils is already the newest version (2.46-3). binutils set to manually installed. libseccomp2 is already the newest version (2.6.0-2+b1). libseccomp2 set to manually installed. libc-bin is already the newest version (2.42-14). libmagic1t64 is already the newest version (1:5.46-5+b1). libmagic1t64 set to manually installed. openmpi-common is already the newest version (5.0.10-1). openmpi-common set to manually installed. libmd0 is already the newest version (1.1.0-2+b2). libproc2-0 is already the newest version (2:4.0.4-9+b1). libproc2-0 set to manually installed. man-db is already the newest version (2.13.1-1). man-db set to manually installed. libedit2 is already the newest version (3.1-20251016-1). libedit2 set to manually installed. libdrm-common is already the newest version (2.4.131-1). libdrm-common set to manually installed. libgprofng0 is already the newest version (2.46-3). libgprofng0 set to manually installed. libnl-3-dev is already the newest version (3.12.0-2). libnl-3-dev set to manually installed. gcc-15-x86-64-linux-gnu is already the newest version (15.2.0-16). gcc-15-x86-64-linux-gnu set to manually installed. libhogweed6t64 is already the newest version (3.10.2-1). libhogweed6t64 set to manually installed. libbz2-1.0 is already the newest version (1.0.8-6+b1). libffi8 is already the newest version (3.5.2-4). libffi8 set to manually installed. libprrte-bin is already the newest version (3.0.13-3). libprrte-bin set to manually installed. libxnvctrl0 is already the newest version (535.171.04-1+b3). libxnvctrl0 set to manually installed. libevent-extra-2.1-7t64 is already the newest version (2.1.12-stable-10+b2). libevent-extra-2.1-7t64 set to manually installed. libjansson4 is already the newest version (2.14-2+b4). libjansson4 set to manually installed. libk5crypto3 is already the newest version (1.22.1-2). libk5crypto3 set to manually installed. libmagic-mgc is already the newest version (1:5.46-5+b1). libmagic-mgc set to manually installed. libpsl5t64 is already the newest version (0.21.5-1). libpsl5t64 set to manually installed. dwz is already the newest version (0.16-4). dwz set to manually installed. bzip2 is already the newest version (1.0.8-6+b1). bzip2 set to manually installed. patch is already the newest version (2.8-2). patch set to manually installed. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: running --customize-hook in shell: sh -c 'chroot "$1" dpkg -r debootsnap-dummy' exec /srv/rebuilderd/tmp/mmdebstrap.7AdfM0ljwJ (Reading database ... 40909 files and directories currently installed.) Removing debootsnap-dummy (1.0) ... I: running --customize-hook in shell: sh -c 'chroot "$1" dpkg-query --showformat '${binary:Package}=${Version}\n' --show > "$1/pkglist"' exec /srv/rebuilderd/tmp/mmdebstrap.7AdfM0ljwJ I: running special hook: download /pkglist ./pkglist I: running --customize-hook in shell: sh -c 'rm "$1/pkglist"' exec /srv/rebuilderd/tmp/mmdebstrap.7AdfM0ljwJ I: running special hook: upload sources.list /etc/apt/sources.list I: waiting for background processes to finish... I: cleaning package lists and apt cache... I: skipping cleanup/reproducible as requested I: creating tarball... I: done I: removing tempdir /srv/rebuilderd/tmp/mmdebstrap.7AdfM0ljwJ... I: success in 75.7409 seconds Downloading dependency 261 of 272: libbz2-1.0:amd64=1.0.8-6+b1 Downloading dependency 262 of 272: libffi8:amd64=3.5.2-4 Downloading dependency 263 of 272: libprrte-bin:amd64=3.0.13-3 Downloading dependency 264 of 272: libxnvctrl0:amd64=535.171.04-1+b3 Downloading dependency 265 of 272: libevent-extra-2.1-7t64:amd64=2.1.12-stable-10+b2 Downloading dependency 266 of 272: libjansson4:amd64=2.14-2+b4 Downloading dependency 267 of 272: libk5crypto3:amd64=1.22.1-2 Downloading dependency 268 of 272: libmagic-mgc:amd64=1:5.46-5+b1 Downloading dependency 269 of 272: libpsl5t64:amd64=0.21.5-1 Downloading dependency 270 of 272: dwz:amd64=0.16-4 Downloading dependency 271 of 272: bzip2:amd64=1.0.8-6+b1 Downloading dependency 272 of 272: patch:amd64=2.8-2 env --chdir=/srv/rebuilderd/tmp/rebuilderdL2mRss/out DEB_BUILD_OPTIONS=parallel=6 LANG=C.UTF-8 LC_COLLATE=C.UTF-8 LC_CTYPE=C.UTF-8 SOURCE_DATE_EPOCH=1775562998 SBUILD_CONFIG=/srv/rebuilderd/tmp/debrebuild8K1NXJ/debrebuild.sbuildrc.ZdAi9f61GBWH sbuild --build=amd64 --host=amd64 --arch-any --no-arch-all --chroot=/srv/rebuilderd/tmp/debrebuild8K1NXJ/debrebuild.tar.T6jKABDgO0U3 --chroot-mode=unshare --dist=unstable --no-run-lintian --no-run-piuparts --no-run-autopkgtest --no-apt-update --no-apt-upgrade --no-apt-distupgrade --no-source --verbose --nolog --bd-uninstallable-explainer= --build-path=/build/reproducible-path --dsc-dir=iqtree-3.0.1+dfsg /srv/rebuilderd/tmp/rebuilderdL2mRss/inputs/iqtree_3.0.1+dfsg-1.dsc I: consider moving your ~/.sbuildrc to /srv/rebuilderd/.config/sbuild/config.pl The Debian buildds switched to the "unshare" backend and sbuild will default to it in the future. To start using "unshare" add this to your `~/.config/sbuild/config.pl`: $chroot_mode = "unshare"; If you want to keep the old "schroot" mode even in the future, add the following to your `~/.config/sbuild/config.pl`: $chroot_mode = "schroot"; $schroot = "schroot"; sbuild (Debian sbuild) 0.89.3+deb13u4 (28 December 2025) on osuosl44-amd64.novalocal +==============================================================================+ | iqtree 3.0.1+dfsg-1 (amd64) Thu, 09 Apr 2026 23:12:18 +0000 | +==============================================================================+ Package: iqtree Version: 3.0.1+dfsg-1 Source Version: 3.0.1+dfsg-1 Distribution: unstable Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 Build Type: any I: No tarballs found in /srv/rebuilderd/.cache/sbuild I: Unpacking /srv/rebuilderd/tmp/debrebuild8K1NXJ/debrebuild.tar.T6jKABDgO0U3 to /srv/rebuilderd/tmp/tmp.sbuild.rmOZJkS87O... I: Setting up the chroot... I: Creating chroot session... I: Setting up log color... I: Setting up apt archive... +------------------------------------------------------------------------------+ | Fetch source files Thu, 09 Apr 2026 23:12:22 +0000 | +------------------------------------------------------------------------------+ Local sources ------------- /srv/rebuilderd/tmp/rebuilderdL2mRss/inputs/iqtree_3.0.1+dfsg-1.dsc exists in /srv/rebuilderd/tmp/rebuilderdL2mRss/inputs; copying to chroot +------------------------------------------------------------------------------+ | Install package build dependencies Thu, 09 Apr 2026 23:12:23 +0000 | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), cmake, googletest, libboost-dev, libeigen3-dev, libncl-dev, libsimde-dev, libsprng2-dev, libyaml-cpp-dev, mpi-default-dev, zlib1g-dev, help2man, time, chrpath, build-essential Filtered Build-Depends: debhelper-compat (= 13), cmake, googletest, libboost-dev, libeigen3-dev, libncl-dev, libsimde-dev, libsprng2-dev, libyaml-cpp-dev, mpi-default-dev, zlib1g-dev, help2man, time, chrpath, build-essential dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/build/reproducible-path/resolver-KvmB3y/apt_archive/sbuild-build-depends-main-dummy.deb'. Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies +------------------------------------------------------------------------------+ | Check architectures Thu, 09 Apr 2026 23:12:26 +0000 | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in any) +------------------------------------------------------------------------------+ | Build environment Thu, 09 Apr 2026 23:12:26 +0000 | +------------------------------------------------------------------------------+ Kernel: Linux 6.12.74+deb13+1-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.74-2 (2026-03-08) amd64 (x86_64) Toolchain package versions: binutils_2.46-3 dpkg-dev_1.23.7 g++-15_15.2.0-16 gcc-15_15.2.0-16 libc6-dev_2.42-14 libstdc++-15-dev_15.2.0-16 libstdc++6_16-20260322-1 linux-libc-dev_6.19.11-1 Package versions: adduser_3.155 autoconf_2.72-6 automake_1:1.18.1-4 autopoint_0.23.2-2 autotools-dev_20240727.1 base-files_14 base-passwd_3.6.8 bash_5.3-2 binutils_2.46-3 binutils-common_2.46-3 binutils-x86-64-linux-gnu_2.46-3 bsdextrautils_2.42-1 build-essential_12.12 bzip2_1.0.8-6+b1 chrpath_0.18-1 cmake_4.3.1-1 coreutils_9.10-1 cpp_4:15.2.0-5 cpp-15_15.2.0-16 cpp-15-x86-64-linux-gnu_15.2.0-16 cpp-x86-64-linux-gnu_4:15.2.0-5 dash_0.5.12-12 debconf_1.5.92 debhelper_13.31 debianutils_5.23.2 dh-autoreconf_22 dh-strip-nondeterminism_1.15.0-1 diffutils_1:3.12-1 dpkg_1.23.7 dpkg-dev_1.23.7 dwz_0.16-4 file_1:5.46-5+b1 findutils_4.10.0-3 g++_4:15.2.0-5 g++-15_15.2.0-16 g++-15-x86-64-linux-gnu_15.2.0-16 g++-x86-64-linux-gnu_4:15.2.0-5 gcc_4:15.2.0-5 gcc-15_15.2.0-16 gcc-15-base_15.2.0-16 gcc-15-x86-64-linux-gnu_15.2.0-16 gcc-16-base_16-20260322-1 gcc-x86-64-linux-gnu_4:15.2.0-5 gettext_0.23.2-2 gettext-base_0.23.2-2 gfortran-15_15.2.0-16 gfortran-15-x86-64-linux-gnu_15.2.0-16 googletest_1.17.0-1 grep_3.12-1 groff-base_1.23.0-10 gzip_1.13-1 help2man_1.49.3 hostname_3.25 ibverbs-providers_61.0-2 init-system-helpers_1.69 intltool-debian_0.35.0+20060710.6 libacl1_2.3.2-3 libamd-comgr3_7.0.2+dfsg-3 libamdhip64-6_6.4.3-5 libarchive-zip-perl_1.68-1 libarchive13t64_3.8.5-1 libasan8_16-20260322-1 libatomic1_16-20260322-1 libattr1_1:2.5.2-4 libaudit-common_1:4.1.2-1 libaudit1_1:4.1.2-1+b1 libbinutils_2.46-3 libblkid1_2.42-1 libboost-dev_1.90.0.1 libboost1.90-dev_1.90.0-6 libbrotli1_1.2.0-3 libbsd0_0.12.2-2+b1 libbz2-1.0_1.0.8-6+b1 libc-bin_2.42-14 libc-dev-bin_2.42-14 libc-gconv-modules-extra_2.42-14 libc6_2.42-14 libc6-dev_2.42-14 libcap-ng0_0.9.2-1 libcbor0.10_0.10.2-2.1 libcc1-0_16-20260322-1 libclang-common-21-dev_1:21.1.8-7 libcom-err2_1.47.4-1 libcrypt1_1:4.5.1-1 libctf-nobfd0_2.46-3 libctf0_2.46-3 libcurl4t64_8.19.0-3 libdb5.3t64_5.3.28+dfsg2-11 libdebconfclient0_0.282+b2 libdebhelper-perl_13.31 libdpkg-perl_1.23.7 libdrm-amdgpu1_2.4.131-1 libdrm-common_2.4.131-1 libdrm2_2.4.131-1 libedit2_3.1-20251016-1 libeigen3-dev_3.4.0-5 libelf1t64_0.194-4 libevent-2.1-7t64_2.1.12-stable-10+b2 libevent-core-2.1-7t64_2.1.12-stable-10+b2 libevent-dev_2.1.12-stable-10+b2 libevent-extra-2.1-7t64_2.1.12-stable-10+b2 libevent-openssl-2.1-7t64_2.1.12-stable-10+b2 libevent-pthreads-2.1-7t64_2.1.12-stable-10+b2 libexpat1_2.7.5-1 libfabric1_2.1.0-1.1+b1 libffi8_3.5.2-4 libfido2-1_1.16.0-2+b1 libfile-stripnondeterminism-perl_1.15.0-1 libfuse3-4_3.18.2-1 libgcc-15-dev_15.2.0-16 libgcc-s1_16-20260322-1 libgdbm-compat4t64_1.26-1+b1 libgdbm6t64_1.26-1+b1 libgfortran-15-dev_15.2.0-16 libgfortran5_16-20260322-1 libgmp-dev_2:6.3.0+dfsg-5+b1 libgmp10_2:6.3.0+dfsg-5+b1 libgmpxx4ldbl_2:6.3.0+dfsg-5+b1 libgnutls30t64_3.8.12-3 libgomp1_16-20260322-1 libgprofng0_2.46-3 libgssapi-krb5-2_1.22.1-2 libhogweed6t64_3.10.2-1 libhsa-runtime64-1_6.4.3+dfsg-5 libhwasan0_16-20260322-1 libhwloc-dev_2.13.0-2 libhwloc-plugins_2.13.0-2 libhwloc15_2.13.0-2 libibmad5_61.0-2 libibumad3_61.0-2 libibverbs-dev_61.0-2 libibverbs1_61.0-2 libidn2-0_2.3.8-4+b1 libisl23_0.27-2 libitm1_16-20260322-1 libjansson4_2.14-2+b4 libjs-jquery_3.7.1+dfsg+~3.5.33-1 libjs-jquery-ui_1.13.2+dfsg-1 libjsoncpp26_1.9.6-5 libk5crypto3_1.22.1-2 libkeyutils1_1.6.3-6+b1 libkrb5-3_1.22.1-2 libkrb5support0_1.22.1-2 libldap2_2.6.10+dfsg-1+b1 libllvm21_1:21.1.8-7 liblocale-gettext-perl_1.07-8 liblsan0_16-20260322-1 libltdl-dev_2.5.4-10 libltdl7_2.5.4-10 liblz4-1_1.10.0-8 liblzma5_5.8.2-2 libmagic-mgc_1:5.46-5+b1 libmagic1t64_1:5.46-5+b1 libmd0_1.1.0-2+b2 libmount1_2.42-1 libmpc3_1.3.1-3 libmpfr6_4.2.2-3 libmunge2_0.5.18-1 libncl-dev_2.1.21+git20210811.b1213a7-6+b1 libncl2_2.1.21+git20210811.b1213a7-6+b1 libncursesw6_6.6+20251231-1 libnettle8t64_3.10.2-1 libnghttp2-14_1.68.1-1 libnghttp3-9_1.15.0-1 libngtcp2-16_1.21.0-1 libngtcp2-crypto-ossl0_1.21.0-1 libnl-3-200_3.12.0-2 libnl-3-dev_3.12.0-2 libnl-route-3-200_3.12.0-2 libnl-route-3-dev_3.12.0-2 libnuma-dev_2.0.19-1+b1 libnuma1_2.0.19-1+b1 libopenmpi-dev_5.0.10-1 libopenmpi40_5.0.10-1 libp11-kit0_0.26.2-2 libpam-modules_1.7.0-5+b1 libpam-modules-bin_1.7.0-5+b1 libpam-runtime_1.7.0-5 libpam0g_1.7.0-5+b1 libpciaccess0_0.17-3+b4 libpcre2-8-0_10.46-1+b1 libperl5.40_5.40.1-7 libpipeline1_1.5.8-2 libpkgconf7_2.5.1-4 libpmix2t64_6.0.0+really5.0.9-3 libproc2-0_2:4.0.4-9+b1 libprrte-bin_3.0.13-3 libprrte-dev_3.0.13-3 libprrte3_3.0.13-3 libpsl5t64_0.21.5-1 libpsm2-2_11.2.185-2.1 libquadmath0_16-20260322-1 librdmacm1t64_61.0-2 librhash1_1.4.6-1.1 librtmp1_2.4+20151223.gitfa8646d.1-3+b1 libsasl2-2_2.1.28+dfsg1-11 libsasl2-modules-db_2.1.28+dfsg1-11 libseccomp2_2.6.0-2+b1 libselinux1_3.10-1 libsemanage-common_3.10-1 libsemanage2_3.10-1 libsepol2_3.10-1 libsframe3_2.46-3 libsimde-dev_0.8.4~rc3-5 libsmartcols1_2.42-1 libsprng2_2.0a-19 libsprng2-dev_2.0a-19 libssh2-1t64_1.11.1-2 libssl3t64_3.6.1-3 libstdc++-15-dev_15.2.0-16 libstdc++6_16-20260322-1 libsystemd0_260.1-1 libtasn1-6_4.21.0-2 libtinfo6_6.6+20251231-1 libtool_2.5.4-10 libtsan2_16-20260322-1 libubsan1_16-20260322-1 libucc1_1.7.0~rc1-1 libuchardet0_0.0.8-2+b1 libucx0_1.20.1~rc1-2 libudev1_260.1-1 libunistring5_1.4.2-1 libuuid1_2.42-1 libuv1t64_1.51.0-2+b1 libx11-6_2:1.8.13-1 libx11-data_2:1.8.13-1 libxau6_1:1.0.11-1+b1 libxcb1_1.17.0-2+b2 libxdmcp6_1:1.1.5-2 libxext6_2:1.3.4-1+b4 libxml2-16_2.15.2+dfsg-0.1 libxnvctrl0_535.171.04-1+b3 libxxhash0_0.8.3-2+b1 libyaml-cpp-dev_0.8.0+dfsg-9 libyaml-cpp0.8_0.8.0+dfsg-9 libz3-4_4.13.3-1+b1 libze1_1.28.2-2 libzstd1_1.5.7+dfsg-3+b1 linux-libc-dev_6.19.11-1 login.defs_1:4.19.3-2 m4_1.4.21-1 make_4.4.1-3 man-db_2.13.1-1 mawk_1.3.4.20260302-1 mpi-default-dev_1.20 ncurses-base_6.6+20251231-1 ncurses-bin_6.6+20251231-1 ocl-icd-libopencl1_2.3.4-1 openmpi-bin_5.0.10-1 openmpi-common_5.0.10-1 openssh-client_1:10.2p1-6 openssl-provider-legacy_3.6.1-3 passwd_1:4.19.3-2 patch_2.8-2 perl_5.40.1-7 perl-base_5.40.1-7 perl-modules-5.40_5.40.1-7 pkgconf_2.5.1-4 pkgconf-bin_2.5.1-4 po-debconf_1.0.22 procps_2:4.0.4-9+b1 rpcsvc-proto_1.4.3-1 sed_4.9-2 sensible-utils_0.0.26 systemd-standalone-sysusers_260.1-1 sysvinit-utils_3.18-1 tar_1.35+dfsg-4 time_1.9-0.4 util-linux_2.42-1 xz-utils_5.8.2-2 zlib1g_1:1.3.dfsg+really1.3.2-3 zlib1g-dev_1:1.3.dfsg+really1.3.2-3 +------------------------------------------------------------------------------+ | Build Thu, 09 Apr 2026 23:12:26 +0000 | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: iqtree Binary: iqtree Architecture: any Version: 3.0.1+dfsg-1 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille , Kevin Murray Homepage: http://www.iqtree.org Standards-Version: 4.7.4 Vcs-Browser: https://salsa.debian.org/med-team/iqtree Vcs-Git: https://salsa.debian.org/med-team/iqtree.git Testsuite: autopkgtest Testsuite-Triggers: time Build-Depends: debhelper-compat (= 13), cmake, googletest, libboost-dev, libeigen3-dev, libncl-dev, libsimde-dev, libsprng2-dev, libyaml-cpp-dev, mpi-default-dev, zlib1g-dev, help2man, time, chrpath Package-List: iqtree deb science optional arch=any Checksums-Sha1: 9cdba9e4c8189a0a0db5e73529d0ded4b8d7a16e 2553864 iqtree_3.0.1+dfsg.orig.tar.xz 456002c50591d93e77e00134f676275dc702f932 22472 iqtree_3.0.1+dfsg-1.debian.tar.xz Checksums-Sha256: c4cec0dfcd3d3fd8f47f4452c161b737bf0d994f701395043d8cbadb2e752c9e 2553864 iqtree_3.0.1+dfsg.orig.tar.xz 5a241fde6f480bbb6cba2b6484354c4007a42f47e35175ab6cf2989f6cef629a 22472 iqtree_3.0.1+dfsg-1.debian.tar.xz Files: d61ece4fbfb0b0e1fba10305514dd469 2553864 iqtree_3.0.1+dfsg.orig.tar.xz 6945d8937cc16f146eb46032acf49a70 22472 iqtree_3.0.1+dfsg-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAwFiEEck1gkzcRPHEFUNdHPCZ2P2xn5uIFAmnU9zoSHGNydXNvZUBk ZWJpYW4ub3JnAAoJEDwmdj9sZ+biSJkP+IOS3RIHYwRyuYSgau6HlZwLoe0TICZr 2QLaP1cRCEg5URy35/f/0qAiEL6lB4stfbpD2a5t3a2qj5itsjA5Uz3AruubnAhL oCh1Xg87j9rZtVBWZPG3cFc3y2lWpVH/6YA63BYtRSp1Af8Yo7yYLiAOiwdVfNBL 45M5GM4XmVyyk2GSSew4UKKsWNulq7OXwk6Yeuk0UQKWfq/bQbAWbxE8ducrUTvg lS4x1WLgAmI4OKfFFpJJuPcqEVGJ1wnjxBsAQbgAzf8EHoRd/LsipcWXvGyu4YRW mbUT4bH+SLIK63CPhLasIMFJsUcEJo19PNK1DlbpfyNOhxFnAUcL412/Jg/Xcu8w VfdjzzthnI0zJp2tjnsQTvx62z2CHIpeqJp2OtpOrky6CcESTTV/Ec5NEaiqH7yi uhPXfE3GbNikhw1nS4YmOwgA44D2maeUXBtjgu9pqZ7sDdfe47OUTxcRDNyiDrvd Ohz6D0T1X414XrMuEr8JwB1aJ7rHXnhFKQywhko6mHgktN/In1+nlIZYdrriEP/K NL8TDVU5tApsTKeTZmRasidhyjvRjd8MdRdIp6PYJLjWZUJFQ7LBG0XuIMa9uH/s s1axKe1XeIOFUuUMHLcEK1skcgJFUdu/8I3+Z5xscBHI8c+DEju69agWYV9ScxE6 L8AbKBkMuW0= =ZZ3b -----END PGP SIGNATURE----- dpkg-source: warning: cannot verify inline signature for ./iqtree_3.0.1+dfsg-1.dsc: missing OpenPGP keyrings dpkg-source: info: verifying ./iqtree_3.0.1+dfsg-1.dsc dpkg-source: info: skipping absent keyring /usr/share/keyrings/debian-keyring.pgp dpkg-source: info: skipping absent keyring /usr/share/keyrings/debian-tag2upload.pgp dpkg-source: info: skipping absent keyring /usr/share/keyrings/debian-nonupload.pgp dpkg-source: info: skipping absent keyring /usr/share/keyrings/debian-maintainers.pgp dpkg-source: info: extracting iqtree in /build/reproducible-path/iqtree-3.0.1+dfsg dpkg-source: info: unpacking iqtree_3.0.1+dfsg.orig.tar.xz dpkg-source: info: unpacking iqtree_3.0.1+dfsg-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying cmake-4.patch dpkg-source: info: applying packaged-libs dpkg-source: info: applying no-baseline-violations Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=parallel=6 HOME=/sbuild-nonexistent LANG=C.UTF-8 LC_ALL=C.UTF-8 LC_COLLATE=C.UTF-8 LC_CTYPE=C.UTF-8 LOGNAME=sbuild PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SHELL=/bin/sh SOURCE_DATE_EPOCH=1775562998 USER=sbuild dpkg-buildpackage ----------------- Command: dpkg-buildpackage --sanitize-env -us -uc -B dpkg-buildpackage: info: source package iqtree dpkg-buildpackage: info: source version 3.0.1+dfsg-1 dpkg-buildpackage: info: source distribution experimental dpkg-buildpackage: info: source changed by Michael R. Crusoe dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg' dh_auto_clean -Bbuild.omp dh_auto_clean -Bbuild.serial dh_auto_clean -Bbuild.mpi dh override_dh_auto_clean make[1]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg' dh_clean debian/rules binary-arch dh binary-arch dh_update_autotools_config -a dh_autoreconf -a debian/rules override_dh_auto_configure make[1]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg' dh_auto_configure -Bbuild.omp -- -DIQTREE_FLAGS="omp" cd build.omp && DEB_PYTHON_INSTALL_LAYOUT=deb PKG_CONFIG=/usr/bin/pkg-config cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DIQTREE_FLAGS=omp .. -- The C compiler identification is GNU 15.2.0 -- The CXX compiler identification is GNU 15.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done CMake Warning (dev) at CMakeLists.txt:94 (find_package): Policy CMP0167 is not set: The FindBoost module is removed. Run "cmake --help-policy CMP0167" for policy details. Use the cmake_policy command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. -- Found Boost: /usr/lib/x86_64-linux-gnu/cmake/Boost-1.90.0/BoostConfig.cmake (found version "1.90.0") -- Looking for gettimeofday -- Looking for gettimeofday - found -- Looking for getrusage -- Looking for getrusage - found -- Looking for GlobalMemoryStatusEx -- Looking for GlobalMemoryStatusEx - not found -- Looking for strndup -- Looking for strndup - found -- Looking for strtok_r -- Looking for strtok_r - found -- Looking for unistd.h -- Looking for unistd.h - found -- Looking for backtrace -- Looking for backtrace - found -- backtrace facility detected in default set of libraries -- Found Backtrace: /usr/include IQ-TREE flags : omp Build lib : OFF Integrate CMAPLE: ON Integrate CMAPLE_AA: OFF Target OS : Unix Compiler : GNU Compiler (gcc) Compiler version: 15.2.0 Target binary : 64-bit OpenMP : Yes MPI : NONE Vectorization : SSE3/AVX/AVX2 LINKER flags : -Wl,-z,relro -Wl,-z,now -rdynamic -Wl,--gc-sections -- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.3.2") Using system zlib CMake Deprecation Warning at cmaple/CMakeLists.txt:55 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. No clang-tidy (USE_CLANG_TIDY=OFF) Target OS : Unix OpenMP : Yes LINKER flags : -Wl,-z,relro -Wl,-z,now -rdynamic -rdynamic -Wl,--gc-sections Using system zlib -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE -- clang-tidy not found. -- Configuring done (1.2s) -- Generating done (0.1s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY -- Build files have been written to: /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp dh_auto_configure -Bbuild.serial -- -DIQTREE_FLAGS="" cd build.serial && DEB_PYTHON_INSTALL_LAYOUT=deb PKG_CONFIG=/usr/bin/pkg-config cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DIQTREE_FLAGS= .. -- The C compiler identification is GNU 15.2.0 -- The CXX compiler identification is GNU 15.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done CMake Warning (dev) at CMakeLists.txt:94 (find_package): Policy CMP0167 is not set: The FindBoost module is removed. Run "cmake --help-policy CMP0167" for policy details. Use the cmake_policy command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. -- Found Boost: /usr/lib/x86_64-linux-gnu/cmake/Boost-1.90.0/BoostConfig.cmake (found version "1.90.0") -- Looking for gettimeofday -- Looking for gettimeofday - found -- Looking for getrusage -- Looking for getrusage - found -- Looking for GlobalMemoryStatusEx -- Looking for GlobalMemoryStatusEx - not found -- Looking for strndup -- Looking for strndup - found -- Looking for strtok_r -- Looking for strtok_r - found -- Looking for unistd.h -- Looking for unistd.h - found -- Looking for backtrace -- Looking for backtrace - found -- backtrace facility detected in default set of libraries -- Found Backtrace: /usr/include IQ-TREE flags : Build lib : OFF Integrate CMAPLE: ON Integrate CMAPLE_AA: OFF Target OS : Unix Compiler : GNU Compiler (gcc) Compiler version: 15.2.0 Target binary : 64-bit OpenMP : Yes MPI : NONE Vectorization : SSE3/AVX/AVX2 LINKER flags : -Wl,-z,relro -Wl,-z,now -rdynamic -Wl,--gc-sections -- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.3.2") Using system zlib CMake Deprecation Warning at cmaple/CMakeLists.txt:55 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. No clang-tidy (USE_CLANG_TIDY=OFF) Target OS : Unix OpenMP : Yes LINKER flags : -Wl,-z,relro -Wl,-z,now -rdynamic -rdynamic -Wl,--gc-sections Using system zlib -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE -- clang-tidy not found. -- Configuring done (1.2s) -- Generating done (0.1s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY -- Build files have been written to: /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial dh_auto_configure -Bbuild.mpi -- -DIQTREE_FLAGS="mpi" cd build.mpi && DEB_PYTHON_INSTALL_LAYOUT=deb PKG_CONFIG=/usr/bin/pkg-config cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DIQTREE_FLAGS=mpi .. -- The C compiler identification is GNU 15.2.0 -- The CXX compiler identification is GNU 15.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done CMake Warning (dev) at CMakeLists.txt:94 (find_package): Policy CMP0167 is not set: The FindBoost module is removed. Run "cmake --help-policy CMP0167" for policy details. Use the cmake_policy command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. -- Found Boost: /usr/lib/x86_64-linux-gnu/cmake/Boost-1.90.0/BoostConfig.cmake (found version "1.90.0") -- Looking for gettimeofday -- Looking for gettimeofday - found -- Looking for getrusage -- Looking for getrusage - found -- Looking for GlobalMemoryStatusEx -- Looking for GlobalMemoryStatusEx - not found -- Looking for strndup -- Looking for strndup - found -- Looking for strtok_r -- Looking for strtok_r - found -- Looking for unistd.h -- Looking for unistd.h - found -- Looking for backtrace -- Looking for backtrace - found -- backtrace facility detected in default set of libraries -- Found Backtrace: /usr/include IQ-TREE flags : mpi Build lib : OFF Integrate CMAPLE: ON Integrate CMAPLE_AA: OFF Target OS : Unix Compiler : GNU Compiler (gcc) Compiler version: 15.2.0 Target binary : 64-bit -- Found MPI_C: /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so (found version "3.1") -- Found MPI_CXX: /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so (found version "3.1") -- Found MPI: TRUE (found version "3.1") OpenMP : Yes MPI : Yes Vectorization : SSE3/AVX/AVX2 LINKER flags : -Wl,-z,relro -Wl,-z,now -rdynamic -Wl,--gc-sections -- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.3.2") Using system zlib CMake Deprecation Warning at cmaple/CMakeLists.txt:55 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. No clang-tidy (USE_CLANG_TIDY=OFF) Target OS : Unix OpenMP : Yes LINKER flags : -Wl,-z,relro -Wl,-z,now -rdynamic -rdynamic -Wl,--gc-sections Using system zlib -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE -- clang-tidy not found. -- Configuring done (1.9s) -- Generating done (0.1s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY -- Build files have been written to: /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi dh override_dh_auto_configure make[1]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg' debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg' dh_auto_build -Bbuild.omp cd build.omp && make -j6 INSTALL="install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' /usr/bin/cmake -S/build/reproducible-path/iqtree-3.0.1+dfsg -B/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/CMakeFiles /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make -f CMakeFiles/kernelsse.dir/build.make CMakeFiles/kernelsse.dir/depend make -f CMakeFiles/kernelavx.dir/build.make CMakeFiles/kernelavx.dir/depend make -f CMakeFiles/kernelfma.dir/build.make CMakeFiles/kernelfma.dir/depend make -f lsd2/CMakeFiles/lsd2.dir/build.make lsd2/CMakeFiles/lsd2.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/CMakeFiles/kernelsse.dir/DependInfo.cmake "--color=" kernelsse make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/CMakeFiles/kernelavx.dir/DependInfo.cmake "--color=" kernelavx make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/CMakeFiles/kernelfma.dir/DependInfo.cmake "--color=" kernelfma make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2 /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/lsd2 /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/lsd2/CMakeFiles/lsd2.dir/DependInfo.cmake "--color=" lsd2 make -f booster/CMakeFiles/booster.dir/build.make booster/CMakeFiles/booster.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make -f pll/CMakeFiles/pllavx.dir/build.make pll/CMakeFiles/pllavx.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/booster /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/booster /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/booster/CMakeFiles/booster.dir/DependInfo.cmake "--color=" booster cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/pll /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pll /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pll/CMakeFiles/pllavx.dir/DependInfo.cmake "--color=" pllavx make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make -f CMakeFiles/kernelsse.dir/build.make CMakeFiles/kernelsse.dir/build make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make -f CMakeFiles/kernelavx.dir/build.make CMakeFiles/kernelavx.dir/build make -f CMakeFiles/kernelfma.dir/build.make CMakeFiles/kernelfma.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make -f lsd2/CMakeFiles/lsd2.dir/build.make lsd2/CMakeFiles/lsd2.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make -f booster/CMakeFiles/booster.dir/build.make booster/CMakeFiles/booster.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make -f pll/CMakeFiles/pllavx.dir/build.make pll/CMakeFiles/pllavx.dir/build [ 1%] Building CXX object CMakeFiles/kernelsse.dir/tree/phylokernelsse.cpp.o make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 1%] Building CXX object lsd2/CMakeFiles/lsd2.dir/src/confidence_interval.cpp.o [ 1%] Building CXX object CMakeFiles/kernelavx.dir/tree/phylotreeavx.cpp.o /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -D__AVX -mavx -fabi-version=0 -MD -MT CMakeFiles/kernelavx.dir/tree/phylotreeavx.cpp.o -MF CMakeFiles/kernelavx.dir/tree/phylotreeavx.cpp.o.d -o CMakeFiles/kernelavx.dir/tree/phylotreeavx.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylotreeavx.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/lsd2 && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT lsd2/CMakeFiles/lsd2.dir/src/confidence_interval.cpp.o -MF CMakeFiles/lsd2.dir/src/confidence_interval.cpp.o.d -o CMakeFiles/lsd2.dir/src/confidence_interval.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/confidence_interval.cpp /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT CMakeFiles/kernelsse.dir/tree/phylokernelsse.cpp.o -MF CMakeFiles/kernelsse.dir/tree/phylokernelsse.cpp.o.d -o CMakeFiles/kernelsse.dir/tree/phylokernelsse.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylokernelsse.cpp [ 1%] Building C object booster/CMakeFiles/booster.dir/bitset_index.c.o [ 1%] Building CXX object CMakeFiles/kernelfma.dir/tree/phylokernelfma.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/booster && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT booster/CMakeFiles/booster.dir/bitset_index.c.o -MF CMakeFiles/booster.dir/bitset_index.c.o.d -o CMakeFiles/booster.dir/bitset_index.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/booster/bitset_index.c /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -D__AVX -mavx -fabi-version=0 -mfma -MD -MT CMakeFiles/kernelfma.dir/tree/phylokernelfma.cpp.o -MF CMakeFiles/kernelfma.dir/tree/phylokernelfma.cpp.o.d -o CMakeFiles/kernelfma.dir/tree/phylokernelfma.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylokernelfma.cpp [ 1%] Building C object pll/CMakeFiles/pllavx.dir/avxLikelihood.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -D__AVX -mavx -fabi-version=0 -MD -MT pll/CMakeFiles/pllavx.dir/avxLikelihood.c.o -MF CMakeFiles/pllavx.dir/avxLikelihood.c.o.d -o CMakeFiles/pllavx.dir/avxLikelihood.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/avxLikelihood.c [ 1%] Building C object booster/CMakeFiles/booster.dir/hashmap.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/booster && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT booster/CMakeFiles/booster.dir/hashmap.c.o -MF CMakeFiles/booster.dir/hashmap.c.o.d -o CMakeFiles/booster.dir/hashmap.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/booster/hashmap.c [ 2%] Building C object booster/CMakeFiles/booster.dir/io.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/booster && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT booster/CMakeFiles/booster.dir/io.c.o -MF CMakeFiles/booster.dir/io.c.o.d -o CMakeFiles/booster.dir/io.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/booster/io.c [ 2%] Building C object booster/CMakeFiles/booster.dir/sort.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/booster && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT booster/CMakeFiles/booster.dir/sort.c.o -MF CMakeFiles/booster.dir/sort.c.o.d -o CMakeFiles/booster.dir/sort.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/booster/sort.c [ 2%] Building C object booster/CMakeFiles/booster.dir/tree.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/booster && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT booster/CMakeFiles/booster.dir/tree.c.o -MF CMakeFiles/booster.dir/tree.c.o.d -o CMakeFiles/booster.dir/tree.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/booster/tree.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/avxLikelihood.c:60: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 3%] Building C object booster/CMakeFiles/booster.dir/booster.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/booster && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT booster/CMakeFiles/booster.dir/booster.c.o -MF CMakeFiles/booster.dir/booster.c.o.d -o CMakeFiles/booster.dir/booster.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/booster/booster.c [ 3%] Building C object booster/CMakeFiles/booster.dir/hashtables_bfields.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/booster && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT booster/CMakeFiles/booster.dir/hashtables_bfields.c.o -MF CMakeFiles/booster.dir/hashtables_bfields.c.o.d -o CMakeFiles/booster.dir/hashtables_bfields.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/booster/hashtables_bfields.c [ 3%] Building C object booster/CMakeFiles/booster.dir/prng.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/booster && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT booster/CMakeFiles/booster.dir/prng.c.o -MF CMakeFiles/booster.dir/prng.c.o.d -o CMakeFiles/booster.dir/prng.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/booster/prng.c [ 4%] Building C object booster/CMakeFiles/booster.dir/stats.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/booster && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT booster/CMakeFiles/booster.dir/stats.c.o -MF CMakeFiles/booster.dir/stats.c.o.d -o CMakeFiles/booster.dir/stats.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/booster/stats.c [ 5%] Linking C static library libpllavx.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pll && /usr/bin/cmake -P CMakeFiles/pllavx.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pll && /usr/bin/cmake -E cmake_link_script CMakeFiles/pllavx.dir/link.txt --verbose=1 /usr/bin/ar qc libpllavx.a CMakeFiles/pllavx.dir/avxLikelihood.c.o /usr/bin/ranlib libpllavx.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 5%] Built target pllavx [ 5%] Building C object booster/CMakeFiles/booster.dir/tree_utils.c.o [ 5%] Building CXX object lsd2/CMakeFiles/lsd2.dir/src/dating.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/booster && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT booster/CMakeFiles/booster.dir/tree_utils.c.o -MF CMakeFiles/booster.dir/tree_utils.c.o.d -o CMakeFiles/booster.dir/tree_utils.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/booster/tree_utils.c cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/lsd2 && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT lsd2/CMakeFiles/lsd2.dir/src/dating.cpp.o -MF CMakeFiles/lsd2.dir/src/dating.cpp.o.d -o CMakeFiles/lsd2.dir/src/dating.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/dating.cpp [ 5%] Linking C static library libbooster.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/booster && /usr/bin/cmake -P CMakeFiles/booster.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/booster && /usr/bin/cmake -E cmake_link_script CMakeFiles/booster.dir/link.txt --verbose=1 /usr/bin/ar qc libbooster.a CMakeFiles/booster.dir/bitset_index.c.o CMakeFiles/booster.dir/hashmap.c.o CMakeFiles/booster.dir/io.c.o CMakeFiles/booster.dir/sort.c.o CMakeFiles/booster.dir/tree.c.o CMakeFiles/booster.dir/booster.c.o CMakeFiles/booster.dir/hashtables_bfields.c.o CMakeFiles/booster.dir/prng.c.o CMakeFiles/booster.dir/stats.c.o CMakeFiles/booster.dir/tree_utils.c.o /usr/bin/ranlib libbooster.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 5%] Built target booster make -f pll/CMakeFiles/pll.dir/build.make pll/CMakeFiles/pll.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/pll /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pll /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pll/CMakeFiles/pll.dir/DependInfo.cmake "--color=" pll make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make -f pll/CMakeFiles/pll.dir/build.make pll/CMakeFiles/pll.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 5%] Building C object pll/CMakeFiles/pll.dir/alignment.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/alignment.c.o -MF CMakeFiles/pll.dir/alignment.c.o.d -o CMakeFiles/pll.dir/alignment.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/alignment.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/alignment.c:40: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 6%] Building C object pll/CMakeFiles/pll.dir/bipartitionList.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/bipartitionList.c.o -MF CMakeFiles/pll.dir/bipartitionList.c.o.d -o CMakeFiles/pll.dir/bipartitionList.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/bipartitionList.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/bipartitionList.c:43: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/bipartitionList.c:29: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/bipartitionList.c: In function ‘insertHashRF’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/bipartitionList.c:326:3: note: in expansion of macro ‘rax_posix_memalign’ 326 | rax_posix_memalign ((void **)&(e->bitVector), PLL_BYTE_ALIGNMENT, (size_t)vectorLength * sizeof(unsigned int)); | ^~~~~~~~~~~~~~~~~~ [ 6%] Building C object pll/CMakeFiles/pll.dir/evaluateGenericSpecial.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/evaluateGenericSpecial.c.o -MF CMakeFiles/pll.dir/evaluateGenericSpecial.c.o.d -o CMakeFiles/pll.dir/evaluateGenericSpecial.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluateGenericSpecial.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluateGenericSpecial.c:42: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 6%] Building C object pll/CMakeFiles/pll.dir/evaluatePartialGenericSpecial.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/evaluatePartialGenericSpecial.c.o -MF CMakeFiles/pll.dir/evaluatePartialGenericSpecial.c.o.d -o CMakeFiles/pll.dir/evaluatePartialGenericSpecial.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluatePartialGenericSpecial.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluatePartialGenericSpecial.c:42: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluatePartialGenericSpecial.c:31: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluatePartialGenericSpecial.c: In function ‘evaluatePartialGTRCAT’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluatePartialGenericSpecial.c:1173:3: note: in expansion of macro ‘rax_posix_memalign’ 1173 | rax_posix_memalign ((void **) &lVector, PLL_BYTE_ALIGNMENT, sizeof(double) * 4 * mxtips); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluatePartialGenericSpecial.c: In function ‘evaluatePartialGTRGAMMA’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluatePartialGenericSpecial.c:1015:3: note: in expansion of macro ‘rax_posix_memalign’ 1015 | rax_posix_memalign ((void **)&lVector, PLL_BYTE_ALIGNMENT, sizeof(double) * 16 * mxtips); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluatePartialGenericSpecial.c: In function ‘evaluatePartialGTRCATPROT’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluatePartialGenericSpecial.c:1324:3: note: in expansion of macro ‘rax_posix_memalign’ 1324 | rax_posix_memalign ((void **)&lVector, PLL_BYTE_ALIGNMENT, sizeof(double) * 20 * mxtips); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluatePartialGenericSpecial.c: In function ‘evaluatePartialGTRGAMMAPROT’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluatePartialGenericSpecial.c:934:3: note: in expansion of macro ‘rax_posix_memalign’ 934 | rax_posix_memalign ((void **)&lVector, PLL_BYTE_ALIGNMENT, sizeof(double) * 80 * mxtips); | ^~~~~~~~~~~~~~~~~~ [ 7%] Building C object pll/CMakeFiles/pll.dir/fastDNAparsimony.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/fastDNAparsimony.c.o -MF CMakeFiles/pll.dir/fastDNAparsimony.c.o.d -o CMakeFiles/pll.dir/fastDNAparsimony.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/fastDNAparsimony.c [ 7%] Building C object pll/CMakeFiles/pll.dir/hardware.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/hardware.c.o -MF CMakeFiles/pll.dir/hardware.c.o.d -o CMakeFiles/pll.dir/hardware.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/hardware.c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/hardware.c: In function ‘pll_probe_cpu’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/hardware.c:97:9: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 97 | fscanf (fd, "%d", &id); | ^~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/fastDNAparsimony.c:115: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/fastDNAparsimony.c:29: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/fastDNAparsimony.c: In function ‘compressDNA’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/fastDNAparsimony.c:1701:7: note: in expansion of macro ‘rax_posix_memalign’ 1701 | rax_posix_memalign ((void **) &(pr->partitionData[model]->parsVect), PLL_BYTE_ALIGNMENT, (size_t)compressedEntriesPadded * states * totalNodes * sizeof(parsimonyNumber)); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/fastDNAparsimony.c:1777:3: note: in expansion of macro ‘rax_posix_memalign’ 1777 | rax_posix_memalign ((void **) &(tr->parsimonyScore), PLL_BYTE_ALIGNMENT, sizeof(unsigned int) * totalNodes); | ^~~~~~~~~~~~~~~~~~ [ 7%] Building C object pll/CMakeFiles/pll.dir/hash.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/hash.c.o -MF CMakeFiles/pll.dir/hash.c.o.d -o CMakeFiles/pll.dir/hash.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/hash.c [ 8%] Building CXX object lsd2/CMakeFiles/lsd2.dir/src/estimate_root.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/lsd2 && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT lsd2/CMakeFiles/lsd2.dir/src/estimate_root.cpp.o -MF CMakeFiles/lsd2.dir/src/estimate_root.cpp.o.d -o CMakeFiles/lsd2.dir/src/estimate_root.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/estimate_root.cpp [ 9%] Building C object pll/CMakeFiles/pll.dir/lexer.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/lexer.c.o -MF CMakeFiles/pll.dir/lexer.c.o.d -o CMakeFiles/pll.dir/lexer.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/lexer.c [ 9%] Building C object pll/CMakeFiles/pll.dir/makenewzGenericSpecial.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/makenewzGenericSpecial.c.o -MF CMakeFiles/pll.dir/makenewzGenericSpecial.c.o.d -o CMakeFiles/pll.dir/makenewzGenericSpecial.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/makenewzGenericSpecial.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/makenewzGenericSpecial.c:41: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/makenewzGenericSpecial.c:29: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/makenewzGenericSpecial.c: In function ‘coreGTRCAT’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/makenewzGenericSpecial.c:2686:3: note: in expansion of macro ‘rax_posix_memalign’ 2686 | rax_posix_memalign ((void **) &d_start, PLL_BYTE_ALIGNMENT, numberOfCategories * 4 * sizeof(double)); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/makenewzGenericSpecial.c: In function ‘coreGTRCATPROT’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/makenewzGenericSpecial.c:3061:3: note: in expansion of macro ‘rax_posix_memalign’ 3061 | rax_posix_memalign ((void **)&d_start, PLL_BYTE_ALIGNMENT, numberOfCategories * 20 * sizeof(double)); | ^~~~~~~~~~~~~~~~~~ [ 9%] Building C object pll/CMakeFiles/pll.dir/models.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/models.c.o -MF CMakeFiles/pll.dir/models.c.o.d -o CMakeFiles/pll.dir/models.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/models.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/models.c:47: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 10%] Building C object pll/CMakeFiles/pll.dir/newick.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/newick.c.o -MF CMakeFiles/pll.dir/newick.c.o.d -o CMakeFiles/pll.dir/newick.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newick.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newick.c:36: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 10%] Building C object pll/CMakeFiles/pll.dir/newviewGenericSpecial.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/newviewGenericSpecial.c.o -MF CMakeFiles/pll.dir/newviewGenericSpecial.c.o.d -o CMakeFiles/pll.dir/newviewGenericSpecial.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newviewGenericSpecial.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newviewGenericSpecial.c:46: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newviewGenericSpecial.c:32: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newviewGenericSpecial.c: In function ‘pllNewviewIterative’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newviewGenericSpecial.c:2766:13: note: in expansion of macro ‘rax_posix_memalign’ 2766 | rax_posix_memalign ((void **)&x3_start, PLL_BYTE_ALIGNMENT, requiredLength); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newviewGenericSpecial.c:2795:17: note: in expansion of macro ‘rax_posix_memalign’ 2795 | rax_posix_memalign ((void **)&ex3, PLL_BYTE_ALIGNMENT, requiredExpLength); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newviewGenericSpecial.c: In function ‘newviewAncestralIterative’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newviewGenericSpecial.c:3733:11: note: in expansion of macro ‘rax_posix_memalign’ 3733 | rax_posix_memalign ((void **)&diagptable, PLL_BYTE_ALIGNMENT, categories * states * states * sizeof(double)); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newviewGenericSpecial.c: In function ‘pllGetCLV’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newviewGenericSpecial.c:3803:3: note: in expansion of macro ‘rax_posix_memalign’ 3803 | rax_posix_memalign ((void **)&diagptable, PLL_BYTE_ALIGNMENT, categories * states * states * sizeof (double)); | ^~~~~~~~~~~~~~~~~~ [ 10%] Building C object pll/CMakeFiles/pll.dir/genericParallelization.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/genericParallelization.c.o -MF CMakeFiles/pll.dir/genericParallelization.c.o.d -o CMakeFiles/pll.dir/genericParallelization.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/genericParallelization.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/genericParallelization.c:43: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 11%] Building C object pll/CMakeFiles/pll.dir/optimizeModel.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/optimizeModel.c.o -MF CMakeFiles/pll.dir/optimizeModel.c.o.d -o CMakeFiles/pll.dir/optimizeModel.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/optimizeModel.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/optimizeModel.c:44: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 11%] Building C object pll/CMakeFiles/pll.dir/parsePartition.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/parsePartition.c.o -MF CMakeFiles/pll.dir/parsePartition.c.o.d -o CMakeFiles/pll.dir/parsePartition.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/parsePartition.c [ 11%] Building CXX object lsd2/CMakeFiles/lsd2.dir/src/lsd.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/lsd2 && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT lsd2/CMakeFiles/lsd2.dir/src/lsd.cpp.o -MF CMakeFiles/lsd2.dir/src/lsd.cpp.o.d -o CMakeFiles/lsd2.dir/src/lsd.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/lsd.cpp In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/parsePartition.c:42: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 11%] Building C object pll/CMakeFiles/pll.dir/queue.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/queue.c.o -MF CMakeFiles/pll.dir/queue.c.o.d -o CMakeFiles/pll.dir/queue.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/queue.c [ 12%] Building C object pll/CMakeFiles/pll.dir/randomTree.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/randomTree.c.o -MF CMakeFiles/pll.dir/randomTree.c.o.d -o CMakeFiles/pll.dir/randomTree.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/randomTree.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/randomTree.c:37: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 12%] Building C object pll/CMakeFiles/pll.dir/recom.c.o [ 12%] Building C object pll/CMakeFiles/pll.dir/restartHashTable.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/restartHashTable.c.o -MF CMakeFiles/pll.dir/restartHashTable.c.o.d -o CMakeFiles/pll.dir/restartHashTable.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/restartHashTable.c cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/recom.c.o -MF CMakeFiles/pll.dir/recom.c.o.d -o CMakeFiles/pll.dir/recom.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/recom.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/restartHashTable.c:41: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/recom.c:41: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 13%] Building C object pll/CMakeFiles/pll.dir/searchAlgo.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/searchAlgo.c.o -MF CMakeFiles/pll.dir/searchAlgo.c.o.d -o CMakeFiles/pll.dir/searchAlgo.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/searchAlgo.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/searchAlgo.c:45: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 13%] Building C object pll/CMakeFiles/pll.dir/ssort.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/ssort.c.o -MF CMakeFiles/pll.dir/ssort.c.o.d -o CMakeFiles/pll.dir/ssort.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/ssort.c [ 13%] Building C object pll/CMakeFiles/pll.dir/stack.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/stack.c.o -MF CMakeFiles/pll.dir/stack.c.o.d -o CMakeFiles/pll.dir/stack.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/stack.c [ 14%] Building C object pll/CMakeFiles/pll.dir/topologies.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/topologies.c.o -MF CMakeFiles/pll.dir/topologies.c.o.d -o CMakeFiles/pll.dir/topologies.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/topologies.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/topologies.c:42: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ make -f ncl/CMakeFiles/ncl.dir/build.make ncl/CMakeFiles/ncl.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/ncl /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/ncl /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/ncl/CMakeFiles/ncl.dir/DependInfo.cmake "--color=" ncl make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make -f ncl/CMakeFiles/ncl.dir/build.make ncl/CMakeFiles/ncl.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 14%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsassumptionsblock.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxsassumptionsblock.cpp.o -MF CMakeFiles/ncl.dir/nxsassumptionsblock.cpp.o.d -o CMakeFiles/ncl.dir/nxsassumptionsblock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxsassumptionsblock.cpp [ 14%] Building C object pll/CMakeFiles/pll.dir/trash.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/trash.c.o -MF CMakeFiles/pll.dir/trash.c.o.d -o CMakeFiles/pll.dir/trash.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/trash.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/trash.c:42: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 14%] Building C object pll/CMakeFiles/pll.dir/treeIO.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/treeIO.c.o -MF CMakeFiles/pll.dir/treeIO.c.o.d -o CMakeFiles/pll.dir/treeIO.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/treeIO.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/treeIO.c:41: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 14%] Building CXX object lsd2/CMakeFiles/lsd2.dir/src/options.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/lsd2 && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT lsd2/CMakeFiles/lsd2.dir/src/options.cpp.o -MF CMakeFiles/lsd2.dir/src/options.cpp.o.d -o CMakeFiles/lsd2.dir/src/options.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/options.cpp /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/options.cpp: In function ‘Pr* getInterface()’: /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/options.cpp:306:14: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 306 | fgets(letter,3,stdin); | ~~~~~^~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/options.cpp:311:22: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 311 | fgets( letter1, 3, stdin ); | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/options.cpp:338:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 338 | fgets( letter, 3, stdin ); | ~~~~~^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/options.cpp:342:14: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 342 | fgets( letter, 3, stdin ); | ~~~~~^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/options.cpp: In function ‘void setOptionsWithLetter(Pr*, char)’: /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/options.cpp:872:22: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 872 | fgets(letter,3,stdin); | ~~~~~^~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/options.cpp:877:30: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 877 | fgets( letter1, 3, stdin ); | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/options.cpp:923:22: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 923 | fgets( letter, 3, stdin ); | ~~~~~^~~~~~~~~~~~~~~~~~~~ [ 15%] Building C object pll/CMakeFiles/pll.dir/utils.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/utils.c.o -MF CMakeFiles/pll.dir/utils.c.o.d -o CMakeFiles/pll.dir/utils.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:67: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:44: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c: In function ‘initializePartitionData’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:596:7: note: in expansion of macro ‘rax_posix_memalign’ 596 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->left), PLL_BYTE_ALIGNMENT, (size_t)pl->leftLength * (maxCategories + 1) * sizeof(double)); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:597:7: note: in expansion of macro ‘rax_posix_memalign’ 597 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->right), PLL_BYTE_ALIGNMENT, (size_t)pl->rightLength * (maxCategories + 1) * sizeof(double)); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:599:7: note: in expansion of macro ‘rax_posix_memalign’ 599 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->EV), PLL_BYTE_ALIGNMENT, (size_t)pl->evLength * sizeof(double)); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:605:7: note: in expansion of macro ‘rax_posix_memalign’ 605 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->tipVector), PLL_BYTE_ALIGNMENT, (size_t)pl->tipVectorLength * sizeof(double)); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:617:15: note: in expansion of macro ‘rax_posix_memalign’ 617 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->EV_LG4[k]), PLL_BYTE_ALIGNMENT, pl->evLength * sizeof(double)); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:621:15: note: in expansion of macro ‘rax_posix_memalign’ 621 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->tipVector_LG4[k]), PLL_BYTE_ALIGNMENT, pl->tipVectorLength * sizeof(double)); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:687:7: note: in expansion of macro ‘rax_posix_memalign’ 687 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->sumBuffer), PLL_BYTE_ALIGNMENT, width * | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:694:7: note: in expansion of macro ‘rax_posix_memalign’ 694 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->perSiteLikelihoods), PLL_BYTE_ALIGNMENT, width * sizeof(double)); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:724:7: note: in expansion of macro ‘rax_posix_memalign’ 724 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->ancestralBuffer), PLL_BYTE_ALIGNMENT, width * | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:744:7: note: in expansion of macro ‘rax_posix_memalign’ 744 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->wgt), PLL_BYTE_ALIGNMENT, width * sizeof(int)); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:756:11: note: in expansion of macro ‘rax_posix_memalign’ 756 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->gapColumn),PLL_BYTE_ALIGNMENT, ((size_t)localTree->mxtips) * | ^~~~~~~~~~~~~~~~~~ [ 16%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsblock.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxsblock.cpp.o -MF CMakeFiles/ncl.dir/nxsblock.cpp.o.d -o CMakeFiles/ncl.dir/nxsblock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxsblock.cpp [ 17%] Building CXX object lsd2/CMakeFiles/lsd2.dir/src/outliers.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/lsd2 && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT lsd2/CMakeFiles/lsd2.dir/src/outliers.cpp.o -MF CMakeFiles/lsd2.dir/src/outliers.cpp.o.d -o CMakeFiles/lsd2.dir/src/outliers.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/outliers.cpp [ 17%] Building CXX object ncl/CMakeFiles/ncl.dir/nxscharactersblock.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxscharactersblock.cpp.o -MF CMakeFiles/ncl.dir/nxscharactersblock.cpp.o.d -o CMakeFiles/ncl.dir/nxscharactersblock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxscharactersblock.cpp [ 17%] Linking C static library libpll.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pll && /usr/bin/cmake -P CMakeFiles/pll.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pll && /usr/bin/cmake -E cmake_link_script CMakeFiles/pll.dir/link.txt --verbose=1 [ 17%] Building CXX object lsd2/CMakeFiles/lsd2.dir/src/readData.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/lsd2 && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT lsd2/CMakeFiles/lsd2.dir/src/readData.cpp.o -MF CMakeFiles/lsd2.dir/src/readData.cpp.o.d -o CMakeFiles/lsd2.dir/src/readData.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/readData.cpp /usr/bin/ar qc libpll.a CMakeFiles/pll.dir/alignment.c.o CMakeFiles/pll.dir/bipartitionList.c.o CMakeFiles/pll.dir/evaluateGenericSpecial.c.o CMakeFiles/pll.dir/evaluatePartialGenericSpecial.c.o CMakeFiles/pll.dir/fastDNAparsimony.c.o CMakeFiles/pll.dir/hardware.c.o CMakeFiles/pll.dir/hash.c.o CMakeFiles/pll.dir/lexer.c.o CMakeFiles/pll.dir/makenewzGenericSpecial.c.o CMakeFiles/pll.dir/models.c.o CMakeFiles/pll.dir/newick.c.o CMakeFiles/pll.dir/newviewGenericSpecial.c.o CMakeFiles/pll.dir/genericParallelization.c.o CMakeFiles/pll.dir/optimizeModel.c.o CMakeFiles/pll.dir/parsePartition.c.o CMakeFiles/pll.dir/queue.c.o CMakeFiles/pll.dir/randomTree.c.o CMakeFiles/pll.dir/recom.c.o CMakeFiles/pll.dir/restartHashTable.c.o CMakeFiles/pll.dir/searchAlgo.c.o CMakeFiles/pll.dir/ssort.c.o CMakeFiles/pll.dir/stack.c.o CMakeFiles/pll.dir/topologies.c.o CMakeFiles/pll.dir/trash.c.o CMakeFiles/pll.dir/treeIO.c.o CMakeFiles/pll.dir/utils.c.o /usr/bin/ranlib libpll.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 17%] Built target pll make -f nclextra/CMakeFiles/nclextra.dir/build.make nclextra/CMakeFiles/nclextra.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/nclextra /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/nclextra /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/nclextra/CMakeFiles/nclextra.dir/DependInfo.cmake "--color=" nclextra make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make -f nclextra/CMakeFiles/nclextra.dir/build.make nclextra/CMakeFiles/nclextra.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 18%] Building CXX object nclextra/CMakeFiles/nclextra.dir/mpdablock.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/nclextra && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT nclextra/CMakeFiles/nclextra.dir/mpdablock.cpp.o -MF CMakeFiles/nclextra.dir/mpdablock.cpp.o.d -o CMakeFiles/nclextra.dir/mpdablock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/nclextra/mpdablock.cpp [ 18%] Building CXX object nclextra/CMakeFiles/nclextra.dir/msetsblock.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/nclextra && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT nclextra/CMakeFiles/nclextra.dir/msetsblock.cpp.o -MF CMakeFiles/nclextra.dir/msetsblock.cpp.o.d -o CMakeFiles/nclextra.dir/msetsblock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/nclextra/msetsblock.cpp [ 18%] Building CXX object lsd2/CMakeFiles/lsd2.dir/src/utils.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/lsd2 && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT lsd2/CMakeFiles/lsd2.dir/src/utils.cpp.o -MF CMakeFiles/lsd2.dir/src/utils.cpp.o.d -o CMakeFiles/lsd2.dir/src/utils.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/utils.cpp [ 18%] Building CXX object nclextra/CMakeFiles/nclextra.dir/msplitsblock.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/nclextra && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT nclextra/CMakeFiles/nclextra.dir/msplitsblock.cpp.o -MF CMakeFiles/nclextra.dir/msplitsblock.cpp.o.d -o CMakeFiles/nclextra.dir/msplitsblock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/nclextra/msplitsblock.cpp [ 18%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdatablock.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxsdatablock.cpp.o -MF CMakeFiles/ncl.dir/nxsdatablock.cpp.o.d -o CMakeFiles/ncl.dir/nxsdatablock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxsdatablock.cpp [ 20%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdiscretedatum.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxsdiscretedatum.cpp.o -MF CMakeFiles/ncl.dir/nxsdiscretedatum.cpp.o.d -o CMakeFiles/ncl.dir/nxsdiscretedatum.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxsdiscretedatum.cpp [ 20%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdiscretematrix.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxsdiscretematrix.cpp.o -MF CMakeFiles/ncl.dir/nxsdiscretematrix.cpp.o.d -o CMakeFiles/ncl.dir/nxsdiscretematrix.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxsdiscretematrix.cpp [ 21%] Building CXX object nclextra/CMakeFiles/nclextra.dir/modelsblock.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/nclextra && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT nclextra/CMakeFiles/nclextra.dir/modelsblock.cpp.o -MF CMakeFiles/nclextra.dir/modelsblock.cpp.o.d -o CMakeFiles/nclextra.dir/modelsblock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/nclextra/modelsblock.cpp [ 22%] Linking CXX static library liblsd2.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/lsd2 && /usr/bin/cmake -P CMakeFiles/lsd2.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/lsd2 && /usr/bin/cmake -E cmake_link_script CMakeFiles/lsd2.dir/link.txt --verbose=1 [ 22%] Linking CXX static library libkernelfma.a /usr/bin/cmake -P CMakeFiles/kernelfma.dir/cmake_clean_target.cmake /usr/bin/cmake -E cmake_link_script 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-I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxsdistancedatum.cpp.o -MF CMakeFiles/ncl.dir/nxsdistancedatum.cpp.o.d -o CMakeFiles/ncl.dir/nxsdistancedatum.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxsdistancedatum.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/nclextra && /usr/bin/cmake -P CMakeFiles/nclextra.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/nclextra && /usr/bin/cmake -E cmake_link_script CMakeFiles/nclextra.dir/link.txt --verbose=1 [ 23%] Linking CXX static library libkernelavx.a /usr/bin/cmake -P CMakeFiles/kernelavx.dir/cmake_clean_target.cmake /usr/bin/cmake -E cmake_link_script CMakeFiles/kernelavx.dir/link.txt --verbose=1 /usr/bin/ar qc libnclextra.a CMakeFiles/nclextra.dir/mpdablock.cpp.o CMakeFiles/nclextra.dir/msetsblock.cpp.o CMakeFiles/nclextra.dir/msplitsblock.cpp.o CMakeFiles/nclextra.dir/modelsblock.cpp.o /usr/bin/ranlib libnclextra.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 23%] Built target nclextra /usr/bin/ar qc libkernelavx.a CMakeFiles/kernelavx.dir/tree/phylotreeavx.cpp.o /usr/bin/ranlib libkernelavx.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' /usr/bin/ar qc liblsd2.a CMakeFiles/lsd2.dir/src/confidence_interval.cpp.o CMakeFiles/lsd2.dir/src/dating.cpp.o CMakeFiles/lsd2.dir/src/estimate_root.cpp.o CMakeFiles/lsd2.dir/src/lsd.cpp.o CMakeFiles/lsd2.dir/src/options.cpp.o CMakeFiles/lsd2.dir/src/outliers.cpp.o CMakeFiles/lsd2.dir/src/readData.cpp.o CMakeFiles/lsd2.dir/src/utils.cpp.o /usr/bin/ranlib liblsd2.a make -f sprng/CMakeFiles/sprng.dir/build.make sprng/CMakeFiles/sprng.dir/depend make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' /usr/bin/ar qc libkernelsse.a CMakeFiles/kernelsse.dir/tree/phylokernelsse.cpp.o /usr/bin/ranlib libkernelsse.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' /usr/bin/ar qc libkernelfma.a CMakeFiles/kernelfma.dir/tree/phylokernelfma.cpp.o /usr/bin/ranlib libkernelfma.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/sprng /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/sprng /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/sprng/CMakeFiles/sprng.dir/DependInfo.cmake "--color=" sprng make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 23%] Built target lsd2 make -f lbfgsb/CMakeFiles/lbfgsb.dir/build.make lbfgsb/CMakeFiles/lbfgsb.dir/depend make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make -f sprng/CMakeFiles/sprng.dir/build.make sprng/CMakeFiles/sprng.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 23%] Built target kernelavx make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/lbfgsb /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/lbfgsb /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/lbfgsb/CMakeFiles/lbfgsb.dir/DependInfo.cmake "--color=" lbfgsb [ 23%] Built target kernelfma [ 23%] Built target kernelsse make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/pda /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pda /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pda/CMakeFiles/pda.dir/DependInfo.cmake "--color=" pda make -f whtest/CMakeFiles/whtest.dir/build.make whtest/CMakeFiles/whtest.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/whtest /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/whtest /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/whtest/CMakeFiles/whtest.dir/DependInfo.cmake "--color=" whtest [ 24%] Building C object sprng/CMakeFiles/sprng.dir/lcg64.c.o [ 25%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdistancesblock.cpp.o make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/sprng && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT sprng/CMakeFiles/sprng.dir/lcg64.c.o -MF CMakeFiles/sprng.dir/lcg64.c.o.d -o CMakeFiles/sprng.dir/lcg64.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/sprng/lcg64.c make -f lbfgsb/CMakeFiles/lbfgsb.dir/build.make lbfgsb/CMakeFiles/lbfgsb.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxsdistancesblock.cpp.o -MF CMakeFiles/ncl.dir/nxsdistancesblock.cpp.o.d -o CMakeFiles/ncl.dir/nxsdistancesblock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxsdistancesblock.cpp [ 25%] Building CXX object pda/CMakeFiles/pda.dir/circularnetwork.cpp.o make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make -f whtest/CMakeFiles/whtest.dir/build.make whtest/CMakeFiles/whtest.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 25%] Building CXX object lbfgsb/CMakeFiles/lbfgsb.dir/lbfgsb_new.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/circularnetwork.cpp.o -MF CMakeFiles/pda.dir/circularnetwork.cpp.o.d -o CMakeFiles/pda.dir/circularnetwork.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/circularnetwork.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/lbfgsb && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT lbfgsb/CMakeFiles/lbfgsb.dir/lbfgsb_new.cpp.o -MF CMakeFiles/lbfgsb.dir/lbfgsb_new.cpp.o.d -o CMakeFiles/lbfgsb.dir/lbfgsb_new.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/lbfgsb/lbfgsb_new.cpp [ 25%] Building C object whtest/CMakeFiles/whtest.dir/eigen.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/whtest && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT whtest/CMakeFiles/whtest.dir/eigen.c.o -MF CMakeFiles/whtest.dir/eigen.c.o.d -o CMakeFiles/whtest.dir/eigen.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/whtest/eigen.c [ 26%] Building CXX object pda/CMakeFiles/pda.dir/greedy.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/greedy.cpp.o -MF CMakeFiles/pda.dir/greedy.cpp.o.d -o CMakeFiles/pda.dir/greedy.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/greedy.cpp [ 26%] Building C object sprng/CMakeFiles/sprng.dir/makeseed.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/sprng && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT sprng/CMakeFiles/sprng.dir/makeseed.c.o -MF CMakeFiles/sprng.dir/makeseed.c.o.d -o CMakeFiles/sprng.dir/makeseed.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/sprng/makeseed.c [ 26%] Building C object sprng/CMakeFiles/sprng.dir/memory.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/sprng && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT sprng/CMakeFiles/sprng.dir/memory.c.o -MF CMakeFiles/sprng.dir/memory.c.o.d -o CMakeFiles/sprng.dir/memory.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/sprng/memory.c [ 27%] Building C object sprng/CMakeFiles/sprng.dir/store.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/sprng && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT sprng/CMakeFiles/sprng.dir/store.c.o -MF CMakeFiles/sprng.dir/store.c.o.d -o CMakeFiles/sprng.dir/store.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/sprng/store.c [ 27%] Building C object sprng/CMakeFiles/sprng.dir/primes-lcg64.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/sprng && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT sprng/CMakeFiles/sprng.dir/primes-lcg64.c.o -MF CMakeFiles/sprng.dir/primes-lcg64.c.o.d -o CMakeFiles/sprng.dir/primes-lcg64.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/sprng/primes-lcg64.c [ 27%] Building C object sprng/CMakeFiles/sprng.dir/checkid.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/sprng && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT sprng/CMakeFiles/sprng.dir/checkid.c.o -MF CMakeFiles/sprng.dir/checkid.c.o.d -o CMakeFiles/sprng.dir/checkid.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/sprng/checkid.c [ 28%] Linking C static library libsprng.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/sprng && /usr/bin/cmake -P CMakeFiles/sprng.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/sprng && /usr/bin/cmake -E cmake_link_script CMakeFiles/sprng.dir/link.txt --verbose=1 /usr/bin/ar qc libsprng.a CMakeFiles/sprng.dir/lcg64.c.o CMakeFiles/sprng.dir/makeseed.c.o CMakeFiles/sprng.dir/memory.c.o CMakeFiles/sprng.dir/store.c.o "CMakeFiles/sprng.dir/primes-lcg64.c.o" CMakeFiles/sprng.dir/checkid.c.o /usr/bin/ranlib libsprng.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 28%] Built target sprng [ 28%] Building C object whtest/CMakeFiles/whtest.dir/eigen_sym.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/whtest && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT whtest/CMakeFiles/whtest.dir/eigen_sym.c.o -MF CMakeFiles/whtest.dir/eigen_sym.c.o.d -o CMakeFiles/whtest.dir/eigen_sym.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/whtest/eigen_sym.c [ 28%] Building CXX object pda/CMakeFiles/pda.dir/gurobiwrapper.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/gurobiwrapper.cpp.o -MF CMakeFiles/pda.dir/gurobiwrapper.cpp.o.d -o CMakeFiles/pda.dir/gurobiwrapper.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/gurobiwrapper.cpp [ 29%] Building C object whtest/CMakeFiles/whtest.dir/random.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/whtest && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT whtest/CMakeFiles/whtest.dir/random.c.o -MF CMakeFiles/whtest.dir/random.c.o.d -o CMakeFiles/whtest.dir/random.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/whtest/random.c [ 29%] Building C object whtest/CMakeFiles/whtest.dir/weisslambda.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/whtest && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT whtest/CMakeFiles/whtest.dir/weisslambda.c.o -MF CMakeFiles/whtest.dir/weisslambda.c.o.d -o CMakeFiles/whtest.dir/weisslambda.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/whtest/weisslambda.c [ 29%] Building C object whtest/CMakeFiles/whtest.dir/weisslambda_sub.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/whtest && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT whtest/CMakeFiles/whtest.dir/weisslambda_sub.c.o -MF CMakeFiles/whtest.dir/weisslambda_sub.c.o.d -o CMakeFiles/whtest.dir/weisslambda_sub.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/whtest/weisslambda_sub.c [ 30%] Building C object whtest/CMakeFiles/whtest.dir/whtest.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/whtest && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT whtest/CMakeFiles/whtest.dir/whtest.c.o -MF CMakeFiles/whtest.dir/whtest.c.o.d -o CMakeFiles/whtest.dir/whtest.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/whtest/whtest.c [ 30%] Building C object whtest/CMakeFiles/whtest.dir/whtest_sub.c.o [ 30%] Building CXX object pda/CMakeFiles/pda.dir/hashsplitset.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/hashsplitset.cpp.o -MF CMakeFiles/pda.dir/hashsplitset.cpp.o.d -o CMakeFiles/pda.dir/hashsplitset.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/hashsplitset.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/whtest && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT whtest/CMakeFiles/whtest.dir/whtest_sub.c.o -MF CMakeFiles/whtest.dir/whtest_sub.c.o.d -o CMakeFiles/whtest.dir/whtest_sub.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/whtest/whtest_sub.c /build/reproducible-path/iqtree-3.0.1+dfsg/whtest/whtest_sub.c: In function ‘ReadData’: /build/reproducible-path/iqtree-3.0.1+dfsg/whtest/whtest_sub.c:205:25: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 205 | fscanf ( ifp, "%c", &c ); | ^~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/whtest/whtest_sub.c:221:25: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 221 | fscanf ( ifp, "%c", &c ); | ^~~~~~~~~~~~~~~~~~~~~~~~ [ 30%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsemptyblock.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxsemptyblock.cpp.o -MF CMakeFiles/ncl.dir/nxsemptyblock.cpp.o.d -o CMakeFiles/ncl.dir/nxsemptyblock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxsemptyblock.cpp [ 31%] Building CXX object pda/CMakeFiles/pda.dir/pdnetwork.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/pdnetwork.cpp.o -MF CMakeFiles/pda.dir/pdnetwork.cpp.o.d -o CMakeFiles/pda.dir/pdnetwork.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/pdnetwork.cpp [ 32%] Linking CXX static library liblbfgsb.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/lbfgsb && /usr/bin/cmake -P CMakeFiles/lbfgsb.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/lbfgsb && /usr/bin/cmake -E cmake_link_script CMakeFiles/lbfgsb.dir/link.txt --verbose=1 /usr/bin/ar qc liblbfgsb.a CMakeFiles/lbfgsb.dir/lbfgsb_new.cpp.o /usr/bin/ranlib liblbfgsb.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 32%] Built target lbfgsb [ 32%] Building CXX object pda/CMakeFiles/pda.dir/pruning.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/pruning.cpp.o -MF CMakeFiles/pda.dir/pruning.cpp.o.d -o CMakeFiles/pda.dir/pruning.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/pruning.cpp [ 32%] Building CXX object whtest/CMakeFiles/whtest.dir/whtest_wrapper.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/whtest && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT whtest/CMakeFiles/whtest.dir/whtest_wrapper.cpp.o -MF CMakeFiles/whtest.dir/whtest_wrapper.cpp.o.d -o CMakeFiles/whtest.dir/whtest_wrapper.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/whtest/whtest_wrapper.cpp [ 32%] Building CXX object pda/CMakeFiles/pda.dir/split.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/split.cpp.o -MF CMakeFiles/pda.dir/split.cpp.o.d -o CMakeFiles/pda.dir/split.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/split.cpp [ 32%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsexception.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxsexception.cpp.o -MF CMakeFiles/ncl.dir/nxsexception.cpp.o.d -o CMakeFiles/ncl.dir/nxsexception.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxsexception.cpp [ 33%] Building CXX object pda/CMakeFiles/pda.dir/splitgraph.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/splitgraph.cpp.o -MF CMakeFiles/pda.dir/splitgraph.cpp.o.d -o CMakeFiles/pda.dir/splitgraph.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/splitgraph.cpp [ 34%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsreader.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxsreader.cpp.o -MF CMakeFiles/ncl.dir/nxsreader.cpp.o.d -o CMakeFiles/ncl.dir/nxsreader.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxsreader.cpp [ 34%] Building CXX object ncl/CMakeFiles/ncl.dir/nxssetreader.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxssetreader.cpp.o -MF CMakeFiles/ncl.dir/nxssetreader.cpp.o.d -o CMakeFiles/ncl.dir/nxssetreader.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxssetreader.cpp [ 35%] Linking CXX static library libwhtest.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/whtest && /usr/bin/cmake -P CMakeFiles/whtest.dir/cmake_clean_target.cmake [ 35%] Building CXX object pda/CMakeFiles/pda.dir/splitset.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/splitset.cpp.o -MF CMakeFiles/pda.dir/splitset.cpp.o.d -o CMakeFiles/pda.dir/splitset.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/splitset.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/whtest && /usr/bin/cmake -E cmake_link_script CMakeFiles/whtest.dir/link.txt --verbose=1 /usr/bin/ar qc libwhtest.a CMakeFiles/whtest.dir/eigen.c.o CMakeFiles/whtest.dir/eigen_sym.c.o CMakeFiles/whtest.dir/random.c.o CMakeFiles/whtest.dir/weisslambda.c.o CMakeFiles/whtest.dir/weisslambda_sub.c.o CMakeFiles/whtest.dir/whtest.c.o CMakeFiles/whtest.dir/whtest_sub.c.o CMakeFiles/whtest.dir/whtest_wrapper.cpp.o /usr/bin/ranlib libwhtest.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 35%] Built target whtest [ 35%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsstring.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxsstring.cpp.o -MF CMakeFiles/ncl.dir/nxsstring.cpp.o.d -o CMakeFiles/ncl.dir/nxsstring.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxsstring.cpp [ 35%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstaxablock.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxstaxablock.cpp.o -MF CMakeFiles/ncl.dir/nxstaxablock.cpp.o.d -o CMakeFiles/ncl.dir/nxstaxablock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxstaxablock.cpp [ 35%] Building C object pda/CMakeFiles/pda.dir/lpwrapper.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pda && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/lpwrapper.c.o -MF CMakeFiles/pda.dir/lpwrapper.c.o.d -o CMakeFiles/pda.dir/lpwrapper.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/lpwrapper.c [ 36%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstoken.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxstoken.cpp.o -MF CMakeFiles/ncl.dir/nxstoken.cpp.o.d -o CMakeFiles/ncl.dir/nxstoken.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxstoken.cpp [ 37%] Building CXX object pda/CMakeFiles/pda.dir/ecopd.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/ecopd.cpp.o -MF CMakeFiles/pda.dir/ecopd.cpp.o.d -o CMakeFiles/pda.dir/ecopd.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/ecopd.cpp [ 37%] Building CXX object pda/CMakeFiles/pda.dir/graph.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/graph.cpp.o -MF CMakeFiles/pda.dir/graph.cpp.o.d -o CMakeFiles/pda.dir/graph.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/graph.cpp [ 37%] Building CXX object pda/CMakeFiles/pda.dir/pdtree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/pdtree.cpp.o -MF CMakeFiles/pda.dir/pdtree.cpp.o.d -o CMakeFiles/pda.dir/pdtree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/pdtree.cpp [ 38%] Building CXX object pda/CMakeFiles/pda.dir/pdtreeset.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/pdtreeset.cpp.o -MF CMakeFiles/pda.dir/pdtreeset.cpp.o.d -o CMakeFiles/pda.dir/pdtreeset.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/pdtreeset.cpp [ 38%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstreesblock.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxstreesblock.cpp.o -MF CMakeFiles/ncl.dir/nxstreesblock.cpp.o.d -o CMakeFiles/ncl.dir/nxstreesblock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxstreesblock.cpp [ 38%] Building CXX object pda/CMakeFiles/pda.dir/ecopdmtreeset.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/ecopdmtreeset.cpp.o -MF CMakeFiles/pda.dir/ecopdmtreeset.cpp.o.d -o CMakeFiles/pda.dir/ecopdmtreeset.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/ecopdmtreeset.cpp make -f vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/vectorclass /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/vectorclass /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/vectorclass/CMakeFiles/vectorclass.dir/DependInfo.cmake "--color=" vectorclass make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make -f vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 38%] Building CXX object vectorclass/CMakeFiles/vectorclass.dir/instrset_detect.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/vectorclass && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT vectorclass/CMakeFiles/vectorclass.dir/instrset_detect.cpp.o -MF CMakeFiles/vectorclass.dir/instrset_detect.cpp.o.d -o CMakeFiles/vectorclass.dir/instrset_detect.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/vectorclass/instrset_detect.cpp [ 40%] Linking CXX static library libvectorclass.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/vectorclass && /usr/bin/cmake -P CMakeFiles/vectorclass.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/vectorclass && /usr/bin/cmake -E cmake_link_script CMakeFiles/vectorclass.dir/link.txt --verbose=1 /usr/bin/ar qc libvectorclass.a CMakeFiles/vectorclass.dir/instrset_detect.cpp.o /usr/bin/ranlib libvectorclass.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 40%] Built target vectorclass make -f gsl/CMakeFiles/gsl.dir/build.make gsl/CMakeFiles/gsl.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/gsl /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/gsl /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/gsl/CMakeFiles/gsl.dir/DependInfo.cmake "--color=" gsl make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make -f gsl/CMakeFiles/gsl.dir/build.make gsl/CMakeFiles/gsl.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 40%] Building CXX object gsl/CMakeFiles/gsl.dir/binomial_tpe.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/gsl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT gsl/CMakeFiles/gsl.dir/binomial_tpe.cpp.o -MF CMakeFiles/gsl.dir/binomial_tpe.cpp.o.d -o CMakeFiles/gsl.dir/binomial_tpe.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/gsl/binomial_tpe.cpp [ 41%] Building CXX object gsl/CMakeFiles/gsl.dir/multinomial.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/gsl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT gsl/CMakeFiles/gsl.dir/multinomial.cpp.o -MF CMakeFiles/gsl.dir/multinomial.cpp.o.d -o CMakeFiles/gsl.dir/multinomial.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/gsl/multinomial.cpp [ 41%] Building CXX object gsl/CMakeFiles/gsl.dir/pow_int.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/gsl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT gsl/CMakeFiles/gsl.dir/pow_int.cpp.o -MF CMakeFiles/gsl.dir/pow_int.cpp.o.d -o CMakeFiles/gsl.dir/pow_int.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/gsl/pow_int.cpp [ 41%] Building CXX object gsl/CMakeFiles/gsl.dir/gauss.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/gsl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT gsl/CMakeFiles/gsl.dir/gauss.cpp.o -MF CMakeFiles/gsl.dir/gauss.cpp.o.d -o CMakeFiles/gsl.dir/gauss.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/gsl/gauss.cpp [ 42%] Building CXX object gsl/CMakeFiles/gsl.dir/gaussinv.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/gsl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT gsl/CMakeFiles/gsl.dir/gaussinv.cpp.o -MF CMakeFiles/gsl.dir/gaussinv.cpp.o.d -o CMakeFiles/gsl.dir/gaussinv.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/gsl/gaussinv.cpp make -f cmaple/utils/CMakeFiles/cmaple_utils.dir/build.make cmaple/utils/CMakeFiles/cmaple_utils.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/utils /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/utils /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/utils/CMakeFiles/cmaple_utils.dir/DependInfo.cmake "--color=" cmaple_utils make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make -f cmaple/utils/CMakeFiles/cmaple_utils.dir/build.make cmaple/utils/CMakeFiles/cmaple_utils.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 42%] Building CXX object cmaple/utils/CMakeFiles/cmaple_utils.dir/tools.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/utils && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/utils/CMakeFiles/cmaple_utils.dir/tools.cpp.o -MF CMakeFiles/cmaple_utils.dir/tools.cpp.o.d -o CMakeFiles/cmaple_utils.dir/tools.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/utils/tools.cpp [ 42%] Building CXX object cmaple/utils/CMakeFiles/cmaple_utils.dir/operatingsystem.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/utils && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/utils/CMakeFiles/cmaple_utils.dir/operatingsystem.cpp.o -MF CMakeFiles/cmaple_utils.dir/operatingsystem.cpp.o.d -o CMakeFiles/cmaple_utils.dir/operatingsystem.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/utils/operatingsystem.cpp [ 43%] Building CXX object cmaple/utils/CMakeFiles/cmaple_utils.dir/gzstream.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/utils && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/utils/CMakeFiles/cmaple_utils.dir/gzstream.cpp.o -MF CMakeFiles/cmaple_utils.dir/gzstream.cpp.o.d -o CMakeFiles/cmaple_utils.dir/gzstream.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/utils/gzstream.cpp [ 43%] Building CXX object gsl/CMakeFiles/gsl.dir/gausspdf.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/gsl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT gsl/CMakeFiles/gsl.dir/gausspdf.cpp.o -MF CMakeFiles/gsl.dir/gausspdf.cpp.o.d -o CMakeFiles/gsl.dir/gausspdf.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/gsl/gausspdf.cpp [ 43%] Linking CXX static library libncl.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/ncl && /usr/bin/cmake -P CMakeFiles/ncl.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/ncl && /usr/bin/cmake -E cmake_link_script CMakeFiles/ncl.dir/link.txt --verbose=1 /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/utils/tools.cpp:44:23: warning: macro ‘__DATE__’ might prevent reproducible builds [-Wdate-time] 44 | out << " built " << __DATE__ << std::endl; | ^~~~~~~~ /usr/bin/ar qc libncl.a CMakeFiles/ncl.dir/nxsassumptionsblock.cpp.o CMakeFiles/ncl.dir/nxsblock.cpp.o CMakeFiles/ncl.dir/nxscharactersblock.cpp.o CMakeFiles/ncl.dir/nxsdatablock.cpp.o CMakeFiles/ncl.dir/nxsdiscretedatum.cpp.o CMakeFiles/ncl.dir/nxsdiscretematrix.cpp.o CMakeFiles/ncl.dir/nxsdistancedatum.cpp.o CMakeFiles/ncl.dir/nxsdistancesblock.cpp.o CMakeFiles/ncl.dir/nxsemptyblock.cpp.o CMakeFiles/ncl.dir/nxsexception.cpp.o CMakeFiles/ncl.dir/nxsreader.cpp.o CMakeFiles/ncl.dir/nxssetreader.cpp.o CMakeFiles/ncl.dir/nxsstring.cpp.o CMakeFiles/ncl.dir/nxstaxablock.cpp.o CMakeFiles/ncl.dir/nxstoken.cpp.o CMakeFiles/ncl.dir/nxstreesblock.cpp.o /usr/bin/ranlib libncl.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 43%] Built target ncl [ 43%] Building CXX object cmaple/utils/CMakeFiles/cmaple_utils.dir/logstream.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/utils && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/utils/CMakeFiles/cmaple_utils.dir/logstream.cpp.o -MF CMakeFiles/cmaple_utils.dir/logstream.cpp.o.d -o CMakeFiles/cmaple_utils.dir/logstream.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/utils/logstream.cpp [ 43%] Linking CXX static library libgsl.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/gsl && /usr/bin/cmake -P CMakeFiles/gsl.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/gsl && /usr/bin/cmake -E cmake_link_script CMakeFiles/gsl.dir/link.txt --verbose=1 /usr/bin/ar qc libgsl.a CMakeFiles/gsl.dir/binomial_tpe.cpp.o CMakeFiles/gsl.dir/multinomial.cpp.o CMakeFiles/gsl.dir/pow_int.cpp.o CMakeFiles/gsl.dir/gauss.cpp.o CMakeFiles/gsl.dir/gaussinv.cpp.o CMakeFiles/gsl.dir/gausspdf.cpp.o /usr/bin/ranlib libgsl.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 43%] Built target gsl make -f phylo-yaml/CMakeFiles/phyloYAML.dir/build.make phylo-yaml/CMakeFiles/phyloYAML.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/phylo-yaml /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/phylo-yaml /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/phylo-yaml/CMakeFiles/phyloYAML.dir/DependInfo.cmake "--color=" phyloYAML make -f terraphast/CMakeFiles/terraphast.dir/build.make terraphast/CMakeFiles/terraphast.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/terraphast /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/terraphast/CMakeFiles/terraphast.dir/DependInfo.cmake "--color=" terraphast make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make -f phylo-yaml/CMakeFiles/phyloYAML.dir/build.make phylo-yaml/CMakeFiles/phyloYAML.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make -f terraphast/CMakeFiles/terraphast.dir/build.make terraphast/CMakeFiles/terraphast.dir/build [ 44%] Building CXX object phylo-yaml/CMakeFiles/phyloYAML.dir/statespace.cpp.o make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/phylo-yaml && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT phylo-yaml/CMakeFiles/phyloYAML.dir/statespace.cpp.o -MF CMakeFiles/phyloYAML.dir/statespace.cpp.o.d -o CMakeFiles/phyloYAML.dir/statespace.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/phylo-yaml/statespace.cpp [ 44%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/advanced.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/advanced.cpp.o -MF CMakeFiles/terraphast.dir/lib/advanced.cpp.o.d -o CMakeFiles/terraphast.dir/lib/advanced.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/advanced.cpp make -f utils/CMakeFiles/decentTree.dir/build.make utils/CMakeFiles/decentTree.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/utils /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/utils /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/utils/CMakeFiles/decentTree.dir/DependInfo.cmake "--color=" decentTree make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make -f utils/CMakeFiles/decentTree.dir/build.make utils/CMakeFiles/decentTree.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 45%] Building CXX object utils/CMakeFiles/decentTree.dir/decenttree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -MD -MT utils/CMakeFiles/decentTree.dir/decenttree.cpp.o -MF CMakeFiles/decentTree.dir/decenttree.cpp.o.d -o CMakeFiles/decentTree.dir/decenttree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/decenttree.cpp [ 45%] Linking CXX static library libpda.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pda && /usr/bin/cmake -P CMakeFiles/pda.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/pda && /usr/bin/cmake -E cmake_link_script CMakeFiles/pda.dir/link.txt --verbose=1 [ 45%] Building CXX object utils/CMakeFiles/decentTree.dir/starttree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -MD -MT utils/CMakeFiles/decentTree.dir/starttree.cpp.o -MF CMakeFiles/decentTree.dir/starttree.cpp.o.d -o CMakeFiles/decentTree.dir/starttree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/starttree.cpp /usr/bin/ar qc libpda.a CMakeFiles/pda.dir/circularnetwork.cpp.o CMakeFiles/pda.dir/greedy.cpp.o CMakeFiles/pda.dir/gurobiwrapper.cpp.o CMakeFiles/pda.dir/hashsplitset.cpp.o CMakeFiles/pda.dir/pdnetwork.cpp.o CMakeFiles/pda.dir/pruning.cpp.o CMakeFiles/pda.dir/split.cpp.o CMakeFiles/pda.dir/splitgraph.cpp.o CMakeFiles/pda.dir/splitset.cpp.o CMakeFiles/pda.dir/lpwrapper.c.o CMakeFiles/pda.dir/ecopd.cpp.o CMakeFiles/pda.dir/graph.cpp.o CMakeFiles/pda.dir/pdtree.cpp.o CMakeFiles/pda.dir/pdtreeset.cpp.o CMakeFiles/pda.dir/ecopdmtreeset.cpp.o /usr/bin/ranlib libpda.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 45%] Built target pda [ 45%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/bigint.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/bigint.cpp.o -MF CMakeFiles/terraphast.dir/lib/bigint.cpp.o.d -o CMakeFiles/terraphast.dir/lib/bigint.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/bigint.cpp [ 46%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/bipartitions.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/bipartitions.cpp.o -MF CMakeFiles/terraphast.dir/lib/bipartitions.cpp.o.d -o CMakeFiles/terraphast.dir/lib/bipartitions.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/bipartitions.cpp [ 46%] Building CXX object utils/CMakeFiles/decentTree.dir/bionj.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -MD -MT utils/CMakeFiles/decentTree.dir/bionj.cpp.o -MF CMakeFiles/decentTree.dir/bionj.cpp.o.d -o CMakeFiles/decentTree.dir/bionj.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/bionj.cpp [ 46%] Linking CXX static library libcmaple_utils.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/utils && /usr/bin/cmake -P CMakeFiles/cmaple_utils.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/utils && /usr/bin/cmake -E cmake_link_script CMakeFiles/cmaple_utils.dir/link.txt --verbose=1 "/usr/bin/gcc-ar-15" qc libcmaple_utils.a CMakeFiles/cmaple_utils.dir/tools.cpp.o CMakeFiles/cmaple_utils.dir/operatingsystem.cpp.o CMakeFiles/cmaple_utils.dir/gzstream.cpp.o CMakeFiles/cmaple_utils.dir/logstream.cpp.o "/usr/bin/gcc-ranlib-15" libcmaple_utils.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 46%] Built target cmaple_utils [ 47%] Building CXX object utils/CMakeFiles/decentTree.dir/bionj2.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -MD -MT utils/CMakeFiles/decentTree.dir/bionj2.cpp.o -MF CMakeFiles/decentTree.dir/bionj2.cpp.o.d -o CMakeFiles/decentTree.dir/bionj2.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/bionj2.cpp [ 47%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/bitmatrix.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/bitmatrix.cpp.o -MF CMakeFiles/terraphast.dir/lib/bitmatrix.cpp.o.d -o CMakeFiles/terraphast.dir/lib/bitmatrix.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/bitmatrix.cpp [ 47%] Building CXX object utils/CMakeFiles/decentTree.dir/gzstream.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -MD -MT utils/CMakeFiles/decentTree.dir/gzstream.cpp.o -MF CMakeFiles/decentTree.dir/gzstream.cpp.o.d -o CMakeFiles/decentTree.dir/gzstream.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/gzstream.cpp [ 47%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/clamped_uint.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/clamped_uint.cpp.o -MF CMakeFiles/terraphast.dir/lib/clamped_uint.cpp.o.d -o CMakeFiles/terraphast.dir/lib/clamped_uint.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/clamped_uint.cpp [ 47%] Building CXX object utils/CMakeFiles/decentTree.dir/progress.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -MD -MT utils/CMakeFiles/decentTree.dir/progress.cpp.o -MF CMakeFiles/decentTree.dir/progress.cpp.o.d -o CMakeFiles/decentTree.dir/progress.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/progress.cpp [ 48%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/constraints.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/constraints.cpp.o -MF CMakeFiles/terraphast.dir/lib/constraints.cpp.o.d -o CMakeFiles/terraphast.dir/lib/constraints.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/constraints.cpp [ 48%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/errors.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/errors.cpp.o -MF CMakeFiles/terraphast.dir/lib/errors.cpp.o.d -o CMakeFiles/terraphast.dir/lib/errors.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/errors.cpp [ 48%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/multitree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/multitree.cpp.o -MF CMakeFiles/terraphast.dir/lib/multitree.cpp.o.d -o CMakeFiles/terraphast.dir/lib/multitree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/multitree.cpp [ 49%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/multitree_iterator.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/multitree_iterator.cpp.o -MF CMakeFiles/terraphast.dir/lib/multitree_iterator.cpp.o.d -o CMakeFiles/terraphast.dir/lib/multitree_iterator.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/multitree_iterator.cpp make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/utils /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/utils /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/utils/CMakeFiles/utils.dir/DependInfo.cmake "--color=" utils make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 50%] Building CXX object utils/CMakeFiles/utils.dir/eigendecomposition.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/eigendecomposition.cpp.o -MF CMakeFiles/utils.dir/eigendecomposition.cpp.o.d -o CMakeFiles/utils.dir/eigendecomposition.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/eigendecomposition.cpp [ 50%] Building CXX object utils/CMakeFiles/utils.dir/gzstream.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/gzstream.cpp.o -MF CMakeFiles/utils.dir/gzstream.cpp.o.d -o CMakeFiles/utils.dir/gzstream.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/gzstream.cpp make -f cmaple/alignment/CMakeFiles/cmaple_alignment.dir/build.make cmaple/alignment/CMakeFiles/cmaple_alignment.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/alignment /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/alignment/CMakeFiles/cmaple_alignment.dir/DependInfo.cmake "--color=" cmaple_alignment make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make -f cmaple/alignment/CMakeFiles/cmaple_alignment.dir/build.make cmaple/alignment/CMakeFiles/cmaple_alignment.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 50%] Building CXX object cmaple/alignment/CMakeFiles/cmaple_alignment.dir/mutation.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/alignment && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/alignment/CMakeFiles/cmaple_alignment.dir/mutation.cpp.o -MF CMakeFiles/cmaple_alignment.dir/mutation.cpp.o.d -o CMakeFiles/cmaple_alignment.dir/mutation.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/mutation.cpp [ 50%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/nodes.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/nodes.cpp.o -MF CMakeFiles/terraphast.dir/lib/nodes.cpp.o.d -o CMakeFiles/terraphast.dir/lib/nodes.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/nodes.cpp [ 50%] Building CXX object utils/CMakeFiles/utils.dir/optimization.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/optimization.cpp.o -MF CMakeFiles/utils.dir/optimization.cpp.o.d -o CMakeFiles/utils.dir/optimization.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/optimization.cpp [ 50%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/parser.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/parser.cpp.o -MF CMakeFiles/terraphast.dir/lib/parser.cpp.o.d -o CMakeFiles/terraphast.dir/lib/parser.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/parser.cpp [ 51%] Building CXX object cmaple/alignment/CMakeFiles/cmaple_alignment.dir/seqregion.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/alignment && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/alignment/CMakeFiles/cmaple_alignment.dir/seqregion.cpp.o -MF CMakeFiles/cmaple_alignment.dir/seqregion.cpp.o.d -o CMakeFiles/cmaple_alignment.dir/seqregion.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/seqregion.cpp [ 52%] Building CXX object utils/CMakeFiles/utils.dir/stoprule.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/stoprule.cpp.o -MF CMakeFiles/utils.dir/stoprule.cpp.o.d -o CMakeFiles/utils.dir/stoprule.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/stoprule.cpp [ 52%] Linking CXX static library libphyloYAML.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/phylo-yaml && /usr/bin/cmake -P CMakeFiles/phyloYAML.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/phylo-yaml && /usr/bin/cmake -E cmake_link_script CMakeFiles/phyloYAML.dir/link.txt --verbose=1 /usr/bin/ar qc libphyloYAML.a CMakeFiles/phyloYAML.dir/statespace.cpp.o /usr/bin/ranlib libphyloYAML.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 52%] Built target phyloYAML [ 53%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/rooting.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/rooting.cpp.o -MF CMakeFiles/terraphast.dir/lib/rooting.cpp.o.d -o CMakeFiles/terraphast.dir/lib/rooting.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/rooting.cpp [ 53%] Building CXX object utils/CMakeFiles/utils.dir/tools.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/tools.cpp.o -MF CMakeFiles/utils.dir/tools.cpp.o.d -o CMakeFiles/utils.dir/tools.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/tools.cpp [ 53%] Building CXX object cmaple/alignment/CMakeFiles/cmaple_alignment.dir/seqregions.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/alignment && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/alignment/CMakeFiles/cmaple_alignment.dir/seqregions.cpp.o -MF CMakeFiles/cmaple_alignment.dir/seqregions.cpp.o.d -o CMakeFiles/cmaple_alignment.dir/seqregions.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/seqregions.cpp [ 53%] Building CXX object cmaple/alignment/CMakeFiles/cmaple_alignment.dir/sequence.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/alignment && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/alignment/CMakeFiles/cmaple_alignment.dir/sequence.cpp.o -MF CMakeFiles/cmaple_alignment.dir/sequence.cpp.o.d -o CMakeFiles/cmaple_alignment.dir/sequence.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/sequence.cpp [ 53%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/simple.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/simple.cpp.o -MF CMakeFiles/terraphast.dir/lib/simple.cpp.o.d -o CMakeFiles/terraphast.dir/lib/simple.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/simple.cpp In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/sequence.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/sequence.cpp:8: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/seqregions.cpp:8: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ [ 53%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/subtree_extraction.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/subtree_extraction.cpp.o -MF CMakeFiles/terraphast.dir/lib/subtree_extraction.cpp.o.d -o CMakeFiles/terraphast.dir/lib/subtree_extraction.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/subtree_extraction.cpp [ 54%] Building CXX object utils/CMakeFiles/decentTree.dir/operatingsystem.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -MD -MT utils/CMakeFiles/decentTree.dir/operatingsystem.cpp.o -MF CMakeFiles/decentTree.dir/operatingsystem.cpp.o.d -o CMakeFiles/decentTree.dir/operatingsystem.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/operatingsystem.cpp [ 54%] Building CXX object utils/CMakeFiles/utils.dir/pllnni.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/pllnni.cpp.o -MF CMakeFiles/utils.dir/pllnni.cpp.o.d -o CMakeFiles/utils.dir/pllnni.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/pllnni.cpp [ 55%] Building CXX object utils/CMakeFiles/utils.dir/checkpoint.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/checkpoint.cpp.o -MF CMakeFiles/utils.dir/checkpoint.cpp.o.d -o CMakeFiles/utils.dir/checkpoint.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/checkpoint.cpp [ 56%] Building CXX object cmaple/alignment/CMakeFiles/cmaple_alignment.dir/alignment.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/alignment && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/alignment/CMakeFiles/cmaple_alignment.dir/alignment.cpp.o -MF CMakeFiles/cmaple_alignment.dir/alignment.cpp.o.d -o CMakeFiles/cmaple_alignment.dir/alignment.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/alignment.cpp [ 56%] Linking CXX executable decentTree cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/utils && /usr/bin/cmake -E cmake_link_script CMakeFiles/decentTree.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -Wl,-z,relro -Wl,-z,now -rdynamic -Wl,--dependency-file=CMakeFiles/decentTree.dir/link.d CMakeFiles/decentTree.dir/decenttree.cpp.o CMakeFiles/decentTree.dir/starttree.cpp.o CMakeFiles/decentTree.dir/bionj.cpp.o CMakeFiles/decentTree.dir/bionj2.cpp.o CMakeFiles/decentTree.dir/gzstream.cpp.o CMakeFiles/decentTree.dir/progress.cpp.o CMakeFiles/decentTree.dir/operatingsystem.cpp.o -o decentTree -L/build/reproducible-path/iqtree-3.0.1+dfsg/lib -Wl,-rpath,/build/reproducible-path/iqtree-3.0.1+dfsg/lib /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 56%] Built target decentTree [ 56%] Building CXX object utils/CMakeFiles/utils.dir/MPIHelper.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/MPIHelper.cpp.o -MF CMakeFiles/utils.dir/MPIHelper.cpp.o.d -o CMakeFiles/utils.dir/MPIHelper.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/MPIHelper.cpp [ 57%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/supertree_helpers.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/supertree_helpers.cpp.o -MF CMakeFiles/terraphast.dir/lib/supertree_helpers.cpp.o.d -o CMakeFiles/terraphast.dir/lib/supertree_helpers.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/supertree_helpers.cpp [ 57%] Building CXX object utils/CMakeFiles/utils.dir/starttree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/starttree.cpp.o -MF CMakeFiles/utils.dir/starttree.cpp.o.d -o CMakeFiles/utils.dir/starttree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/starttree.cpp [ 57%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/trees.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/trees.cpp.o -MF CMakeFiles/terraphast.dir/lib/trees.cpp.o.d -o CMakeFiles/terraphast.dir/lib/trees.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/trees.cpp In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/sequence.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/alignment.h:2, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/alignment.cpp:8: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ [ 57%] Linking CXX static library libcmaple_alignment.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/alignment && /usr/bin/cmake -P CMakeFiles/cmaple_alignment.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/alignment && /usr/bin/cmake -E cmake_link_script CMakeFiles/cmaple_alignment.dir/link.txt --verbose=1 "/usr/bin/gcc-ar-15" qc libcmaple_alignment.a CMakeFiles/cmaple_alignment.dir/mutation.cpp.o CMakeFiles/cmaple_alignment.dir/seqregion.cpp.o CMakeFiles/cmaple_alignment.dir/seqregions.cpp.o CMakeFiles/cmaple_alignment.dir/sequence.cpp.o CMakeFiles/cmaple_alignment.dir/alignment.cpp.o "/usr/bin/gcc-ranlib-15" libcmaple_alignment.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 58%] Building CXX object utils/CMakeFiles/utils.dir/bionj.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/bionj.cpp.o -MF CMakeFiles/utils.dir/bionj.cpp.o.d -o CMakeFiles/utils.dir/bionj.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/bionj.cpp [ 58%] Built target cmaple_alignment [ 58%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/union_find.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/union_find.cpp.o -MF CMakeFiles/terraphast.dir/lib/union_find.cpp.o.d -o CMakeFiles/terraphast.dir/lib/union_find.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/union_find.cpp make -f cmaple/model/CMakeFiles/cmaple_model.dir/build.make cmaple/model/CMakeFiles/cmaple_model.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/model /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/model/CMakeFiles/cmaple_model.dir/DependInfo.cmake "--color=" cmaple_model make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make -f cmaple/model/CMakeFiles/cmaple_model.dir/build.make cmaple/model/CMakeFiles/cmaple_model.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 60%] Building CXX object cmaple/model/CMakeFiles/cmaple_model.dir/model.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/model && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/model/CMakeFiles/cmaple_model.dir/model.cpp.o -MF CMakeFiles/cmaple_model.dir/model.cpp.o.d -o CMakeFiles/cmaple_model.dir/model.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/model.cpp [ 61%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/validation.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/validation.cpp.o -MF CMakeFiles/terraphast.dir/lib/validation.cpp.o.d -o CMakeFiles/terraphast.dir/lib/validation.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/validation.cpp [ 61%] Building CXX object utils/CMakeFiles/utils.dir/bionj2.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/bionj2.cpp.o -MF CMakeFiles/utils.dir/bionj2.cpp.o.d -o CMakeFiles/utils.dir/bionj2.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/bionj2.cpp [ 61%] Building CXX object cmaple/model/CMakeFiles/cmaple_model.dir/modelbase.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/model && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/model/CMakeFiles/cmaple_model.dir/modelbase.cpp.o -MF CMakeFiles/cmaple_model.dir/modelbase.cpp.o.d -o CMakeFiles/cmaple_model.dir/modelbase.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/modelbase.cpp [ 61%] Building CXX object utils/CMakeFiles/utils.dir/progress.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/progress.cpp.o -MF CMakeFiles/utils.dir/progress.cpp.o.d -o CMakeFiles/utils.dir/progress.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/progress.cpp [ 62%] Building CXX object utils/CMakeFiles/utils.dir/operatingsystem.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/operatingsystem.cpp.o -MF CMakeFiles/utils.dir/operatingsystem.cpp.o.d -o CMakeFiles/utils.dir/operatingsystem.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/operatingsystem.cpp [ 62%] Linking CXX static library libterraphast.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/terraphast && /usr/bin/cmake -P CMakeFiles/terraphast.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/terraphast && /usr/bin/cmake -E cmake_link_script CMakeFiles/terraphast.dir/link.txt --verbose=1 /usr/bin/ar qc libterraphast.a CMakeFiles/terraphast.dir/lib/advanced.cpp.o CMakeFiles/terraphast.dir/lib/bigint.cpp.o CMakeFiles/terraphast.dir/lib/bipartitions.cpp.o CMakeFiles/terraphast.dir/lib/bitmatrix.cpp.o CMakeFiles/terraphast.dir/lib/clamped_uint.cpp.o CMakeFiles/terraphast.dir/lib/constraints.cpp.o CMakeFiles/terraphast.dir/lib/errors.cpp.o CMakeFiles/terraphast.dir/lib/multitree.cpp.o CMakeFiles/terraphast.dir/lib/multitree_iterator.cpp.o CMakeFiles/terraphast.dir/lib/nodes.cpp.o CMakeFiles/terraphast.dir/lib/parser.cpp.o CMakeFiles/terraphast.dir/lib/rooting.cpp.o CMakeFiles/terraphast.dir/lib/simple.cpp.o CMakeFiles/terraphast.dir/lib/subtree_extraction.cpp.o CMakeFiles/terraphast.dir/lib/supertree_helpers.cpp.o CMakeFiles/terraphast.dir/lib/trees.cpp.o CMakeFiles/terraphast.dir/lib/union_find.cpp.o CMakeFiles/terraphast.dir/lib/validation.cpp.o /usr/bin/ranlib libterraphast.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/model.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/model.cpp:1: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ [ 62%] Built target terraphast [ 62%] Building CXX object cmaple/model/CMakeFiles/cmaple_model.dir/model_dna.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/model && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/model/CMakeFiles/cmaple_model.dir/model_dna.cpp.o -MF CMakeFiles/cmaple_model.dir/model_dna.cpp.o.d -o CMakeFiles/cmaple_model.dir/model_dna.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/model_dna.cpp [ 63%] Building CXX object cmaple/model/CMakeFiles/cmaple_model.dir/model_aa.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/model && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/model/CMakeFiles/cmaple_model.dir/model_aa.cpp.o -MF CMakeFiles/cmaple_model.dir/model_aa.cpp.o.d -o CMakeFiles/cmaple_model.dir/model_aa.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/model_aa.cpp In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/modelbase.cpp:1: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/model.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/model_dna.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/model_dna.cpp:1: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/model.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/model_aa.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/model_aa.cpp:1: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h:34: /usr/include/simde/x86/avx.h: In function ‘simde__m256d simde__m256d_from_private(simde__m256d_private)’: /usr/include/simde/x86/avx.h:319:1: note: the ABI for passing parameters with 32-byte alignment has changed in GCC 4.6 319 | simde__m256d_from_private(simde__m256d_private v) { | ^~~~~~~~~~~~~~~~~~~~~~~~~ [ 63%] Linking CXX static library libcmaple_model.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/model && /usr/bin/cmake -P CMakeFiles/cmaple_model.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/model && /usr/bin/cmake -E cmake_link_script CMakeFiles/cmaple_model.dir/link.txt --verbose=1 "/usr/bin/gcc-ar-15" qc libcmaple_model.a CMakeFiles/cmaple_model.dir/model.cpp.o CMakeFiles/cmaple_model.dir/modelbase.cpp.o CMakeFiles/cmaple_model.dir/model_dna.cpp.o CMakeFiles/cmaple_model.dir/model_aa.cpp.o "/usr/bin/gcc-ranlib-15" libcmaple_model.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 63%] Built target cmaple_model make -f cmaple/tree/CMakeFiles/cmaple_tree.dir/build.make cmaple/tree/CMakeFiles/cmaple_tree.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/tree /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/tree/CMakeFiles/cmaple_tree.dir/DependInfo.cmake "--color=" cmaple_tree make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make -f cmaple/tree/CMakeFiles/cmaple_tree.dir/build.make cmaple/tree/CMakeFiles/cmaple_tree.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 63%] Building CXX object cmaple/tree/CMakeFiles/cmaple_tree.dir/tree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/tree && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/tree/CMakeFiles/cmaple_tree.dir/tree.cpp.o -MF CMakeFiles/cmaple_tree.dir/tree.cpp.o.d -o CMakeFiles/cmaple_tree.dir/tree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/tree.cpp [ 63%] Building CXX object cmaple/tree/CMakeFiles/cmaple_tree.dir/traversingnode.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/tree && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/tree/CMakeFiles/cmaple_tree.dir/traversingnode.cpp.o -MF CMakeFiles/cmaple_tree.dir/traversingnode.cpp.o.d -o CMakeFiles/cmaple_tree.dir/traversingnode.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/traversingnode.cpp [ 63%] Building CXX object cmaple/tree/CMakeFiles/cmaple_tree.dir/phylonode.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/tree && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/tree/CMakeFiles/cmaple_tree.dir/phylonode.cpp.o -MF CMakeFiles/cmaple_tree.dir/phylonode.cpp.o.d -o CMakeFiles/cmaple_tree.dir/phylonode.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/phylonode.cpp [ 64%] Building CXX object cmaple/tree/CMakeFiles/cmaple_tree.dir/updatingnode.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/tree && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/tree/CMakeFiles/cmaple_tree.dir/updatingnode.cpp.o -MF CMakeFiles/cmaple_tree.dir/updatingnode.cpp.o.d -o CMakeFiles/cmaple_tree.dir/updatingnode.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/updatingnode.cpp In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/internal.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/phylonode.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/traversingnode.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/traversingnode.cpp:1: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/internal.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/phylonode.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/phylonode.cpp:1: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/sequence.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/alignment.h:2, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/tree.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/tree.cpp:1: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/internal.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/phylonode.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/traversingnode.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/updatingnode.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/updatingnode.cpp:1: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h:34: /usr/include/simde/x86/avx.h: In function ‘simde__m256d simde__m256d_from_private(simde__m256d_private)’: /usr/include/simde/x86/avx.h:319:1: note: the ABI for passing parameters with 32-byte alignment has changed in GCC 4.6 319 | simde__m256d_from_private(simde__m256d_private v) { | ^~~~~~~~~~~~~~~~~~~~~~~~~ [ 64%] Linking CXX static library libutils.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/utils && /usr/bin/cmake -P CMakeFiles/utils.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/utils && /usr/bin/cmake -E cmake_link_script CMakeFiles/utils.dir/link.txt --verbose=1 /usr/bin/ar qc libutils.a CMakeFiles/utils.dir/eigendecomposition.cpp.o CMakeFiles/utils.dir/gzstream.cpp.o CMakeFiles/utils.dir/optimization.cpp.o CMakeFiles/utils.dir/stoprule.cpp.o CMakeFiles/utils.dir/tools.cpp.o CMakeFiles/utils.dir/pllnni.cpp.o CMakeFiles/utils.dir/checkpoint.cpp.o CMakeFiles/utils.dir/MPIHelper.cpp.o CMakeFiles/utils.dir/starttree.cpp.o CMakeFiles/utils.dir/bionj.cpp.o CMakeFiles/utils.dir/bionj2.cpp.o CMakeFiles/utils.dir/progress.cpp.o CMakeFiles/utils.dir/operatingsystem.cpp.o /usr/bin/ranlib libutils.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 64%] Built target utils make -f model/CMakeFiles/model.dir/build.make model/CMakeFiles/model.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/model /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model/CMakeFiles/model.dir/DependInfo.cmake "--color=" model make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make -f model/CMakeFiles/model.dir/build.make model/CMakeFiles/model.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 64%] Building CXX object model/CMakeFiles/model.dir/modelmarkov.cpp.o [ 65%] Building CXX object model/CMakeFiles/model.dir/modelbin.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelmarkov.cpp.o -MF CMakeFiles/model.dir/modelmarkov.cpp.o.d -o CMakeFiles/model.dir/modelmarkov.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelmarkov.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelbin.cpp.o -MF CMakeFiles/model.dir/modelbin.cpp.o.d -o CMakeFiles/model.dir/modelbin.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelbin.cpp [ 65%] Building CXX object model/CMakeFiles/model.dir/modeldnaerror.cpp.o [ 65%] Building CXX object model/CMakeFiles/model.dir/modeldna.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modeldna.cpp.o -MF CMakeFiles/model.dir/modeldna.cpp.o.d -o CMakeFiles/model.dir/modeldna.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modeldna.cpp [ 66%] Building CXX object model/CMakeFiles/model.dir/modelfactory.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelfactory.cpp.o -MF CMakeFiles/model.dir/modelfactory.cpp.o.d -o CMakeFiles/model.dir/modelfactory.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelfactory.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modeldnaerror.cpp.o -MF CMakeFiles/model.dir/modeldnaerror.cpp.o.d -o CMakeFiles/model.dir/modeldnaerror.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modeldnaerror.cpp [ 67%] Linking CXX static library libcmaple_tree.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/tree && /usr/bin/cmake -P CMakeFiles/cmaple_tree.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/tree && /usr/bin/cmake -E cmake_link_script CMakeFiles/cmaple_tree.dir/link.txt --verbose=1 "/usr/bin/gcc-ar-15" qc libcmaple_tree.a CMakeFiles/cmaple_tree.dir/tree.cpp.o CMakeFiles/cmaple_tree.dir/updatingnode.cpp.o CMakeFiles/cmaple_tree.dir/traversingnode.cpp.o CMakeFiles/cmaple_tree.dir/phylonode.cpp.o "/usr/bin/gcc-ranlib-15" libcmaple_tree.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 67%] Built target cmaple_tree [ 67%] Building CXX object model/CMakeFiles/model.dir/modelprotein.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelprotein.cpp.o -MF CMakeFiles/model.dir/modelprotein.cpp.o.d -o CMakeFiles/model.dir/modelprotein.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelprotein.cpp [ 67%] Building CXX object model/CMakeFiles/model.dir/modelset.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelset.cpp.o -MF CMakeFiles/model.dir/modelset.cpp.o.d -o CMakeFiles/model.dir/modelset.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelset.cpp [ 68%] Building CXX object model/CMakeFiles/model.dir/modelsubst.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelsubst.cpp.o -MF CMakeFiles/model.dir/modelsubst.cpp.o.d -o CMakeFiles/model.dir/modelsubst.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelsubst.cpp [ 68%] Building CXX object model/CMakeFiles/model.dir/partitionmodel.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/partitionmodel.cpp.o -MF CMakeFiles/model.dir/partitionmodel.cpp.o.d -o CMakeFiles/model.dir/partitionmodel.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/partitionmodel.cpp [ 68%] Building CXX object model/CMakeFiles/model.dir/partitionmodelplen.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/partitionmodelplen.cpp.o -MF CMakeFiles/model.dir/partitionmodelplen.cpp.o.d -o CMakeFiles/model.dir/partitionmodelplen.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/partitionmodelplen.cpp [ 69%] Building CXX object model/CMakeFiles/model.dir/rategamma.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/rategamma.cpp.o -MF CMakeFiles/model.dir/rategamma.cpp.o.d -o CMakeFiles/model.dir/rategamma.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/rategamma.cpp [ 69%] Building CXX object model/CMakeFiles/model.dir/rategammainvar.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/rategammainvar.cpp.o -MF CMakeFiles/model.dir/rategammainvar.cpp.o.d -o CMakeFiles/model.dir/rategammainvar.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/rategammainvar.cpp make -f cmaple/maple/CMakeFiles/maple.dir/build.make cmaple/maple/CMakeFiles/maple.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/maple /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/maple/CMakeFiles/maple.dir/DependInfo.cmake "--color=" maple make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make -f cmaple/maple/CMakeFiles/maple.dir/build.make cmaple/maple/CMakeFiles/maple.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 70%] Building CXX object cmaple/maple/CMakeFiles/maple.dir/cmaple.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/maple && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT cmaple/maple/CMakeFiles/maple.dir/cmaple.cpp.o -MF CMakeFiles/maple.dir/cmaple.cpp.o.d -o CMakeFiles/maple.dir/cmaple.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/cmaple.cpp [ 70%] Building CXX object model/CMakeFiles/model.dir/ratecontinuousgamma.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/ratecontinuousgamma.cpp.o -MF CMakeFiles/model.dir/ratecontinuousgamma.cpp.o.d -o CMakeFiles/model.dir/ratecontinuousgamma.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/ratecontinuousgamma.cpp [ 71%] Building CXX object model/CMakeFiles/model.dir/ratecontinuousgammainvar.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/ratecontinuousgammainvar.cpp.o -MF CMakeFiles/model.dir/ratecontinuousgammainvar.cpp.o.d -o CMakeFiles/model.dir/ratecontinuousgammainvar.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/ratecontinuousgammainvar.cpp [ 71%] Building CXX object model/CMakeFiles/model.dir/rateheterogeneity.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/rateheterogeneity.cpp.o -MF CMakeFiles/model.dir/rateheterogeneity.cpp.o.d -o CMakeFiles/model.dir/rateheterogeneity.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/rateheterogeneity.cpp [ 71%] Building CXX object model/CMakeFiles/model.dir/rateinvar.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/rateinvar.cpp.o -MF CMakeFiles/model.dir/rateinvar.cpp.o.d -o CMakeFiles/model.dir/rateinvar.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/rateinvar.cpp In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/sequence.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/alignment.h:2, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/tree.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/cmaple.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/cmaple.cpp:1: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ [ 72%] Building CXX object model/CMakeFiles/model.dir/ratemeyerdiscrete.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/ratemeyerdiscrete.cpp.o -MF CMakeFiles/model.dir/ratemeyerdiscrete.cpp.o.d -o CMakeFiles/model.dir/ratemeyerdiscrete.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/ratemeyerdiscrete.cpp [ 72%] Linking CXX static library libmaple.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/maple && /usr/bin/cmake -P CMakeFiles/maple.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/maple && /usr/bin/cmake -E cmake_link_script CMakeFiles/maple.dir/link.txt --verbose=1 "/usr/bin/gcc-ar-15" qc libmaple.a CMakeFiles/maple.dir/cmaple.cpp.o "/usr/bin/gcc-ranlib-15" libmaple.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 72%] Built target maple [ 72%] Building CXX object model/CMakeFiles/model.dir/ratemeyerhaeseler.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/ratemeyerhaeseler.cpp.o -MF CMakeFiles/model.dir/ratemeyerhaeseler.cpp.o.d -o CMakeFiles/model.dir/ratemeyerhaeseler.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/ratemeyerhaeseler.cpp make -f cmaple/CMakeFiles/cmaple.dir/build.make cmaple/CMakeFiles/cmaple.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple/CMakeFiles/cmaple.dir/DependInfo.cmake "--color=" cmaple make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make -f cmaple/CMakeFiles/cmaple.dir/build.make cmaple/CMakeFiles/cmaple.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 73%] Building CXX object cmaple/CMakeFiles/cmaple.dir/main/main.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/CMakeFiles/cmaple.dir/main/main.cpp.o -MF CMakeFiles/cmaple.dir/main/main.cpp.o.d -o CMakeFiles/cmaple.dir/main/main.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/main/main.cpp [ 73%] Building CXX object model/CMakeFiles/model.dir/ratekategory.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/ratekategory.cpp.o -MF CMakeFiles/model.dir/ratekategory.cpp.o.d -o CMakeFiles/model.dir/ratekategory.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/ratekategory.cpp In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/main/../maple/../tree/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/main/../maple/../tree/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/main/../maple/../tree/../alignment/sequence.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/main/../maple/../tree/../alignment/alignment.h:2, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/main/../maple/../tree/tree.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/main/../maple/cmaple.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/main/main.cpp:32: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/main/../maple/../tree/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/main/../maple/../tree/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/main/../maple/../tree/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ [ 74%] Building CXX object model/CMakeFiles/model.dir/ratefree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/ratefree.cpp.o -MF CMakeFiles/model.dir/ratefree.cpp.o.d -o CMakeFiles/model.dir/ratefree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/ratefree.cpp [ 74%] Linking CXX executable cmaple cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple && /usr/bin/cmake -E cmake_link_script CMakeFiles/cmaple.dir/link.txt --verbose=1 [ 74%] Building CXX object model/CMakeFiles/model.dir/ratefreeinvar.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/ratefreeinvar.cpp.o -MF CMakeFiles/model.dir/ratefreeinvar.cpp.o.d -o CMakeFiles/model.dir/ratefreeinvar.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/ratefreeinvar.cpp [ 74%] Building CXX object model/CMakeFiles/model.dir/rateheterotachy.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/rateheterotachy.cpp.o -MF CMakeFiles/model.dir/rateheterotachy.cpp.o.d -o CMakeFiles/model.dir/rateheterotachy.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/rateheterotachy.cpp tree/./cmaple/tree/../alignment/../model/../utils/matrix.h: In function ‘mul4’: tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:132:22: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] [ 75%] Building CXX object model/CMakeFiles/model.dir/rateheterotachyinvar.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/rateheterotachyinvar.cpp.o -MF CMakeFiles/model.dir/rateheterotachyinvar.cpp.o.d -o CMakeFiles/model.dir/rateheterotachyinvar.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/rateheterotachyinvar.cpp In function ‘resetVec’, inlined from ‘resetLhVecExceptState’ at tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:271:21, inlined from ‘calSiteLhs_RACGT_ORACGT’ at tree/./cmaple/tree/../alignment/seqregions.h:1975:38, inlined from ‘calSiteLhs_notN_notN’ at tree/./cmaple/tree/../alignment/seqregions.h:2051:47, inlined from ‘calculateSiteLhContributions’ at tree/./cmaple/tree/../alignment/seqregions.h:2141:44: tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:264:20: warning: ‘__builtin_memset’ writing 160 bytes into a region of size 32 overflows the destination [-Wstringop-overflow=] In function ‘make_unique’, inlined from ‘calSiteLhs_RACGT_ORACGT’ at tree/./cmaple/tree/../alignment/seqregions.h:1964:8, inlined from ‘calSiteLhs_notN_notN’ at tree/./cmaple/tree/../alignment/seqregions.h:2051:47, inlined from ‘calculateSiteLhContributions’ at tree/./cmaple/tree/../alignment/seqregions.h:2141:44: tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ [ 75%] Building CXX object model/CMakeFiles/model.dir/modelcodon.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelcodon.cpp.o -MF CMakeFiles/model.dir/modelcodon.cpp.o.d -o CMakeFiles/model.dir/modelcodon.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelcodon.cpp [ 75%] Building CXX object model/CMakeFiles/model.dir/modelmorphology.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelmorphology.cpp.o -MF CMakeFiles/model.dir/modelmorphology.cpp.o.d -o CMakeFiles/model.dir/modelmorphology.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelmorphology.cpp [ 76%] Building CXX object model/CMakeFiles/model.dir/modelmixture.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelmixture.cpp.o -MF CMakeFiles/model.dir/modelmixture.cpp.o.d -o CMakeFiles/model.dir/modelmixture.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelmixture.cpp In function ‘resetVec’, inlined from ‘resetLhVecExceptState’ at tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:271:21, inlined from ‘merge_RACGT_ORACGT_TwoLowers’ at tree/./cmaple/tree/../alignment/seqregions.h:1295:38, inlined from ‘merge_notN_notN_TwoLowers’ at tree/./cmaple/tree/../alignment/seqregions.h:1370:52, inlined from ‘mergeTwoLowers’ at tree/./cmaple/tree/../alignment/seqregions.h:1459:49: tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:264:20: warning: ‘__builtin_memset’ writing 160 bytes into a region of size 32 overflows the destination [-Wstringop-overflow=] In function ‘make_unique’, inlined from ‘merge_RACGT_ORACGT_TwoLowers’ at tree/./cmaple/tree/../alignment/seqregions.h:1284:8, inlined from ‘merge_notN_notN_TwoLowers’ at tree/./cmaple/tree/../alignment/seqregions.h:1370:52, inlined from ‘mergeTwoLowers’ at tree/./cmaple/tree/../alignment/seqregions.h:1459:49: tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ In function ‘resetVec’, inlined from ‘resetLhVecExceptState’ at tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:271:21, inlined from ‘merge_O_ORACGT’ at tree/./cmaple/tree/../alignment/seqregions.h:744:54, inlined from ‘mergeUpperLower’ at tree/./cmaple/tree/../alignment/seqregions.h:1006:35: tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:264:20: warning: ‘__builtin_memset’ writing 160 bytes into a region of size 32 overflows the destination [-Wstringop-overflow=] In function ‘make_unique’, inlined from ‘merge_O_ORACGT’ at tree/./cmaple/tree/../alignment/seqregions.h:708:8, inlined from ‘mergeUpperLower’ at tree/./cmaple/tree/../alignment/seqregions.h:1006:35: tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ In function ‘resetVec’, inlined from ‘resetLhVecExceptState’ at tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:271:21, inlined from ‘merge_RACGT_RACGT’ at tree/./cmaple/tree/../alignment/seqregions.h:811:51, inlined from ‘merge_RACGT_ORACGT’ at tree/./cmaple/tree/../alignment/seqregions.h:887:34, inlined from ‘mergeUpperLower’ at tree/./cmaple/tree/../alignment/seqregions.h:1012:39: tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:264:20: warning: ‘__builtin_memset’ writing 160 bytes into a region of size 32 overflows the destination [-Wstringop-overflow=] In function ‘make_unique’, inlined from ‘merge_RACGT_ORACGT’ at tree/./cmaple/tree/../alignment/seqregions.h:843:8, inlined from ‘mergeUpperLower’ at tree/./cmaple/tree/../alignment/seqregions.h:1012:39: tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ [ 76%] Building CXX object model/CMakeFiles/model.dir/modelunrest.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelunrest.cpp.o -MF CMakeFiles/model.dir/modelunrest.cpp.o.d -o CMakeFiles/model.dir/modelunrest.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelunrest.cpp [ 76%] Building CXX object model/CMakeFiles/model.dir/modelliemarkov.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelliemarkov.cpp.o -MF CMakeFiles/model.dir/modelliemarkov.cpp.o.d -o CMakeFiles/model.dir/modelliemarkov.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelliemarkov.cpp /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -rdynamic -rdynamic -Wl,--dependency-file=CMakeFiles/cmaple.dir/link.d CMakeFiles/cmaple.dir/main/main.cpp.o -o cmaple -L/build/reproducible-path/iqtree-3.0.1+dfsg/lib -L/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/libraries/static/lib -Wl,-rpath,/build/reproducible-path/iqtree-3.0.1+dfsg/lib:/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/libraries/static/lib maple/libmaple.a tree/libcmaple_tree.a model/libcmaple_model.a ../ncl/libncl.a ../nclextra/libnclextra.a alignment/libcmaple_alignment.a utils/libcmaple_utils.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 76%] Built target cmaple [ 77%] Building CXX object model/CMakeFiles/model.dir/modelpomo.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelpomo.cpp.o -MF CMakeFiles/model.dir/modelpomo.cpp.o.d -o CMakeFiles/model.dir/modelpomo.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelpomo.cpp [ 77%] Building CXX object model/CMakeFiles/model.dir/modelpomomixture.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelpomomixture.cpp.o -MF CMakeFiles/model.dir/modelpomomixture.cpp.o.d -o CMakeFiles/model.dir/modelpomomixture.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelpomomixture.cpp [ 77%] Building CXX object model/CMakeFiles/model.dir/modelfactorymixlen.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelfactorymixlen.cpp.o -MF CMakeFiles/model.dir/modelfactorymixlen.cpp.o.d -o CMakeFiles/model.dir/modelfactorymixlen.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelfactorymixlen.cpp [ 78%] Building CXX object model/CMakeFiles/model.dir/modelhmm.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelhmm.cpp.o -MF CMakeFiles/model.dir/modelhmm.cpp.o.d -o CMakeFiles/model.dir/modelhmm.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelhmm.cpp [ 78%] Building CXX object model/CMakeFiles/model.dir/modelhmmgm.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelhmmgm.cpp.o -MF CMakeFiles/model.dir/modelhmmgm.cpp.o.d -o CMakeFiles/model.dir/modelhmmgm.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelhmmgm.cpp [ 78%] Building CXX object model/CMakeFiles/model.dir/modelhmmtm.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelhmmtm.cpp.o -MF CMakeFiles/model.dir/modelhmmtm.cpp.o.d -o CMakeFiles/model.dir/modelhmmtm.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelhmmtm.cpp [ 80%] Building CXX object model/CMakeFiles/model.dir/modelcodonmixture.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelcodonmixture.cpp.o -MF CMakeFiles/model.dir/modelcodonmixture.cpp.o.d -o CMakeFiles/model.dir/modelcodonmixture.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelcodonmixture.cpp [ 80%] Linking CXX static library libmodel.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/cmake -P CMakeFiles/model.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/model && /usr/bin/cmake -E cmake_link_script CMakeFiles/model.dir/link.txt --verbose=1 /usr/bin/ar qc libmodel.a CMakeFiles/model.dir/modelmarkov.cpp.o CMakeFiles/model.dir/modelbin.cpp.o CMakeFiles/model.dir/modeldna.cpp.o CMakeFiles/model.dir/modeldnaerror.cpp.o CMakeFiles/model.dir/modelfactory.cpp.o CMakeFiles/model.dir/modelprotein.cpp.o CMakeFiles/model.dir/modelset.cpp.o CMakeFiles/model.dir/modelsubst.cpp.o CMakeFiles/model.dir/partitionmodel.cpp.o CMakeFiles/model.dir/partitionmodelplen.cpp.o CMakeFiles/model.dir/rategamma.cpp.o CMakeFiles/model.dir/rategammainvar.cpp.o CMakeFiles/model.dir/ratecontinuousgamma.cpp.o CMakeFiles/model.dir/ratecontinuousgammainvar.cpp.o CMakeFiles/model.dir/rateheterogeneity.cpp.o CMakeFiles/model.dir/rateinvar.cpp.o CMakeFiles/model.dir/ratemeyerdiscrete.cpp.o CMakeFiles/model.dir/ratemeyerhaeseler.cpp.o CMakeFiles/model.dir/ratekategory.cpp.o CMakeFiles/model.dir/ratefree.cpp.o CMakeFiles/model.dir/ratefreeinvar.cpp.o CMakeFiles/model.dir/rateheterotachy.cpp.o CMakeFiles/model.dir/rateheterotachyinvar.cpp.o CMakeFiles/model.dir/modelcodon.cpp.o CMakeFiles/model.dir/modelmorphology.cpp.o CMakeFiles/model.dir/modelmixture.cpp.o CMakeFiles/model.dir/modelunrest.cpp.o CMakeFiles/model.dir/modelliemarkov.cpp.o CMakeFiles/model.dir/modelpomo.cpp.o CMakeFiles/model.dir/modelpomomixture.cpp.o CMakeFiles/model.dir/modelfactorymixlen.cpp.o CMakeFiles/model.dir/modelhmm.cpp.o CMakeFiles/model.dir/modelhmmgm.cpp.o CMakeFiles/model.dir/modelhmmtm.cpp.o CMakeFiles/model.dir/modelcodonmixture.cpp.o /usr/bin/ranlib libmodel.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 80%] Built target model make -f simulator/CMakeFiles/simulator.dir/build.make simulator/CMakeFiles/simulator.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/simulator /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/simulator /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/simulator/CMakeFiles/simulator.dir/DependInfo.cmake "--color=" simulator make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make -f simulator/CMakeFiles/simulator.dir/build.make simulator/CMakeFiles/simulator.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 81%] Building CXX object simulator/CMakeFiles/simulator.dir/alisimulatorheterogeneity.cpp.o [ 81%] Building CXX object simulator/CMakeFiles/simulator.dir/alisimulatorheterogeneityinvar.cpp.o [ 81%] Building CXX object simulator/CMakeFiles/simulator.dir/alisimulator.cpp.o [ 81%] Building CXX object simulator/CMakeFiles/simulator.dir/alisimulatorinvar.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/simulator && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT simulator/CMakeFiles/simulator.dir/alisimulatorheterogeneityinvar.cpp.o -MF CMakeFiles/simulator.dir/alisimulatorheterogeneityinvar.cpp.o.d -o CMakeFiles/simulator.dir/alisimulatorheterogeneityinvar.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/simulator/alisimulatorheterogeneityinvar.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/simulator && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT simulator/CMakeFiles/simulator.dir/alisimulatorheterogeneity.cpp.o -MF CMakeFiles/simulator.dir/alisimulatorheterogeneity.cpp.o.d -o CMakeFiles/simulator.dir/alisimulatorheterogeneity.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/simulator/alisimulatorheterogeneity.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/simulator && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT simulator/CMakeFiles/simulator.dir/alisimulator.cpp.o -MF CMakeFiles/simulator.dir/alisimulator.cpp.o.d -o CMakeFiles/simulator.dir/alisimulator.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/simulator/alisimulator.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/simulator && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT simulator/CMakeFiles/simulator.dir/alisimulatorinvar.cpp.o -MF CMakeFiles/simulator.dir/alisimulatorinvar.cpp.o.d -o CMakeFiles/simulator.dir/alisimulatorinvar.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/simulator/alisimulatorinvar.cpp [ 81%] Linking CXX static library libsimulator.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/simulator && /usr/bin/cmake -P CMakeFiles/simulator.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/simulator && /usr/bin/cmake -E cmake_link_script CMakeFiles/simulator.dir/link.txt --verbose=1 /usr/bin/ar qc libsimulator.a CMakeFiles/simulator.dir/alisimulator.cpp.o CMakeFiles/simulator.dir/alisimulatorinvar.cpp.o CMakeFiles/simulator.dir/alisimulatorheterogeneity.cpp.o CMakeFiles/simulator.dir/alisimulatorheterogeneityinvar.cpp.o /usr/bin/ranlib libsimulator.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 81%] Built target simulator make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/alignment /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/alignment /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/alignment/CMakeFiles/alignment.dir/DependInfo.cmake "--color=" alignment make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 81%] Building CXX object alignment/CMakeFiles/alignment.dir/alignment.cpp.o [ 81%] Building CXX object alignment/CMakeFiles/alignment.dir/pattern.cpp.o [ 82%] Building CXX object alignment/CMakeFiles/alignment.dir/alignmentpairwise.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/pattern.cpp.o -MF CMakeFiles/alignment.dir/pattern.cpp.o.d -o CMakeFiles/alignment.dir/pattern.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/pattern.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/alignment.cpp.o -MF CMakeFiles/alignment.dir/alignment.cpp.o.d -o CMakeFiles/alignment.dir/alignment.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/alignment.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/alignmentpairwise.cpp.o -MF CMakeFiles/alignment.dir/alignmentpairwise.cpp.o.d -o CMakeFiles/alignment.dir/alignmentpairwise.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/alignmentpairwise.cpp [ 82%] Building CXX object alignment/CMakeFiles/alignment.dir/substitution.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/substitution.cpp.o -MF CMakeFiles/alignment.dir/substitution.cpp.o.d -o CMakeFiles/alignment.dir/substitution.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/substitution.cpp [ 82%] Building CXX object alignment/CMakeFiles/alignment.dir/maalignment.cpp.o [ 82%] Building CXX object alignment/CMakeFiles/alignment.dir/alignmentsummary.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/alignmentsummary.cpp.o -MF CMakeFiles/alignment.dir/alignmentsummary.cpp.o.d -o CMakeFiles/alignment.dir/alignmentsummary.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/alignmentsummary.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/maalignment.cpp.o -MF CMakeFiles/alignment.dir/maalignment.cpp.o.d -o CMakeFiles/alignment.dir/maalignment.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/maalignment.cpp [ 83%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignment.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/superalignment.cpp.o -MF CMakeFiles/alignment.dir/superalignment.cpp.o.d -o CMakeFiles/alignment.dir/superalignment.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/superalignment.cpp [ 83%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignmentpairwise.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/superalignmentpairwise.cpp.o -MF CMakeFiles/alignment.dir/superalignmentpairwise.cpp.o.d -o CMakeFiles/alignment.dir/superalignmentpairwise.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/superalignmentpairwise.cpp [ 83%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignmentpairwiseplen.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/superalignmentpairwiseplen.cpp.o -MF CMakeFiles/alignment.dir/superalignmentpairwiseplen.cpp.o.d -o CMakeFiles/alignment.dir/superalignmentpairwiseplen.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/superalignmentpairwiseplen.cpp [ 84%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignmentunlinked.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/superalignmentunlinked.cpp.o -MF CMakeFiles/alignment.dir/superalignmentunlinked.cpp.o.d -o CMakeFiles/alignment.dir/superalignmentunlinked.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/superalignmentunlinked.cpp [ 84%] Building CXX object alignment/CMakeFiles/alignment.dir/sequence.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/sequence.cpp.o -MF CMakeFiles/alignment.dir/sequence.cpp.o.d -o CMakeFiles/alignment.dir/sequence.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/sequence.cpp [ 84%] Building CXX object alignment/CMakeFiles/alignment.dir/sequencechunkstr.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/sequencechunkstr.cpp.o -MF CMakeFiles/alignment.dir/sequencechunkstr.cpp.o.d -o CMakeFiles/alignment.dir/sequencechunkstr.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/sequencechunkstr.cpp [ 85%] Linking CXX static library libalignment.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/alignment && /usr/bin/cmake -P CMakeFiles/alignment.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/alignment && /usr/bin/cmake -E cmake_link_script CMakeFiles/alignment.dir/link.txt --verbose=1 /usr/bin/ar qc libalignment.a CMakeFiles/alignment.dir/substitution.cpp.o CMakeFiles/alignment.dir/pattern.cpp.o CMakeFiles/alignment.dir/alignment.cpp.o CMakeFiles/alignment.dir/alignmentpairwise.cpp.o CMakeFiles/alignment.dir/alignmentsummary.cpp.o CMakeFiles/alignment.dir/maalignment.cpp.o CMakeFiles/alignment.dir/superalignment.cpp.o CMakeFiles/alignment.dir/superalignmentpairwise.cpp.o CMakeFiles/alignment.dir/superalignmentpairwiseplen.cpp.o CMakeFiles/alignment.dir/superalignmentunlinked.cpp.o CMakeFiles/alignment.dir/sequence.cpp.o CMakeFiles/alignment.dir/sequencechunkstr.cpp.o /usr/bin/ranlib libalignment.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 85%] Built target alignment make -f tree/CMakeFiles/tree.dir/build.make tree/CMakeFiles/tree.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/tree /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/tree /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/tree/CMakeFiles/tree.dir/DependInfo.cmake "--color=" tree make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make -f tree/CMakeFiles/tree.dir/build.make tree/CMakeFiles/tree.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 86%] Building CXX object tree/CMakeFiles/tree.dir/candidateset.cpp.o [ 86%] Building CXX object tree/CMakeFiles/tree.dir/constrainttree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/candidateset.cpp.o -MF CMakeFiles/tree.dir/candidateset.cpp.o.d -o CMakeFiles/tree.dir/candidateset.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/candidateset.cpp [ 86%] Building CXX object tree/CMakeFiles/tree.dir/iqtree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/constrainttree.cpp.o -MF CMakeFiles/tree.dir/constrainttree.cpp.o.d -o CMakeFiles/tree.dir/constrainttree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/constrainttree.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/iqtree.cpp.o -MF CMakeFiles/tree.dir/iqtree.cpp.o.d -o CMakeFiles/tree.dir/iqtree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/iqtree.cpp [ 87%] Building CXX object tree/CMakeFiles/tree.dir/iqtreemix.cpp.o [ 87%] Building CXX object tree/CMakeFiles/tree.dir/iqtreemixhmm.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/iqtreemixhmm.cpp.o -MF CMakeFiles/tree.dir/iqtreemixhmm.cpp.o.d -o CMakeFiles/tree.dir/iqtreemixhmm.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/iqtreemixhmm.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/iqtreemix.cpp.o -MF CMakeFiles/tree.dir/iqtreemix.cpp.o.d -o CMakeFiles/tree.dir/iqtreemix.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/iqtreemix.cpp [ 87%] Building CXX object tree/CMakeFiles/tree.dir/matree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/matree.cpp.o -MF CMakeFiles/tree.dir/matree.cpp.o.d -o CMakeFiles/tree.dir/matree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/matree.cpp [ 87%] Building CXX object tree/CMakeFiles/tree.dir/memslot.cpp.o [ 88%] Building CXX object tree/CMakeFiles/tree.dir/mexttree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/memslot.cpp.o -MF CMakeFiles/tree.dir/memslot.cpp.o.d -o CMakeFiles/tree.dir/memslot.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/memslot.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/mexttree.cpp.o -MF CMakeFiles/tree.dir/mexttree.cpp.o.d -o CMakeFiles/tree.dir/mexttree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/mexttree.cpp [ 88%] Building CXX object tree/CMakeFiles/tree.dir/mtree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/mtree.cpp.o -MF CMakeFiles/tree.dir/mtree.cpp.o.d -o CMakeFiles/tree.dir/mtree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/mtree.cpp [ 88%] Building CXX object tree/CMakeFiles/tree.dir/mtreeset.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/mtreeset.cpp.o -MF CMakeFiles/tree.dir/mtreeset.cpp.o.d -o CMakeFiles/tree.dir/mtreeset.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/mtreeset.cpp [ 89%] Building CXX object tree/CMakeFiles/tree.dir/ncbitree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/ncbitree.cpp.o -MF CMakeFiles/tree.dir/ncbitree.cpp.o.d -o CMakeFiles/tree.dir/ncbitree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/ncbitree.cpp [ 89%] Building CXX object tree/CMakeFiles/tree.dir/node.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/node.cpp.o -MF CMakeFiles/tree.dir/node.cpp.o.d -o CMakeFiles/tree.dir/node.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/node.cpp [ 89%] Building CXX object tree/CMakeFiles/tree.dir/genomenode.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/genomenode.cpp.o -MF CMakeFiles/tree.dir/genomenode.cpp.o.d -o CMakeFiles/tree.dir/genomenode.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/genomenode.cpp [ 90%] Building CXX object tree/CMakeFiles/tree.dir/genometree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/genometree.cpp.o -MF CMakeFiles/tree.dir/genometree.cpp.o.d -o CMakeFiles/tree.dir/genometree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/genometree.cpp [ 90%] Building CXX object tree/CMakeFiles/tree.dir/phylonode.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/phylonode.cpp.o -MF CMakeFiles/tree.dir/phylonode.cpp.o.d -o CMakeFiles/tree.dir/phylonode.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylonode.cpp [ 90%] Building CXX object tree/CMakeFiles/tree.dir/phylonodemixlen.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/phylonodemixlen.cpp.o -MF CMakeFiles/tree.dir/phylonodemixlen.cpp.o.d -o CMakeFiles/tree.dir/phylonodemixlen.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylonodemixlen.cpp [ 91%] Building CXX object tree/CMakeFiles/tree.dir/phylosuperhmm.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/phylosuperhmm.cpp.o -MF CMakeFiles/tree.dir/phylosuperhmm.cpp.o.d -o CMakeFiles/tree.dir/phylosuperhmm.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylosuperhmm.cpp [ 91%] Building CXX object tree/CMakeFiles/tree.dir/phylosupertree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/phylosupertree.cpp.o -MF CMakeFiles/tree.dir/phylosupertree.cpp.o.d -o CMakeFiles/tree.dir/phylosupertree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylosupertree.cpp [ 91%] Building CXX object tree/CMakeFiles/tree.dir/phylosupertreeplen.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/phylosupertreeplen.cpp.o -MF CMakeFiles/tree.dir/phylosupertreeplen.cpp.o.d -o CMakeFiles/tree.dir/phylosupertreeplen.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylosupertreeplen.cpp [ 92%] Building CXX object tree/CMakeFiles/tree.dir/phylosupertreeunlinked.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/phylosupertreeunlinked.cpp.o -MF CMakeFiles/tree.dir/phylosupertreeunlinked.cpp.o.d -o CMakeFiles/tree.dir/phylosupertreeunlinked.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylosupertreeunlinked.cpp [ 92%] Building CXX object tree/CMakeFiles/tree.dir/phylotree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/phylotree.cpp.o -MF CMakeFiles/tree.dir/phylotree.cpp.o.d -o CMakeFiles/tree.dir/phylotree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylotree.cpp [ 92%] Building CXX object tree/CMakeFiles/tree.dir/phylotreemixlen.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/phylotreemixlen.cpp.o -MF CMakeFiles/tree.dir/phylotreemixlen.cpp.o.d -o CMakeFiles/tree.dir/phylotreemixlen.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylotreemixlen.cpp [ 93%] Building CXX object tree/CMakeFiles/tree.dir/phylotreepars.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/phylotreepars.cpp.o -MF CMakeFiles/tree.dir/phylotreepars.cpp.o.d -o CMakeFiles/tree.dir/phylotreepars.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylotreepars.cpp [ 93%] Building CXX object tree/CMakeFiles/tree.dir/phylotreesse.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/phylotreesse.cpp.o -MF CMakeFiles/tree.dir/phylotreesse.cpp.o.d -o CMakeFiles/tree.dir/phylotreesse.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylotreesse.cpp [ 93%] Building CXX object tree/CMakeFiles/tree.dir/quartet.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/quartet.cpp.o -MF CMakeFiles/tree.dir/quartet.cpp.o.d -o CMakeFiles/tree.dir/quartet.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/quartet.cpp [ 94%] Building CXX object tree/CMakeFiles/tree.dir/supernode.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/supernode.cpp.o -MF CMakeFiles/tree.dir/supernode.cpp.o.d -o CMakeFiles/tree.dir/supernode.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/supernode.cpp [ 94%] Building CXX object tree/CMakeFiles/tree.dir/tinatree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/tinatree.cpp.o -MF CMakeFiles/tree.dir/tinatree.cpp.o.d -o CMakeFiles/tree.dir/tinatree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/tinatree.cpp [ 94%] Building CXX object tree/CMakeFiles/tree.dir/parstree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/parstree.cpp.o -MF CMakeFiles/tree.dir/parstree.cpp.o.d -o CMakeFiles/tree.dir/parstree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/parstree.cpp [ 95%] Building CXX object tree/CMakeFiles/tree.dir/discordance.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/discordance.cpp.o -MF CMakeFiles/tree.dir/discordance.cpp.o.d -o CMakeFiles/tree.dir/discordance.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/discordance.cpp [ 95%] Building CXX object tree/CMakeFiles/tree.dir/phylohmm.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/phylohmm.cpp.o -MF CMakeFiles/tree.dir/phylohmm.cpp.o.d -o CMakeFiles/tree.dir/phylohmm.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylohmm.cpp [ 95%] Linking CXX static library libtree.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/tree && /usr/bin/cmake -P CMakeFiles/tree.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/tree && /usr/bin/cmake -E cmake_link_script CMakeFiles/tree.dir/link.txt --verbose=1 /usr/bin/ar qc libtree.a CMakeFiles/tree.dir/constrainttree.cpp.o CMakeFiles/tree.dir/candidateset.cpp.o CMakeFiles/tree.dir/iqtree.cpp.o CMakeFiles/tree.dir/iqtreemix.cpp.o CMakeFiles/tree.dir/iqtreemixhmm.cpp.o CMakeFiles/tree.dir/matree.cpp.o CMakeFiles/tree.dir/memslot.cpp.o CMakeFiles/tree.dir/mexttree.cpp.o CMakeFiles/tree.dir/mtree.cpp.o CMakeFiles/tree.dir/mtreeset.cpp.o CMakeFiles/tree.dir/ncbitree.cpp.o CMakeFiles/tree.dir/node.cpp.o CMakeFiles/tree.dir/genomenode.cpp.o CMakeFiles/tree.dir/genometree.cpp.o CMakeFiles/tree.dir/phylonode.cpp.o CMakeFiles/tree.dir/phylonodemixlen.cpp.o CMakeFiles/tree.dir/phylosuperhmm.cpp.o CMakeFiles/tree.dir/phylosupertree.cpp.o CMakeFiles/tree.dir/phylosupertreeplen.cpp.o CMakeFiles/tree.dir/phylosupertreeunlinked.cpp.o CMakeFiles/tree.dir/phylotree.cpp.o CMakeFiles/tree.dir/phylotreemixlen.cpp.o CMakeFiles/tree.dir/phylotreepars.cpp.o CMakeFiles/tree.dir/phylotreesse.cpp.o CMakeFiles/tree.dir/quartet.cpp.o CMakeFiles/tree.dir/supernode.cpp.o CMakeFiles/tree.dir/tinatree.cpp.o CMakeFiles/tree.dir/parstree.cpp.o CMakeFiles/tree.dir/discordance.cpp.o CMakeFiles/tree.dir/phylohmm.cpp.o /usr/bin/ranlib libtree.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 95%] Built target tree make -f terrace/CMakeFiles/terrace.dir/build.make terrace/CMakeFiles/terrace.dir/depend make -f terracetphast/CMakeFiles/terracetphast.dir/build.make terracetphast/CMakeFiles/terracetphast.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/terrace /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/terrace /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/terrace/CMakeFiles/terrace.dir/DependInfo.cmake "--color=" terrace make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/terracetphast /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/terracetphast /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/terracetphast/CMakeFiles/terracetphast.dir/DependInfo.cmake "--color=" terracetphast make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make -f terrace/CMakeFiles/terrace.dir/build.make terrace/CMakeFiles/terrace.dir/build make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make -f terracetphast/CMakeFiles/terracetphast.dir/build.make terracetphast/CMakeFiles/terracetphast.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 95%] Building CXX object terrace/CMakeFiles/terrace.dir/terracetree.cpp.o [ 97%] Building CXX object terracetphast/CMakeFiles/terracetphast.dir/terracetphast.cpp.o [ 97%] Building CXX object terrace/CMakeFiles/terrace.dir/presenceabsencematrix.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/terrace && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -MD -MT terrace/CMakeFiles/terrace.dir/terracetree.cpp.o -MF CMakeFiles/terrace.dir/terracetree.cpp.o.d -o CMakeFiles/terrace.dir/terracetree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terrace/terracetree.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/terrace && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -MD -MT terrace/CMakeFiles/terrace.dir/presenceabsencematrix.cpp.o -MF CMakeFiles/terrace.dir/presenceabsencematrix.cpp.o.d -o CMakeFiles/terrace.dir/presenceabsencematrix.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terrace/presenceabsencematrix.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/terracetphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT terracetphast/CMakeFiles/terracetphast.dir/terracetphast.cpp.o -MF CMakeFiles/terracetphast.dir/terracetphast.cpp.o.d -o CMakeFiles/terracetphast.dir/terracetphast.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terracetphast/terracetphast.cpp [ 97%] Building CXX object terrace/CMakeFiles/terrace.dir/terracenode.cpp.o [ 97%] Building CXX object terrace/CMakeFiles/terrace.dir/terrace.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/terrace && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -MD -MT terrace/CMakeFiles/terrace.dir/terracenode.cpp.o -MF CMakeFiles/terrace.dir/terracenode.cpp.o.d -o CMakeFiles/terrace.dir/terracenode.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terrace/terracenode.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/terrace && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -MD -MT terrace/CMakeFiles/terrace.dir/terrace.cpp.o -MF CMakeFiles/terrace.dir/terrace.cpp.o.d -o CMakeFiles/terrace.dir/terrace.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terrace/terrace.cpp [ 97%] Linking CXX static library libterracetphast.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/terracetphast && /usr/bin/cmake -P CMakeFiles/terracetphast.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/terracetphast && /usr/bin/cmake -E cmake_link_script CMakeFiles/terracetphast.dir/link.txt --verbose=1 /usr/bin/ar qc libterracetphast.a CMakeFiles/terracetphast.dir/terracetphast.cpp.o /usr/bin/ranlib libterracetphast.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 97%] Built target terracetphast [ 97%] Linking CXX static library libterrace.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/terrace && /usr/bin/cmake -P CMakeFiles/terrace.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/terrace && /usr/bin/cmake -E cmake_link_script CMakeFiles/terrace.dir/link.txt --verbose=1 /usr/bin/ar qc libterrace.a CMakeFiles/terrace.dir/terracenode.cpp.o CMakeFiles/terrace.dir/terracetree.cpp.o CMakeFiles/terrace.dir/presenceabsencematrix.cpp.o CMakeFiles/terrace.dir/terrace.cpp.o /usr/bin/ranlib libterrace.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 97%] Built target terrace make -f main/CMakeFiles/main.dir/build.make main/CMakeFiles/main.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/main /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/main /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/main/CMakeFiles/main.dir/DependInfo.cmake "--color=" main make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make -f main/CMakeFiles/main.dir/build.make main/CMakeFiles/main.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [ 98%] Building CXX object main/CMakeFiles/main.dir/phylotesting.cpp.o [ 98%] Building CXX object main/CMakeFiles/main.dir/phyloanalysis.cpp.o [ 98%] Building CXX object main/CMakeFiles/main.dir/main.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/main && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT main/CMakeFiles/main.dir/phyloanalysis.cpp.o -MF CMakeFiles/main.dir/phyloanalysis.cpp.o.d -o CMakeFiles/main.dir/phyloanalysis.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/main/phyloanalysis.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/main && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT main/CMakeFiles/main.dir/phylotesting.cpp.o -MF CMakeFiles/main.dir/phylotesting.cpp.o.d -o CMakeFiles/main.dir/phylotesting.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/main/phylotesting.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/main && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT main/CMakeFiles/main.dir/main.cpp.o -MF CMakeFiles/main.dir/main.cpp.o.d -o CMakeFiles/main.dir/main.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/main/main.cpp [ 98%] Building CXX object main/CMakeFiles/main.dir/timetree.cpp.o [100%] Building CXX object main/CMakeFiles/main.dir/alisim.cpp.o [100%] Building CXX object main/CMakeFiles/main.dir/treetesting.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/main && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT main/CMakeFiles/main.dir/alisim.cpp.o -MF CMakeFiles/main.dir/alisim.cpp.o.d -o CMakeFiles/main.dir/alisim.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/main/alisim.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/main && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT main/CMakeFiles/main.dir/treetesting.cpp.o -MF CMakeFiles/main.dir/treetesting.cpp.o.d -o CMakeFiles/main.dir/treetesting.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/main/treetesting.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/main && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT main/CMakeFiles/main.dir/timetree.cpp.o -MF CMakeFiles/main.dir/timetree.cpp.o.d -o CMakeFiles/main.dir/timetree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/main/timetree.cpp /build/reproducible-path/iqtree-3.0.1+dfsg/main/main.cpp:132:25: warning: macro ‘__DATE__’ might prevent reproducible builds [-Wdate-time] 132 | out << " built " << __DATE__; | ^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/main/phyloanalysis.cpp:1428:53: warning: macro ‘__DATE__’ might prevent reproducible builds [-Wdate-time] 1428 | << iqtree_VERSION_PATCH << " built " << __DATE__ << endl | ^~~~~~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/sequence.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/alignment.h:2, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/tree.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/cmaple.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/main/phyloanalysis.h:34, from /build/reproducible-path/iqtree-3.0.1+dfsg/main/phylotesting.cpp:42: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/sequence.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/alignment.h:2, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/tree.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/cmaple.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/main/phyloanalysis.h:34, from /build/reproducible-path/iqtree-3.0.1+dfsg/main/alisim.h:15, from /build/reproducible-path/iqtree-3.0.1+dfsg/main/alisim.cpp:8: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/sequence.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/alignment.h:2, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/tree.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/cmaple.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/main/phyloanalysis.h:34, from /build/reproducible-path/iqtree-3.0.1+dfsg/main/main.cpp:52: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ [100%] Building CXX object main/CMakeFiles/main.dir/terraceanalysis.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/main && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT main/CMakeFiles/main.dir/terraceanalysis.cpp.o -MF CMakeFiles/main.dir/terraceanalysis.cpp.o.d -o CMakeFiles/main.dir/terraceanalysis.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/main/terraceanalysis.cpp In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/sequence.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/alignment.h:2, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/tree.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/cmaple.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/main/phyloanalysis.h:34, from /build/reproducible-path/iqtree-3.0.1+dfsg/main/phyloanalysis.cpp:32: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ [100%] Linking CXX static library libmain.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/main && /usr/bin/cmake -P CMakeFiles/main.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/main && /usr/bin/cmake -E cmake_link_script CMakeFiles/main.dir/link.txt --verbose=1 /usr/bin/ar qc libmain.a CMakeFiles/main.dir/main.cpp.o CMakeFiles/main.dir/phyloanalysis.cpp.o CMakeFiles/main.dir/phylotesting.cpp.o CMakeFiles/main.dir/treetesting.cpp.o CMakeFiles/main.dir/timetree.cpp.o CMakeFiles/main.dir/alisim.cpp.o CMakeFiles/main.dir/terraceanalysis.cpp.o /usr/bin/ranlib libmain.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [100%] Built target main make -f CMakeFiles/iqtree3.dir/build.make CMakeFiles/iqtree3.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/CMakeFiles/iqtree3.dir/DependInfo.cmake "--color=" iqtree3 make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' make -f CMakeFiles/iqtree3.dir/build.make CMakeFiles/iqtree3.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [100%] Building CXX object CMakeFiles/iqtree3.dir/obsolete/parsmultistate.cpp.o /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT CMakeFiles/iqtree3.dir/obsolete/parsmultistate.cpp.o -MF CMakeFiles/iqtree3.dir/obsolete/parsmultistate.cpp.o.d -o CMakeFiles/iqtree3.dir/obsolete/parsmultistate.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/obsolete/parsmultistate.cpp [100%] Linking CXX executable iqtree3 /usr/bin/cmake -E cmake_link_script CMakeFiles/iqtree3.dir/link.txt --verbose=1 cmaple/tree/./cmaple/tree/../alignment/../model/../utils/matrix.h: In function ‘mul4’: cmaple/tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:132:22: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] In function ‘resetVec’, inlined from ‘resetLhVecExceptState’ at cmaple/tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:271:21, inlined from ‘merge_RACGT_ORACGT_TwoLowers’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1295:38, inlined from ‘merge_notN_notN_TwoLowers’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1370:52, inlined from ‘mergeTwoLowers’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1459:49: cmaple/tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:264:20: warning: ‘__builtin_memset’ writing 160 bytes into a region of size 32 overflows the destination [-Wstringop-overflow=] In function ‘make_unique’, inlined from ‘merge_RACGT_ORACGT_TwoLowers’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1284:8, inlined from ‘merge_notN_notN_TwoLowers’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1370:52, inlined from ‘mergeTwoLowers’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1459:49: cmaple/tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ cmaple/tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ cmaple/tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ cmaple/tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ cmaple/tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ In function ‘resetVec’, inlined from ‘resetLhVecExceptState’ at cmaple/tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:271:21, inlined from ‘calSiteLhs_RACGT_ORACGT’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1975:38, inlined from ‘calSiteLhs_notN_notN’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:2051:47, inlined from ‘calculateSiteLhContributions’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:2141:44: cmaple/tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:264:20: warning: ‘__builtin_memset’ writing 160 bytes into a region of size 32 overflows the destination [-Wstringop-overflow=] In function ‘make_unique’, inlined from ‘calSiteLhs_RACGT_ORACGT’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1964:8, inlined from ‘calSiteLhs_notN_notN’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:2051:47, inlined from ‘calculateSiteLhContributions’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:2141:44: cmaple/tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ cmaple/tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ cmaple/tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ cmaple/tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ In function ‘resetVec’, inlined from ‘resetLhVecExceptState’ at cmaple/tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:271:21, inlined from ‘merge_O_ORACGT’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:744:54, inlined from ‘mergeUpperLower’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1006:35: cmaple/tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:264:20: warning: ‘__builtin_memset’ writing 160 bytes into a region of size 32 overflows the destination [-Wstringop-overflow=] In function ‘make_unique’, inlined from ‘merge_O_ORACGT’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:708:8, inlined from ‘mergeUpperLower’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1006:35: cmaple/tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ In function ‘resetVec’, inlined from ‘resetLhVecExceptState’ at cmaple/tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:271:21, inlined from ‘merge_RACGT_RACGT’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:811:51, inlined from ‘merge_RACGT_ORACGT’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:887:34, inlined from ‘mergeUpperLower’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1012:39: cmaple/tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:264:20: warning: ‘__builtin_memset’ writing 160 bytes into a region of size 32 overflows the destination [-Wstringop-overflow=] In function ‘make_unique’, inlined from ‘merge_RACGT_ORACGT’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:843:8, inlined from ‘mergeUpperLower’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1012:39: cmaple/tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -Wl,-z,relro -Wl,-z,now -rdynamic -Wl,--dependency-file=CMakeFiles/iqtree3.dir/link.d CMakeFiles/iqtree3.dir/obsolete/parsmultistate.cpp.o -o iqtree3 -L/build/reproducible-path/iqtree-3.0.1+dfsg/lib -Wl,-rpath,/build/reproducible-path/iqtree-3.0.1+dfsg/lib: booster/libbooster.a pll/libpll.a ncl/libncl.a nclextra/libnclextra.a utils/libutils.a pda/libpda.a lbfgsb/liblbfgsb.a whtest/libwhtest.a sprng/libsprng.a vectorclass/libvectorclass.a model/libmodel.a gsl/libgsl.a alignment/libalignment.a tree/libtree.a simulator/libsimulator.a terrace/libterrace.a -lyaml-cpp phylo-yaml/libphyloYAML.a main/libmain.a cmaple/maple/libmaple.a -lm terracetphast/libterracetphast.a lsd2/liblsd2.a libkernelsse.a pll/libpllavx.a libkernelavx.a libkernelfma.a -lyaml-cpp booster/libbooster.a pda/libpda.a whtest/libwhtest.a vectorclass/libvectorclass.a terrace/libterrace.a cmaple/tree/libcmaple_tree.a cmaple/model/libcmaple_model.a nclextra/libnclextra.a cmaple/alignment/libcmaple_alignment.a cmaple/utils/libcmaple_utils.a tree/libtree.a pll/libpll.a alignment/libalignment.a simulator/libsimulator.a alignment/libalignment.a simulator/libsimulator.a ncl/libncl.a model/libmodel.a utils/libutils.a lbfgsb/liblbfgsb.a sprng/libsprng.a /usr/lib/x86_64-linux-gnu/libz.so gsl/libgsl.a terraphast/libterraphast.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' [100%] Built target iqtree3 make[3]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/CMakeFiles 0 make[2]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.omp' # restore the old naming to avoid name space conflict with serial build if [ -x build.omp/iqtree3 ] ; then mv build.omp/iqtree3 build.omp/iqtree3-omp ; fi dh_auto_build -Bbuild.serial cd build.serial && make -j6 INSTALL="install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' /usr/bin/cmake -S/build/reproducible-path/iqtree-3.0.1+dfsg -B/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/CMakeFiles /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make -f CMakeFiles/kernelsse.dir/build.make CMakeFiles/kernelsse.dir/depend make -f CMakeFiles/kernelavx.dir/build.make CMakeFiles/kernelavx.dir/depend make -f CMakeFiles/kernelfma.dir/build.make CMakeFiles/kernelfma.dir/depend make -f lsd2/CMakeFiles/lsd2.dir/build.make lsd2/CMakeFiles/lsd2.dir/depend make -f booster/CMakeFiles/booster.dir/build.make 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/build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/pll /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pll /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pll/CMakeFiles/pllavx.dir/DependInfo.cmake "--color=" pllavx make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2 /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/lsd2 /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/lsd2/CMakeFiles/lsd2.dir/DependInfo.cmake "--color=" lsd2 cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/booster /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/booster /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/booster/CMakeFiles/booster.dir/DependInfo.cmake "--color=" booster make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make -f CMakeFiles/kernelsse.dir/build.make CMakeFiles/kernelsse.dir/build make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make -f CMakeFiles/kernelfma.dir/build.make CMakeFiles/kernelfma.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make -f pll/CMakeFiles/pllavx.dir/build.make pll/CMakeFiles/pllavx.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make -f CMakeFiles/kernelavx.dir/build.make CMakeFiles/kernelavx.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 0%] Building CXX object CMakeFiles/kernelfma.dir/tree/phylokernelfma.cpp.o /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -D__AVX -mavx -fabi-version=0 -mfma -MD -MT CMakeFiles/kernelfma.dir/tree/phylokernelfma.cpp.o -MF CMakeFiles/kernelfma.dir/tree/phylokernelfma.cpp.o.d -o CMakeFiles/kernelfma.dir/tree/phylokernelfma.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylokernelfma.cpp [ 0%] Building C object pll/CMakeFiles/pllavx.dir/avxLikelihood.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -D__AVX -mavx -fabi-version=0 -MD -MT pll/CMakeFiles/pllavx.dir/avxLikelihood.c.o -MF CMakeFiles/pllavx.dir/avxLikelihood.c.o.d -o CMakeFiles/pllavx.dir/avxLikelihood.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/avxLikelihood.c make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make -f booster/CMakeFiles/booster.dir/build.make booster/CMakeFiles/booster.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make -f lsd2/CMakeFiles/lsd2.dir/build.make lsd2/CMakeFiles/lsd2.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 1%] Building CXX object CMakeFiles/kernelsse.dir/tree/phylokernelsse.cpp.o [ 1%] Building CXX object CMakeFiles/kernelavx.dir/tree/phylotreeavx.cpp.o /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -D__AVX -mavx -fabi-version=0 -MD -MT CMakeFiles/kernelavx.dir/tree/phylotreeavx.cpp.o -MF CMakeFiles/kernelavx.dir/tree/phylotreeavx.cpp.o.d -o CMakeFiles/kernelavx.dir/tree/phylotreeavx.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylotreeavx.cpp /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT CMakeFiles/kernelsse.dir/tree/phylokernelsse.cpp.o -MF CMakeFiles/kernelsse.dir/tree/phylokernelsse.cpp.o.d -o CMakeFiles/kernelsse.dir/tree/phylokernelsse.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylokernelsse.cpp [ 1%] Building C object booster/CMakeFiles/booster.dir/bitset_index.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/booster && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT booster/CMakeFiles/booster.dir/bitset_index.c.o -MF CMakeFiles/booster.dir/bitset_index.c.o.d -o CMakeFiles/booster.dir/bitset_index.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/booster/bitset_index.c [ 1%] Building CXX object lsd2/CMakeFiles/lsd2.dir/src/confidence_interval.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/lsd2 && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT lsd2/CMakeFiles/lsd2.dir/src/confidence_interval.cpp.o -MF CMakeFiles/lsd2.dir/src/confidence_interval.cpp.o.d -o CMakeFiles/lsd2.dir/src/confidence_interval.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/confidence_interval.cpp [ 1%] Building C object booster/CMakeFiles/booster.dir/hashmap.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/booster && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT booster/CMakeFiles/booster.dir/hashmap.c.o -MF CMakeFiles/booster.dir/hashmap.c.o.d -o CMakeFiles/booster.dir/hashmap.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/booster/hashmap.c [ 2%] Building C object booster/CMakeFiles/booster.dir/io.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/booster && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT booster/CMakeFiles/booster.dir/io.c.o -MF CMakeFiles/booster.dir/io.c.o.d -o CMakeFiles/booster.dir/io.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/booster/io.c [ 2%] Building C object booster/CMakeFiles/booster.dir/sort.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/booster && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT booster/CMakeFiles/booster.dir/sort.c.o -MF CMakeFiles/booster.dir/sort.c.o.d -o CMakeFiles/booster.dir/sort.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/booster/sort.c [ 2%] Building C object booster/CMakeFiles/booster.dir/tree.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/booster && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT booster/CMakeFiles/booster.dir/tree.c.o -MF CMakeFiles/booster.dir/tree.c.o.d -o CMakeFiles/booster.dir/tree.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/booster/tree.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/avxLikelihood.c:60: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 3%] Building C object booster/CMakeFiles/booster.dir/booster.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/booster && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT booster/CMakeFiles/booster.dir/booster.c.o -MF CMakeFiles/booster.dir/booster.c.o.d -o CMakeFiles/booster.dir/booster.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/booster/booster.c [ 3%] Building C object booster/CMakeFiles/booster.dir/hashtables_bfields.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/booster && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT booster/CMakeFiles/booster.dir/hashtables_bfields.c.o -MF CMakeFiles/booster.dir/hashtables_bfields.c.o.d -o CMakeFiles/booster.dir/hashtables_bfields.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/booster/hashtables_bfields.c [ 4%] Linking C static library libpllavx.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pll && /usr/bin/cmake -P CMakeFiles/pllavx.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pll && /usr/bin/cmake -E cmake_link_script CMakeFiles/pllavx.dir/link.txt --verbose=1 /usr/bin/ar qc libpllavx.a CMakeFiles/pllavx.dir/avxLikelihood.c.o /usr/bin/ranlib libpllavx.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 4%] Built target pllavx [ 4%] Building CXX object lsd2/CMakeFiles/lsd2.dir/src/dating.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/lsd2 && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT lsd2/CMakeFiles/lsd2.dir/src/dating.cpp.o -MF CMakeFiles/lsd2.dir/src/dating.cpp.o.d -o CMakeFiles/lsd2.dir/src/dating.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/dating.cpp [ 4%] Building C object booster/CMakeFiles/booster.dir/prng.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/booster && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT booster/CMakeFiles/booster.dir/prng.c.o -MF CMakeFiles/booster.dir/prng.c.o.d -o CMakeFiles/booster.dir/prng.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/booster/prng.c [ 5%] Building C object booster/CMakeFiles/booster.dir/stats.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/booster && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT booster/CMakeFiles/booster.dir/stats.c.o -MF CMakeFiles/booster.dir/stats.c.o.d -o CMakeFiles/booster.dir/stats.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/booster/stats.c [ 5%] Building C object booster/CMakeFiles/booster.dir/tree_utils.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/booster && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT booster/CMakeFiles/booster.dir/tree_utils.c.o -MF CMakeFiles/booster.dir/tree_utils.c.o.d -o CMakeFiles/booster.dir/tree_utils.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/booster/tree_utils.c [ 5%] Linking C static library libbooster.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/booster && /usr/bin/cmake -P CMakeFiles/booster.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/booster && /usr/bin/cmake -E cmake_link_script CMakeFiles/booster.dir/link.txt --verbose=1 /usr/bin/ar qc libbooster.a CMakeFiles/booster.dir/bitset_index.c.o CMakeFiles/booster.dir/hashmap.c.o CMakeFiles/booster.dir/io.c.o CMakeFiles/booster.dir/sort.c.o CMakeFiles/booster.dir/tree.c.o CMakeFiles/booster.dir/booster.c.o CMakeFiles/booster.dir/hashtables_bfields.c.o CMakeFiles/booster.dir/prng.c.o CMakeFiles/booster.dir/stats.c.o CMakeFiles/booster.dir/tree_utils.c.o /usr/bin/ranlib libbooster.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 5%] Built target booster make -f pll/CMakeFiles/pll.dir/build.make pll/CMakeFiles/pll.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/pll /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pll /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pll/CMakeFiles/pll.dir/DependInfo.cmake "--color=" pll make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make -f pll/CMakeFiles/pll.dir/build.make pll/CMakeFiles/pll.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 5%] Building C object pll/CMakeFiles/pll.dir/alignment.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/alignment.c.o -MF CMakeFiles/pll.dir/alignment.c.o.d -o CMakeFiles/pll.dir/alignment.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/alignment.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/alignment.c:40: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 6%] Building C object pll/CMakeFiles/pll.dir/bipartitionList.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/bipartitionList.c.o -MF CMakeFiles/pll.dir/bipartitionList.c.o.d -o CMakeFiles/pll.dir/bipartitionList.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/bipartitionList.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/bipartitionList.c:43: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/bipartitionList.c:29: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/bipartitionList.c: In function ‘insertHashRF’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/bipartitionList.c:326:3: note: in expansion of macro ‘rax_posix_memalign’ 326 | rax_posix_memalign ((void **)&(e->bitVector), PLL_BYTE_ALIGNMENT, (size_t)vectorLength * sizeof(unsigned int)); | ^~~~~~~~~~~~~~~~~~ [ 6%] Building C object pll/CMakeFiles/pll.dir/evaluateGenericSpecial.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/evaluateGenericSpecial.c.o -MF CMakeFiles/pll.dir/evaluateGenericSpecial.c.o.d -o CMakeFiles/pll.dir/evaluateGenericSpecial.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluateGenericSpecial.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluateGenericSpecial.c:42: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 7%] Building CXX object lsd2/CMakeFiles/lsd2.dir/src/estimate_root.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/lsd2 && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT lsd2/CMakeFiles/lsd2.dir/src/estimate_root.cpp.o -MF CMakeFiles/lsd2.dir/src/estimate_root.cpp.o.d -o CMakeFiles/lsd2.dir/src/estimate_root.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/estimate_root.cpp make -f ncl/CMakeFiles/ncl.dir/build.make ncl/CMakeFiles/ncl.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/ncl /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/ncl /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/ncl/CMakeFiles/ncl.dir/DependInfo.cmake "--color=" ncl make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make -f ncl/CMakeFiles/ncl.dir/build.make ncl/CMakeFiles/ncl.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 7%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsassumptionsblock.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxsassumptionsblock.cpp.o -MF CMakeFiles/ncl.dir/nxsassumptionsblock.cpp.o.d -o CMakeFiles/ncl.dir/nxsassumptionsblock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxsassumptionsblock.cpp [ 7%] Building C object pll/CMakeFiles/pll.dir/evaluatePartialGenericSpecial.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/evaluatePartialGenericSpecial.c.o -MF CMakeFiles/pll.dir/evaluatePartialGenericSpecial.c.o.d -o CMakeFiles/pll.dir/evaluatePartialGenericSpecial.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluatePartialGenericSpecial.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluatePartialGenericSpecial.c:42: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluatePartialGenericSpecial.c:31: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluatePartialGenericSpecial.c: In function ‘evaluatePartialGTRCAT’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluatePartialGenericSpecial.c:1173:3: note: in expansion of macro ‘rax_posix_memalign’ 1173 | rax_posix_memalign ((void **) &lVector, PLL_BYTE_ALIGNMENT, sizeof(double) * 4 * mxtips); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluatePartialGenericSpecial.c: In function ‘evaluatePartialGTRGAMMA’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluatePartialGenericSpecial.c:1015:3: note: in expansion of macro ‘rax_posix_memalign’ 1015 | rax_posix_memalign ((void **)&lVector, PLL_BYTE_ALIGNMENT, sizeof(double) * 16 * mxtips); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluatePartialGenericSpecial.c: In function ‘evaluatePartialGTRCATPROT’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluatePartialGenericSpecial.c:1324:3: note: in expansion of macro ‘rax_posix_memalign’ 1324 | rax_posix_memalign ((void **)&lVector, PLL_BYTE_ALIGNMENT, sizeof(double) * 20 * mxtips); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluatePartialGenericSpecial.c: In function ‘evaluatePartialGTRGAMMAPROT’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluatePartialGenericSpecial.c:934:3: note: in expansion of macro ‘rax_posix_memalign’ 934 | rax_posix_memalign ((void **)&lVector, PLL_BYTE_ALIGNMENT, sizeof(double) * 80 * mxtips); | ^~~~~~~~~~~~~~~~~~ [ 8%] Building C object pll/CMakeFiles/pll.dir/fastDNAparsimony.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/fastDNAparsimony.c.o -MF CMakeFiles/pll.dir/fastDNAparsimony.c.o.d -o CMakeFiles/pll.dir/fastDNAparsimony.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/fastDNAparsimony.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/fastDNAparsimony.c:115: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/fastDNAparsimony.c:29: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/fastDNAparsimony.c: In function ‘compressDNA’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/fastDNAparsimony.c:1701:7: note: in expansion of macro ‘rax_posix_memalign’ 1701 | rax_posix_memalign ((void **) &(pr->partitionData[model]->parsVect), PLL_BYTE_ALIGNMENT, (size_t)compressedEntriesPadded * states * totalNodes * sizeof(parsimonyNumber)); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/fastDNAparsimony.c:1777:3: note: in expansion of macro ‘rax_posix_memalign’ 1777 | rax_posix_memalign ((void **) &(tr->parsimonyScore), PLL_BYTE_ALIGNMENT, sizeof(unsigned int) * totalNodes); | ^~~~~~~~~~~~~~~~~~ [ 9%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsblock.cpp.o [ 9%] Building C object pll/CMakeFiles/pll.dir/hardware.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxsblock.cpp.o -MF CMakeFiles/ncl.dir/nxsblock.cpp.o.d -o CMakeFiles/ncl.dir/nxsblock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxsblock.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/hardware.c.o -MF CMakeFiles/pll.dir/hardware.c.o.d -o CMakeFiles/pll.dir/hardware.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/hardware.c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/hardware.c: In function ‘pll_probe_cpu’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/hardware.c:97:9: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 97 | fscanf (fd, "%d", &id); | ^~~~~~~~~~~~~~~~~~~~~~ [ 9%] Building C object pll/CMakeFiles/pll.dir/hash.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/hash.c.o -MF CMakeFiles/pll.dir/hash.c.o.d -o CMakeFiles/pll.dir/hash.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/hash.c [ 10%] Building C object pll/CMakeFiles/pll.dir/lexer.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/lexer.c.o -MF CMakeFiles/pll.dir/lexer.c.o.d -o CMakeFiles/pll.dir/lexer.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/lexer.c [ 10%] Building C object pll/CMakeFiles/pll.dir/makenewzGenericSpecial.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/makenewzGenericSpecial.c.o -MF CMakeFiles/pll.dir/makenewzGenericSpecial.c.o.d -o CMakeFiles/pll.dir/makenewzGenericSpecial.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/makenewzGenericSpecial.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/makenewzGenericSpecial.c:41: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/makenewzGenericSpecial.c:29: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/makenewzGenericSpecial.c: In function ‘coreGTRCAT’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/makenewzGenericSpecial.c:2686:3: note: in expansion of macro ‘rax_posix_memalign’ 2686 | rax_posix_memalign ((void **) &d_start, PLL_BYTE_ALIGNMENT, numberOfCategories * 4 * sizeof(double)); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/makenewzGenericSpecial.c: In function ‘coreGTRCATPROT’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/makenewzGenericSpecial.c:3061:3: note: in expansion of macro ‘rax_posix_memalign’ 3061 | rax_posix_memalign ((void **)&d_start, PLL_BYTE_ALIGNMENT, numberOfCategories * 20 * sizeof(double)); | ^~~~~~~~~~~~~~~~~~ [ 10%] Building CXX object ncl/CMakeFiles/ncl.dir/nxscharactersblock.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxscharactersblock.cpp.o -MF CMakeFiles/ncl.dir/nxscharactersblock.cpp.o.d -o CMakeFiles/ncl.dir/nxscharactersblock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxscharactersblock.cpp [ 10%] Building C object pll/CMakeFiles/pll.dir/models.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/models.c.o -MF CMakeFiles/pll.dir/models.c.o.d -o CMakeFiles/pll.dir/models.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/models.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/models.c:47: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 10%] Building CXX object lsd2/CMakeFiles/lsd2.dir/src/lsd.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/lsd2 && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT lsd2/CMakeFiles/lsd2.dir/src/lsd.cpp.o -MF CMakeFiles/lsd2.dir/src/lsd.cpp.o.d -o CMakeFiles/lsd2.dir/src/lsd.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/lsd.cpp [ 11%] Building C object pll/CMakeFiles/pll.dir/newick.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/newick.c.o -MF CMakeFiles/pll.dir/newick.c.o.d -o CMakeFiles/pll.dir/newick.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newick.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newick.c:36: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 11%] Building C object pll/CMakeFiles/pll.dir/newviewGenericSpecial.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/newviewGenericSpecial.c.o -MF CMakeFiles/pll.dir/newviewGenericSpecial.c.o.d -o CMakeFiles/pll.dir/newviewGenericSpecial.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newviewGenericSpecial.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newviewGenericSpecial.c:46: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newviewGenericSpecial.c:32: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newviewGenericSpecial.c: In function ‘pllNewviewIterative’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newviewGenericSpecial.c:2766:13: note: in expansion of macro ‘rax_posix_memalign’ 2766 | rax_posix_memalign ((void **)&x3_start, PLL_BYTE_ALIGNMENT, requiredLength); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newviewGenericSpecial.c:2795:17: note: in expansion of macro ‘rax_posix_memalign’ 2795 | rax_posix_memalign ((void **)&ex3, PLL_BYTE_ALIGNMENT, requiredExpLength); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newviewGenericSpecial.c: In function ‘newviewAncestralIterative’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newviewGenericSpecial.c:3733:11: note: in expansion of macro ‘rax_posix_memalign’ 3733 | rax_posix_memalign ((void **)&diagptable, PLL_BYTE_ALIGNMENT, categories * states * states * sizeof(double)); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newviewGenericSpecial.c: In function ‘pllGetCLV’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newviewGenericSpecial.c:3803:3: note: in expansion of macro ‘rax_posix_memalign’ 3803 | rax_posix_memalign ((void **)&diagptable, PLL_BYTE_ALIGNMENT, categories * states * states * sizeof (double)); | ^~~~~~~~~~~~~~~~~~ [ 11%] Building CXX object lsd2/CMakeFiles/lsd2.dir/src/options.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/lsd2 && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT lsd2/CMakeFiles/lsd2.dir/src/options.cpp.o -MF CMakeFiles/lsd2.dir/src/options.cpp.o.d -o CMakeFiles/lsd2.dir/src/options.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/options.cpp [ 11%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdatablock.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxsdatablock.cpp.o -MF CMakeFiles/ncl.dir/nxsdatablock.cpp.o.d -o CMakeFiles/ncl.dir/nxsdatablock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxsdatablock.cpp /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/options.cpp: In function ‘Pr* getInterface()’: /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/options.cpp:306:14: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 306 | fgets(letter,3,stdin); | ~~~~~^~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/options.cpp:311:22: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 311 | fgets( letter1, 3, stdin ); | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/options.cpp:338:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 338 | fgets( letter, 3, stdin ); | ~~~~~^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/options.cpp:342:14: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 342 | fgets( letter, 3, stdin ); | ~~~~~^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/options.cpp: In function ‘void setOptionsWithLetter(Pr*, char)’: /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/options.cpp:872:22: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 872 | fgets(letter,3,stdin); | ~~~~~^~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/options.cpp:877:30: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 877 | fgets( letter1, 3, stdin ); | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/options.cpp:923:22: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 923 | fgets( letter, 3, stdin ); | ~~~~~^~~~~~~~~~~~~~~~~~~~ [ 12%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdiscretedatum.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxsdiscretedatum.cpp.o -MF CMakeFiles/ncl.dir/nxsdiscretedatum.cpp.o.d -o CMakeFiles/ncl.dir/nxsdiscretedatum.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxsdiscretedatum.cpp [ 12%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdiscretematrix.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxsdiscretematrix.cpp.o -MF CMakeFiles/ncl.dir/nxsdiscretematrix.cpp.o.d -o CMakeFiles/ncl.dir/nxsdiscretematrix.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxsdiscretematrix.cpp [ 12%] Building C object pll/CMakeFiles/pll.dir/genericParallelization.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/genericParallelization.c.o -MF CMakeFiles/pll.dir/genericParallelization.c.o.d -o CMakeFiles/pll.dir/genericParallelization.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/genericParallelization.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/genericParallelization.c:43: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 13%] Building C object pll/CMakeFiles/pll.dir/optimizeModel.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/optimizeModel.c.o -MF CMakeFiles/pll.dir/optimizeModel.c.o.d -o CMakeFiles/pll.dir/optimizeModel.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/optimizeModel.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/optimizeModel.c:44: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 13%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdistancedatum.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxsdistancedatum.cpp.o -MF CMakeFiles/ncl.dir/nxsdistancedatum.cpp.o.d -o CMakeFiles/ncl.dir/nxsdistancedatum.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxsdistancedatum.cpp [ 14%] Building CXX object lsd2/CMakeFiles/lsd2.dir/src/outliers.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/lsd2 && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT lsd2/CMakeFiles/lsd2.dir/src/outliers.cpp.o -MF CMakeFiles/lsd2.dir/src/outliers.cpp.o.d -o CMakeFiles/lsd2.dir/src/outliers.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/outliers.cpp [ 15%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdistancesblock.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxsdistancesblock.cpp.o -MF CMakeFiles/ncl.dir/nxsdistancesblock.cpp.o.d -o CMakeFiles/ncl.dir/nxsdistancesblock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxsdistancesblock.cpp [ 15%] Building C object pll/CMakeFiles/pll.dir/parsePartition.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/parsePartition.c.o -MF CMakeFiles/pll.dir/parsePartition.c.o.d -o CMakeFiles/pll.dir/parsePartition.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/parsePartition.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/parsePartition.c:42: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 15%] Building C object pll/CMakeFiles/pll.dir/queue.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/queue.c.o -MF CMakeFiles/pll.dir/queue.c.o.d -o CMakeFiles/pll.dir/queue.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/queue.c [ 16%] Building C object pll/CMakeFiles/pll.dir/randomTree.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/randomTree.c.o -MF CMakeFiles/pll.dir/randomTree.c.o.d -o CMakeFiles/pll.dir/randomTree.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/randomTree.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/randomTree.c:37: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 16%] Building C object pll/CMakeFiles/pll.dir/recom.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/recom.c.o -MF CMakeFiles/pll.dir/recom.c.o.d -o CMakeFiles/pll.dir/recom.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/recom.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/recom.c:41: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 16%] Building C object pll/CMakeFiles/pll.dir/restartHashTable.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/restartHashTable.c.o -MF CMakeFiles/pll.dir/restartHashTable.c.o.d -o CMakeFiles/pll.dir/restartHashTable.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/restartHashTable.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/restartHashTable.c:41: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 17%] Building C object pll/CMakeFiles/pll.dir/searchAlgo.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/searchAlgo.c.o -MF CMakeFiles/pll.dir/searchAlgo.c.o.d -o CMakeFiles/pll.dir/searchAlgo.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/searchAlgo.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/searchAlgo.c:45: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 17%] Building C object pll/CMakeFiles/pll.dir/ssort.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/ssort.c.o -MF CMakeFiles/pll.dir/ssort.c.o.d -o CMakeFiles/pll.dir/ssort.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/ssort.c [ 17%] Building C object pll/CMakeFiles/pll.dir/stack.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/stack.c.o -MF CMakeFiles/pll.dir/stack.c.o.d -o CMakeFiles/pll.dir/stack.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/stack.c [ 18%] Building C object pll/CMakeFiles/pll.dir/topologies.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/topologies.c.o -MF CMakeFiles/pll.dir/topologies.c.o.d -o CMakeFiles/pll.dir/topologies.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/topologies.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/topologies.c:42: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 18%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsemptyblock.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxsemptyblock.cpp.o -MF CMakeFiles/ncl.dir/nxsemptyblock.cpp.o.d -o CMakeFiles/ncl.dir/nxsemptyblock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxsemptyblock.cpp [ 18%] Building C object pll/CMakeFiles/pll.dir/trash.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/trash.c.o -MF CMakeFiles/pll.dir/trash.c.o.d -o CMakeFiles/pll.dir/trash.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/trash.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/trash.c:42: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 18%] Building C object pll/CMakeFiles/pll.dir/treeIO.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/treeIO.c.o -MF CMakeFiles/pll.dir/treeIO.c.o.d -o CMakeFiles/pll.dir/treeIO.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/treeIO.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/treeIO.c:41: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 20%] Building C object pll/CMakeFiles/pll.dir/utils.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/utils.c.o -MF CMakeFiles/pll.dir/utils.c.o.d -o CMakeFiles/pll.dir/utils.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:67: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:44: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c: In function ‘initializePartitionData’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:596:7: note: in expansion of macro ‘rax_posix_memalign’ 596 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->left), PLL_BYTE_ALIGNMENT, (size_t)pl->leftLength * (maxCategories + 1) * sizeof(double)); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:597:7: note: in expansion of macro ‘rax_posix_memalign’ 597 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->right), PLL_BYTE_ALIGNMENT, (size_t)pl->rightLength * (maxCategories + 1) * sizeof(double)); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:599:7: note: in expansion of macro ‘rax_posix_memalign’ 599 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->EV), PLL_BYTE_ALIGNMENT, (size_t)pl->evLength * sizeof(double)); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:605:7: note: in expansion of macro ‘rax_posix_memalign’ 605 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->tipVector), PLL_BYTE_ALIGNMENT, (size_t)pl->tipVectorLength * sizeof(double)); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:617:15: note: in expansion of macro ‘rax_posix_memalign’ 617 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->EV_LG4[k]), PLL_BYTE_ALIGNMENT, pl->evLength * sizeof(double)); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:621:15: note: in expansion of macro ‘rax_posix_memalign’ 621 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->tipVector_LG4[k]), PLL_BYTE_ALIGNMENT, pl->tipVectorLength * sizeof(double)); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:687:7: note: in expansion of macro ‘rax_posix_memalign’ 687 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->sumBuffer), PLL_BYTE_ALIGNMENT, width * | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:694:7: note: in expansion of macro ‘rax_posix_memalign’ 694 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->perSiteLikelihoods), PLL_BYTE_ALIGNMENT, width * sizeof(double)); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:724:7: note: in expansion of macro ‘rax_posix_memalign’ 724 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->ancestralBuffer), PLL_BYTE_ALIGNMENT, width * | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:744:7: note: in expansion of macro ‘rax_posix_memalign’ 744 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->wgt), PLL_BYTE_ALIGNMENT, width * sizeof(int)); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:756:11: note: in expansion of macro ‘rax_posix_memalign’ 756 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->gapColumn),PLL_BYTE_ALIGNMENT, ((size_t)localTree->mxtips) * | ^~~~~~~~~~~~~~~~~~ [ 20%] Building CXX object lsd2/CMakeFiles/lsd2.dir/src/readData.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/lsd2 && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT lsd2/CMakeFiles/lsd2.dir/src/readData.cpp.o -MF CMakeFiles/lsd2.dir/src/readData.cpp.o.d -o CMakeFiles/lsd2.dir/src/readData.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/readData.cpp [ 20%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsexception.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxsexception.cpp.o -MF CMakeFiles/ncl.dir/nxsexception.cpp.o.d -o CMakeFiles/ncl.dir/nxsexception.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxsexception.cpp [ 20%] Linking C static library libpll.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pll && /usr/bin/cmake -P CMakeFiles/pll.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pll && /usr/bin/cmake -E cmake_link_script CMakeFiles/pll.dir/link.txt --verbose=1 /usr/bin/ar qc libpll.a CMakeFiles/pll.dir/alignment.c.o CMakeFiles/pll.dir/bipartitionList.c.o CMakeFiles/pll.dir/evaluateGenericSpecial.c.o CMakeFiles/pll.dir/evaluatePartialGenericSpecial.c.o CMakeFiles/pll.dir/fastDNAparsimony.c.o CMakeFiles/pll.dir/hardware.c.o CMakeFiles/pll.dir/hash.c.o CMakeFiles/pll.dir/lexer.c.o CMakeFiles/pll.dir/makenewzGenericSpecial.c.o CMakeFiles/pll.dir/models.c.o CMakeFiles/pll.dir/newick.c.o CMakeFiles/pll.dir/newviewGenericSpecial.c.o CMakeFiles/pll.dir/genericParallelization.c.o CMakeFiles/pll.dir/optimizeModel.c.o CMakeFiles/pll.dir/parsePartition.c.o CMakeFiles/pll.dir/queue.c.o CMakeFiles/pll.dir/randomTree.c.o CMakeFiles/pll.dir/recom.c.o CMakeFiles/pll.dir/restartHashTable.c.o CMakeFiles/pll.dir/searchAlgo.c.o CMakeFiles/pll.dir/ssort.c.o CMakeFiles/pll.dir/stack.c.o CMakeFiles/pll.dir/topologies.c.o CMakeFiles/pll.dir/trash.c.o CMakeFiles/pll.dir/treeIO.c.o CMakeFiles/pll.dir/utils.c.o /usr/bin/ranlib libpll.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 20%] Built target pll [ 21%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsreader.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxsreader.cpp.o -MF CMakeFiles/ncl.dir/nxsreader.cpp.o.d -o CMakeFiles/ncl.dir/nxsreader.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxsreader.cpp [ 21%] Building CXX object ncl/CMakeFiles/ncl.dir/nxssetreader.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxssetreader.cpp.o -MF CMakeFiles/ncl.dir/nxssetreader.cpp.o.d -o CMakeFiles/ncl.dir/nxssetreader.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxssetreader.cpp [ 21%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsstring.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxsstring.cpp.o -MF CMakeFiles/ncl.dir/nxsstring.cpp.o.d -o CMakeFiles/ncl.dir/nxsstring.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxsstring.cpp [ 21%] Building CXX object lsd2/CMakeFiles/lsd2.dir/src/utils.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/lsd2 && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT lsd2/CMakeFiles/lsd2.dir/src/utils.cpp.o -MF CMakeFiles/lsd2.dir/src/utils.cpp.o.d -o CMakeFiles/lsd2.dir/src/utils.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/utils.cpp [ 21%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstaxablock.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxstaxablock.cpp.o -MF CMakeFiles/ncl.dir/nxstaxablock.cpp.o.d -o CMakeFiles/ncl.dir/nxstaxablock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxstaxablock.cpp make -f nclextra/CMakeFiles/nclextra.dir/build.make nclextra/CMakeFiles/nclextra.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/nclextra /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/nclextra /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/nclextra/CMakeFiles/nclextra.dir/DependInfo.cmake "--color=" nclextra make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make -f nclextra/CMakeFiles/nclextra.dir/build.make nclextra/CMakeFiles/nclextra.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 22%] Building CXX object nclextra/CMakeFiles/nclextra.dir/mpdablock.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/nclextra && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT nclextra/CMakeFiles/nclextra.dir/mpdablock.cpp.o -MF CMakeFiles/nclextra.dir/mpdablock.cpp.o.d -o CMakeFiles/nclextra.dir/mpdablock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/nclextra/mpdablock.cpp [ 23%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstoken.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxstoken.cpp.o -MF CMakeFiles/ncl.dir/nxstoken.cpp.o.d -o CMakeFiles/ncl.dir/nxstoken.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxstoken.cpp [ 23%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstreesblock.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxstreesblock.cpp.o -MF CMakeFiles/ncl.dir/nxstreesblock.cpp.o.d -o CMakeFiles/ncl.dir/nxstreesblock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxstreesblock.cpp [ 23%] Building CXX object nclextra/CMakeFiles/nclextra.dir/msetsblock.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/nclextra && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT nclextra/CMakeFiles/nclextra.dir/msetsblock.cpp.o -MF CMakeFiles/nclextra.dir/msetsblock.cpp.o.d -o CMakeFiles/nclextra.dir/msetsblock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/nclextra/msetsblock.cpp [ 23%] Linking CXX static library libncl.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/ncl && /usr/bin/cmake -P CMakeFiles/ncl.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/ncl && /usr/bin/cmake -E cmake_link_script CMakeFiles/ncl.dir/link.txt --verbose=1 /usr/bin/ar qc libncl.a CMakeFiles/ncl.dir/nxsassumptionsblock.cpp.o CMakeFiles/ncl.dir/nxsblock.cpp.o CMakeFiles/ncl.dir/nxscharactersblock.cpp.o CMakeFiles/ncl.dir/nxsdatablock.cpp.o CMakeFiles/ncl.dir/nxsdiscretedatum.cpp.o CMakeFiles/ncl.dir/nxsdiscretematrix.cpp.o CMakeFiles/ncl.dir/nxsdistancedatum.cpp.o CMakeFiles/ncl.dir/nxsdistancesblock.cpp.o CMakeFiles/ncl.dir/nxsemptyblock.cpp.o CMakeFiles/ncl.dir/nxsexception.cpp.o CMakeFiles/ncl.dir/nxsreader.cpp.o CMakeFiles/ncl.dir/nxssetreader.cpp.o CMakeFiles/ncl.dir/nxsstring.cpp.o CMakeFiles/ncl.dir/nxstaxablock.cpp.o CMakeFiles/ncl.dir/nxstoken.cpp.o CMakeFiles/ncl.dir/nxstreesblock.cpp.o /usr/bin/ranlib libncl.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 23%] Built target ncl make -f sprng/CMakeFiles/sprng.dir/build.make sprng/CMakeFiles/sprng.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/sprng /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/sprng /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/sprng/CMakeFiles/sprng.dir/DependInfo.cmake "--color=" sprng make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make -f sprng/CMakeFiles/sprng.dir/build.make sprng/CMakeFiles/sprng.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 24%] Building C object sprng/CMakeFiles/sprng.dir/lcg64.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/sprng && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT sprng/CMakeFiles/sprng.dir/lcg64.c.o -MF CMakeFiles/sprng.dir/lcg64.c.o.d -o CMakeFiles/sprng.dir/lcg64.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/sprng/lcg64.c [ 24%] Building C object sprng/CMakeFiles/sprng.dir/makeseed.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/sprng && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT sprng/CMakeFiles/sprng.dir/makeseed.c.o -MF CMakeFiles/sprng.dir/makeseed.c.o.d -o CMakeFiles/sprng.dir/makeseed.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/sprng/makeseed.c [ 24%] Building C object sprng/CMakeFiles/sprng.dir/memory.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/sprng && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT sprng/CMakeFiles/sprng.dir/memory.c.o -MF CMakeFiles/sprng.dir/memory.c.o.d -o CMakeFiles/sprng.dir/memory.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/sprng/memory.c [ 25%] Building C object sprng/CMakeFiles/sprng.dir/store.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/sprng && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT sprng/CMakeFiles/sprng.dir/store.c.o -MF CMakeFiles/sprng.dir/store.c.o.d -o CMakeFiles/sprng.dir/store.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/sprng/store.c [ 25%] Building C object sprng/CMakeFiles/sprng.dir/primes-lcg64.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/sprng && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT sprng/CMakeFiles/sprng.dir/primes-lcg64.c.o -MF CMakeFiles/sprng.dir/primes-lcg64.c.o.d -o CMakeFiles/sprng.dir/primes-lcg64.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/sprng/primes-lcg64.c [ 25%] Building C object sprng/CMakeFiles/sprng.dir/checkid.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/sprng && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT sprng/CMakeFiles/sprng.dir/checkid.c.o -MF CMakeFiles/sprng.dir/checkid.c.o.d -o CMakeFiles/sprng.dir/checkid.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/sprng/checkid.c [ 26%] Linking CXX static library liblsd2.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/lsd2 && /usr/bin/cmake -P CMakeFiles/lsd2.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/lsd2 && /usr/bin/cmake -E cmake_link_script CMakeFiles/lsd2.dir/link.txt --verbose=1 [ 27%] Linking C static library libsprng.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/sprng && /usr/bin/cmake -P CMakeFiles/sprng.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/sprng && /usr/bin/cmake -E cmake_link_script CMakeFiles/sprng.dir/link.txt --verbose=1 /usr/bin/ar qc libsprng.a CMakeFiles/sprng.dir/lcg64.c.o CMakeFiles/sprng.dir/makeseed.c.o CMakeFiles/sprng.dir/memory.c.o CMakeFiles/sprng.dir/store.c.o "CMakeFiles/sprng.dir/primes-lcg64.c.o" CMakeFiles/sprng.dir/checkid.c.o /usr/bin/ranlib libsprng.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 27%] Built target sprng make -f lbfgsb/CMakeFiles/lbfgsb.dir/build.make lbfgsb/CMakeFiles/lbfgsb.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/lbfgsb /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/lbfgsb /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/lbfgsb/CMakeFiles/lbfgsb.dir/DependInfo.cmake "--color=" lbfgsb [ 27%] Building CXX object nclextra/CMakeFiles/nclextra.dir/msplitsblock.cpp.o make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make -f lbfgsb/CMakeFiles/lbfgsb.dir/build.make lbfgsb/CMakeFiles/lbfgsb.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/nclextra && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT nclextra/CMakeFiles/nclextra.dir/msplitsblock.cpp.o -MF CMakeFiles/nclextra.dir/msplitsblock.cpp.o.d -o CMakeFiles/nclextra.dir/msplitsblock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/nclextra/msplitsblock.cpp [ 27%] Building CXX object lbfgsb/CMakeFiles/lbfgsb.dir/lbfgsb_new.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/lbfgsb && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT lbfgsb/CMakeFiles/lbfgsb.dir/lbfgsb_new.cpp.o -MF CMakeFiles/lbfgsb.dir/lbfgsb_new.cpp.o.d -o CMakeFiles/lbfgsb.dir/lbfgsb_new.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/lbfgsb/lbfgsb_new.cpp /usr/bin/ar qc liblsd2.a CMakeFiles/lsd2.dir/src/confidence_interval.cpp.o CMakeFiles/lsd2.dir/src/dating.cpp.o CMakeFiles/lsd2.dir/src/estimate_root.cpp.o CMakeFiles/lsd2.dir/src/lsd.cpp.o CMakeFiles/lsd2.dir/src/options.cpp.o CMakeFiles/lsd2.dir/src/outliers.cpp.o CMakeFiles/lsd2.dir/src/readData.cpp.o CMakeFiles/lsd2.dir/src/utils.cpp.o /usr/bin/ranlib liblsd2.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 27%] Built target lsd2 make -f whtest/CMakeFiles/whtest.dir/build.make whtest/CMakeFiles/whtest.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/whtest /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/whtest /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/whtest/CMakeFiles/whtest.dir/DependInfo.cmake "--color=" whtest make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make -f whtest/CMakeFiles/whtest.dir/build.make whtest/CMakeFiles/whtest.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 27%] Building C object whtest/CMakeFiles/whtest.dir/eigen.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/whtest && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT whtest/CMakeFiles/whtest.dir/eigen.c.o -MF CMakeFiles/whtest.dir/eigen.c.o.d -o CMakeFiles/whtest.dir/eigen.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/whtest/eigen.c [ 27%] Building C object whtest/CMakeFiles/whtest.dir/eigen_sym.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/whtest && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT whtest/CMakeFiles/whtest.dir/eigen_sym.c.o -MF CMakeFiles/whtest.dir/eigen_sym.c.o.d -o CMakeFiles/whtest.dir/eigen_sym.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/whtest/eigen_sym.c [ 28%] Building C object whtest/CMakeFiles/whtest.dir/random.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/whtest && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT whtest/CMakeFiles/whtest.dir/random.c.o -MF CMakeFiles/whtest.dir/random.c.o.d -o CMakeFiles/whtest.dir/random.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/whtest/random.c [ 28%] Building C object whtest/CMakeFiles/whtest.dir/weisslambda.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/whtest && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT whtest/CMakeFiles/whtest.dir/weisslambda.c.o -MF CMakeFiles/whtest.dir/weisslambda.c.o.d -o CMakeFiles/whtest.dir/weisslambda.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/whtest/weisslambda.c [ 28%] Building C object whtest/CMakeFiles/whtest.dir/weisslambda_sub.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/whtest && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT whtest/CMakeFiles/whtest.dir/weisslambda_sub.c.o -MF CMakeFiles/whtest.dir/weisslambda_sub.c.o.d -o CMakeFiles/whtest.dir/weisslambda_sub.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/whtest/weisslambda_sub.c [ 29%] Building C object whtest/CMakeFiles/whtest.dir/whtest.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/whtest && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT whtest/CMakeFiles/whtest.dir/whtest.c.o -MF CMakeFiles/whtest.dir/whtest.c.o.d -o CMakeFiles/whtest.dir/whtest.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/whtest/whtest.c [ 29%] Building C object whtest/CMakeFiles/whtest.dir/whtest_sub.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/whtest && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT whtest/CMakeFiles/whtest.dir/whtest_sub.c.o -MF CMakeFiles/whtest.dir/whtest_sub.c.o.d -o CMakeFiles/whtest.dir/whtest_sub.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/whtest/whtest_sub.c /build/reproducible-path/iqtree-3.0.1+dfsg/whtest/whtest_sub.c: In function ‘ReadData’: /build/reproducible-path/iqtree-3.0.1+dfsg/whtest/whtest_sub.c:205:25: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 205 | fscanf ( ifp, "%c", &c ); | ^~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/whtest/whtest_sub.c:221:25: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 221 | fscanf ( ifp, "%c", &c ); | ^~~~~~~~~~~~~~~~~~~~~~~~ [ 30%] Linking CXX static library liblbfgsb.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/lbfgsb && /usr/bin/cmake -P CMakeFiles/lbfgsb.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/lbfgsb && /usr/bin/cmake -E cmake_link_script CMakeFiles/lbfgsb.dir/link.txt --verbose=1 /usr/bin/ar qc liblbfgsb.a CMakeFiles/lbfgsb.dir/lbfgsb_new.cpp.o /usr/bin/ranlib liblbfgsb.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 30%] Built target lbfgsb make -f vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/vectorclass /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/vectorclass /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/vectorclass/CMakeFiles/vectorclass.dir/DependInfo.cmake "--color=" vectorclass make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make -f vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 30%] Building CXX object vectorclass/CMakeFiles/vectorclass.dir/instrset_detect.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/vectorclass && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT vectorclass/CMakeFiles/vectorclass.dir/instrset_detect.cpp.o -MF CMakeFiles/vectorclass.dir/instrset_detect.cpp.o.d -o CMakeFiles/vectorclass.dir/instrset_detect.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/vectorclass/instrset_detect.cpp [ 31%] Linking CXX static library libvectorclass.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/vectorclass && /usr/bin/cmake -P CMakeFiles/vectorclass.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/vectorclass && /usr/bin/cmake -E cmake_link_script CMakeFiles/vectorclass.dir/link.txt --verbose=1 /usr/bin/ar qc libvectorclass.a CMakeFiles/vectorclass.dir/instrset_detect.cpp.o /usr/bin/ranlib libvectorclass.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 31%] Built target vectorclass [ 32%] Building CXX object nclextra/CMakeFiles/nclextra.dir/modelsblock.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/nclextra && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT nclextra/CMakeFiles/nclextra.dir/modelsblock.cpp.o -MF CMakeFiles/nclextra.dir/modelsblock.cpp.o.d -o CMakeFiles/nclextra.dir/modelsblock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/nclextra/modelsblock.cpp make -f gsl/CMakeFiles/gsl.dir/build.make gsl/CMakeFiles/gsl.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/gsl /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/gsl /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/gsl/CMakeFiles/gsl.dir/DependInfo.cmake "--color=" gsl [ 32%] Building CXX object whtest/CMakeFiles/whtest.dir/whtest_wrapper.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/whtest && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT whtest/CMakeFiles/whtest.dir/whtest_wrapper.cpp.o -MF CMakeFiles/whtest.dir/whtest_wrapper.cpp.o.d -o CMakeFiles/whtest.dir/whtest_wrapper.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/whtest/whtest_wrapper.cpp make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make -f gsl/CMakeFiles/gsl.dir/build.make gsl/CMakeFiles/gsl.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 32%] Building CXX object gsl/CMakeFiles/gsl.dir/binomial_tpe.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/gsl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT gsl/CMakeFiles/gsl.dir/binomial_tpe.cpp.o -MF CMakeFiles/gsl.dir/binomial_tpe.cpp.o.d -o CMakeFiles/gsl.dir/binomial_tpe.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/gsl/binomial_tpe.cpp [ 33%] Building CXX object gsl/CMakeFiles/gsl.dir/multinomial.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/gsl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT gsl/CMakeFiles/gsl.dir/multinomial.cpp.o -MF CMakeFiles/gsl.dir/multinomial.cpp.o.d -o CMakeFiles/gsl.dir/multinomial.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/gsl/multinomial.cpp [ 33%] Building CXX object gsl/CMakeFiles/gsl.dir/pow_int.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/gsl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT gsl/CMakeFiles/gsl.dir/pow_int.cpp.o -MF CMakeFiles/gsl.dir/pow_int.cpp.o.d -o CMakeFiles/gsl.dir/pow_int.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/gsl/pow_int.cpp [ 33%] Building CXX object gsl/CMakeFiles/gsl.dir/gauss.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/gsl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT gsl/CMakeFiles/gsl.dir/gauss.cpp.o -MF CMakeFiles/gsl.dir/gauss.cpp.o.d -o CMakeFiles/gsl.dir/gauss.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/gsl/gauss.cpp [ 34%] Building CXX object gsl/CMakeFiles/gsl.dir/gaussinv.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/gsl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT gsl/CMakeFiles/gsl.dir/gaussinv.cpp.o -MF CMakeFiles/gsl.dir/gaussinv.cpp.o.d -o CMakeFiles/gsl.dir/gaussinv.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/gsl/gaussinv.cpp [ 34%] Linking CXX static library libnclextra.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/nclextra && /usr/bin/cmake -P CMakeFiles/nclextra.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/nclextra && /usr/bin/cmake -E cmake_link_script CMakeFiles/nclextra.dir/link.txt --verbose=1 [ 34%] Linking CXX static library libkernelsse.a /usr/bin/cmake -P CMakeFiles/kernelsse.dir/cmake_clean_target.cmake /usr/bin/cmake -E cmake_link_script CMakeFiles/kernelsse.dir/link.txt --verbose=1 /usr/bin/ar qc libnclextra.a CMakeFiles/nclextra.dir/mpdablock.cpp.o CMakeFiles/nclextra.dir/msetsblock.cpp.o CMakeFiles/nclextra.dir/msplitsblock.cpp.o CMakeFiles/nclextra.dir/modelsblock.cpp.o /usr/bin/ranlib libnclextra.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 34%] Built target nclextra make -f cmaple/utils/CMakeFiles/cmaple_utils.dir/build.make cmaple/utils/CMakeFiles/cmaple_utils.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/utils /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/utils /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/utils/CMakeFiles/cmaple_utils.dir/DependInfo.cmake "--color=" cmaple_utils make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make -f cmaple/utils/CMakeFiles/cmaple_utils.dir/build.make cmaple/utils/CMakeFiles/cmaple_utils.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 34%] Building CXX object cmaple/utils/CMakeFiles/cmaple_utils.dir/tools.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/utils && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/utils/CMakeFiles/cmaple_utils.dir/tools.cpp.o -MF CMakeFiles/cmaple_utils.dir/tools.cpp.o.d -o CMakeFiles/cmaple_utils.dir/tools.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/utils/tools.cpp /usr/bin/ar qc libkernelsse.a CMakeFiles/kernelsse.dir/tree/phylokernelsse.cpp.o /usr/bin/ranlib libkernelsse.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 34%] Built target kernelsse [ 34%] Building CXX object cmaple/utils/CMakeFiles/cmaple_utils.dir/operatingsystem.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/utils && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/utils/CMakeFiles/cmaple_utils.dir/operatingsystem.cpp.o -MF CMakeFiles/cmaple_utils.dir/operatingsystem.cpp.o.d -o CMakeFiles/cmaple_utils.dir/operatingsystem.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/utils/operatingsystem.cpp [ 34%] Building CXX object gsl/CMakeFiles/gsl.dir/gausspdf.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/gsl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT gsl/CMakeFiles/gsl.dir/gausspdf.cpp.o -MF CMakeFiles/gsl.dir/gausspdf.cpp.o.d -o CMakeFiles/gsl.dir/gausspdf.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/gsl/gausspdf.cpp /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/utils/tools.cpp:44:23: warning: macro ‘__DATE__’ might prevent reproducible builds [-Wdate-time] 44 | out << " built " << __DATE__ << std::endl; | ^~~~~~~~ [ 34%] Linking CXX static library libgsl.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/gsl && /usr/bin/cmake -P CMakeFiles/gsl.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/gsl && /usr/bin/cmake -E cmake_link_script CMakeFiles/gsl.dir/link.txt --verbose=1 /usr/bin/ar qc libgsl.a CMakeFiles/gsl.dir/binomial_tpe.cpp.o CMakeFiles/gsl.dir/multinomial.cpp.o CMakeFiles/gsl.dir/pow_int.cpp.o CMakeFiles/gsl.dir/gauss.cpp.o CMakeFiles/gsl.dir/gaussinv.cpp.o CMakeFiles/gsl.dir/gausspdf.cpp.o /usr/bin/ranlib libgsl.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 34%] Built target gsl make -f phylo-yaml/CMakeFiles/phyloYAML.dir/build.make phylo-yaml/CMakeFiles/phyloYAML.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/phylo-yaml /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/phylo-yaml /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/phylo-yaml/CMakeFiles/phyloYAML.dir/DependInfo.cmake "--color=" phyloYAML make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make -f phylo-yaml/CMakeFiles/phyloYAML.dir/build.make phylo-yaml/CMakeFiles/phyloYAML.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 35%] Linking CXX static library libwhtest.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/whtest && /usr/bin/cmake -P CMakeFiles/whtest.dir/cmake_clean_target.cmake [ 36%] Building CXX object phylo-yaml/CMakeFiles/phyloYAML.dir/statespace.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/phylo-yaml && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT phylo-yaml/CMakeFiles/phyloYAML.dir/statespace.cpp.o -MF CMakeFiles/phyloYAML.dir/statespace.cpp.o.d -o CMakeFiles/phyloYAML.dir/statespace.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/phylo-yaml/statespace.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/whtest && /usr/bin/cmake -E cmake_link_script CMakeFiles/whtest.dir/link.txt --verbose=1 /usr/bin/ar qc libwhtest.a CMakeFiles/whtest.dir/eigen.c.o CMakeFiles/whtest.dir/eigen_sym.c.o CMakeFiles/whtest.dir/random.c.o CMakeFiles/whtest.dir/weisslambda.c.o CMakeFiles/whtest.dir/weisslambda_sub.c.o CMakeFiles/whtest.dir/whtest.c.o CMakeFiles/whtest.dir/whtest_sub.c.o CMakeFiles/whtest.dir/whtest_wrapper.cpp.o /usr/bin/ranlib libwhtest.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 36%] Built target whtest make -f terraphast/CMakeFiles/terraphast.dir/build.make terraphast/CMakeFiles/terraphast.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/terraphast /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/terraphast/CMakeFiles/terraphast.dir/DependInfo.cmake "--color=" terraphast make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make -f terraphast/CMakeFiles/terraphast.dir/build.make terraphast/CMakeFiles/terraphast.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 36%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/advanced.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/advanced.cpp.o -MF CMakeFiles/terraphast.dir/lib/advanced.cpp.o.d -o CMakeFiles/terraphast.dir/lib/advanced.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/advanced.cpp [ 37%] Building CXX object cmaple/utils/CMakeFiles/cmaple_utils.dir/gzstream.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/utils && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/utils/CMakeFiles/cmaple_utils.dir/gzstream.cpp.o -MF CMakeFiles/cmaple_utils.dir/gzstream.cpp.o.d -o CMakeFiles/cmaple_utils.dir/gzstream.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/utils/gzstream.cpp [ 37%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/bigint.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/bigint.cpp.o -MF CMakeFiles/terraphast.dir/lib/bigint.cpp.o.d -o CMakeFiles/terraphast.dir/lib/bigint.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/bigint.cpp [ 38%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/bipartitions.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/bipartitions.cpp.o -MF CMakeFiles/terraphast.dir/lib/bipartitions.cpp.o.d -o CMakeFiles/terraphast.dir/lib/bipartitions.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/bipartitions.cpp [ 38%] Building CXX object cmaple/utils/CMakeFiles/cmaple_utils.dir/logstream.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/utils && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/utils/CMakeFiles/cmaple_utils.dir/logstream.cpp.o -MF CMakeFiles/cmaple_utils.dir/logstream.cpp.o.d -o CMakeFiles/cmaple_utils.dir/logstream.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/utils/logstream.cpp [ 38%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/bitmatrix.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/bitmatrix.cpp.o -MF CMakeFiles/terraphast.dir/lib/bitmatrix.cpp.o.d -o CMakeFiles/terraphast.dir/lib/bitmatrix.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/bitmatrix.cpp [ 38%] Linking CXX static library libcmaple_utils.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/utils && /usr/bin/cmake -P CMakeFiles/cmaple_utils.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/utils && /usr/bin/cmake -E cmake_link_script CMakeFiles/cmaple_utils.dir/link.txt --verbose=1 "/usr/bin/gcc-ar-15" qc libcmaple_utils.a CMakeFiles/cmaple_utils.dir/tools.cpp.o CMakeFiles/cmaple_utils.dir/operatingsystem.cpp.o CMakeFiles/cmaple_utils.dir/gzstream.cpp.o CMakeFiles/cmaple_utils.dir/logstream.cpp.o "/usr/bin/gcc-ranlib-15" libcmaple_utils.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 38%] Built target cmaple_utils make -f utils/CMakeFiles/decentTree.dir/build.make utils/CMakeFiles/decentTree.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/utils /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/utils /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/utils/CMakeFiles/decentTree.dir/DependInfo.cmake "--color=" decentTree make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make -f utils/CMakeFiles/decentTree.dir/build.make utils/CMakeFiles/decentTree.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 40%] Building CXX object utils/CMakeFiles/decentTree.dir/decenttree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -MD -MT utils/CMakeFiles/decentTree.dir/decenttree.cpp.o -MF CMakeFiles/decentTree.dir/decenttree.cpp.o.d -o CMakeFiles/decentTree.dir/decenttree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/decenttree.cpp [ 40%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/clamped_uint.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/clamped_uint.cpp.o -MF CMakeFiles/terraphast.dir/lib/clamped_uint.cpp.o.d -o CMakeFiles/terraphast.dir/lib/clamped_uint.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/clamped_uint.cpp [ 40%] Building CXX object utils/CMakeFiles/decentTree.dir/starttree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -MD -MT utils/CMakeFiles/decentTree.dir/starttree.cpp.o -MF CMakeFiles/decentTree.dir/starttree.cpp.o.d -o CMakeFiles/decentTree.dir/starttree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/starttree.cpp [ 41%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/constraints.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/constraints.cpp.o -MF CMakeFiles/terraphast.dir/lib/constraints.cpp.o.d -o CMakeFiles/terraphast.dir/lib/constraints.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/constraints.cpp [ 41%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/errors.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/errors.cpp.o -MF CMakeFiles/terraphast.dir/lib/errors.cpp.o.d -o CMakeFiles/terraphast.dir/lib/errors.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/errors.cpp [ 41%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/multitree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/multitree.cpp.o -MF CMakeFiles/terraphast.dir/lib/multitree.cpp.o.d -o CMakeFiles/terraphast.dir/lib/multitree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/multitree.cpp [ 42%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/multitree_iterator.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/multitree_iterator.cpp.o -MF CMakeFiles/terraphast.dir/lib/multitree_iterator.cpp.o.d -o CMakeFiles/terraphast.dir/lib/multitree_iterator.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/multitree_iterator.cpp [ 42%] Building CXX object utils/CMakeFiles/decentTree.dir/bionj.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -MD -MT utils/CMakeFiles/decentTree.dir/bionj.cpp.o -MF CMakeFiles/decentTree.dir/bionj.cpp.o.d -o CMakeFiles/decentTree.dir/bionj.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/bionj.cpp [ 43%] Building CXX object utils/CMakeFiles/decentTree.dir/bionj2.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -MD -MT utils/CMakeFiles/decentTree.dir/bionj2.cpp.o -MF CMakeFiles/decentTree.dir/bionj2.cpp.o.d -o CMakeFiles/decentTree.dir/bionj2.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/bionj2.cpp [ 43%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/nodes.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/nodes.cpp.o -MF CMakeFiles/terraphast.dir/lib/nodes.cpp.o.d -o CMakeFiles/terraphast.dir/lib/nodes.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/nodes.cpp [ 43%] Building CXX object utils/CMakeFiles/decentTree.dir/gzstream.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -MD -MT utils/CMakeFiles/decentTree.dir/gzstream.cpp.o -MF CMakeFiles/decentTree.dir/gzstream.cpp.o.d -o CMakeFiles/decentTree.dir/gzstream.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/gzstream.cpp [ 43%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/parser.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/parser.cpp.o -MF CMakeFiles/terraphast.dir/lib/parser.cpp.o.d -o CMakeFiles/terraphast.dir/lib/parser.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/parser.cpp [ 43%] Building CXX object utils/CMakeFiles/decentTree.dir/progress.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -MD -MT utils/CMakeFiles/decentTree.dir/progress.cpp.o -MF CMakeFiles/decentTree.dir/progress.cpp.o.d -o CMakeFiles/decentTree.dir/progress.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/progress.cpp [ 44%] Building CXX object utils/CMakeFiles/decentTree.dir/operatingsystem.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -MD -MT utils/CMakeFiles/decentTree.dir/operatingsystem.cpp.o -MF CMakeFiles/decentTree.dir/operatingsystem.cpp.o.d -o CMakeFiles/decentTree.dir/operatingsystem.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/operatingsystem.cpp [ 44%] Linking CXX static library libphyloYAML.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/phylo-yaml && /usr/bin/cmake -P CMakeFiles/phyloYAML.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/phylo-yaml && /usr/bin/cmake -E cmake_link_script CMakeFiles/phyloYAML.dir/link.txt --verbose=1 /usr/bin/ar qc libphyloYAML.a CMakeFiles/phyloYAML.dir/statespace.cpp.o /usr/bin/ranlib libphyloYAML.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 44%] Built target phyloYAML make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/utils /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/utils /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/utils/CMakeFiles/utils.dir/DependInfo.cmake "--color=" utils make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 45%] Building CXX object utils/CMakeFiles/utils.dir/eigendecomposition.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/eigendecomposition.cpp.o -MF CMakeFiles/utils.dir/eigendecomposition.cpp.o.d -o CMakeFiles/utils.dir/eigendecomposition.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/eigendecomposition.cpp [ 46%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/rooting.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/rooting.cpp.o -MF CMakeFiles/terraphast.dir/lib/rooting.cpp.o.d -o CMakeFiles/terraphast.dir/lib/rooting.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/rooting.cpp [ 46%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/simple.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/simple.cpp.o -MF CMakeFiles/terraphast.dir/lib/simple.cpp.o.d -o CMakeFiles/terraphast.dir/lib/simple.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/simple.cpp [ 47%] Linking CXX static library libkernelavx.a /usr/bin/cmake -P CMakeFiles/kernelavx.dir/cmake_clean_target.cmake /usr/bin/cmake -E cmake_link_script CMakeFiles/kernelavx.dir/link.txt --verbose=1 /usr/bin/ar qc libkernelavx.a CMakeFiles/kernelavx.dir/tree/phylotreeavx.cpp.o /usr/bin/ranlib libkernelavx.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 47%] Built target kernelavx make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/pda /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pda /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pda/CMakeFiles/pda.dir/DependInfo.cmake "--color=" pda make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 47%] Building CXX object pda/CMakeFiles/pda.dir/circularnetwork.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/circularnetwork.cpp.o -MF CMakeFiles/pda.dir/circularnetwork.cpp.o.d -o CMakeFiles/pda.dir/circularnetwork.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/circularnetwork.cpp [ 47%] Building CXX object utils/CMakeFiles/utils.dir/gzstream.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/gzstream.cpp.o -MF CMakeFiles/utils.dir/gzstream.cpp.o.d -o CMakeFiles/utils.dir/gzstream.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/gzstream.cpp [ 47%] Building CXX object utils/CMakeFiles/utils.dir/optimization.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/optimization.cpp.o -MF CMakeFiles/utils.dir/optimization.cpp.o.d -o CMakeFiles/utils.dir/optimization.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/optimization.cpp [ 47%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/subtree_extraction.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/subtree_extraction.cpp.o -MF CMakeFiles/terraphast.dir/lib/subtree_extraction.cpp.o.d -o CMakeFiles/terraphast.dir/lib/subtree_extraction.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/subtree_extraction.cpp [ 48%] Building CXX object utils/CMakeFiles/utils.dir/stoprule.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/stoprule.cpp.o -MF CMakeFiles/utils.dir/stoprule.cpp.o.d -o CMakeFiles/utils.dir/stoprule.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/stoprule.cpp [ 49%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/supertree_helpers.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/supertree_helpers.cpp.o -MF CMakeFiles/terraphast.dir/lib/supertree_helpers.cpp.o.d -o CMakeFiles/terraphast.dir/lib/supertree_helpers.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/supertree_helpers.cpp [ 49%] Building CXX object utils/CMakeFiles/utils.dir/tools.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/tools.cpp.o -MF CMakeFiles/utils.dir/tools.cpp.o.d -o CMakeFiles/utils.dir/tools.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/tools.cpp [ 50%] Building CXX object pda/CMakeFiles/pda.dir/greedy.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/greedy.cpp.o -MF CMakeFiles/pda.dir/greedy.cpp.o.d -o CMakeFiles/pda.dir/greedy.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/greedy.cpp [ 50%] Linking CXX static library libkernelfma.a /usr/bin/cmake -P CMakeFiles/kernelfma.dir/cmake_clean_target.cmake [ 50%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/trees.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/trees.cpp.o -MF CMakeFiles/terraphast.dir/lib/trees.cpp.o.d -o CMakeFiles/terraphast.dir/lib/trees.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/trees.cpp /usr/bin/cmake -E cmake_link_script CMakeFiles/kernelfma.dir/link.txt --verbose=1 /usr/bin/ar qc libkernelfma.a CMakeFiles/kernelfma.dir/tree/phylokernelfma.cpp.o /usr/bin/ranlib libkernelfma.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 50%] Built target kernelfma make -f cmaple/alignment/CMakeFiles/cmaple_alignment.dir/build.make cmaple/alignment/CMakeFiles/cmaple_alignment.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/alignment /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/alignment/CMakeFiles/cmaple_alignment.dir/DependInfo.cmake "--color=" cmaple_alignment make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make -f cmaple/alignment/CMakeFiles/cmaple_alignment.dir/build.make cmaple/alignment/CMakeFiles/cmaple_alignment.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 50%] Building CXX object cmaple/alignment/CMakeFiles/cmaple_alignment.dir/mutation.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/alignment && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/alignment/CMakeFiles/cmaple_alignment.dir/mutation.cpp.o -MF CMakeFiles/cmaple_alignment.dir/mutation.cpp.o.d -o CMakeFiles/cmaple_alignment.dir/mutation.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/mutation.cpp [ 50%] Building CXX object pda/CMakeFiles/pda.dir/gurobiwrapper.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/gurobiwrapper.cpp.o -MF CMakeFiles/pda.dir/gurobiwrapper.cpp.o.d -o CMakeFiles/pda.dir/gurobiwrapper.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/gurobiwrapper.cpp [ 50%] Linking CXX executable decentTree cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/utils && /usr/bin/cmake -E cmake_link_script CMakeFiles/decentTree.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -Wl,-z,relro -Wl,-z,now -rdynamic -Wl,--dependency-file=CMakeFiles/decentTree.dir/link.d CMakeFiles/decentTree.dir/decenttree.cpp.o CMakeFiles/decentTree.dir/starttree.cpp.o CMakeFiles/decentTree.dir/bionj.cpp.o CMakeFiles/decentTree.dir/bionj2.cpp.o CMakeFiles/decentTree.dir/gzstream.cpp.o CMakeFiles/decentTree.dir/progress.cpp.o CMakeFiles/decentTree.dir/operatingsystem.cpp.o -o decentTree -L/build/reproducible-path/iqtree-3.0.1+dfsg/lib -Wl,-rpath,/build/reproducible-path/iqtree-3.0.1+dfsg/lib /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 50%] Built target decentTree [ 50%] Building CXX object pda/CMakeFiles/pda.dir/hashsplitset.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/hashsplitset.cpp.o -MF CMakeFiles/pda.dir/hashsplitset.cpp.o.d -o CMakeFiles/pda.dir/hashsplitset.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/hashsplitset.cpp [ 50%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/union_find.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/union_find.cpp.o -MF CMakeFiles/terraphast.dir/lib/union_find.cpp.o.d -o CMakeFiles/terraphast.dir/lib/union_find.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/union_find.cpp [ 51%] Building CXX object cmaple/alignment/CMakeFiles/cmaple_alignment.dir/seqregion.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/alignment && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/alignment/CMakeFiles/cmaple_alignment.dir/seqregion.cpp.o -MF CMakeFiles/cmaple_alignment.dir/seqregion.cpp.o.d -o CMakeFiles/cmaple_alignment.dir/seqregion.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/seqregion.cpp [ 52%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/validation.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/validation.cpp.o -MF CMakeFiles/terraphast.dir/lib/validation.cpp.o.d -o CMakeFiles/terraphast.dir/lib/validation.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/validation.cpp [ 52%] Building CXX object utils/CMakeFiles/utils.dir/pllnni.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/pllnni.cpp.o -MF CMakeFiles/utils.dir/pllnni.cpp.o.d -o CMakeFiles/utils.dir/pllnni.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/pllnni.cpp [ 53%] Building CXX object pda/CMakeFiles/pda.dir/pdnetwork.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/pdnetwork.cpp.o -MF CMakeFiles/pda.dir/pdnetwork.cpp.o.d -o CMakeFiles/pda.dir/pdnetwork.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/pdnetwork.cpp [ 53%] Building CXX object pda/CMakeFiles/pda.dir/pruning.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/pruning.cpp.o -MF CMakeFiles/pda.dir/pruning.cpp.o.d -o CMakeFiles/pda.dir/pruning.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/pruning.cpp [ 53%] Building CXX object cmaple/alignment/CMakeFiles/cmaple_alignment.dir/seqregions.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/alignment && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/alignment/CMakeFiles/cmaple_alignment.dir/seqregions.cpp.o -MF CMakeFiles/cmaple_alignment.dir/seqregions.cpp.o.d -o CMakeFiles/cmaple_alignment.dir/seqregions.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/seqregions.cpp [ 53%] Linking CXX static library libterraphast.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/terraphast && /usr/bin/cmake -P CMakeFiles/terraphast.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/terraphast && /usr/bin/cmake -E cmake_link_script CMakeFiles/terraphast.dir/link.txt --verbose=1 /usr/bin/ar qc libterraphast.a CMakeFiles/terraphast.dir/lib/advanced.cpp.o CMakeFiles/terraphast.dir/lib/bigint.cpp.o CMakeFiles/terraphast.dir/lib/bipartitions.cpp.o CMakeFiles/terraphast.dir/lib/bitmatrix.cpp.o CMakeFiles/terraphast.dir/lib/clamped_uint.cpp.o CMakeFiles/terraphast.dir/lib/constraints.cpp.o CMakeFiles/terraphast.dir/lib/errors.cpp.o CMakeFiles/terraphast.dir/lib/multitree.cpp.o CMakeFiles/terraphast.dir/lib/multitree_iterator.cpp.o CMakeFiles/terraphast.dir/lib/nodes.cpp.o CMakeFiles/terraphast.dir/lib/parser.cpp.o CMakeFiles/terraphast.dir/lib/rooting.cpp.o CMakeFiles/terraphast.dir/lib/simple.cpp.o CMakeFiles/terraphast.dir/lib/subtree_extraction.cpp.o CMakeFiles/terraphast.dir/lib/supertree_helpers.cpp.o CMakeFiles/terraphast.dir/lib/trees.cpp.o CMakeFiles/terraphast.dir/lib/union_find.cpp.o CMakeFiles/terraphast.dir/lib/validation.cpp.o /usr/bin/ranlib libterraphast.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 53%] Built target terraphast [ 53%] Building CXX object pda/CMakeFiles/pda.dir/split.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/split.cpp.o -MF CMakeFiles/pda.dir/split.cpp.o.d -o CMakeFiles/pda.dir/split.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/split.cpp In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/seqregions.cpp:8: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ [ 53%] Building CXX object cmaple/alignment/CMakeFiles/cmaple_alignment.dir/sequence.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/alignment && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/alignment/CMakeFiles/cmaple_alignment.dir/sequence.cpp.o -MF CMakeFiles/cmaple_alignment.dir/sequence.cpp.o.d -o CMakeFiles/cmaple_alignment.dir/sequence.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/sequence.cpp [ 54%] Building CXX object pda/CMakeFiles/pda.dir/splitgraph.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/splitgraph.cpp.o -MF CMakeFiles/pda.dir/splitgraph.cpp.o.d -o CMakeFiles/pda.dir/splitgraph.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/splitgraph.cpp [ 55%] Building CXX object utils/CMakeFiles/utils.dir/checkpoint.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/checkpoint.cpp.o -MF CMakeFiles/utils.dir/checkpoint.cpp.o.d -o CMakeFiles/utils.dir/checkpoint.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/checkpoint.cpp In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/sequence.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/sequence.cpp:8: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ [ 55%] Building CXX object pda/CMakeFiles/pda.dir/splitset.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/splitset.cpp.o -MF CMakeFiles/pda.dir/splitset.cpp.o.d -o CMakeFiles/pda.dir/splitset.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/splitset.cpp [ 56%] Building CXX object cmaple/alignment/CMakeFiles/cmaple_alignment.dir/alignment.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/alignment && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/alignment/CMakeFiles/cmaple_alignment.dir/alignment.cpp.o -MF CMakeFiles/cmaple_alignment.dir/alignment.cpp.o.d -o CMakeFiles/cmaple_alignment.dir/alignment.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/alignment.cpp [ 56%] Building C object pda/CMakeFiles/pda.dir/lpwrapper.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pda && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/lpwrapper.c.o -MF CMakeFiles/pda.dir/lpwrapper.c.o.d -o CMakeFiles/pda.dir/lpwrapper.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/lpwrapper.c [ 57%] Building CXX object pda/CMakeFiles/pda.dir/ecopd.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/ecopd.cpp.o -MF CMakeFiles/pda.dir/ecopd.cpp.o.d -o CMakeFiles/pda.dir/ecopd.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/ecopd.cpp In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/sequence.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/alignment.h:2, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/alignment.cpp:8: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ [ 57%] Linking CXX static library libcmaple_alignment.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/alignment && /usr/bin/cmake -P CMakeFiles/cmaple_alignment.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/alignment && /usr/bin/cmake -E cmake_link_script CMakeFiles/cmaple_alignment.dir/link.txt --verbose=1 "/usr/bin/gcc-ar-15" qc libcmaple_alignment.a CMakeFiles/cmaple_alignment.dir/mutation.cpp.o CMakeFiles/cmaple_alignment.dir/seqregion.cpp.o CMakeFiles/cmaple_alignment.dir/seqregions.cpp.o CMakeFiles/cmaple_alignment.dir/sequence.cpp.o CMakeFiles/cmaple_alignment.dir/alignment.cpp.o "/usr/bin/gcc-ranlib-15" libcmaple_alignment.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 57%] Built target cmaple_alignment [ 57%] Building CXX object pda/CMakeFiles/pda.dir/graph.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/graph.cpp.o -MF CMakeFiles/pda.dir/graph.cpp.o.d -o CMakeFiles/pda.dir/graph.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/graph.cpp [ 57%] Building CXX object pda/CMakeFiles/pda.dir/pdtree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/pdtree.cpp.o -MF CMakeFiles/pda.dir/pdtree.cpp.o.d -o CMakeFiles/pda.dir/pdtree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/pdtree.cpp make -f cmaple/model/CMakeFiles/cmaple_model.dir/build.make cmaple/model/CMakeFiles/cmaple_model.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/model /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/model/CMakeFiles/cmaple_model.dir/DependInfo.cmake "--color=" cmaple_model make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make -f cmaple/model/CMakeFiles/cmaple_model.dir/build.make cmaple/model/CMakeFiles/cmaple_model.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 58%] Building CXX object cmaple/model/CMakeFiles/cmaple_model.dir/model.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/model && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/model/CMakeFiles/cmaple_model.dir/model.cpp.o -MF CMakeFiles/cmaple_model.dir/model.cpp.o.d -o CMakeFiles/cmaple_model.dir/model.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/model.cpp [ 58%] Building CXX object cmaple/model/CMakeFiles/cmaple_model.dir/modelbase.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/model && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/model/CMakeFiles/cmaple_model.dir/modelbase.cpp.o -MF CMakeFiles/cmaple_model.dir/modelbase.cpp.o.d -o CMakeFiles/cmaple_model.dir/modelbase.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/modelbase.cpp [ 60%] Building CXX object pda/CMakeFiles/pda.dir/pdtreeset.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/pdtreeset.cpp.o -MF CMakeFiles/pda.dir/pdtreeset.cpp.o.d -o CMakeFiles/pda.dir/pdtreeset.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/pdtreeset.cpp In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/model.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/model.cpp:1: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ [ 60%] Building CXX object cmaple/model/CMakeFiles/cmaple_model.dir/model_dna.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/model && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/model/CMakeFiles/cmaple_model.dir/model_dna.cpp.o -MF CMakeFiles/cmaple_model.dir/model_dna.cpp.o.d -o CMakeFiles/cmaple_model.dir/model_dna.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/model_dna.cpp In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/modelbase.cpp:1: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ [ 61%] Building CXX object cmaple/model/CMakeFiles/cmaple_model.dir/model_aa.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/model && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/model/CMakeFiles/cmaple_model.dir/model_aa.cpp.o -MF CMakeFiles/cmaple_model.dir/model_aa.cpp.o.d -o CMakeFiles/cmaple_model.dir/model_aa.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/model_aa.cpp In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/model.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/model_dna.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/model_dna.cpp:1: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ [ 61%] Building CXX object pda/CMakeFiles/pda.dir/ecopdmtreeset.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/ecopdmtreeset.cpp.o -MF CMakeFiles/pda.dir/ecopdmtreeset.cpp.o.d -o CMakeFiles/pda.dir/ecopdmtreeset.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/ecopdmtreeset.cpp [ 61%] Building CXX object utils/CMakeFiles/utils.dir/MPIHelper.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/MPIHelper.cpp.o -MF CMakeFiles/utils.dir/MPIHelper.cpp.o.d -o CMakeFiles/utils.dir/MPIHelper.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/MPIHelper.cpp In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/model.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/model_aa.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/model_aa.cpp:1: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h:34: /usr/include/simde/x86/avx.h: In function ‘simde__m256d simde__m256d_from_private(simde__m256d_private)’: /usr/include/simde/x86/avx.h:319:1: note: the ABI for passing parameters with 32-byte alignment has changed in GCC 4.6 319 | simde__m256d_from_private(simde__m256d_private v) { | ^~~~~~~~~~~~~~~~~~~~~~~~~ [ 61%] Building CXX object utils/CMakeFiles/utils.dir/starttree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/starttree.cpp.o -MF CMakeFiles/utils.dir/starttree.cpp.o.d -o CMakeFiles/utils.dir/starttree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/starttree.cpp [ 61%] Linking CXX static library libcmaple_model.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/model && /usr/bin/cmake -P CMakeFiles/cmaple_model.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/model && /usr/bin/cmake -E cmake_link_script CMakeFiles/cmaple_model.dir/link.txt --verbose=1 "/usr/bin/gcc-ar-15" qc libcmaple_model.a CMakeFiles/cmaple_model.dir/model.cpp.o CMakeFiles/cmaple_model.dir/modelbase.cpp.o CMakeFiles/cmaple_model.dir/model_dna.cpp.o CMakeFiles/cmaple_model.dir/model_aa.cpp.o "/usr/bin/gcc-ranlib-15" libcmaple_model.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 61%] Built target cmaple_model [ 62%] Building CXX object utils/CMakeFiles/utils.dir/bionj.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/bionj.cpp.o -MF CMakeFiles/utils.dir/bionj.cpp.o.d -o CMakeFiles/utils.dir/bionj.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/bionj.cpp [ 62%] Building CXX object utils/CMakeFiles/utils.dir/bionj2.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/bionj2.cpp.o -MF CMakeFiles/utils.dir/bionj2.cpp.o.d -o CMakeFiles/utils.dir/bionj2.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/bionj2.cpp [ 62%] Building CXX object utils/CMakeFiles/utils.dir/progress.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/progress.cpp.o -MF CMakeFiles/utils.dir/progress.cpp.o.d -o CMakeFiles/utils.dir/progress.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/progress.cpp make -f cmaple/tree/CMakeFiles/cmaple_tree.dir/build.make cmaple/tree/CMakeFiles/cmaple_tree.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/tree /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/tree/CMakeFiles/cmaple_tree.dir/DependInfo.cmake "--color=" cmaple_tree make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make -f cmaple/tree/CMakeFiles/cmaple_tree.dir/build.make cmaple/tree/CMakeFiles/cmaple_tree.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 62%] Building CXX object cmaple/tree/CMakeFiles/cmaple_tree.dir/tree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/tree && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/tree/CMakeFiles/cmaple_tree.dir/tree.cpp.o -MF CMakeFiles/cmaple_tree.dir/tree.cpp.o.d -o CMakeFiles/cmaple_tree.dir/tree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/tree.cpp [ 63%] Building CXX object utils/CMakeFiles/utils.dir/operatingsystem.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/operatingsystem.cpp.o -MF CMakeFiles/utils.dir/operatingsystem.cpp.o.d -o CMakeFiles/utils.dir/operatingsystem.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/operatingsystem.cpp [ 64%] Building CXX object cmaple/tree/CMakeFiles/cmaple_tree.dir/updatingnode.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/tree && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/tree/CMakeFiles/cmaple_tree.dir/updatingnode.cpp.o -MF CMakeFiles/cmaple_tree.dir/updatingnode.cpp.o.d -o CMakeFiles/cmaple_tree.dir/updatingnode.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/updatingnode.cpp [ 64%] Building CXX object cmaple/tree/CMakeFiles/cmaple_tree.dir/traversingnode.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/tree && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/tree/CMakeFiles/cmaple_tree.dir/traversingnode.cpp.o -MF CMakeFiles/cmaple_tree.dir/traversingnode.cpp.o.d -o CMakeFiles/cmaple_tree.dir/traversingnode.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/traversingnode.cpp [ 64%] Building CXX object cmaple/tree/CMakeFiles/cmaple_tree.dir/phylonode.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/tree && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/tree/CMakeFiles/cmaple_tree.dir/phylonode.cpp.o -MF CMakeFiles/cmaple_tree.dir/phylonode.cpp.o.d -o CMakeFiles/cmaple_tree.dir/phylonode.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/phylonode.cpp [ 64%] Linking CXX static library libpda.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pda && /usr/bin/cmake -P CMakeFiles/pda.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/pda && /usr/bin/cmake -E cmake_link_script CMakeFiles/pda.dir/link.txt --verbose=1 /usr/bin/ar qc libpda.a CMakeFiles/pda.dir/circularnetwork.cpp.o CMakeFiles/pda.dir/greedy.cpp.o CMakeFiles/pda.dir/gurobiwrapper.cpp.o CMakeFiles/pda.dir/hashsplitset.cpp.o CMakeFiles/pda.dir/pdnetwork.cpp.o CMakeFiles/pda.dir/pruning.cpp.o CMakeFiles/pda.dir/split.cpp.o CMakeFiles/pda.dir/splitgraph.cpp.o CMakeFiles/pda.dir/splitset.cpp.o CMakeFiles/pda.dir/lpwrapper.c.o CMakeFiles/pda.dir/ecopd.cpp.o CMakeFiles/pda.dir/graph.cpp.o CMakeFiles/pda.dir/pdtree.cpp.o CMakeFiles/pda.dir/pdtreeset.cpp.o CMakeFiles/pda.dir/ecopdmtreeset.cpp.o /usr/bin/ranlib libpda.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 64%] Built target pda In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/internal.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/phylonode.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/traversingnode.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/updatingnode.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/updatingnode.cpp:1: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/sequence.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/alignment.h:2, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/tree.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/tree.cpp:1: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/internal.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/phylonode.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/traversingnode.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/traversingnode.cpp:1: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/internal.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/phylonode.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/phylonode.cpp:1: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h:34: /usr/include/simde/x86/avx.h: In function ‘simde__m256d simde__m256d_from_private(simde__m256d_private)’: /usr/include/simde/x86/avx.h:319:1: note: the ABI for passing parameters with 32-byte alignment has changed in GCC 4.6 319 | simde__m256d_from_private(simde__m256d_private v) { | ^~~~~~~~~~~~~~~~~~~~~~~~~ [ 65%] Linking CXX static library libcmaple_tree.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/tree && /usr/bin/cmake -P CMakeFiles/cmaple_tree.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/tree && /usr/bin/cmake -E cmake_link_script CMakeFiles/cmaple_tree.dir/link.txt --verbose=1 "/usr/bin/gcc-ar-15" qc libcmaple_tree.a CMakeFiles/cmaple_tree.dir/tree.cpp.o CMakeFiles/cmaple_tree.dir/updatingnode.cpp.o CMakeFiles/cmaple_tree.dir/traversingnode.cpp.o CMakeFiles/cmaple_tree.dir/phylonode.cpp.o "/usr/bin/gcc-ranlib-15" libcmaple_tree.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 65%] Built target cmaple_tree make -f cmaple/maple/CMakeFiles/maple.dir/build.make cmaple/maple/CMakeFiles/maple.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/maple /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/maple/CMakeFiles/maple.dir/DependInfo.cmake "--color=" maple make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make -f cmaple/maple/CMakeFiles/maple.dir/build.make cmaple/maple/CMakeFiles/maple.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 66%] Building CXX object cmaple/maple/CMakeFiles/maple.dir/cmaple.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/maple && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT cmaple/maple/CMakeFiles/maple.dir/cmaple.cpp.o -MF CMakeFiles/maple.dir/cmaple.cpp.o.d -o CMakeFiles/maple.dir/cmaple.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/cmaple.cpp [ 66%] Linking CXX static library libutils.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/utils && /usr/bin/cmake -P CMakeFiles/utils.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/utils && /usr/bin/cmake -E cmake_link_script CMakeFiles/utils.dir/link.txt --verbose=1 /usr/bin/ar qc libutils.a CMakeFiles/utils.dir/eigendecomposition.cpp.o CMakeFiles/utils.dir/gzstream.cpp.o CMakeFiles/utils.dir/optimization.cpp.o CMakeFiles/utils.dir/stoprule.cpp.o CMakeFiles/utils.dir/tools.cpp.o CMakeFiles/utils.dir/pllnni.cpp.o CMakeFiles/utils.dir/checkpoint.cpp.o CMakeFiles/utils.dir/MPIHelper.cpp.o CMakeFiles/utils.dir/starttree.cpp.o CMakeFiles/utils.dir/bionj.cpp.o CMakeFiles/utils.dir/bionj2.cpp.o CMakeFiles/utils.dir/progress.cpp.o CMakeFiles/utils.dir/operatingsystem.cpp.o /usr/bin/ranlib libutils.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 66%] Built target utils make -f model/CMakeFiles/model.dir/build.make model/CMakeFiles/model.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/model /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model/CMakeFiles/model.dir/DependInfo.cmake "--color=" model make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make -f model/CMakeFiles/model.dir/build.make model/CMakeFiles/model.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 66%] Building CXX object model/CMakeFiles/model.dir/modelmarkov.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelmarkov.cpp.o -MF CMakeFiles/model.dir/modelmarkov.cpp.o.d -o CMakeFiles/model.dir/modelmarkov.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelmarkov.cpp [ 66%] Building CXX object model/CMakeFiles/model.dir/modeldnaerror.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modeldnaerror.cpp.o -MF CMakeFiles/model.dir/modeldnaerror.cpp.o.d -o CMakeFiles/model.dir/modeldnaerror.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modeldnaerror.cpp [ 67%] Building CXX object model/CMakeFiles/model.dir/modelbin.cpp.o [ 67%] Building CXX object model/CMakeFiles/model.dir/modeldna.cpp.o [ 68%] Building CXX object model/CMakeFiles/model.dir/modelfactory.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelbin.cpp.o -MF CMakeFiles/model.dir/modelbin.cpp.o.d -o CMakeFiles/model.dir/modelbin.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelbin.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modeldna.cpp.o -MF CMakeFiles/model.dir/modeldna.cpp.o.d -o CMakeFiles/model.dir/modeldna.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modeldna.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelfactory.cpp.o -MF CMakeFiles/model.dir/modelfactory.cpp.o.d -o CMakeFiles/model.dir/modelfactory.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelfactory.cpp In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/sequence.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/alignment.h:2, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/tree.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/cmaple.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/cmaple.cpp:1: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ [ 68%] Linking CXX static library libmaple.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/maple && /usr/bin/cmake -P CMakeFiles/maple.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/maple && /usr/bin/cmake -E cmake_link_script CMakeFiles/maple.dir/link.txt --verbose=1 "/usr/bin/gcc-ar-15" qc libmaple.a CMakeFiles/maple.dir/cmaple.cpp.o "/usr/bin/gcc-ranlib-15" libmaple.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 68%] Built target maple [ 68%] Building CXX object model/CMakeFiles/model.dir/modelprotein.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelprotein.cpp.o -MF CMakeFiles/model.dir/modelprotein.cpp.o.d -o CMakeFiles/model.dir/modelprotein.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelprotein.cpp [ 68%] Building CXX object model/CMakeFiles/model.dir/modelset.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelset.cpp.o -MF CMakeFiles/model.dir/modelset.cpp.o.d -o CMakeFiles/model.dir/modelset.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelset.cpp [ 69%] Building CXX object model/CMakeFiles/model.dir/modelsubst.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelsubst.cpp.o -MF CMakeFiles/model.dir/modelsubst.cpp.o.d -o CMakeFiles/model.dir/modelsubst.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelsubst.cpp [ 69%] Building CXX object model/CMakeFiles/model.dir/partitionmodel.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/partitionmodel.cpp.o -MF CMakeFiles/model.dir/partitionmodel.cpp.o.d -o CMakeFiles/model.dir/partitionmodel.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/partitionmodel.cpp [ 69%] Building CXX object model/CMakeFiles/model.dir/partitionmodelplen.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/partitionmodelplen.cpp.o -MF CMakeFiles/model.dir/partitionmodelplen.cpp.o.d -o CMakeFiles/model.dir/partitionmodelplen.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/partitionmodelplen.cpp [ 70%] Building CXX object model/CMakeFiles/model.dir/rategamma.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/rategamma.cpp.o -MF CMakeFiles/model.dir/rategamma.cpp.o.d -o CMakeFiles/model.dir/rategamma.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/rategamma.cpp [ 70%] Building CXX object model/CMakeFiles/model.dir/rategammainvar.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/rategammainvar.cpp.o -MF CMakeFiles/model.dir/rategammainvar.cpp.o.d -o CMakeFiles/model.dir/rategammainvar.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/rategammainvar.cpp [ 70%] Building CXX object model/CMakeFiles/model.dir/ratecontinuousgamma.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/ratecontinuousgamma.cpp.o -MF CMakeFiles/model.dir/ratecontinuousgamma.cpp.o.d -o CMakeFiles/model.dir/ratecontinuousgamma.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/ratecontinuousgamma.cpp [ 71%] Building CXX object model/CMakeFiles/model.dir/ratecontinuousgammainvar.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/ratecontinuousgammainvar.cpp.o -MF CMakeFiles/model.dir/ratecontinuousgammainvar.cpp.o.d -o CMakeFiles/model.dir/ratecontinuousgammainvar.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/ratecontinuousgammainvar.cpp [ 71%] Building CXX object model/CMakeFiles/model.dir/rateheterogeneity.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/rateheterogeneity.cpp.o -MF CMakeFiles/model.dir/rateheterogeneity.cpp.o.d -o CMakeFiles/model.dir/rateheterogeneity.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/rateheterogeneity.cpp [ 71%] Building CXX object model/CMakeFiles/model.dir/rateinvar.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/rateinvar.cpp.o -MF CMakeFiles/model.dir/rateinvar.cpp.o.d -o CMakeFiles/model.dir/rateinvar.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/rateinvar.cpp make -f cmaple/CMakeFiles/cmaple.dir/build.make cmaple/CMakeFiles/cmaple.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple/CMakeFiles/cmaple.dir/DependInfo.cmake "--color=" cmaple make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make -f cmaple/CMakeFiles/cmaple.dir/build.make cmaple/CMakeFiles/cmaple.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 72%] Building CXX object cmaple/CMakeFiles/cmaple.dir/main/main.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/CMakeFiles/cmaple.dir/main/main.cpp.o -MF CMakeFiles/cmaple.dir/main/main.cpp.o.d -o CMakeFiles/cmaple.dir/main/main.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/main/main.cpp [ 73%] Building CXX object model/CMakeFiles/model.dir/ratemeyerdiscrete.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/ratemeyerdiscrete.cpp.o -MF CMakeFiles/model.dir/ratemeyerdiscrete.cpp.o.d -o CMakeFiles/model.dir/ratemeyerdiscrete.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/ratemeyerdiscrete.cpp [ 73%] Building CXX object model/CMakeFiles/model.dir/ratemeyerhaeseler.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/ratemeyerhaeseler.cpp.o -MF CMakeFiles/model.dir/ratemeyerhaeseler.cpp.o.d -o CMakeFiles/model.dir/ratemeyerhaeseler.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/ratemeyerhaeseler.cpp [ 73%] Building CXX object model/CMakeFiles/model.dir/ratekategory.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/ratekategory.cpp.o -MF CMakeFiles/model.dir/ratekategory.cpp.o.d -o CMakeFiles/model.dir/ratekategory.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/ratekategory.cpp In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/main/../maple/../tree/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/main/../maple/../tree/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/main/../maple/../tree/../alignment/sequence.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/main/../maple/../tree/../alignment/alignment.h:2, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/main/../maple/../tree/tree.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/main/../maple/cmaple.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/main/main.cpp:32: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/main/../maple/../tree/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/main/../maple/../tree/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/main/../maple/../tree/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ [ 73%] Linking CXX executable cmaple cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple && /usr/bin/cmake -E cmake_link_script CMakeFiles/cmaple.dir/link.txt --verbose=1 [ 74%] Building CXX object model/CMakeFiles/model.dir/ratefree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/ratefree.cpp.o -MF CMakeFiles/model.dir/ratefree.cpp.o.d -o CMakeFiles/model.dir/ratefree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/ratefree.cpp tree/./cmaple/tree/../alignment/../model/../utils/matrix.h: In function ‘mul4’: tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:132:22: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] [ 74%] Building CXX object model/CMakeFiles/model.dir/ratefreeinvar.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/ratefreeinvar.cpp.o -MF CMakeFiles/model.dir/ratefreeinvar.cpp.o.d -o CMakeFiles/model.dir/ratefreeinvar.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/ratefreeinvar.cpp In function ‘resetVec’, inlined from ‘resetLhVecExceptState’ at tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:271:21, inlined from ‘calSiteLhs_RACGT_ORACGT’ at tree/./cmaple/tree/../alignment/seqregions.h:1975:38, inlined from ‘calSiteLhs_notN_notN’ at tree/./cmaple/tree/../alignment/seqregions.h:2051:47, inlined from ‘calculateSiteLhContributions’ at tree/./cmaple/tree/../alignment/seqregions.h:2141:44: tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:264:20: warning: ‘__builtin_memset’ writing 160 bytes into a region of size 32 overflows the destination [-Wstringop-overflow=] In function ‘make_unique’, inlined from ‘calSiteLhs_RACGT_ORACGT’ at tree/./cmaple/tree/../alignment/seqregions.h:1964:8, inlined from ‘calSiteLhs_notN_notN’ at tree/./cmaple/tree/../alignment/seqregions.h:2051:47, inlined from ‘calculateSiteLhContributions’ at tree/./cmaple/tree/../alignment/seqregions.h:2141:44: tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ [ 74%] Building CXX object model/CMakeFiles/model.dir/rateheterotachy.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/rateheterotachy.cpp.o -MF CMakeFiles/model.dir/rateheterotachy.cpp.o.d -o CMakeFiles/model.dir/rateheterotachy.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/rateheterotachy.cpp [ 75%] Building CXX object model/CMakeFiles/model.dir/rateheterotachyinvar.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/rateheterotachyinvar.cpp.o -MF CMakeFiles/model.dir/rateheterotachyinvar.cpp.o.d -o CMakeFiles/model.dir/rateheterotachyinvar.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/rateheterotachyinvar.cpp In function ‘resetVec’, inlined from ‘resetLhVecExceptState’ at tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:271:21, inlined from ‘merge_RACGT_ORACGT_TwoLowers’ at tree/./cmaple/tree/../alignment/seqregions.h:1295:38, inlined from ‘merge_notN_notN_TwoLowers’ at tree/./cmaple/tree/../alignment/seqregions.h:1370:52, inlined from ‘mergeTwoLowers’ at tree/./cmaple/tree/../alignment/seqregions.h:1459:49: tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:264:20: warning: ‘__builtin_memset’ writing 160 bytes into a region of size 32 overflows the destination [-Wstringop-overflow=] In function ‘make_unique’, inlined from ‘merge_RACGT_ORACGT_TwoLowers’ at tree/./cmaple/tree/../alignment/seqregions.h:1284:8, inlined from ‘merge_notN_notN_TwoLowers’ at tree/./cmaple/tree/../alignment/seqregions.h:1370:52, inlined from ‘mergeTwoLowers’ at tree/./cmaple/tree/../alignment/seqregions.h:1459:49: tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ In function ‘resetVec’, inlined from ‘resetLhVecExceptState’ at tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:271:21, inlined from ‘merge_O_ORACGT’ at tree/./cmaple/tree/../alignment/seqregions.h:744:54, inlined from ‘mergeUpperLower’ at tree/./cmaple/tree/../alignment/seqregions.h:1006:35: tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:264:20: warning: ‘__builtin_memset’ writing 160 bytes into a region of size 32 overflows the destination [-Wstringop-overflow=] In function ‘make_unique’, inlined from ‘merge_O_ORACGT’ at tree/./cmaple/tree/../alignment/seqregions.h:708:8, inlined from ‘mergeUpperLower’ at tree/./cmaple/tree/../alignment/seqregions.h:1006:35: tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ In function ‘resetVec’, inlined from ‘resetLhVecExceptState’ at tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:271:21, inlined from ‘merge_RACGT_RACGT’ at tree/./cmaple/tree/../alignment/seqregions.h:811:51, inlined from ‘merge_RACGT_ORACGT’ at tree/./cmaple/tree/../alignment/seqregions.h:887:34, inlined from ‘mergeUpperLower’ at tree/./cmaple/tree/../alignment/seqregions.h:1012:39: tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:264:20: warning: ‘__builtin_memset’ writing 160 bytes into a region of size 32 overflows the destination [-Wstringop-overflow=] In function ‘make_unique’, inlined from ‘merge_RACGT_ORACGT’ at tree/./cmaple/tree/../alignment/seqregions.h:843:8, inlined from ‘mergeUpperLower’ at tree/./cmaple/tree/../alignment/seqregions.h:1012:39: tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ [ 75%] Building CXX object model/CMakeFiles/model.dir/modelcodon.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelcodon.cpp.o -MF CMakeFiles/model.dir/modelcodon.cpp.o.d -o CMakeFiles/model.dir/modelcodon.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelcodon.cpp [ 75%] Building CXX object model/CMakeFiles/model.dir/modelmorphology.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelmorphology.cpp.o -MF CMakeFiles/model.dir/modelmorphology.cpp.o.d -o CMakeFiles/model.dir/modelmorphology.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelmorphology.cpp [ 76%] Building CXX object model/CMakeFiles/model.dir/modelmixture.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelmixture.cpp.o -MF CMakeFiles/model.dir/modelmixture.cpp.o.d -o CMakeFiles/model.dir/modelmixture.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelmixture.cpp /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -rdynamic -rdynamic -Wl,--dependency-file=CMakeFiles/cmaple.dir/link.d CMakeFiles/cmaple.dir/main/main.cpp.o -o cmaple -L/build/reproducible-path/iqtree-3.0.1+dfsg/lib -L/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/libraries/static/lib -Wl,-rpath,/build/reproducible-path/iqtree-3.0.1+dfsg/lib:/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/libraries/static/lib maple/libmaple.a tree/libcmaple_tree.a model/libcmaple_model.a ../ncl/libncl.a ../nclextra/libnclextra.a alignment/libcmaple_alignment.a utils/libcmaple_utils.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 76%] Built target cmaple [ 76%] Building CXX object model/CMakeFiles/model.dir/modelunrest.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelunrest.cpp.o -MF CMakeFiles/model.dir/modelunrest.cpp.o.d -o CMakeFiles/model.dir/modelunrest.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelunrest.cpp [ 76%] Building CXX object model/CMakeFiles/model.dir/modelliemarkov.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelliemarkov.cpp.o -MF CMakeFiles/model.dir/modelliemarkov.cpp.o.d -o CMakeFiles/model.dir/modelliemarkov.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelliemarkov.cpp [ 77%] Building CXX object model/CMakeFiles/model.dir/modelpomo.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelpomo.cpp.o -MF CMakeFiles/model.dir/modelpomo.cpp.o.d -o CMakeFiles/model.dir/modelpomo.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelpomo.cpp [ 77%] Building CXX object model/CMakeFiles/model.dir/modelpomomixture.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelpomomixture.cpp.o -MF CMakeFiles/model.dir/modelpomomixture.cpp.o.d -o CMakeFiles/model.dir/modelpomomixture.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelpomomixture.cpp [ 77%] Building CXX object model/CMakeFiles/model.dir/modelfactorymixlen.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelfactorymixlen.cpp.o -MF CMakeFiles/model.dir/modelfactorymixlen.cpp.o.d -o CMakeFiles/model.dir/modelfactorymixlen.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelfactorymixlen.cpp [ 78%] Building CXX object model/CMakeFiles/model.dir/modelhmm.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelhmm.cpp.o -MF CMakeFiles/model.dir/modelhmm.cpp.o.d -o CMakeFiles/model.dir/modelhmm.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelhmm.cpp [ 78%] Building CXX object model/CMakeFiles/model.dir/modelhmmgm.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelhmmgm.cpp.o -MF CMakeFiles/model.dir/modelhmmgm.cpp.o.d -o CMakeFiles/model.dir/modelhmmgm.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelhmmgm.cpp [ 78%] Building CXX object model/CMakeFiles/model.dir/modelhmmtm.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelhmmtm.cpp.o -MF CMakeFiles/model.dir/modelhmmtm.cpp.o.d -o CMakeFiles/model.dir/modelhmmtm.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelhmmtm.cpp [ 80%] Building CXX object model/CMakeFiles/model.dir/modelcodonmixture.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelcodonmixture.cpp.o -MF CMakeFiles/model.dir/modelcodonmixture.cpp.o.d -o CMakeFiles/model.dir/modelcodonmixture.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelcodonmixture.cpp [ 80%] Linking CXX static library libmodel.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/cmake -P CMakeFiles/model.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/model && /usr/bin/cmake -E cmake_link_script CMakeFiles/model.dir/link.txt --verbose=1 /usr/bin/ar qc libmodel.a CMakeFiles/model.dir/modelmarkov.cpp.o CMakeFiles/model.dir/modelbin.cpp.o CMakeFiles/model.dir/modeldna.cpp.o CMakeFiles/model.dir/modeldnaerror.cpp.o CMakeFiles/model.dir/modelfactory.cpp.o CMakeFiles/model.dir/modelprotein.cpp.o CMakeFiles/model.dir/modelset.cpp.o CMakeFiles/model.dir/modelsubst.cpp.o CMakeFiles/model.dir/partitionmodel.cpp.o CMakeFiles/model.dir/partitionmodelplen.cpp.o CMakeFiles/model.dir/rategamma.cpp.o CMakeFiles/model.dir/rategammainvar.cpp.o CMakeFiles/model.dir/ratecontinuousgamma.cpp.o CMakeFiles/model.dir/ratecontinuousgammainvar.cpp.o CMakeFiles/model.dir/rateheterogeneity.cpp.o CMakeFiles/model.dir/rateinvar.cpp.o CMakeFiles/model.dir/ratemeyerdiscrete.cpp.o CMakeFiles/model.dir/ratemeyerhaeseler.cpp.o CMakeFiles/model.dir/ratekategory.cpp.o CMakeFiles/model.dir/ratefree.cpp.o CMakeFiles/model.dir/ratefreeinvar.cpp.o CMakeFiles/model.dir/rateheterotachy.cpp.o CMakeFiles/model.dir/rateheterotachyinvar.cpp.o CMakeFiles/model.dir/modelcodon.cpp.o CMakeFiles/model.dir/modelmorphology.cpp.o CMakeFiles/model.dir/modelmixture.cpp.o CMakeFiles/model.dir/modelunrest.cpp.o CMakeFiles/model.dir/modelliemarkov.cpp.o CMakeFiles/model.dir/modelpomo.cpp.o CMakeFiles/model.dir/modelpomomixture.cpp.o CMakeFiles/model.dir/modelfactorymixlen.cpp.o CMakeFiles/model.dir/modelhmm.cpp.o CMakeFiles/model.dir/modelhmmgm.cpp.o CMakeFiles/model.dir/modelhmmtm.cpp.o CMakeFiles/model.dir/modelcodonmixture.cpp.o /usr/bin/ranlib libmodel.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 80%] Built target model make -f simulator/CMakeFiles/simulator.dir/build.make simulator/CMakeFiles/simulator.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/simulator /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/simulator /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/simulator/CMakeFiles/simulator.dir/DependInfo.cmake "--color=" simulator make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make -f simulator/CMakeFiles/simulator.dir/build.make simulator/CMakeFiles/simulator.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 80%] Building CXX object simulator/CMakeFiles/simulator.dir/alisimulator.cpp.o [ 80%] Building CXX object simulator/CMakeFiles/simulator.dir/alisimulatorinvar.cpp.o [ 81%] Building CXX object simulator/CMakeFiles/simulator.dir/alisimulatorheterogeneityinvar.cpp.o [ 81%] Building CXX object simulator/CMakeFiles/simulator.dir/alisimulatorheterogeneity.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/simulator && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT simulator/CMakeFiles/simulator.dir/alisimulator.cpp.o -MF CMakeFiles/simulator.dir/alisimulator.cpp.o.d -o CMakeFiles/simulator.dir/alisimulator.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/simulator/alisimulator.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/simulator && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT simulator/CMakeFiles/simulator.dir/alisimulatorinvar.cpp.o -MF CMakeFiles/simulator.dir/alisimulatorinvar.cpp.o.d -o CMakeFiles/simulator.dir/alisimulatorinvar.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/simulator/alisimulatorinvar.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/simulator && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT simulator/CMakeFiles/simulator.dir/alisimulatorheterogeneity.cpp.o -MF CMakeFiles/simulator.dir/alisimulatorheterogeneity.cpp.o.d -o CMakeFiles/simulator.dir/alisimulatorheterogeneity.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/simulator/alisimulatorheterogeneity.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/simulator && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT simulator/CMakeFiles/simulator.dir/alisimulatorheterogeneityinvar.cpp.o -MF CMakeFiles/simulator.dir/alisimulatorheterogeneityinvar.cpp.o.d -o CMakeFiles/simulator.dir/alisimulatorheterogeneityinvar.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/simulator/alisimulatorheterogeneityinvar.cpp [ 81%] Linking CXX static library libsimulator.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/simulator && /usr/bin/cmake -P CMakeFiles/simulator.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/simulator && /usr/bin/cmake -E cmake_link_script CMakeFiles/simulator.dir/link.txt --verbose=1 /usr/bin/ar qc libsimulator.a CMakeFiles/simulator.dir/alisimulator.cpp.o CMakeFiles/simulator.dir/alisimulatorinvar.cpp.o CMakeFiles/simulator.dir/alisimulatorheterogeneity.cpp.o CMakeFiles/simulator.dir/alisimulatorheterogeneityinvar.cpp.o /usr/bin/ranlib libsimulator.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 81%] Built target simulator make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/alignment /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/alignment /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/alignment/CMakeFiles/alignment.dir/DependInfo.cmake "--color=" alignment make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 81%] Building CXX object alignment/CMakeFiles/alignment.dir/pattern.cpp.o [ 81%] Building CXX object alignment/CMakeFiles/alignment.dir/substitution.cpp.o [ 81%] Building CXX object alignment/CMakeFiles/alignment.dir/alignment.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/alignment.cpp.o -MF CMakeFiles/alignment.dir/alignment.cpp.o.d -o CMakeFiles/alignment.dir/alignment.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/alignment.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/substitution.cpp.o -MF CMakeFiles/alignment.dir/substitution.cpp.o.d -o CMakeFiles/alignment.dir/substitution.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/substitution.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/pattern.cpp.o -MF CMakeFiles/alignment.dir/pattern.cpp.o.d -o CMakeFiles/alignment.dir/pattern.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/pattern.cpp [ 82%] Building CXX object alignment/CMakeFiles/alignment.dir/alignmentpairwise.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/alignmentpairwise.cpp.o -MF CMakeFiles/alignment.dir/alignmentpairwise.cpp.o.d -o CMakeFiles/alignment.dir/alignmentpairwise.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/alignmentpairwise.cpp [ 82%] Building CXX object alignment/CMakeFiles/alignment.dir/alignmentsummary.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/alignmentsummary.cpp.o -MF CMakeFiles/alignment.dir/alignmentsummary.cpp.o.d -o CMakeFiles/alignment.dir/alignmentsummary.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/alignmentsummary.cpp [ 82%] Building CXX object alignment/CMakeFiles/alignment.dir/maalignment.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/maalignment.cpp.o -MF CMakeFiles/alignment.dir/maalignment.cpp.o.d -o CMakeFiles/alignment.dir/maalignment.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/maalignment.cpp [ 83%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignment.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/superalignment.cpp.o -MF CMakeFiles/alignment.dir/superalignment.cpp.o.d -o CMakeFiles/alignment.dir/superalignment.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/superalignment.cpp [ 83%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignmentpairwise.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/superalignmentpairwise.cpp.o -MF CMakeFiles/alignment.dir/superalignmentpairwise.cpp.o.d -o CMakeFiles/alignment.dir/superalignmentpairwise.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/superalignmentpairwise.cpp [ 83%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignmentpairwiseplen.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/superalignmentpairwiseplen.cpp.o -MF CMakeFiles/alignment.dir/superalignmentpairwiseplen.cpp.o.d -o CMakeFiles/alignment.dir/superalignmentpairwiseplen.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/superalignmentpairwiseplen.cpp [ 84%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignmentunlinked.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/superalignmentunlinked.cpp.o -MF CMakeFiles/alignment.dir/superalignmentunlinked.cpp.o.d -o CMakeFiles/alignment.dir/superalignmentunlinked.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/superalignmentunlinked.cpp [ 84%] Building CXX object alignment/CMakeFiles/alignment.dir/sequence.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/sequence.cpp.o -MF CMakeFiles/alignment.dir/sequence.cpp.o.d -o CMakeFiles/alignment.dir/sequence.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/sequence.cpp [ 84%] Building CXX object alignment/CMakeFiles/alignment.dir/sequencechunkstr.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/sequencechunkstr.cpp.o -MF CMakeFiles/alignment.dir/sequencechunkstr.cpp.o.d -o CMakeFiles/alignment.dir/sequencechunkstr.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/sequencechunkstr.cpp [ 85%] Linking CXX static library libalignment.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/alignment && /usr/bin/cmake -P CMakeFiles/alignment.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/alignment && /usr/bin/cmake -E cmake_link_script CMakeFiles/alignment.dir/link.txt --verbose=1 /usr/bin/ar qc libalignment.a CMakeFiles/alignment.dir/substitution.cpp.o CMakeFiles/alignment.dir/pattern.cpp.o CMakeFiles/alignment.dir/alignment.cpp.o CMakeFiles/alignment.dir/alignmentpairwise.cpp.o CMakeFiles/alignment.dir/alignmentsummary.cpp.o CMakeFiles/alignment.dir/maalignment.cpp.o CMakeFiles/alignment.dir/superalignment.cpp.o CMakeFiles/alignment.dir/superalignmentpairwise.cpp.o CMakeFiles/alignment.dir/superalignmentpairwiseplen.cpp.o CMakeFiles/alignment.dir/superalignmentunlinked.cpp.o CMakeFiles/alignment.dir/sequence.cpp.o CMakeFiles/alignment.dir/sequencechunkstr.cpp.o /usr/bin/ranlib libalignment.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 85%] Built target alignment make -f tree/CMakeFiles/tree.dir/build.make tree/CMakeFiles/tree.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/tree /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/tree /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/tree/CMakeFiles/tree.dir/DependInfo.cmake "--color=" tree make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make -f tree/CMakeFiles/tree.dir/build.make tree/CMakeFiles/tree.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 85%] Building CXX object tree/CMakeFiles/tree.dir/iqtree.cpp.o [ 86%] Building CXX object tree/CMakeFiles/tree.dir/candidateset.cpp.o [ 86%] Building CXX object tree/CMakeFiles/tree.dir/constrainttree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/candidateset.cpp.o -MF CMakeFiles/tree.dir/candidateset.cpp.o.d -o CMakeFiles/tree.dir/candidateset.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/candidateset.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/iqtree.cpp.o -MF CMakeFiles/tree.dir/iqtree.cpp.o.d -o CMakeFiles/tree.dir/iqtree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/iqtree.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/constrainttree.cpp.o -MF CMakeFiles/tree.dir/constrainttree.cpp.o.d -o CMakeFiles/tree.dir/constrainttree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/constrainttree.cpp [ 86%] Building CXX object tree/CMakeFiles/tree.dir/iqtreemix.cpp.o [ 87%] Building CXX object tree/CMakeFiles/tree.dir/iqtreemixhmm.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/iqtreemix.cpp.o -MF CMakeFiles/tree.dir/iqtreemix.cpp.o.d -o CMakeFiles/tree.dir/iqtreemix.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/iqtreemix.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/iqtreemixhmm.cpp.o -MF CMakeFiles/tree.dir/iqtreemixhmm.cpp.o.d -o CMakeFiles/tree.dir/iqtreemixhmm.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/iqtreemixhmm.cpp [ 87%] Building CXX object tree/CMakeFiles/tree.dir/matree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/matree.cpp.o -MF CMakeFiles/tree.dir/matree.cpp.o.d -o CMakeFiles/tree.dir/matree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/matree.cpp [ 87%] Building CXX object tree/CMakeFiles/tree.dir/memslot.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/memslot.cpp.o -MF CMakeFiles/tree.dir/memslot.cpp.o.d -o CMakeFiles/tree.dir/memslot.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/memslot.cpp [ 88%] Building CXX object tree/CMakeFiles/tree.dir/mexttree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/mexttree.cpp.o -MF CMakeFiles/tree.dir/mexttree.cpp.o.d -o CMakeFiles/tree.dir/mexttree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/mexttree.cpp [ 88%] Building CXX object tree/CMakeFiles/tree.dir/mtree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/mtree.cpp.o -MF CMakeFiles/tree.dir/mtree.cpp.o.d -o CMakeFiles/tree.dir/mtree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/mtree.cpp [ 88%] Building CXX object tree/CMakeFiles/tree.dir/mtreeset.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/mtreeset.cpp.o -MF CMakeFiles/tree.dir/mtreeset.cpp.o.d -o CMakeFiles/tree.dir/mtreeset.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/mtreeset.cpp [ 89%] Building CXX object tree/CMakeFiles/tree.dir/ncbitree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/ncbitree.cpp.o -MF CMakeFiles/tree.dir/ncbitree.cpp.o.d -o CMakeFiles/tree.dir/ncbitree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/ncbitree.cpp [ 89%] Building CXX object tree/CMakeFiles/tree.dir/node.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/node.cpp.o -MF CMakeFiles/tree.dir/node.cpp.o.d -o CMakeFiles/tree.dir/node.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/node.cpp [ 89%] Building CXX object tree/CMakeFiles/tree.dir/genomenode.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/genomenode.cpp.o -MF CMakeFiles/tree.dir/genomenode.cpp.o.d -o CMakeFiles/tree.dir/genomenode.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/genomenode.cpp [ 90%] Building CXX object tree/CMakeFiles/tree.dir/genometree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/genometree.cpp.o -MF CMakeFiles/tree.dir/genometree.cpp.o.d -o CMakeFiles/tree.dir/genometree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/genometree.cpp [ 90%] Building CXX object tree/CMakeFiles/tree.dir/phylonode.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/phylonode.cpp.o -MF CMakeFiles/tree.dir/phylonode.cpp.o.d -o CMakeFiles/tree.dir/phylonode.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylonode.cpp [ 90%] Building CXX object tree/CMakeFiles/tree.dir/phylonodemixlen.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/phylonodemixlen.cpp.o -MF CMakeFiles/tree.dir/phylonodemixlen.cpp.o.d -o CMakeFiles/tree.dir/phylonodemixlen.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylonodemixlen.cpp [ 91%] Building CXX object tree/CMakeFiles/tree.dir/phylosuperhmm.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/phylosuperhmm.cpp.o -MF CMakeFiles/tree.dir/phylosuperhmm.cpp.o.d -o CMakeFiles/tree.dir/phylosuperhmm.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylosuperhmm.cpp [ 91%] Building CXX object tree/CMakeFiles/tree.dir/phylosupertree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/phylosupertree.cpp.o -MF CMakeFiles/tree.dir/phylosupertree.cpp.o.d -o CMakeFiles/tree.dir/phylosupertree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylosupertree.cpp [ 91%] Building CXX object tree/CMakeFiles/tree.dir/phylosupertreeplen.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/phylosupertreeplen.cpp.o -MF CMakeFiles/tree.dir/phylosupertreeplen.cpp.o.d -o CMakeFiles/tree.dir/phylosupertreeplen.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylosupertreeplen.cpp [ 92%] Building CXX object tree/CMakeFiles/tree.dir/phylosupertreeunlinked.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/phylosupertreeunlinked.cpp.o -MF CMakeFiles/tree.dir/phylosupertreeunlinked.cpp.o.d -o CMakeFiles/tree.dir/phylosupertreeunlinked.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylosupertreeunlinked.cpp [ 92%] Building CXX object tree/CMakeFiles/tree.dir/phylotree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/phylotree.cpp.o -MF CMakeFiles/tree.dir/phylotree.cpp.o.d -o CMakeFiles/tree.dir/phylotree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylotree.cpp [ 92%] Building CXX object tree/CMakeFiles/tree.dir/phylotreemixlen.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/phylotreemixlen.cpp.o -MF CMakeFiles/tree.dir/phylotreemixlen.cpp.o.d -o CMakeFiles/tree.dir/phylotreemixlen.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylotreemixlen.cpp [ 93%] Building CXX object tree/CMakeFiles/tree.dir/phylotreepars.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/phylotreepars.cpp.o -MF CMakeFiles/tree.dir/phylotreepars.cpp.o.d -o CMakeFiles/tree.dir/phylotreepars.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylotreepars.cpp [ 93%] Building CXX object tree/CMakeFiles/tree.dir/phylotreesse.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/phylotreesse.cpp.o -MF CMakeFiles/tree.dir/phylotreesse.cpp.o.d -o CMakeFiles/tree.dir/phylotreesse.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylotreesse.cpp [ 93%] Building CXX object tree/CMakeFiles/tree.dir/quartet.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/quartet.cpp.o -MF CMakeFiles/tree.dir/quartet.cpp.o.d -o CMakeFiles/tree.dir/quartet.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/quartet.cpp [ 94%] Building CXX object tree/CMakeFiles/tree.dir/supernode.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/supernode.cpp.o -MF CMakeFiles/tree.dir/supernode.cpp.o.d -o CMakeFiles/tree.dir/supernode.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/supernode.cpp [ 94%] Building CXX object tree/CMakeFiles/tree.dir/tinatree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/tinatree.cpp.o -MF CMakeFiles/tree.dir/tinatree.cpp.o.d -o CMakeFiles/tree.dir/tinatree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/tinatree.cpp [ 94%] Building CXX object tree/CMakeFiles/tree.dir/parstree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/parstree.cpp.o -MF CMakeFiles/tree.dir/parstree.cpp.o.d -o CMakeFiles/tree.dir/parstree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/parstree.cpp [ 95%] Building CXX object tree/CMakeFiles/tree.dir/discordance.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/discordance.cpp.o -MF CMakeFiles/tree.dir/discordance.cpp.o.d -o CMakeFiles/tree.dir/discordance.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/discordance.cpp [ 95%] Building CXX object tree/CMakeFiles/tree.dir/phylohmm.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/phylohmm.cpp.o -MF CMakeFiles/tree.dir/phylohmm.cpp.o.d -o CMakeFiles/tree.dir/phylohmm.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylohmm.cpp [ 95%] Linking CXX static library libtree.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/tree && /usr/bin/cmake -P CMakeFiles/tree.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/tree && /usr/bin/cmake -E cmake_link_script CMakeFiles/tree.dir/link.txt --verbose=1 /usr/bin/ar qc libtree.a CMakeFiles/tree.dir/constrainttree.cpp.o CMakeFiles/tree.dir/candidateset.cpp.o CMakeFiles/tree.dir/iqtree.cpp.o CMakeFiles/tree.dir/iqtreemix.cpp.o CMakeFiles/tree.dir/iqtreemixhmm.cpp.o CMakeFiles/tree.dir/matree.cpp.o CMakeFiles/tree.dir/memslot.cpp.o CMakeFiles/tree.dir/mexttree.cpp.o CMakeFiles/tree.dir/mtree.cpp.o CMakeFiles/tree.dir/mtreeset.cpp.o CMakeFiles/tree.dir/ncbitree.cpp.o CMakeFiles/tree.dir/node.cpp.o CMakeFiles/tree.dir/genomenode.cpp.o CMakeFiles/tree.dir/genometree.cpp.o CMakeFiles/tree.dir/phylonode.cpp.o CMakeFiles/tree.dir/phylonodemixlen.cpp.o CMakeFiles/tree.dir/phylosuperhmm.cpp.o CMakeFiles/tree.dir/phylosupertree.cpp.o CMakeFiles/tree.dir/phylosupertreeplen.cpp.o CMakeFiles/tree.dir/phylosupertreeunlinked.cpp.o CMakeFiles/tree.dir/phylotree.cpp.o CMakeFiles/tree.dir/phylotreemixlen.cpp.o CMakeFiles/tree.dir/phylotreepars.cpp.o CMakeFiles/tree.dir/phylotreesse.cpp.o CMakeFiles/tree.dir/quartet.cpp.o CMakeFiles/tree.dir/supernode.cpp.o CMakeFiles/tree.dir/tinatree.cpp.o CMakeFiles/tree.dir/parstree.cpp.o CMakeFiles/tree.dir/discordance.cpp.o CMakeFiles/tree.dir/phylohmm.cpp.o /usr/bin/ranlib libtree.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 95%] Built target tree make -f terrace/CMakeFiles/terrace.dir/build.make terrace/CMakeFiles/terrace.dir/depend make -f terracetphast/CMakeFiles/terracetphast.dir/build.make terracetphast/CMakeFiles/terracetphast.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/terrace /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/terrace /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/terrace/CMakeFiles/terrace.dir/DependInfo.cmake "--color=" terrace make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/terracetphast /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/terracetphast /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/terracetphast/CMakeFiles/terracetphast.dir/DependInfo.cmake "--color=" terracetphast make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make -f terrace/CMakeFiles/terrace.dir/build.make terrace/CMakeFiles/terrace.dir/build make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make -f terracetphast/CMakeFiles/terracetphast.dir/build.make terracetphast/CMakeFiles/terracetphast.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 97%] Building CXX object terracetphast/CMakeFiles/terracetphast.dir/terracetphast.cpp.o [ 97%] Building CXX object terrace/CMakeFiles/terrace.dir/terracenode.cpp.o [ 97%] Building CXX object terrace/CMakeFiles/terrace.dir/presenceabsencematrix.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/terrace && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -MD -MT terrace/CMakeFiles/terrace.dir/terracenode.cpp.o -MF CMakeFiles/terrace.dir/terracenode.cpp.o.d -o CMakeFiles/terrace.dir/terracenode.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terrace/terracenode.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/terrace && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -MD -MT terrace/CMakeFiles/terrace.dir/presenceabsencematrix.cpp.o -MF CMakeFiles/terrace.dir/presenceabsencematrix.cpp.o.d -o CMakeFiles/terrace.dir/presenceabsencematrix.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terrace/presenceabsencematrix.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/terracetphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT terracetphast/CMakeFiles/terracetphast.dir/terracetphast.cpp.o -MF CMakeFiles/terracetphast.dir/terracetphast.cpp.o.d -o CMakeFiles/terracetphast.dir/terracetphast.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terracetphast/terracetphast.cpp [ 97%] Building CXX object terrace/CMakeFiles/terrace.dir/terrace.cpp.o [ 97%] Building CXX object terrace/CMakeFiles/terrace.dir/terracetree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/terrace && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -MD -MT terrace/CMakeFiles/terrace.dir/terracetree.cpp.o -MF CMakeFiles/terrace.dir/terracetree.cpp.o.d -o CMakeFiles/terrace.dir/terracetree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terrace/terracetree.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/terrace && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -MD -MT terrace/CMakeFiles/terrace.dir/terrace.cpp.o -MF CMakeFiles/terrace.dir/terrace.cpp.o.d -o CMakeFiles/terrace.dir/terrace.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terrace/terrace.cpp [ 97%] Linking CXX static library libterracetphast.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/terracetphast && /usr/bin/cmake -P CMakeFiles/terracetphast.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/terracetphast && /usr/bin/cmake -E cmake_link_script CMakeFiles/terracetphast.dir/link.txt --verbose=1 /usr/bin/ar qc libterracetphast.a CMakeFiles/terracetphast.dir/terracetphast.cpp.o /usr/bin/ranlib libterracetphast.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 97%] Built target terracetphast [ 97%] Linking CXX static library libterrace.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/terrace && /usr/bin/cmake -P CMakeFiles/terrace.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/terrace && /usr/bin/cmake -E cmake_link_script CMakeFiles/terrace.dir/link.txt --verbose=1 /usr/bin/ar qc libterrace.a CMakeFiles/terrace.dir/terracenode.cpp.o CMakeFiles/terrace.dir/terracetree.cpp.o CMakeFiles/terrace.dir/presenceabsencematrix.cpp.o CMakeFiles/terrace.dir/terrace.cpp.o /usr/bin/ranlib libterrace.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 97%] Built target terrace make -f main/CMakeFiles/main.dir/build.make main/CMakeFiles/main.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/main /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/main /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/main/CMakeFiles/main.dir/DependInfo.cmake "--color=" main make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make -f main/CMakeFiles/main.dir/build.make main/CMakeFiles/main.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [ 97%] Building CXX object main/CMakeFiles/main.dir/main.cpp.o [ 97%] Building CXX object main/CMakeFiles/main.dir/phyloanalysis.cpp.o [ 98%] Building CXX object main/CMakeFiles/main.dir/phylotesting.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/main && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT main/CMakeFiles/main.dir/main.cpp.o -MF CMakeFiles/main.dir/main.cpp.o.d -o CMakeFiles/main.dir/main.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/main/main.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/main && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT main/CMakeFiles/main.dir/phylotesting.cpp.o -MF CMakeFiles/main.dir/phylotesting.cpp.o.d -o CMakeFiles/main.dir/phylotesting.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/main/phylotesting.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/main && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT main/CMakeFiles/main.dir/phyloanalysis.cpp.o -MF CMakeFiles/main.dir/phyloanalysis.cpp.o.d -o CMakeFiles/main.dir/phyloanalysis.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/main/phyloanalysis.cpp [ 98%] Building CXX object main/CMakeFiles/main.dir/treetesting.cpp.o [ 98%] Building CXX object main/CMakeFiles/main.dir/timetree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/main && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT main/CMakeFiles/main.dir/timetree.cpp.o -MF CMakeFiles/main.dir/timetree.cpp.o.d -o CMakeFiles/main.dir/timetree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/main/timetree.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/main && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT main/CMakeFiles/main.dir/treetesting.cpp.o -MF CMakeFiles/main.dir/treetesting.cpp.o.d -o CMakeFiles/main.dir/treetesting.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/main/treetesting.cpp [100%] Building CXX object main/CMakeFiles/main.dir/alisim.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/main && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT main/CMakeFiles/main.dir/alisim.cpp.o -MF CMakeFiles/main.dir/alisim.cpp.o.d -o CMakeFiles/main.dir/alisim.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/main/alisim.cpp /build/reproducible-path/iqtree-3.0.1+dfsg/main/phyloanalysis.cpp:1428:53: warning: macro ‘__DATE__’ might prevent reproducible builds [-Wdate-time] 1428 | << iqtree_VERSION_PATCH << " built " << __DATE__ << endl | ^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/main/main.cpp:132:25: warning: macro ‘__DATE__’ might prevent reproducible builds [-Wdate-time] 132 | out << " built " << __DATE__; | ^~~~~~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/sequence.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/alignment.h:2, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/tree.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/cmaple.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/main/phyloanalysis.h:34, from /build/reproducible-path/iqtree-3.0.1+dfsg/main/alisim.h:15, from /build/reproducible-path/iqtree-3.0.1+dfsg/main/alisim.cpp:8: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/sequence.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/alignment.h:2, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/tree.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/cmaple.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/main/phyloanalysis.h:34, from /build/reproducible-path/iqtree-3.0.1+dfsg/main/phylotesting.cpp:42: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/sequence.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/alignment.h:2, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/tree.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/cmaple.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/main/phyloanalysis.h:34, from /build/reproducible-path/iqtree-3.0.1+dfsg/main/main.cpp:52: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ [100%] Building CXX object main/CMakeFiles/main.dir/terraceanalysis.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/main && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT main/CMakeFiles/main.dir/terraceanalysis.cpp.o -MF CMakeFiles/main.dir/terraceanalysis.cpp.o.d -o CMakeFiles/main.dir/terraceanalysis.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/main/terraceanalysis.cpp In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/sequence.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/alignment.h:2, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/tree.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/cmaple.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/main/phyloanalysis.h:34, from /build/reproducible-path/iqtree-3.0.1+dfsg/main/phyloanalysis.cpp:32: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ [100%] Linking CXX static library libmain.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/main && /usr/bin/cmake -P CMakeFiles/main.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/main && /usr/bin/cmake -E cmake_link_script CMakeFiles/main.dir/link.txt --verbose=1 /usr/bin/ar qc libmain.a CMakeFiles/main.dir/main.cpp.o CMakeFiles/main.dir/phyloanalysis.cpp.o CMakeFiles/main.dir/phylotesting.cpp.o CMakeFiles/main.dir/treetesting.cpp.o CMakeFiles/main.dir/timetree.cpp.o CMakeFiles/main.dir/alisim.cpp.o CMakeFiles/main.dir/terraceanalysis.cpp.o /usr/bin/ranlib libmain.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [100%] Built target main make -f CMakeFiles/iqtree3.dir/build.make CMakeFiles/iqtree3.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/CMakeFiles/iqtree3.dir/DependInfo.cmake "--color=" iqtree3 make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make -f CMakeFiles/iqtree3.dir/build.make CMakeFiles/iqtree3.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [100%] Building CXX object CMakeFiles/iqtree3.dir/obsolete/parsmultistate.cpp.o /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT CMakeFiles/iqtree3.dir/obsolete/parsmultistate.cpp.o -MF CMakeFiles/iqtree3.dir/obsolete/parsmultistate.cpp.o.d -o CMakeFiles/iqtree3.dir/obsolete/parsmultistate.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/obsolete/parsmultistate.cpp [100%] Linking CXX executable iqtree3 /usr/bin/cmake -E cmake_link_script CMakeFiles/iqtree3.dir/link.txt --verbose=1 cmaple/tree/./cmaple/tree/../alignment/../model/../utils/matrix.h: In function ‘mul4’: cmaple/tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:132:22: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] In function ‘resetVec’, inlined from ‘resetLhVecExceptState’ at cmaple/tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:271:21, inlined from ‘calSiteLhs_RACGT_ORACGT’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1975:38, inlined from ‘calSiteLhs_notN_notN’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:2051:47, inlined from ‘calculateSiteLhContributions’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:2141:44: cmaple/tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:264:20: warning: ‘__builtin_memset’ writing 160 bytes into a region of size 32 overflows the destination [-Wstringop-overflow=] In function ‘make_unique’, inlined from ‘calSiteLhs_RACGT_ORACGT’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1964:8, inlined from ‘calSiteLhs_notN_notN’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:2051:47, inlined from ‘calculateSiteLhContributions’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:2141:44: cmaple/tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ cmaple/tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ cmaple/tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ cmaple/tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ In function ‘resetVec’, inlined from ‘resetLhVecExceptState’ at cmaple/tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:271:21, inlined from ‘merge_RACGT_ORACGT_TwoLowers’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1295:38, inlined from ‘merge_notN_notN_TwoLowers’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1370:52, inlined from ‘mergeTwoLowers’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1459:49: cmaple/tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:264:20: warning: ‘__builtin_memset’ writing 160 bytes into a region of size 32 overflows the destination [-Wstringop-overflow=] In function ‘make_unique’, inlined from ‘merge_RACGT_ORACGT_TwoLowers’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1284:8, inlined from ‘merge_notN_notN_TwoLowers’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1370:52, inlined from ‘mergeTwoLowers’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1459:49: cmaple/tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ cmaple/tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ cmaple/tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ cmaple/tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ cmaple/tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ In function ‘resetVec’, inlined from ‘resetLhVecExceptState’ at cmaple/tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:271:21, inlined from ‘merge_O_ORACGT’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:744:54, inlined from ‘mergeUpperLower’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1006:35: cmaple/tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:264:20: warning: ‘__builtin_memset’ writing 160 bytes into a region of size 32 overflows the destination [-Wstringop-overflow=] In function ‘make_unique’, inlined from ‘merge_O_ORACGT’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:708:8, inlined from ‘mergeUpperLower’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1006:35: cmaple/tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ In function ‘resetVec’, inlined from ‘resetLhVecExceptState’ at cmaple/tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:271:21, inlined from ‘merge_RACGT_RACGT’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:811:51, inlined from ‘merge_RACGT_ORACGT’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:887:34, inlined from ‘mergeUpperLower’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1012:39: cmaple/tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:264:20: warning: ‘__builtin_memset’ writing 160 bytes into a region of size 32 overflows the destination [-Wstringop-overflow=] In function ‘make_unique’, inlined from ‘merge_RACGT_ORACGT’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:843:8, inlined from ‘mergeUpperLower’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1012:39: cmaple/tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -Wl,-z,relro -Wl,-z,now -rdynamic -Wl,--dependency-file=CMakeFiles/iqtree3.dir/link.d CMakeFiles/iqtree3.dir/obsolete/parsmultistate.cpp.o -o iqtree3 -L/build/reproducible-path/iqtree-3.0.1+dfsg/lib -Wl,-rpath,/build/reproducible-path/iqtree-3.0.1+dfsg/lib: booster/libbooster.a pll/libpll.a ncl/libncl.a nclextra/libnclextra.a utils/libutils.a pda/libpda.a lbfgsb/liblbfgsb.a whtest/libwhtest.a sprng/libsprng.a vectorclass/libvectorclass.a model/libmodel.a gsl/libgsl.a alignment/libalignment.a tree/libtree.a simulator/libsimulator.a terrace/libterrace.a -lyaml-cpp phylo-yaml/libphyloYAML.a main/libmain.a cmaple/maple/libmaple.a -lm terracetphast/libterracetphast.a lsd2/liblsd2.a libkernelsse.a pll/libpllavx.a libkernelavx.a libkernelfma.a -lyaml-cpp booster/libbooster.a pda/libpda.a whtest/libwhtest.a vectorclass/libvectorclass.a terrace/libterrace.a cmaple/tree/libcmaple_tree.a cmaple/model/libcmaple_model.a nclextra/libnclextra.a cmaple/alignment/libcmaple_alignment.a cmaple/utils/libcmaple_utils.a tree/libtree.a pll/libpll.a alignment/libalignment.a simulator/libsimulator.a alignment/libalignment.a simulator/libsimulator.a ncl/libncl.a model/libmodel.a utils/libutils.a lbfgsb/liblbfgsb.a sprng/libsprng.a /usr/lib/x86_64-linux-gnu/libz.so gsl/libgsl.a terraphast/libterraphast.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' [100%] Built target iqtree3 make[3]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/iqtree-3.0.1+dfsg/build.serial/CMakeFiles 0 make[2]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' # restore the old naming to avoid name space conflict with serial build if [ -x build.omp/iqtree3 ] ; then mv build.omp/iqtree3 build.omp/iqtree3-omp ; fi dh_auto_build -Bbuild.mpi cd build.mpi && make -j6 INSTALL="install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' /usr/bin/cmake -S/build/reproducible-path/iqtree-3.0.1+dfsg -B/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/CMakeFiles /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make -f CMakeFiles/kernelsse.dir/build.make CMakeFiles/kernelsse.dir/depend make -f CMakeFiles/kernelavx.dir/build.make CMakeFiles/kernelavx.dir/depend make -f CMakeFiles/kernelfma.dir/build.make CMakeFiles/kernelfma.dir/depend make -f lsd2/CMakeFiles/lsd2.dir/build.make lsd2/CMakeFiles/lsd2.dir/depend make -f booster/CMakeFiles/booster.dir/build.make booster/CMakeFiles/booster.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/CMakeFiles/kernelsse.dir/DependInfo.cmake "--color=" kernelsse make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/CMakeFiles/kernelavx.dir/DependInfo.cmake "--color=" kernelavx make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/CMakeFiles/kernelfma.dir/DependInfo.cmake "--color=" kernelfma make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2 /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/lsd2 /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/lsd2/CMakeFiles/lsd2.dir/DependInfo.cmake "--color=" lsd2 make -f pll/CMakeFiles/pllavx.dir/build.make pll/CMakeFiles/pllavx.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/booster /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/booster /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/booster/CMakeFiles/booster.dir/DependInfo.cmake "--color=" booster cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/pll /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pll /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pll/CMakeFiles/pllavx.dir/DependInfo.cmake "--color=" pllavx make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make -f CMakeFiles/kernelavx.dir/build.make CMakeFiles/kernelavx.dir/build make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make -f CMakeFiles/kernelsse.dir/build.make CMakeFiles/kernelsse.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make -f CMakeFiles/kernelfma.dir/build.make CMakeFiles/kernelfma.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make -f lsd2/CMakeFiles/lsd2.dir/build.make lsd2/CMakeFiles/lsd2.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 1%] Building CXX object CMakeFiles/kernelsse.dir/tree/phylokernelsse.cpp.o make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT CMakeFiles/kernelsse.dir/tree/phylokernelsse.cpp.o -MF CMakeFiles/kernelsse.dir/tree/phylokernelsse.cpp.o.d -o CMakeFiles/kernelsse.dir/tree/phylokernelsse.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylokernelsse.cpp make -f booster/CMakeFiles/booster.dir/build.make booster/CMakeFiles/booster.dir/build make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make -f pll/CMakeFiles/pllavx.dir/build.make pll/CMakeFiles/pllavx.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 1%] Building CXX object CMakeFiles/kernelfma.dir/tree/phylokernelfma.cpp.o make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -D__AVX -mavx -fabi-version=0 -mfma -MD -MT CMakeFiles/kernelfma.dir/tree/phylokernelfma.cpp.o -MF CMakeFiles/kernelfma.dir/tree/phylokernelfma.cpp.o.d -o CMakeFiles/kernelfma.dir/tree/phylokernelfma.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylokernelfma.cpp [ 1%] Building CXX object CMakeFiles/kernelavx.dir/tree/phylotreeavx.cpp.o /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -D__AVX -mavx -fabi-version=0 -MD -MT CMakeFiles/kernelavx.dir/tree/phylotreeavx.cpp.o -MF CMakeFiles/kernelavx.dir/tree/phylotreeavx.cpp.o.d -o CMakeFiles/kernelavx.dir/tree/phylotreeavx.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylotreeavx.cpp [ 1%] Building CXX object lsd2/CMakeFiles/lsd2.dir/src/confidence_interval.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/lsd2 && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT lsd2/CMakeFiles/lsd2.dir/src/confidence_interval.cpp.o -MF CMakeFiles/lsd2.dir/src/confidence_interval.cpp.o.d -o CMakeFiles/lsd2.dir/src/confidence_interval.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/confidence_interval.cpp [ 1%] Building C object booster/CMakeFiles/booster.dir/bitset_index.c.o [ 1%] Building C object pll/CMakeFiles/pllavx.dir/avxLikelihood.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -D__AVX -mavx -fabi-version=0 -MD -MT pll/CMakeFiles/pllavx.dir/avxLikelihood.c.o -MF CMakeFiles/pllavx.dir/avxLikelihood.c.o.d -o CMakeFiles/pllavx.dir/avxLikelihood.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/avxLikelihood.c cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/booster && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT booster/CMakeFiles/booster.dir/bitset_index.c.o -MF CMakeFiles/booster.dir/bitset_index.c.o.d -o CMakeFiles/booster.dir/bitset_index.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/booster/bitset_index.c [ 1%] Building C object booster/CMakeFiles/booster.dir/hashmap.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/booster && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT booster/CMakeFiles/booster.dir/hashmap.c.o -MF CMakeFiles/booster.dir/hashmap.c.o.d -o CMakeFiles/booster.dir/hashmap.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/booster/hashmap.c [ 2%] Building C object booster/CMakeFiles/booster.dir/io.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/booster && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT booster/CMakeFiles/booster.dir/io.c.o -MF CMakeFiles/booster.dir/io.c.o.d -o CMakeFiles/booster.dir/io.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/booster/io.c [ 2%] Building C object booster/CMakeFiles/booster.dir/sort.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/booster && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT booster/CMakeFiles/booster.dir/sort.c.o -MF CMakeFiles/booster.dir/sort.c.o.d -o CMakeFiles/booster.dir/sort.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/booster/sort.c [ 2%] Building C object booster/CMakeFiles/booster.dir/tree.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/booster && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT booster/CMakeFiles/booster.dir/tree.c.o -MF CMakeFiles/booster.dir/tree.c.o.d -o CMakeFiles/booster.dir/tree.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/booster/tree.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/avxLikelihood.c:60: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 3%] Building C object booster/CMakeFiles/booster.dir/booster.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/booster && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT booster/CMakeFiles/booster.dir/booster.c.o -MF CMakeFiles/booster.dir/booster.c.o.d -o CMakeFiles/booster.dir/booster.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/booster/booster.c [ 3%] Building C object booster/CMakeFiles/booster.dir/hashtables_bfields.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/booster && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT booster/CMakeFiles/booster.dir/hashtables_bfields.c.o -MF CMakeFiles/booster.dir/hashtables_bfields.c.o.d -o CMakeFiles/booster.dir/hashtables_bfields.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/booster/hashtables_bfields.c [ 3%] Building C object booster/CMakeFiles/booster.dir/prng.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/booster && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT booster/CMakeFiles/booster.dir/prng.c.o -MF CMakeFiles/booster.dir/prng.c.o.d -o CMakeFiles/booster.dir/prng.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/booster/prng.c [ 4%] Building C object booster/CMakeFiles/booster.dir/stats.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/booster && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT booster/CMakeFiles/booster.dir/stats.c.o -MF CMakeFiles/booster.dir/stats.c.o.d -o CMakeFiles/booster.dir/stats.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/booster/stats.c [ 5%] Linking C static library libpllavx.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pll && /usr/bin/cmake -P CMakeFiles/pllavx.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pll && /usr/bin/cmake -E cmake_link_script CMakeFiles/pllavx.dir/link.txt --verbose=1 /usr/bin/ar qc libpllavx.a CMakeFiles/pllavx.dir/avxLikelihood.c.o /usr/bin/ranlib libpllavx.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 5%] Built target pllavx [ 5%] Building C object booster/CMakeFiles/booster.dir/tree_utils.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/booster && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT booster/CMakeFiles/booster.dir/tree_utils.c.o -MF CMakeFiles/booster.dir/tree_utils.c.o.d -o CMakeFiles/booster.dir/tree_utils.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/booster/tree_utils.c make -f pll/CMakeFiles/pll.dir/build.make pll/CMakeFiles/pll.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/pll /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pll /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pll/CMakeFiles/pll.dir/DependInfo.cmake "--color=" pll make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make -f pll/CMakeFiles/pll.dir/build.make pll/CMakeFiles/pll.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 5%] Building C object pll/CMakeFiles/pll.dir/alignment.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/alignment.c.o -MF CMakeFiles/pll.dir/alignment.c.o.d -o CMakeFiles/pll.dir/alignment.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/alignment.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/alignment.c:40: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 6%] Building C object pll/CMakeFiles/pll.dir/bipartitionList.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/bipartitionList.c.o -MF CMakeFiles/pll.dir/bipartitionList.c.o.d -o CMakeFiles/pll.dir/bipartitionList.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/bipartitionList.c [ 6%] Linking C static library libbooster.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/booster && /usr/bin/cmake -P CMakeFiles/booster.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/booster && /usr/bin/cmake -E cmake_link_script CMakeFiles/booster.dir/link.txt --verbose=1 /usr/bin/ar qc libbooster.a CMakeFiles/booster.dir/bitset_index.c.o CMakeFiles/booster.dir/hashmap.c.o CMakeFiles/booster.dir/io.c.o CMakeFiles/booster.dir/sort.c.o CMakeFiles/booster.dir/tree.c.o CMakeFiles/booster.dir/booster.c.o CMakeFiles/booster.dir/hashtables_bfields.c.o CMakeFiles/booster.dir/prng.c.o CMakeFiles/booster.dir/stats.c.o CMakeFiles/booster.dir/tree_utils.c.o /usr/bin/ranlib libbooster.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/bipartitionList.c:43: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/bipartitionList.c:29: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/bipartitionList.c: In function ‘insertHashRF’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/bipartitionList.c:326:3: note: in expansion of macro ‘rax_posix_memalign’ 326 | rax_posix_memalign ((void **)&(e->bitVector), PLL_BYTE_ALIGNMENT, (size_t)vectorLength * sizeof(unsigned int)); | ^~~~~~~~~~~~~~~~~~ [ 6%] Built target booster make -f ncl/CMakeFiles/ncl.dir/build.make ncl/CMakeFiles/ncl.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/ncl /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/ncl /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/ncl/CMakeFiles/ncl.dir/DependInfo.cmake "--color=" ncl make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make -f ncl/CMakeFiles/ncl.dir/build.make ncl/CMakeFiles/ncl.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 6%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsassumptionsblock.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxsassumptionsblock.cpp.o -MF CMakeFiles/ncl.dir/nxsassumptionsblock.cpp.o.d -o CMakeFiles/ncl.dir/nxsassumptionsblock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxsassumptionsblock.cpp [ 6%] Building C object pll/CMakeFiles/pll.dir/evaluateGenericSpecial.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/evaluateGenericSpecial.c.o -MF CMakeFiles/pll.dir/evaluateGenericSpecial.c.o.d -o CMakeFiles/pll.dir/evaluateGenericSpecial.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluateGenericSpecial.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluateGenericSpecial.c:42: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 6%] Building CXX object lsd2/CMakeFiles/lsd2.dir/src/dating.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/lsd2 && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT lsd2/CMakeFiles/lsd2.dir/src/dating.cpp.o -MF CMakeFiles/lsd2.dir/src/dating.cpp.o.d -o CMakeFiles/lsd2.dir/src/dating.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/dating.cpp [ 6%] Building C object pll/CMakeFiles/pll.dir/evaluatePartialGenericSpecial.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/evaluatePartialGenericSpecial.c.o -MF CMakeFiles/pll.dir/evaluatePartialGenericSpecial.c.o.d -o CMakeFiles/pll.dir/evaluatePartialGenericSpecial.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluatePartialGenericSpecial.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluatePartialGenericSpecial.c:42: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluatePartialGenericSpecial.c:31: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluatePartialGenericSpecial.c: In function ‘evaluatePartialGTRCAT’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluatePartialGenericSpecial.c:1173:3: note: in expansion of macro ‘rax_posix_memalign’ 1173 | rax_posix_memalign ((void **) &lVector, PLL_BYTE_ALIGNMENT, sizeof(double) * 4 * mxtips); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluatePartialGenericSpecial.c: In function ‘evaluatePartialGTRGAMMA’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluatePartialGenericSpecial.c:1015:3: note: in expansion of macro ‘rax_posix_memalign’ 1015 | rax_posix_memalign ((void **)&lVector, PLL_BYTE_ALIGNMENT, sizeof(double) * 16 * mxtips); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluatePartialGenericSpecial.c: In function ‘evaluatePartialGTRCATPROT’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluatePartialGenericSpecial.c:1324:3: note: in expansion of macro ‘rax_posix_memalign’ 1324 | rax_posix_memalign ((void **)&lVector, PLL_BYTE_ALIGNMENT, sizeof(double) * 20 * mxtips); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluatePartialGenericSpecial.c: In function ‘evaluatePartialGTRGAMMAPROT’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/evaluatePartialGenericSpecial.c:934:3: note: in expansion of macro ‘rax_posix_memalign’ 934 | rax_posix_memalign ((void **)&lVector, PLL_BYTE_ALIGNMENT, sizeof(double) * 80 * mxtips); | ^~~~~~~~~~~~~~~~~~ [ 7%] Building C object pll/CMakeFiles/pll.dir/fastDNAparsimony.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/fastDNAparsimony.c.o -MF CMakeFiles/pll.dir/fastDNAparsimony.c.o.d -o CMakeFiles/pll.dir/fastDNAparsimony.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/fastDNAparsimony.c [ 8%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsblock.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxsblock.cpp.o -MF CMakeFiles/ncl.dir/nxsblock.cpp.o.d -o CMakeFiles/ncl.dir/nxsblock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxsblock.cpp In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/fastDNAparsimony.c:115: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/fastDNAparsimony.c:29: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/fastDNAparsimony.c: In function ‘compressDNA’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/fastDNAparsimony.c:1701:7: note: in expansion of macro ‘rax_posix_memalign’ 1701 | rax_posix_memalign ((void **) &(pr->partitionData[model]->parsVect), PLL_BYTE_ALIGNMENT, (size_t)compressedEntriesPadded * states * totalNodes * sizeof(parsimonyNumber)); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/fastDNAparsimony.c:1777:3: note: in expansion of macro ‘rax_posix_memalign’ 1777 | rax_posix_memalign ((void **) &(tr->parsimonyScore), PLL_BYTE_ALIGNMENT, sizeof(unsigned int) * totalNodes); | ^~~~~~~~~~~~~~~~~~ [ 8%] Building C object pll/CMakeFiles/pll.dir/hardware.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/hardware.c.o -MF CMakeFiles/pll.dir/hardware.c.o.d -o CMakeFiles/pll.dir/hardware.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/hardware.c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/hardware.c: In function ‘pll_probe_cpu’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/hardware.c:97:9: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 97 | fscanf (fd, "%d", &id); | ^~~~~~~~~~~~~~~~~~~~~~ [ 8%] Building C object pll/CMakeFiles/pll.dir/hash.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/hash.c.o -MF CMakeFiles/pll.dir/hash.c.o.d -o CMakeFiles/pll.dir/hash.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/hash.c [ 9%] Building C object pll/CMakeFiles/pll.dir/lexer.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/lexer.c.o -MF CMakeFiles/pll.dir/lexer.c.o.d -o CMakeFiles/pll.dir/lexer.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/lexer.c [ 9%] Building C object pll/CMakeFiles/pll.dir/makenewzGenericSpecial.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/makenewzGenericSpecial.c.o -MF CMakeFiles/pll.dir/makenewzGenericSpecial.c.o.d -o CMakeFiles/pll.dir/makenewzGenericSpecial.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/makenewzGenericSpecial.c [ 10%] Building CXX object lsd2/CMakeFiles/lsd2.dir/src/estimate_root.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/lsd2 && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT lsd2/CMakeFiles/lsd2.dir/src/estimate_root.cpp.o -MF CMakeFiles/lsd2.dir/src/estimate_root.cpp.o.d -o CMakeFiles/lsd2.dir/src/estimate_root.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/estimate_root.cpp [ 10%] Building CXX object ncl/CMakeFiles/ncl.dir/nxscharactersblock.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxscharactersblock.cpp.o -MF CMakeFiles/ncl.dir/nxscharactersblock.cpp.o.d -o CMakeFiles/ncl.dir/nxscharactersblock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxscharactersblock.cpp In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/makenewzGenericSpecial.c:41: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/makenewzGenericSpecial.c:29: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/makenewzGenericSpecial.c: In function ‘coreGTRCAT’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/makenewzGenericSpecial.c:2686:3: note: in expansion of macro ‘rax_posix_memalign’ 2686 | rax_posix_memalign ((void **) &d_start, PLL_BYTE_ALIGNMENT, numberOfCategories * 4 * sizeof(double)); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/makenewzGenericSpecial.c: In function ‘coreGTRCATPROT’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/makenewzGenericSpecial.c:3061:3: note: in expansion of macro ‘rax_posix_memalign’ 3061 | rax_posix_memalign ((void **)&d_start, PLL_BYTE_ALIGNMENT, numberOfCategories * 20 * sizeof(double)); | ^~~~~~~~~~~~~~~~~~ [ 10%] Building C object pll/CMakeFiles/pll.dir/models.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/models.c.o -MF CMakeFiles/pll.dir/models.c.o.d -o CMakeFiles/pll.dir/models.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/models.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/models.c:47: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 11%] Building C object pll/CMakeFiles/pll.dir/newick.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/newick.c.o -MF CMakeFiles/pll.dir/newick.c.o.d -o CMakeFiles/pll.dir/newick.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newick.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newick.c:36: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 11%] Building C object pll/CMakeFiles/pll.dir/newviewGenericSpecial.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/newviewGenericSpecial.c.o -MF CMakeFiles/pll.dir/newviewGenericSpecial.c.o.d -o CMakeFiles/pll.dir/newviewGenericSpecial.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newviewGenericSpecial.c [ 11%] Building CXX object lsd2/CMakeFiles/lsd2.dir/src/lsd.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/lsd2 && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT lsd2/CMakeFiles/lsd2.dir/src/lsd.cpp.o -MF CMakeFiles/lsd2.dir/src/lsd.cpp.o.d -o CMakeFiles/lsd2.dir/src/lsd.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/lsd.cpp In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newviewGenericSpecial.c:46: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newviewGenericSpecial.c:32: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newviewGenericSpecial.c: In function ‘pllNewviewIterative’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newviewGenericSpecial.c:2766:13: note: in expansion of macro ‘rax_posix_memalign’ 2766 | rax_posix_memalign ((void **)&x3_start, PLL_BYTE_ALIGNMENT, requiredLength); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newviewGenericSpecial.c:2795:17: note: in expansion of macro ‘rax_posix_memalign’ 2795 | rax_posix_memalign ((void **)&ex3, PLL_BYTE_ALIGNMENT, requiredExpLength); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newviewGenericSpecial.c: In function ‘newviewAncestralIterative’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newviewGenericSpecial.c:3733:11: note: in expansion of macro ‘rax_posix_memalign’ 3733 | rax_posix_memalign ((void **)&diagptable, PLL_BYTE_ALIGNMENT, categories * states * states * sizeof(double)); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newviewGenericSpecial.c: In function ‘pllGetCLV’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/newviewGenericSpecial.c:3803:3: note: in expansion of macro ‘rax_posix_memalign’ 3803 | rax_posix_memalign ((void **)&diagptable, PLL_BYTE_ALIGNMENT, categories * states * states * sizeof (double)); | ^~~~~~~~~~~~~~~~~~ [ 11%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdatablock.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxsdatablock.cpp.o -MF CMakeFiles/ncl.dir/nxsdatablock.cpp.o.d -o CMakeFiles/ncl.dir/nxsdatablock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxsdatablock.cpp [ 11%] Building CXX object lsd2/CMakeFiles/lsd2.dir/src/options.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/lsd2 && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT lsd2/CMakeFiles/lsd2.dir/src/options.cpp.o -MF CMakeFiles/lsd2.dir/src/options.cpp.o.d -o CMakeFiles/lsd2.dir/src/options.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/options.cpp [ 12%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdiscretedatum.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxsdiscretedatum.cpp.o -MF CMakeFiles/ncl.dir/nxsdiscretedatum.cpp.o.d -o CMakeFiles/ncl.dir/nxsdiscretedatum.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxsdiscretedatum.cpp [ 12%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdiscretematrix.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxsdiscretematrix.cpp.o -MF CMakeFiles/ncl.dir/nxsdiscretematrix.cpp.o.d -o CMakeFiles/ncl.dir/nxsdiscretematrix.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxsdiscretematrix.cpp /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/options.cpp: In function ‘Pr* getInterface()’: /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/options.cpp:306:14: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 306 | fgets(letter,3,stdin); | ~~~~~^~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/options.cpp:311:22: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 311 | fgets( letter1, 3, stdin ); | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/options.cpp:338:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 338 | fgets( letter, 3, stdin ); | ~~~~~^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/options.cpp:342:14: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 342 | fgets( letter, 3, stdin ); | ~~~~~^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/options.cpp: In function ‘void setOptionsWithLetter(Pr*, char)’: /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/options.cpp:872:22: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 872 | fgets(letter,3,stdin); | ~~~~~^~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/options.cpp:877:30: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 877 | fgets( letter1, 3, stdin ); | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/options.cpp:923:22: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 923 | fgets( letter, 3, stdin ); | ~~~~~^~~~~~~~~~~~~~~~~~~~ [ 12%] Building C object pll/CMakeFiles/pll.dir/genericParallelization.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/genericParallelization.c.o -MF CMakeFiles/pll.dir/genericParallelization.c.o.d -o CMakeFiles/pll.dir/genericParallelization.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/genericParallelization.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/genericParallelization.c:43: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 12%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdistancedatum.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxsdistancedatum.cpp.o -MF CMakeFiles/ncl.dir/nxsdistancedatum.cpp.o.d -o CMakeFiles/ncl.dir/nxsdistancedatum.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxsdistancedatum.cpp [ 13%] Building C object pll/CMakeFiles/pll.dir/optimizeModel.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/optimizeModel.c.o -MF CMakeFiles/pll.dir/optimizeModel.c.o.d -o CMakeFiles/pll.dir/optimizeModel.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/optimizeModel.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/optimizeModel.c:44: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 14%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdistancesblock.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxsdistancesblock.cpp.o -MF CMakeFiles/ncl.dir/nxsdistancesblock.cpp.o.d -o CMakeFiles/ncl.dir/nxsdistancesblock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxsdistancesblock.cpp [ 14%] Building C object pll/CMakeFiles/pll.dir/parsePartition.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/parsePartition.c.o -MF CMakeFiles/pll.dir/parsePartition.c.o.d -o CMakeFiles/pll.dir/parsePartition.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/parsePartition.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/parsePartition.c:42: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 14%] Building C object pll/CMakeFiles/pll.dir/queue.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/queue.c.o -MF CMakeFiles/pll.dir/queue.c.o.d -o CMakeFiles/pll.dir/queue.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/queue.c [ 15%] Building C object pll/CMakeFiles/pll.dir/randomTree.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/randomTree.c.o -MF CMakeFiles/pll.dir/randomTree.c.o.d -o CMakeFiles/pll.dir/randomTree.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/randomTree.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/randomTree.c:37: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 15%] Building C object pll/CMakeFiles/pll.dir/recom.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/recom.c.o -MF CMakeFiles/pll.dir/recom.c.o.d -o CMakeFiles/pll.dir/recom.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/recom.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/recom.c:41: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 15%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsemptyblock.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxsemptyblock.cpp.o -MF CMakeFiles/ncl.dir/nxsemptyblock.cpp.o.d -o CMakeFiles/ncl.dir/nxsemptyblock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxsemptyblock.cpp [ 15%] Building C object pll/CMakeFiles/pll.dir/restartHashTable.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/restartHashTable.c.o -MF CMakeFiles/pll.dir/restartHashTable.c.o.d -o CMakeFiles/pll.dir/restartHashTable.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/restartHashTable.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/restartHashTable.c:41: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 16%] Building C object pll/CMakeFiles/pll.dir/searchAlgo.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/searchAlgo.c.o -MF CMakeFiles/pll.dir/searchAlgo.c.o.d -o CMakeFiles/pll.dir/searchAlgo.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/searchAlgo.c [ 17%] Building CXX object lsd2/CMakeFiles/lsd2.dir/src/outliers.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/lsd2 && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT lsd2/CMakeFiles/lsd2.dir/src/outliers.cpp.o -MF CMakeFiles/lsd2.dir/src/outliers.cpp.o.d -o CMakeFiles/lsd2.dir/src/outliers.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/outliers.cpp In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/searchAlgo.c:45: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 17%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsexception.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxsexception.cpp.o -MF CMakeFiles/ncl.dir/nxsexception.cpp.o.d -o CMakeFiles/ncl.dir/nxsexception.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxsexception.cpp [ 17%] Building C object pll/CMakeFiles/pll.dir/ssort.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/ssort.c.o -MF CMakeFiles/pll.dir/ssort.c.o.d -o CMakeFiles/pll.dir/ssort.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/ssort.c [ 17%] Building C object pll/CMakeFiles/pll.dir/stack.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/stack.c.o -MF CMakeFiles/pll.dir/stack.c.o.d -o CMakeFiles/pll.dir/stack.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/stack.c [ 18%] Building C object pll/CMakeFiles/pll.dir/topologies.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/topologies.c.o -MF CMakeFiles/pll.dir/topologies.c.o.d -o CMakeFiles/pll.dir/topologies.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/topologies.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/topologies.c:42: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 20%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsreader.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxsreader.cpp.o -MF CMakeFiles/ncl.dir/nxsreader.cpp.o.d -o CMakeFiles/ncl.dir/nxsreader.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxsreader.cpp [ 20%] Building C object pll/CMakeFiles/pll.dir/trash.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/trash.c.o -MF CMakeFiles/pll.dir/trash.c.o.d -o CMakeFiles/pll.dir/trash.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/trash.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/trash.c:42: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 20%] Building C object pll/CMakeFiles/pll.dir/treeIO.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/treeIO.c.o -MF CMakeFiles/pll.dir/treeIO.c.o.d -o CMakeFiles/pll.dir/treeIO.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/treeIO.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/treeIO.c:41: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ [ 21%] Building C object pll/CMakeFiles/pll.dir/utils.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pll && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pll/CMakeFiles/pll.dir/utils.c.o -MF CMakeFiles/pll.dir/utils.c.o.d -o CMakeFiles/pll.dir/utils.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:67: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/pllInternal.h:150:30: warning: inline function ‘bitcount_64_bit’ declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:44: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c: In function ‘initializePartitionData’: /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:596:7: note: in expansion of macro ‘rax_posix_memalign’ 596 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->left), PLL_BYTE_ALIGNMENT, (size_t)pl->leftLength * (maxCategories + 1) * sizeof(double)); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:597:7: note: in expansion of macro ‘rax_posix_memalign’ 597 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->right), PLL_BYTE_ALIGNMENT, (size_t)pl->rightLength * (maxCategories + 1) * sizeof(double)); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:599:7: note: in expansion of macro ‘rax_posix_memalign’ 599 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->EV), PLL_BYTE_ALIGNMENT, (size_t)pl->evLength * sizeof(double)); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:605:7: note: in expansion of macro ‘rax_posix_memalign’ 605 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->tipVector), PLL_BYTE_ALIGNMENT, (size_t)pl->tipVectorLength * sizeof(double)); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:617:15: note: in expansion of macro ‘rax_posix_memalign’ 617 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->EV_LG4[k]), PLL_BYTE_ALIGNMENT, pl->evLength * sizeof(double)); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:621:15: note: in expansion of macro ‘rax_posix_memalign’ 621 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->tipVector_LG4[k]), PLL_BYTE_ALIGNMENT, pl->tipVectorLength * sizeof(double)); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:687:7: note: in expansion of macro ‘rax_posix_memalign’ 687 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->sumBuffer), PLL_BYTE_ALIGNMENT, width * | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:694:7: note: in expansion of macro ‘rax_posix_memalign’ 694 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->perSiteLikelihoods), PLL_BYTE_ALIGNMENT, width * sizeof(double)); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:724:7: note: in expansion of macro ‘rax_posix_memalign’ 724 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->ancestralBuffer), PLL_BYTE_ALIGNMENT, width * | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:744:7: note: in expansion of macro ‘rax_posix_memalign’ 744 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->wgt), PLL_BYTE_ALIGNMENT, width * sizeof(int)); | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/pll/mem_alloc.h:37:32: warning: ignoring return value of ‘posix_memalign’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | #define rax_posix_memalign posix_memalign /build/reproducible-path/iqtree-3.0.1+dfsg/pll/utils.c:756:11: note: in expansion of macro ‘rax_posix_memalign’ 756 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->gapColumn),PLL_BYTE_ALIGNMENT, ((size_t)localTree->mxtips) * | ^~~~~~~~~~~~~~~~~~ [ 21%] Building CXX object ncl/CMakeFiles/ncl.dir/nxssetreader.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxssetreader.cpp.o -MF CMakeFiles/ncl.dir/nxssetreader.cpp.o.d -o CMakeFiles/ncl.dir/nxssetreader.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxssetreader.cpp [ 21%] Linking C static library libpll.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pll && /usr/bin/cmake -P CMakeFiles/pll.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pll && /usr/bin/cmake -E cmake_link_script CMakeFiles/pll.dir/link.txt --verbose=1 /usr/bin/ar qc libpll.a CMakeFiles/pll.dir/alignment.c.o CMakeFiles/pll.dir/bipartitionList.c.o CMakeFiles/pll.dir/evaluateGenericSpecial.c.o CMakeFiles/pll.dir/evaluatePartialGenericSpecial.c.o CMakeFiles/pll.dir/fastDNAparsimony.c.o CMakeFiles/pll.dir/hardware.c.o CMakeFiles/pll.dir/hash.c.o CMakeFiles/pll.dir/lexer.c.o CMakeFiles/pll.dir/makenewzGenericSpecial.c.o CMakeFiles/pll.dir/models.c.o CMakeFiles/pll.dir/newick.c.o CMakeFiles/pll.dir/newviewGenericSpecial.c.o CMakeFiles/pll.dir/genericParallelization.c.o CMakeFiles/pll.dir/optimizeModel.c.o CMakeFiles/pll.dir/parsePartition.c.o CMakeFiles/pll.dir/queue.c.o CMakeFiles/pll.dir/randomTree.c.o CMakeFiles/pll.dir/recom.c.o CMakeFiles/pll.dir/restartHashTable.c.o CMakeFiles/pll.dir/searchAlgo.c.o CMakeFiles/pll.dir/ssort.c.o CMakeFiles/pll.dir/stack.c.o CMakeFiles/pll.dir/topologies.c.o CMakeFiles/pll.dir/trash.c.o CMakeFiles/pll.dir/treeIO.c.o CMakeFiles/pll.dir/utils.c.o /usr/bin/ranlib libpll.a [ 21%] Building CXX object lsd2/CMakeFiles/lsd2.dir/src/readData.cpp.o make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/lsd2 && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT lsd2/CMakeFiles/lsd2.dir/src/readData.cpp.o -MF CMakeFiles/lsd2.dir/src/readData.cpp.o.d -o CMakeFiles/lsd2.dir/src/readData.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/readData.cpp [ 21%] Built target pll make -f nclextra/CMakeFiles/nclextra.dir/build.make nclextra/CMakeFiles/nclextra.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/nclextra /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/nclextra /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/nclextra/CMakeFiles/nclextra.dir/DependInfo.cmake "--color=" nclextra make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make -f nclextra/CMakeFiles/nclextra.dir/build.make nclextra/CMakeFiles/nclextra.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 22%] Building CXX object nclextra/CMakeFiles/nclextra.dir/mpdablock.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/nclextra && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT nclextra/CMakeFiles/nclextra.dir/mpdablock.cpp.o -MF CMakeFiles/nclextra.dir/mpdablock.cpp.o.d -o CMakeFiles/nclextra.dir/mpdablock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/nclextra/mpdablock.cpp [ 22%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsstring.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxsstring.cpp.o -MF CMakeFiles/ncl.dir/nxsstring.cpp.o.d -o CMakeFiles/ncl.dir/nxsstring.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxsstring.cpp [ 22%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstaxablock.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxstaxablock.cpp.o -MF CMakeFiles/ncl.dir/nxstaxablock.cpp.o.d -o CMakeFiles/ncl.dir/nxstaxablock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxstaxablock.cpp [ 22%] Building CXX object nclextra/CMakeFiles/nclextra.dir/msetsblock.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/nclextra && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT nclextra/CMakeFiles/nclextra.dir/msetsblock.cpp.o -MF CMakeFiles/nclextra.dir/msetsblock.cpp.o.d -o CMakeFiles/nclextra.dir/msetsblock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/nclextra/msetsblock.cpp [ 23%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstoken.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxstoken.cpp.o -MF CMakeFiles/ncl.dir/nxstoken.cpp.o.d -o CMakeFiles/ncl.dir/nxstoken.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxstoken.cpp [ 23%] Building CXX object lsd2/CMakeFiles/lsd2.dir/src/utils.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/lsd2 && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT lsd2/CMakeFiles/lsd2.dir/src/utils.cpp.o -MF CMakeFiles/lsd2.dir/src/utils.cpp.o.d -o CMakeFiles/lsd2.dir/src/utils.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/lsd2/src/utils.cpp [ 23%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstreesblock.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/ncl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT ncl/CMakeFiles/ncl.dir/nxstreesblock.cpp.o -MF CMakeFiles/ncl.dir/nxstreesblock.cpp.o.d -o CMakeFiles/ncl.dir/nxstreesblock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/ncl/nxstreesblock.cpp [ 23%] Building CXX object nclextra/CMakeFiles/nclextra.dir/msplitsblock.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/nclextra && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT nclextra/CMakeFiles/nclextra.dir/msplitsblock.cpp.o -MF CMakeFiles/nclextra.dir/msplitsblock.cpp.o.d -o CMakeFiles/nclextra.dir/msplitsblock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/nclextra/msplitsblock.cpp [ 24%] Building CXX object nclextra/CMakeFiles/nclextra.dir/modelsblock.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/nclextra && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT nclextra/CMakeFiles/nclextra.dir/modelsblock.cpp.o -MF CMakeFiles/nclextra.dir/modelsblock.cpp.o.d -o CMakeFiles/nclextra.dir/modelsblock.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/nclextra/modelsblock.cpp [ 24%] Linking CXX static library libncl.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/ncl && /usr/bin/cmake -P CMakeFiles/ncl.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/ncl && /usr/bin/cmake -E cmake_link_script CMakeFiles/ncl.dir/link.txt --verbose=1 /usr/bin/ar qc libncl.a CMakeFiles/ncl.dir/nxsassumptionsblock.cpp.o CMakeFiles/ncl.dir/nxsblock.cpp.o CMakeFiles/ncl.dir/nxscharactersblock.cpp.o CMakeFiles/ncl.dir/nxsdatablock.cpp.o CMakeFiles/ncl.dir/nxsdiscretedatum.cpp.o CMakeFiles/ncl.dir/nxsdiscretematrix.cpp.o CMakeFiles/ncl.dir/nxsdistancedatum.cpp.o CMakeFiles/ncl.dir/nxsdistancesblock.cpp.o CMakeFiles/ncl.dir/nxsemptyblock.cpp.o CMakeFiles/ncl.dir/nxsexception.cpp.o CMakeFiles/ncl.dir/nxsreader.cpp.o CMakeFiles/ncl.dir/nxssetreader.cpp.o CMakeFiles/ncl.dir/nxsstring.cpp.o CMakeFiles/ncl.dir/nxstaxablock.cpp.o CMakeFiles/ncl.dir/nxstoken.cpp.o CMakeFiles/ncl.dir/nxstreesblock.cpp.o /usr/bin/ranlib libncl.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 24%] Built target ncl make -f sprng/CMakeFiles/sprng.dir/build.make sprng/CMakeFiles/sprng.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/sprng /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/sprng /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/sprng/CMakeFiles/sprng.dir/DependInfo.cmake "--color=" sprng make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make -f sprng/CMakeFiles/sprng.dir/build.make sprng/CMakeFiles/sprng.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 25%] Building C object sprng/CMakeFiles/sprng.dir/lcg64.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/sprng && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT sprng/CMakeFiles/sprng.dir/lcg64.c.o -MF CMakeFiles/sprng.dir/lcg64.c.o.d -o CMakeFiles/sprng.dir/lcg64.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/sprng/lcg64.c [ 25%] Building C object sprng/CMakeFiles/sprng.dir/makeseed.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/sprng && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT sprng/CMakeFiles/sprng.dir/makeseed.c.o -MF CMakeFiles/sprng.dir/makeseed.c.o.d -o CMakeFiles/sprng.dir/makeseed.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/sprng/makeseed.c [ 25%] Building C object sprng/CMakeFiles/sprng.dir/memory.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/sprng && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT sprng/CMakeFiles/sprng.dir/memory.c.o -MF CMakeFiles/sprng.dir/memory.c.o.d -o CMakeFiles/sprng.dir/memory.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/sprng/memory.c [ 26%] Building C object sprng/CMakeFiles/sprng.dir/store.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/sprng && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT sprng/CMakeFiles/sprng.dir/store.c.o -MF CMakeFiles/sprng.dir/store.c.o.d -o CMakeFiles/sprng.dir/store.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/sprng/store.c [ 26%] Building C object sprng/CMakeFiles/sprng.dir/primes-lcg64.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/sprng && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT sprng/CMakeFiles/sprng.dir/primes-lcg64.c.o -MF CMakeFiles/sprng.dir/primes-lcg64.c.o.d -o CMakeFiles/sprng.dir/primes-lcg64.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/sprng/primes-lcg64.c [ 26%] Building C object sprng/CMakeFiles/sprng.dir/checkid.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/sprng && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT sprng/CMakeFiles/sprng.dir/checkid.c.o -MF CMakeFiles/sprng.dir/checkid.c.o.d -o CMakeFiles/sprng.dir/checkid.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/sprng/checkid.c [ 27%] Linking C static library libsprng.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/sprng && /usr/bin/cmake -P CMakeFiles/sprng.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/sprng && /usr/bin/cmake -E cmake_link_script CMakeFiles/sprng.dir/link.txt --verbose=1 /usr/bin/ar qc libsprng.a CMakeFiles/sprng.dir/lcg64.c.o CMakeFiles/sprng.dir/makeseed.c.o CMakeFiles/sprng.dir/memory.c.o CMakeFiles/sprng.dir/store.c.o "CMakeFiles/sprng.dir/primes-lcg64.c.o" CMakeFiles/sprng.dir/checkid.c.o /usr/bin/ranlib libsprng.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 27%] Built target sprng make -f lbfgsb/CMakeFiles/lbfgsb.dir/build.make lbfgsb/CMakeFiles/lbfgsb.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/lbfgsb /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/lbfgsb /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/lbfgsb/CMakeFiles/lbfgsb.dir/DependInfo.cmake "--color=" lbfgsb make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make -f lbfgsb/CMakeFiles/lbfgsb.dir/build.make lbfgsb/CMakeFiles/lbfgsb.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 27%] Building CXX object lbfgsb/CMakeFiles/lbfgsb.dir/lbfgsb_new.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/lbfgsb && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT lbfgsb/CMakeFiles/lbfgsb.dir/lbfgsb_new.cpp.o -MF CMakeFiles/lbfgsb.dir/lbfgsb_new.cpp.o.d -o CMakeFiles/lbfgsb.dir/lbfgsb_new.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/lbfgsb/lbfgsb_new.cpp [ 27%] Linking CXX static library libnclextra.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/nclextra && /usr/bin/cmake -P CMakeFiles/nclextra.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/nclextra && /usr/bin/cmake -E cmake_link_script CMakeFiles/nclextra.dir/link.txt --verbose=1 /usr/bin/ar qc libnclextra.a CMakeFiles/nclextra.dir/mpdablock.cpp.o CMakeFiles/nclextra.dir/msetsblock.cpp.o CMakeFiles/nclextra.dir/msplitsblock.cpp.o CMakeFiles/nclextra.dir/modelsblock.cpp.o /usr/bin/ranlib libnclextra.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 27%] Built target nclextra make -f whtest/CMakeFiles/whtest.dir/build.make whtest/CMakeFiles/whtest.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/whtest /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/whtest /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/whtest/CMakeFiles/whtest.dir/DependInfo.cmake "--color=" whtest make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make -f whtest/CMakeFiles/whtest.dir/build.make whtest/CMakeFiles/whtest.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 27%] Building C object whtest/CMakeFiles/whtest.dir/eigen.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/whtest && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT whtest/CMakeFiles/whtest.dir/eigen.c.o -MF CMakeFiles/whtest.dir/eigen.c.o.d -o CMakeFiles/whtest.dir/eigen.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/whtest/eigen.c [ 27%] Building C object whtest/CMakeFiles/whtest.dir/eigen_sym.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/whtest && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT whtest/CMakeFiles/whtest.dir/eigen_sym.c.o -MF CMakeFiles/whtest.dir/eigen_sym.c.o.d -o CMakeFiles/whtest.dir/eigen_sym.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/whtest/eigen_sym.c [ 28%] Building C object whtest/CMakeFiles/whtest.dir/random.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/whtest && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT whtest/CMakeFiles/whtest.dir/random.c.o -MF CMakeFiles/whtest.dir/random.c.o.d -o CMakeFiles/whtest.dir/random.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/whtest/random.c [ 28%] Building C object whtest/CMakeFiles/whtest.dir/weisslambda.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/whtest && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT whtest/CMakeFiles/whtest.dir/weisslambda.c.o -MF CMakeFiles/whtest.dir/weisslambda.c.o.d -o CMakeFiles/whtest.dir/weisslambda.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/whtest/weisslambda.c [ 29%] Linking CXX static library liblbfgsb.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/lbfgsb && /usr/bin/cmake -P CMakeFiles/lbfgsb.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/lbfgsb && /usr/bin/cmake -E cmake_link_script CMakeFiles/lbfgsb.dir/link.txt --verbose=1 /usr/bin/ar qc liblbfgsb.a CMakeFiles/lbfgsb.dir/lbfgsb_new.cpp.o /usr/bin/ranlib liblbfgsb.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 29%] Building C object whtest/CMakeFiles/whtest.dir/weisslambda_sub.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/whtest && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT whtest/CMakeFiles/whtest.dir/weisslambda_sub.c.o -MF CMakeFiles/whtest.dir/weisslambda_sub.c.o.d -o CMakeFiles/whtest.dir/weisslambda_sub.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/whtest/weisslambda_sub.c [ 29%] Built target lbfgsb [ 30%] Building C object whtest/CMakeFiles/whtest.dir/whtest.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/whtest && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT whtest/CMakeFiles/whtest.dir/whtest.c.o -MF CMakeFiles/whtest.dir/whtest.c.o.d -o CMakeFiles/whtest.dir/whtest.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/whtest/whtest.c [ 30%] Building C object whtest/CMakeFiles/whtest.dir/whtest_sub.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/whtest && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT whtest/CMakeFiles/whtest.dir/whtest_sub.c.o -MF CMakeFiles/whtest.dir/whtest_sub.c.o.d -o CMakeFiles/whtest.dir/whtest_sub.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/whtest/whtest_sub.c [ 30%] Building CXX object whtest/CMakeFiles/whtest.dir/whtest_wrapper.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/whtest && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT whtest/CMakeFiles/whtest.dir/whtest_wrapper.cpp.o -MF CMakeFiles/whtest.dir/whtest_wrapper.cpp.o.d -o CMakeFiles/whtest.dir/whtest_wrapper.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/whtest/whtest_wrapper.cpp [ 31%] Linking CXX static library liblsd2.a /build/reproducible-path/iqtree-3.0.1+dfsg/whtest/whtest_sub.c: In function ‘ReadData’: /build/reproducible-path/iqtree-3.0.1+dfsg/whtest/whtest_sub.c:205:25: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 205 | fscanf ( ifp, "%c", &c ); | ^~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/whtest/whtest_sub.c:221:25: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 221 | fscanf ( ifp, "%c", &c ); | ^~~~~~~~~~~~~~~~~~~~~~~~ cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/lsd2 && /usr/bin/cmake -P CMakeFiles/lsd2.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/lsd2 && /usr/bin/cmake -E cmake_link_script CMakeFiles/lsd2.dir/link.txt --verbose=1 /usr/bin/ar qc liblsd2.a CMakeFiles/lsd2.dir/src/confidence_interval.cpp.o CMakeFiles/lsd2.dir/src/dating.cpp.o CMakeFiles/lsd2.dir/src/estimate_root.cpp.o CMakeFiles/lsd2.dir/src/lsd.cpp.o CMakeFiles/lsd2.dir/src/options.cpp.o CMakeFiles/lsd2.dir/src/outliers.cpp.o CMakeFiles/lsd2.dir/src/readData.cpp.o CMakeFiles/lsd2.dir/src/utils.cpp.o /usr/bin/ranlib liblsd2.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 31%] Built target lsd2 make -f vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/vectorclass /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/vectorclass /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/vectorclass/CMakeFiles/vectorclass.dir/DependInfo.cmake "--color=" vectorclass make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make -f vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 31%] Building CXX object vectorclass/CMakeFiles/vectorclass.dir/instrset_detect.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/vectorclass && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT vectorclass/CMakeFiles/vectorclass.dir/instrset_detect.cpp.o -MF CMakeFiles/vectorclass.dir/instrset_detect.cpp.o.d -o CMakeFiles/vectorclass.dir/instrset_detect.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/vectorclass/instrset_detect.cpp [ 32%] Linking CXX static library libvectorclass.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/vectorclass && /usr/bin/cmake -P CMakeFiles/vectorclass.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/vectorclass && /usr/bin/cmake -E cmake_link_script CMakeFiles/vectorclass.dir/link.txt --verbose=1 /usr/bin/ar qc libvectorclass.a CMakeFiles/vectorclass.dir/instrset_detect.cpp.o /usr/bin/ranlib libvectorclass.a make -f gsl/CMakeFiles/gsl.dir/build.make gsl/CMakeFiles/gsl.dir/depend make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/gsl /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/gsl /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/gsl/CMakeFiles/gsl.dir/DependInfo.cmake "--color=" gsl [ 32%] Built target vectorclass make -f cmaple/utils/CMakeFiles/cmaple_utils.dir/build.make cmaple/utils/CMakeFiles/cmaple_utils.dir/depend make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make -f gsl/CMakeFiles/gsl.dir/build.make gsl/CMakeFiles/gsl.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/utils /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/utils /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/utils/CMakeFiles/cmaple_utils.dir/DependInfo.cmake "--color=" cmaple_utils make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 32%] Building CXX object gsl/CMakeFiles/gsl.dir/binomial_tpe.cpp.o make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/gsl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT gsl/CMakeFiles/gsl.dir/binomial_tpe.cpp.o -MF CMakeFiles/gsl.dir/binomial_tpe.cpp.o.d -o CMakeFiles/gsl.dir/binomial_tpe.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/gsl/binomial_tpe.cpp make -f cmaple/utils/CMakeFiles/cmaple_utils.dir/build.make cmaple/utils/CMakeFiles/cmaple_utils.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 32%] Building CXX object cmaple/utils/CMakeFiles/cmaple_utils.dir/tools.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/utils && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/utils/CMakeFiles/cmaple_utils.dir/tools.cpp.o -MF CMakeFiles/cmaple_utils.dir/tools.cpp.o.d -o CMakeFiles/cmaple_utils.dir/tools.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/utils/tools.cpp /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/utils/tools.cpp:44:23: warning: macro ‘__DATE__’ might prevent reproducible builds [-Wdate-time] 44 | out << " built " << __DATE__ << std::endl; | ^~~~~~~~ [ 33%] Building CXX object gsl/CMakeFiles/gsl.dir/multinomial.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/gsl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT gsl/CMakeFiles/gsl.dir/multinomial.cpp.o -MF CMakeFiles/gsl.dir/multinomial.cpp.o.d -o CMakeFiles/gsl.dir/multinomial.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/gsl/multinomial.cpp [ 33%] Building CXX object gsl/CMakeFiles/gsl.dir/pow_int.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/gsl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT gsl/CMakeFiles/gsl.dir/pow_int.cpp.o -MF CMakeFiles/gsl.dir/pow_int.cpp.o.d -o CMakeFiles/gsl.dir/pow_int.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/gsl/pow_int.cpp [ 33%] Building CXX object gsl/CMakeFiles/gsl.dir/gauss.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/gsl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT gsl/CMakeFiles/gsl.dir/gauss.cpp.o -MF CMakeFiles/gsl.dir/gauss.cpp.o.d -o CMakeFiles/gsl.dir/gauss.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/gsl/gauss.cpp [ 34%] Building CXX object gsl/CMakeFiles/gsl.dir/gaussinv.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/gsl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT gsl/CMakeFiles/gsl.dir/gaussinv.cpp.o -MF CMakeFiles/gsl.dir/gaussinv.cpp.o.d -o CMakeFiles/gsl.dir/gaussinv.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/gsl/gaussinv.cpp [ 34%] Building CXX object cmaple/utils/CMakeFiles/cmaple_utils.dir/operatingsystem.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/utils && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/utils/CMakeFiles/cmaple_utils.dir/operatingsystem.cpp.o -MF CMakeFiles/cmaple_utils.dir/operatingsystem.cpp.o.d -o CMakeFiles/cmaple_utils.dir/operatingsystem.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/utils/operatingsystem.cpp [ 34%] Building CXX object gsl/CMakeFiles/gsl.dir/gausspdf.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/gsl && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT gsl/CMakeFiles/gsl.dir/gausspdf.cpp.o -MF CMakeFiles/gsl.dir/gausspdf.cpp.o.d -o CMakeFiles/gsl.dir/gausspdf.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/gsl/gausspdf.cpp [ 35%] Linking CXX static library libwhtest.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/whtest && /usr/bin/cmake -P CMakeFiles/whtest.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/whtest && /usr/bin/cmake -E cmake_link_script CMakeFiles/whtest.dir/link.txt --verbose=1 /usr/bin/ar qc libwhtest.a CMakeFiles/whtest.dir/eigen.c.o CMakeFiles/whtest.dir/eigen_sym.c.o CMakeFiles/whtest.dir/random.c.o CMakeFiles/whtest.dir/weisslambda.c.o CMakeFiles/whtest.dir/weisslambda_sub.c.o CMakeFiles/whtest.dir/whtest.c.o CMakeFiles/whtest.dir/whtest_sub.c.o CMakeFiles/whtest.dir/whtest_wrapper.cpp.o /usr/bin/ranlib libwhtest.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 35%] Built target whtest make -f phylo-yaml/CMakeFiles/phyloYAML.dir/build.make phylo-yaml/CMakeFiles/phyloYAML.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/phylo-yaml /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/phylo-yaml /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/phylo-yaml/CMakeFiles/phyloYAML.dir/DependInfo.cmake "--color=" phyloYAML make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make -f phylo-yaml/CMakeFiles/phyloYAML.dir/build.make phylo-yaml/CMakeFiles/phyloYAML.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 35%] Linking CXX static library libgsl.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/gsl && /usr/bin/cmake -P CMakeFiles/gsl.dir/cmake_clean_target.cmake [ 36%] Building CXX object phylo-yaml/CMakeFiles/phyloYAML.dir/statespace.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/phylo-yaml && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT phylo-yaml/CMakeFiles/phyloYAML.dir/statespace.cpp.o -MF CMakeFiles/phyloYAML.dir/statespace.cpp.o.d -o CMakeFiles/phyloYAML.dir/statespace.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/phylo-yaml/statespace.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/gsl && /usr/bin/cmake -E cmake_link_script CMakeFiles/gsl.dir/link.txt --verbose=1 /usr/bin/ar qc libgsl.a CMakeFiles/gsl.dir/binomial_tpe.cpp.o CMakeFiles/gsl.dir/multinomial.cpp.o CMakeFiles/gsl.dir/pow_int.cpp.o CMakeFiles/gsl.dir/gauss.cpp.o CMakeFiles/gsl.dir/gaussinv.cpp.o CMakeFiles/gsl.dir/gausspdf.cpp.o /usr/bin/ranlib libgsl.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 36%] Built target gsl [ 37%] Building CXX object cmaple/utils/CMakeFiles/cmaple_utils.dir/gzstream.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/utils && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/utils/CMakeFiles/cmaple_utils.dir/gzstream.cpp.o -MF CMakeFiles/cmaple_utils.dir/gzstream.cpp.o.d -o CMakeFiles/cmaple_utils.dir/gzstream.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/utils/gzstream.cpp [ 37%] Building CXX object cmaple/utils/CMakeFiles/cmaple_utils.dir/logstream.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/utils && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/utils/CMakeFiles/cmaple_utils.dir/logstream.cpp.o -MF CMakeFiles/cmaple_utils.dir/logstream.cpp.o.d -o CMakeFiles/cmaple_utils.dir/logstream.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/utils/logstream.cpp make -f terraphast/CMakeFiles/terraphast.dir/build.make terraphast/CMakeFiles/terraphast.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/terraphast /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/terraphast/CMakeFiles/terraphast.dir/DependInfo.cmake "--color=" terraphast make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make -f terraphast/CMakeFiles/terraphast.dir/build.make terraphast/CMakeFiles/terraphast.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 37%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/advanced.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/advanced.cpp.o -MF CMakeFiles/terraphast.dir/lib/advanced.cpp.o.d -o CMakeFiles/terraphast.dir/lib/advanced.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/advanced.cpp [ 37%] Linking CXX static library libcmaple_utils.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/utils && /usr/bin/cmake -P CMakeFiles/cmaple_utils.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/utils && /usr/bin/cmake -E cmake_link_script CMakeFiles/cmaple_utils.dir/link.txt --verbose=1 "/usr/bin/gcc-ar-15" qc libcmaple_utils.a CMakeFiles/cmaple_utils.dir/tools.cpp.o CMakeFiles/cmaple_utils.dir/operatingsystem.cpp.o CMakeFiles/cmaple_utils.dir/gzstream.cpp.o CMakeFiles/cmaple_utils.dir/logstream.cpp.o "/usr/bin/gcc-ranlib-15" libcmaple_utils.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 37%] Built target cmaple_utils make -f utils/CMakeFiles/decentTree.dir/build.make utils/CMakeFiles/decentTree.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/utils /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/utils /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/utils/CMakeFiles/decentTree.dir/DependInfo.cmake "--color=" decentTree make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make -f utils/CMakeFiles/decentTree.dir/build.make utils/CMakeFiles/decentTree.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 38%] Building CXX object utils/CMakeFiles/decentTree.dir/decenttree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -MD -MT utils/CMakeFiles/decentTree.dir/decenttree.cpp.o -MF CMakeFiles/decentTree.dir/decenttree.cpp.o.d -o CMakeFiles/decentTree.dir/decenttree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/decenttree.cpp [ 38%] Linking CXX static library libkernelsse.a /usr/bin/cmake -P CMakeFiles/kernelsse.dir/cmake_clean_target.cmake /usr/bin/cmake -E cmake_link_script CMakeFiles/kernelsse.dir/link.txt --verbose=1 /usr/bin/ar qc libkernelsse.a CMakeFiles/kernelsse.dir/tree/phylokernelsse.cpp.o /usr/bin/ranlib libkernelsse.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 38%] Built target kernelsse make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/utils /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/utils /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/utils/CMakeFiles/utils.dir/DependInfo.cmake "--color=" utils [ 38%] Building CXX object utils/CMakeFiles/decentTree.dir/starttree.cpp.o make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -MD -MT utils/CMakeFiles/decentTree.dir/starttree.cpp.o -MF CMakeFiles/decentTree.dir/starttree.cpp.o.d -o CMakeFiles/decentTree.dir/starttree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/starttree.cpp [ 40%] Building CXX object utils/CMakeFiles/utils.dir/eigendecomposition.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/eigendecomposition.cpp.o -MF CMakeFiles/utils.dir/eigendecomposition.cpp.o.d -o CMakeFiles/utils.dir/eigendecomposition.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/eigendecomposition.cpp [ 40%] Building CXX object utils/CMakeFiles/decentTree.dir/bionj.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -MD -MT utils/CMakeFiles/decentTree.dir/bionj.cpp.o -MF CMakeFiles/decentTree.dir/bionj.cpp.o.d -o CMakeFiles/decentTree.dir/bionj.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/bionj.cpp [ 41%] Building CXX object utils/CMakeFiles/decentTree.dir/bionj2.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -MD -MT utils/CMakeFiles/decentTree.dir/bionj2.cpp.o -MF CMakeFiles/decentTree.dir/bionj2.cpp.o.d -o CMakeFiles/decentTree.dir/bionj2.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/bionj2.cpp [ 41%] Building CXX object utils/CMakeFiles/utils.dir/gzstream.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/gzstream.cpp.o -MF CMakeFiles/utils.dir/gzstream.cpp.o.d -o CMakeFiles/utils.dir/gzstream.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/gzstream.cpp [ 41%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/bigint.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/bigint.cpp.o -MF CMakeFiles/terraphast.dir/lib/bigint.cpp.o.d -o CMakeFiles/terraphast.dir/lib/bigint.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/bigint.cpp [ 41%] Building CXX object utils/CMakeFiles/utils.dir/optimization.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/optimization.cpp.o -MF CMakeFiles/utils.dir/optimization.cpp.o.d -o CMakeFiles/utils.dir/optimization.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/optimization.cpp [ 42%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/bipartitions.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/bipartitions.cpp.o -MF CMakeFiles/terraphast.dir/lib/bipartitions.cpp.o.d -o CMakeFiles/terraphast.dir/lib/bipartitions.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/bipartitions.cpp [ 42%] Linking CXX static library libphyloYAML.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/phylo-yaml && /usr/bin/cmake -P CMakeFiles/phyloYAML.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/phylo-yaml && /usr/bin/cmake -E cmake_link_script CMakeFiles/phyloYAML.dir/link.txt --verbose=1 /usr/bin/ar qc libphyloYAML.a CMakeFiles/phyloYAML.dir/statespace.cpp.o /usr/bin/ranlib libphyloYAML.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 42%] Built target phyloYAML [ 42%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/bitmatrix.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/bitmatrix.cpp.o -MF CMakeFiles/terraphast.dir/lib/bitmatrix.cpp.o.d -o CMakeFiles/terraphast.dir/lib/bitmatrix.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/bitmatrix.cpp [ 43%] Building CXX object utils/CMakeFiles/utils.dir/stoprule.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/stoprule.cpp.o -MF CMakeFiles/utils.dir/stoprule.cpp.o.d -o CMakeFiles/utils.dir/stoprule.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/stoprule.cpp [ 43%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/clamped_uint.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/clamped_uint.cpp.o -MF CMakeFiles/terraphast.dir/lib/clamped_uint.cpp.o.d -o CMakeFiles/terraphast.dir/lib/clamped_uint.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/clamped_uint.cpp [ 44%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/constraints.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/constraints.cpp.o -MF CMakeFiles/terraphast.dir/lib/constraints.cpp.o.d -o CMakeFiles/terraphast.dir/lib/constraints.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/constraints.cpp [ 44%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/errors.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/errors.cpp.o -MF CMakeFiles/terraphast.dir/lib/errors.cpp.o.d -o CMakeFiles/terraphast.dir/lib/errors.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/errors.cpp [ 44%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/multitree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/multitree.cpp.o -MF CMakeFiles/terraphast.dir/lib/multitree.cpp.o.d -o CMakeFiles/terraphast.dir/lib/multitree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/multitree.cpp [ 44%] Linking CXX static library libkernelfma.a /usr/bin/cmake -P CMakeFiles/kernelfma.dir/cmake_clean_target.cmake /usr/bin/cmake -E cmake_link_script CMakeFiles/kernelfma.dir/link.txt --verbose=1 /usr/bin/ar qc libkernelfma.a CMakeFiles/kernelfma.dir/tree/phylokernelfma.cpp.o /usr/bin/ranlib libkernelfma.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 44%] Built target kernelfma [ 45%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/multitree_iterator.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/multitree_iterator.cpp.o -MF CMakeFiles/terraphast.dir/lib/multitree_iterator.cpp.o.d -o CMakeFiles/terraphast.dir/lib/multitree_iterator.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/multitree_iterator.cpp [ 45%] Building CXX object utils/CMakeFiles/decentTree.dir/gzstream.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -MD -MT utils/CMakeFiles/decentTree.dir/gzstream.cpp.o -MF CMakeFiles/decentTree.dir/gzstream.cpp.o.d -o CMakeFiles/decentTree.dir/gzstream.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/gzstream.cpp make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/pda /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pda /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pda/CMakeFiles/pda.dir/DependInfo.cmake "--color=" pda make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 45%] Building CXX object pda/CMakeFiles/pda.dir/circularnetwork.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/circularnetwork.cpp.o -MF CMakeFiles/pda.dir/circularnetwork.cpp.o.d -o CMakeFiles/pda.dir/circularnetwork.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/circularnetwork.cpp [ 45%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/nodes.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/nodes.cpp.o -MF CMakeFiles/terraphast.dir/lib/nodes.cpp.o.d -o CMakeFiles/terraphast.dir/lib/nodes.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/nodes.cpp [ 45%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/parser.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/parser.cpp.o -MF CMakeFiles/terraphast.dir/lib/parser.cpp.o.d -o CMakeFiles/terraphast.dir/lib/parser.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/parser.cpp [ 45%] Building CXX object utils/CMakeFiles/utils.dir/tools.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/tools.cpp.o -MF CMakeFiles/utils.dir/tools.cpp.o.d -o CMakeFiles/utils.dir/tools.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/tools.cpp [ 46%] Linking CXX static library libkernelavx.a /usr/bin/cmake -P CMakeFiles/kernelavx.dir/cmake_clean_target.cmake /usr/bin/cmake -E cmake_link_script CMakeFiles/kernelavx.dir/link.txt --verbose=1 [ 46%] Building CXX object utils/CMakeFiles/utils.dir/pllnni.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/pllnni.cpp.o -MF CMakeFiles/utils.dir/pllnni.cpp.o.d -o CMakeFiles/utils.dir/pllnni.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/pllnni.cpp /usr/bin/ar qc libkernelavx.a CMakeFiles/kernelavx.dir/tree/phylotreeavx.cpp.o /usr/bin/ranlib libkernelavx.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 46%] Built target kernelavx [ 46%] Building CXX object utils/CMakeFiles/decentTree.dir/progress.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -MD -MT utils/CMakeFiles/decentTree.dir/progress.cpp.o -MF CMakeFiles/decentTree.dir/progress.cpp.o.d -o CMakeFiles/decentTree.dir/progress.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/progress.cpp [ 47%] Building CXX object pda/CMakeFiles/pda.dir/greedy.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/greedy.cpp.o -MF CMakeFiles/pda.dir/greedy.cpp.o.d -o CMakeFiles/pda.dir/greedy.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/greedy.cpp [ 48%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/rooting.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/rooting.cpp.o -MF CMakeFiles/terraphast.dir/lib/rooting.cpp.o.d -o CMakeFiles/terraphast.dir/lib/rooting.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/rooting.cpp make -f cmaple/alignment/CMakeFiles/cmaple_alignment.dir/build.make cmaple/alignment/CMakeFiles/cmaple_alignment.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/alignment /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/alignment/CMakeFiles/cmaple_alignment.dir/DependInfo.cmake "--color=" cmaple_alignment make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make -f cmaple/alignment/CMakeFiles/cmaple_alignment.dir/build.make cmaple/alignment/CMakeFiles/cmaple_alignment.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 48%] Building CXX object cmaple/alignment/CMakeFiles/cmaple_alignment.dir/mutation.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/alignment && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/alignment/CMakeFiles/cmaple_alignment.dir/mutation.cpp.o -MF CMakeFiles/cmaple_alignment.dir/mutation.cpp.o.d -o CMakeFiles/cmaple_alignment.dir/mutation.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/mutation.cpp [ 48%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/simple.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/simple.cpp.o -MF CMakeFiles/terraphast.dir/lib/simple.cpp.o.d -o CMakeFiles/terraphast.dir/lib/simple.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/simple.cpp [ 48%] Building CXX object pda/CMakeFiles/pda.dir/gurobiwrapper.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/gurobiwrapper.cpp.o -MF CMakeFiles/pda.dir/gurobiwrapper.cpp.o.d -o CMakeFiles/pda.dir/gurobiwrapper.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/gurobiwrapper.cpp [ 49%] Building CXX object utils/CMakeFiles/decentTree.dir/operatingsystem.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -MD -MT utils/CMakeFiles/decentTree.dir/operatingsystem.cpp.o -MF CMakeFiles/decentTree.dir/operatingsystem.cpp.o.d -o CMakeFiles/decentTree.dir/operatingsystem.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/operatingsystem.cpp [ 49%] Linking CXX executable decentTree cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/utils && /usr/bin/cmake -E cmake_link_script CMakeFiles/decentTree.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -Wl,-z,relro -Wl,-z,now -rdynamic -Wl,--dependency-file=CMakeFiles/decentTree.dir/link.d CMakeFiles/decentTree.dir/decenttree.cpp.o CMakeFiles/decentTree.dir/starttree.cpp.o CMakeFiles/decentTree.dir/bionj.cpp.o CMakeFiles/decentTree.dir/bionj2.cpp.o CMakeFiles/decentTree.dir/gzstream.cpp.o CMakeFiles/decentTree.dir/progress.cpp.o CMakeFiles/decentTree.dir/operatingsystem.cpp.o -o decentTree -L/build/reproducible-path/iqtree-3.0.1+dfsg/lib -Wl,-rpath,/build/reproducible-path/iqtree-3.0.1+dfsg/lib /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 49%] Built target decentTree [ 50%] Building CXX object cmaple/alignment/CMakeFiles/cmaple_alignment.dir/seqregion.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/alignment && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/alignment/CMakeFiles/cmaple_alignment.dir/seqregion.cpp.o -MF CMakeFiles/cmaple_alignment.dir/seqregion.cpp.o.d -o CMakeFiles/cmaple_alignment.dir/seqregion.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/seqregion.cpp [ 50%] Building CXX object cmaple/alignment/CMakeFiles/cmaple_alignment.dir/seqregions.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/alignment && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/alignment/CMakeFiles/cmaple_alignment.dir/seqregions.cpp.o -MF CMakeFiles/cmaple_alignment.dir/seqregions.cpp.o.d -o CMakeFiles/cmaple_alignment.dir/seqregions.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/seqregions.cpp [ 50%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/subtree_extraction.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/subtree_extraction.cpp.o -MF CMakeFiles/terraphast.dir/lib/subtree_extraction.cpp.o.d -o CMakeFiles/terraphast.dir/lib/subtree_extraction.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/subtree_extraction.cpp [ 50%] Building CXX object pda/CMakeFiles/pda.dir/hashsplitset.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/hashsplitset.cpp.o -MF CMakeFiles/pda.dir/hashsplitset.cpp.o.d -o CMakeFiles/pda.dir/hashsplitset.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/hashsplitset.cpp In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/seqregions.cpp:8: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ [ 50%] Building CXX object cmaple/alignment/CMakeFiles/cmaple_alignment.dir/sequence.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/alignment && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/alignment/CMakeFiles/cmaple_alignment.dir/sequence.cpp.o -MF CMakeFiles/cmaple_alignment.dir/sequence.cpp.o.d -o CMakeFiles/cmaple_alignment.dir/sequence.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/sequence.cpp [ 51%] Building CXX object utils/CMakeFiles/utils.dir/checkpoint.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/checkpoint.cpp.o -MF CMakeFiles/utils.dir/checkpoint.cpp.o.d -o CMakeFiles/utils.dir/checkpoint.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/checkpoint.cpp [ 51%] Building CXX object utils/CMakeFiles/utils.dir/MPIHelper.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/MPIHelper.cpp.o -MF CMakeFiles/utils.dir/MPIHelper.cpp.o.d -o CMakeFiles/utils.dir/MPIHelper.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/MPIHelper.cpp [ 52%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/supertree_helpers.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/supertree_helpers.cpp.o -MF CMakeFiles/terraphast.dir/lib/supertree_helpers.cpp.o.d -o CMakeFiles/terraphast.dir/lib/supertree_helpers.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/supertree_helpers.cpp [ 53%] Building CXX object pda/CMakeFiles/pda.dir/pdnetwork.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/pdnetwork.cpp.o -MF CMakeFiles/pda.dir/pdnetwork.cpp.o.d -o CMakeFiles/pda.dir/pdnetwork.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/pdnetwork.cpp In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/sequence.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/sequence.cpp:8: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ [ 53%] Building CXX object utils/CMakeFiles/utils.dir/starttree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/starttree.cpp.o -MF CMakeFiles/utils.dir/starttree.cpp.o.d -o CMakeFiles/utils.dir/starttree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/starttree.cpp [ 53%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/trees.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/trees.cpp.o -MF CMakeFiles/terraphast.dir/lib/trees.cpp.o.d -o CMakeFiles/terraphast.dir/lib/trees.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/trees.cpp [ 54%] Building CXX object cmaple/alignment/CMakeFiles/cmaple_alignment.dir/alignment.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/alignment && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/alignment/CMakeFiles/cmaple_alignment.dir/alignment.cpp.o -MF CMakeFiles/cmaple_alignment.dir/alignment.cpp.o.d -o CMakeFiles/cmaple_alignment.dir/alignment.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/alignment.cpp [ 54%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/union_find.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/union_find.cpp.o -MF CMakeFiles/terraphast.dir/lib/union_find.cpp.o.d -o CMakeFiles/terraphast.dir/lib/union_find.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/union_find.cpp [ 55%] Building CXX object utils/CMakeFiles/utils.dir/bionj.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/bionj.cpp.o -MF CMakeFiles/utils.dir/bionj.cpp.o.d -o CMakeFiles/utils.dir/bionj.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/bionj.cpp In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/sequence.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/alignment.h:2, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/alignment.cpp:8: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ [ 56%] Building CXX object terraphast/CMakeFiles/terraphast.dir/lib/validation.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/terraphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -std=gnu++11 -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/validation.cpp.o -MF CMakeFiles/terraphast.dir/lib/validation.cpp.o.d -o CMakeFiles/terraphast.dir/lib/validation.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/validation.cpp [ 56%] Building CXX object pda/CMakeFiles/pda.dir/pruning.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/pruning.cpp.o -MF CMakeFiles/pda.dir/pruning.cpp.o.d -o CMakeFiles/pda.dir/pruning.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/pruning.cpp [ 56%] Building CXX object pda/CMakeFiles/pda.dir/split.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/split.cpp.o -MF CMakeFiles/pda.dir/split.cpp.o.d -o CMakeFiles/pda.dir/split.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/split.cpp [ 56%] Linking CXX static library libcmaple_alignment.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/alignment && /usr/bin/cmake -P CMakeFiles/cmaple_alignment.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/alignment && /usr/bin/cmake -E cmake_link_script CMakeFiles/cmaple_alignment.dir/link.txt --verbose=1 "/usr/bin/gcc-ar-15" qc libcmaple_alignment.a CMakeFiles/cmaple_alignment.dir/mutation.cpp.o CMakeFiles/cmaple_alignment.dir/seqregion.cpp.o CMakeFiles/cmaple_alignment.dir/seqregions.cpp.o CMakeFiles/cmaple_alignment.dir/sequence.cpp.o CMakeFiles/cmaple_alignment.dir/alignment.cpp.o "/usr/bin/gcc-ranlib-15" libcmaple_alignment.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 56%] Built target cmaple_alignment [ 56%] Building CXX object utils/CMakeFiles/utils.dir/bionj2.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/bionj2.cpp.o -MF CMakeFiles/utils.dir/bionj2.cpp.o.d -o CMakeFiles/utils.dir/bionj2.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/bionj2.cpp [ 56%] Linking CXX static library libterraphast.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/terraphast && /usr/bin/cmake -P CMakeFiles/terraphast.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/terraphast && /usr/bin/cmake -E cmake_link_script CMakeFiles/terraphast.dir/link.txt --verbose=1 /usr/bin/ar qc libterraphast.a CMakeFiles/terraphast.dir/lib/advanced.cpp.o CMakeFiles/terraphast.dir/lib/bigint.cpp.o CMakeFiles/terraphast.dir/lib/bipartitions.cpp.o CMakeFiles/terraphast.dir/lib/bitmatrix.cpp.o CMakeFiles/terraphast.dir/lib/clamped_uint.cpp.o CMakeFiles/terraphast.dir/lib/constraints.cpp.o CMakeFiles/terraphast.dir/lib/errors.cpp.o CMakeFiles/terraphast.dir/lib/multitree.cpp.o CMakeFiles/terraphast.dir/lib/multitree_iterator.cpp.o CMakeFiles/terraphast.dir/lib/nodes.cpp.o CMakeFiles/terraphast.dir/lib/parser.cpp.o CMakeFiles/terraphast.dir/lib/rooting.cpp.o CMakeFiles/terraphast.dir/lib/simple.cpp.o CMakeFiles/terraphast.dir/lib/subtree_extraction.cpp.o CMakeFiles/terraphast.dir/lib/supertree_helpers.cpp.o CMakeFiles/terraphast.dir/lib/trees.cpp.o CMakeFiles/terraphast.dir/lib/union_find.cpp.o CMakeFiles/terraphast.dir/lib/validation.cpp.o /usr/bin/ranlib libterraphast.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 56%] Built target terraphast make -f cmaple/model/CMakeFiles/cmaple_model.dir/build.make cmaple/model/CMakeFiles/cmaple_model.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/model /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/model/CMakeFiles/cmaple_model.dir/DependInfo.cmake "--color=" cmaple_model make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make -f cmaple/model/CMakeFiles/cmaple_model.dir/build.make cmaple/model/CMakeFiles/cmaple_model.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 57%] Building CXX object cmaple/model/CMakeFiles/cmaple_model.dir/model.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/model && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/model/CMakeFiles/cmaple_model.dir/model.cpp.o -MF CMakeFiles/cmaple_model.dir/model.cpp.o.d -o CMakeFiles/cmaple_model.dir/model.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/model.cpp [ 58%] Building CXX object pda/CMakeFiles/pda.dir/splitgraph.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/splitgraph.cpp.o -MF CMakeFiles/pda.dir/splitgraph.cpp.o.d -o CMakeFiles/pda.dir/splitgraph.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/splitgraph.cpp [ 58%] Building CXX object pda/CMakeFiles/pda.dir/splitset.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/splitset.cpp.o -MF CMakeFiles/pda.dir/splitset.cpp.o.d -o CMakeFiles/pda.dir/splitset.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/splitset.cpp [ 58%] Building CXX object cmaple/model/CMakeFiles/cmaple_model.dir/modelbase.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/model && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/model/CMakeFiles/cmaple_model.dir/modelbase.cpp.o -MF CMakeFiles/cmaple_model.dir/modelbase.cpp.o.d -o CMakeFiles/cmaple_model.dir/modelbase.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/modelbase.cpp In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/model.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/model.cpp:1: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ [ 58%] Building C object pda/CMakeFiles/pda.dir/lpwrapper.c.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pda && /usr/bin/cc -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/lpwrapper.c.o -MF CMakeFiles/pda.dir/lpwrapper.c.o.d -o CMakeFiles/pda.dir/lpwrapper.c.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/lpwrapper.c [ 58%] Building CXX object cmaple/model/CMakeFiles/cmaple_model.dir/model_dna.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/model && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/model/CMakeFiles/cmaple_model.dir/model_dna.cpp.o -MF CMakeFiles/cmaple_model.dir/model_dna.cpp.o.d -o CMakeFiles/cmaple_model.dir/model_dna.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/model_dna.cpp [ 58%] Building CXX object utils/CMakeFiles/utils.dir/progress.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/progress.cpp.o -MF CMakeFiles/utils.dir/progress.cpp.o.d -o CMakeFiles/utils.dir/progress.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/progress.cpp In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/modelbase.cpp:1: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ [ 60%] Building CXX object utils/CMakeFiles/utils.dir/operatingsystem.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/utils && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT utils/CMakeFiles/utils.dir/operatingsystem.cpp.o -MF CMakeFiles/utils.dir/operatingsystem.cpp.o.d -o CMakeFiles/utils.dir/operatingsystem.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/utils/operatingsystem.cpp [ 61%] Building CXX object cmaple/model/CMakeFiles/cmaple_model.dir/model_aa.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/model && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/model/CMakeFiles/cmaple_model.dir/model_aa.cpp.o -MF CMakeFiles/cmaple_model.dir/model_aa.cpp.o.d -o CMakeFiles/cmaple_model.dir/model_aa.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/model_aa.cpp [ 62%] Building CXX object pda/CMakeFiles/pda.dir/ecopd.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/ecopd.cpp.o -MF CMakeFiles/pda.dir/ecopd.cpp.o.d -o CMakeFiles/pda.dir/ecopd.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/ecopd.cpp In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/model.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/model_dna.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/model_dna.cpp:1: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ [ 62%] Building CXX object pda/CMakeFiles/pda.dir/graph.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/graph.cpp.o -MF CMakeFiles/pda.dir/graph.cpp.o.d -o CMakeFiles/pda.dir/graph.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/graph.cpp [ 62%] Building CXX object pda/CMakeFiles/pda.dir/pdtree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/pdtree.cpp.o -MF CMakeFiles/pda.dir/pdtree.cpp.o.d -o CMakeFiles/pda.dir/pdtree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/pdtree.cpp [ 63%] Building CXX object pda/CMakeFiles/pda.dir/pdtreeset.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/pdtreeset.cpp.o -MF CMakeFiles/pda.dir/pdtreeset.cpp.o.d -o CMakeFiles/pda.dir/pdtreeset.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/pdtreeset.cpp In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/model.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/model_aa.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/model_aa.cpp:1: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/model/../alignment/../model/../utils/matrix.h:34: /usr/include/simde/x86/avx.h: In function ‘simde__m256d simde__m256d_from_private(simde__m256d_private)’: /usr/include/simde/x86/avx.h:319:1: note: the ABI for passing parameters with 32-byte alignment has changed in GCC 4.6 319 | simde__m256d_from_private(simde__m256d_private v) { | ^~~~~~~~~~~~~~~~~~~~~~~~~ [ 63%] Linking CXX static library libcmaple_model.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/model && /usr/bin/cmake -P CMakeFiles/cmaple_model.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/model && /usr/bin/cmake -E cmake_link_script CMakeFiles/cmaple_model.dir/link.txt --verbose=1 "/usr/bin/gcc-ar-15" qc libcmaple_model.a CMakeFiles/cmaple_model.dir/model.cpp.o CMakeFiles/cmaple_model.dir/modelbase.cpp.o CMakeFiles/cmaple_model.dir/model_dna.cpp.o CMakeFiles/cmaple_model.dir/model_aa.cpp.o "/usr/bin/gcc-ranlib-15" libcmaple_model.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 63%] Built target cmaple_model [ 63%] Building CXX object pda/CMakeFiles/pda.dir/ecopdmtreeset.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pda && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT pda/CMakeFiles/pda.dir/ecopdmtreeset.cpp.o -MF CMakeFiles/pda.dir/ecopdmtreeset.cpp.o.d -o CMakeFiles/pda.dir/ecopdmtreeset.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/pda/ecopdmtreeset.cpp make -f cmaple/tree/CMakeFiles/cmaple_tree.dir/build.make cmaple/tree/CMakeFiles/cmaple_tree.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/tree /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/tree/CMakeFiles/cmaple_tree.dir/DependInfo.cmake "--color=" cmaple_tree make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make -f cmaple/tree/CMakeFiles/cmaple_tree.dir/build.make cmaple/tree/CMakeFiles/cmaple_tree.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 63%] Building CXX object cmaple/tree/CMakeFiles/cmaple_tree.dir/tree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/tree && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/tree/CMakeFiles/cmaple_tree.dir/tree.cpp.o -MF CMakeFiles/cmaple_tree.dir/tree.cpp.o.d -o CMakeFiles/cmaple_tree.dir/tree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/tree.cpp [ 64%] Building CXX object cmaple/tree/CMakeFiles/cmaple_tree.dir/updatingnode.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/tree && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/tree/CMakeFiles/cmaple_tree.dir/updatingnode.cpp.o -MF CMakeFiles/cmaple_tree.dir/updatingnode.cpp.o.d -o CMakeFiles/cmaple_tree.dir/updatingnode.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/updatingnode.cpp [ 64%] Building CXX object cmaple/tree/CMakeFiles/cmaple_tree.dir/traversingnode.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/tree && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/tree/CMakeFiles/cmaple_tree.dir/traversingnode.cpp.o -MF CMakeFiles/cmaple_tree.dir/traversingnode.cpp.o.d -o CMakeFiles/cmaple_tree.dir/traversingnode.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/traversingnode.cpp [ 64%] Building CXX object cmaple/tree/CMakeFiles/cmaple_tree.dir/phylonode.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/tree && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/tree/CMakeFiles/cmaple_tree.dir/phylonode.cpp.o -MF CMakeFiles/cmaple_tree.dir/phylonode.cpp.o.d -o CMakeFiles/cmaple_tree.dir/phylonode.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/phylonode.cpp [ 64%] Linking CXX static library libutils.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/utils && /usr/bin/cmake -P CMakeFiles/utils.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/utils && /usr/bin/cmake -E cmake_link_script CMakeFiles/utils.dir/link.txt --verbose=1 /usr/bin/ar qc libutils.a CMakeFiles/utils.dir/eigendecomposition.cpp.o CMakeFiles/utils.dir/gzstream.cpp.o CMakeFiles/utils.dir/optimization.cpp.o CMakeFiles/utils.dir/stoprule.cpp.o CMakeFiles/utils.dir/tools.cpp.o CMakeFiles/utils.dir/pllnni.cpp.o CMakeFiles/utils.dir/checkpoint.cpp.o CMakeFiles/utils.dir/MPIHelper.cpp.o CMakeFiles/utils.dir/starttree.cpp.o CMakeFiles/utils.dir/bionj.cpp.o CMakeFiles/utils.dir/bionj2.cpp.o CMakeFiles/utils.dir/progress.cpp.o CMakeFiles/utils.dir/operatingsystem.cpp.o /usr/bin/ranlib libutils.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 64%] Built target utils make -f model/CMakeFiles/model.dir/build.make model/CMakeFiles/model.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/model /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model/CMakeFiles/model.dir/DependInfo.cmake "--color=" model make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make -f model/CMakeFiles/model.dir/build.make model/CMakeFiles/model.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 64%] Building CXX object model/CMakeFiles/model.dir/modelmarkov.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelmarkov.cpp.o -MF CMakeFiles/model.dir/modelmarkov.cpp.o.d -o CMakeFiles/model.dir/modelmarkov.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelmarkov.cpp In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/sequence.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/alignment.h:2, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/tree.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/tree.cpp:1: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/internal.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/phylonode.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/traversingnode.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/traversingnode.cpp:1: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/internal.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/phylonode.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/traversingnode.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/updatingnode.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/updatingnode.cpp:1: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ [ 65%] Building CXX object model/CMakeFiles/model.dir/modelbin.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelbin.cpp.o -MF CMakeFiles/model.dir/modelbin.cpp.o.d -o CMakeFiles/model.dir/modelbin.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelbin.cpp [ 65%] Building CXX object model/CMakeFiles/model.dir/modeldna.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modeldna.cpp.o -MF CMakeFiles/model.dir/modeldna.cpp.o.d -o CMakeFiles/model.dir/modeldna.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modeldna.cpp In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h:34: /usr/include/simde/x86/avx.h: In function ‘simde__m256d simde__m256d_from_private(simde__m256d_private)’: /usr/include/simde/x86/avx.h:319:1: note: the ABI for passing parameters with 32-byte alignment has changed in GCC 4.6 319 | simde__m256d_from_private(simde__m256d_private v) { | ^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/internal.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/phylonode.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/phylonode.cpp:1: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/tree/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ [ 65%] Building CXX object model/CMakeFiles/model.dir/modeldnaerror.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modeldnaerror.cpp.o -MF CMakeFiles/model.dir/modeldnaerror.cpp.o.d -o CMakeFiles/model.dir/modeldnaerror.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modeldnaerror.cpp [ 65%] Linking CXX static library libpda.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pda && /usr/bin/cmake -P CMakeFiles/pda.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/pda && /usr/bin/cmake -E cmake_link_script CMakeFiles/pda.dir/link.txt --verbose=1 /usr/bin/ar qc libpda.a CMakeFiles/pda.dir/circularnetwork.cpp.o CMakeFiles/pda.dir/greedy.cpp.o CMakeFiles/pda.dir/gurobiwrapper.cpp.o CMakeFiles/pda.dir/hashsplitset.cpp.o CMakeFiles/pda.dir/pdnetwork.cpp.o CMakeFiles/pda.dir/pruning.cpp.o CMakeFiles/pda.dir/split.cpp.o CMakeFiles/pda.dir/splitgraph.cpp.o CMakeFiles/pda.dir/splitset.cpp.o CMakeFiles/pda.dir/lpwrapper.c.o CMakeFiles/pda.dir/ecopd.cpp.o CMakeFiles/pda.dir/graph.cpp.o CMakeFiles/pda.dir/pdtree.cpp.o CMakeFiles/pda.dir/pdtreeset.cpp.o CMakeFiles/pda.dir/ecopdmtreeset.cpp.o /usr/bin/ranlib libpda.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 65%] Built target pda [ 66%] Building CXX object model/CMakeFiles/model.dir/modelfactory.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelfactory.cpp.o -MF CMakeFiles/model.dir/modelfactory.cpp.o.d -o CMakeFiles/model.dir/modelfactory.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelfactory.cpp [ 66%] Building CXX object model/CMakeFiles/model.dir/modelprotein.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelprotein.cpp.o -MF CMakeFiles/model.dir/modelprotein.cpp.o.d -o CMakeFiles/model.dir/modelprotein.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelprotein.cpp [ 67%] Linking CXX static library libcmaple_tree.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/tree && /usr/bin/cmake -P CMakeFiles/cmaple_tree.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/tree && /usr/bin/cmake -E cmake_link_script CMakeFiles/cmaple_tree.dir/link.txt --verbose=1 "/usr/bin/gcc-ar-15" qc libcmaple_tree.a CMakeFiles/cmaple_tree.dir/tree.cpp.o CMakeFiles/cmaple_tree.dir/updatingnode.cpp.o CMakeFiles/cmaple_tree.dir/traversingnode.cpp.o CMakeFiles/cmaple_tree.dir/phylonode.cpp.o "/usr/bin/gcc-ranlib-15" libcmaple_tree.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 67%] Built target cmaple_tree [ 67%] Building CXX object model/CMakeFiles/model.dir/modelset.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelset.cpp.o -MF CMakeFiles/model.dir/modelset.cpp.o.d -o CMakeFiles/model.dir/modelset.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelset.cpp [ 68%] Building CXX object model/CMakeFiles/model.dir/modelsubst.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelsubst.cpp.o -MF CMakeFiles/model.dir/modelsubst.cpp.o.d -o CMakeFiles/model.dir/modelsubst.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelsubst.cpp make -f cmaple/maple/CMakeFiles/maple.dir/build.make cmaple/maple/CMakeFiles/maple.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/maple /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/maple/CMakeFiles/maple.dir/DependInfo.cmake "--color=" maple make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make -f cmaple/maple/CMakeFiles/maple.dir/build.make cmaple/maple/CMakeFiles/maple.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 69%] Building CXX object cmaple/maple/CMakeFiles/maple.dir/cmaple.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/maple && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT cmaple/maple/CMakeFiles/maple.dir/cmaple.cpp.o -MF CMakeFiles/maple.dir/cmaple.cpp.o.d -o CMakeFiles/maple.dir/cmaple.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/cmaple.cpp In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/sequence.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/alignment.h:2, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/tree.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/cmaple.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/cmaple.cpp:1: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ [ 69%] Building CXX object model/CMakeFiles/model.dir/partitionmodel.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/partitionmodel.cpp.o -MF CMakeFiles/model.dir/partitionmodel.cpp.o.d -o CMakeFiles/model.dir/partitionmodel.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/partitionmodel.cpp [ 69%] Building CXX object model/CMakeFiles/model.dir/partitionmodelplen.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/partitionmodelplen.cpp.o -MF CMakeFiles/model.dir/partitionmodelplen.cpp.o.d -o CMakeFiles/model.dir/partitionmodelplen.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/partitionmodelplen.cpp [ 70%] Building CXX object model/CMakeFiles/model.dir/rategamma.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/rategamma.cpp.o -MF CMakeFiles/model.dir/rategamma.cpp.o.d -o CMakeFiles/model.dir/rategamma.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/rategamma.cpp [ 70%] Linking CXX static library libmaple.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/maple && /usr/bin/cmake -P CMakeFiles/maple.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/maple && /usr/bin/cmake -E cmake_link_script CMakeFiles/maple.dir/link.txt --verbose=1 "/usr/bin/gcc-ar-15" qc libmaple.a CMakeFiles/maple.dir/cmaple.cpp.o "/usr/bin/gcc-ranlib-15" libmaple.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 70%] Built target maple [ 70%] Building CXX object model/CMakeFiles/model.dir/rategammainvar.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/rategammainvar.cpp.o -MF CMakeFiles/model.dir/rategammainvar.cpp.o.d -o CMakeFiles/model.dir/rategammainvar.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/rategammainvar.cpp [ 70%] Building CXX object model/CMakeFiles/model.dir/ratecontinuousgamma.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/ratecontinuousgamma.cpp.o -MF CMakeFiles/model.dir/ratecontinuousgamma.cpp.o.d -o CMakeFiles/model.dir/ratecontinuousgamma.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/ratecontinuousgamma.cpp [ 71%] Building CXX object model/CMakeFiles/model.dir/ratecontinuousgammainvar.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/ratecontinuousgammainvar.cpp.o -MF CMakeFiles/model.dir/ratecontinuousgammainvar.cpp.o.d -o CMakeFiles/model.dir/ratecontinuousgammainvar.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/ratecontinuousgammainvar.cpp [ 71%] Building CXX object model/CMakeFiles/model.dir/rateheterogeneity.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/rateheterogeneity.cpp.o -MF CMakeFiles/model.dir/rateheterogeneity.cpp.o.d -o CMakeFiles/model.dir/rateheterogeneity.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/rateheterogeneity.cpp make -f cmaple/CMakeFiles/cmaple.dir/build.make cmaple/CMakeFiles/cmaple.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple/CMakeFiles/cmaple.dir/DependInfo.cmake "--color=" cmaple make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make -f cmaple/CMakeFiles/cmaple.dir/build.make cmaple/CMakeFiles/cmaple.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 72%] Building CXX object cmaple/CMakeFiles/cmaple.dir/main/main.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple && /usr/bin/c++ -DCMAPLE -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/system -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -std=gnu++20 -flto=auto -fno-fat-lto-objects -I/usr/include/eigen3 -I/usr/include -MD -MT cmaple/CMakeFiles/cmaple.dir/main/main.cpp.o -MF CMakeFiles/cmaple.dir/main/main.cpp.o.d -o CMakeFiles/cmaple.dir/main/main.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/main/main.cpp [ 72%] Building CXX object model/CMakeFiles/model.dir/rateinvar.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/rateinvar.cpp.o -MF CMakeFiles/model.dir/rateinvar.cpp.o.d -o CMakeFiles/model.dir/rateinvar.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/rateinvar.cpp [ 73%] Building CXX object model/CMakeFiles/model.dir/ratemeyerdiscrete.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/ratemeyerdiscrete.cpp.o -MF CMakeFiles/model.dir/ratemeyerdiscrete.cpp.o.d -o CMakeFiles/model.dir/ratemeyerdiscrete.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/ratemeyerdiscrete.cpp [ 73%] Building CXX object model/CMakeFiles/model.dir/ratemeyerhaeseler.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/ratemeyerhaeseler.cpp.o -MF CMakeFiles/model.dir/ratemeyerhaeseler.cpp.o.d -o CMakeFiles/model.dir/ratemeyerhaeseler.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/ratemeyerhaeseler.cpp [ 73%] Building CXX object model/CMakeFiles/model.dir/ratekategory.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/ratekategory.cpp.o -MF CMakeFiles/model.dir/ratekategory.cpp.o.d -o CMakeFiles/model.dir/ratekategory.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/ratekategory.cpp In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/main/../maple/../tree/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/main/../maple/../tree/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/main/../maple/../tree/../alignment/sequence.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/main/../maple/../tree/../alignment/alignment.h:2, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/main/../maple/../tree/tree.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/main/../maple/cmaple.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/main/main.cpp:32: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/main/../maple/../tree/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/main/../maple/../tree/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/main/../maple/../tree/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ [ 73%] Linking CXX executable cmaple cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple && /usr/bin/cmake -E cmake_link_script CMakeFiles/cmaple.dir/link.txt --verbose=1 [ 74%] Building CXX object model/CMakeFiles/model.dir/ratefree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/ratefree.cpp.o -MF CMakeFiles/model.dir/ratefree.cpp.o.d -o CMakeFiles/model.dir/ratefree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/ratefree.cpp tree/./cmaple/tree/../alignment/../model/../utils/matrix.h: In function ‘mul4’: tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:132:22: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] [ 74%] Building CXX object model/CMakeFiles/model.dir/ratefreeinvar.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/ratefreeinvar.cpp.o -MF CMakeFiles/model.dir/ratefreeinvar.cpp.o.d -o CMakeFiles/model.dir/ratefreeinvar.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/ratefreeinvar.cpp [ 74%] Building CXX object model/CMakeFiles/model.dir/rateheterotachy.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/rateheterotachy.cpp.o -MF CMakeFiles/model.dir/rateheterotachy.cpp.o.d -o CMakeFiles/model.dir/rateheterotachy.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/rateheterotachy.cpp In function ‘resetVec’, inlined from ‘resetLhVecExceptState’ at tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:271:21, inlined from ‘calSiteLhs_RACGT_ORACGT’ at tree/./cmaple/tree/../alignment/seqregions.h:1975:38, inlined from ‘calSiteLhs_notN_notN’ at tree/./cmaple/tree/../alignment/seqregions.h:2051:47, inlined from ‘calculateSiteLhContributions’ at tree/./cmaple/tree/../alignment/seqregions.h:2141:44: tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:264:20: warning: ‘__builtin_memset’ writing 160 bytes into a region of size 32 overflows the destination [-Wstringop-overflow=] In function ‘make_unique’, inlined from ‘calSiteLhs_RACGT_ORACGT’ at tree/./cmaple/tree/../alignment/seqregions.h:1964:8, inlined from ‘calSiteLhs_notN_notN’ at tree/./cmaple/tree/../alignment/seqregions.h:2051:47, inlined from ‘calculateSiteLhContributions’ at tree/./cmaple/tree/../alignment/seqregions.h:2141:44: tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ In function ‘resetVec’, inlined from ‘resetLhVecExceptState’ at tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:271:21, inlined from ‘merge_RACGT_ORACGT_TwoLowers’ at tree/./cmaple/tree/../alignment/seqregions.h:1295:38, inlined from ‘merge_notN_notN_TwoLowers’ at tree/./cmaple/tree/../alignment/seqregions.h:1370:52, inlined from ‘mergeTwoLowers’ at tree/./cmaple/tree/../alignment/seqregions.h:1459:49: tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:264:20: warning: ‘__builtin_memset’ writing 160 bytes into a region of size 32 overflows the destination [-Wstringop-overflow=] In function ‘make_unique’, inlined from ‘merge_RACGT_ORACGT_TwoLowers’ at tree/./cmaple/tree/../alignment/seqregions.h:1284:8, inlined from ‘merge_notN_notN_TwoLowers’ at tree/./cmaple/tree/../alignment/seqregions.h:1370:52, inlined from ‘mergeTwoLowers’ at tree/./cmaple/tree/../alignment/seqregions.h:1459:49: tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ [ 75%] Building CXX object model/CMakeFiles/model.dir/rateheterotachyinvar.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/rateheterotachyinvar.cpp.o -MF CMakeFiles/model.dir/rateheterotachyinvar.cpp.o.d -o CMakeFiles/model.dir/rateheterotachyinvar.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/rateheterotachyinvar.cpp In function ‘resetVec’, inlined from ‘resetLhVecExceptState’ at tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:271:21, inlined from ‘merge_O_ORACGT’ at tree/./cmaple/tree/../alignment/seqregions.h:744:54, inlined from ‘mergeUpperLower’ at tree/./cmaple/tree/../alignment/seqregions.h:1006:35: tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:264:20: warning: ‘__builtin_memset’ writing 160 bytes into a region of size 32 overflows the destination [-Wstringop-overflow=] In function ‘make_unique’, inlined from ‘merge_O_ORACGT’ at tree/./cmaple/tree/../alignment/seqregions.h:708:8, inlined from ‘mergeUpperLower’ at tree/./cmaple/tree/../alignment/seqregions.h:1006:35: tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ In function ‘resetVec’, inlined from ‘resetLhVecExceptState’ at tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:271:21, inlined from ‘merge_RACGT_RACGT’ at tree/./cmaple/tree/../alignment/seqregions.h:811:51, inlined from ‘merge_RACGT_ORACGT’ at tree/./cmaple/tree/../alignment/seqregions.h:887:34, inlined from ‘mergeUpperLower’ at tree/./cmaple/tree/../alignment/seqregions.h:1012:39: tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:264:20: warning: ‘__builtin_memset’ writing 160 bytes into a region of size 32 overflows the destination [-Wstringop-overflow=] In function ‘make_unique’, inlined from ‘merge_RACGT_ORACGT’ at tree/./cmaple/tree/../alignment/seqregions.h:843:8, inlined from ‘mergeUpperLower’ at tree/./cmaple/tree/../alignment/seqregions.h:1012:39: tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ [ 75%] Building CXX object model/CMakeFiles/model.dir/modelcodon.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelcodon.cpp.o -MF CMakeFiles/model.dir/modelcodon.cpp.o.d -o CMakeFiles/model.dir/modelcodon.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelcodon.cpp [ 75%] Building CXX object model/CMakeFiles/model.dir/modelmorphology.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelmorphology.cpp.o -MF CMakeFiles/model.dir/modelmorphology.cpp.o.d -o CMakeFiles/model.dir/modelmorphology.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelmorphology.cpp [ 76%] Building CXX object model/CMakeFiles/model.dir/modelmixture.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelmixture.cpp.o -MF CMakeFiles/model.dir/modelmixture.cpp.o.d -o CMakeFiles/model.dir/modelmixture.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelmixture.cpp /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -fopenmp -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -rdynamic -rdynamic -Wl,--dependency-file=CMakeFiles/cmaple.dir/link.d CMakeFiles/cmaple.dir/main/main.cpp.o -o cmaple -L/build/reproducible-path/iqtree-3.0.1+dfsg/lib -L/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/libraries/static/lib -Wl,-rpath,/build/reproducible-path/iqtree-3.0.1+dfsg/lib:/build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/libraries/static/lib maple/libmaple.a tree/libcmaple_tree.a model/libcmaple_model.a ../ncl/libncl.a ../nclextra/libnclextra.a alignment/libcmaple_alignment.a utils/libcmaple_utils.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 76%] Built target cmaple [ 76%] Building CXX object model/CMakeFiles/model.dir/modelunrest.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelunrest.cpp.o -MF CMakeFiles/model.dir/modelunrest.cpp.o.d -o CMakeFiles/model.dir/modelunrest.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelunrest.cpp [ 76%] Building CXX object model/CMakeFiles/model.dir/modelliemarkov.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelliemarkov.cpp.o -MF CMakeFiles/model.dir/modelliemarkov.cpp.o.d -o CMakeFiles/model.dir/modelliemarkov.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelliemarkov.cpp [ 77%] Building CXX object model/CMakeFiles/model.dir/modelpomo.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelpomo.cpp.o -MF CMakeFiles/model.dir/modelpomo.cpp.o.d -o CMakeFiles/model.dir/modelpomo.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelpomo.cpp [ 77%] Building CXX object model/CMakeFiles/model.dir/modelpomomixture.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelpomomixture.cpp.o -MF CMakeFiles/model.dir/modelpomomixture.cpp.o.d -o CMakeFiles/model.dir/modelpomomixture.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelpomomixture.cpp [ 77%] Building CXX object model/CMakeFiles/model.dir/modelfactorymixlen.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelfactorymixlen.cpp.o -MF CMakeFiles/model.dir/modelfactorymixlen.cpp.o.d -o CMakeFiles/model.dir/modelfactorymixlen.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelfactorymixlen.cpp [ 78%] Building CXX object model/CMakeFiles/model.dir/modelhmm.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelhmm.cpp.o -MF CMakeFiles/model.dir/modelhmm.cpp.o.d -o CMakeFiles/model.dir/modelhmm.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelhmm.cpp [ 78%] Building CXX object model/CMakeFiles/model.dir/modelhmmgm.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelhmmgm.cpp.o -MF CMakeFiles/model.dir/modelhmmgm.cpp.o.d -o CMakeFiles/model.dir/modelhmmgm.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelhmmgm.cpp [ 78%] Building CXX object model/CMakeFiles/model.dir/modelhmmtm.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelhmmtm.cpp.o -MF CMakeFiles/model.dir/modelhmmtm.cpp.o.d -o CMakeFiles/model.dir/modelhmmtm.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelhmmtm.cpp [ 80%] Building CXX object model/CMakeFiles/model.dir/modelcodonmixture.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT model/CMakeFiles/model.dir/modelcodonmixture.cpp.o -MF CMakeFiles/model.dir/modelcodonmixture.cpp.o.d -o CMakeFiles/model.dir/modelcodonmixture.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/model/modelcodonmixture.cpp [ 80%] Linking CXX static library libmodel.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/cmake -P CMakeFiles/model.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/model && /usr/bin/cmake -E cmake_link_script CMakeFiles/model.dir/link.txt --verbose=1 /usr/bin/ar qc libmodel.a CMakeFiles/model.dir/modelmarkov.cpp.o CMakeFiles/model.dir/modelbin.cpp.o CMakeFiles/model.dir/modeldna.cpp.o CMakeFiles/model.dir/modeldnaerror.cpp.o CMakeFiles/model.dir/modelfactory.cpp.o CMakeFiles/model.dir/modelprotein.cpp.o CMakeFiles/model.dir/modelset.cpp.o CMakeFiles/model.dir/modelsubst.cpp.o CMakeFiles/model.dir/partitionmodel.cpp.o CMakeFiles/model.dir/partitionmodelplen.cpp.o CMakeFiles/model.dir/rategamma.cpp.o CMakeFiles/model.dir/rategammainvar.cpp.o CMakeFiles/model.dir/ratecontinuousgamma.cpp.o CMakeFiles/model.dir/ratecontinuousgammainvar.cpp.o CMakeFiles/model.dir/rateheterogeneity.cpp.o CMakeFiles/model.dir/rateinvar.cpp.o CMakeFiles/model.dir/ratemeyerdiscrete.cpp.o CMakeFiles/model.dir/ratemeyerhaeseler.cpp.o CMakeFiles/model.dir/ratekategory.cpp.o CMakeFiles/model.dir/ratefree.cpp.o CMakeFiles/model.dir/ratefreeinvar.cpp.o CMakeFiles/model.dir/rateheterotachy.cpp.o CMakeFiles/model.dir/rateheterotachyinvar.cpp.o CMakeFiles/model.dir/modelcodon.cpp.o CMakeFiles/model.dir/modelmorphology.cpp.o CMakeFiles/model.dir/modelmixture.cpp.o CMakeFiles/model.dir/modelunrest.cpp.o CMakeFiles/model.dir/modelliemarkov.cpp.o CMakeFiles/model.dir/modelpomo.cpp.o CMakeFiles/model.dir/modelpomomixture.cpp.o CMakeFiles/model.dir/modelfactorymixlen.cpp.o CMakeFiles/model.dir/modelhmm.cpp.o CMakeFiles/model.dir/modelhmmgm.cpp.o CMakeFiles/model.dir/modelhmmtm.cpp.o CMakeFiles/model.dir/modelcodonmixture.cpp.o /usr/bin/ranlib libmodel.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 80%] Built target model make -f simulator/CMakeFiles/simulator.dir/build.make simulator/CMakeFiles/simulator.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/simulator /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/simulator /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/simulator/CMakeFiles/simulator.dir/DependInfo.cmake "--color=" simulator make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make -f simulator/CMakeFiles/simulator.dir/build.make simulator/CMakeFiles/simulator.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 81%] Building CXX object simulator/CMakeFiles/simulator.dir/alisimulator.cpp.o [ 81%] Building CXX object simulator/CMakeFiles/simulator.dir/alisimulatorinvar.cpp.o [ 81%] Building CXX object simulator/CMakeFiles/simulator.dir/alisimulatorheterogeneity.cpp.o [ 81%] Building CXX object simulator/CMakeFiles/simulator.dir/alisimulatorheterogeneityinvar.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/simulator && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT simulator/CMakeFiles/simulator.dir/alisimulator.cpp.o -MF CMakeFiles/simulator.dir/alisimulator.cpp.o.d -o CMakeFiles/simulator.dir/alisimulator.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/simulator/alisimulator.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/simulator && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT simulator/CMakeFiles/simulator.dir/alisimulatorinvar.cpp.o -MF CMakeFiles/simulator.dir/alisimulatorinvar.cpp.o.d -o CMakeFiles/simulator.dir/alisimulatorinvar.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/simulator/alisimulatorinvar.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/simulator && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT simulator/CMakeFiles/simulator.dir/alisimulatorheterogeneity.cpp.o -MF CMakeFiles/simulator.dir/alisimulatorheterogeneity.cpp.o.d -o CMakeFiles/simulator.dir/alisimulatorheterogeneity.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/simulator/alisimulatorheterogeneity.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/simulator && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT simulator/CMakeFiles/simulator.dir/alisimulatorheterogeneityinvar.cpp.o -MF CMakeFiles/simulator.dir/alisimulatorheterogeneityinvar.cpp.o.d -o CMakeFiles/simulator.dir/alisimulatorheterogeneityinvar.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/simulator/alisimulatorheterogeneityinvar.cpp [ 81%] Linking CXX static library libsimulator.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/simulator && /usr/bin/cmake -P CMakeFiles/simulator.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/simulator && /usr/bin/cmake -E cmake_link_script CMakeFiles/simulator.dir/link.txt --verbose=1 /usr/bin/ar qc libsimulator.a CMakeFiles/simulator.dir/alisimulator.cpp.o 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'/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 81%] Building CXX object alignment/CMakeFiles/alignment.dir/pattern.cpp.o [ 81%] Building CXX object alignment/CMakeFiles/alignment.dir/substitution.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/substitution.cpp.o -MF CMakeFiles/alignment.dir/substitution.cpp.o.d -o CMakeFiles/alignment.dir/substitution.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/substitution.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/pattern.cpp.o -MF CMakeFiles/alignment.dir/pattern.cpp.o.d -o CMakeFiles/alignment.dir/pattern.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/pattern.cpp [ 81%] Building CXX object alignment/CMakeFiles/alignment.dir/alignment.cpp.o [ 81%] Building CXX object alignment/CMakeFiles/alignment.dir/alignmentsummary.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/alignment.cpp.o -MF CMakeFiles/alignment.dir/alignment.cpp.o.d -o CMakeFiles/alignment.dir/alignment.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/alignment.cpp [ 82%] Building CXX object alignment/CMakeFiles/alignment.dir/alignmentpairwise.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/alignmentsummary.cpp.o -MF CMakeFiles/alignment.dir/alignmentsummary.cpp.o.d -o CMakeFiles/alignment.dir/alignmentsummary.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/alignmentsummary.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/alignmentpairwise.cpp.o -MF CMakeFiles/alignment.dir/alignmentpairwise.cpp.o.d -o CMakeFiles/alignment.dir/alignmentpairwise.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/alignmentpairwise.cpp [ 82%] Building CXX object alignment/CMakeFiles/alignment.dir/maalignment.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/maalignment.cpp.o -MF CMakeFiles/alignment.dir/maalignment.cpp.o.d -o CMakeFiles/alignment.dir/maalignment.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/maalignment.cpp [ 83%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignment.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/superalignment.cpp.o -MF CMakeFiles/alignment.dir/superalignment.cpp.o.d -o CMakeFiles/alignment.dir/superalignment.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/superalignment.cpp [ 83%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignmentpairwise.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/superalignmentpairwise.cpp.o -MF CMakeFiles/alignment.dir/superalignmentpairwise.cpp.o.d -o CMakeFiles/alignment.dir/superalignmentpairwise.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/superalignmentpairwise.cpp [ 83%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignmentpairwiseplen.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/superalignmentpairwiseplen.cpp.o -MF CMakeFiles/alignment.dir/superalignmentpairwiseplen.cpp.o.d -o CMakeFiles/alignment.dir/superalignmentpairwiseplen.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/superalignmentpairwiseplen.cpp [ 84%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignmentunlinked.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/superalignmentunlinked.cpp.o -MF CMakeFiles/alignment.dir/superalignmentunlinked.cpp.o.d -o CMakeFiles/alignment.dir/superalignmentunlinked.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/superalignmentunlinked.cpp [ 84%] Building CXX object alignment/CMakeFiles/alignment.dir/sequence.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/sequence.cpp.o -MF CMakeFiles/alignment.dir/sequence.cpp.o.d -o CMakeFiles/alignment.dir/sequence.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/sequence.cpp [ 84%] Building CXX object alignment/CMakeFiles/alignment.dir/sequencechunkstr.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/alignment && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT alignment/CMakeFiles/alignment.dir/sequencechunkstr.cpp.o -MF CMakeFiles/alignment.dir/sequencechunkstr.cpp.o.d -o CMakeFiles/alignment.dir/sequencechunkstr.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/alignment/sequencechunkstr.cpp [ 85%] Linking CXX static library libalignment.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/alignment && /usr/bin/cmake -P CMakeFiles/alignment.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/alignment && /usr/bin/cmake -E cmake_link_script CMakeFiles/alignment.dir/link.txt --verbose=1 /usr/bin/ar qc libalignment.a CMakeFiles/alignment.dir/substitution.cpp.o CMakeFiles/alignment.dir/pattern.cpp.o CMakeFiles/alignment.dir/alignment.cpp.o CMakeFiles/alignment.dir/alignmentpairwise.cpp.o CMakeFiles/alignment.dir/alignmentsummary.cpp.o CMakeFiles/alignment.dir/maalignment.cpp.o CMakeFiles/alignment.dir/superalignment.cpp.o CMakeFiles/alignment.dir/superalignmentpairwise.cpp.o CMakeFiles/alignment.dir/superalignmentpairwiseplen.cpp.o CMakeFiles/alignment.dir/superalignmentunlinked.cpp.o CMakeFiles/alignment.dir/sequence.cpp.o CMakeFiles/alignment.dir/sequencechunkstr.cpp.o /usr/bin/ranlib libalignment.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 85%] Built target alignment make -f tree/CMakeFiles/tree.dir/build.make tree/CMakeFiles/tree.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/tree /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/tree /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/tree/CMakeFiles/tree.dir/DependInfo.cmake "--color=" tree make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make -f tree/CMakeFiles/tree.dir/build.make tree/CMakeFiles/tree.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 85%] Building CXX object tree/CMakeFiles/tree.dir/constrainttree.cpp.o [ 86%] Building CXX object tree/CMakeFiles/tree.dir/candidateset.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/constrainttree.cpp.o -MF CMakeFiles/tree.dir/constrainttree.cpp.o.d -o CMakeFiles/tree.dir/constrainttree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/constrainttree.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/candidateset.cpp.o -MF CMakeFiles/tree.dir/candidateset.cpp.o.d -o CMakeFiles/tree.dir/candidateset.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/candidateset.cpp [ 86%] Building CXX object tree/CMakeFiles/tree.dir/iqtree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/iqtree.cpp.o -MF CMakeFiles/tree.dir/iqtree.cpp.o.d -o CMakeFiles/tree.dir/iqtree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/iqtree.cpp [ 86%] Building CXX object tree/CMakeFiles/tree.dir/iqtreemix.cpp.o [ 87%] Building CXX object tree/CMakeFiles/tree.dir/iqtreemixhmm.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/iqtreemixhmm.cpp.o -MF CMakeFiles/tree.dir/iqtreemixhmm.cpp.o.d -o CMakeFiles/tree.dir/iqtreemixhmm.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/iqtreemixhmm.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/iqtreemix.cpp.o -MF CMakeFiles/tree.dir/iqtreemix.cpp.o.d -o CMakeFiles/tree.dir/iqtreemix.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/iqtreemix.cpp [ 87%] Building CXX object tree/CMakeFiles/tree.dir/matree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/matree.cpp.o -MF CMakeFiles/tree.dir/matree.cpp.o.d -o CMakeFiles/tree.dir/matree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/matree.cpp [ 87%] Building CXX object tree/CMakeFiles/tree.dir/memslot.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/memslot.cpp.o -MF CMakeFiles/tree.dir/memslot.cpp.o.d -o CMakeFiles/tree.dir/memslot.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/memslot.cpp [ 88%] Building CXX object tree/CMakeFiles/tree.dir/mexttree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/mexttree.cpp.o -MF CMakeFiles/tree.dir/mexttree.cpp.o.d -o CMakeFiles/tree.dir/mexttree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/mexttree.cpp [ 88%] Building CXX object tree/CMakeFiles/tree.dir/mtree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/mtree.cpp.o -MF CMakeFiles/tree.dir/mtree.cpp.o.d -o CMakeFiles/tree.dir/mtree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/mtree.cpp [ 88%] Building CXX object tree/CMakeFiles/tree.dir/mtreeset.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/mtreeset.cpp.o -MF CMakeFiles/tree.dir/mtreeset.cpp.o.d -o CMakeFiles/tree.dir/mtreeset.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/mtreeset.cpp [ 89%] Building CXX object tree/CMakeFiles/tree.dir/ncbitree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/ncbitree.cpp.o -MF CMakeFiles/tree.dir/ncbitree.cpp.o.d -o CMakeFiles/tree.dir/ncbitree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/ncbitree.cpp [ 89%] Building CXX object tree/CMakeFiles/tree.dir/node.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/node.cpp.o -MF CMakeFiles/tree.dir/node.cpp.o.d -o CMakeFiles/tree.dir/node.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/node.cpp [ 89%] Building CXX object tree/CMakeFiles/tree.dir/genomenode.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/genomenode.cpp.o -MF CMakeFiles/tree.dir/genomenode.cpp.o.d -o CMakeFiles/tree.dir/genomenode.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/genomenode.cpp [ 90%] Building CXX object tree/CMakeFiles/tree.dir/genometree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/genometree.cpp.o -MF CMakeFiles/tree.dir/genometree.cpp.o.d -o CMakeFiles/tree.dir/genometree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/genometree.cpp [ 90%] Building CXX object tree/CMakeFiles/tree.dir/phylonode.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/phylonode.cpp.o -MF CMakeFiles/tree.dir/phylonode.cpp.o.d -o CMakeFiles/tree.dir/phylonode.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylonode.cpp [ 90%] Building CXX object tree/CMakeFiles/tree.dir/phylonodemixlen.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/phylonodemixlen.cpp.o -MF CMakeFiles/tree.dir/phylonodemixlen.cpp.o.d -o CMakeFiles/tree.dir/phylonodemixlen.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylonodemixlen.cpp [ 91%] Building CXX object tree/CMakeFiles/tree.dir/phylosuperhmm.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/phylosuperhmm.cpp.o -MF CMakeFiles/tree.dir/phylosuperhmm.cpp.o.d -o CMakeFiles/tree.dir/phylosuperhmm.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylosuperhmm.cpp [ 91%] Building CXX object tree/CMakeFiles/tree.dir/phylosupertree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/phylosupertree.cpp.o -MF CMakeFiles/tree.dir/phylosupertree.cpp.o.d -o CMakeFiles/tree.dir/phylosupertree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylosupertree.cpp [ 91%] Building CXX object tree/CMakeFiles/tree.dir/phylosupertreeplen.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/phylosupertreeplen.cpp.o -MF CMakeFiles/tree.dir/phylosupertreeplen.cpp.o.d -o CMakeFiles/tree.dir/phylosupertreeplen.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylosupertreeplen.cpp [ 92%] Building CXX object tree/CMakeFiles/tree.dir/phylosupertreeunlinked.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS 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/usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/phylotree.cpp.o -MF CMakeFiles/tree.dir/phylotree.cpp.o.d -o CMakeFiles/tree.dir/phylotree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylotree.cpp [ 92%] Building CXX object tree/CMakeFiles/tree.dir/phylotreemixlen.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/phylotreemixlen.cpp.o -MF CMakeFiles/tree.dir/phylotreemixlen.cpp.o.d -o CMakeFiles/tree.dir/phylotreemixlen.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylotreemixlen.cpp [ 93%] Building CXX object tree/CMakeFiles/tree.dir/phylotreepars.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/phylotreepars.cpp.o -MF CMakeFiles/tree.dir/phylotreepars.cpp.o.d -o CMakeFiles/tree.dir/phylotreepars.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylotreepars.cpp [ 93%] Building CXX object tree/CMakeFiles/tree.dir/phylotreesse.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/phylotreesse.cpp.o -MF CMakeFiles/tree.dir/phylotreesse.cpp.o.d -o CMakeFiles/tree.dir/phylotreesse.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylotreesse.cpp [ 93%] Building CXX object tree/CMakeFiles/tree.dir/quartet.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/quartet.cpp.o -MF CMakeFiles/tree.dir/quartet.cpp.o.d -o CMakeFiles/tree.dir/quartet.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/quartet.cpp [ 94%] Building CXX object tree/CMakeFiles/tree.dir/supernode.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/supernode.cpp.o -MF CMakeFiles/tree.dir/supernode.cpp.o.d -o CMakeFiles/tree.dir/supernode.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/supernode.cpp [ 94%] Building CXX object tree/CMakeFiles/tree.dir/tinatree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/tinatree.cpp.o -MF CMakeFiles/tree.dir/tinatree.cpp.o.d -o CMakeFiles/tree.dir/tinatree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/tinatree.cpp [ 94%] Building CXX object tree/CMakeFiles/tree.dir/parstree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/parstree.cpp.o -MF CMakeFiles/tree.dir/parstree.cpp.o.d -o CMakeFiles/tree.dir/parstree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/parstree.cpp [ 95%] Building CXX object tree/CMakeFiles/tree.dir/discordance.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/discordance.cpp.o -MF CMakeFiles/tree.dir/discordance.cpp.o.d -o CMakeFiles/tree.dir/discordance.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/discordance.cpp [ 95%] Building CXX object tree/CMakeFiles/tree.dir/phylohmm.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/tree && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT tree/CMakeFiles/tree.dir/phylohmm.cpp.o -MF CMakeFiles/tree.dir/phylohmm.cpp.o.d -o CMakeFiles/tree.dir/phylohmm.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/tree/phylohmm.cpp [ 95%] Linking CXX static library libtree.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/tree && /usr/bin/cmake -P CMakeFiles/tree.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/tree && /usr/bin/cmake -E cmake_link_script CMakeFiles/tree.dir/link.txt --verbose=1 /usr/bin/ar qc libtree.a CMakeFiles/tree.dir/constrainttree.cpp.o CMakeFiles/tree.dir/candidateset.cpp.o CMakeFiles/tree.dir/iqtree.cpp.o CMakeFiles/tree.dir/iqtreemix.cpp.o CMakeFiles/tree.dir/iqtreemixhmm.cpp.o CMakeFiles/tree.dir/matree.cpp.o CMakeFiles/tree.dir/memslot.cpp.o CMakeFiles/tree.dir/mexttree.cpp.o CMakeFiles/tree.dir/mtree.cpp.o CMakeFiles/tree.dir/mtreeset.cpp.o CMakeFiles/tree.dir/ncbitree.cpp.o CMakeFiles/tree.dir/node.cpp.o CMakeFiles/tree.dir/genomenode.cpp.o CMakeFiles/tree.dir/genometree.cpp.o CMakeFiles/tree.dir/phylonode.cpp.o CMakeFiles/tree.dir/phylonodemixlen.cpp.o CMakeFiles/tree.dir/phylosuperhmm.cpp.o CMakeFiles/tree.dir/phylosupertree.cpp.o CMakeFiles/tree.dir/phylosupertreeplen.cpp.o CMakeFiles/tree.dir/phylosupertreeunlinked.cpp.o CMakeFiles/tree.dir/phylotree.cpp.o CMakeFiles/tree.dir/phylotreemixlen.cpp.o CMakeFiles/tree.dir/phylotreepars.cpp.o CMakeFiles/tree.dir/phylotreesse.cpp.o CMakeFiles/tree.dir/quartet.cpp.o CMakeFiles/tree.dir/supernode.cpp.o CMakeFiles/tree.dir/tinatree.cpp.o CMakeFiles/tree.dir/parstree.cpp.o CMakeFiles/tree.dir/discordance.cpp.o CMakeFiles/tree.dir/phylohmm.cpp.o /usr/bin/ranlib libtree.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 95%] Built target tree make -f terrace/CMakeFiles/terrace.dir/build.make terrace/CMakeFiles/terrace.dir/depend make -f terracetphast/CMakeFiles/terracetphast.dir/build.make terracetphast/CMakeFiles/terracetphast.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/terracetphast /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/terracetphast /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/terracetphast/CMakeFiles/terracetphast.dir/DependInfo.cmake "--color=" terracetphast make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/terrace /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/terrace /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/terrace/CMakeFiles/terrace.dir/DependInfo.cmake "--color=" terrace make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make -f terracetphast/CMakeFiles/terracetphast.dir/build.make terracetphast/CMakeFiles/terracetphast.dir/build make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make -f terrace/CMakeFiles/terrace.dir/build.make terrace/CMakeFiles/terrace.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 96%] Building CXX object terracetphast/CMakeFiles/terracetphast.dir/terracetphast.cpp.o [ 96%] Building CXX object terrace/CMakeFiles/terrace.dir/terracenode.cpp.o [ 96%] Building CXX object terrace/CMakeFiles/terrace.dir/terracetree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/terrace && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -MD -MT terrace/CMakeFiles/terrace.dir/terracenode.cpp.o -MF CMakeFiles/terrace.dir/terracenode.cpp.o.d -o CMakeFiles/terrace.dir/terracenode.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terrace/terracenode.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/terrace && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -MD -MT terrace/CMakeFiles/terrace.dir/terracetree.cpp.o -MF CMakeFiles/terrace.dir/terracetree.cpp.o.d -o CMakeFiles/terrace.dir/terracetree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terrace/terracetree.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/terracetphast && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT terracetphast/CMakeFiles/terracetphast.dir/terracetphast.cpp.o -MF CMakeFiles/terracetphast.dir/terracetphast.cpp.o.d -o CMakeFiles/terracetphast.dir/terracetphast.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terracetphast/terracetphast.cpp [ 96%] Building CXX object terrace/CMakeFiles/terrace.dir/terrace.cpp.o [ 97%] Building CXX object terrace/CMakeFiles/terrace.dir/presenceabsencematrix.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/terrace && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -MD -MT terrace/CMakeFiles/terrace.dir/terrace.cpp.o -MF CMakeFiles/terrace.dir/terrace.cpp.o.d -o CMakeFiles/terrace.dir/terrace.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terrace/terrace.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/terrace && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -MD -MT terrace/CMakeFiles/terrace.dir/presenceabsencematrix.cpp.o -MF CMakeFiles/terrace.dir/presenceabsencematrix.cpp.o.d -o CMakeFiles/terrace.dir/presenceabsencematrix.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/terrace/presenceabsencematrix.cpp [ 97%] Linking CXX static library libterracetphast.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/terracetphast && /usr/bin/cmake -P CMakeFiles/terracetphast.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/terracetphast && /usr/bin/cmake -E cmake_link_script CMakeFiles/terracetphast.dir/link.txt --verbose=1 /usr/bin/ar qc libterracetphast.a CMakeFiles/terracetphast.dir/terracetphast.cpp.o /usr/bin/ranlib libterracetphast.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 97%] Built target terracetphast [ 97%] Linking CXX static library libterrace.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/terrace && /usr/bin/cmake -P CMakeFiles/terrace.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/terrace && /usr/bin/cmake -E cmake_link_script CMakeFiles/terrace.dir/link.txt --verbose=1 /usr/bin/ar qc libterrace.a CMakeFiles/terrace.dir/terracenode.cpp.o CMakeFiles/terrace.dir/terracetree.cpp.o CMakeFiles/terrace.dir/presenceabsencematrix.cpp.o CMakeFiles/terrace.dir/terrace.cpp.o /usr/bin/ranlib libterrace.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 97%] Built target terrace make -f main/CMakeFiles/main.dir/build.make main/CMakeFiles/main.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/main /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/main /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/main/CMakeFiles/main.dir/DependInfo.cmake "--color=" main make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make -f main/CMakeFiles/main.dir/build.make main/CMakeFiles/main.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [ 97%] Building CXX object main/CMakeFiles/main.dir/main.cpp.o [ 98%] Building CXX object main/CMakeFiles/main.dir/phylotesting.cpp.o [ 98%] Building CXX object main/CMakeFiles/main.dir/timetree.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/main && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT main/CMakeFiles/main.dir/main.cpp.o -MF CMakeFiles/main.dir/main.cpp.o.d -o CMakeFiles/main.dir/main.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/main/main.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/main && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT main/CMakeFiles/main.dir/phylotesting.cpp.o -MF CMakeFiles/main.dir/phylotesting.cpp.o.d -o CMakeFiles/main.dir/phylotesting.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/main/phylotesting.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/main && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT main/CMakeFiles/main.dir/timetree.cpp.o -MF CMakeFiles/main.dir/timetree.cpp.o.d -o CMakeFiles/main.dir/timetree.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/main/timetree.cpp [ 98%] Building CXX object main/CMakeFiles/main.dir/phyloanalysis.cpp.o [ 98%] Building CXX object main/CMakeFiles/main.dir/treetesting.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/main && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT main/CMakeFiles/main.dir/treetesting.cpp.o -MF CMakeFiles/main.dir/treetesting.cpp.o.d -o CMakeFiles/main.dir/treetesting.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/main/treetesting.cpp cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/main && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT main/CMakeFiles/main.dir/phyloanalysis.cpp.o -MF CMakeFiles/main.dir/phyloanalysis.cpp.o.d -o CMakeFiles/main.dir/phyloanalysis.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/main/phyloanalysis.cpp [100%] Building CXX object main/CMakeFiles/main.dir/alisim.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/main && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT main/CMakeFiles/main.dir/alisim.cpp.o -MF CMakeFiles/main.dir/alisim.cpp.o.d -o CMakeFiles/main.dir/alisim.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/main/alisim.cpp /build/reproducible-path/iqtree-3.0.1+dfsg/main/main.cpp:132:25: warning: macro ‘__DATE__’ might prevent reproducible builds [-Wdate-time] 132 | out << " built " << __DATE__; | ^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/main/phyloanalysis.cpp:1428:53: warning: macro ‘__DATE__’ might prevent reproducible builds [-Wdate-time] 1428 | << iqtree_VERSION_PATCH << " built " << __DATE__ << endl | ^~~~~~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/sequence.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/alignment.h:2, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/tree.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/cmaple.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/main/phyloanalysis.h:34, from /build/reproducible-path/iqtree-3.0.1+dfsg/main/phylotesting.cpp:42: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/sequence.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/alignment.h:2, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/tree.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/cmaple.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/main/phyloanalysis.h:34, from /build/reproducible-path/iqtree-3.0.1+dfsg/main/alisim.h:15, from /build/reproducible-path/iqtree-3.0.1+dfsg/main/alisim.cpp:8: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/sequence.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/alignment.h:2, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/tree.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/cmaple.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/main/phyloanalysis.h:34, from /build/reproducible-path/iqtree-3.0.1+dfsg/main/main.cpp:52: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ [100%] Building CXX object main/CMakeFiles/main.dir/terraceanalysis.cpp.o cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/main && /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT main/CMakeFiles/main.dir/terraceanalysis.cpp.o -MF CMakeFiles/main.dir/terraceanalysis.cpp.o.d -o CMakeFiles/main.dir/terraceanalysis.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/main/terraceanalysis.cpp In file included from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/modelbase.h:8, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/seqregions.h:4, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/sequence.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/alignment.h:2, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/tree.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/cmaple.h:1, from /build/reproducible-path/iqtree-3.0.1+dfsg/main/phyloanalysis.h:34, from /build/reproducible-path/iqtree-3.0.1+dfsg/main/phyloanalysis.cpp:32: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h: In instantiation of ‘simde__m256d mul4(const double*, const double*) [with int offsetRegs = 0; simde__m256d = simde__m256d]’: /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h:128:22: required from here 128 | auto dot0 = mul4<0>(p1, p2); | ~~~~~~~^~~~~~~~ /build/reproducible-path/iqtree-3.0.1+dfsg/cmaple/maple/../tree/../alignment/../model/../utils/matrix.h:54:21: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] 54 | inline simde__m256d mul4(const double* p1, const double* p2) | ^~~~ [100%] Linking CXX static library libmain.a cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/main && /usr/bin/cmake -P CMakeFiles/main.dir/cmake_clean_target.cmake cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/main && /usr/bin/cmake -E cmake_link_script CMakeFiles/main.dir/link.txt --verbose=1 /usr/bin/ar qc libmain.a CMakeFiles/main.dir/main.cpp.o CMakeFiles/main.dir/phyloanalysis.cpp.o CMakeFiles/main.dir/phylotesting.cpp.o CMakeFiles/main.dir/treetesting.cpp.o CMakeFiles/main.dir/timetree.cpp.o CMakeFiles/main.dir/alisim.cpp.o CMakeFiles/main.dir/terraceanalysis.cpp.o /usr/bin/ranlib libmain.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [100%] Built target main make -f CMakeFiles/iqtree3.dir/build.make CMakeFiles/iqtree3.dir/depend make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' cd /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/CMakeFiles/iqtree3.dir/DependInfo.cmake "--color=" iqtree3 make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make -f CMakeFiles/iqtree3.dir/build.make CMakeFiles/iqtree3.dir/build make[4]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [100%] Building CXX object CMakeFiles/iqtree3.dir/obsolete/parsmultistate.cpp.o /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DNUM_STATES=4 -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_IQTREE_MPI -D_USE_PTHREADS -I/build/reproducible-path/iqtree-3.0.1+dfsg -I/build/reproducible-path/iqtree-3.0.1+dfsg/after -I/build/reproducible-path/iqtree-3.0.1+dfsg/system -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi -I/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/cmaple -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/include -I/build/reproducible-path/iqtree-3.0.1+dfsg/terraphast/lib/gcc_clang -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -I/usr/include/eigen3 -I/usr/include -D__SSE3 -msse3 -MD -MT CMakeFiles/iqtree3.dir/obsolete/parsmultistate.cpp.o -MF CMakeFiles/iqtree3.dir/obsolete/parsmultistate.cpp.o.d -o CMakeFiles/iqtree3.dir/obsolete/parsmultistate.cpp.o -c /build/reproducible-path/iqtree-3.0.1+dfsg/obsolete/parsmultistate.cpp [100%] Linking CXX executable iqtree3-mpi /usr/bin/cmake -E cmake_link_script CMakeFiles/iqtree3.dir/link.txt --verbose=1 cmaple/tree/./cmaple/tree/../alignment/../model/../utils/matrix.h: In function ‘mul4’: cmaple/tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:132:22: warning: AVX vector return without AVX enabled changes the ABI [-Wpsabi] In function ‘resetVec’, inlined from ‘resetLhVecExceptState’ at cmaple/tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:271:21, inlined from ‘merge_RACGT_ORACGT_TwoLowers’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1295:38, inlined from ‘merge_notN_notN_TwoLowers’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1370:52, inlined from ‘mergeTwoLowers’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1459:49: cmaple/tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:264:20: warning: ‘__builtin_memset’ writing 160 bytes into a region of size 32 overflows the destination [-Wstringop-overflow=] In function ‘make_unique’, inlined from ‘merge_RACGT_ORACGT_TwoLowers’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1284:8, inlined from ‘merge_notN_notN_TwoLowers’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1370:52, inlined from ‘mergeTwoLowers’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1459:49: cmaple/tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ cmaple/tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ cmaple/tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ cmaple/tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ cmaple/tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ In function ‘resetVec’, inlined from ‘resetLhVecExceptState’ at cmaple/tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:271:21, inlined from ‘calSiteLhs_RACGT_ORACGT’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1975:38, inlined from ‘calSiteLhs_notN_notN’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:2051:47, inlined from ‘calculateSiteLhContributions’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:2141:44: cmaple/tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:264:20: warning: ‘__builtin_memset’ writing 160 bytes into a region of size 32 overflows the destination [-Wstringop-overflow=] In function ‘make_unique’, inlined from ‘calSiteLhs_RACGT_ORACGT’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1964:8, inlined from ‘calSiteLhs_notN_notN’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:2051:47, inlined from ‘calculateSiteLhContributions’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:2141:44: cmaple/tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ cmaple/tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ cmaple/tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ cmaple/tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ In function ‘resetVec’, inlined from ‘resetLhVecExceptState’ at cmaple/tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:271:21, inlined from ‘merge_O_ORACGT’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:744:54, inlined from ‘mergeUpperLower’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1006:35: cmaple/tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:264:20: warning: ‘__builtin_memset’ writing 160 bytes into a region of size 32 overflows the destination [-Wstringop-overflow=] In function ‘make_unique’, inlined from ‘merge_O_ORACGT’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:708:8, inlined from ‘mergeUpperLower’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1006:35: cmaple/tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ In function ‘resetVec’, inlined from ‘resetLhVecExceptState’ at cmaple/tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:271:21, inlined from ‘merge_RACGT_RACGT’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:811:51, inlined from ‘merge_RACGT_ORACGT’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:887:34, inlined from ‘mergeUpperLower’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1012:39: cmaple/tree/./cmaple/tree/../alignment/../model/../utils/matrix.h:264:20: warning: ‘__builtin_memset’ writing 160 bytes into a region of size 32 overflows the destination [-Wstringop-overflow=] In function ‘make_unique’, inlined from ‘merge_RACGT_ORACGT’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:843:8, inlined from ‘mergeUpperLower’ at cmaple/tree/./cmaple/tree/../alignment/seqregions.h:1012:39: cmaple/tree/./cmaple/tree/../alignment/../model/../alignment/../utils/tools.h:1248:29: note: destination object of size 32 allocated by ‘operator new’ /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/iqtree-3.0.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/lib/x86_64-linux-gnu/openmpi/include/ -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fopenmp -pthread -Wl,-z,relro -Wl,-z,now -rdynamic -Wl,--dependency-file=CMakeFiles/iqtree3.dir/link.d CMakeFiles/iqtree3.dir/obsolete/parsmultistate.cpp.o -o iqtree3-mpi -L/build/reproducible-path/iqtree-3.0.1+dfsg/lib -Wl,-rpath,/build/reproducible-path/iqtree-3.0.1+dfsg/lib:/usr/lib/x86_64-linux-gnu/openmpi/lib: booster/libbooster.a pll/libpll.a ncl/libncl.a nclextra/libnclextra.a utils/libutils.a pda/libpda.a lbfgsb/liblbfgsb.a whtest/libwhtest.a sprng/libsprng.a vectorclass/libvectorclass.a model/libmodel.a gsl/libgsl.a alignment/libalignment.a tree/libtree.a simulator/libsimulator.a terrace/libterrace.a -lyaml-cpp phylo-yaml/libphyloYAML.a main/libmain.a cmaple/maple/libmaple.a -lm terracetphast/libterracetphast.a lsd2/liblsd2.a libkernelsse.a /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so pll/libpllavx.a libkernelavx.a libkernelfma.a -lyaml-cpp booster/libbooster.a pda/libpda.a whtest/libwhtest.a vectorclass/libvectorclass.a terrace/libterrace.a cmaple/tree/libcmaple_tree.a cmaple/model/libcmaple_model.a nclextra/libnclextra.a cmaple/alignment/libcmaple_alignment.a cmaple/utils/libcmaple_utils.a tree/libtree.a pll/libpll.a alignment/libalignment.a simulator/libsimulator.a alignment/libalignment.a simulator/libsimulator.a ncl/libncl.a model/libmodel.a utils/libutils.a lbfgsb/liblbfgsb.a sprng/libsprng.a /usr/lib/x86_64-linux-gnu/libz.so gsl/libgsl.a terraphast/libterraphast.a make[4]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' [100%] Built target iqtree3 make[3]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi/CMakeFiles 0 make[2]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' # restore the old naming to avoid name space conflict with serial build if [ -x build.omp/iqtree3 ] ; then mv build.omp/iqtree3 build.omp/iqtree3-omp ; fi dh override_dh_auto_build make[1]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg' debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg' # use only the first example for build time test to save time on autobuilders sed '/ myprefix/,$d' debian/Documents_source/example.sh > example.short echo 'time /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/iqtree3-omp -s example.phy -redo' >> example.short time sh example.short Executing tests using /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/iqtree3-omp ... + /bin/time /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/iqtree3-omp -s example.phy IQ-TREE version 3.0.1 for Linux x86 64-bit built Apr 7 2026 Developed by Bui Quang Minh, Thomas Wong, Nhan Ly-Trong, Huaiyan Ren Contributed by Lam-Tung Nguyen, Dominik Schrempf, Chris Bielow, Olga Chernomor, Michael Woodhams, Diep Thi Hoang, Heiko Schmidt Host: sbuild (AVX512, FMA3, 31 GB RAM) Command: /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/iqtree3-omp -s example.phy Seed: 428148 (Using SPRNG - Scalable Parallel Random Number Generator) Time: Thu Apr 9 23:24:17 2026 Kernel: AVX+FMA - 1 threads (4 CPU cores detected) HINT: Use -nt option to specify number of threads because your CPU has 4 cores! HINT: -nt AUTO will automatically determine the best number of threads to use. Reading alignment file example.phy ... Phylip format detected Alignment most likely contains DNA/RNA sequences Constructing alignment: done in 0.00146302 secs using 95.08% CPU Alignment has 17 sequences with 1998 columns, 1152 distinct patterns 1009 parsimony-informative, 303 singleton sites, 686 constant sites Gap/Ambiguity Composition p-value Analyzing sequences: done in 4.27798e-05 secs using 98.18% CPU 1 LngfishAu 0.15% passed 6.20% 2 LngfishSA 0.00% failed 0.62% 3 LngfishAf 0.05% failed 1.60% 4 Frog 0.05% passed 58.01% 5 Turtle 0.15% passed 44.25% 6 Sphenodon 0.10% passed 59.78% 7 Lizard 0.90% passed 38.67% 8 Crocodile 0.35% failed 2.51% 9 Bird 0.00% failed 0.00% 10 Human 0.00% failed 0.85% 11 Seal 0.00% passed 68.93% 12 Cow 0.00% passed 59.11% 13 Whale 0.00% passed 97.83% 14 Mouse 0.05% failed 1.43% 15 Rat 0.00% passed 39.69% 16 Platypus 0.00% failed 3.46% 17 Opossum 0.00% failed 0.01% **** TOTAL 0.11% 8 sequences failed composition chi2 test (p-value<5%; df=3) Checking for duplicate sequences: done in 5.56628e-05 secs using 98.81% CPU Create initial parsimony tree by phylogenetic likelihood library (PLL)... 0.001 seconds Perform fast likelihood tree search using GTR+I+G model... Estimate model parameters (epsilon = 5.000) Perform nearest neighbor interchange... Optimizing NNI: done in 0.0394719 secs using 99.99% CPU Estimate model parameters (epsilon = 1.000) 1. Initial log-likelihood: -21149.239 Optimal log-likelihood: -21149.100 Rate parameters: A-C: 3.73650 A-G: 5.18609 A-T: 3.83480 C-G: 0.41900 C-T: 15.29543 G-T: 1.00000 Base frequencies: A: 0.355 C: 0.228 G: 0.192 T: 0.225 Proportion of invariable sites: 0.157 Gamma shape alpha: 0.739 Parameters optimization took 1 rounds (0.029 sec) Time for fast ML tree search: 0.309 seconds NOTE: ModelFinder requires 6 MB RAM! ModelFinder will test up to 968 DNA models (sample size: 1998 epsilon: 0.100) ... No. Model -LnL df AIC AICc BIC 1 JC 23662.322 31 47386.644 47387.653 47560.241 2 JC+I 22587.297 32 45238.594 45239.668 45417.791 3 JC+G4 22258.086 32 44580.171 44581.246 44759.368 4 JC+I+G4 22245.545 33 44557.090 44558.233 44741.887 5 JC+R2 22280.896 33 44627.792 44628.935 44812.589 6 JC+R3 22234.529 35 44539.059 44540.343 44735.056 7 JC+R4 22234.316 37 44542.631 44544.066 44749.828 14 JC+I+R2 22253.511 34 44575.021 44576.233 44765.418 15 JC+I+R3 22236.279 36 44544.559 44545.917 44746.155 16 JC+I+R4 22236.047 38 44548.094 44549.607 44760.891 26 JC+I+G4 22245.545 33 44557.090 44558.233 44741.887 28 JC+R3 22234.529 35 44539.059 44540.343 44735.056 48 F81+I+G4 22245.390 33 44556.780 44557.923 44741.577 50 F81+R3 22234.423 35 44538.847 44540.131 44734.843 70 F81+F+I+G4 22019.012 36 44110.023 44111.382 44311.620 72 F81+F+R3 22009.710 38 44095.420 44096.933 44308.216 92 K2P+I+G4 21833.754 34 43735.507 43736.720 43925.904 94 K2P+R3 21823.497 36 43718.994 43720.353 43920.591 114 K2P+I+G4 21833.754 34 43735.507 43736.720 43925.904 116 K2P+R3 21823.497 36 43718.994 43720.353 43920.591 136 HKY+I+G4 21833.723 34 43735.446 43736.658 43925.842 138 HKY+R3 21823.375 36 43718.750 43720.109 43920.347 158 HKY+F+I+G4 21475.608 37 43025.216 43026.651 43232.413 160 HKY+F+R3 21463.044 39 43004.087 43005.680 43222.483 180 TNe+I+G4 21709.208 35 43488.417 43489.701 43684.413 182 TNe+R3 21704.627 37 43483.254 43484.689 43690.451 202 TNe+I+G4 21709.208 35 43488.416 43489.701 43684.413 204 TNe+R3 21704.627 37 43483.254 43484.689 43690.451 224 TN+I+G4 21709.192 35 43488.384 43489.668 43684.380 226 TN+R3 21704.531 37 43483.062 43484.497 43690.258 246 TN+F+I+G4 21360.556 38 42797.113 42798.626 43009.909 248 TN+F+R3 21357.893 40 42795.785 42797.461 43019.781 268 K3P+I+G4 21833.500 35 43737.000 43738.285 43932.997 270 K3P+R3 21823.165 37 43720.329 43721.764 43927.526 290 K3P+I+G4 21833.500 35 43737.000 43738.285 43932.997 292 K3P+R3 21823.165 37 43720.329 43721.764 43927.526 312 K3Pu+I+G4 21833.491 35 43736.982 43738.266 43932.978 314 K3Pu+R3 21823.146 37 43720.291 43721.726 43927.488 334 K3Pu+F+I+G4 21475.268 38 43026.536 43028.049 43239.332 336 K3Pu+F+R3 21462.781 40 43005.561 43007.237 43229.557 356 TPM2+I+G4 21410.054 35 42890.107 42891.392 43086.104 358 TPM2+R3 21403.723 37 42881.446 42882.881 43088.642 378 TPM2+I+G4 21410.054 35 42890.107 42891.392 43086.104 380 TPM2+R3 21403.723 37 42881.446 42882.881 43088.642 400 TPM2u+I+G4 21409.971 35 42889.943 42891.227 43085.939 402 TPM2u+R3 21403.672 37 42881.344 42882.778 43088.540 422 TPM2u+F+I+G4 21291.534 38 42659.067 42660.580 42871.863 424 TPM2u+F+R3 21283.140 40 42646.279 42647.955 42870.275 444 TPM3+I+G4 21833.173 35 43736.345 43737.630 43932.342 446 TPM3+R3 21822.918 37 43719.835 43721.270 43927.032 466 TPM3+I+G4 21833.173 35 43736.345 43737.630 43932.342 468 TPM3+R3 21822.918 37 43719.835 43721.270 43927.032 488 TPM3u+I+G4 21833.165 35 43736.329 43737.614 43932.326 490 TPM3u+R3 21822.895 37 43719.790 43721.225 43926.987 510 TPM3u+F+I+G4 21474.774 38 43025.548 43027.061 43238.344 512 TPM3u+F+R3 21462.249 40 43004.497 43006.173 43228.493 532 TIMe+I+G4 21709.177 36 43490.354 43491.713 43691.951 534 TIMe+R3 21704.568 38 43485.137 43486.650 43697.933 554 TIMe+I+G4 21709.177 36 43490.354 43491.713 43691.951 556 TIMe+R3 21704.568 38 43485.137 43486.650 43697.933 576 TIM+I+G4 21709.159 36 43490.319 43491.677 43691.915 578 TIM+R3 21704.413 38 43484.826 43486.339 43697.623 598 TIM+F+I+G4 21360.250 39 42798.499 42800.093 43016.895 600 TIM+F+R3 21357.475 41 42796.949 42798.710 43026.545 620 TIM2e+I+G4 21309.009 36 42690.017 42691.376 42891.614 622 TIM2e+R3 21303.615 38 42683.230 42684.743 42896.027 642 TIM2e+I+G4 21309.009 36 42690.017 42691.376 42891.614 644 TIM2e+R3 21303.615 38 42683.230 42684.743 42896.027 664 TIM2+I+G4 21308.990 36 42689.980 42691.338 42891.576 666 TIM2+R3 21303.600 38 42683.199 42684.712 42895.995 686 TIM2+F+I+G4 21152.740 39 42383.479 42385.073 42601.876 688 TIM2+F+R3 21150.544 41 42383.088 42384.849 42612.684 708 TIM3e+I+G4 21708.502 36 43489.004 43490.362 43690.600 710 TIM3e+R3 21703.969 38 43483.938 43485.451 43696.734 730 TIM3e+I+G4 21708.502 36 43489.004 43490.362 43690.600 732 TIM3e+R3 21703.969 38 43483.938 43485.451 43696.734 752 TIM3+I+G4 21708.481 36 43488.963 43490.321 43690.559 754 TIM3+R3 21703.960 38 43483.920 43485.433 43696.716 774 TIM3+F+I+G4 21359.498 39 42796.995 42798.589 43015.392 776 TIM3+F+R3 21357.073 41 42796.146 42797.907 43025.742 796 TVMe+I+G4 21407.653 37 42889.307 42890.741 43096.503 798 TVMe+R3 21401.543 39 42881.086 42882.680 43099.483 818 TVMe+I+G4 21407.653 37 42889.307 42890.741 43096.503 820 TVMe+R3 21401.543 39 42881.086 42882.680 43099.483 840 TVM+I+G4 21407.642 37 42889.285 42890.719 43096.481 842 TVM+R3 21401.486 39 42880.972 42882.566 43099.369 862 TVM+F+I+G4 21287.934 40 42655.868 42657.544 42879.864 864 TVM+F+R3 21279.783 42 42643.567 42645.414 42878.762 884 SYM+I+G4 21306.024 38 42688.047 42689.560 42900.843 886 SYM+R3 21300.830 40 42681.660 42683.336 42905.656 906 SYM+I+G4 21306.024 38 42688.047 42689.560 42900.843 908 SYM+R3 21300.830 40 42681.660 42683.336 42905.656 928 GTR+I+G4 21306.021 38 42688.043 42689.556 42900.839 930 GTR+R3 21300.830 40 42681.659 42683.335 42905.655 950 GTR+F+I+G4 21148.957 41 42379.913 42381.674 42609.509 952 GTR+F+R3 21147.067 43 42380.134 42382.071 42620.930 Akaike Information Criterion: GTR+F+I+G4 Corrected Akaike Information Criterion: GTR+F+I+G4 Bayesian Information Criterion: TIM2+F+I+G4 Best-fit model: TIM2+F+I+G4 chosen according to BIC All model information printed to example.phy.model.gz CPU time for ModelFinder: 6.569 seconds (0h:0m:6s) Wall-clock time for ModelFinder: 6.598 seconds (0h:0m:6s) NOTE: 2 MB RAM (0 GB) is required! Estimate model parameters (epsilon = 0.100) Thoroughly optimizing +I+G parameters from 10 start values... Init pinv, alpha: 0.000, 0.780 / Estimate: 0.000, 0.482 / LogL: -21159.728 Init pinv, alpha: 0.038, 0.780 / Estimate: 0.045, 0.533 / LogL: -21156.817 Init pinv, alpha: 0.076, 0.780 / Estimate: 0.083, 0.590 / LogL: -21154.744 Init pinv, alpha: 0.114, 0.780 / Estimate: 0.119, 0.653 / LogL: -21153.275 Init pinv, alpha: 0.153, 0.780 / Estimate: 0.153, 0.728 / LogL: -21152.557 Init pinv, alpha: 0.191, 0.780 / Estimate: 0.182, 0.803 / LogL: -21152.771 Init pinv, alpha: 0.229, 0.780 / Estimate: 0.185, 0.808 / LogL: -21152.833 Init pinv, alpha: 0.267, 0.780 / Estimate: 0.186, 0.812 / LogL: -21152.859 Init pinv, alpha: 0.305, 0.780 / Estimate: 0.186, 0.813 / LogL: -21152.876 Init pinv, alpha: 0.343, 0.780 / Estimate: 0.187, 0.816 / LogL: -21152.898 Optimal pinv,alpha: 0.153, 0.728 / LogL: -21152.557 Parameters optimization took 1.287 sec Wrote distance file to... Computing ML distances based on estimated model parameters... Calculating distance matrix: done in 0.00151192 secs using 99.61% CPU Computing ML distances took 0.001671 sec (of wall-clock time) 0.001642 sec (of CPU time) Setting up auxiliary I and S matrices: done in 4.20259e-05 secs using 97.56% CPU Constructing RapidNJ tree: done in 6.4204e-05 secs using 98.12% CPU Computing RapidNJ tree took 0.000210 sec (of wall-clock time) 0.000144 sec (of CPU time) Log-likelihood of RapidNJ tree: -21161.716 -------------------------------------------------------------------- | INITIALIZING CANDIDATE TREE SET | -------------------------------------------------------------------- Generating 98 parsimony trees... 0.208 second Computing log-likelihood of 98 initial trees ... 0.450 seconds Current best score: -21152.557 Do NNI search on 20 best initial trees Optimizing NNI: done in 0.0151675 secs using 99.98% CPU Estimate model parameters (epsilon = 0.100) BETTER TREE FOUND at iteration 1: -21152.547 Optimizing NNI: done in 0.0233599 secs using 99.99% CPU Optimizing NNI: done in 0.0226815 secs using 99.99% CPU Optimizing NNI: done in 0.0396972 secs using 100% CPU Optimizing NNI: done in 0.0403697 secs using 99.77% CPU Optimizing NNI: done in 0.046557 secs using 99.57% CPU Optimizing NNI: done in 0.0475238 secs using 99.98% CPU Optimizing NNI: done in 0.046322 secs using 91.41% CPU Optimizing NNI: done in 0.031074 secs using 99.95% CPU Optimizing NNI: done in 0.0513446 secs using 99.99% CPU Iteration 10 / LogL: -21152.552 / Time: 0h:0m:8s Optimizing NNI: done in 0.0437755 secs using 99.97% CPU Optimizing NNI: done in 0.0486327 secs using 100% CPU Optimizing NNI: done in 0.0425795 secs using 100% CPU Optimizing NNI: done in 0.0521817 secs using 100% CPU Optimizing NNI: done in 0.0524558 secs using 99.97% CPU Optimizing NNI: done in 0.0510167 secs using 100% CPU Optimizing NNI: done in 0.0660231 secs using 93.82% CPU Optimizing NNI: done in 0.0474923 secs using 99.98% CPU Optimizing NNI: done in 0.0548984 secs using 99.97% CPU Optimizing NNI: done in 0.0598484 secs using 100% CPU Iteration 20 / LogL: -21152.561 / Time: 0h:0m:9s Finish initializing candidate tree set (2) Current best tree score: -21152.547 / CPU time: 1.575 Number of iterations: 20 -------------------------------------------------------------------- | OPTIMIZING CANDIDATE TREE SET | -------------------------------------------------------------------- Optimizing NNI: done in 0.0822186 secs using 95.12% CPU Optimizing NNI: done in 0.0636326 secs using 99.98% CPU Optimizing NNI: done in 0.0628195 secs using 87.27% CPU Optimizing NNI: done in 0.0449582 secs using 99.99% CPU Optimizing NNI: done in 0.046665 secs using 100% CPU Optimizing NNI: done in 0.0422399 secs using 99.42% CPU Optimizing NNI: done in 0.051948 secs using 99.97% CPU Optimizing NNI: done in 0.0460579 secs using 91.32% CPU Optimizing NNI: done in 0.0475816 secs using 91.59% CPU Optimizing NNI: done in 0.033496 secs using 99.97% CPU Iteration 30 / LogL: -21158.154 / Time: 0h:0m:10s (0h:0m:8s left) Optimizing NNI: done in 0.0490942 secs using 99.96% CPU Optimizing NNI: done in 0.0493721 secs using 91.44% CPU Optimizing NNI: done in 0.0479732 secs using 99.79% CPU Optimizing NNI: done in 0.0608699 secs using 100% CPU Optimizing NNI: done in 0.0385637 secs using 100% CPU Optimizing NNI: done in 0.0493996 secs using 100% CPU Optimizing NNI: done in 0.0345658 secs using 99.99% CPU Optimizing NNI: done in 0.0391036 secs using 99.99% CPU Optimizing NNI: done in 0.0492613 secs using 100% CPU Optimizing NNI: done in 0.0475518 secs using 91.6% CPU Iteration 40 / LogL: -21157.936 / Time: 0h:0m:10s (0h:0m:6s left) Optimizing NNI: done in 0.0424948 secs using 99.95% CPU Optimizing NNI: done in 0.0534779 secs using 99.99% CPU Optimizing NNI: done in 0.0646937 secs using 100% CPU Optimizing NNI: done in 0.042943 secs using 99.97% CPU Optimizing NNI: done in 0.0863293 secs using 99.93% CPU Optimizing NNI: done in 0.0757901 secs using 100% CPU Optimizing NNI: done in 0.0477919 secs using 99.99% CPU Optimizing NNI: done in 0.0676018 secs using 99.98% CPU Optimizing NNI: done in 0.0604942 secs using 86.82% CPU Optimizing NNI: done in 0.0471345 secs using 100% CPU Iteration 50 / LogL: -21152.675 / Time: 0h:0m:11s (0h:0m:4s left) Optimizing NNI: done in 0.0712242 secs using 99.98% CPU Optimizing NNI: done in 0.047878 secs using 99.95% CPU Optimizing NNI: done in 0.0408241 secs using 99.99% CPU Optimizing NNI: done in 0.0482152 secs using 100% CPU Optimizing NNI: done in 0.0608383 secs using 99.96% CPU Optimizing NNI: done in 0.0612924 secs using 99.98% CPU Optimizing NNI: done in 0.0455319 secs using 100% CPU Optimizing NNI: done in 0.0556242 secs using 92.82% CPU Optimizing NNI: done in 0.0740736 secs using 99.99% CPU Optimizing NNI: done in 0.0700896 secs using 99.99% CPU Iteration 60 / LogL: -21152.615 / Time: 0h:0m:11s (0h:0m:3s left) Optimizing NNI: done in 0.0491614 secs using 100% CPU Optimizing NNI: done in 0.0740842 secs using 99.96% CPU Optimizing NNI: done in 0.0517594 secs using 99.99% CPU Optimizing NNI: done in 0.0328002 secs using 99.94% CPU Optimizing NNI: done in 0.0609142 secs using 99.86% CPU Optimizing NNI: done in 0.04363 secs using 100% CPU Optimizing NNI: done in 0.0459213 secs using 99.99% CPU Optimizing NNI: done in 0.0648682 secs using 100% CPU Optimizing NNI: done in 0.0668031 secs using 100% CPU Optimizing NNI: done in 0.0751408 secs using 100% CPU Iteration 70 / LogL: -21152.575 / Time: 0h:0m:12s (0h:0m:2s left) Optimizing NNI: done in 0.0414133 secs using 99.99% CPU Optimizing NNI: done in 0.0489307 secs using 100% CPU Optimizing NNI: done in 0.0596412 secs using 100% CPU Optimizing NNI: done in 0.0483016 secs using 100% CPU Optimizing NNI: done in 0.0606034 secs using 99.99% CPU Optimizing NNI: done in 0.0542388 secs using 99.97% CPU Optimizing NNI: done in 0.0604036 secs using 93.25% CPU Optimizing NNI: done in 0.0632358 secs using 100% CPU Optimizing NNI: done in 0.0559459 secs using 99.97% CPU Optimizing NNI: done in 0.0392441 secs using 99.97% CPU Iteration 80 / LogL: -21157.798 / Time: 0h:0m:12s (0h:0m:1s left) Optimizing NNI: done in 0.0496609 secs using 99.97% CPU Optimizing NNI: done in 0.067837 secs using 100% CPU Optimizing NNI: done in 0.0808214 secs using 95.03% CPU Optimizing NNI: done in 0.0629533 secs using 99.99% CPU Optimizing NNI: done in 0.0545308 secs using 100% CPU Optimizing NNI: done in 0.0419432 secs using 100% CPU Optimizing NNI: done in 0.0667612 secs using 99.98% CPU Optimizing NNI: done in 0.0500642 secs using 100% CPU Optimizing NNI: done in 0.0474738 secs using 99.82% CPU Optimizing NNI: done in 0.0457472 secs using 99.96% CPU Iteration 90 / LogL: -21152.603 / Time: 0h:0m:13s (0h:0m:0s left) Optimizing NNI: done in 0.0429812 secs using 99.96% CPU Optimizing NNI: done in 0.0653688 secs using 100% CPU Optimizing NNI: done in 0.0510798 secs using 99.99% CPU Optimizing NNI: done in 0.0663176 secs using 99.95% CPU Optimizing NNI: done in 0.0353284 secs using 95.75% CPU Optimizing NNI: done in 0.0440175 secs using 99.99% CPU Optimizing NNI: done in 0.0541353 secs using 100% CPU Optimizing NNI: done in 0.0491535 secs using 91.89% CPU Optimizing NNI: done in 0.0468227 secs using 99.96% CPU Optimizing NNI: done in 0.031504 secs using 99.94% CPU Iteration 100 / LogL: -21157.815 / Time: 0h:0m:13s (0h:0m:0s left) Optimizing NNI: done in 0.061441 secs using 99.98% CPU Optimizing NNI: done in 0.0531622 secs using 100% CPU TREE SEARCH COMPLETED AFTER 102 ITERATIONS / Time: 0h:0m:13s -------------------------------------------------------------------- | FINALIZING TREE SEARCH | -------------------------------------------------------------------- Performs final model parameters optimization Estimate model parameters (epsilon = 0.010) 1. Initial log-likelihood: -21152.547 Optimal log-likelihood: -21152.538 Rate parameters: A-C: 5.58435 A-G: 7.63243 A-T: 5.58435 C-G: 1.00000 C-T: 22.64435 G-T: 1.00000 Base frequencies: A: 0.355 C: 0.228 G: 0.192 T: 0.225 Proportion of invariable sites: 0.154 Gamma shape alpha: 0.729 Parameters optimization took 1 rounds (0.018 sec) BEST SCORE FOUND : -21152.538 Total tree length: 4.217 Total number of iterations: 102 CPU time used for tree search: 6.014 sec (0h:0m:6s) Wall-clock time used for tree search: 6.086 sec (0h:0m:6s) Total CPU time used: 13.905 sec (0h:0m:13s) Total wall-clock time used: 14.015 sec (0h:0m:14s) Analysis results written to: IQ-TREE report: example.phy.iqtree Maximum-likelihood tree: example.phy.treefile Likelihood distances: example.phy.mldist Screen log file: example.phy.log Date and Time: Thu Apr 9 23:24:31 2026 13.91user 0.08system 0:14.02elapsed 99%CPU (0avgtext+0avgdata 21832maxresident)k 0inputs+152outputs (0major+3599minor)pagefaults 0swaps + time /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/iqtree3-omp -s example.phy -redo IQ-TREE version 3.0.1 for Linux x86 64-bit built Apr 7 2026 Developed by Bui Quang Minh, Thomas Wong, Nhan Ly-Trong, Huaiyan Ren Contributed by Lam-Tung Nguyen, Dominik Schrempf, Chris Bielow, Olga Chernomor, Michael Woodhams, Diep Thi Hoang, Heiko Schmidt Host: sbuild (AVX512, FMA3, 31 GB RAM) Command: /build/reproducible-path/iqtree-3.0.1+dfsg/build.omp/iqtree3-omp -s example.phy -redo Seed: 455327 (Using SPRNG - Scalable Parallel Random Number Generator) Time: Thu Apr 9 23:24:31 2026 Kernel: AVX+FMA - 1 threads (4 CPU cores detected) HINT: Use -nt option to specify number of threads because your CPU has 4 cores! HINT: -nt AUTO will automatically determine the best number of threads to use. Reading alignment file example.phy ... Phylip format detected Alignment most likely contains DNA/RNA sequences Constructing alignment: done in 0.00140064 secs using 97.74% CPU Alignment has 17 sequences with 1998 columns, 1152 distinct patterns 1009 parsimony-informative, 303 singleton sites, 686 constant sites Gap/Ambiguity Composition p-value Analyzing sequences: done in 4.2337e-05 secs using 99.2% CPU 1 LngfishAu 0.15% passed 6.20% 2 LngfishSA 0.00% failed 0.62% 3 LngfishAf 0.05% failed 1.60% 4 Frog 0.05% passed 58.01% 5 Turtle 0.15% passed 44.25% 6 Sphenodon 0.10% passed 59.78% 7 Lizard 0.90% passed 38.67% 8 Crocodile 0.35% failed 2.51% 9 Bird 0.00% failed 0.00% 10 Human 0.00% failed 0.85% 11 Seal 0.00% passed 68.93% 12 Cow 0.00% passed 59.11% 13 Whale 0.00% passed 97.83% 14 Mouse 0.05% failed 1.43% 15 Rat 0.00% passed 39.69% 16 Platypus 0.00% failed 3.46% 17 Opossum 0.00% failed 0.01% **** TOTAL 0.11% 8 sequences failed composition chi2 test (p-value<5%; df=3) Checking for duplicate sequences: done in 5.32521e-05 secs using 99.53% CPU Create initial parsimony tree by phylogenetic likelihood library (PLL)... 0.001 seconds Perform fast likelihood tree search using GTR+I+G model... Estimate model parameters (epsilon = 5.000) Perform nearest neighbor interchange... Optimizing NNI: done in 0.0395345 secs using 99.96% CPU Estimate model parameters (epsilon = 1.000) 1. Initial log-likelihood: -21149.239 Optimal log-likelihood: -21149.100 Rate parameters: A-C: 3.73650 A-G: 5.18609 A-T: 3.83480 C-G: 0.41900 C-T: 15.29543 G-T: 1.00000 Base frequencies: A: 0.355 C: 0.228 G: 0.192 T: 0.225 Proportion of invariable sites: 0.157 Gamma shape alpha: 0.739 Parameters optimization took 1 rounds (0.030 sec) Time for fast ML tree search: 0.311 seconds NOTE: ModelFinder requires 6 MB RAM! ModelFinder will test up to 968 DNA models (sample size: 1998 epsilon: 0.100) ... No. Model -LnL df AIC AICc BIC 1 JC 23662.322 31 47386.644 47387.653 47560.241 2 JC+I 22587.297 32 45238.594 45239.668 45417.791 3 JC+G4 22258.086 32 44580.171 44581.246 44759.368 4 JC+I+G4 22245.545 33 44557.090 44558.233 44741.887 5 JC+R2 22280.896 33 44627.792 44628.935 44812.589 6 JC+R3 22234.529 35 44539.059 44540.343 44735.056 7 JC+R4 22234.316 37 44542.631 44544.066 44749.828 14 JC+I+R2 22253.511 34 44575.021 44576.233 44765.418 15 JC+I+R3 22236.279 36 44544.559 44545.917 44746.155 16 JC+I+R4 22236.047 38 44548.094 44549.607 44760.891 26 JC+I+G4 22245.545 33 44557.090 44558.233 44741.887 28 JC+R3 22234.529 35 44539.059 44540.343 44735.056 48 F81+I+G4 22245.390 33 44556.780 44557.923 44741.577 50 F81+R3 22234.423 35 44538.847 44540.131 44734.843 70 F81+F+I+G4 22019.012 36 44110.023 44111.382 44311.620 72 F81+F+R3 22009.710 38 44095.420 44096.933 44308.216 92 K2P+I+G4 21833.754 34 43735.507 43736.720 43925.904 94 K2P+R3 21823.497 36 43718.994 43720.353 43920.591 114 K2P+I+G4 21833.754 34 43735.507 43736.720 43925.904 116 K2P+R3 21823.497 36 43718.994 43720.353 43920.591 136 HKY+I+G4 21833.723 34 43735.446 43736.658 43925.842 138 HKY+R3 21823.375 36 43718.750 43720.109 43920.347 158 HKY+F+I+G4 21475.608 37 43025.216 43026.651 43232.413 160 HKY+F+R3 21463.044 39 43004.087 43005.680 43222.483 180 TNe+I+G4 21709.208 35 43488.417 43489.701 43684.413 182 TNe+R3 21704.627 37 43483.254 43484.689 43690.451 202 TNe+I+G4 21709.208 35 43488.416 43489.701 43684.413 204 TNe+R3 21704.627 37 43483.254 43484.689 43690.451 224 TN+I+G4 21709.192 35 43488.384 43489.668 43684.380 226 TN+R3 21704.531 37 43483.062 43484.497 43690.258 246 TN+F+I+G4 21360.556 38 42797.113 42798.626 43009.909 248 TN+F+R3 21357.893 40 42795.785 42797.461 43019.781 268 K3P+I+G4 21833.500 35 43737.000 43738.285 43932.997 270 K3P+R3 21823.165 37 43720.329 43721.764 43927.526 290 K3P+I+G4 21833.500 35 43737.000 43738.285 43932.997 292 K3P+R3 21823.165 37 43720.329 43721.764 43927.526 312 K3Pu+I+G4 21833.491 35 43736.982 43738.266 43932.978 314 K3Pu+R3 21823.146 37 43720.291 43721.726 43927.488 334 K3Pu+F+I+G4 21475.268 38 43026.536 43028.049 43239.332 336 K3Pu+F+R3 21462.781 40 43005.561 43007.237 43229.557 356 TPM2+I+G4 21410.054 35 42890.107 42891.392 43086.104 358 TPM2+R3 21403.723 37 42881.446 42882.881 43088.642 378 TPM2+I+G4 21410.054 35 42890.107 42891.392 43086.104 380 TPM2+R3 21403.723 37 42881.446 42882.881 43088.642 400 TPM2u+I+G4 21409.971 35 42889.943 42891.227 43085.939 402 TPM2u+R3 21403.672 37 42881.344 42882.778 43088.540 422 TPM2u+F+I+G4 21291.534 38 42659.067 42660.580 42871.863 424 TPM2u+F+R3 21283.140 40 42646.279 42647.955 42870.275 444 TPM3+I+G4 21833.173 35 43736.345 43737.630 43932.342 446 TPM3+R3 21822.918 37 43719.835 43721.270 43927.032 466 TPM3+I+G4 21833.173 35 43736.345 43737.630 43932.342 468 TPM3+R3 21822.918 37 43719.835 43721.270 43927.032 488 TPM3u+I+G4 21833.165 35 43736.329 43737.614 43932.326 490 TPM3u+R3 21822.895 37 43719.790 43721.225 43926.987 510 TPM3u+F+I+G4 21474.774 38 43025.548 43027.061 43238.344 512 TPM3u+F+R3 21462.249 40 43004.497 43006.173 43228.493 532 TIMe+I+G4 21709.177 36 43490.354 43491.713 43691.951 534 TIMe+R3 21704.568 38 43485.137 43486.650 43697.933 554 TIMe+I+G4 21709.177 36 43490.354 43491.713 43691.951 556 TIMe+R3 21704.568 38 43485.137 43486.650 43697.933 576 TIM+I+G4 21709.159 36 43490.319 43491.677 43691.915 578 TIM+R3 21704.413 38 43484.826 43486.339 43697.623 598 TIM+F+I+G4 21360.250 39 42798.499 42800.093 43016.895 600 TIM+F+R3 21357.475 41 42796.949 42798.710 43026.545 620 TIM2e+I+G4 21309.009 36 42690.017 42691.376 42891.614 622 TIM2e+R3 21303.615 38 42683.230 42684.743 42896.027 642 TIM2e+I+G4 21309.009 36 42690.017 42691.376 42891.614 644 TIM2e+R3 21303.615 38 42683.230 42684.743 42896.027 664 TIM2+I+G4 21308.990 36 42689.980 42691.338 42891.576 666 TIM2+R3 21303.600 38 42683.199 42684.712 42895.995 686 TIM2+F+I+G4 21152.740 39 42383.479 42385.073 42601.876 688 TIM2+F+R3 21150.544 41 42383.088 42384.849 42612.684 708 TIM3e+I+G4 21708.502 36 43489.004 43490.362 43690.600 710 TIM3e+R3 21703.969 38 43483.938 43485.451 43696.734 730 TIM3e+I+G4 21708.502 36 43489.004 43490.362 43690.600 732 TIM3e+R3 21703.969 38 43483.938 43485.451 43696.734 752 TIM3+I+G4 21708.481 36 43488.963 43490.321 43690.559 754 TIM3+R3 21703.960 38 43483.920 43485.433 43696.716 774 TIM3+F+I+G4 21359.498 39 42796.995 42798.589 43015.392 776 TIM3+F+R3 21357.073 41 42796.146 42797.907 43025.742 796 TVMe+I+G4 21407.653 37 42889.307 42890.741 43096.503 798 TVMe+R3 21401.543 39 42881.086 42882.680 43099.483 818 TVMe+I+G4 21407.653 37 42889.307 42890.741 43096.503 820 TVMe+R3 21401.543 39 42881.086 42882.680 43099.483 840 TVM+I+G4 21407.642 37 42889.285 42890.719 43096.481 842 TVM+R3 21401.486 39 42880.972 42882.566 43099.369 862 TVM+F+I+G4 21287.934 40 42655.868 42657.544 42879.864 864 TVM+F+R3 21279.783 42 42643.567 42645.414 42878.762 884 SYM+I+G4 21306.024 38 42688.047 42689.560 42900.843 886 SYM+R3 21300.830 40 42681.660 42683.336 42905.656 906 SYM+I+G4 21306.024 38 42688.047 42689.560 42900.843 908 SYM+R3 21300.830 40 42681.660 42683.336 42905.656 928 GTR+I+G4 21306.021 38 42688.043 42689.556 42900.839 930 GTR+R3 21300.830 40 42681.659 42683.335 42905.655 950 GTR+F+I+G4 21148.957 41 42379.913 42381.674 42609.509 952 GTR+F+R3 21147.067 43 42380.134 42382.071 42620.930 Akaike Information Criterion: GTR+F+I+G4 Corrected Akaike Information Criterion: GTR+F+I+G4 Bayesian Information Criterion: TIM2+F+I+G4 Best-fit model: TIM2+F+I+G4 chosen according to BIC All model information printed to example.phy.model.gz CPU time for ModelFinder: 6.618 seconds (0h:0m:6s) Wall-clock time for ModelFinder: 6.651 seconds (0h:0m:6s) NOTE: 2 MB RAM (0 GB) is required! Estimate model parameters (epsilon = 0.100) Thoroughly optimizing +I+G parameters from 10 start values... Init pinv, alpha: 0.000, 0.780 / Estimate: 0.000, 0.482 / LogL: -21159.728 Init pinv, alpha: 0.038, 0.780 / Estimate: 0.045, 0.533 / LogL: -21156.817 Init pinv, alpha: 0.076, 0.780 / Estimate: 0.083, 0.590 / LogL: -21154.744 Init pinv, alpha: 0.114, 0.780 / Estimate: 0.119, 0.653 / LogL: -21153.275 Init pinv, alpha: 0.153, 0.780 / Estimate: 0.153, 0.728 / LogL: -21152.557 Init pinv, alpha: 0.191, 0.780 / Estimate: 0.182, 0.803 / LogL: -21152.771 Init pinv, alpha: 0.229, 0.780 / Estimate: 0.185, 0.808 / LogL: -21152.833 Init pinv, alpha: 0.267, 0.780 / Estimate: 0.186, 0.812 / LogL: -21152.859 Init pinv, alpha: 0.305, 0.780 / Estimate: 0.186, 0.813 / LogL: -21152.876 Init pinv, alpha: 0.343, 0.780 / Estimate: 0.187, 0.816 / LogL: -21152.898 Optimal pinv,alpha: 0.153, 0.728 / LogL: -21152.557 Parameters optimization took 1.317 sec Wrote distance file to... Computing ML distances based on estimated model parameters... Calculating distance matrix: done in 0.0015272 secs using 99.53% CPU Computing ML distances took 0.001700 sec (of wall-clock time) 0.001649 sec (of CPU time) Setting up auxiliary I and S matrices: done in 3.65418e-05 secs using 98.52% CPU Constructing RapidNJ tree: done in 8.43019e-05 secs using 405.7% CPU Computing RapidNJ tree took 0.000213 sec (of wall-clock time) 0.000446 sec (of CPU time) Log-likelihood of RapidNJ tree: -21161.716 -------------------------------------------------------------------- | INITIALIZING CANDIDATE TREE SET | -------------------------------------------------------------------- Generating 98 parsimony trees... 0.209 second Computing log-likelihood of 98 initial trees ... 0.425 seconds Current best score: -21152.557 Do NNI search on 20 best initial trees Optimizing NNI: done in 0.0152516 secs using 99.85% CPU Estimate model parameters (epsilon = 0.100) BETTER TREE FOUND at iteration 1: -21152.547 Optimizing NNI: done in 0.023669 secs using 99.89% CPU Optimizing NNI: done in 0.0407298 secs using 90.21% CPU Optimizing NNI: done in 0.0500916 secs using 99.2% CPU Optimizing NNI: done in 0.0365267 secs using 99.99% CPU Optimizing NNI: done in 0.0412126 secs using 99.99% CPU Optimizing NNI: done in 0.0418288 secs using 90.32% CPU Optimizing NNI: done in 0.0490728 secs using 99.99% CPU Optimizing NNI: done in 0.0347236 secs using 99.98% CPU Optimizing NNI: done in 0.0421943 secs using 99.99% CPU Iteration 10 / LogL: -21152.820 / Time: 0h:0m:9s Optimizing NNI: done in 0.0346691 secs using 99.99% CPU Optimizing NNI: done in 0.0543153 secs using 100% CPU Optimizing NNI: done in 0.0332689 secs using 99.99% CPU Optimizing NNI: done in 0.0581025 secs using 92.96% CPU Optimizing NNI: done in 0.0499508 secs using 91.96% CPU Optimizing NNI: done in 0.0650745 secs using 99.99% CPU Optimizing NNI: done in 0.0579935 secs using 99.97% CPU Optimizing NNI: done in 0.0666589 secs using 99.97% CPU Optimizing NNI: done in 0.0632932 secs using 99.97% CPU Optimizing NNI: done in 0.0525464 secs using 99.83% CPU Iteration 20 / LogL: -21152.911 / Time: 0h:0m:9s Finish initializing candidate tree set (2) Current best tree score: -21152.547 / CPU time: 1.582 Number of iterations: 20 -------------------------------------------------------------------- | OPTIMIZING CANDIDATE TREE SET | -------------------------------------------------------------------- Optimizing NNI: done in 0.0412131 secs using 99.99% CPU Optimizing NNI: done in 0.13064 secs using 99.92% CPU Optimizing NNI: done in 0.0491617 secs using 98.94% CPU Optimizing NNI: done in 0.0435263 secs using 99.99% CPU Optimizing NNI: done in 0.0754939 secs using 96.18% CPU Optimizing NNI: done in 0.0617418 secs using 99.99% CPU Optimizing NNI: done in 0.066864 secs using 100% CPU Optimizing NNI: done in 0.0728107 secs using 99.98% CPU Optimizing NNI: done in 0.0389642 secs using 99.99% CPU Optimizing NNI: done in 0.0604108 secs using 100% CPU Iteration 30 / LogL: -21152.836 / Time: 0h:0m:10s (0h:0m:8s left) Optimizing NNI: done in 0.0763995 secs using 99.9% CPU Optimizing NNI: done in 0.101703 secs using 96.1% CPU Optimizing NNI: done in 0.0649372 secs using 100% CPU Optimizing NNI: done in 0.0737029 secs using 99.99% CPU Optimizing NNI: done in 0.0442768 secs using 99.96% CPU Optimizing NNI: done in 0.0510832 secs using 99.92% CPU Optimizing NNI: done in 0.0473456 secs using 99.91% CPU Optimizing NNI: done in 0.0294742 secs using 100% CPU Optimizing NNI: done in 0.0375591 secs using 99.35% CPU Optimizing NNI: done in 0.0496561 secs using 99.78% CPU Iteration 40 / LogL: -21152.599 / Time: 0h:0m:10s (0h:0m:6s left) Optimizing NNI: done in 0.0428143 secs using 99.97% CPU Optimizing NNI: done in 0.0666994 secs using 99.82% CPU Optimizing NNI: done in 0.0468043 secs using 99.97% CPU Optimizing NNI: done in 0.0433247 secs using 99.99% CPU Optimizing NNI: done in 0.0628159 secs using 100% CPU Optimizing NNI: done in 0.0426426 secs using 99.99% CPU Optimizing NNI: done in 0.0563157 secs using 100% CPU Optimizing NNI: done in 0.0475736 secs using 99.97% CPU Optimizing NNI: done in 0.0213603 secs using 99.99% CPU Optimizing NNI: done in 0.0570962 secs using 100% CPU Iteration 50 / LogL: -21153.366 / Time: 0h:0m:11s (0h:0m:4s left) Optimizing NNI: done in 0.04339 secs using 99.97% CPU Optimizing NNI: done in 0.0479279 secs using 99.96% CPU Optimizing NNI: done in 0.054164 secs using 99.82% CPU Optimizing NNI: done in 0.0649947 secs using 87.71% CPU Optimizing NNI: done in 0.0478092 secs using 99.97% CPU Optimizing NNI: done in 0.0572138 secs using 100% CPU Optimizing NNI: done in 0.0699841 secs using 99.86% CPU Optimizing NNI: done in 0.0489526 secs using 99.47% CPU Optimizing NNI: done in 0.0642541 secs using 99.99% CPU Optimizing NNI: done in 0.0535582 secs using 99.85% CPU Iteration 60 / LogL: -21152.736 / Time: 0h:0m:11s (0h:0m:3s left) Optimizing NNI: done in 0.0514081 secs using 99.97% CPU Optimizing NNI: done in 0.0406909 secs using 100% CPU Optimizing NNI: done in 0.0971163 secs using 100% CPU Optimizing NNI: done in 0.050507 secs using 100% CPU Optimizing NNI: done in 0.0467946 secs using 91.28% CPU Optimizing NNI: done in 0.0393574 secs using 99.99% CPU Optimizing NNI: done in 0.0469259 secs using 99.99% CPU Optimizing NNI: done in 0.0388884 secs using 99.83% CPU Optimizing NNI: done in 0.0580816 secs using 100% CPU Optimizing NNI: done in 0.0581821 secs using 93.15% CPU Iteration 70 / LogL: -21152.593 / Time: 0h:0m:12s (0h:0m:2s left) Optimizing NNI: done in 0.0433555 secs using 99.99% CPU Optimizing NNI: done in 0.0413539 secs using 100% CPU Optimizing NNI: done in 0.0318829 secs using 99.94% CPU Optimizing NNI: done in 0.0627733 secs using 99.99% CPU Optimizing NNI: done in 0.0504592 secs using 99.99% CPU Optimizing NNI: done in 0.0778635 secs using 99.94% CPU Optimizing NNI: done in 0.053651 secs using 94.23% CPU Optimizing NNI: done in 0.0688715 secs using 94% CPU Optimizing NNI: done in 0.0352458 secs using 99.77% CPU Optimizing NNI: done in 0.0568923 secs using 99.98% CPU Iteration 80 / LogL: -21152.565 / Time: 0h:0m:12s (0h:0m:1s left) Optimizing NNI: done in 0.0724907 secs using 100% CPU Optimizing NNI: done in 0.0608274 secs using 99.99% CPU Optimizing NNI: done in 0.0589628 secs using 86.44% CPU Optimizing NNI: done in 0.0631165 secs using 93.63% CPU Optimizing NNI: done in 0.0487486 secs using 99.99% CPU Optimizing NNI: done in 0.0517637 secs using 99.97% CPU Optimizing NNI: done in 0.0460448 secs using 99.96% CPU Optimizing NNI: done in 0.0607129 secs using 99.97% CPU Optimizing NNI: done in 0.0640638 secs using 100% CPU Optimizing NNI: done in 0.0783411 secs using 99.88% CPU Iteration 90 / LogL: -21152.618 / Time: 0h:0m:13s (0h:0m:0s left) Optimizing NNI: done in 0.0584292 secs using 100% CPU Optimizing NNI: done in 0.034287 secs using 99.99% CPU Optimizing NNI: done in 0.0503377 secs using 99.77% CPU Optimizing NNI: done in 0.0757092 secs using 99.67% CPU Optimizing NNI: done in 0.0605817 secs using 99.98% CPU Optimizing NNI: done in 0.060297 secs using 99.87% CPU Optimizing NNI: done in 0.0480361 secs using 100% CPU Optimizing NNI: done in 0.0336401 secs using 99.99% CPU Optimizing NNI: done in 0.0644844 secs using 93.84% CPU Optimizing NNI: done in 0.0647123 secs using 93.81% CPU Iteration 100 / LogL: -21152.866 / Time: 0h:0m:14s (0h:0m:0s left) Optimizing NNI: done in 0.0568687 secs using 99.99% CPU Optimizing NNI: done in 0.0808492 secs using 95.05% CPU TREE SEARCH COMPLETED AFTER 102 ITERATIONS / Time: 0h:0m:14s -------------------------------------------------------------------- | FINALIZING TREE SEARCH | -------------------------------------------------------------------- Performs final model parameters optimization Estimate model parameters (epsilon = 0.010) 1. Initial log-likelihood: -21152.547 Optimal log-likelihood: -21152.538 Rate parameters: A-C: 5.58435 A-G: 7.63243 A-T: 5.58435 C-G: 1.00000 C-T: 22.64435 G-T: 1.00000 Base frequencies: A: 0.355 C: 0.228 G: 0.192 T: 0.225 Proportion of invariable sites: 0.154 Gamma shape alpha: 0.729 Parameters optimization took 1 rounds (0.018 sec) BEST SCORE FOUND : -21152.538 Total tree length: 4.217 Total number of iterations: 102 CPU time used for tree search: 6.183 sec (0h:0m:6s) Wall-clock time used for tree search: 6.283 sec (0h:0m:6s) Total CPU time used: 14.145 sec (0h:0m:14s) Total wall-clock time used: 14.296 sec (0h:0m:14s) Analysis results written to: IQ-TREE report: example.phy.iqtree Maximum-likelihood tree: example.phy.treefile Likelihood distances: example.phy.mldist Screen log file: example.phy.log Date and Time: Thu Apr 9 23:24:45 2026 14.15user 0.12system 0:14.30elapsed 99%CPU (0avgtext+0avgdata 20668maxresident)k 0inputs+152outputs (0major+3283minor)pagefaults 0swaps + rm -rf /tmp/iqtree-test.Q2WjMf 28.08user 0.23system 0:28.37elapsed 99%CPU (0avgtext+0avgdata 21832maxresident)k 0inputs+384outputs (0major+8591minor)pagefaults 0swaps rm example.short make[1]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg' create-stamp debian/debhelper-build-stamp dh_prep -a debian/rules override_dh_auto_install make[1]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg' if [ "omp" != "omp" ] ; then dh_auto_install -Bbuild.omp; fi if [ "serial" != "omp" ] ; then dh_auto_install -Bbuild.serial; fi cd build.serial && make -j6 install DESTDIR=/build/reproducible-path/iqtree-3.0.1\+dfsg/debian/iqtree AM_UPDATE_INFO_DIR=no INSTALL="install --strip-program=true" make[2]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' /usr/bin/cmake -S/build/reproducible-path/iqtree-3.0.1+dfsg -B/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[3]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' make[3]: Nothing to be done for 'preinstall'. make[3]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/reproducible-path/iqtree-3.0.1+dfsg/debian/iqtree/usr/bin/iqtree3 -- Set non-toolchain portion of runtime path of "/build/reproducible-path/iqtree-3.0.1+dfsg/debian/iqtree/usr/bin/iqtree3" to "" -- Installing: /build/reproducible-path/iqtree-3.0.1+dfsg/debian/iqtree/usr/./models.nex -- Installing: /build/reproducible-path/iqtree-3.0.1+dfsg/debian/iqtree/usr/./example.phy -- Installing: /build/reproducible-path/iqtree-3.0.1+dfsg/debian/iqtree/usr/./example.nex -- Installing: /build/reproducible-path/iqtree-3.0.1+dfsg/debian/iqtree/usr/./example.cf make[2]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.serial' if [ "mpi" != "omp" ] ; then dh_auto_install -Bbuild.mpi; fi cd build.mpi && make -j6 install DESTDIR=/build/reproducible-path/iqtree-3.0.1\+dfsg/debian/iqtree AM_UPDATE_INFO_DIR=no INSTALL="install --strip-program=true" make[2]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' /usr/bin/cmake -S/build/reproducible-path/iqtree-3.0.1+dfsg -B/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[3]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' make[3]: Nothing to be done for 'preinstall'. make[3]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/reproducible-path/iqtree-3.0.1+dfsg/debian/iqtree/usr/bin/iqtree3-mpi -- Set non-toolchain portion of runtime path of "/build/reproducible-path/iqtree-3.0.1+dfsg/debian/iqtree/usr/bin/iqtree3-mpi" to "" -- Up-to-date: /build/reproducible-path/iqtree-3.0.1+dfsg/debian/iqtree/usr/./models.nex -- Up-to-date: /build/reproducible-path/iqtree-3.0.1+dfsg/debian/iqtree/usr/./example.phy -- Up-to-date: /build/reproducible-path/iqtree-3.0.1+dfsg/debian/iqtree/usr/./example.nex -- Up-to-date: /build/reproducible-path/iqtree-3.0.1+dfsg/debian/iqtree/usr/./example.cf make[2]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg/build.mpi' dh override_dh_auto_install make[1]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg' debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg' dh_install find debian -name iqtree3-mpi -exec chrpath --delete \{\} \; find debian -name iqtree3-omp -exec chrpath --delete \{\} \; make[1]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg' dh_installdocs -a dh_installchangelogs -a debian/rules override_dh_installexamples make[1]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg' # somehow the example config is installed in /usr by cmake find debian/iqtree -name example.cf -delete dh_installexamples # remove example files in unusual dir rm -f debian/*/usr/models.nex rm -f debian/*/usr/example.[np][eh][xy] make[1]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg' debian/rules override_dh_installman make[1]: Entering directory '/build/reproducible-path/iqtree-3.0.1+dfsg' mkdir -p /build/reproducible-path/iqtree-3.0.1+dfsg/debian/iqtree/usr/share/man/man1/ help2man --no-info --no-discard-stderr --help-option="-h" \ --name='efficient phylogenetic software by maximum likelihood' \ --version-string="3.0.1+dfsg" /build/reproducible-path/iqtree-3.0.1+dfsg/debian/iqtree/usr/bin/iqtree3 > /build/reproducible-path/iqtree-3.0.1+dfsg/debian/iqtree/usr/share/man/man1//iqtree3.1 help2man --no-info --no-discard-stderr --help-option="-h" \ --name='efficient phylogenetic software by maximum likelihood (multiprocessor version)' \ --version-string="3.0.1+dfsg" /build/reproducible-path/iqtree-3.0.1+dfsg/debian/iqtree/usr/bin/iqtree3-omp > /build/reproducible-path/iqtree-3.0.1+dfsg/debian/iqtree/usr/share/man/man1//iqtree3-omp.1 help2man --no-info --no-discard-stderr --help-option="-h" \ --name='efficient phylogenetic software by maximum likelihood (multiprocessor version)' \ --version-string="3.0.1+dfsg" /build/reproducible-path/iqtree-3.0.1+dfsg/debian/iqtree/usr/bin/iqtree3-mpi > /build/reproducible-path/iqtree-3.0.1+dfsg/debian/iqtree/usr/share/man/man1//iqtree3-mpi.1 make[1]: Leaving directory '/build/reproducible-path/iqtree-3.0.1+dfsg' dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a dh_fixperms -a dh_missing -a dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb -a dh_gencontrol -a dh_md5sums -a dh_builddeb -a dpkg-deb: building package 'iqtree-dbgsym' in '../iqtree-dbgsym_3.0.1+dfsg-1_amd64.deb'. dpkg-deb: building package 'iqtree' in '../iqtree_3.0.1+dfsg-1_amd64.deb'. dpkg-genbuildinfo --build=any -O../iqtree_3.0.1+dfsg-1_amd64.buildinfo dpkg-genchanges --build=any -O../iqtree_3.0.1+dfsg-1_amd64.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2026-04-09T23:26:27Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes Thu, 09 Apr 2026 23:26:28 +0000 | +------------------------------------------------------------------------------+ iqtree_3.0.1+dfsg-1_amd64.changes: ---------------------------------- Format: 1.8 Date: Tue, 07 Apr 2026 13:56:38 +0200 Source: iqtree Binary: iqtree iqtree-dbgsym Architecture: amd64 Version: 3.0.1+dfsg-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Michael R. Crusoe Description: iqtree - efficient phylogenetic software by maximum likelihood Closes: 1129792 Changes: iqtree (3.0.1+dfsg-1) experimental; urgency=medium . * Team upload. * d/{watch,upstream/metadata}: new location for upstream's GitHub repo. * Standards-Version: 4.6.2 (routine-update) * Remove trailing whitespace in debian/changelog (routine-update) submodule. * d/rules: add openmpi include path * d/watch: new upstream location for 3.x * New upstream version. Closes: #1129792 * Standards-Version: 4.7.2 (routine-update) * d/control: new build-deps: libncl-dev, libyaml-cpp-dev & libsimde-dev * New patch to prevent violations of the Debian architecture baselines. * d/rules: always define SIMDE_ENABLE_OPENMP to improve autovectorization. * More renames from iqtree2 → iqtree3 * Standards-Version: 4.7.4 (routine-update) Checksums-Sha1: b4e7ae71bc26027aed839e2cc0682c59738c705b 118906076 iqtree-dbgsym_3.0.1+dfsg-1_amd64.deb a42731eaed5c3dab1d41913ae917d12ea1fc4def 8801 iqtree_3.0.1+dfsg-1_amd64.buildinfo 97a67fdd08e5140cd07839f6a2342700b02fdf7b 10498012 iqtree_3.0.1+dfsg-1_amd64.deb Checksums-Sha256: abb1c6880a8b1a07db5d26ef9f793c734049fdd269284434f1470c309c959bb1 118906076 iqtree-dbgsym_3.0.1+dfsg-1_amd64.deb 49e2fa15526c083dd6bfe1ab3d0a925ceeb2b1fea6a5c7477cd171a1988bd2bb 8801 iqtree_3.0.1+dfsg-1_amd64.buildinfo 2fe4cc2ad220a16573a6252785a4e8939f6ba413fe8c9c596379f6234f5d7b15 10498012 iqtree_3.0.1+dfsg-1_amd64.deb Files: 8adc02775923d1d29e07ad5857d59c89 118906076 debug optional iqtree-dbgsym_3.0.1+dfsg-1_amd64.deb 178c1fe6cc71ffd49b4bbc4d2c9c4e9c 8801 science optional iqtree_3.0.1+dfsg-1_amd64.buildinfo 2351758b2118b3e2f8c9f0d4a6cc4cd3 10498012 science optional iqtree_3.0.1+dfsg-1_amd64.deb +------------------------------------------------------------------------------+ | Buildinfo Thu, 09 Apr 2026 23:26:28 +0000 | +------------------------------------------------------------------------------+ Format: 1.0 Source: iqtree Binary: iqtree iqtree-dbgsym Architecture: amd64 Version: 3.0.1+dfsg-1 Checksums-Md5: 8adc02775923d1d29e07ad5857d59c89 118906076 iqtree-dbgsym_3.0.1+dfsg-1_amd64.deb 2351758b2118b3e2f8c9f0d4a6cc4cd3 10498012 iqtree_3.0.1+dfsg-1_amd64.deb Checksums-Sha1: b4e7ae71bc26027aed839e2cc0682c59738c705b 118906076 iqtree-dbgsym_3.0.1+dfsg-1_amd64.deb 97a67fdd08e5140cd07839f6a2342700b02fdf7b 10498012 iqtree_3.0.1+dfsg-1_amd64.deb Checksums-Sha256: abb1c6880a8b1a07db5d26ef9f793c734049fdd269284434f1470c309c959bb1 118906076 iqtree-dbgsym_3.0.1+dfsg-1_amd64.deb 2fe4cc2ad220a16573a6252785a4e8939f6ba413fe8c9c596379f6234f5d7b15 10498012 iqtree_3.0.1+dfsg-1_amd64.deb Build-Origin: Debian Build-Architecture: amd64 Build-Date: Thu, 09 Apr 2026 23:26:26 +0000 Build-Path: /build/reproducible-path/iqtree-3.0.1+dfsg Installed-Build-Depends: adduser (= 3.155), autoconf (= 2.72-6), automake (= 1:1.18.1-4), autopoint (= 0.23.2-2), autotools-dev (= 20240727.1), base-files (= 14), base-passwd (= 3.6.8), bash (= 5.3-2), binutils (= 2.46-3), binutils-common (= 2.46-3), binutils-x86-64-linux-gnu (= 2.46-3), bsdextrautils (= 2.42-1), build-essential (= 12.12), bzip2 (= 1.0.8-6+b1), chrpath (= 0.18-1), cmake (= 4.3.1-1), coreutils (= 9.10-1), cpp (= 4:15.2.0-5), cpp-15 (= 15.2.0-16), cpp-15-x86-64-linux-gnu (= 15.2.0-16), cpp-x86-64-linux-gnu (= 4:15.2.0-5), dash (= 0.5.12-12), debconf (= 1.5.92), debhelper (= 13.31), debianutils (= 5.23.2), dh-autoreconf (= 22), dh-strip-nondeterminism (= 1.15.0-1), diffutils (= 1:3.12-1), dpkg (= 1.23.7), dpkg-dev (= 1.23.7), dwz (= 0.16-4), file (= 1:5.46-5+b1), findutils (= 4.10.0-3), g++ (= 4:15.2.0-5), g++-15 (= 15.2.0-16), g++-15-x86-64-linux-gnu (= 15.2.0-16), g++-x86-64-linux-gnu (= 4:15.2.0-5), gcc (= 4:15.2.0-5), gcc-15 (= 15.2.0-16), gcc-15-base (= 15.2.0-16), gcc-15-x86-64-linux-gnu (= 15.2.0-16), gcc-16-base (= 16-20260322-1), gcc-x86-64-linux-gnu (= 4:15.2.0-5), gettext (= 0.23.2-2), gettext-base (= 0.23.2-2), gfortran-15 (= 15.2.0-16), gfortran-15-x86-64-linux-gnu (= 15.2.0-16), googletest (= 1.17.0-1), grep (= 3.12-1), groff-base (= 1.23.0-10), gzip (= 1.13-1), help2man (= 1.49.3), hostname (= 3.25), ibverbs-providers (= 61.0-2), init-system-helpers (= 1.69), intltool-debian (= 0.35.0+20060710.6), libacl1 (= 2.3.2-3), libamd-comgr3 (= 7.0.2+dfsg-3), libamdhip64-6 (= 6.4.3-5), libarchive-zip-perl (= 1.68-1), libarchive13t64 (= 3.8.5-1), libasan8 (= 16-20260322-1), libatomic1 (= 16-20260322-1), libattr1 (= 1:2.5.2-4), libaudit-common (= 1:4.1.2-1), libaudit1 (= 1:4.1.2-1+b1), libbinutils (= 2.46-3), libblkid1 (= 2.42-1), libboost-dev (= 1.90.0.1), libboost1.90-dev (= 1.90.0-6), libbrotli1 (= 1.2.0-3), libbsd0 (= 0.12.2-2+b1), libbz2-1.0 (= 1.0.8-6+b1), libc-bin (= 2.42-14), libc-dev-bin (= 2.42-14), libc-gconv-modules-extra (= 2.42-14), libc6 (= 2.42-14), libc6-dev (= 2.42-14), libcap-ng0 (= 0.9.2-1), libcbor0.10 (= 0.10.2-2.1), libcc1-0 (= 16-20260322-1), libclang-common-21-dev (= 1:21.1.8-7), libcom-err2 (= 1.47.4-1), libcrypt1 (= 1:4.5.1-1), libctf-nobfd0 (= 2.46-3), libctf0 (= 2.46-3), libcurl4t64 (= 8.19.0-3), libdb5.3t64 (= 5.3.28+dfsg2-11), libdebconfclient0 (= 0.282+b2), libdebhelper-perl (= 13.31), libdpkg-perl (= 1.23.7), libdrm-amdgpu1 (= 2.4.131-1), libdrm-common (= 2.4.131-1), libdrm2 (= 2.4.131-1), libedit2 (= 3.1-20251016-1), libeigen3-dev (= 3.4.0-5), libelf1t64 (= 0.194-4), libevent-2.1-7t64 (= 2.1.12-stable-10+b2), libevent-core-2.1-7t64 (= 2.1.12-stable-10+b2), libevent-dev (= 2.1.12-stable-10+b2), libevent-extra-2.1-7t64 (= 2.1.12-stable-10+b2), libevent-openssl-2.1-7t64 (= 2.1.12-stable-10+b2), libevent-pthreads-2.1-7t64 (= 2.1.12-stable-10+b2), libexpat1 (= 2.7.5-1), libfabric1 (= 2.1.0-1.1+b1), libffi8 (= 3.5.2-4), libfido2-1 (= 1.16.0-2+b1), libfile-stripnondeterminism-perl (= 1.15.0-1), libfuse3-4 (= 3.18.2-1), libgcc-15-dev (= 15.2.0-16), libgcc-s1 (= 16-20260322-1), libgdbm-compat4t64 (= 1.26-1+b1), libgdbm6t64 (= 1.26-1+b1), libgfortran-15-dev (= 15.2.0-16), libgfortran5 (= 16-20260322-1), libgmp-dev (= 2:6.3.0+dfsg-5+b1), libgmp10 (= 2:6.3.0+dfsg-5+b1), libgmpxx4ldbl (= 2:6.3.0+dfsg-5+b1), libgnutls30t64 (= 3.8.12-3), libgomp1 (= 16-20260322-1), libgprofng0 (= 2.46-3), libgssapi-krb5-2 (= 1.22.1-2), libhogweed6t64 (= 3.10.2-1), libhsa-runtime64-1 (= 6.4.3+dfsg-5), libhwasan0 (= 16-20260322-1), libhwloc-dev (= 2.13.0-2), libhwloc-plugins (= 2.13.0-2), libhwloc15 (= 2.13.0-2), libibmad5 (= 61.0-2), libibumad3 (= 61.0-2), libibverbs-dev (= 61.0-2), libibverbs1 (= 61.0-2), libidn2-0 (= 2.3.8-4+b1), libisl23 (= 0.27-2), libitm1 (= 16-20260322-1), libjansson4 (= 2.14-2+b4), libjs-jquery (= 3.7.1+dfsg+~3.5.33-1), libjs-jquery-ui (= 1.13.2+dfsg-1), libjsoncpp26 (= 1.9.6-5), libk5crypto3 (= 1.22.1-2), libkeyutils1 (= 1.6.3-6+b1), libkrb5-3 (= 1.22.1-2), libkrb5support0 (= 1.22.1-2), libldap2 (= 2.6.10+dfsg-1+b1), libllvm21 (= 1:21.1.8-7), liblocale-gettext-perl (= 1.07-8), liblsan0 (= 16-20260322-1), libltdl-dev (= 2.5.4-10), libltdl7 (= 2.5.4-10), liblz4-1 (= 1.10.0-8), liblzma5 (= 5.8.2-2), libmagic-mgc (= 1:5.46-5+b1), libmagic1t64 (= 1:5.46-5+b1), libmd0 (= 1.1.0-2+b2), libmount1 (= 2.42-1), libmpc3 (= 1.3.1-3), libmpfr6 (= 4.2.2-3), libmunge2 (= 0.5.18-1), libncl-dev (= 2.1.21+git20210811.b1213a7-6+b1), libncl2 (= 2.1.21+git20210811.b1213a7-6+b1), libncursesw6 (= 6.6+20251231-1), libnettle8t64 (= 3.10.2-1), libnghttp2-14 (= 1.68.1-1), libnghttp3-9 (= 1.15.0-1), libngtcp2-16 (= 1.21.0-1), libngtcp2-crypto-ossl0 (= 1.21.0-1), libnl-3-200 (= 3.12.0-2), libnl-3-dev (= 3.12.0-2), libnl-route-3-200 (= 3.12.0-2), libnl-route-3-dev (= 3.12.0-2), libnuma-dev (= 2.0.19-1+b1), libnuma1 (= 2.0.19-1+b1), libopenmpi-dev (= 5.0.10-1), libopenmpi40 (= 5.0.10-1), libp11-kit0 (= 0.26.2-2), libpam-modules (= 1.7.0-5+b1), libpam-modules-bin (= 1.7.0-5+b1), libpam-runtime (= 1.7.0-5), libpam0g (= 1.7.0-5+b1), libpciaccess0 (= 0.17-3+b4), libpcre2-8-0 (= 10.46-1+b1), libperl5.40 (= 5.40.1-7), libpipeline1 (= 1.5.8-2), libpkgconf7 (= 2.5.1-4), libpmix2t64 (= 6.0.0+really5.0.9-3), libproc2-0 (= 2:4.0.4-9+b1), libprrte-bin (= 3.0.13-3), libprrte-dev (= 3.0.13-3), libprrte3 (= 3.0.13-3), libpsl5t64 (= 0.21.5-1), libpsm2-2 (= 11.2.185-2.1), libquadmath0 (= 16-20260322-1), librdmacm1t64 (= 61.0-2), librhash1 (= 1.4.6-1.1), librtmp1 (= 2.4+20151223.gitfa8646d.1-3+b1), libsasl2-2 (= 2.1.28+dfsg1-11), libsasl2-modules-db (= 2.1.28+dfsg1-11), libseccomp2 (= 2.6.0-2+b1), libselinux1 (= 3.10-1), libsemanage-common (= 3.10-1), libsemanage2 (= 3.10-1), libsepol2 (= 3.10-1), libsframe3 (= 2.46-3), libsimde-dev (= 0.8.4~rc3-5), libsmartcols1 (= 2.42-1), libsprng2 (= 2.0a-19), libsprng2-dev (= 2.0a-19), libssh2-1t64 (= 1.11.1-2), libssl3t64 (= 3.6.1-3), libstdc++-15-dev (= 15.2.0-16), libstdc++6 (= 16-20260322-1), libsystemd0 (= 260.1-1), libtasn1-6 (= 4.21.0-2), libtinfo6 (= 6.6+20251231-1), libtool (= 2.5.4-10), libtsan2 (= 16-20260322-1), libubsan1 (= 16-20260322-1), libucc1 (= 1.7.0~rc1-1), libuchardet0 (= 0.0.8-2+b1), libucx0 (= 1.20.1~rc1-2), libudev1 (= 260.1-1), libunistring5 (= 1.4.2-1), libuuid1 (= 2.42-1), libuv1t64 (= 1.51.0-2+b1), libx11-6 (= 2:1.8.13-1), libx11-data (= 2:1.8.13-1), libxau6 (= 1:1.0.11-1+b1), libxcb1 (= 1.17.0-2+b2), libxdmcp6 (= 1:1.1.5-2), libxext6 (= 2:1.3.4-1+b4), libxml2-16 (= 2.15.2+dfsg-0.1), libxnvctrl0 (= 535.171.04-1+b3), libxxhash0 (= 0.8.3-2+b1), libyaml-cpp-dev (= 0.8.0+dfsg-9), libyaml-cpp0.8 (= 0.8.0+dfsg-9), libz3-4 (= 4.13.3-1+b1), libze1 (= 1.28.2-2), libzstd1 (= 1.5.7+dfsg-3+b1), linux-libc-dev (= 6.19.11-1), login.defs (= 1:4.19.3-2), m4 (= 1.4.21-1), make (= 4.4.1-3), man-db (= 2.13.1-1), mawk (= 1.3.4.20260302-1), mpi-default-dev (= 1.20), ncurses-base (= 6.6+20251231-1), ncurses-bin (= 6.6+20251231-1), ocl-icd-libopencl1 (= 2.3.4-1), openmpi-bin (= 5.0.10-1), openmpi-common (= 5.0.10-1), openssh-client (= 1:10.2p1-6), openssl-provider-legacy (= 3.6.1-3), passwd (= 1:4.19.3-2), patch (= 2.8-2), perl (= 5.40.1-7), perl-base (= 5.40.1-7), perl-modules-5.40 (= 5.40.1-7), pkgconf (= 2.5.1-4), pkgconf-bin (= 2.5.1-4), po-debconf (= 1.0.22), procps (= 2:4.0.4-9+b1), rpcsvc-proto (= 1.4.3-1), sed (= 4.9-2), sensible-utils (= 0.0.26), systemd-standalone-sysusers (= 260.1-1), sysvinit-utils (= 3.18-1), tar (= 1.35+dfsg-4), time (= 1.9-0.4), util-linux (= 2.42-1), xz-utils (= 5.8.2-2), zlib1g (= 1:1.3.dfsg+really1.3.2-3), zlib1g-dev (= 1:1.3.dfsg+really1.3.2-3) Environment: DEB_BUILD_OPTIONS="parallel=6" LANG="C.UTF-8" LC_COLLATE="C.UTF-8" LC_CTYPE="C.UTF-8" SOURCE_DATE_EPOCH="1775562998" +------------------------------------------------------------------------------+ | Package contents Thu, 09 Apr 2026 23:26:28 +0000 | +------------------------------------------------------------------------------+ iqtree-dbgsym_3.0.1+dfsg-1_amd64.deb ------------------------------------ new Debian package, version 2.0. size 118906076 bytes: control archive=704 bytes. 461 bytes, 12 lines control 401 bytes, 4 lines md5sums Package: iqtree-dbgsym Source: iqtree Version: 3.0.1+dfsg-1 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 125893 Depends: iqtree (= 3.0.1+dfsg-1) Section: debug Priority: optional Description: debug symbols for iqtree Build-Ids: 073667d2e3cdcc060fbc19b609f958b280934e74 d45ef639a27fcfa27dbc133ae813922501a07d3e f6501bedcb8cbd16325de898c48f25a19b4b9fc4 drwxr-xr-x root/root 0 2026-04-07 11:56 ./ drwxr-xr-x root/root 0 2026-04-07 11:56 ./usr/ drwxr-xr-x root/root 0 2026-04-07 11:56 ./usr/lib/ drwxr-xr-x root/root 0 2026-04-07 11:56 ./usr/lib/debug/ drwxr-xr-x root/root 0 2026-04-07 11:56 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2026-04-07 11:56 ./usr/lib/debug/.build-id/07/ -rw-r--r-- root/root 37216352 2026-04-07 11:56 ./usr/lib/debug/.build-id/07/3667d2e3cdcc060fbc19b609f958b280934e74.debug drwxr-xr-x root/root 0 2026-04-07 11:56 ./usr/lib/debug/.build-id/d4/ -rw-r--r-- root/root 37620600 2026-04-07 11:56 ./usr/lib/debug/.build-id/d4/5ef639a27fcfa27dbc133ae813922501a07d3e.debug drwxr-xr-x root/root 0 2026-04-07 11:56 ./usr/lib/debug/.build-id/f6/ -rw-r--r-- root/root 37216104 2026-04-07 11:56 ./usr/lib/debug/.build-id/f6/501bedcb8cbd16325de898c48f25a19b4b9fc4.debug drwxr-xr-x root/root 0 2026-04-07 11:56 ./usr/lib/debug/.dwz/ drwxr-xr-x root/root 0 2026-04-07 11:56 ./usr/lib/debug/.dwz/x86_64-linux-gnu/ -rw-r--r-- root/root 16845184 2026-04-07 11:56 ./usr/lib/debug/.dwz/x86_64-linux-gnu/iqtree.debug drwxr-xr-x root/root 0 2026-04-07 11:56 ./usr/share/ drwxr-xr-x root/root 0 2026-04-07 11:56 ./usr/share/doc/ lrwxrwxrwx root/root 0 2026-04-07 11:56 ./usr/share/doc/iqtree-dbgsym -> iqtree iqtree_3.0.1+dfsg-1_amd64.deb ----------------------------- new Debian package, version 2.0. size 10498012 bytes: control archive=1544 bytes. 1435 bytes, 29 lines control 1104 bytes, 16 lines md5sums Package: iqtree Version: 3.0.1+dfsg-1 Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 35445 Depends: libc6 (>= 2.38), libgcc-s1 (>= 4.0), libgomp1 (>= 6), libopenmpi40 (>= 5.0.10), libstdc++6 (>= 14), libyaml-cpp0.8 (>= 0.7.0), zlib1g (>= 1:1.2.6) Section: science Priority: optional Homepage: http://www.iqtree.org Description: efficient phylogenetic software by maximum likelihood IQ-TREE is a very efficient maximum likelihood phylogenetic software with following key features among others: . * A novel fast and effective stochastic algorithm to estimate maximum likelihood trees. IQ-TREE outperforms both RAxML and PhyML in terms of likelihood while requiring similar amount of computing time (see Nguyen et al., 2015) * An ultrafast bootstrap approximation to assess branch supports (see Minh et al., 2013). * A wide range of substitution models for binary, DNA, protein, codon, and morphological alignments. * Ultrafast model selection for all data types, 10 to 100 times faster than jModelTest and ProtTest. * Finding best partition scheme like PartitionFinder. * Partitioned models with mixed data types for phylogenomic (multi- gene) alignments, allowing for separate, proportional, or joint branch lengths among genes. * Supporting the phylogenetic likelihod library (PLL) (see Flouri et al., 2014) drwxr-xr-x root/root 0 2026-04-07 11:56 ./ drwxr-xr-x root/root 0 2026-04-07 11:56 ./usr/ drwxr-xr-x root/root 0 2026-04-07 11:56 ./usr/bin/ -rwxr-xr-x root/root 11250904 2026-04-07 11:56 ./usr/bin/iqtree3 -rwxr-xr-x root/root 11345112 2026-04-07 11:56 ./usr/bin/iqtree3-mpi -rwxr-xr-x root/root 11250904 2026-04-07 11:56 ./usr/bin/iqtree3-omp drwxr-xr-x root/root 0 2026-04-07 11:56 ./usr/share/ drwxr-xr-x root/root 0 2026-04-07 11:56 ./usr/share/doc/ drwxr-xr-x root/root 0 2026-04-07 11:56 ./usr/share/doc/iqtree/ -rw-r--r-- root/root 278 2025-09-05 15:17 ./usr/share/doc/iqtree/README.test -rw-r--r-- root/root 995 2026-04-07 11:56 ./usr/share/doc/iqtree/changelog.Debian.gz -rw-r--r-- root/root 8226 2026-04-07 11:56 ./usr/share/doc/iqtree/copyright drwxr-xr-x root/root 0 2026-04-07 11:56 ./usr/share/doc/iqtree/examples/ -rw-r--r-- root/root 939 2025-05-05 05:38 ./usr/share/doc/iqtree/examples/custom_distributions.txt -rw-r--r-- root/root 2237314 2025-05-05 05:38 ./usr/share/doc/iqtree/examples/example.cf -rw-r--r-- root/root 174 2025-05-05 05:38 ./usr/share/doc/iqtree/examples/example.nex -rw-r--r-- root/root 34178 2025-05-05 05:38 ./usr/share/doc/iqtree/examples/example.phy -rw-r--r-- root/root 121669 2025-05-05 05:38 ./usr/share/doc/iqtree/examples/models.nex -rw-r--r-- root/root 47 2025-05-05 05:38 ./usr/share/doc/iqtree/examples/tree.nwk -rw-r--r-- root/root 2368 2026-04-07 09:49 ./usr/share/doc/iqtree/run-unit-test drwxr-xr-x root/root 0 2026-04-07 11:56 ./usr/share/man/ drwxr-xr-x root/root 0 2026-04-07 11:56 ./usr/share/man/man1/ -rw-r--r-- root/root 7191 2026-04-07 11:56 ./usr/share/man/man1/iqtree3-mpi.1.gz -rw-r--r-- root/root 7189 2026-04-07 11:56 ./usr/share/man/man1/iqtree3-omp.1.gz -rw-r--r-- root/root 7170 2026-04-07 11:56 ./usr/share/man/man1/iqtree3.1.gz +------------------------------------------------------------------------------+ | Post Build Thu, 09 Apr 2026 23:26:30 +0000 | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup Thu, 09 Apr 2026 23:26:30 +0000 | +------------------------------------------------------------------------------+ Purging /build/reproducible-path Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary Thu, 09 Apr 2026 23:26:32 +0000 | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Type: any Build-Space: 3451560 Build-Time: 839 Distribution: unstable Host Architecture: amd64 Install-Time: 3 Job: /srv/rebuilderd/tmp/rebuilderdL2mRss/inputs/iqtree_3.0.1+dfsg-1.dsc Machine Architecture: amd64 Package: iqtree Package-Time: 849 Source-Version: 3.0.1+dfsg-1 Space: 3451560 Status: successful Version: 3.0.1+dfsg-1 -------------------------------------------------------------------------------- Finished at 2026-04-09T23:26:27Z Build needed 00:14:09, 3451560k disk space build artifacts stored in /srv/rebuilderd/tmp/rebuilderdL2mRss/out checking iqtree-dbgsym_3.0.1+dfsg-1_amd64.deb: size differs for iqtree-dbgsym_3.0.1+dfsg-1_amd64.deb