=============================================================================== 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/rebuilderdZ6eYHp/inputs/prody_2.3.1+dfsg-3_all.buildinfo Source: prody Version: 2.3.1+dfsg-3 rebuilderd-worker node: ionos24-amd64 +------------------------------------------------------------------------------+ | Downloading sources Thu, 02 Oct 2025 07:09:56 +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 [55.8 kB] Get:5 https://deb.debian.org/debian trixie-backports InRelease [53.8 kB] Get:6 https://deb.debian.org/debian forky InRelease [147 kB] Get:7 https://deb.debian.org/debian sid InRelease [207 kB] Get:8 https://deb.debian.org/debian experimental InRelease [101 kB] Get:9 https://deb.debian.org/debian trixie/non-free-firmware Sources [6536 B] Get:10 https://deb.debian.org/debian trixie/main Sources [10.5 MB] Get:11 https://deb.debian.org/debian-security trixie-security/main Sources [54.7 kB] Get:12 https://deb.debian.org/debian trixie-updates/main Sources [2788 B] Get:13 https://deb.debian.org/debian trixie-proposed-updates/main Sources [22.3 kB] Get:14 https://deb.debian.org/debian trixie-backports/main Sources [51.6 kB] Get:15 https://deb.debian.org/debian trixie-backports/non-free-firmware Sources [1052 B] Get:16 https://deb.debian.org/debian forky/main Sources [10.7 MB] Get:17 https://deb.debian.org/debian forky/non-free-firmware Sources [7128 B] Get:18 https://deb.debian.org/debian sid/non-free-firmware Sources [9100 B] Get:19 https://deb.debian.org/debian sid/main Sources [11.1 MB] Get:20 https://deb.debian.org/debian experimental/main Sources [374 kB] Get:21 https://deb.debian.org/debian experimental/non-free-firmware Sources [2572 B] Fetched 33.7 MB in 3s (10.7 MB/s) Reading package lists... 'https://deb.debian.org/debian/pool/main/p/prody/prody_2.3.1%2bdfsg-3.dsc' prody_2.3.1+dfsg-3.dsc 2235 SHA256:e6ccfbf8325d81e44c6a031edcb2a3ee85b849a4b590a84378de1c1568521a1e 'https://deb.debian.org/debian/pool/main/p/prody/prody_2.3.1%2bdfsg.orig.tar.xz' prody_2.3.1+dfsg.orig.tar.xz 12920328 SHA256:3401d31865d0a2b82d32269301316397768ee9de0f0f71cd992b7b0a0298aaf2 'https://deb.debian.org/debian/pool/main/p/prody/prody_2.3.1%2bdfsg-3.debian.tar.xz' prody_2.3.1+dfsg-3.debian.tar.xz 5860 SHA256:a91b295381a85cb3e9640ea415a005c3c502c35dfe8199dd68f48dbbeaefe6ca 3401d31865d0a2b82d32269301316397768ee9de0f0f71cd992b7b0a0298aaf2 prody_2.3.1+dfsg.orig.tar.xz a91b295381a85cb3e9640ea415a005c3c502c35dfe8199dd68f48dbbeaefe6ca prody_2.3.1+dfsg-3.debian.tar.xz e6ccfbf8325d81e44c6a031edcb2a3ee85b849a4b590a84378de1c1568521a1e prody_2.3.1+dfsg-3.dsc +------------------------------------------------------------------------------+ | Calling debrebuild Thu, 02 Oct 2025 07:10:00 +0000 | +------------------------------------------------------------------------------+ Rebuilding prody=2.3.1+dfsg-3 in /srv/rebuilderd/tmp/rebuilderdZ6eYHp/inputs now. + nice /usr/bin/debrebuild --buildresult=/srv/rebuilderd/tmp/rebuilderdZ6eYHp/out --builder=sbuild+unshare --cache=/srv/rebuilderd/cache -- /srv/rebuilderd/tmp/rebuilderdZ6eYHp/inputs/prody_2.3.1+dfsg-3_all.buildinfo /srv/rebuilderd/tmp/rebuilderdZ6eYHp/inputs/prody_2.3.1+dfsg-3_all.buildinfo contains a GPG signature which has NOT been validated Using defined Build-Path: /build/prody-0QIvue/prody-2.3.1+dfsg I: verifying dsc... successful! Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid InRelease [161 kB] Get:2 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 Packages [9393 kB] Fetched 9554 kB in 1s (8967 kB/s) Reading package lists... W: http://snapshot.debian.org/archive/debian/20230112T090754Z/dists/sid/InRelease: Loading /etc/apt/trusted.gpg from deprecated option Dir::Etc::Trusted Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libfile-find-rule-perl all 0.34-3 [26.6 kB] Fetched 26.6 kB in 0s (2558 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvq61lki3/libfile-find-rule-perl_0.34-3_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 python3-distutils all 3.10.8-1 [139 kB] Fetched 139 kB in 0s (11.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpch1ydu4v/python3-distutils_3.10.8-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 dpkg amd64 1.21.18 [1502 kB] Fetched 1502 kB in 0s (74.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpaivkn7bi/dpkg_1.21.18_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libmpfr6 amd64 4.1.1-3 [664 kB] Fetched 664 kB in 0s (43.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpn2m31g0x/libmpfr6_4.1.1-3_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libexpat1-dev amd64 2.5.0-1 [150 kB] Fetched 150 kB in 0s (11.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0r_sy45g/libexpat1-dev_2.5.0-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 w3c-sgml-lib all 1.3-3 [273 kB] Fetched 273 kB in 0s (18.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7e_46njz/w3c-sgml-lib_1.3-3_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libmpdec3 amd64 2.5.1-2 [87.8 kB] Fetched 87.8 kB in 0s (6059 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpn5fgdbhp/libmpdec3_2.5.1-2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libfontenc1 amd64 1:1.1.4-1 [24.3 kB] Fetched 24.3 kB in 0s (2249 kB/s) dpkg-name: info: moved 'libfontenc1_1%3a1.1.4-1_amd64.deb' to '/srv/rebuilderd/tmp/tmp1s1b7h61/libfontenc1_1.1.4-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libfile-stripnondeterminism-perl all 1.13.0-2 [19.4 kB] Fetched 19.4 kB in 0s (1887 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpehxajr94/libfile-stripnondeterminism-perl_1.13.0-2_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libpam-modules-bin amd64 1.5.2-6 [75.5 kB] Fetched 75.5 kB in 0s (5626 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwjprk72y/libpam-modules-bin_1.5.2-6_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 python3-pkg-resources all 65.6.3-1 [278 kB] Fetched 278 kB in 0s (22.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpx4vahq4c/python3-pkg-resources_65.6.3-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libtool all 2.4.7-5 [517 kB] Fetched 517 kB in 0s (30.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpa6ih464h/libtool_2.4.7-5_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 ncurses-bin amd64 6.4-1 [421 kB] Fetched 421 kB in 0s (33.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpl0bmm425/ncurses-bin_6.4-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 python3-reportlab-accel amd64 3.6.12-1 [40.6 kB] Fetched 40.6 kB in 0s (3912 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7z3za_i_/python3-reportlab-accel_3.6.12-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libssl3 amd64 3.0.7-1 [2008 kB] Fetched 2008 kB in 0s (93.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphzomjwn1/libssl3_3.0.7-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 patch amd64 2.7.6-7 [128 kB] Fetched 128 kB in 0s (11.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpt_5zd4xv/patch_2.7.6-7_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 xz-utils amd64 5.4.0-0.1 [368 kB] Fetched 368 kB in 0s (30.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnyranx3v/xz-utils_5.4.0-0.1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 zlib1g-dev amd64 1:1.2.13.dfsg-1 [916 kB] Fetched 916 kB in 0s (57.6 MB/s) dpkg-name: info: moved 'zlib1g-dev_1%3a1.2.13.dfsg-1_amd64.deb' to '/srv/rebuilderd/tmp/tmp7ue7pdk7/zlib1g-dev_1.2.13.dfsg-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libmagic1 amd64 1:5.44-1 [104 kB] Fetched 104 kB in 0s (8631 kB/s) dpkg-name: info: moved 'libmagic1_1%3a5.44-1_amd64.deb' to '/srv/rebuilderd/tmp/tmpny3tos2l/libmagic1_5.44-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 sensible-utils all 0.0.17 [21.5 kB] Fetched 21.5 kB in 0s (1955 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpu6bsya71/sensible-utils_0.0.17_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libpam-modules amd64 1.5.2-6 [291 kB] Fetched 291 kB in 0s (24.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp33dw8409/libpam-modules_1.5.2-6_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 gettext amd64 0.21-10 [1300 kB] Fetched 1300 kB in 0s (54.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1oo_nyyr/gettext_0.21-10_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 ncurses-base all 6.4-1 [261 kB] Fetched 261 kB in 0s (20.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp08eelu4j/ncurses-base_6.4-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libkrb5support0 amd64 1.20.1-1 [32.2 kB] Fetched 32.2 kB in 0s (2832 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpz5vzinad/libkrb5support0_1.20.1-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libcc1-0 amd64 12.2.0-14 [41.7 kB] Fetched 41.7 kB in 0s (3828 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmkf90gvo/libcc1-0_12.2.0-14_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 python3-biopython amd64 1.80+dfsg-4 [1602 kB] Fetched 1602 kB in 0s (79.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpiymb36lx/python3-biopython_1.80+dfsg-4_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libcrypt-dev amd64 1:4.4.33-2 [118 kB] Fetched 118 kB in 0s (9806 kB/s) dpkg-name: info: moved 'libcrypt-dev_1%3a4.4.33-2_amd64.deb' to '/srv/rebuilderd/tmp/tmp7vroc7gh/libcrypt-dev_4.4.33-2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 python3.10-minimal amd64 3.10.9-1 [1951 kB] Fetched 1951 kB in 0s (89.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpb3r7jymq/python3.10-minimal_3.10.9-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libxau6 amd64 1:1.0.9-1 [19.7 kB] Fetched 19.7 kB in 0s (1728 kB/s) dpkg-name: info: moved 'libxau6_1%3a1.0.9-1_amd64.deb' to '/srv/rebuilderd/tmp/tmpaxpdrkro/libxau6_1.0.9-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 python3.11-minimal amd64 3.11.1-2 [2065 kB] Fetched 2065 kB in 0s (92.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzpur4lbh/python3.11-minimal_3.11.1-2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 xfonts-encodings all 1:1.0.4-2.1 [573 kB] Fetched 573 kB in 0s (41.3 MB/s) dpkg-name: info: moved 'xfonts-encodings_1%3a1.0.4-2.1_all.deb' to '/srv/rebuilderd/tmp/tmp65opj7tt/xfonts-encodings_1.0.4-2.1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libpython3.10-stdlib amd64 3.10.9-1 [1684 kB] Fetched 1684 kB in 0s (61.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp35l_o225/libpython3.10-stdlib_3.10.9-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libuuid1 amd64 2.38.1-4 [28.4 kB] Fetched 28.4 kB in 0s (2525 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkkhgg4la/libuuid1_2.38.1-4_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 gcc-12 amd64 12.2.0-14 [19.3 MB] Fetched 19.3 MB in 0s (89.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqxltgq9x/gcc-12_12.2.0-14_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 liblzma5 amd64 5.4.0-0.1 [198 kB] Fetched 198 kB in 0s (14.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvmm38x7l/liblzma5_5.4.0-0.1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libisl23 amd64 0.25-1 [690 kB] Fetched 690 kB in 0s (46.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpgteq421r/libisl23_0.25-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libopenblas-dev amd64 0.3.21+ds-4 [44.9 kB] Fetched 44.9 kB in 0s (4014 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpni1kska9/libopenblas-dev_0.3.21+ds-4_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 base-passwd amd64 3.6.1 [60.0 kB] Fetched 60.0 kB in 0s (5585 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpy7dgwdbw/base-passwd_3.6.1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 gcc amd64 4:12.2.0-3 [5216 B] Fetched 5216 B in 0s (394 kB/s) dpkg-name: info: moved 'gcc_4%3a12.2.0-3_amd64.deb' to '/srv/rebuilderd/tmp/tmp5bwg88yu/gcc_12.2.0-3_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 mawk amd64 1.3.4.20200120-3.1 [119 kB] Fetched 119 kB in 0s (8220 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4hbwfshw/mawk_1.3.4.20200120-3.1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libjbig0 amd64 2.1-6.1 [31.7 kB] Fetched 31.7 kB in 0s (2913 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1am1t6jm/libjbig0_2.1-6.1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libdebhelper-perl all 13.11.4 [81.2 kB] Fetched 81.2 kB in 0s (7645 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_z5cewve/libdebhelper-perl_13.11.4_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 media-types all 8.0.0 [33.4 kB] Fetched 33.4 kB in 0s (2902 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp35o9towu/media-types_8.0.0_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 python3-beniget all 0.4.1-3 [9920 B] Fetched 9920 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpc8jv8ffq/python3-beniget_0.4.1-3_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 python3.10 amd64 3.10.9-1 [509 kB] Fetched 509 kB in 0s (30.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmps4hqft6g/python3.10_3.10.9-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 usr-is-merged all 35 [4832 B] Fetched 4832 B in 0s (392 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpa3sqsy8c/usr-is-merged_35_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libgfortran5 amd64 12.2.0-14 [793 kB] Fetched 793 kB in 0s (51.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzs_04yrz/libgfortran5_12.2.0-14_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libxsimd-dev amd64 8.1.0-7 [88.8 kB] Fetched 88.8 kB in 0s (8097 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpws_9cdnw/libxsimd-dev_8.1.0-7_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 python3.11-dev amd64 3.11.1-2 [615 kB] Fetched 615 kB in 0s (47.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprqqz4b_5/python3.11-dev_3.11.1-2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 bzip2 amd64 1.0.8-5+b1 [49.8 kB] Fetched 49.8 kB in 0s (4219 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpy_6x3bhx/bzip2_1.0.8-5+b1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libk5crypto3 amd64 1.20.1-1 [78.6 kB] Fetched 78.6 kB in 0s (7379 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9_2m8sp7/libk5crypto3_1.20.1-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libgomp1 amd64 12.2.0-14 [116 kB] Fetched 116 kB in 0s (10.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_gjsz5s4/libgomp1_12.2.0-14_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 linux-libc-dev amd64 6.1.4-1 [1709 kB] Fetched 1709 kB in 0s (61.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_c89j6d3/linux-libc-dev_6.1.4-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libatomic1 amd64 12.2.0-14 [9328 B] Fetched 9328 B in 0s (860 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4e441tee/libatomic1_12.2.0-14_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 mime-support all 3.66 [10.9 kB] Fetched 10.9 kB in 0s (973 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2he57yfw/mime-support_3.66_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libdpkg-perl all 1.21.18 [576 kB] Fetched 576 kB in 0s (32.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphf2_xe0x/libdpkg-perl_1.21.18_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Fetched 26.3 kB in 0s (2485 kB/s) dpkg-name: info: moved 'libxdmcp6_1%3a1.1.2-3_amd64.deb' to '/srv/rebuilderd/tmp/tmptqvbdytd/libxdmcp6_1.1.2-3_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libelf1 amd64 0.188-2 [173 kB] Fetched 173 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp06srz20i/libelf1_0.188-2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libkeyutils1 amd64 1.6.3-2 [8808 B] Fetched 8808 B in 0s (782 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbj822iu6/libkeyutils1_1.6.3-2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libwebp7 amd64 1.2.2-2+b3 [279 kB] Fetched 279 kB in 0s (25.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprd5ci8v1/libwebp7_1.2.2-2+b3_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libnsl2 amd64 1.3.0-2 [39.5 kB] Fetched 39.5 kB in 0s (3182 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1zhazf6i/libnsl2_1.3.0-2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 file amd64 1:5.44-1 [42.4 kB] Fetched 42.4 kB in 0s (4238 kB/s) dpkg-name: info: moved 'file_1%3a5.44-1_amd64.deb' to '/srv/rebuilderd/tmp/tmpn09yhynu/file_5.44-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libpython3.11-minimal amd64 3.11.1-2 [812 kB] Fetched 812 kB in 0s (55.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpa39hj2jw/libpython3.11-minimal_3.11.1-2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 autoconf all 2.71-2 [343 kB] Fetched 343 kB in 0s (26.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp54w0k32n/autoconf_2.71-2_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 dh-autoreconf all 20 [17.1 kB] Fetched 17.1 kB in 0s (1566 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxd74t__l/dh-autoreconf_20_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 python3.11 amd64 3.11.1-2 [567 kB] Fetched 567 kB in 0s (43.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzhdedaey/python3.11_3.11.1-2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libsystemd0 amd64 252.4-1 [329 kB] Fetched 329 kB in 0s (24.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwrpjwad6/libsystemd0_252.4-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Fetched 116 kB in 0s (606 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8qov25pf/libjs-underscore_1.13.4~dfsg+~1.11.4-3_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libacl1 amd64 2.3.1-2 [25.2 kB] Fetched 25.2 kB in 0s (138 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpi_2obgs5/libacl1_2.3.1-2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 python3-setuptools all 65.6.3-1 [520 kB] Fetched 520 kB in 0s (2816 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpgm_roax7/python3-setuptools_65.6.3-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libffi8 amd64 3.4.4-1 [22.9 kB] Fetched 22.9 kB in 0s (162 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzzbpj7nw/libffi8_3.4.4-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libcap-ng0 amd64 0.8.3-1+b2 [17.1 kB] Fetched 17.1 kB in 0s (65.1 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2hbsc10t/libcap-ng0_0.8.3-1+b2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libdeflate0 amd64 1.14-1 [61.4 kB] Fetched 61.4 kB in 0s (601 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpiecfmcus/libdeflate0_1.14-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libcom-err2 amd64 1.46.6~rc1-1+b1 [14.8 kB] Fetched 14.8 kB in 0s (1457 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyvkrqjuz/libcom-err2_1.46.6~rc1-1+b1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libc-dev-bin amd64 2.36-8 [43.8 kB] Fetched 43.8 kB in 0s (4031 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp63ihie85/libc-dev-bin_2.36-8_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libgpg-error0 amd64 1.46-1 [76.9 kB] Fetched 76.9 kB in 0s (7087 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp75x72_u_/libgpg-error0_1.46-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libharfbuzz0b amd64 6.0.0-1 [1938 kB] Fetched 1938 kB in 0s (88.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpudhmg5zs/libharfbuzz0b_6.0.0-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libxcb1 amd64 1.15-1 [144 kB] Fetched 144 kB in 0s (11.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_ri48cs9/libxcb1_1.15-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libpython3.10-dev amd64 3.10.9-1 [4124 kB] Fetched 4124 kB in 0s (129 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpntt7291q/libpython3.10-dev_3.10.9-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libboost1.74-dev amd64 1.74.0-18.1 [9509 kB] Fetched 9509 kB in 0s (141 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp73v5sig8/libboost1.74-dev_1.74.0-18.1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 build-essential amd64 12.9 [7704 B] Fetched 7704 B in 0s (741 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpd7c_puth/build-essential_12.9_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libfribidi0 amd64 1.0.8-2.1 [65.0 kB] Fetched 65.0 kB in 0s (5066 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyf3yyd01/libfribidi0_1.0.8-2.1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 coreutils amd64 9.1-1 [2897 kB] Fetched 2897 kB in 0s (109 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2qkenm5f/coreutils_9.1-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 python3-pil amd64 9.4.0-1 [475 kB] Fetched 475 kB in 0s (26.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9pf9r2gf/python3-pil_9.4.0-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 sysvinit-utils amd64 3.06-2 [30.8 kB] Fetched 30.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpk2hakv3f/sysvinit-utils_3.06-2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 base-files amd64 12.3 [70.3 kB] Fetched 70.3 kB in 0s (5745 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp029an0ys/base-files_12.3_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libpython3.11-stdlib amd64 3.11.1-2 [1712 kB] Fetched 1712 kB in 0s (60.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzbliegd4/libpython3.11-stdlib_3.11.1-2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libcrypt1 amd64 1:4.4.33-2 [89.5 kB] Fetched 89.5 kB in 0s (1031 kB/s) dpkg-name: info: moved 'libcrypt1_1%3a4.4.33-2_amd64.deb' to '/srv/rebuilderd/tmp/tmpph7pfdco/libcrypt1_4.4.33-2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 liblapack3 amd64 3.11.0-2 [2323 kB] Fetched 2323 kB in 0s (10.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqj03spbi/liblapack3_3.11.0-2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libtinfo6 amd64 6.4-1 [331 kB] Fetched 331 kB in 0s (4153 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfjt9rvt0/libtinfo6_6.4-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libtirpc3 amd64 1.3.3+ds-1 [85.2 kB] Fetched 85.2 kB in 0s (296 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmptgdpqved/libtirpc3_1.3.3+ds-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 liblsan0 amd64 12.2.0-14 [969 kB] Fetched 969 kB in 0s (59.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8vrs13lu/liblsan0_12.2.0-14_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 python3-all amd64 3.11.1-1 [1064 B] Fetched 1064 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5_4m_tfl/python3-all_3.11.1-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libselinux1 amd64 3.4-1+b4 [74.1 kB] Fetched 74.1 kB in 0s (6591 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7wh1reod/libselinux1_3.4-1+b4_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 sed amd64 4.9-1 [329 kB] Fetched 329 kB in 0s (27.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmmdep4xe/sed_4.9-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libnumber-compare-perl all 0.03-3 [6332 B] Fetched 6332 B in 0s (466 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3r8381k0/libnumber-compare-perl_0.03-3_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 dash amd64 0.5.12-2 [91.8 kB] Fetched 91.8 kB in 0s (8314 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1z8e_a3d/dash_0.5.12-2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libbsd0 amd64 0.11.7-1 [117 kB] Fetched 117 kB in 0s (10.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpda2x5uf8/libbsd0_0.11.7-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libpng16-16 amd64 1.6.39-2 [276 kB] Fetched 276 kB in 0s (22.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwnkkbst0/libpng16-16_1.6.39-2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libzstd1 amd64 1.5.2+dfsg2-3 [284 kB] Fetched 284 kB in 0s (20.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzzj0g8fh/libzstd1_1.5.2+dfsg2-3_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 python3-lib2to3 all 3.10.8-1 [77.3 kB] Fetched 77.3 kB in 0s (7192 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2qgjllib/python3-lib2to3_3.10.8-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 login amd64 1:4.13+dfsg1-1 [616 kB] Fetched 616 kB in 0s (40.3 MB/s) dpkg-name: info: moved 'login_1%3a4.13+dfsg1-1_amd64.deb' to '/srv/rebuilderd/tmp/tmpox3_0o47/login_4.13+dfsg1-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libncursesw6 amd64 6.4-1 [134 kB] Fetched 134 kB in 0s (11.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnzavqb2p/libncursesw6_6.4-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libgcc-s1 amd64 12.2.0-14 [49.9 kB] Fetched 49.9 kB in 0s (4266 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvi9kg632/libgcc-s1_12.2.0-14_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libgmp10 amd64 2:6.2.1+dfsg1-1.1 [563 kB] Fetched 563 kB in 0s (43.4 MB/s) dpkg-name: info: moved 'libgmp10_2%3a6.2.1+dfsg1-1.1_amd64.deb' to '/srv/rebuilderd/tmp/tmpto9d737q/libgmp10_6.2.1+dfsg1-1.1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 g++ amd64 4:12.2.0-3 [1356 B] Fetched 1356 B in 0s (129 kB/s) dpkg-name: info: moved 'g++_4%3a12.2.0-3_amd64.deb' to '/srv/rebuilderd/tmp/tmp5_yq1qqn/g++_12.2.0-3_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libbrotli1 amd64 1.0.9-2+b5 [279 kB] Fetched 279 kB in 0s (24.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppk6fuj19/libbrotli1_1.0.9-2+b5_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libseccomp2 amd64 2.5.4-1+b2 [46.6 kB] Fetched 46.6 kB in 0s (4149 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpb_cfggpz/libseccomp2_2.5.4-1+b2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libicu72 amd64 72.1-3 [9376 kB] Fetched 9376 kB in 0s (109 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpixouq20s/libicu72_72.1-3_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 cpp-12 amd64 12.2.0-14 [9764 kB] Fetched 9764 kB in 0s (101 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyoltr70e/cpp-12_12.2.0-14_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libblkid1 amd64 2.38.1-4 [147 kB] Fetched 147 kB in 0s (14.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpoosljluj/libblkid1_2.38.1-4_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libudev1 amd64 252.4-1 [106 kB] Fetched 106 kB in 0s (9247 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdo3asdlt/libudev1_252.4-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libtext-glob-perl all 0.11-3 [7676 B] Fetched 7676 B in 0s (702 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpn0f50a71/libtext-glob-perl_0.11-3_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 groff-base amd64 1.22.4-9 [916 kB] Fetched 916 kB in 0s (57.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvzbtv63z/groff-base_1.22.4-9_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 fonts-urw-base35 all 20200910-6 [6374 kB] Fetched 6374 kB in 0s (114 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpv5lw2hgb/fonts-urw-base35_20200910-6_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libpython3-all-dev amd64 3.11.1-1 [1072 B] Fetched 1072 B in 0s (94.2 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpq5ggk4h6/libpython3-all-dev_3.11.1-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libgdbm6 amd64 1.23-3 [72.2 kB] Fetched 72.2 kB in 0s (6506 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpu3lkd9wn/libgdbm6_1.23-3_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libmd0 amd64 1.0.4-2 [29.5 kB] Fetched 29.5 kB in 0s (2538 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpi8c4cw3x/libmd0_1.0.4-2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libpython3-dev amd64 3.11.1-1 [8808 B] Fetched 8808 B in 0s (757 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpw_vsxfml/libpython3-dev_3.11.1-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libstdc++6 amd64 12.2.0-14 [614 kB] Fetched 614 kB in 0s (30.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjg8y030a/libstdc++6_12.2.0-14_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libxml2 amd64 2.9.14+dfsg-1.1+b2 [687 kB] Fetched 687 kB in 0s (48.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwxxt7_hx/libxml2_2.9.14+dfsg-1.1+b2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 python3-renderpm amd64 3.6.12-1 [79.5 kB] Fetched 79.5 kB in 0s (7223 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpijtyodsd/python3-renderpm_3.6.12-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libgcc-12-dev amd64 12.2.0-14 [2437 kB] Fetched 2437 kB in 0s (99.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzz1s_j31/libgcc-12-dev_12.2.0-14_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 python3-reportlab all 3.6.12-1 [564 kB] Fetched 564 kB in 0s (42.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpaejvrzzr/python3-reportlab_3.6.12-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 bash amd64 5.2.15-2 [1490 kB] Fetched 1490 kB in 0s (75.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprq6hiizp/bash_5.2.15-2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libitm1 amd64 12.2.0-14 [26.1 kB] Fetched 26.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplx7cwr2i/libitm1_12.2.0-14_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libopenblas-pthread-dev amd64 0.3.21+ds-4 [4971 kB] Fetched 4971 kB in 0s (121 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqejpt2lb/libopenblas-pthread-dev_0.3.21+ds-4_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libsqlite3-0 amd64 3.40.1-1 [838 kB] Fetched 838 kB in 0s (58.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdxqhw8qm/libsqlite3-0_3.40.1-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 python3-minimal amd64 3.11.1-1 [25.5 kB] Fetched 25.5 kB in 0s (2306 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpz1idmvn1/python3-minimal_3.11.1-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libraqm0 amd64 0.7.0-4 [11.0 kB] Fetched 11.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmptqa7h24m/libraqm0_0.7.0-4_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libjansson4 amd64 2.14-2 [40.8 kB] Fetched 40.8 kB in 0s (3717 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmph8wpielg/libjansson4_2.14-2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libmpc3 amd64 1.3.1-1 [51.5 kB] Fetched 51.5 kB in 0s (5127 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5afniacp/libmpc3_1.3.1-1_amd64.deb' Downloading dependency 1 of 252: libfile-find-rule-perl:amd64=0.34-3 Downloading dependency 2 of 252: python3-distutils:amd64=3.10.8-1 Downloading dependency 3 of 252: dpkg:amd64=1.21.18 Downloading dependency 4 of 252: libmpfr6:amd64=4.1.1-3 Downloading dependency 5 of 252: libexpat1-dev:amd64=2.5.0-1 Downloading dependency 6 of 252: w3c-sgml-lib:amd64=1.3-3 Downloading dependency 7 of 252: libmpdec3:amd64=2.5.1-2 Downloading dependency 8 of 252: libfontenc1:amd64=1:1.1.4-1 Downloading dependency 9 of 252: libfile-stripnondeterminism-perl:amd64=1.13.0-2 Downloading dependency 10 of 252: libpam-modules-bin:amd64=1.5.2-6 Downloading dependency 11 of 252: python3-pkg-resources:amd64=65.6.3-1 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liblsan0:amd64=12.2.0-14 Downloading dependency 93 of 252: python3-all:amd64=3.11.1-1 Downloading dependency 94 of 252: libselinux1:amd64=3.4-1+b4 Downloading dependency 95 of 252: sed:amd64=4.9-1 Downloading dependency 96 of 252: libnumber-compare-perl:amd64=0.03-3 Downloading dependency 97 of 252: dash:amd64=0.5.12-2 Downloading dependency 98 of 252: libbsd0:amd64=0.11.7-1 Downloading dependency 99 of 252: libpng16-16:amd64=1.6.39-2 Downloading dependency 100 of 252: libzstd1:amd64=1.5.2+dfsg2-3 Downloading dependency 101 of 252: python3-lib2to3:amd64=3.10.8-1 Downloading dependency 102 of 252: login:amd64=1:4.13+dfsg1-1 Downloading dependency 103 of 252: libncursesw6:amd64=6.4-1 Downloading dependency 104 of 252: libgcc-s1:amd64=12.2.0-14 Downloading dependency 105 of 252: libgmp10:amd64=2:6.2.1+dfsg1-1.1 Downloading dependency 106 of 252: g++:amd64=4:12.2.0-3 Downloading dependency 107 of 252: libbrotli1:amd64=1.0.9-2+b5 Downloading dependency 108 of 252: libseccomp2:amd64=2.5.4-1+b2 Downloading dependency 109 of 252: libicu72:amd64=72.1-3 Downloading dependency 110 of 252: cpp-12:amd64=12.2.0-14 Downloading dependency 111 of 252: libblkid1:amd64=2.38.1-4 Downloading dependency 112 of 252: libudev1:amd64=252.4-1 Downloading dependency 113 of 252: libtext-glob-perl:amd64=0.11-3 Downloading dependency 114 of 252: groff-base:amd64=1.22.4-9 Downloading dependency 115 of 252: fonts-urw-base35:amd64=20200910-6 Downloading dependency 116 of 252: libpython3-all-dev:amd64=3.11.1-1 Downloading dependency 117 of 252: libgdbm6:amd64=1.23-3 Downloading dependency 118 of 252: libmd0:amd64=1.0.4-2 Downloading dependency 119 of 252: libpython3-dev:amd64=3.11.1-1 Downloading dependency 120 of 252: libstdc++6:amd64=12.2.0-14 Downloading dependency 121 of 252: libxml2:amd64=2.9.14+dfsg-1.1+b2 Downloading dependency 122 of 252: python3-renderpm:amd64=3.6.12-1 Downloading dependency 123 of 252: libgcc-12-dev:amd64=12.2.0-14 Downloading dependency 124 of 252: python3-reportlab:amd64=3.6.12-1 Downloading dependency 125 of 252: bash:amd64=5.2.15-2 Downloading dependency 126 of 252: libitm1:amd64=12.2.0-14 Downloading dependency 127 of 252: libopenblas-pthread-dev:amd64=0.3.21+ds-4 Downloading dependency 128 of 252: libsqlite3-0:amd64=3.40.1-1 Downloading dependency 129 of 252: python3-minimal:amd64=3.11.1-1 Downloading dependency 130 of 252: libraqm0:amd64=0.7.0-4 Downloading dependency 131 of 252: libjansson4:amd64=2.14-2 Downloading dependency 132 of 252: libmpc3:amd64=1.3.1-1 Downloading dependency 133 of 252: libasan8:amd64=12.2.0-14Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libasan8 amd64 12.2.0-14 [2195 kB] Fetched 2195 kB in 0s (102 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_n_4w4lg/libasan8_12.2.0-14_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libopenblas0 amd64 0.3.21+ds-4 [32.6 kB] Fetched 32.6 kB in 0s (3093 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprtzdp9g5/libopenblas0_0.3.21+ds-4_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libblas3 amd64 3.11.0-2 [149 kB] Fetched 149 kB in 0s (13.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmps25qqth8/libblas3_3.11.0-2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 python3-numpy amd64 1:1.24.1-2 [5966 kB] Fetched 5966 kB in 0s (135 MB/s) dpkg-name: info: moved 'python3-numpy_1%3a1.24.1-2_amd64.deb' to '/srv/rebuilderd/tmp/tmp128s3m8m/python3-numpy_1.24.1-2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 bsdutils amd64 1:2.38.1-4 [94.2 kB] Fetched 94.2 kB in 0s (7323 kB/s) dpkg-name: info: moved 'bsdutils_1%3a2.38.1-4_amd64.deb' to '/srv/rebuilderd/tmp/tmpam4rbezb/bsdutils_2.38.1-4_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libaudit-common all 1:3.0.7-1.1 [16.4 kB] Fetched 16.4 kB in 0s (1587 kB/s) dpkg-name: info: moved 'libaudit-common_1%3a3.0.7-1.1_all.deb' to '/srv/rebuilderd/tmp/tmpk1lygdqr/libaudit-common_3.0.7-1.1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libopenblas0-pthread amd64 0.3.21+ds-4 [6709 kB] Fetched 6709 kB in 0s (141 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdidr811x/libopenblas0-pthread_0.3.21+ds-4_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libkrb5-3 amd64 1.20.1-1 [331 kB] Fetched 331 kB in 0s (27.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpve6as4ww/libkrb5-3_1.20.1-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libsub-override-perl all 0.09-4 [9304 B] Fetched 9304 B in 0s (905 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcwgjezrs/libsub-override-perl_0.09-4_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libtirpc-common all 1.3.3+ds-1 [14.0 kB] Fetched 14.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmps7r0xe13/libtirpc-common_1.3.3+ds-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 readline-common all 8.2-1.2 [68.5 kB] Fetched 68.5 kB in 0s (5895 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvl9ngo8t/readline-common_8.2-1.2_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 x11-common all 1:7.7+23 [252 kB] Fetched 252 kB in 0s (24.0 MB/s) dpkg-name: info: moved 'x11-common_1%3a7.7+23_all.deb' to '/srv/rebuilderd/tmp/tmpap_tn_40/x11-common_7.7+23_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 python3.10-dev amd64 3.10.9-1 [508 kB] Fetched 508 kB in 0s (30.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmnyhybpm/python3.10-dev_3.10.9-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libpython3.10-minimal amd64 3.10.9-1 [784 kB] Fetched 784 kB in 0s (50.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4uhy1y6g/libpython3.10-minimal_3.10.9-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libgdbm-compat4 amd64 1.23-3 [48.2 kB] Fetched 48.2 kB in 0s (4665 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppb5fxgwu/libgdbm-compat4_1.23-3_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Fetched 22.9 kB in 0s (2253 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwt1wiujy/intltool-debian_0.35.0+20060710.6_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libgraphite2-3 amd64 1.3.14-1 [81.2 kB] Fetched 81.2 kB in 0s (7982 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp604f7x77/libgraphite2-3_1.3.14-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 python3-gast all 0.5.2-2 [9364 B] Fetched 9364 B in 0s (754 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplfc6r36l/python3-gast_0.5.2-2_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 sgml-base all 1.31 [15.4 kB] Fetched 15.4 kB in 0s (1510 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp54vif425/sgml-base_1.31_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 python3-ply all 3.11-5 [65.8 kB] Fetched 65.8 kB in 0s (5485 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpf3_fpuky/python3-ply_3.11-5_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libopenjp2-7 amd64 2.5.0-1 [189 kB] Fetched 189 kB in 0s (13.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpux6297y9/libopenjp2-7_2.5.0-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 python3-pyparsing all 3.0.9-1 [138 kB] Fetched 138 kB in 0s (11.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp312gkxdd/python3-pyparsing_3.0.9-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 binutils-x86-64-linux-gnu amd64 2.39.90.20230110-1 [2249 kB] Fetched 2249 kB in 0s (90.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpteth887y/binutils-x86-64-linux-gnu_2.39.90.20230110-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libpam-runtime all 1.5.2-6 [161 kB] Fetched 161 kB in 0s (13.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpj40k_1pi/libpam-runtime_1.5.2-6_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libc6-dev amd64 2.36-8 [1897 kB] Fetched 1897 kB in 0s (89.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpp9pdyh19/libc6-dev_2.36-8_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 grep amd64 3.8-3 [421 kB] Fetched 421 kB in 0s (31.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5uigmh3k/grep_3.8-3_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 init-system-helpers all 1.65.2 [49.8 kB] Fetched 49.8 kB in 0s (4871 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpm7fdtslc/init-system-helpers_1.65.2_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 python3-decorator all 5.1.1-3 [14.9 kB] Fetched 14.9 kB in 0s (1365 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_85vrt8i/python3-decorator_5.1.1-3_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libpcre2-8-0 amd64 10.42-1 [261 kB] Fetched 261 kB in 0s (21.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmnzw4tqr/libpcre2-8-0_10.42-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libgprofng0 amd64 2.39.90.20230110-1 [812 kB] Fetched 812 kB in 0s (52.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyo_cfazo/libgprofng0_2.39.90.20230110-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 hostname amd64 3.23+nmu1 [10.5 kB] Fetched 10.5 kB in 0s (1019 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqdxy35p6/hostname_3.23+nmu1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 liblz4-1 amd64 1.9.4-1 [62.9 kB] Fetched 62.9 kB in 0s (6030 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9jz4yhv8/liblz4-1_1.9.4-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libtirpc-dev amd64 1.3.3+ds-1 [191 kB] Fetched 191 kB in 0s (16.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpy4m7vpmf/libtirpc-dev_1.3.3+ds-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 make amd64 4.3-4.1 [396 kB] Fetched 396 kB in 0s (31.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_jmvemhb/make_4.3-4.1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libpython3.10 amd64 3.10.9-1 [1753 kB] Fetched 1753 kB in 0s (84.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmph1pdge3h/libpython3.10_3.10.9-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 dh-strip-nondeterminism all 1.13.0-2 [8556 B] Fetched 8556 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmipqs0as/dh-strip-nondeterminism_1.13.0-2_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libgssapi-krb5-2 amd64 1.20.1-1 [134 kB] Fetched 134 kB in 0s (12.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpizccrnum/libgssapi-krb5-2_1.20.1-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 python3-all-dev amd64 3.11.1-1 [1076 B] Fetched 1076 B in 0s (104 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpn10dp2za/python3-all-dev_3.11.1-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 python3 amd64 3.11.1-1 [25.2 kB] Fetched 25.2 kB in 0s (2456 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp30v49sdo/python3_3.11.1-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 liblbfgsb0 amd64 3.0+dfsg.3-11 [28.6 kB] Fetched 28.6 kB in 0s (2782 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6fw03djm/liblbfgsb0_3.0+dfsg.3-11_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libpython3.11-dev amd64 3.11.1-2 [4740 kB] Fetched 4740 kB in 0s (129 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpd3s_qyee/libpython3.11-dev_3.11.1-2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 liblcms2-2 amd64 2.14-1+b1 [154 kB] Fetched 154 kB in 0s (10.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjgbguool/liblcms2-2_2.14-1+b1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libwebpmux3 amd64 1.2.2-2+b3 [106 kB] Fetched 106 kB in 0s (9565 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpa0eljj0p/libwebpmux3_1.2.2-2+b3_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libquadmath0 amd64 12.2.0-14 [144 kB] Fetched 144 kB in 0s (11.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmps3gf3kmq/libquadmath0_12.2.0-14_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 debianutils amd64 5.7-0.4 [102 kB] Fetched 102 kB in 0s (9624 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpy96ghwqv/debianutils_5.7-0.4_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 dpkg-dev all 1.21.18 [1301 kB] Fetched 1301 kB in 0s (75.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmuefuou8/dpkg-dev_1.21.18_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libctf-nobfd0 amd64 2.39.90.20230110-1 [153 kB] Fetched 153 kB in 0s (13.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpg2yy00gs/libctf-nobfd0_2.39.90.20230110-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libcap2 amd64 1:2.66-3 [27.0 kB] Fetched 27.0 kB in 0s (2367 kB/s) dpkg-name: info: moved 'libcap2_1%3a2.66-3_amd64.deb' to '/srv/rebuilderd/tmp/tmp5cvomk89/libcap2_2.66-3_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libbz2-1.0 amd64 1.0.8-5+b1 [47.3 kB] Fetched 47.3 kB in 0s (4447 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmps0l714dr/libbz2-1.0_1.0.8-5+b1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libaudit1 amd64 1:3.0.7-1.1+b2 [46.4 kB] Fetched 46.4 kB in 0s (4536 kB/s) dpkg-name: info: moved 'libaudit1_1%3a3.0.7-1.1+b2_amd64.deb' to '/srv/rebuilderd/tmp/tmpxa4mlihf/libaudit1_3.0.7-1.1+b2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Fetched 326 kB in 0s (31.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmi3bkwbp/libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libreadline8 amd64 8.2-1.2 [165 kB] Fetched 165 kB in 0s (10.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpclfb8ktv/libreadline8_8.2-1.2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 gzip amd64 1.12-1 [140 kB] Fetched 140 kB in 0s (10.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpi7jtbs38/gzip_1.12-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libc6 amd64 2.36-8 [2747 kB] Fetched 2747 kB in 0s (94.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp02kysr5l/libc6_2.36-8_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Fetched 248 kB in 0s (19.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfosf2hmq/po-debconf_1.0.21+nmu1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libsmartcols1 amd64 2.38.1-4 [106 kB] Fetched 106 kB in 0s (9582 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpg1t25vm6/libsmartcols1_2.38.1-4_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libpython3.11 amd64 3.11.1-2 [1987 kB] Fetched 1987 kB in 0s (81.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxf0poqpw/libpython3.11_3.11.1-2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libgcrypt20 amd64 1.10.1-3 [696 kB] Fetched 696 kB in 0s (41.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpivti6fj1/libgcrypt20_1.10.1-3_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libpam0g amd64 1.5.2-6 [91.7 kB] Fetched 91.7 kB in 0s (8034 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdxq2t536/libpam0g_1.5.2-6_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 python3-pythran amd64 0.11.0+ds-7 [427 kB] Fetched 427 kB in 0s (32.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp73kbmwy2/python3-pythran_0.11.0+ds-7_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 bsdextrautils amd64 2.38.1-4 [86.2 kB] Fetched 86.2 kB in 0s (8084 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmu5o455p/bsdextrautils_2.38.1-4_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libpipeline1 amd64 1.5.7-1 [38.5 kB] Fetched 38.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmj_on3n1/libpipeline1_1.5.7-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 automake all 1:1.16.5-1.3 [823 kB] Fetched 823 kB in 0s (45.3 MB/s) dpkg-name: info: moved 'automake_1%3a1.16.5-1.3_all.deb' to '/srv/rebuilderd/tmp/tmp5jmjset1/automake_1.16.5-1.3_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 liblerc4 amd64 4.0.0+ds-2 [170 kB] Fetched 170 kB in 0s (14.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpj0nrh26n/liblerc4_4.0.0+ds-2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libubsan1 amd64 12.2.0-14 [883 kB] Fetched 883 kB in 0s (57.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpu4xmz_rc/libubsan1_12.2.0-14_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 diffutils amd64 1:3.8-3 [352 kB] Fetched 352 kB in 0s (29.6 MB/s) dpkg-name: info: moved 'diffutils_1%3a3.8-3_amd64.deb' to '/srv/rebuilderd/tmp/tmp8sp8nen9/diffutils_3.8-3_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 tar amd64 1.34+dfsg-1.1 [836 kB] Fetched 836 kB in 0s (44.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpx1jz0d2l/tar_1.34+dfsg-1.1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libwebpdemux2 amd64 1.2.2-2+b3 [96.3 kB] Fetched 96.3 kB in 0s (7883 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4ucvjtgh/libwebpdemux2_1.2.2-2+b3_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libtiff5 amd64 4.4.0-6 [302 kB] Fetched 302 kB in 0s (24.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpol1y_8q7/libtiff5_4.4.0-6_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 rpcsvc-proto amd64 1.4.3-1 [63.3 kB] Fetched 63.3 kB in 0s (4456 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpk7nayyr2/rpcsvc-proto_1.4.3-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libperl5.36 amd64 5.36.0-7 [4218 kB] Fetched 4218 kB in 0s (91.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpre4ak0ir/libperl5.36_5.36.0-7_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libpython3-stdlib amd64 3.11.1-1 [8580 B] Fetched 8580 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpoyh1g5rj/libpython3-stdlib_3.11.1-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 binutils amd64 2.39.90.20230110-1 [64.7 kB] Fetched 64.7 kB in 0s (5719 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphzggi9du/binutils_2.39.90.20230110-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 cpp amd64 4:12.2.0-3 [6836 B] Fetched 6836 B in 0s (660 kB/s) dpkg-name: info: moved 'cpp_4%3a12.2.0-3_amd64.deb' to '/srv/rebuilderd/tmp/tmpzi50qjn7/cpp_12.2.0-3_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 zlib1g amd64 1:1.2.13.dfsg-1 [86.7 kB] Fetched 86.7 kB in 0s (7837 kB/s) dpkg-name: info: moved 'zlib1g_1%3a1.2.13.dfsg-1_amd64.deb' to '/srv/rebuilderd/tmp/tmpwzk182sa/zlib1g_1.2.13.dfsg-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 dwz amd64 0.15-1 [109 kB] Fetched 109 kB in 0s (8898 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpp_yc03vd/dwz_0.15-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libimagequant0 amd64 2.17.0-1 [32.5 kB] Fetched 32.5 kB in 0s (3110 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5z5xyoqt/libimagequant0_2.17.0-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 binutils-common amd64 2.39.90.20230110-1 [2472 kB] Fetched 2472 kB in 0s (100 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpn38x9vx1/binutils-common_2.39.90.20230110-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 perl-base amd64 5.36.0-7 [1608 kB] Fetched 1608 kB in 0s (68.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpl1g3pugl/perl-base_5.36.0-7_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 perl-modules-5.36 all 5.36.0-7 [2815 kB] Fetched 2815 kB in 0s (103 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5usoirh5/perl-modules-5.36_5.36.0-7_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 xml-core all 0.18+nmu1 [23.8 kB] Fetched 23.8 kB in 0s (2130 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcvm2cm9v/xml-core_0.18+nmu1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 perl amd64 5.36.0-7 [239 kB] Fetched 239 kB in 0s (19.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwk4tnq0d/perl_5.36.0-7_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 python3-scipy amd64 1.8.1-20 [17.2 MB] Fetched 17.2 MB in 0s (74.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpm2c8as2z/python3-scipy_1.8.1-20_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libglib2.0-0 amd64 2.74.4-1 [1396 kB] Fetched 1396 kB in 0s (82.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpixfh4tt6/libglib2.0-0_2.74.4-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libunistring2 amd64 1.0-2 [437 kB] Fetched 437 kB in 0s (32.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1ai025n9/libunistring2_1.0-2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libdb5.3 amd64 5.3.28+dfsg1-0.10 [687 kB] Fetched 687 kB in 0s (50.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzi7oxom_/libdb5.3_5.3.28+dfsg1-0.10_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libtsan2 amd64 12.2.0-14 [2196 kB] Fetched 2196 kB in 0s (98.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfh9c4b3n/libtsan2_12.2.0-14_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 gcc-12-base amd64 12.2.0-14 [37.5 kB] Fetched 37.5 kB in 0s (3348 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5jj2yzef/gcc-12-base_12.2.0-14_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 usrmerge all 35 [12.5 kB] Fetched 12.5 kB in 0s (859 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpoqprzvuz/usrmerge_35_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libattr1 amd64 1:2.5.1-3 [15.4 kB] Fetched 15.4 kB in 0s (0 B/s) dpkg-name: info: moved 'libattr1_1%3a2.5.1-3_amd64.deb' to '/srv/rebuilderd/tmp/tmpnvvwdcy7/libattr1_2.5.1-3_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libboost-dev amd64 1.74.0.3 [4548 B] Fetched 4548 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3mj6v_8c/libboost-dev_1.74.0.3_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 util-linux-extra amd64 2.38.1-4 [110 kB] Fetched 110 kB in 0s (10.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpl21knq3w/util-linux-extra_2.38.1-4_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libc-bin amd64 2.36-8 [605 kB] Fetched 605 kB in 0s (43.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpc7e8bjne/libc-bin_2.36-8_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 autopoint all 0.21-10 [495 kB] Fetched 495 kB in 0s (37.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxj3utn2x/autopoint_0.21-10_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 findutils amd64 4.9.0-4 [636 kB] Fetched 636 kB in 0s (44.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp77xt9iqy/findutils_4.9.0-4_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Fetched 104 kB in 0s (8704 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpuci1k78r/libarchive-zip-perl_1.68-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB] Fetched 67.8 kB in 0s (6516 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyjk0u36g/libuchardet0_0.0.7-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 m4 amd64 1.4.19-2 [287 kB] Fetched 287 kB in 0s (24.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpne3wum3r/m4_1.4.19-2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libfreetype6 amd64 2.12.1+dfsg-3 [420 kB] Fetched 420 kB in 0s (34.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpe7hm2sq7/libfreetype6_2.12.1+dfsg-3_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libexpat1 amd64 2.5.0-1 [99.3 kB] Fetched 99.3 kB in 0s (8653 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp40vlijbe/libexpat1_2.5.0-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libmagic-mgc amd64 1:5.44-1 [303 kB] Fetched 303 kB in 0s (23.3 MB/s) dpkg-name: info: moved 'libmagic-mgc_1%3a5.44-1_amd64.deb' to '/srv/rebuilderd/tmp/tmp_8qmngwq/libmagic-mgc_5.44-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libmount1 amd64 2.38.1-4 [165 kB] Fetched 165 kB in 0s (14.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpk8q196l6/libmount1_2.38.1-4_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 debhelper all 13.11.4 [942 kB] Fetched 942 kB in 0s (58.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkofw5nsf/debhelper_13.11.4_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libdebconfclient0 amd64 0.266 [8984 B] Fetched 8984 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpgur952cb/libdebconfclient0_0.266_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 g++-12 amd64 12.2.0-14 [10.7 MB] Fetched 10.7 MB in 0s (127 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8m9sirmo/g++-12_12.2.0-14_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 util-linux amd64 2.38.1-4 [1176 kB] Fetched 1176 kB in 0s (63.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpn7fj16ce/util-linux_2.38.1-4_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libjs-sphinxdoc all 5.3.0-2 [130 kB] Fetched 130 kB in 0s (12.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpb0mn6ijk/libjs-sphinxdoc_5.3.0-2_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libstdc++-12-dev amd64 12.2.0-14 [2046 kB] Fetched 2046 kB in 0s (93.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_rn2em6a/libstdc++-12-dev_12.2.0-14_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 man-db amd64 2.11.2-1 [1386 kB] Fetched 1386 kB in 0s (66.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2az72w8h/man-db_2.11.2-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 autotools-dev all 20220109.1 [51.6 kB] Fetched 51.6 kB in 0s (4903 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0985y5u4/autotools-dev_20220109.1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libctf0 amd64 2.39.90.20230110-1 [89.9 kB] Fetched 89.9 kB in 0s (6860 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpf5a6gmhv/libctf0_2.39.90.20230110-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libnsl-dev amd64 1.3.0-2 [66.4 kB] Fetched 66.4 kB in 0s (5821 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpweghbn3c/libnsl-dev_1.3.0-2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 gettext-base amd64 0.21-10 [160 kB] Fetched 160 kB in 0s (15.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpstszj5qv/gettext-base_0.21-10_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 mailcap all 3.70+nmu1 [32.0 kB] Fetched 32.0 kB in 0s (2816 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfzsmnuou/mailcap_3.70+nmu1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 python3-dev amd64 3.11.1-1 [26.0 kB] Fetched 26.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprxn6cz5p/python3-dev_3.11.1-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libbinutils amd64 2.39.90.20230110-1 [573 kB] Fetched 573 kB in 0s (38.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpytvtcj2i/libbinutils_2.39.90.20230110-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 xfonts-utils amd64 1:7.7+6 [93.0 kB] Fetched 93.0 kB in 0s (7853 kB/s) dpkg-name: info: moved 'xfonts-utils_1%3a7.7+6_amd64.deb' to '/srv/rebuilderd/tmp/tmpzffrbype/xfonts-utils_7.7+6_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 dh-python all 5.20230109 [103 kB] Fetched 103 kB in 0s (9327 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplqqzdz81/dh-python_5.20230109_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 debconf all 1.5.82 [121 kB] Fetched 121 kB in 0s (11.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpd0axghy1/debconf_1.5.82_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20230112T090754Z sid/main amd64 libjpeg62-turbo amd64 1:2.1.2-1+b1 [169 kB] Fetched 169 kB in 0s (14.6 MB/s) dpkg-name: info: moved 'libjpeg62-turbo_1%3a2.1.2-1+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmpedpuvxio/libjpeg62-turbo_2.1.2-1+b1_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-buildpackage: info: host architecture amd64 dpkg-source --before-build . 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/tmp1wd2m2ze/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.c86paR9r_t as tempdir I: running --setup-hook directly: /usr/share/mmdebstrap/hooks/maybe-merged-usr/setup00.sh /srv/rebuilderd/tmp/mmdebstrap.c86paR9r_t 127.0.0.1 - - [02/Oct/2025 07:11:38] code 404, message File not found 127.0.0.1 - - [02/Oct/2025 07:11:38] "GET /./InRelease HTTP/1.1" 404 - Ign:1 http://localhost:39357 ./ InRelease 127.0.0.1 - - [02/Oct/2025 07:11:38] "GET /./Release HTTP/1.1" 200 - Get:2 http://localhost:39357 ./ Release [462 B] 127.0.0.1 - - [02/Oct/2025 07:11:38] code 404, message File not found 127.0.0.1 - - [02/Oct/2025 07:11:38] "GET /./Release.gpg HTTP/1.1" 404 - Ign:3 http://localhost:39357 ./ Release.gpg 127.0.0.1 - - [02/Oct/2025 07:11:38] "GET /./Packages HTTP/1.1" 200 - Get:4 http://localhost:39357 ./ Packages [307 kB] Fetched 307 kB in 0s (9617 kB/s) Reading package lists... usr-is-merged found -- running merged-usr setup hook dpkg-deb: building package 'usr-is-merged' in '/srv/rebuilderd/tmp/mmdebstrap.c86paR9r_t/tmp/tmp.f0GNjQ8NSJ/usr-is-merged.deb'. Selecting previously unselected package usr-is-merged. (Reading database ... 0 files and directories currently installed.) Preparing to unpack .../usr-is-merged.deb ... Unpacking usr-is-merged (1) ... touch: cannot touch '/run/needrestart/unpacked': Permission denied Setting up usr-is-merged (1) ... I: skipping apt-get update because it was already run I: downloading packages with apt... 127.0.0.1 - - [02/Oct/2025 07:11:38] "GET /./gcc-12-base_12.2.0-14_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [02/Oct/2025 07:11:38] "GET /./libc6_2.36-8_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [02/Oct/2025 07:11:38] "GET /./libgcc-s1_12.2.0-14_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [02/Oct/2025 07:11:38] "GET /./mawk_1.3.4.20200120-3.1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [02/Oct/2025 07:11:38] "GET /./base-files_12.3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [02/Oct/2025 07:11:38] "GET /./libtinfo6_6.4-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [02/Oct/2025 07:11:38] "GET /./debianutils_5.7-0.4_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [02/Oct/2025 07:11:38] "GET /./bash_5.2.15-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [02/Oct/2025 07:11:38] "GET /./libcap2_2.66-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [02/Oct/2025 07:11:38] "GET /./libgpg-error0_1.46-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [02/Oct/2025 07:11:38] "GET /./libgcrypt20_1.10.1-3_amd64.deb HTTP/1.1" 200 - 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I: running --extract-hook directly: /usr/share/mmdebstrap/hooks/maybe-merged-usr/extract00.sh /srv/rebuilderd/tmp/mmdebstrap.c86paR9r_t 127.0.0.1 - - [02/Oct/2025 07:11:40] code 404, message File not found 127.0.0.1 - - [02/Oct/2025 07:11:40] "GET /./InRelease HTTP/1.1" 404 - Ign:1 http://localhost:39357 ./ InRelease 127.0.0.1 - - [02/Oct/2025 07:11:40] "GET /./Release HTTP/1.1" 304 - Hit:2 http://localhost:39357 ./ Release 127.0.0.1 - - [02/Oct/2025 07:11:40] code 404, message File not found 127.0.0.1 - - [02/Oct/2025 07:11:40] "GET /./Release.gpg HTTP/1.1" 404 - Ign:3 http://localhost:39357 ./ Release.gpg Reading package lists... usr-is-merged found -- 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.c86paR9r_t dummy usr-is-merged package installed -- running merged-usr essential hook Reading package lists... Building dependency tree... 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127.0.0.1 - - [02/Oct/2025 07:11:48] "GET /./python3-pythran_0.11.0%2bds-7_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [02/Oct/2025 07:11:48] "GET /./python3-scipy_1.8.1-20_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [02/Oct/2025 07:11:49] "GET /./dh-python_5.20230109_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [02/Oct/2025 07:11:49] "GET /./debootsnap-dummy_1.0_all.deb HTTP/1.1" 200 - I: running --customize-hook directly: /srv/rebuilderd/tmp/tmp1wd2m2ze/apt_install.sh /srv/rebuilderd/tmp/mmdebstrap.c86paR9r_t Reading package lists... Building dependency tree... Reading state information... libfile-find-rule-perl is already the newest version (0.34-3). libfile-find-rule-perl set to manually installed. python3-distutils is already the newest version (3.10.8-1). python3-distutils set to manually installed. dpkg is already the newest version (1.21.18). libmpfr6 is already the newest version (4.1.1-3). libmpfr6 set to manually installed. libexpat1-dev is already the newest version (2.5.0-1). libexpat1-dev set to manually installed. w3c-sgml-lib is already the newest version (1.3-3). w3c-sgml-lib set to manually installed. libmpdec3 is already the newest version (2.5.1-2). libmpdec3 set to manually installed. libfontenc1 is already the newest version (1:1.1.4-1). libfontenc1 set to manually installed. libfile-stripnondeterminism-perl is already the newest version (1.13.0-2). libfile-stripnondeterminism-perl set to manually installed. libpam-modules-bin is already the newest version (1.5.2-6). python3-pkg-resources is already the newest version (65.6.3-1). python3-pkg-resources set to manually installed. libtool is already the newest version (2.4.7-5). libtool set to manually installed. ncurses-bin is already the newest version (6.4-1). python3-reportlab-accel is already the newest version (3.6.12-1). python3-reportlab-accel set to manually installed. libssl3 is already the newest version (3.0.7-1). libssl3 set to manually installed. patch is already the newest version (2.7.6-7). patch set to manually installed. xz-utils is already the newest version (5.4.0-0.1). xz-utils set to manually installed. zlib1g-dev is already the newest version (1:1.2.13.dfsg-1). zlib1g-dev set to manually installed. libmagic1 is already the newest version (1:5.44-1). libmagic1 set to manually installed. sensible-utils is already the newest version (0.0.17). sensible-utils set to manually installed. libpam-modules is already the newest version (1.5.2-6). gettext is already the newest version (0.21-10). gettext set to manually installed. ncurses-base is already the newest version (6.4-1). libkrb5support0 is already the newest version (1.20.1-1). libkrb5support0 set to manually installed. libcc1-0 is already the newest version (12.2.0-14). libcc1-0 set to manually installed. python3-biopython is already the newest version (1.80+dfsg-4). python3-biopython set to manually installed. libcrypt-dev is already the newest version (1:4.4.33-2). libcrypt-dev set to manually installed. python3.10-minimal is already the newest version (3.10.9-1). python3.10-minimal set to manually installed. libxau6 is already the newest version (1:1.0.9-1). libxau6 set to manually installed. python3.11-minimal is already the newest version (3.11.1-2). python3.11-minimal set to manually installed. xfonts-encodings is already the newest version (1:1.0.4-2.1). xfonts-encodings set to manually installed. libpython3.10-stdlib is already the newest version (3.10.9-1). libpython3.10-stdlib set to manually installed. libuuid1 is already the newest version (2.38.1-4). gcc-12 is already the newest version (12.2.0-14). gcc-12 set to manually installed. liblzma5 is already the newest version (5.4.0-0.1). libisl23 is already the newest version (0.25-1). libisl23 set to manually installed. libopenblas-dev is already the newest version (0.3.21+ds-4). libopenblas-dev set to manually installed. base-passwd is already the newest version (3.6.1). gcc is already the newest version (4:12.2.0-3). gcc set to manually installed. mawk is already the newest version (1.3.4.20200120-3.1). libjbig0 is already the newest version (2.1-6.1). libjbig0 set to manually installed. libdebhelper-perl is already the newest version (13.11.4). libdebhelper-perl set to manually installed. media-types is already the newest version (8.0.0). media-types set to manually installed. python3-beniget is already the newest version (0.4.1-3). python3-beniget set to manually installed. python3.10 is already the newest version (3.10.9-1). python3.10 set to manually installed. usr-is-merged is already the newest version (35). libgfortran5 is already the newest version (12.2.0-14). libgfortran5 set to manually installed. libxsimd-dev is already the newest version (8.1.0-7). libxsimd-dev set to manually installed. python3.11-dev is already the newest version (3.11.1-2). python3.11-dev set to manually installed. bzip2 is already the newest version (1.0.8-5+b1). bzip2 set to manually installed. libk5crypto3 is already the newest version (1.20.1-1). libk5crypto3 set to manually installed. libgomp1 is already the newest version (12.2.0-14). libgomp1 set to manually installed. linux-libc-dev is already the newest version (6.1.4-1). linux-libc-dev set to manually installed. libatomic1 is already the newest version (12.2.0-14). libatomic1 set to manually installed. mime-support is already the newest version (3.66). mime-support set to manually installed. libdpkg-perl is already the newest version (1.21.18). libdpkg-perl set to manually installed. libxdmcp6 is already the newest version (1:1.1.2-3). libxdmcp6 set to manually installed. libelf1 is already the newest version (0.188-2). libelf1 set to manually installed. libkeyutils1 is already the newest version (1.6.3-2). libkeyutils1 set to manually installed. libwebp7 is already the newest version (1.2.2-2+b3). libwebp7 set to manually installed. libnsl2 is already the newest version (1.3.0-2). libnsl2 set to manually installed. file is already the newest version (1:5.44-1). file set to manually installed. libpython3.11-minimal is already the newest version (3.11.1-2). libpython3.11-minimal set to manually installed. autoconf is already the newest version (2.71-2). autoconf set to manually installed. dh-autoreconf is already the newest version (20). dh-autoreconf set to manually installed. python3.11 is already the newest version (3.11.1-2). python3.11 set to manually installed. libsystemd0 is already the newest version (252.4-1). libjs-underscore is already the newest version (1.13.4~dfsg+~1.11.4-3). libjs-underscore set to manually installed. libacl1 is already the newest version (2.3.1-2). python3-setuptools is already the newest version (65.6.3-1). python3-setuptools set to manually installed. libffi8 is already the newest version (3.4.4-1). libffi8 set to manually installed. libcap-ng0 is already the newest version (0.8.3-1+b2). libdeflate0 is already the newest version (1.14-1). libdeflate0 set to manually installed. libcom-err2 is already the newest version (1.46.6~rc1-1+b1). libcom-err2 set to manually installed. libc-dev-bin is already the newest version (2.36-8). libc-dev-bin set to manually installed. libgpg-error0 is already the newest version (1.46-1). libharfbuzz0b is already the newest version (6.0.0-1). libharfbuzz0b set to manually installed. libxcb1 is already the newest version (1.15-1). libxcb1 set to manually installed. libpython3.10-dev is already the newest version (3.10.9-1). libpython3.10-dev set to manually installed. libboost1.74-dev is already the newest version (1.74.0-18.1). libboost1.74-dev set to manually installed. build-essential is already the newest version (12.9). build-essential set to manually installed. libfribidi0 is already the newest version (1.0.8-2.1). libfribidi0 set to manually installed. coreutils is already the newest version (9.1-1). python3-pil is already the newest version (9.4.0-1). python3-pil set to manually installed. sysvinit-utils is already the newest version (3.06-2). base-files is already the newest version (12.3). libpython3.11-stdlib is already the newest version (3.11.1-2). libpython3.11-stdlib set to manually installed. libcrypt1 is already the newest version (1:4.4.33-2). liblapack3 is already the newest version (3.11.0-2). liblapack3 set to manually installed. libtinfo6 is already the newest version (6.4-1). libtirpc3 is already the newest version (1.3.3+ds-1). libtirpc3 set to manually installed. liblsan0 is already the newest version (12.2.0-14). liblsan0 set to manually installed. python3-all is already the newest version (3.11.1-1). python3-all set to manually installed. libselinux1 is already the newest version (3.4-1+b4). sed is already the newest version (4.9-1). libnumber-compare-perl is already the newest version (0.03-3). libnumber-compare-perl set to manually installed. dash is already the newest version (0.5.12-2). libbsd0 is already the newest version (0.11.7-1). libbsd0 set to manually installed. libpng16-16 is already the newest version (1.6.39-2). libpng16-16 set to manually installed. libzstd1 is already the newest version (1.5.2+dfsg2-3). python3-lib2to3 is already the newest version (3.10.8-1). python3-lib2to3 set to manually installed. login is already the newest version (1:4.13+dfsg1-1). libncursesw6 is already the newest version (6.4-1). libncursesw6 set to manually installed. libgcc-s1 is already the newest version (12.2.0-14). libgmp10 is already the newest version (2:6.2.1+dfsg1-1.1). g++ is already the newest version (4:12.2.0-3). g++ set to manually installed. libbrotli1 is already the newest version (1.0.9-2+b5). libbrotli1 set to manually installed. libseccomp2 is already the newest version (2.5.4-1+b2). libseccomp2 set to manually installed. libicu72 is already the newest version (72.1-3). libicu72 set to manually installed. cpp-12 is already the newest version (12.2.0-14). cpp-12 set to manually installed. libblkid1 is already the newest version (2.38.1-4). libudev1 is already the newest version (252.4-1). libtext-glob-perl is already the newest version (0.11-3). libtext-glob-perl set to manually installed. groff-base is already the newest version (1.22.4-9). groff-base set to manually installed. fonts-urw-base35 is already the newest version (20200910-6). fonts-urw-base35 set to manually installed. libpython3-all-dev is already the newest version (3.11.1-1). libpython3-all-dev set to manually installed. libgdbm6 is already the newest version (1.23-3). libgdbm6 set to manually installed. libmd0 is already the newest version (1.0.4-2). libpython3-dev is already the newest version (3.11.1-1). libpython3-dev set to manually installed. libstdc++6 is already the newest version (12.2.0-14). libstdc++6 set to manually installed. libxml2 is already the newest version (2.9.14+dfsg-1.1+b2). libxml2 set to manually installed. python3-renderpm is already the newest version (3.6.12-1). python3-renderpm set to manually installed. libgcc-12-dev is already the newest version (12.2.0-14). libgcc-12-dev set to manually installed. python3-reportlab is already the newest version (3.6.12-1). python3-reportlab set to manually installed. bash is already the newest version (5.2.15-2). libitm1 is already the newest version (12.2.0-14). libitm1 set to manually installed. libopenblas-pthread-dev is already the newest version (0.3.21+ds-4). libopenblas-pthread-dev set to manually installed. libsqlite3-0 is already the newest version (3.40.1-1). libsqlite3-0 set to manually installed. python3-minimal is already the newest version (3.11.1-1). python3-minimal set to manually installed. libraqm0 is already the newest version (0.7.0-4). libraqm0 set to manually installed. libjansson4 is already the newest version (2.14-2). libjansson4 set to manually installed. libmpc3 is already the newest version (1.3.1-1). libmpc3 set to manually installed. libasan8 is already the newest version (12.2.0-14). libasan8 set to manually installed. libopenblas0 is already the newest version (0.3.21+ds-4). libopenblas0 set to manually installed. libblas3 is already the newest version (3.11.0-2). libblas3 set to manually installed. python3-numpy is already the newest version (1:1.24.1-2). python3-numpy set to manually installed. bsdutils is already the newest version (1:2.38.1-4). libaudit-common is already the newest version (1:3.0.7-1.1). libopenblas0-pthread is already the newest version (0.3.21+ds-4). libopenblas0-pthread set to manually installed. libkrb5-3 is already the newest version (1.20.1-1). libkrb5-3 set to manually installed. libsub-override-perl is already the newest version (0.09-4). libsub-override-perl set to manually installed. libtirpc-common is already the newest version (1.3.3+ds-1). libtirpc-common set to manually installed. readline-common is already the newest version (8.2-1.2). readline-common set to manually installed. x11-common is already the newest version (1:7.7+23). x11-common set to manually installed. python3.10-dev is already the newest version (3.10.9-1). python3.10-dev set to manually installed. libpython3.10-minimal is already the newest version (3.10.9-1). libpython3.10-minimal set to manually installed. libgdbm-compat4 is already the newest version (1.23-3). libgdbm-compat4 set to manually installed. intltool-debian is already the newest version (0.35.0+20060710.6). intltool-debian set to manually installed. libgraphite2-3 is already the newest version (1.3.14-1). libgraphite2-3 set to manually installed. python3-gast is already the newest version (0.5.2-2). python3-gast set to manually installed. sgml-base is already the newest version (1.31). sgml-base set to manually installed. python3-ply is already the newest version (3.11-5). python3-ply set to manually installed. libopenjp2-7 is already the newest version (2.5.0-1). libopenjp2-7 set to manually installed. python3-pyparsing is already the newest version (3.0.9-1). python3-pyparsing set to manually installed. binutils-x86-64-linux-gnu is already the newest version (2.39.90.20230110-1). binutils-x86-64-linux-gnu set to manually installed. libpam-runtime is already the newest version (1.5.2-6). libc6-dev is already the newest version (2.36-8). libc6-dev set to manually installed. grep is already the newest version (3.8-3). init-system-helpers is already the newest version (1.65.2). python3-decorator is already the newest version (5.1.1-3). python3-decorator set to manually installed. libpcre2-8-0 is already the newest version (10.42-1). libgprofng0 is already the newest version (2.39.90.20230110-1). libgprofng0 set to manually installed. hostname is already the newest version (3.23+nmu1). liblz4-1 is already the newest version (1.9.4-1). libtirpc-dev is already the newest version (1.3.3+ds-1). libtirpc-dev set to manually installed. make is already the newest version (4.3-4.1). make set to manually installed. libpython3.10 is already the newest version (3.10.9-1). libpython3.10 set to manually installed. dh-strip-nondeterminism is already the newest version (1.13.0-2). dh-strip-nondeterminism set to manually installed. libgssapi-krb5-2 is already the newest version (1.20.1-1). libgssapi-krb5-2 set to manually installed. python3-all-dev is already the newest version (3.11.1-1). python3-all-dev set to manually installed. python3 is already the newest version (3.11.1-1). python3 set to manually installed. liblbfgsb0 is already the newest version (3.0+dfsg.3-11). liblbfgsb0 set to manually installed. libpython3.11-dev is already the newest version (3.11.1-2). libpython3.11-dev set to manually installed. liblcms2-2 is already the newest version (2.14-1+b1). liblcms2-2 set to manually installed. libwebpmux3 is already the newest version (1.2.2-2+b3). libwebpmux3 set to manually installed. libquadmath0 is already the newest version (12.2.0-14). libquadmath0 set to manually installed. debianutils is already the newest version (5.7-0.4). dpkg-dev is already the newest version (1.21.18). dpkg-dev set to manually installed. libctf-nobfd0 is already the newest version (2.39.90.20230110-1). libctf-nobfd0 set to manually installed. libcap2 is already the newest version (1:2.66-3). libbz2-1.0 is already the newest version (1.0.8-5+b1). libaudit1 is already the newest version (1:3.0.7-1.1+b2). libjs-jquery is already the newest version (3.6.1+dfsg+~3.5.14-1). libjs-jquery set to manually installed. libreadline8 is already the newest version (8.2-1.2). libreadline8 set to manually installed. gzip is already the newest version (1.12-1). libc6 is already the newest version (2.36-8). po-debconf is already the newest version (1.0.21+nmu1). po-debconf set to manually installed. libsmartcols1 is already the newest version (2.38.1-4). libpython3.11 is already the newest version (3.11.1-2). libpython3.11 set to manually installed. libgcrypt20 is already the newest version (1.10.1-3). libpam0g is already the newest version (1.5.2-6). python3-pythran is already the newest version (0.11.0+ds-7). python3-pythran set to manually installed. bsdextrautils is already the newest version (2.38.1-4). bsdextrautils set to manually installed. libpipeline1 is already the newest version (1.5.7-1). libpipeline1 set to manually installed. automake is already the newest version (1:1.16.5-1.3). automake set to manually installed. liblerc4 is already the newest version (4.0.0+ds-2). liblerc4 set to manually installed. libubsan1 is already the newest version (12.2.0-14). libubsan1 set to manually installed. diffutils is already the newest version (1:3.8-3). tar is already the newest version (1.34+dfsg-1.1). libwebpdemux2 is already the newest version (1.2.2-2+b3). libwebpdemux2 set to manually installed. libtiff5 is already the newest version (4.4.0-6). libtiff5 set to manually installed. rpcsvc-proto is already the newest version (1.4.3-1). rpcsvc-proto set to manually installed. libperl5.36 is already the newest version (5.36.0-7). libperl5.36 set to manually installed. libpython3-stdlib is already the newest version (3.11.1-1). libpython3-stdlib set to manually installed. binutils is already the newest version (2.39.90.20230110-1). binutils set to manually installed. cpp is already the newest version (4:12.2.0-3). cpp set to manually installed. zlib1g is already the newest version (1:1.2.13.dfsg-1). dwz is already the newest version (0.15-1). dwz set to manually installed. libimagequant0 is already the newest version (2.17.0-1). libimagequant0 set to manually installed. binutils-common is already the newest version (2.39.90.20230110-1). binutils-common set to manually installed. perl-base is already the newest version (5.36.0-7). perl-modules-5.36 is already the newest version (5.36.0-7). perl-modules-5.36 set to manually installed. xml-core is already the newest version (0.18+nmu1). xml-core set to manually installed. perl is already the newest version (5.36.0-7). perl set to manually installed. python3-scipy is already the newest version (1.8.1-20). python3-scipy set to manually installed. libglib2.0-0 is already the newest version (2.74.4-1). libglib2.0-0 set to manually installed. libunistring2 is already the newest version (1.0-2). libunistring2 set to manually installed. libdb5.3 is already the newest version (5.3.28+dfsg1-0.10). libtsan2 is already the newest version (12.2.0-14). libtsan2 set to manually installed. gcc-12-base is already the newest version (12.2.0-14). usrmerge is already the newest version (35). usrmerge set to manually installed. libattr1 is already the newest version (1:2.5.1-3). libboost-dev is already the newest version (1.74.0.3). libboost-dev set to manually installed. util-linux-extra is already the newest version (2.38.1-4). libc-bin is already the newest version (2.36-8). autopoint is already the newest version (0.21-10). autopoint set to manually installed. findutils is already the newest version (4.9.0-4). libarchive-zip-perl is already the newest version (1.68-1). libarchive-zip-perl set to manually installed. libuchardet0 is already the newest version (0.0.7-1). libuchardet0 set to manually installed. m4 is already the newest version (1.4.19-2). m4 set to manually installed. libfreetype6 is already the newest version (2.12.1+dfsg-3). libfreetype6 set to manually installed. libexpat1 is already the newest version (2.5.0-1). libexpat1 set to manually installed. libmagic-mgc is already the newest version (1:5.44-1). libmagic-mgc set to manually installed. libmount1 is already the newest version (2.38.1-4). debhelper is already the newest version (13.11.4). debhelper set to manually installed. libdebconfclient0 is already the newest version (0.266). g++-12 is already the newest version (12.2.0-14). g++-12 set to manually installed. util-linux is already the newest version (2.38.1-4). libjs-sphinxdoc is already the newest version (5.3.0-2). libjs-sphinxdoc set to manually installed. libstdc++-12-dev is already the newest version (12.2.0-14). libstdc++-12-dev set to manually installed. man-db is already the newest version (2.11.2-1). man-db set to manually installed. autotools-dev is already the newest version (20220109.1). autotools-dev set to manually installed. libctf0 is already the newest version (2.39.90.20230110-1). libctf0 set to manually installed. libnsl-dev is already the newest version (1.3.0-2). libnsl-dev set to manually installed. gettext-base is already the newest version (0.21-10). gettext-base set to manually installed. mailcap is already the newest version (3.70+nmu1). mailcap set to manually installed. python3-dev is already the newest version (3.11.1-1). python3-dev set to manually installed. libbinutils is already the newest version (2.39.90.20230110-1). libbinutils set to manually installed. xfonts-utils is already the newest version (1:7.7+6). xfonts-utils set to manually installed. dh-python is already the newest version (5.20230109). dh-python set to manually installed. debconf is already the newest version (1.5.82). libjpeg62-turbo is already the newest version (1:2.1.2-1+b1). libjpeg62-turbo 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.c86paR9r_t (Reading database ... 36641 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.c86paR9r_t I: running special hook: download /pkglist ./pkglist I: running --customize-hook in shell: sh -c 'rm "$1/pkglist"' exec /srv/rebuilderd/tmp/mmdebstrap.c86paR9r_t I: running special hook: upload sources.list /etc/apt/sources.list I: waiting for background processes to finish... I: PID 5499 exited with exit code 0 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.c86paR9r_t... 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libctf-nobfd0:amd64=2.39.90.20230110-1 Downloading dependency 180 of 252: libcap2:amd64=1:2.66-3 Downloading dependency 181 of 252: libbz2-1.0:amd64=1.0.8-5+b1 Downloading dependency 182 of 252: libaudit1:amd64=1:3.0.7-1.1+b2 Downloading dependency 183 of 252: libjs-jquery:amd64=3.6.1+dfsg+~3.5.14-1 Downloading dependency 184 of 252: libreadline8:amd64=8.2-1.2 Downloading dependency 185 of 252: gzip:amd64=1.12-1 Downloading dependency 186 of 252: libc6:amd64=2.36-8 Downloading dependency 187 of 252: po-debconf:amd64=1.0.21+nmu1 Downloading dependency 188 of 252: libsmartcols1:amd64=2.38.1-4 Downloading dependency 189 of 252: libpython3.11:amd64=3.11.1-2 Downloading dependency 190 of 252: libgcrypt20:amd64=1.10.1-3 Downloading dependency 191 of 252: libpam0g:amd64=1.5.2-6 Downloading dependency 192 of 252: python3-pythran:amd64=0.11.0+ds-7 Downloading dependency 193 of 252: bsdextrautils:amd64=2.38.1-4 Downloading dependency 194 of 252: libpipeline1:amd64=1.5.7-1 Downloading dependency 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211 of 252: perl-base:amd64=5.36.0-7 Downloading dependency 212 of 252: perl-modules-5.36:amd64=5.36.0-7 Downloading dependency 213 of 252: xml-core:amd64=0.18+nmu1 Downloading dependency 214 of 252: perl:amd64=5.36.0-7 Downloading dependency 215 of 252: python3-scipy:amd64=1.8.1-20 Downloading dependency 216 of 252: libglib2.0-0:amd64=2.74.4-1 Downloading dependency 217 of 252: libunistring2:amd64=1.0-2 Downloading dependency 218 of 252: libdb5.3:amd64=5.3.28+dfsg1-0.10 Downloading dependency 219 of 252: libtsan2:amd64=12.2.0-14 Downloading dependency 220 of 252: gcc-12-base:amd64=12.2.0-14 Downloading dependency 221 of 252: usrmerge:amd64=35 Downloading dependency 222 of 252: libattr1:amd64=1:2.5.1-3 Downloading dependency 223 of 252: libboost-dev:amd64=1.74.0.3 Downloading dependency 224 of 252: util-linux-extra:amd64=2.38.1-4 Downloading dependency 225 of 252: libc-bin:amd64=2.36-8 Downloading dependency 226 of 252: autopoint:amd64=0.21-10 Downloading dependency 227 of 252: findutils:amd64=4.9.0-4 Downloading dependency 228 of 252: libarchive-zip-perl:amd64=1.68-1 Downloading dependency 229 of 252: libuchardet0:amd64=0.0.7-1 Downloading dependency 230 of 252: m4:amd64=1.4.19-2 Downloading dependency 231 of 252: libfreetype6:amd64=2.12.1+dfsg-3 Downloading dependency 232 of 252: libexpat1:amd64=2.5.0-1 Downloading dependency 233 of 252: libmagic-mgc:amd64=1:5.44-1 Downloading dependency 234 of 252: libmount1:amd64=2.38.1-4 Downloading dependency 235 of 252: debhelper:amd64=13.11.4 Downloading dependency 236 of 252: libdebconfclient0:amd64=0.266 Downloading dependency 237 of 252: g++-12:amd64=12.2.0-14 Downloading dependency 238 of 252: util-linux:amd64=2.38.1-4 Downloading dependency 239 of 252: libjs-sphinxdoc:amd64=5.3.0-2 Downloading dependency 240 of 252: libstdc++-12-dev:amd64=12.2.0-14 Downloading dependency 241 of 252: man-db:amd64=2.11.2-1 Downloading dependency 242 of 252: autotools-dev:amd64=20220109.1 Downloading dependency 243 of 252: libctf0:amd64=2.39.90.20230110-1 Downloading dependency 244 of 252: libnsl-dev:amd64=1.3.0-2 Downloading dependency 245 of 252: gettext-base:amd64=0.21-10 Downloading dependency 246 of 252: mailcap:amd64=3.70+nmu1 Downloading dependency 247 of 252: python3-dev:amd64=3.11.1-1 Downloading dependency 248 of 252: libbinutils:amd64=2.39.90.20230110-1 Downloading dependency 249 of 252: xfonts-utils:amd64=1:7.7+6 Downloading dependency 250 of 252: dh-python:amd64=5.20230109 Downloading dependency 251 of 252: debconf:amd64=1.5.82 Downloading dependency 252 of 252: libjpeg62-turbo:amd64=1:2.1.2-1+b1 env --chdir=/srv/rebuilderd/tmp/rebuilderdZ6eYHp/out DEB_BUILD_OPTIONS=parallel=4 LANG=C.UTF-8 LC_ALL=C.UTF-8 LC_COLLATE=C.UTF-8 SOURCE_DATE_EPOCH=1673521696 SBUILD_CONFIG=/srv/rebuilderd/tmp/debrebuildUAkZ2a/debrebuild.sbuildrc.beOVllDVU90z sbuild --build=amd64 --host=amd64 --no-source --no-arch-any --arch-all --chroot=/srv/rebuilderd/tmp/debrebuildUAkZ2a/debrebuild.tar.3aS3hsTqyrHQ --chroot-mode=unshare --dist=unstable --no-run-lintian --no-run-piuparts --no-run-autopkgtest --no-apt-update --no-apt-upgrade --no-apt-distupgrade --starting-build-commands=grep -iq "^Rules-Requires-Root:" "%p/debian/control" || sed -i "1iRules-Requires-Root: no" "%p/debian/control" --verbose --nolog --bd-uninstallable-explainer= --build-path=/build/prody-0QIvue --dsc-dir=prody-2.3.1+dfsg /srv/rebuilderd/tmp/rebuilderdZ6eYHp/inputs/prody_2.3.1+dfsg-3.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+deb13u1 (16 August 2025) on ionos24-amd64.debian.net +==============================================================================+ | prody 2.3.1+dfsg-3 (amd64) Thu, 02 Oct 2025 07:13:40 +0000 | +==============================================================================+ Package: prody Version: 2.3.1+dfsg-3 Source Version: 2.3.1+dfsg-3 Distribution: unstable Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 Build Type: all I: No tarballs found in /srv/rebuilderd/.cache/sbuild I: Unpacking /srv/rebuilderd/tmp/debrebuildUAkZ2a/debrebuild.tar.3aS3hsTqyrHQ to /srv/rebuilderd/tmp/tmp.sbuild.iWZ6tmV14n... I: Setting up the chroot... I: Creating chroot session... I: Setting up log color... I: Setting up apt archive... +------------------------------------------------------------------------------+ | Fetch source files Thu, 02 Oct 2025 07:13:47 +0000 | +------------------------------------------------------------------------------+ Local sources ------------- /srv/rebuilderd/tmp/rebuilderdZ6eYHp/inputs/prody_2.3.1+dfsg-3.dsc exists in /srv/rebuilderd/tmp/rebuilderdZ6eYHp/inputs; copying to chroot +------------------------------------------------------------------------------+ | Install package build dependencies Thu, 02 Oct 2025 07:13:48 +0000 | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), dh-python, python3-all-dev, python3-biopython, python3-numpy, python3-pyparsing, python3-scipy, python3-setuptools, build-essential Filtered Build-Depends: debhelper-compat (= 13), dh-python, python3-all-dev, python3-biopython, python3-numpy, python3-pyparsing, python3-scipy, python3-setuptools, build-essential dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/build/prody-0QIvue/resolver-wtM9FT/apt_archive/sbuild-build-depends-main-dummy.deb'. Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies +------------------------------------------------------------------------------+ | Check architectures Thu, 02 Oct 2025 07:13:52 +0000 | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in any all) +------------------------------------------------------------------------------+ | Build environment Thu, 02 Oct 2025 07:13:53 +0000 | +------------------------------------------------------------------------------+ Kernel: Linux 6.12.48+deb13-cloud-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.48-1 (2025-09-20) amd64 (x86_64) Toolchain package versions: binutils_2.39.90.20230110-1 dpkg-dev_1.21.18 g++-12_12.2.0-14 gcc-12_12.2.0-14 libc6-dev_2.36-8 libstdc++-12-dev_12.2.0-14 libstdc++6_12.2.0-14 linux-libc-dev_6.1.4-1 Package versions: autoconf_2.71-2 automake_1:1.16.5-1.3 autopoint_0.21-10 autotools-dev_20220109.1 base-files_12.3 base-passwd_3.6.1 bash_5.2.15-2 binutils_2.39.90.20230110-1 binutils-common_2.39.90.20230110-1 binutils-x86-64-linux-gnu_2.39.90.20230110-1 bsdextrautils_2.38.1-4 bsdutils_1:2.38.1-4 build-essential_12.9 bzip2_1.0.8-5+b1 coreutils_9.1-1 cpp_4:12.2.0-3 cpp-12_12.2.0-14 dash_0.5.12-2 debconf_1.5.82 debhelper_13.11.4 debianutils_5.7-0.4 dh-autoreconf_20 dh-python_5.20230109 dh-strip-nondeterminism_1.13.0-2 diffutils_1:3.8-3 dpkg_1.21.18 dpkg-dev_1.21.18 dwz_0.15-1 file_1:5.44-1 findutils_4.9.0-4 fonts-urw-base35_20200910-6 g++_4:12.2.0-3 g++-12_12.2.0-14 gcc_4:12.2.0-3 gcc-12_12.2.0-14 gcc-12-base_12.2.0-14 gettext_0.21-10 gettext-base_0.21-10 grep_3.8-3 groff-base_1.22.4-9 gzip_1.12-1 hostname_3.23+nmu1 init-system-helpers_1.65.2 intltool-debian_0.35.0+20060710.6 libacl1_2.3.1-2 libarchive-zip-perl_1.68-1 libasan8_12.2.0-14 libatomic1_12.2.0-14 libattr1_1:2.5.1-3 libaudit-common_1:3.0.7-1.1 libaudit1_1:3.0.7-1.1+b2 libbinutils_2.39.90.20230110-1 libblas3_3.11.0-2 libblkid1_2.38.1-4 libboost-dev_1.74.0.3 libboost1.74-dev_1.74.0-18.1 libbrotli1_1.0.9-2+b5 libbsd0_0.11.7-1 libbz2-1.0_1.0.8-5+b1 libc-bin_2.36-8 libc-dev-bin_2.36-8 libc6_2.36-8 libc6-dev_2.36-8 libcap-ng0_0.8.3-1+b2 libcap2_1:2.66-3 libcc1-0_12.2.0-14 libcom-err2_1.46.6~rc1-1+b1 libcrypt-dev_1:4.4.33-2 libcrypt1_1:4.4.33-2 libctf-nobfd0_2.39.90.20230110-1 libctf0_2.39.90.20230110-1 libdb5.3_5.3.28+dfsg1-0.10 libdebconfclient0_0.266 libdebhelper-perl_13.11.4 libdeflate0_1.14-1 libdpkg-perl_1.21.18 libelf1_0.188-2 libexpat1_2.5.0-1 libexpat1-dev_2.5.0-1 libffi8_3.4.4-1 libfile-find-rule-perl_0.34-3 libfile-stripnondeterminism-perl_1.13.0-2 libfontenc1_1:1.1.4-1 libfreetype6_2.12.1+dfsg-3 libfribidi0_1.0.8-2.1 libgcc-12-dev_12.2.0-14 libgcc-s1_12.2.0-14 libgcrypt20_1.10.1-3 libgdbm-compat4_1.23-3 libgdbm6_1.23-3 libgfortran5_12.2.0-14 libglib2.0-0_2.74.4-1 libgmp10_2:6.2.1+dfsg1-1.1 libgomp1_12.2.0-14 libgpg-error0_1.46-1 libgprofng0_2.39.90.20230110-1 libgraphite2-3_1.3.14-1 libgssapi-krb5-2_1.20.1-1 libharfbuzz0b_6.0.0-1 libicu72_72.1-3 libimagequant0_2.17.0-1 libisl23_0.25-1 libitm1_12.2.0-14 libjansson4_2.14-2 libjbig0_2.1-6.1 libjpeg62-turbo_1:2.1.2-1+b1 libjs-jquery_3.6.1+dfsg+~3.5.14-1 libjs-sphinxdoc_5.3.0-2 libjs-underscore_1.13.4~dfsg+~1.11.4-3 libk5crypto3_1.20.1-1 libkeyutils1_1.6.3-2 libkrb5-3_1.20.1-1 libkrb5support0_1.20.1-1 liblapack3_3.11.0-2 liblbfgsb0_3.0+dfsg.3-11 liblcms2-2_2.14-1+b1 liblerc4_4.0.0+ds-2 liblsan0_12.2.0-14 liblz4-1_1.9.4-1 liblzma5_5.4.0-0.1 libmagic-mgc_1:5.44-1 libmagic1_1:5.44-1 libmd0_1.0.4-2 libmount1_2.38.1-4 libmpc3_1.3.1-1 libmpdec3_2.5.1-2 libmpfr6_4.1.1-3 libncursesw6_6.4-1 libnsl-dev_1.3.0-2 libnsl2_1.3.0-2 libnumber-compare-perl_0.03-3 libopenblas-dev_0.3.21+ds-4 libopenblas-pthread-dev_0.3.21+ds-4 libopenblas0_0.3.21+ds-4 libopenblas0-pthread_0.3.21+ds-4 libopenjp2-7_2.5.0-1 libpam-modules_1.5.2-6 libpam-modules-bin_1.5.2-6 libpam-runtime_1.5.2-6 libpam0g_1.5.2-6 libpcre2-8-0_10.42-1 libperl5.36_5.36.0-7 libpipeline1_1.5.7-1 libpng16-16_1.6.39-2 libpython3-all-dev_3.11.1-1 libpython3-dev_3.11.1-1 libpython3-stdlib_3.11.1-1 libpython3.10_3.10.9-1 libpython3.10-dev_3.10.9-1 libpython3.10-minimal_3.10.9-1 libpython3.10-stdlib_3.10.9-1 libpython3.11_3.11.1-2 libpython3.11-dev_3.11.1-2 libpython3.11-minimal_3.11.1-2 libpython3.11-stdlib_3.11.1-2 libquadmath0_12.2.0-14 libraqm0_0.7.0-4 libreadline8_8.2-1.2 libseccomp2_2.5.4-1+b2 libselinux1_3.4-1+b4 libsmartcols1_2.38.1-4 libsqlite3-0_3.40.1-1 libssl3_3.0.7-1 libstdc++-12-dev_12.2.0-14 libstdc++6_12.2.0-14 libsub-override-perl_0.09-4 libsystemd0_252.4-1 libtext-glob-perl_0.11-3 libtiff5_4.4.0-6 libtinfo6_6.4-1 libtirpc-common_1.3.3+ds-1 libtirpc-dev_1.3.3+ds-1 libtirpc3_1.3.3+ds-1 libtool_2.4.7-5 libtsan2_12.2.0-14 libubsan1_12.2.0-14 libuchardet0_0.0.7-1 libudev1_252.4-1 libunistring2_1.0-2 libuuid1_2.38.1-4 libwebp7_1.2.2-2+b3 libwebpdemux2_1.2.2-2+b3 libwebpmux3_1.2.2-2+b3 libxau6_1:1.0.9-1 libxcb1_1.15-1 libxdmcp6_1:1.1.2-3 libxml2_2.9.14+dfsg-1.1+b2 libxsimd-dev_8.1.0-7 libzstd1_1.5.2+dfsg2-3 linux-libc-dev_6.1.4-1 login_1:4.13+dfsg1-1 m4_1.4.19-2 mailcap_3.70+nmu1 make_4.3-4.1 man-db_2.11.2-1 mawk_1.3.4.20200120-3.1 media-types_8.0.0 mime-support_3.66 ncurses-base_6.4-1 ncurses-bin_6.4-1 patch_2.7.6-7 perl_5.36.0-7 perl-base_5.36.0-7 perl-modules-5.36_5.36.0-7 po-debconf_1.0.21+nmu1 python3_3.11.1-1 python3-all_3.11.1-1 python3-all-dev_3.11.1-1 python3-beniget_0.4.1-3 python3-biopython_1.80+dfsg-4 python3-decorator_5.1.1-3 python3-dev_3.11.1-1 python3-distutils_3.10.8-1 python3-gast_0.5.2-2 python3-lib2to3_3.10.8-1 python3-minimal_3.11.1-1 python3-numpy_1:1.24.1-2 python3-pil_9.4.0-1 python3-pkg-resources_65.6.3-1 python3-ply_3.11-5 python3-pyparsing_3.0.9-1 python3-pythran_0.11.0+ds-7 python3-renderpm_3.6.12-1 python3-reportlab_3.6.12-1 python3-reportlab-accel_3.6.12-1 python3-scipy_1.8.1-20 python3-setuptools_65.6.3-1 python3.10_3.10.9-1 python3.10-dev_3.10.9-1 python3.10-minimal_3.10.9-1 python3.11_3.11.1-2 python3.11-dev_3.11.1-2 python3.11-minimal_3.11.1-2 readline-common_8.2-1.2 rpcsvc-proto_1.4.3-1 sed_4.9-1 sensible-utils_0.0.17 sgml-base_1.31 sysvinit-utils_3.06-2 tar_1.34+dfsg-1.1 usr-is-merged_35 usrmerge_35 util-linux_2.38.1-4 util-linux-extra_2.38.1-4 w3c-sgml-lib_1.3-3 x11-common_1:7.7+23 xfonts-encodings_1:1.0.4-2.1 xfonts-utils_1:7.7+6 xml-core_0.18+nmu1 xz-utils_5.4.0-0.1 zlib1g_1:1.2.13.dfsg-1 zlib1g-dev_1:1.2.13.dfsg-1 +------------------------------------------------------------------------------+ | Build Thu, 02 Oct 2025 07:13:53 +0000 | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: prody Binary: python3-prody, python3-prody-tests Architecture: any all Version: 2.3.1+dfsg-3 Maintainer: Debichem Team Uploaders: Andrius Merkys , Homepage: https://github.com/prody/ProDy Standards-Version: 4.6.1 Vcs-Browser: https://salsa.debian.org/debichem-team/prody Vcs-Git: https://salsa.debian.org/debichem-team/prody.git Testsuite: autopkgtest Testsuite-Triggers: python3-pytest Build-Depends: debhelper-compat (= 13), dh-python, python3-all-dev, python3-biopython , python3-numpy, python3-pyparsing , python3-scipy , python3-setuptools Package-List: python3-prody deb science optional arch=any python3-prody-tests deb science optional arch=all Checksums-Sha1: 2f1d4163d729897df87c0c9d0f29545e4487cba4 12920328 prody_2.3.1+dfsg.orig.tar.xz b94a7fafa50f2c7000990fe668de3d144ae5c580 5860 prody_2.3.1+dfsg-3.debian.tar.xz Checksums-Sha256: 3401d31865d0a2b82d32269301316397768ee9de0f0f71cd992b7b0a0298aaf2 12920328 prody_2.3.1+dfsg.orig.tar.xz a91b295381a85cb3e9640ea415a005c3c502c35dfe8199dd68f48dbbeaefe6ca 5860 prody_2.3.1+dfsg-3.debian.tar.xz Files: 6307979cfe4a70c1215862cfde589413 12920328 prody_2.3.1+dfsg.orig.tar.xz f5806f680b8388bb8cdacb8bfff508a8 5860 prody_2.3.1+dfsg-3.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJGBAEBCgAwFiEEdyKS9veshfrgQdQe5fQ/nCc08ocFAmO/6p4SHG1lcmt5c0Bk ZWJpYW4ub3JnAAoJEOX0P5wnNPKHgdYP/2Ii560MtxtygjkdhVFt05IRU7uCB65V RwwFpI4F8S4RDepm+adcLuYQap4jdwOHIo2wQwBrBqsh4kL0mCGYjAB+Hu31IqKH KIr7ZA0x3rsTORoDs4jnixs68UQnMlo54BM4FOdWlWXkUP4n/qQSAusBOEObDL3I atkR7iIQOnlAa1y0x00AYmsdY0PrBnP6Nqg253mhXguyvPiCXXkRw0VHRMRhV78q nYUHFBAMdV2udXdM5YA4+WSN4VNofCVuqT5nh8lpY9OEN1y5b/43CC+js4arXcqH sJXzTmXIRmYvDXGPPHeHivYs7Mt0JdE7mt39NeUHOWSa3gcRRL0DfzajhSe2Hf/B xm3kEIZ5mxcw3NSmJ4TEm7rrofpK1eWlYtYxjhlYiUkjgAoe8d1k5B7jRcWYy6eP 6AuDFGYbE2Ou/8D8+MD+o2CHHO2Ag34Ylbf/5bTfdajSqYWd3hxp256gUV2vJLv+ 23opfhXwwBGUyNwMeGri0/34e0Zi3HR2vxw1s5cQiTNBf2TK2iDCMGG1L2D85MtK +eF+wx8sKWPANC+n8s8kM465Gw2AIjom1YvUBLr95nba22ft70IehpWu4wSLAdad 3Ph4y/Q+RCMl05y0IhWoDBSk0Vt9imxEvEfVIySM3I4pY4Esx4PxrwC8xDn5vPyC icUBbrRFjqY7 =PuGc -----END PGP SIGNATURE----- dpkg-source: warning: cannot verify inline signature for ./prody_2.3.1+dfsg-3.dsc: unsupported subcommand dpkg-source: info: extracting prody in /build/prody-0QIvue/prody-2.3.1+dfsg dpkg-source: info: unpacking prody_2.3.1+dfsg.orig.tar.xz dpkg-source: info: unpacking prody_2.3.1+dfsg-3.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying no-network-access.patch dpkg-source: info: applying add-missing-test-files.patch dpkg-source: info: applying numpy-1.24.patch Install fakeroot ---------------- Setup apt archive ----------------- Merged Build-Depends: fakeroot Filtered Build-Depends: fakeroot dpkg-deb: building package 'sbuild-build-depends-fakeroot-dummy' in '/build/prody-0QIvue/resolver-wtM9FT/apt_archive/sbuild-build-depends-fakeroot-dummy.deb'. Install fakeroot build dependencies (apt-based resolver) -------------------------------------------------------- Installing build dependencies Check disk space ---------------- Sufficient free space for build +------------------------------------------------------------------------------+ | Starting Timed Build Commands Thu, 02 Oct 2025 07:13:59 +0000 | +------------------------------------------------------------------------------+ grep -iq "^Rules-Requires-Root:" "/build/prody-0QIvue/prody-2.3.1+dfsg/debian/control" || sed -i "1iRules-Requires-Root: no" "/build/prody-0QIvue/prody-2.3.1+dfsg/debian/control" ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- I: Finished running 'grep -iq "^Rules-Requires-Root:" "/build/prody-0QIvue/prody-2.3.1+dfsg/debian/control" || sed -i "1iRules-Requires-Root: no" "/build/prody-0QIvue/prody-2.3.1+dfsg/debian/control"'. Finished processing commands. -------------------------------------------------------------------------------- User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=parallel=4 HOME=/sbuild-nonexistent LANG=C.UTF-8 LC_ALL=C.UTF-8 LC_COLLATE=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=1673521696 USER=sbuild dpkg-buildpackage ----------------- Command: dpkg-buildpackage --sanitize-env -us -uc -A dpkg-buildpackage: info: source package prody dpkg-buildpackage: info: source version 2.3.1+dfsg-3 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andrius Merkys dpkg-source --before-build . debian/rules clean dh clean --buildsystem pybuild --with numpy3,python3 debian/rules override_dh_auto_clean make[1]: Entering directory '/build/prody-0QIvue/prody-2.3.1+dfsg' dh_auto_clean I: pybuild base:240: python3.10 setup.py clean running clean removing '/build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build' (and everything under it) 'build/bdist.linux-x86_64' does not exist -- can't clean it 'build/scripts-3.10' does not exist -- can't clean it I: pybuild base:240: python3.11 setup.py clean running clean removing '/build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build' (and everything under it) 'build/bdist.linux-x86_64' does not exist -- can't clean it 'build/scripts-3.11' does not exist -- can't clean it rm -rf ProDy.egg-info make[1]: Leaving directory '/build/prody-0QIvue/prody-2.3.1+dfsg' dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary-indep dh binary-indep --buildsystem pybuild --with numpy3,python3 dh_update_autotools_config -i -O--buildsystem=pybuild dh_autoreconf -i -O--buildsystem=pybuild dh_auto_configure -i -O--buildsystem=pybuild I: pybuild base:240: python3.10 setup.py config running config I: pybuild base:240: python3.11 setup.py config running config dh_auto_build -i -O--buildsystem=pybuild I: pybuild base:240: /usr/bin/python3.10 setup.py build running build running build_py creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody copying prody/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/atomic copying prody/atomic/improper.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/atomic copying prody/atomic/donor.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/atomic copying prody/atomic/bond.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/atomic copying prody/atomic/selection.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/atomic copying prody/atomic/fields.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/atomic copying prody/atomic/chain.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/atomic copying prody/atomic/pointer.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/atomic copying prody/atomic/dihedral.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/atomic copying prody/atomic/crossterm.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/atomic copying prody/atomic/atomgroup.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/atomic copying prody/atomic/hierview.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/atomic copying prody/atomic/subset.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/atomic copying prody/atomic/nbexclusion.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/atomic copying prody/atomic/atomic.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/atomic copying prody/atomic/acceptor.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/atomic copying prody/atomic/atom.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/atomic copying prody/atomic/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/atomic copying prody/atomic/functions.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/atomic copying prody/atomic/angle.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/atomic copying prody/atomic/atommap.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/atomic copying prody/atomic/segment.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/atomic copying prody/atomic/select.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/atomic copying prody/atomic/residue.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/atomic copying prody/atomic/flags.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/atomic creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/database copying prody/database/uniprot.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/database copying prody/database/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/database copying prody/database/cath.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/database copying prody/database/pfam.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/database copying prody/database/dali.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/database copying prody/database/quartataweb.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/database copying prody/database/goa.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/database creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/dynamics copying prody/dynamics/pca.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/dynamics copying prody/dynamics/nmdfile.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/dynamics copying prody/dynamics/rtb.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/dynamics copying prody/dynamics/signature.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/dynamics copying prody/dynamics/exgnm.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/dynamics copying prody/dynamics/heatmapper.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/dynamics copying prody/dynamics/vmdfile.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/dynamics copying prody/dynamics/entropy.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/dynamics copying prody/dynamics/nma.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/dynamics copying prody/dynamics/gnm.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/dynamics copying prody/dynamics/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/dynamics copying prody/dynamics/clustenm.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/dynamics copying prody/dynamics/exanm.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/dynamics copying prody/dynamics/compare.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/dynamics copying prody/dynamics/mechstiff.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/dynamics copying prody/dynamics/functions.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/dynamics copying prody/dynamics/plotting.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/dynamics copying prody/dynamics/gamma.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/dynamics copying prody/dynamics/editing.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/dynamics copying prody/dynamics/adaptive.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/dynamics copying prody/dynamics/anm.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/dynamics copying prody/dynamics/sampling.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/dynamics copying prody/dynamics/analysis.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/dynamics copying prody/dynamics/imanm.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/dynamics copying prody/dynamics/mode.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/dynamics copying prody/dynamics/modeset.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/dynamics copying prody/dynamics/perturb.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/dynamics copying prody/dynamics/bbenm.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/dynamics copying prody/dynamics/essa.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/dynamics creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/ensemble copying prody/ensemble/pdbensemble.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/ensemble copying prody/ensemble/conformation.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/ensemble copying prody/ensemble/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/ensemble copying prody/ensemble/functions.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/ensemble copying prody/ensemble/ensemble.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/ensemble creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/kdtree copying prody/kdtree/kdtree.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/kdtree copying prody/kdtree/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/kdtree creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/measure copying prody/measure/contacts.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/measure copying prody/measure/transform.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/measure copying prody/measure/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/measure copying prody/measure/measure.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/measure creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/proteins copying prody/proteins/dssp.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/proteins copying prody/proteins/emdfile.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/proteins copying prody/proteins/header.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/proteins copying prody/proteins/ciffile.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/proteins copying prody/proteins/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/proteins copying prody/proteins/compare.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/proteins copying prody/proteins/functions.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/proteins copying prody/proteins/blastpdb.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/proteins copying prody/proteins/wwpdb.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/proteins copying prody/proteins/pdbfile.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/proteins copying prody/proteins/localpdb.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/proteins copying prody/proteins/stride.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/proteins copying prody/proteins/cifheader.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/proteins copying prody/proteins/starfile.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/proteins copying prody/proteins/pdbclusters.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/proteins creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/sequence copying prody/sequence/sequence.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/sequence copying prody/sequence/msa.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/sequence copying prody/sequence/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/sequence copying prody/sequence/plotting.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/sequence copying prody/sequence/analysis.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/sequence copying prody/sequence/msafile.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/sequence creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/trajectory copying prody/trajectory/trajectory.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/trajectory copying prody/trajectory/dcdfile.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/trajectory copying prody/trajectory/frame.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/trajectory copying prody/trajectory/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/trajectory copying prody/trajectory/trajbase.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/trajectory copying prody/trajectory/psffile.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/trajectory copying prody/trajectory/trajfile.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/trajectory creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/chromatin copying prody/chromatin/cluster.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/chromatin copying prody/chromatin/straw.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/chromatin copying prody/chromatin/norm.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/chromatin copying prody/chromatin/hic.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/chromatin copying prody/chromatin/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/chromatin copying prody/chromatin/functions.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/chromatin creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/compounds copying prody/compounds/ccd.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/compounds copying prody/compounds/pdbligands.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/compounds copying prody/compounds/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/compounds copying prody/compounds/bird.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/compounds copying prody/compounds/functions.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/compounds creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/domain_decomposition copying prody/domain_decomposition/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/domain_decomposition copying prody/domain_decomposition/spectrus.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/domain_decomposition creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/utilities copying prody/utilities/laptools.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/utilities copying prody/utilities/legacy.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/utilities copying prody/utilities/catchall.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/utilities copying prody/utilities/eigtools.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/utilities copying prody/utilities/settings.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/utilities copying prody/utilities/TreeConstruction.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/utilities copying prody/utilities/checkers.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/utilities copying prody/utilities/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/utilities copying prody/utilities/misctools.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/utilities copying prody/utilities/seqtools.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/utilities copying prody/utilities/pathtools.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/utilities copying prody/utilities/doctools.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/utilities copying prody/utilities/logger.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/utilities copying prody/utilities/drawtools.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/utilities creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/apps copying prody/apps/apptools.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/apps copying prody/apps/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/apps creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_anm.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_pca.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_fetch.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_energy.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/nmaoptions.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_contacts.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_blast.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_gnm.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_select.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_eda.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_biomol.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_align.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_catdcd.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/apps/prody_apps creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_conserv.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_occupancy.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_coevol.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_refine.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_filter.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_fetch.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_merge.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_search.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_rankorder.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/apps/evol_apps creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests copying prody/tests/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/apps copying prody/tests/apps/test_prody_gnm.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/apps copying prody/tests/apps/test_prody_catdcd.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/apps copying prody/tests/apps/test_prody_pca.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/apps copying prody/tests/apps/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/apps copying prody/tests/apps/test_prody_anm.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/apps copying prody/tests/apps/test_prody_examples.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/apps creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/atomic copying prody/tests/atomic/test_fragment.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/atomic copying prody/tests/atomic/test_atommap.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/atomic copying prody/tests/atomic/test_atomic.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/atomic copying prody/tests/atomic/test_hierview.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/atomic copying prody/tests/atomic/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/atomic copying prody/tests/atomic/test_select.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/atomic copying prody/tests/atomic/test_subset.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/atomic creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/dynamics copying prody/tests/dynamics/test_editing.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/dynamics copying prody/tests/dynamics/test_pca.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/dynamics copying prody/tests/dynamics/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/dynamics copying prody/tests/dynamics/test_enms.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/dynamics copying prody/tests/dynamics/test_signature.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/dynamics creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/ensemble copying prody/tests/ensemble/test_functions.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/ensemble copying prody/tests/ensemble/test_pdbensemble.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/ensemble copying prody/tests/ensemble/test_ensemble.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/ensemble copying prody/tests/ensemble/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/ensemble copying prody/tests/ensemble/test_conformation.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/ensemble creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/kdtree copying prody/tests/kdtree/test_kdtree.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/kdtree copying prody/tests/kdtree/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/kdtree creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/measure copying prody/tests/measure/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/measure copying prody/tests/measure/test_contacts.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/measure copying prody/tests/measure/test_transform.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/measure copying prody/tests/measure/test_measure.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/measure creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/proteins copying prody/tests/proteins/test_localpdb.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/proteins copying prody/tests/proteins/test_ciffile.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/proteins copying prody/tests/proteins/test_wwpdb.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/proteins copying prody/tests/proteins/test_pdbfile.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/proteins copying prody/tests/proteins/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/proteins copying prody/tests/proteins/test_dssp.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/proteins copying prody/tests/proteins/test_header.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/proteins creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/sequence copying prody/tests/sequence/test_analysis.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/sequence copying prody/tests/sequence/test_msa.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/sequence copying prody/tests/sequence/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/sequence copying prody/tests/sequence/test_sequence.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/sequence copying prody/tests/sequence/test_msafile.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/sequence creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/trajectory copying prody/tests/trajectory/test_frame.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/trajectory copying prody/tests/trajectory/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/trajectory copying prody/tests/trajectory/test_dcdfile.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/trajectory creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/utilities copying prody/tests/utilities/test_pathtools.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/utilities copying prody/tests/utilities/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/utilities copying prody/tests/utilities/test_checkers.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/utilities copying prody/tests/utilities/test_misctools.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/utilities creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/utilities/datafiles copying prody/utilities/datafiles/saxs_water.dat -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/utilities/datafiles copying prody/utilities/datafiles/mod_res_map.dat -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/utilities/datafiles copying prody/tests/datafiles/pdb1tw7_step3_charmm2namd.pdb -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb2k39_ca.pdb -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1ubi_ca.pdb -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1tw7_step3_charmm2namd_doubled_hex.pdb -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb3o21.pdb -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1r19_dssp.pdb -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1tw7_step3_charmm2namd_doubled_h36.pdb -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb3p3w.pdb -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1ejg.pdb -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1ejg_oneatom.pdb -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb3mht.pdb -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdbRTER.pdb -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb2gb1_truncated.pdb -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb3hsy.pdb -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb2k39_truncated.pdb -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb2nwl-opm.pdb -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1ubi.pdb -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/gnm1ubi_vectors.dat -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/commute1ubi.dat -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/exanm2nwl_vectors.dat -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/hit1ubi.dat -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/msa_Cys_knot_di.dat -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/anm1ubi_vectors.dat -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/anm1ubi_evalues.dat -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/exanm2nwl_evalues.dat -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pca2k39_evalues.dat -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/msa_Cys_knot_sca.dat -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pca2k39_vectors.dat -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/gnm1ubi_evalues.dat -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/mmcif_6yfy.cif -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/mmcif_6zu5.cif -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pca2k39_cov.coo -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/rtb2gb1_project.coo -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/exanm2nwl_hessian.coo -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/gnm1ubi_kirchhoff.coo -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/rtb2gb1_hessian.coo -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/anm1ubi_hessian.coo -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/dcd2k39_truncated.dcd -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/xmlSTI.xml -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/msa_Cys_knot.sth -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/msa_Cys_knot.fasta -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles copying prody/tests/datafiles/msa_Cys_knot.slx -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles running build_ext building 'prody.dynamics.rtbtools' extension creating build creating build/temp.linux-x86_64-cpython-310 creating build/temp.linux-x86_64-cpython-310/prody creating build/temp.linux-x86_64-cpython-310/prody/dynamics x86_64-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/prody-0QIvue/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.10 -c prody/dynamics/rtbtools.c -o build/temp.linux-x86_64-cpython-310/prody/dynamics/rtbtools.o x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -g -O2 -ffile-prefix-map=/build/prody-0QIvue/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-310/prody/dynamics/rtbtools.o -L/usr/lib/x86_64-linux-gnu -o /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/dynamics/rtbtools.cpython-310-x86_64-linux-gnu.so building 'prody.dynamics.smtools' extension x86_64-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/prody-0QIvue/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.10 -c prody/dynamics/smtools.c -o build/temp.linux-x86_64-cpython-310/prody/dynamics/smtools.o x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -g -O2 -ffile-prefix-map=/build/prody-0QIvue/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-310/prody/dynamics/smtools.o -L/usr/lib/x86_64-linux-gnu -o /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/dynamics/smtools.cpython-310-x86_64-linux-gnu.so building 'prody.sequence.msatools' extension creating build/temp.linux-x86_64-cpython-310/prody/sequence x86_64-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/prody-0QIvue/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.10 -c prody/sequence/msatools.c -o build/temp.linux-x86_64-cpython-310/prody/sequence/msatools.o x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -g -O2 -ffile-prefix-map=/build/prody-0QIvue/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-310/prody/sequence/msatools.o -L/usr/lib/x86_64-linux-gnu -o /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/sequence/msatools.cpython-310-x86_64-linux-gnu.so building 'prody.sequence.msaio' extension x86_64-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/prody-0QIvue/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.10 -c prody/sequence/msaio.c -o build/temp.linux-x86_64-cpython-310/prody/sequence/msaio.o x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -g -O2 -ffile-prefix-map=/build/prody-0QIvue/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-310/prody/sequence/msaio.o -L/usr/lib/x86_64-linux-gnu -o /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/sequence/msaio.cpython-310-x86_64-linux-gnu.so building 'prody.sequence.seqtools' extension x86_64-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/prody-0QIvue/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.10 -c prody/sequence/seqtools.c -o build/temp.linux-x86_64-cpython-310/prody/sequence/seqtools.o x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -g -O2 -ffile-prefix-map=/build/prody-0QIvue/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-310/prody/sequence/seqtools.o -L/usr/lib/x86_64-linux-gnu -o /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/sequence/seqtools.cpython-310-x86_64-linux-gnu.so building 'prody.kdtree._CKDTree' extension creating build/temp.linux-x86_64-cpython-310/prody/kdtree x86_64-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/prody-0QIvue/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.10 -c prody/kdtree/KDTree.c -o build/temp.linux-x86_64-cpython-310/prody/kdtree/KDTree.o x86_64-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/prody-0QIvue/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.10 -c prody/kdtree/KDTreemodule.c -o build/temp.linux-x86_64-cpython-310/prody/kdtree/KDTreemodule.o x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -g -O2 -ffile-prefix-map=/build/prody-0QIvue/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-310/prody/kdtree/KDTree.o build/temp.linux-x86_64-cpython-310/prody/kdtree/KDTreemodule.o -L/usr/lib/x86_64-linux-gnu -o /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/kdtree/_CKDTree.cpython-310-x86_64-linux-gnu.so building 'prody.proteins.ccealign' extension creating build/temp.linux-x86_64-cpython-310/prody/proteins creating build/temp.linux-x86_64-cpython-310/prody/proteins/ccealign x86_64-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/prody-0QIvue/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Iprody/utilities/tnt -I/usr/include/python3.10 -c prody/proteins/ccealign/ccealignmodule.cpp -o build/temp.linux-x86_64-cpython-310/prody/proteins/ccealign/ccealignmodule.o x86_64-linux-gnu-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -g -O2 -ffile-prefix-map=/build/prody-0QIvue/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-310/prody/proteins/ccealign/ccealignmodule.o -L/usr/lib/x86_64-linux-gnu -o /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/proteins/ccealign.cpython-310-x86_64-linux-gnu.so I: pybuild base:240: /usr/bin/python3 setup.py build running build running build_py creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody copying prody/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/improper.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/donor.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/bond.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/selection.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/fields.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/chain.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/pointer.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/dihedral.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/crossterm.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/atomgroup.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/hierview.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/subset.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/nbexclusion.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/atomic.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/acceptor.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/atom.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/functions.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/angle.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/atommap.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/segment.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/select.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/residue.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/flags.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/database copying prody/database/uniprot.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/database copying prody/database/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/database copying prody/database/cath.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/database copying prody/database/pfam.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/database copying prody/database/dali.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/database copying prody/database/quartataweb.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/database copying prody/database/goa.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/database creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/pca.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/nmdfile.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/rtb.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/signature.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/exgnm.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/heatmapper.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/vmdfile.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/entropy.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/nma.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/gnm.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/clustenm.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/exanm.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/compare.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/mechstiff.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/functions.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/plotting.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/gamma.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/editing.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/adaptive.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/anm.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/sampling.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/analysis.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/imanm.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/mode.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/modeset.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/perturb.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/bbenm.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/essa.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/ensemble copying prody/ensemble/pdbensemble.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/ensemble copying prody/ensemble/conformation.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/ensemble copying prody/ensemble/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/ensemble copying prody/ensemble/functions.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/ensemble copying prody/ensemble/ensemble.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/ensemble creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/kdtree copying prody/kdtree/kdtree.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/kdtree copying prody/kdtree/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/kdtree creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/measure copying prody/measure/contacts.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/measure copying prody/measure/transform.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/measure copying prody/measure/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/measure copying prody/measure/measure.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/measure creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins copying prody/proteins/dssp.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins copying prody/proteins/emdfile.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins copying prody/proteins/header.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins copying prody/proteins/ciffile.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins copying prody/proteins/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins copying prody/proteins/compare.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins copying prody/proteins/functions.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins copying prody/proteins/blastpdb.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins copying prody/proteins/wwpdb.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins copying prody/proteins/pdbfile.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins copying prody/proteins/localpdb.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins copying prody/proteins/stride.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins copying prody/proteins/cifheader.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins copying prody/proteins/starfile.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins copying prody/proteins/pdbclusters.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence copying prody/sequence/sequence.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence copying prody/sequence/msa.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence copying prody/sequence/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence copying prody/sequence/plotting.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence copying prody/sequence/analysis.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence copying prody/sequence/msafile.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory copying prody/trajectory/trajectory.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory copying prody/trajectory/dcdfile.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory copying prody/trajectory/frame.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory copying prody/trajectory/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory copying prody/trajectory/trajbase.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory copying prody/trajectory/psffile.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory copying prody/trajectory/trajfile.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/chromatin copying prody/chromatin/cluster.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/chromatin copying prody/chromatin/straw.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/chromatin copying prody/chromatin/norm.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/chromatin copying prody/chromatin/hic.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/chromatin copying prody/chromatin/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/chromatin copying prody/chromatin/functions.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/chromatin creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/compounds copying prody/compounds/ccd.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/compounds copying prody/compounds/pdbligands.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/compounds copying prody/compounds/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/compounds copying prody/compounds/bird.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/compounds copying prody/compounds/functions.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/compounds creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/domain_decomposition copying prody/domain_decomposition/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/domain_decomposition copying prody/domain_decomposition/spectrus.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/domain_decomposition creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities copying prody/utilities/laptools.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities copying prody/utilities/legacy.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities copying prody/utilities/catchall.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities copying prody/utilities/eigtools.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities copying prody/utilities/settings.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities copying prody/utilities/TreeConstruction.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities copying prody/utilities/checkers.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities copying prody/utilities/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities copying prody/utilities/misctools.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities copying prody/utilities/seqtools.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities copying prody/utilities/pathtools.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities copying prody/utilities/doctools.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities copying prody/utilities/logger.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities copying prody/utilities/drawtools.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps copying prody/apps/apptools.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps copying prody/apps/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_anm.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_pca.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_fetch.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_energy.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/nmaoptions.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_contacts.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_blast.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_gnm.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_select.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_eda.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_biomol.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_align.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_catdcd.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_conserv.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_occupancy.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_coevol.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_refine.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_filter.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_fetch.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_merge.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_search.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_rankorder.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests copying prody/tests/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/apps copying prody/tests/apps/test_prody_gnm.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/apps copying prody/tests/apps/test_prody_catdcd.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/apps copying prody/tests/apps/test_prody_pca.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/apps copying prody/tests/apps/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/apps copying prody/tests/apps/test_prody_anm.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/apps copying prody/tests/apps/test_prody_examples.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/apps creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/atomic copying prody/tests/atomic/test_fragment.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/atomic copying prody/tests/atomic/test_atommap.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/atomic copying prody/tests/atomic/test_atomic.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/atomic copying prody/tests/atomic/test_hierview.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/atomic copying prody/tests/atomic/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/atomic copying prody/tests/atomic/test_select.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/atomic copying prody/tests/atomic/test_subset.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/atomic creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/dynamics copying prody/tests/dynamics/test_editing.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/dynamics copying prody/tests/dynamics/test_pca.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/dynamics copying prody/tests/dynamics/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/dynamics copying prody/tests/dynamics/test_enms.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/dynamics copying prody/tests/dynamics/test_signature.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/dynamics creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/ensemble copying prody/tests/ensemble/test_functions.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/ensemble copying prody/tests/ensemble/test_pdbensemble.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/ensemble copying prody/tests/ensemble/test_ensemble.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/ensemble copying prody/tests/ensemble/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/ensemble copying prody/tests/ensemble/test_conformation.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/ensemble creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/kdtree copying prody/tests/kdtree/test_kdtree.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/kdtree copying prody/tests/kdtree/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/kdtree creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/measure copying prody/tests/measure/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/measure copying prody/tests/measure/test_contacts.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/measure copying prody/tests/measure/test_transform.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/measure copying prody/tests/measure/test_measure.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/measure creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/proteins copying prody/tests/proteins/test_localpdb.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/proteins copying prody/tests/proteins/test_ciffile.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/proteins copying prody/tests/proteins/test_wwpdb.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/proteins copying prody/tests/proteins/test_pdbfile.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/proteins copying prody/tests/proteins/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/proteins copying prody/tests/proteins/test_dssp.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/proteins copying prody/tests/proteins/test_header.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/proteins creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/sequence copying prody/tests/sequence/test_analysis.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/sequence copying prody/tests/sequence/test_msa.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/sequence copying prody/tests/sequence/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/sequence copying prody/tests/sequence/test_sequence.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/sequence copying prody/tests/sequence/test_msafile.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/sequence creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/trajectory copying prody/tests/trajectory/test_frame.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/trajectory copying prody/tests/trajectory/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/trajectory copying prody/tests/trajectory/test_dcdfile.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/trajectory creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/utilities copying prody/tests/utilities/test_pathtools.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/utilities copying prody/tests/utilities/__init__.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/utilities copying prody/tests/utilities/test_checkers.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/utilities copying prody/tests/utilities/test_misctools.py -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/utilities creating /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities/datafiles copying prody/utilities/datafiles/saxs_water.dat -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities/datafiles copying prody/utilities/datafiles/mod_res_map.dat -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities/datafiles copying prody/tests/datafiles/pdb1tw7_step3_charmm2namd.pdb -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb2k39_ca.pdb -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1ubi_ca.pdb -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1tw7_step3_charmm2namd_doubled_hex.pdb -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb3o21.pdb -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1r19_dssp.pdb -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1tw7_step3_charmm2namd_doubled_h36.pdb -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb3p3w.pdb -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1ejg.pdb -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1ejg_oneatom.pdb -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb3mht.pdb -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdbRTER.pdb -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb2gb1_truncated.pdb -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb3hsy.pdb -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb2k39_truncated.pdb -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb2nwl-opm.pdb -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1ubi.pdb -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/gnm1ubi_vectors.dat -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/commute1ubi.dat -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/exanm2nwl_vectors.dat -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/hit1ubi.dat -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/msa_Cys_knot_di.dat -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/anm1ubi_vectors.dat -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/anm1ubi_evalues.dat -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/exanm2nwl_evalues.dat -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pca2k39_evalues.dat -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/msa_Cys_knot_sca.dat -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pca2k39_vectors.dat -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/gnm1ubi_evalues.dat -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/mmcif_6yfy.cif -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/mmcif_6zu5.cif -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pca2k39_cov.coo -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/rtb2gb1_project.coo -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/exanm2nwl_hessian.coo -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/gnm1ubi_kirchhoff.coo -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/rtb2gb1_hessian.coo -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/anm1ubi_hessian.coo -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/dcd2k39_truncated.dcd -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/xmlSTI.xml -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/msa_Cys_knot.sth -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/msa_Cys_knot.fasta -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/msa_Cys_knot.slx -> /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles running build_ext building 'prody.dynamics.rtbtools' extension creating build/temp.linux-x86_64-cpython-311 creating build/temp.linux-x86_64-cpython-311/prody creating build/temp.linux-x86_64-cpython-311/prody/dynamics x86_64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/prody-0QIvue/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.11 -c prody/dynamics/rtbtools.c -o build/temp.linux-x86_64-cpython-311/prody/dynamics/rtbtools.o x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -g -O2 -ffile-prefix-map=/build/prody-0QIvue/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-311/prody/dynamics/rtbtools.o -L/usr/lib/x86_64-linux-gnu -o /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/rtbtools.cpython-311-x86_64-linux-gnu.so building 'prody.dynamics.smtools' extension x86_64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/prody-0QIvue/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.11 -c prody/dynamics/smtools.c -o build/temp.linux-x86_64-cpython-311/prody/dynamics/smtools.o x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -g -O2 -ffile-prefix-map=/build/prody-0QIvue/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-311/prody/dynamics/smtools.o -L/usr/lib/x86_64-linux-gnu -o /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/smtools.cpython-311-x86_64-linux-gnu.so building 'prody.sequence.msatools' extension creating build/temp.linux-x86_64-cpython-311/prody/sequence x86_64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/prody-0QIvue/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.11 -c prody/sequence/msatools.c -o build/temp.linux-x86_64-cpython-311/prody/sequence/msatools.o x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -g -O2 -ffile-prefix-map=/build/prody-0QIvue/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-311/prody/sequence/msatools.o -L/usr/lib/x86_64-linux-gnu -o /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence/msatools.cpython-311-x86_64-linux-gnu.so building 'prody.sequence.msaio' extension x86_64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/prody-0QIvue/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.11 -c prody/sequence/msaio.c -o build/temp.linux-x86_64-cpython-311/prody/sequence/msaio.o x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -g -O2 -ffile-prefix-map=/build/prody-0QIvue/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-311/prody/sequence/msaio.o -L/usr/lib/x86_64-linux-gnu -o /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence/msaio.cpython-311-x86_64-linux-gnu.so building 'prody.sequence.seqtools' extension x86_64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/prody-0QIvue/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.11 -c prody/sequence/seqtools.c -o build/temp.linux-x86_64-cpython-311/prody/sequence/seqtools.o x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -g -O2 -ffile-prefix-map=/build/prody-0QIvue/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-311/prody/sequence/seqtools.o -L/usr/lib/x86_64-linux-gnu -o /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence/seqtools.cpython-311-x86_64-linux-gnu.so building 'prody.kdtree._CKDTree' extension creating build/temp.linux-x86_64-cpython-311/prody/kdtree x86_64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/prody-0QIvue/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.11 -c prody/kdtree/KDTree.c -o build/temp.linux-x86_64-cpython-311/prody/kdtree/KDTree.o x86_64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/prody-0QIvue/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.11 -c prody/kdtree/KDTreemodule.c -o build/temp.linux-x86_64-cpython-311/prody/kdtree/KDTreemodule.o x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -g -O2 -ffile-prefix-map=/build/prody-0QIvue/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-311/prody/kdtree/KDTree.o build/temp.linux-x86_64-cpython-311/prody/kdtree/KDTreemodule.o -L/usr/lib/x86_64-linux-gnu -o /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/kdtree/_CKDTree.cpython-311-x86_64-linux-gnu.so building 'prody.proteins.ccealign' extension creating build/temp.linux-x86_64-cpython-311/prody/proteins creating build/temp.linux-x86_64-cpython-311/prody/proteins/ccealign x86_64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/prody-0QIvue/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Iprody/utilities/tnt -I/usr/include/python3.11 -c prody/proteins/ccealign/ccealignmodule.cpp -o build/temp.linux-x86_64-cpython-311/prody/proteins/ccealign/ccealignmodule.o x86_64-linux-gnu-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -g -O2 -ffile-prefix-map=/build/prody-0QIvue/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-311/prody/proteins/ccealign/ccealignmodule.o -L/usr/lib/x86_64-linux-gnu -o /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins/ccealign.cpython-311-x86_64-linux-gnu.so dh_auto_test -i -O--buildsystem=pybuild I: pybuild base:240: cd /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build; python3.10 -m unittest discover -v /usr/lib/python3/dist-packages/Bio/pairwise2.py:278: BiopythonDeprecationWarning: Bio.pairwise2 has been deprecated, and we intend to remove it in a future release of Biopython. As an alternative, please consider using Bio.Align.PairwiseAligner as a replacement, and contact the Biopython developers if you still need the Bio.pairwise2 module. warnings.warn( testANMCommand (prody.tests.apps.test_prody_anm.TestANMCommand) ... skipped 'prody command not found' testAlignConcat (prody.tests.apps.test_prody_catdcd.TestCatdcdCommand) ... skipped 'prody command not found' testAlignException (prody.tests.apps.test_prody_catdcd.TestCatdcdCommand) ... skipped 'prody command is not found' testIOException (prody.tests.apps.test_prody_catdcd.TestCatdcdCommand) ... skipped 'prody command is not found' testSelectConcat (prody.tests.apps.test_prody_catdcd.TestCatdcdCommand) ... skipped 'prody command not found' testSelectException (prody.tests.apps.test_prody_catdcd.TestCatdcdCommand) ... skipped 'prody command is not found' testSelectException2 (prody.tests.apps.test_prody_catdcd.TestCatdcdCommand) ... skipped 'prody command is not found' testSimpleConcat (prody.tests.apps.test_prody_catdcd.TestCatdcdCommand) ... skipped 'prody command not found' testCommandExample1 (prody.tests.apps.test_prody_examples.TestCommandExamples) Test example: $ prody anm 1p38 ... skipped 'prody command not found' testCommandExample10 (prody.tests.apps.test_prody_examples.TestCommandExamples) Test example: $ prody align 2k39 --select "backbone and resnum < 71" ... skipped 'prody command not found' testCommandExample11 (prody.tests.apps.test_prody_examples.TestCommandExamples) Test example: $ prody align --select "resnum < 300" 1p38 1r39 1zz2 ... skipped 'prody command not found' testCommandExample12 (prody.tests.apps.test_prody_examples.TestCommandExamples) Test example: $ prody align --select "resnum 1 to 70" 1aar 2k39 ... skipped 'prody command not found' testCommandExample13 (prody.tests.apps.test_prody_examples.TestCommandExamples) Test example: $ prody align --select "noh heme and chain A" 1hrc 1fi7 ... skipped 'prody command not found' testCommandExample14 (prody.tests.apps.test_prody_examples.TestCommandExamples) Test example: $ prody biomol 2bfu ... skipped 'prody command not found' testCommandExample15 (prody.tests.apps.test_prody_examples.TestCommandExamples) Test example: $ prody select -o B11 "resname B11" 1zz2 $ prody select -o BOG "resname BOG" 1zz2 $ prody contacts -r 4.0 -t residue -s protein 1zz2 B11.pdb BOG.pdb ... skipped 'prody command not found' testCommandExample16 (prody.tests.apps.test_prody_examples.TestCommandExamples) Test example: $ prody fetch 1mkp 1p38 ... skipped 'prody command not found' testCommandExample17 (prody.tests.apps.test_prody_examples.TestCommandExamples) Test example: $ prody select backbone 1p38 1r39 ... skipped 'prody command not found' testCommandExample18 (prody.tests.apps.test_prody_examples.TestCommandExamples) Test example: $ prody energy 1p38 1r39 ... skipped 'prody command not found' testCommandExample2 (prody.tests.apps.test_prody_examples.TestCommandExamples) Test example: $ prody anm 1aar -s "calpha and chain A and resnum < 70" -A ... skipped 'prody command not found' testCommandExample3 (prody.tests.apps.test_prody_examples.TestCommandExamples) Test example: $ prody gnm 1p38 ... skipped 'prody command not found' testCommandExample4 (prody.tests.apps.test_prody_examples.TestCommandExamples) Test example: $ prody gnm 1aar -c 7 -s "calpha and chain A and resnum < 70" -A ... skipped 'prody command not found' testCommandExample5 (prody.tests.apps.test_prody_examples.TestCommandExamples) Test example: $ prody pca 2k39 ... skipped 'prody command not found' testCommandExample6 (prody.tests.apps.test_prody_examples.TestCommandExamples) Test example: $ prody pca 2k39 --select "backbone and resnum < 71" -a -A ... skipped 'prody command not found' testCommandExample7 (prody.tests.apps.test_prody_examples.TestCommandExamples) Test example: $ prody pca 2k39 ... skipped 'prody command not found' testCommandExample8 (prody.tests.apps.test_prody_examples.TestCommandExamples) Test example: $ prody pca 2k39 --select "backbone and resnum < 71" -a -A ... skipped 'prody command not found' testCommandExample9 (prody.tests.apps.test_prody_examples.TestCommandExamples) Test example: $ prody align 2k39 ... skipped 'prody command not found' testGNMCommand (prody.tests.apps.test_prody_gnm.TestGNMCommand) ... skipped 'prody command not found' testPCACommandDCD (prody.tests.apps.test_prody_pca.TestPCACommand) ... skipped 'prody command not found' testPCACommandPDB (prody.tests.apps.test_prody_pca.TestPCACommand) ... skipped 'prody command not found' testAtomGroup (prody.tests.atomic.test_atomic.TestAtomIterations) ... ok testAtomMap (prody.tests.atomic.test_atomic.TestAtomIterations) ... ok testChain (prody.tests.atomic.test_atomic.TestAtomIterations) ... ok testResidue (prody.tests.atomic.test_atomic.TestAtomIterations) ... ok testSelection (prody.tests.atomic.test_atomic.TestAtomIterations) ... ok testAtom (prody.tests.atomic.test_atomic.TestPickling) ... ok testAtomGroup (prody.tests.atomic.test_atomic.TestPickling) ... ok testSelection (prody.tests.atomic.test_atomic.TestPickling) ... ok testSaveLoad (prody.tests.atomic.test_atomic.TestSaveLoad) ... ok testInstantiation (prody.tests.atomic.test_atommap.TestInstantiation) ... ok testAllSelection (prody.tests.atomic.test_atommap.TestSelection) ... ok testChainSelection (prody.tests.atomic.test_atommap.TestSelection) ... ok testGetBoolArray (prody.tests.atomic.test_atommap.TestSelection) ... ok testNameSelection (prody.tests.atomic.test_atommap.TestSelection) ... ok testSplit (prody.tests.atomic.test_fragment.TestFragment) ... ok testSplitCopy (prody.tests.atomic.test_fragment.TestFragment) ... ok testSplitNoh (prody.tests.atomic.test_fragment.TestFragment) ... ok testSplitNohCopy (prody.tests.atomic.test_fragment.TestFragment) ... ok testWhole (prody.tests.atomic.test_fragment.TestFragment) ... ok testWhole2 (prody.tests.atomic.test_fragment.TestFragment) ... ok testWholeAll (prody.tests.atomic.test_fragment.TestFragment) ... ok testWholeCopy (prody.tests.atomic.test_fragment.TestFragment) ... ok testWholeNoh (prody.tests.atomic.test_fragment.TestFragment) ... ok testWholeNohCopy (prody.tests.atomic.test_fragment.TestFragment) ... ok testCA (prody.tests.atomic.test_hierview.TestShuffled) ... ok testProtein (prody.tests.atomic.test_hierview.TestShuffled) ... ok testNumResidues (prody.tests.atomic.test_hierview.TestTerRecord) ... ok testResidueIndexing (prody.tests.atomic.test_hierview.TestTerRecord) ... ok testSelectionResidueIndexing (prody.tests.atomic.test_hierview.TestTerRecord) ... ok testSelectionResidueIndexing2 (prody.tests.atomic.test_hierview.TestTerRecord) ... ok testMacro1 (prody.tests.atomic.test_select.TestMacros) Test macro *cacb*: 'name CA CB' ... ok testMacro2 (prody.tests.atomic.test_select.TestMacros) Test macro *donors*: '(protein) and (name N NE NH2 ND2 NE2 ND1 OG OH NH1 SG OG1 NE2 NZ NE1 ND1 NE2)' ... ok testMacroFunctions (prody.tests.atomic.test_select.TestMacros) ... ok testBondedtoSelection1 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections 'bonded to index 0' for imatinib ... ok testBondedtoSelection10 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections "bonded 2 to index 0" ... ok testBondedtoSelection11 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections 'bonded 0 to index 0' for imatinib ... ok testBondedtoSelection12 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections "bonded 0 to index 0" ... ok testBondedtoSelection13 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections 'bonded 3 to index 0' for imatinib ... ok testBondedtoSelection14 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections "bonded 3 to index 0" ... ok testBondedtoSelection15 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections 'bonded 4 to index 0' for imatinib ... ok testBondedtoSelection16 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections "bonded 4 to index 0" ... ok testBondedtoSelection17 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections 'bonded 4 to index 0' for imatinib ... ok testBondedtoSelection18 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections "bonded 4 to index 0" ... ok testBondedtoSelection19 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections 'bonded 4 to index 0' for imatinib ... ok testBondedtoSelection2 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections "bonded to index 0" ... ok testBondedtoSelection20 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections "bonded 4 to index 0" ... ok testBondedtoSelection21 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections 'exbonded 1 to index 0' for imatinib ... ok testBondedtoSelection22 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections "exbonded 1 to index 0" ... ok testBondedtoSelection23 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections 'exbonded 2 to index 0' for imatinib ... ok testBondedtoSelection24 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections "exbonded 2 to index 0" ... ok testBondedtoSelection25 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections 'exbonded 3 to index 0' for imatinib ... ok testBondedtoSelection26 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections "exbonded 3 to index 0" ... ok testBondedtoSelection27 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections 'bonded 20 to index 0' for imatinib ... ok testBondedtoSelection28 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections "bonded 20 to index 0" ... ok testBondedtoSelection29 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections 'bonded 20 to index 10' for imatinib ... ok testBondedtoSelection3 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections 'exbonded to index 0' for imatinib ... ok testBondedtoSelection30 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections "bonded 20 to index 10" ... ok testBondedtoSelection31 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections 'bonded to index 1000' for imatinib ... ok testBondedtoSelection32 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections "bonded to index 1000" ... ok testBondedtoSelection33 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections 'fragment 0' for imatinib ... ok testBondedtoSelection34 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections "fragment 0" ... ok testBondedtoSelection35 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections 'fragment 1' for imatinib ... ok testBondedtoSelection36 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections "fragment 1" ... ok testBondedtoSelection37 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections 'fragment 0 1 2' for imatinib ... ok testBondedtoSelection38 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections "fragment 0 1 2" ... ok testBondedtoSelection39 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections 'fragindex 0 1 2' for imatinib ... ok testBondedtoSelection4 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections "exbonded to index 0" ... ok testBondedtoSelection40 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections "fragindex 0 1 2" ... ok testBondedtoSelection41 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections 'fragindex 0:2' for imatinib ... ok testBondedtoSelection42 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections "fragindex 0:2" ... ok testBondedtoSelection5 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections 'bonded to index 67' for imatinib ... ok testBondedtoSelection6 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections "bonded to index 67" ... ok testBondedtoSelection7 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections 'exbonded to index 67' for imatinib ... ok testBondedtoSelection8 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections "exbonded to index 67" ... ok testBondedtoSelection9 (prody.tests.atomic.test_select.TestSelect) Test bondedto selections 'bonded 2 to index 0' for imatinib ... ok testComparisonsSelection1 (prody.tests.atomic.test_select.TestSelect) Test comparisons selections 'x = -51.659' for pdb3mht ... ok testComparisonsSelection10 (prody.tests.atomic.test_select.TestSelect) Test comparisons selections "beta > 10" ... ok testComparisonsSelection11 (prody.tests.atomic.test_select.TestSelect) Test comparisons selections 'beta < 10' for pdb3mht ... ok testComparisonsSelection12 (prody.tests.atomic.test_select.TestSelect) Test comparisons selections "beta < 10" ... ok testComparisonsSelection13 (prody.tests.atomic.test_select.TestSelect) Test comparisons selections 'occupancy > 0.999999' for pdb3mht ... ok testComparisonsSelection14 (prody.tests.atomic.test_select.TestSelect) Test comparisons selections "occupancy > 0.999999" ... ok testComparisonsSelection15 (prody.tests.atomic.test_select.TestSelect) Test comparisons selections '-10 <= x < 0' for pdb3mht ... ok testComparisonsSelection16 (prody.tests.atomic.test_select.TestSelect) Test comparisons selections "-10 <= x < 0" ... ok testComparisonsSelection17 (prody.tests.atomic.test_select.TestSelect) Test comparisons selections '11 > 10' for pdb3mht ... ok testComparisonsSelection18 (prody.tests.atomic.test_select.TestSelect) Test comparisons selections "11 > 10" ... ok testComparisonsSelection19 (prody.tests.atomic.test_select.TestSelect) Test comparisons selections 'radius > 10' for pdb3mht ... ok testComparisonsSelection2 (prody.tests.atomic.test_select.TestSelect) Test comparisons selections "x = -51.659" ... ok testComparisonsSelection20 (prody.tests.atomic.test_select.TestSelect) Test comparisons selections "radius > 10" ... ok testComparisonsSelection21 (prody.tests.atomic.test_select.TestSelect) Test comparisons selections 'chain = A' for pdb3mht ... ok testComparisonsSelection22 (prody.tests.atomic.test_select.TestSelect) Test comparisons selections "chain = A" ... ok testComparisonsSelection23 (prody.tests.atomic.test_select.TestSelect) Test comparisons selections 'x x < 1' for pdb3mht ... ok testComparisonsSelection24 (prody.tests.atomic.test_select.TestSelect) Test comparisons selections "x x < 1" ... ok testComparisonsSelection25 (prody.tests.atomic.test_select.TestSelect) Test comparisons selections 'name < 1' for pdb3mht ... ok testComparisonsSelection26 (prody.tests.atomic.test_select.TestSelect) Test comparisons selections "name < 1" ... ok testComparisonsSelection3 (prody.tests.atomic.test_select.TestSelect) Test comparisons selections 'x != -51.659' for pdb3mht ... ok testComparisonsSelection4 (prody.tests.atomic.test_select.TestSelect) Test comparisons selections "x != -51.659" ... ok testComparisonsSelection5 (prody.tests.atomic.test_select.TestSelect) Test comparisons selections 'z >= 82.813' for pdb3mht ... ok testComparisonsSelection6 (prody.tests.atomic.test_select.TestSelect) Test comparisons selections "z >= 82.813" ... ok testComparisonsSelection7 (prody.tests.atomic.test_select.TestSelect) Test comparisons selections 'z < 82.813' for pdb3mht ... ok testComparisonsSelection8 (prody.tests.atomic.test_select.TestSelect) Test comparisons selections "z < 82.813" ... ok testComparisonsSelection9 (prody.tests.atomic.test_select.TestSelect) Test comparisons selections 'beta > 10' for pdb3mht ... ok testCompositeSelection1 (prody.tests.atomic.test_select.TestSelect) Test composite selections 'chain x y z C and x 10' for pdb3mht ... ok testCompositeSelection10 (prody.tests.atomic.test_select.TestSelect) Test composite selections "water and within 5 of not protein" ... ok testCompositeSelection11 (prody.tests.atomic.test_select.TestSelect) Test composite selections 'backbone and sqrt((x - 25)**2 + (y - 74)**2 + (z - 13)**2) <= 500' for pdb3mht ... ok testCompositeSelection12 (prody.tests.atomic.test_select.TestSelect) Test composite selections "backbone and sqrt((x - 25)**2 + (y - 74)**2 + (z - 13)**2) <= 500" ... ok testCompositeSelection13 (prody.tests.atomic.test_select.TestSelect) Test composite selections '(not resname SAH) and (protein and name CA) or (nucleic and name P)' for pdb3mht ... ok testCompositeSelection14 (prody.tests.atomic.test_select.TestSelect) Test composite selections "(not resname SAH) and (protein and name CA) or (nucleic and name P)" ... ok testCompositeSelection15 (prody.tests.atomic.test_select.TestSelect) Test composite selections 'protein and (backbone or name H)' for pdb3mht ... ok testCompositeSelection16 (prody.tests.atomic.test_select.TestSelect) Test composite selections "protein and (backbone or name H)" ... ok testCompositeSelection17 (prody.tests.atomic.test_select.TestSelect) Test composite selections 'same residue as within 4 of and resname SAH' for pdb3mht ... ok testCompositeSelection18 (prody.tests.atomic.test_select.TestSelect) Test composite selections "same residue as within 4 of and resname SAH" ... ok testCompositeSelection19 (prody.tests.atomic.test_select.TestSelect) Test composite selections 'protein and name CA CB and same residue as ((x+21.2)**2 + (y-35.9)**2 + (z-80.0)**2)**0.5 < 10' for pdb3mht ... ok testCompositeSelection2 (prody.tests.atomic.test_select.TestSelect) Test composite selections "chain x y z C and x 10" ... ok testCompositeSelection20 (prody.tests.atomic.test_select.TestSelect) Test composite selections "protein and name CA CB and same residue as ((x+21.2)**2 + (y-35.9)**2 + (z-80.0)**2)**0.5 < 10" ... ok testCompositeSelection3 (prody.tests.atomic.test_select.TestSelect) Test composite selections 'resnum `1` `2`' for pdb3mht ... ok testCompositeSelection4 (prody.tests.atomic.test_select.TestSelect) Test composite selections "resnum `1` `2`" ... ok testCompositeSelection5 (prody.tests.atomic.test_select.TestSelect) Test composite selections 'same residue as within 4 of resname SAH' for pdb3mht ... ok testCompositeSelection6 (prody.tests.atomic.test_select.TestSelect) Test composite selections "same residue as within 4 of resname SAH" ... ok testCompositeSelection7 (prody.tests.atomic.test_select.TestSelect) Test composite selections 'name CA and same residue as within 4 of resname SAH' for pdb3mht ... ok testCompositeSelection8 (prody.tests.atomic.test_select.TestSelect) Test composite selections "name CA and same residue as within 4 of resname SAH" ... ok testCompositeSelection9 (prody.tests.atomic.test_select.TestSelect) Test composite selections 'water and within 5 of not protein' for pdb3mht ... ok testDocexamplesSelection1 (prody.tests.atomic.test_select.TestSelect) Test docexamples selections 'serial 1 2 3' for pdb3mht ... ok testDocexamplesSelection10 (prody.tests.atomic.test_select.TestSelect) Test docexamples selections "beta 555.55" ... ok testDocexamplesSelection11 (prody.tests.atomic.test_select.TestSelect) Test docexamples selections 'beta 1 to 500' for pdb3mht ... ok testDocexamplesSelection12 (prody.tests.atomic.test_select.TestSelect) Test docexamples selections "beta 1 to 500" ... ok testDocexamplesSelection13 (prody.tests.atomic.test_select.TestSelect) Test docexamples selections 'beta 1:500' for pdb3mht ... ok testDocexamplesSelection14 (prody.tests.atomic.test_select.TestSelect) Test docexamples selections "beta 1:500" ... ok testDocexamplesSelection15 (prody.tests.atomic.test_select.TestSelect) Test docexamples selections 'beta < 500' for pdb3mht ... ok testDocexamplesSelection16 (prody.tests.atomic.test_select.TestSelect) Test docexamples selections "beta < 500" ... ok testDocexamplesSelection17 (prody.tests.atomic.test_select.TestSelect) Test docexamples selections 'resnum 120A 120B' for pdb3mht ... ok testDocexamplesSelection18 (prody.tests.atomic.test_select.TestSelect) Test docexamples selections "resnum 120A 120B" ... ok testDocexamplesSelection19 (prody.tests.atomic.test_select.TestSelect) Test docexamples selections 'icode A' for pdb3mht ... ok testDocexamplesSelection2 (prody.tests.atomic.test_select.TestSelect) Test docexamples selections "serial 1 2 3" ... ok testDocexamplesSelection20 (prody.tests.atomic.test_select.TestSelect) Test docexamples selections "icode A" ... ok testDocexamplesSelection21 (prody.tests.atomic.test_select.TestSelect) Test docexamples selections 'icode _' for pdb3mht ... ok testDocexamplesSelection22 (prody.tests.atomic.test_select.TestSelect) Test docexamples selections "icode _" ... ok testDocexamplesSelection23 (prody.tests.atomic.test_select.TestSelect) Test docexamples selections 'charge 1' for pdb3mht ... ok testDocexamplesSelection24 (prody.tests.atomic.test_select.TestSelect) Test docexamples selections "charge 1" ... ok testDocexamplesSelection25 (prody.tests.atomic.test_select.TestSelect) Test docexamples selections 'abs(charge) == 1' for pdb3mht ... ok testDocexamplesSelection26 (prody.tests.atomic.test_select.TestSelect) Test docexamples selections "abs(charge) == 1" ... ok testDocexamplesSelection27 (prody.tests.atomic.test_select.TestSelect) Test docexamples selections 'charge < 0' for pdb3mht ... ok testDocexamplesSelection28 (prody.tests.atomic.test_select.TestSelect) Test docexamples selections "charge < 0" ... ok testDocexamplesSelection29 (prody.tests.atomic.test_select.TestSelect) Test docexamples selections '0 < mass < 500' for pdb3mht ... ok testDocexamplesSelection3 (prody.tests.atomic.test_select.TestSelect) Test docexamples selections 'serial 1 to 10' for pdb3mht ... ok testDocexamplesSelection30 (prody.tests.atomic.test_select.TestSelect) Test docexamples selections "0 < mass < 500" ... ok testDocexamplesSelection31 (prody.tests.atomic.test_select.TestSelect) Test docexamples selections 'abs(mass) <= mass <= 10' for pdb3mht ... ok testDocexamplesSelection32 (prody.tests.atomic.test_select.TestSelect) Test docexamples selections "abs(mass) <= mass <= 10" ... ok testDocexamplesSelection4 (prody.tests.atomic.test_select.TestSelect) Test docexamples selections "serial 1 to 10" ... ok testDocexamplesSelection5 (prody.tests.atomic.test_select.TestSelect) Test docexamples selections 'serial 1:10:2' for pdb3mht ... ok testDocexamplesSelection6 (prody.tests.atomic.test_select.TestSelect) Test docexamples selections "serial 1:10:2" ... ok testDocexamplesSelection7 (prody.tests.atomic.test_select.TestSelect) Test docexamples selections 'serial < 10' for pdb3mht ... ok testDocexamplesSelection8 (prody.tests.atomic.test_select.TestSelect) Test docexamples selections "serial < 10" ... ok testDocexamplesSelection9 (prody.tests.atomic.test_select.TestSelect) Test docexamples selections 'beta 555.55' for pdb3mht ... ok testEquivalentSelection1 (prody.tests.atomic.test_select.TestSelect) Test equivalent selections 'chain C' for pdb3mht ... ok testEquivalentSelection2 (prody.tests.atomic.test_select.TestSelect) Test equivalent selections "chain C" ... ok testEquivalentSelection3 (prody.tests.atomic.test_select.TestSelect) Test equivalent selections 'chain C' for pdb3mht ... ok testEquivalentSelection4 (prody.tests.atomic.test_select.TestSelect) Test equivalent selections "chain C" ... ok testEquivalentSelection5 (prody.tests.atomic.test_select.TestSelect) Test equivalent selections 'nucleic' for pdb3mht ... ok testEquivalentSelection6 (prody.tests.atomic.test_select.TestSelect) Test equivalent selections "nucleic" ... ok testFlagsSelection1 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'none' for pdb3mht ... ok testFlagsSelection10 (prody.tests.atomic.test_select.TestSelect) Test flags selections "aliphatic" ... ok testFlagsSelection100 (prody.tests.atomic.test_select.TestSelect) Test flags selections "bridge" ... ok testFlagsSelection101 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'bend' for pdb3mht ... ok testFlagsSelection102 (prody.tests.atomic.test_select.TestSelect) Test flags selections "bend" ... ok testFlagsSelection103 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'coil' for pdb3mht ... ok testFlagsSelection104 (prody.tests.atomic.test_select.TestSelect) Test flags selections "coil" ... ok testFlagsSelection11 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'aromatic' for pdb3mht ... ok testFlagsSelection12 (prody.tests.atomic.test_select.TestSelect) Test flags selections "aromatic" ... ok testFlagsSelection13 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'at' for pdb3mht ... ok testFlagsSelection14 (prody.tests.atomic.test_select.TestSelect) Test flags selections "at" ... ok testFlagsSelection15 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'basic' for pdb3mht ... ok testFlagsSelection16 (prody.tests.atomic.test_select.TestSelect) Test flags selections "basic" ... ok testFlagsSelection17 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'buried' for pdb3mht ... ok testFlagsSelection18 (prody.tests.atomic.test_select.TestSelect) Test flags selections "buried" ... ok testFlagsSelection19 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'cg' for pdb3mht ... ok testFlagsSelection2 (prody.tests.atomic.test_select.TestSelect) Test flags selections "none" ... ok testFlagsSelection20 (prody.tests.atomic.test_select.TestSelect) Test flags selections "cg" ... ok testFlagsSelection21 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'charged' for pdb3mht ... ok testFlagsSelection22 (prody.tests.atomic.test_select.TestSelect) Test flags selections "charged" ... ok testFlagsSelection23 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'cyclic' for pdb3mht ... ok testFlagsSelection24 (prody.tests.atomic.test_select.TestSelect) Test flags selections "cyclic" ... ok testFlagsSelection25 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'heme' for pdb3mht ... ok testFlagsSelection26 (prody.tests.atomic.test_select.TestSelect) Test flags selections "heme" ... ok testFlagsSelection27 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'hydrophobic' for pdb3mht ... ok testFlagsSelection28 (prody.tests.atomic.test_select.TestSelect) Test flags selections "hydrophobic" ... ok testFlagsSelection29 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'ion' for pdb3mht ... ok testFlagsSelection3 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'all' for pdb3mht ... ok testFlagsSelection30 (prody.tests.atomic.test_select.TestSelect) Test flags selections "ion" ... ok testFlagsSelection31 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'large' for pdb3mht ... ok testFlagsSelection32 (prody.tests.atomic.test_select.TestSelect) Test flags selections "large" ... ok testFlagsSelection33 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'lipid' for pdb3mht ... ok testFlagsSelection34 (prody.tests.atomic.test_select.TestSelect) Test flags selections "lipid" ... ok testFlagsSelection35 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'medium' for pdb3mht ... ok testFlagsSelection36 (prody.tests.atomic.test_select.TestSelect) Test flags selections "medium" ... ok testFlagsSelection37 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'neutral' for pdb3mht ... ok testFlagsSelection38 (prody.tests.atomic.test_select.TestSelect) Test flags selections "neutral" ... ok testFlagsSelection39 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'nucleic' for pdb3mht ... ok testFlagsSelection4 (prody.tests.atomic.test_select.TestSelect) Test flags selections "all" ... ok testFlagsSelection40 (prody.tests.atomic.test_select.TestSelect) Test flags selections "nucleic" ... ok testFlagsSelection41 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'nucleotide' for pdb3mht ... ok testFlagsSelection42 (prody.tests.atomic.test_select.TestSelect) Test flags selections "nucleotide" ... ok testFlagsSelection43 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'nucleobase' for pdb3mht ... ok testFlagsSelection44 (prody.tests.atomic.test_select.TestSelect) Test flags selections "nucleobase" ... ok testFlagsSelection45 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'nucleoside' for pdb3mht ... ok testFlagsSelection46 (prody.tests.atomic.test_select.TestSelect) Test flags selections "nucleoside" ... ok testFlagsSelection47 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'polar' for pdb3mht ... ok testFlagsSelection48 (prody.tests.atomic.test_select.TestSelect) Test flags selections "polar" ... ok testFlagsSelection49 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'protein' for pdb3mht ... ok testFlagsSelection5 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'acidic' for pdb3mht ... ok testFlagsSelection50 (prody.tests.atomic.test_select.TestSelect) Test flags selections "protein" ... ok testFlagsSelection51 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'stdaa' for pdb3mht ... ok testFlagsSelection52 (prody.tests.atomic.test_select.TestSelect) Test flags selections "stdaa" ... ok testFlagsSelection53 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'nonstdaa' for pdb3mht ... ok testFlagsSelection54 (prody.tests.atomic.test_select.TestSelect) Test flags selections "nonstdaa" ... ok testFlagsSelection55 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'purine' for pdb3mht ... ok testFlagsSelection56 (prody.tests.atomic.test_select.TestSelect) Test flags selections "purine" ... ok testFlagsSelection57 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'pyrimidine' for pdb3mht ... ok testFlagsSelection58 (prody.tests.atomic.test_select.TestSelect) Test flags selections "pyrimidine" ... ok testFlagsSelection59 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'small' for pdb3mht ... ok testFlagsSelection6 (prody.tests.atomic.test_select.TestSelect) Test flags selections "acidic" ... ok testFlagsSelection60 (prody.tests.atomic.test_select.TestSelect) Test flags selections "small" ... ok testFlagsSelection61 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'sugar' for pdb3mht ... ok testFlagsSelection62 (prody.tests.atomic.test_select.TestSelect) Test flags selections "sugar" ... ok testFlagsSelection63 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'surface' for pdb3mht ... ok testFlagsSelection64 (prody.tests.atomic.test_select.TestSelect) Test flags selections "surface" ... ok testFlagsSelection65 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'water' for pdb3mht ... ok testFlagsSelection66 (prody.tests.atomic.test_select.TestSelect) Test flags selections "water" ... ok testFlagsSelection67 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'hetero' for pdb3mht ... ok testFlagsSelection68 (prody.tests.atomic.test_select.TestSelect) Test flags selections "hetero" ... ok testFlagsSelection69 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'hetatm' for pdb3mht ... ok testFlagsSelection7 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'acyclic' for pdb3mht ... ok testFlagsSelection70 (prody.tests.atomic.test_select.TestSelect) Test flags selections "hetatm" ... ok testFlagsSelection71 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'calpha' for pdb3mht ... ok testFlagsSelection72 (prody.tests.atomic.test_select.TestSelect) Test flags selections "calpha" ... ok testFlagsSelection73 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'backbone' for pdb3mht ... ok testFlagsSelection74 (prody.tests.atomic.test_select.TestSelect) Test flags selections "backbone" ... ok testFlagsSelection75 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'backbonefull' for pdb3mht ... ok testFlagsSelection76 (prody.tests.atomic.test_select.TestSelect) Test flags selections "backbonefull" ... ok testFlagsSelection77 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'sidechain' for pdb3mht ... ok testFlagsSelection78 (prody.tests.atomic.test_select.TestSelect) Test flags selections "sidechain" ... ok testFlagsSelection79 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'carbon' for pdb3mht ... ok testFlagsSelection8 (prody.tests.atomic.test_select.TestSelect) Test flags selections "acyclic" ... ok testFlagsSelection80 (prody.tests.atomic.test_select.TestSelect) Test flags selections "carbon" ... ok testFlagsSelection81 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'hydrogen' for pdb3mht ... ok testFlagsSelection82 (prody.tests.atomic.test_select.TestSelect) Test flags selections "hydrogen" ... ok testFlagsSelection83 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'noh' for pdb3mht ... ok testFlagsSelection84 (prody.tests.atomic.test_select.TestSelect) Test flags selections "noh" ... ok testFlagsSelection85 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'nitrogen' for pdb3mht ... ok testFlagsSelection86 (prody.tests.atomic.test_select.TestSelect) Test flags selections "nitrogen" ... ok testFlagsSelection87 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'oxygen' for pdb3mht ... ok testFlagsSelection88 (prody.tests.atomic.test_select.TestSelect) Test flags selections "oxygen" ... ok testFlagsSelection89 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'sulfur' for pdb3mht ... ok testFlagsSelection9 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'aliphatic' for pdb3mht ... ok testFlagsSelection90 (prody.tests.atomic.test_select.TestSelect) Test flags selections "sulfur" ... ok testFlagsSelection91 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'extended' for pdb3mht ... ok testFlagsSelection92 (prody.tests.atomic.test_select.TestSelect) Test flags selections "extended" ... ok testFlagsSelection93 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'helix' for pdb3mht ... ok testFlagsSelection94 (prody.tests.atomic.test_select.TestSelect) Test flags selections "helix" ... ok testFlagsSelection95 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'helix310' for pdb3mht ... ok testFlagsSelection96 (prody.tests.atomic.test_select.TestSelect) Test flags selections "helix310" ... ok testFlagsSelection97 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'turn' for pdb3mht ... ok testFlagsSelection98 (prody.tests.atomic.test_select.TestSelect) Test flags selections "turn" ... ok testFlagsSelection99 (prody.tests.atomic.test_select.TestSelect) Test flags selections 'bridge' for pdb3mht ... ok testFloatSelection1 (prody.tests.atomic.test_select.TestSelect) Test float selections 'beta 5.0 41.15 11.85' for pdb3mht ... ok testFloatSelection10 (prody.tests.atomic.test_select.TestSelect) Test float selections "z 115.246 45.784" ... ok testFloatSelection11 (prody.tests.atomic.test_select.TestSelect) Test float selections 'charge 0' for pdb3mht ... ok testFloatSelection12 (prody.tests.atomic.test_select.TestSelect) Test float selections "charge 0" ... ok testFloatSelection13 (prody.tests.atomic.test_select.TestSelect) Test float selections 'mass 1' for pdb3mht ... ok testFloatSelection14 (prody.tests.atomic.test_select.TestSelect) Test float selections "mass 1" ... ok testFloatSelection15 (prody.tests.atomic.test_select.TestSelect) Test float selections 'radius 0' for pdb3mht ... ok testFloatSelection16 (prody.tests.atomic.test_select.TestSelect) Test float selections "radius 0" ... ok testFloatSelection17 (prody.tests.atomic.test_select.TestSelect) Test float selections 'beta "1."' for pdb3mht ... ok testFloatSelection18 (prody.tests.atomic.test_select.TestSelect) Test float selections "beta "1."" ... ok testFloatSelection19 (prody.tests.atomic.test_select.TestSelect) Test float selections 'beta = "1."' for pdb3mht ... ok testFloatSelection2 (prody.tests.atomic.test_select.TestSelect) Test float selections "beta 5.0 41.15 11.85" ... ok testFloatSelection20 (prody.tests.atomic.test_select.TestSelect) Test float selections "beta = "1."" ... ok testFloatSelection3 (prody.tests.atomic.test_select.TestSelect) Test float selections 'occupancy 1.0' for pdb3mht ... ok testFloatSelection4 (prody.tests.atomic.test_select.TestSelect) Test float selections "occupancy 1.0" ... ok testFloatSelection5 (prody.tests.atomic.test_select.TestSelect) Test float selections 'x 6.665' for pdb3mht ... ok testFloatSelection6 (prody.tests.atomic.test_select.TestSelect) Test float selections "x 6.665" ... ok testFloatSelection7 (prody.tests.atomic.test_select.TestSelect) Test float selections 'y 69.99 13.314' for pdb3mht ... ok testFloatSelection8 (prody.tests.atomic.test_select.TestSelect) Test float selections "y 69.99 13.314" ... ok testFloatSelection9 (prody.tests.atomic.test_select.TestSelect) Test float selections 'z 115.246 45.784' for pdb3mht ... ok testFunctionSelection1 (prody.tests.atomic.test_select.TestSelect) Test function selections 'sqrt(x**2 + y**2 + z**2) < 100' for pdb3mht ... ok testFunctionSelection10 (prody.tests.atomic.test_select.TestSelect) Test function selections "ceil(beta) == 10" ... ok testFunctionSelection11 (prody.tests.atomic.test_select.TestSelect) Test function selections 'floor(beta) == 10' for pdb3mht ... ok testFunctionSelection12 (prody.tests.atomic.test_select.TestSelect) Test function selections "floor(beta) == 10" ... ok testFunctionSelection13 (prody.tests.atomic.test_select.TestSelect) Test function selections 'abs(x) == sqrt(sq(x))' for pdb3mht ... FAIL testFunctionSelection14 (prody.tests.atomic.test_select.TestSelect) Test function selections "abs(x) == sqrt(sq(x))" ... FAIL testFunctionSelection15 (prody.tests.atomic.test_select.TestSelect) Test function selections 'sq(x-5)+sq(y+4)+sq(z) > sq(100)' for pdb3mht ... ok testFunctionSelection16 (prody.tests.atomic.test_select.TestSelect) Test function selections "sq(x-5)+sq(y+4)+sq(z) > sq(100)" ... ok testFunctionSelection17 (prody.tests.atomic.test_select.TestSelect) Test function selections '1 > sq(occ)' for pdb3mht ... ok testFunctionSelection18 (prody.tests.atomic.test_select.TestSelect) Test function selections "1 > sq(occ)" ... ok testFunctionSelection19 (prody.tests.atomic.test_select.TestSelect) Test function selections 'sq(x x) > 1' for pdb3mht ... ok testFunctionSelection2 (prody.tests.atomic.test_select.TestSelect) Test function selections "sqrt(x**2 + y**2 + z**2) < 100" ... ok testFunctionSelection20 (prody.tests.atomic.test_select.TestSelect) Test function selections "sq(x x) > 1" ... ok testFunctionSelection3 (prody.tests.atomic.test_select.TestSelect) Test function selections 'sqrt(x**2 + y**2 + z**2) == (x**2 + y**2 + z**2) ** 0.5' for pdb3mht ... ok testFunctionSelection4 (prody.tests.atomic.test_select.TestSelect) Test function selections "sqrt(x**2 + y**2 + z**2) == (x**2 + y**2 + z**2) ** 0.5" ... ok testFunctionSelection5 (prody.tests.atomic.test_select.TestSelect) Test function selections 'beta % 3 < 1' for pdb3mht ... ok testFunctionSelection6 (prody.tests.atomic.test_select.TestSelect) Test function selections "beta % 3 < 1" ... ok testFunctionSelection7 (prody.tests.atomic.test_select.TestSelect) Test function selections 'beta % 4 % 3 < 1' for pdb3mht ... ok testFunctionSelection8 (prody.tests.atomic.test_select.TestSelect) Test function selections "beta % 4 % 3 < 1" ... ok testFunctionSelection9 (prody.tests.atomic.test_select.TestSelect) Test function selections 'ceil(beta) == 10' for pdb3mht ... ok testIntegerSelection1 (prody.tests.atomic.test_select.TestSelect) Test integer selections 'index 10 20 10000' for pdb3mht ... ok testIntegerSelection10 (prody.tests.atomic.test_select.TestSelect) Test integer selections "resnum 100 105" ... ok testIntegerSelection11 (prody.tests.atomic.test_select.TestSelect) Test integer selections 'resid 0' for pdb3mht ... ok testIntegerSelection12 (prody.tests.atomic.test_select.TestSelect) Test integer selections "resid 0" ... ok testIntegerSelection13 (prody.tests.atomic.test_select.TestSelect) Test integer selections 'resid 100 105' for pdb3mht ... ok testIntegerSelection14 (prody.tests.atomic.test_select.TestSelect) Test integer selections "resid 100 105" ... ok testIntegerSelection15 (prody.tests.atomic.test_select.TestSelect) Test integer selections 'resid 100 A 105' for pdb3mht ... ok testIntegerSelection16 (prody.tests.atomic.test_select.TestSelect) Test integer selections "resid 100 A 105" ... ok testIntegerSelection17 (prody.tests.atomic.test_select.TestSelect) Test integer selections 'fragindex 0' for pdb3mht ... ok testIntegerSelection18 (prody.tests.atomic.test_select.TestSelect) Test integer selections "fragindex 0" ... ok testIntegerSelection19 (prody.tests.atomic.test_select.TestSelect) Test integer selections 'fragment 0' for pdb3mht ... ok testIntegerSelection2 (prody.tests.atomic.test_select.TestSelect) Test integer selections "index 10 20 10000" ... ok testIntegerSelection20 (prody.tests.atomic.test_select.TestSelect) Test integer selections "fragment 0" ... ok testIntegerSelection3 (prody.tests.atomic.test_select.TestSelect) Test integer selections 'serial 0' for pdb3mht ... ok testIntegerSelection4 (prody.tests.atomic.test_select.TestSelect) Test integer selections "serial 0" ... ok testIntegerSelection5 (prody.tests.atomic.test_select.TestSelect) Test integer selections 'serial 1 2' for pdb3mht ... ok testIntegerSelection6 (prody.tests.atomic.test_select.TestSelect) Test integer selections "serial 1 2" ... ok testIntegerSelection7 (prody.tests.atomic.test_select.TestSelect) Test integer selections 'resnum 0' for pdb3mht ... ok testIntegerSelection8 (prody.tests.atomic.test_select.TestSelect) Test integer selections "resnum 0" ... ok testIntegerSelection9 (prody.tests.atomic.test_select.TestSelect) Test integer selections 'resnum 100 105' for pdb3mht ... ok testInvalidSelection1 (prody.tests.atomic.test_select.TestSelect) Test invalid selections 'chain C and and chain C' for pdb3mht ... ok testInvalidSelection10 (prody.tests.atomic.test_select.TestSelect) Test invalid selections "sqr(x-5)+sqr(y+4)+sqr(z) > sqr(100)" ... ok testInvalidSelection11 (prody.tests.atomic.test_select.TestSelect) Test invalid selections 'x > sq(calpha)' for pdb3mht ... ok testInvalidSelection12 (prody.tests.atomic.test_select.TestSelect) Test invalid selections "x > sq(calpha)" ... ok testInvalidSelection13 (prody.tests.atomic.test_select.TestSelect) Test invalid selections 'x > sq(name CA and resname ALA)' for pdb3mht ... ok testInvalidSelection14 (prody.tests.atomic.test_select.TestSelect) Test invalid selections "x > sq(name CA and resname ALA)" ... ok testInvalidSelection15 (prody.tests.atomic.test_select.TestSelect) Test invalid selections 'resname ALA and +1' for pdb3mht ... ok testInvalidSelection16 (prody.tests.atomic.test_select.TestSelect) Test invalid selections "resname ALA and +1" ... ok testInvalidSelection2 (prody.tests.atomic.test_select.TestSelect) Test invalid selections "chain C and and chain C" ... ok testInvalidSelection3 (prody.tests.atomic.test_select.TestSelect) Test invalid selections 'chain C or or chain D' for pdb3mht ... ok testInvalidSelection4 (prody.tests.atomic.test_select.TestSelect) Test invalid selections "chain C or or chain D" ... ok testInvalidSelection5 (prody.tests.atomic.test_select.TestSelect) Test invalid selections 'chain C or not or chain D' for pdb3mht ... ok testInvalidSelection6 (prody.tests.atomic.test_select.TestSelect) Test invalid selections "chain C or not or chain D" ... ok testInvalidSelection7 (prody.tests.atomic.test_select.TestSelect) Test invalid selections 'chain C + 3' for pdb3mht ... ok testInvalidSelection8 (prody.tests.atomic.test_select.TestSelect) Test invalid selections "chain C + 3" ... ok testInvalidSelection9 (prody.tests.atomic.test_select.TestSelect) Test invalid selections 'sqr(x-5)+sqr(y+4)+sqr(z) > sqr(100)' for pdb3mht ... ok testKwargsSelection1 (prody.tests.atomic.test_select.TestSelect) Test kwargs selections 'within 100 of origin' for pdb3mht ... ok testKwargsSelection10 (prody.tests.atomic.test_select.TestSelect) Test kwargs selections "within 100 of none" ... ok testKwargsSelection2 (prody.tests.atomic.test_select.TestSelect) Test kwargs selections "within 100 of origin" ... ok testKwargsSelection3 (prody.tests.atomic.test_select.TestSelect) Test kwargs selections 'within 100 of origin' for pdb3mht ... ok testKwargsSelection4 (prody.tests.atomic.test_select.TestSelect) Test kwargs selections "within 100 of origin" ... ok testKwargsSelection5 (prody.tests.atomic.test_select.TestSelect) Test kwargs selections 'within 100 of origin' for pdb3mht ... ok testKwargsSelection6 (prody.tests.atomic.test_select.TestSelect) Test kwargs selections "within 100 of origin" ... ok testKwargsSelection7 (prody.tests.atomic.test_select.TestSelect) Test kwargs selections 'within 100 of origin' for pdb3mht ... ok testKwargsSelection8 (prody.tests.atomic.test_select.TestSelect) Test kwargs selections "within 100 of origin" ... ok testKwargsSelection9 (prody.tests.atomic.test_select.TestSelect) Test kwargs selections 'within 100 of none' for pdb3mht ... ok testLogicalSelection1 (prody.tests.atomic.test_select.TestSelect) Test logical selections 'name or name' for pdb3mht ... ok testLogicalSelection10 (prody.tests.atomic.test_select.TestSelect) Test logical selections "index 0 or index 1 " ... ok testLogicalSelection11 (prody.tests.atomic.test_select.TestSelect) Test logical selections 'not not not not index 1' for pdb3mht ... ok testLogicalSelection12 (prody.tests.atomic.test_select.TestSelect) Test logical selections "not not not not index 1" ... ok testLogicalSelection13 (prody.tests.atomic.test_select.TestSelect) Test logical selections 'index 0 or index 1 or index 2' for pdb3mht ... ok testLogicalSelection14 (prody.tests.atomic.test_select.TestSelect) Test logical selections "index 0 or index 1 or index 2" ... ok testLogicalSelection15 (prody.tests.atomic.test_select.TestSelect) Test logical selections 'index 0 or index 1 or index 2 or index 4' for pdb3mht ... ok testLogicalSelection16 (prody.tests.atomic.test_select.TestSelect) Test logical selections "index 0 or index 1 or index 2 or index 4" ... ok testLogicalSelection17 (prody.tests.atomic.test_select.TestSelect) Test logical selections 'index 0 and index 1 ' for pdb3mht ... ok testLogicalSelection18 (prody.tests.atomic.test_select.TestSelect) Test logical selections "index 0 and index 1 " ... ok testLogicalSelection19 (prody.tests.atomic.test_select.TestSelect) Test logical selections 'index < 50 and index < 5' for pdb3mht ... ok testLogicalSelection2 (prody.tests.atomic.test_select.TestSelect) Test logical selections "name or name" ... ok testLogicalSelection20 (prody.tests.atomic.test_select.TestSelect) Test logical selections "index < 50 and index < 5" ... ok testLogicalSelection21 (prody.tests.atomic.test_select.TestSelect) Test logical selections 'index < 50 and index < 25 and index < 5' for pdb3mht ... ok testLogicalSelection22 (prody.tests.atomic.test_select.TestSelect) Test logical selections "index < 50 and index < 25 and index < 5" ... ok testLogicalSelection23 (prody.tests.atomic.test_select.TestSelect) Test logical selections 'index < 5 and index < 25 and index < 50' for pdb3mht ... ok testLogicalSelection24 (prody.tests.atomic.test_select.TestSelect) Test logical selections "index < 5 and index < 25 and index < 50" ... ok testLogicalSelection25 (prody.tests.atomic.test_select.TestSelect) Test logical selections 'index 0 to 5 and index 0 to 25 and index 0 to 50' for pdb3mht ... ok testLogicalSelection26 (prody.tests.atomic.test_select.TestSelect) Test logical selections "index 0 to 5 and index 0 to 25 and index 0 to 50" ... ok testLogicalSelection27 (prody.tests.atomic.test_select.TestSelect) Test logical selections 'index < 5 and index < 25 and index < 50 or index < 50 or index < 5' for pdb3mht ... ok testLogicalSelection28 (prody.tests.atomic.test_select.TestSelect) Test logical selections "index < 5 and index < 25 and index < 50 or index < 50 or index < 5" ... ok testLogicalSelection3 (prody.tests.atomic.test_select.TestSelect) Test logical selections 'name and name' for pdb3mht ... ok testLogicalSelection4 (prody.tests.atomic.test_select.TestSelect) Test logical selections "name and name" ... ok testLogicalSelection5 (prody.tests.atomic.test_select.TestSelect) Test logical selections 'name CA and name CA' for pdb3mht ... ok testLogicalSelection6 (prody.tests.atomic.test_select.TestSelect) Test logical selections "name CA and name CA" ... ok testLogicalSelection7 (prody.tests.atomic.test_select.TestSelect) Test logical selections 'name CA or name CA' for pdb3mht ... ok testLogicalSelection8 (prody.tests.atomic.test_select.TestSelect) Test logical selections "name CA or name CA" ... ok testLogicalSelection9 (prody.tests.atomic.test_select.TestSelect) Test logical selections 'index 0 or index 1 ' for pdb3mht ... ok testOperationSelection1 (prody.tests.atomic.test_select.TestSelect) Test operation selections 'x ** 2 < 10' for pdb3mht ... ok testOperationSelection10 (prody.tests.atomic.test_select.TestSelect) Test operation selections "x**2 + y**2 + z**2 < 10000" ... ok testOperationSelection2 (prody.tests.atomic.test_select.TestSelect) Test operation selections "x ** 2 < 10" ... ok testOperationSelection3 (prody.tests.atomic.test_select.TestSelect) Test operation selections 'x ** 2 ** 2 ** 2 < 10' for pdb3mht ... ok testOperationSelection4 (prody.tests.atomic.test_select.TestSelect) Test operation selections "x ** 2 ** 2 ** 2 < 10" ... ok testOperationSelection5 (prody.tests.atomic.test_select.TestSelect) Test operation selections 'x ** (+2 ** (+2 ** +2)) < 10' for pdb3mht ... ok testOperationSelection6 (prody.tests.atomic.test_select.TestSelect) Test operation selections "x ** (+2 ** (+2 ** +2)) < 10" ... ok testOperationSelection7 (prody.tests.atomic.test_select.TestSelect) Test operation selections 'occupancy % 2 == 1' for pdb3mht ... ok testOperationSelection8 (prody.tests.atomic.test_select.TestSelect) Test operation selections "occupancy % 2 == 1" ... ok testOperationSelection9 (prody.tests.atomic.test_select.TestSelect) Test operation selections 'x**2 + y**2 + z**2 < 10000' for pdb3mht ... ok testRangeSelection1 (prody.tests.atomic.test_select.TestSelect) Test range selections 'index 0:10' for pdb3mht ... ok testRangeSelection10 (prody.tests.atomic.test_select.TestSelect) Test range selections "resnum 10to15" ... ok testRangeSelection11 (prody.tests.atomic.test_select.TestSelect) Test range selections 'resnum 10:16:1' for pdb3mht ... ok testRangeSelection12 (prody.tests.atomic.test_select.TestSelect) Test range selections "resnum 10:16:1" ... ok testRangeSelection13 (prody.tests.atomic.test_select.TestSelect) Test range selections 'resnum `-3:16:1`' for pdb3mht ... ok testRangeSelection14 (prody.tests.atomic.test_select.TestSelect) Test range selections "resnum `-3:16:1`" ... ok testRangeSelection15 (prody.tests.atomic.test_select.TestSelect) Test range selections 'resid 10to15' for pdb3mht ... ok testRangeSelection16 (prody.tests.atomic.test_select.TestSelect) Test range selections "resid 10to15" ... ok testRangeSelection17 (prody.tests.atomic.test_select.TestSelect) Test range selections 'resid 10:16:1' for pdb3mht ... ok testRangeSelection18 (prody.tests.atomic.test_select.TestSelect) Test range selections "resid 10:16:1" ... ok testRangeSelection19 (prody.tests.atomic.test_select.TestSelect) Test range selections 'x `-10:20`' for pdb3mht ... ok testRangeSelection2 (prody.tests.atomic.test_select.TestSelect) Test range selections "index 0:10" ... ok testRangeSelection20 (prody.tests.atomic.test_select.TestSelect) Test range selections "x `-10:20`" ... ok testRangeSelection21 (prody.tests.atomic.test_select.TestSelect) Test range selections 'x 0:20:1' for pdb3mht ... ok testRangeSelection22 (prody.tests.atomic.test_select.TestSelect) Test range selections "x 0:20:1" ... ok testRangeSelection23 (prody.tests.atomic.test_select.TestSelect) Test range selections 'beta 13.02:13.01' for pdb3mht ... ok testRangeSelection24 (prody.tests.atomic.test_select.TestSelect) Test range selections "beta 13.02:13.01" ... ok testRangeSelection3 (prody.tests.atomic.test_select.TestSelect) Test range selections 'index 0to10' for pdb3mht ... ok testRangeSelection4 (prody.tests.atomic.test_select.TestSelect) Test range selections "index 0to10" ... ok testRangeSelection5 (prody.tests.atomic.test_select.TestSelect) Test range selections 'serial 0:10:2' for pdb3mht ... ok testRangeSelection6 (prody.tests.atomic.test_select.TestSelect) Test range selections "serial 0:10:2" ... ok testRangeSelection7 (prody.tests.atomic.test_select.TestSelect) Test range selections 'serial 0:10:10' for pdb3mht ... ok testRangeSelection8 (prody.tests.atomic.test_select.TestSelect) Test range selections "serial 0:10:10" ... ok testRangeSelection9 (prody.tests.atomic.test_select.TestSelect) Test range selections 'resnum 10to15' for pdb3mht ... ok testRegexpSelection1 (prody.tests.atomic.test_select.TestSelect) Test regexp selections 'resname "S.."' for pdb3mht ... ok testRegexpSelection10 (prody.tests.atomic.test_select.TestSelect) Test regexp selections "name "C((A|B)"" ... ok testRegexpSelection2 (prody.tests.atomic.test_select.TestSelect) Test regexp selections "resname "S.."" ... ok testRegexpSelection3 (prody.tests.atomic.test_select.TestSelect) Test regexp selections 'name "C.*"' for pdb3mht ... ok testRegexpSelection4 (prody.tests.atomic.test_select.TestSelect) Test regexp selections "name "C.*"" ... ok testRegexpSelection5 (prody.tests.atomic.test_select.TestSelect) Test regexp selections 'name ".*\'"' for pdb3mht ... ok testRegexpSelection6 (prody.tests.atomic.test_select.TestSelect) Test regexp selections "name ".*'"" ... ok testRegexpSelection7 (prody.tests.atomic.test_select.TestSelect) Test regexp selections 'name "C(A|B)"' for pdb3mht ... ok testRegexpSelection8 (prody.tests.atomic.test_select.TestSelect) Test regexp selections "name "C(A|B)"" ... ok testRegexpSelection9 (prody.tests.atomic.test_select.TestSelect) Test regexp selections 'name "C((A|B)"' for pdb3mht ... ok testSameasSelection1 (prody.tests.atomic.test_select.TestSelect) Test sameas selections 'same residue as index 0' for pdb3mht ... ok testSameasSelection10 (prody.tests.atomic.test_select.TestSelect) Test sameas selections "same chain as chain C" ... ok testSameasSelection11 (prody.tests.atomic.test_select.TestSelect) Test sameas selections 'same residue as chain X' for pdb3mht ... ok testSameasSelection12 (prody.tests.atomic.test_select.TestSelect) Test sameas selections "same residue as chain X" ... ok testSameasSelection13 (prody.tests.atomic.test_select.TestSelect) Test sameas selections 'same none as chain C' for pdb3mht ... ok testSameasSelection14 (prody.tests.atomic.test_select.TestSelect) Test sameas selections "same none as chain C" ... ok testSameasSelection15 (prody.tests.atomic.test_select.TestSelect) Test sameas selections 'same residue as same residue as same residue as index 0' for pdb3mht ... ok testSameasSelection16 (prody.tests.atomic.test_select.TestSelect) Test sameas selections "same residue as same residue as same residue as index 0" ... ok testSameasSelection2 (prody.tests.atomic.test_select.TestSelect) Test sameas selections "same residue as index 0" ... ok testSameasSelection3 (prody.tests.atomic.test_select.TestSelect) Test sameas selections 'same chain as index 0' for pdb3mht ... ok testSameasSelection4 (prody.tests.atomic.test_select.TestSelect) Test sameas selections "same chain as index 0" ... ok testSameasSelection5 (prody.tests.atomic.test_select.TestSelect) Test sameas selections 'same segment as index 0' for pdb3mht ... ok testSameasSelection6 (prody.tests.atomic.test_select.TestSelect) Test sameas selections "same segment as index 0" ... ok testSameasSelection7 (prody.tests.atomic.test_select.TestSelect) Test sameas selections 'same residue as resname DG ALA' for pdb3mht ... ok testSameasSelection8 (prody.tests.atomic.test_select.TestSelect) Test sameas selections "same residue as resname DG ALA" ... ok testSameasSelection9 (prody.tests.atomic.test_select.TestSelect) Test sameas selections 'same chain as chain C' for pdb3mht ... ok testSequenceSelection1 (prody.tests.atomic.test_select.TestSelect) Test sequence selections 'sequence al' for pdb3mht ... ok testSequenceSelection10 (prody.tests.atomic.test_select.TestSelect) Test sequence selections "sequence FKPY" ... ok testSequenceSelection11 (prody.tests.atomic.test_select.TestSelect) Test sequence selections 'sequence "SS."' for pdb3mht ... ok testSequenceSelection12 (prody.tests.atomic.test_select.TestSelect) Test sequence selections "sequence "SS."" ... ok testSequenceSelection13 (prody.tests.atomic.test_select.TestSelect) Test sequence selections 'sequence "S[A-Z]{2}G"' for pdb3mht ... ok testSequenceSelection14 (prody.tests.atomic.test_select.TestSelect) Test sequence selections "sequence "S[A-Z]{2}G"" ... ok testSequenceSelection15 (prody.tests.atomic.test_select.TestSelect) Test sequence selections 'sequence "S.S.S"' for pdb3mht ... ok testSequenceSelection16 (prody.tests.atomic.test_select.TestSelect) Test sequence selections "sequence "S.S.S"" ... ok testSequenceSelection17 (prody.tests.atomic.test_select.TestSelect) Test sequence selections 'sequence "."' for pdb3mht ... ok testSequenceSelection18 (prody.tests.atomic.test_select.TestSelect) Test sequence selections "sequence "."" ... ok testSequenceSelection2 (prody.tests.atomic.test_select.TestSelect) Test sequence selections "sequence al" ... ok testSequenceSelection3 (prody.tests.atomic.test_select.TestSelect) Test sequence selections 'sequence A' for pdb3mht ... ok testSequenceSelection4 (prody.tests.atomic.test_select.TestSelect) Test sequence selections "sequence A" ... ok testSequenceSelection5 (prody.tests.atomic.test_select.TestSelect) Test sequence selections 'sequence MIEIK' for pdb3mht ... ok testSequenceSelection6 (prody.tests.atomic.test_select.TestSelect) Test sequence selections "sequence MIEIK" ... ok testSequenceSelection7 (prody.tests.atomic.test_select.TestSelect) Test sequence selections 'sequence VLNAL' for pdb3mht ... ok testSequenceSelection8 (prody.tests.atomic.test_select.TestSelect) Test sequence selections "sequence VLNAL" ... ok testSequenceSelection9 (prody.tests.atomic.test_select.TestSelect) Test sequence selections 'sequence FKPY' for pdb3mht ... ok testSpecialcharSelection1 (prody.tests.atomic.test_select.TestSelect) Test specialchar selections 'altloc ` `' for pdb3mht ... ok testSpecialcharSelection2 (prody.tests.atomic.test_select.TestSelect) Test specialchar selections "altloc ` `" ... ok testSpecialcharSelection3 (prody.tests.atomic.test_select.TestSelect) Test specialchar selections 'name A` `CA`' for pdb3mht ... ok testSpecialcharSelection4 (prody.tests.atomic.test_select.TestSelect) Test specialchar selections "name A` `CA`" ... ok testSpecialcharSelection5 (prody.tests.atomic.test_select.TestSelect) Test specialchar selections 'name `A``' for pdb3mht ... ok testSpecialcharSelection6 (prody.tests.atomic.test_select.TestSelect) Test specialchar selections "name `A``" ... ok testSpecialcharSelection7 (prody.tests.atomic.test_select.TestSelect) Test specialchar selections 'z `+100.291`' for pdb3mht ... ok testSpecialcharSelection8 (prody.tests.atomic.test_select.TestSelect) Test specialchar selections "z `+100.291`" ... ok testStringSelection1 (prody.tests.atomic.test_select.TestSelect) Test string selections 'name P' for pdb3mht ... ok testStringSelection10 (prody.tests.atomic.test_select.TestSelect) Test string selections "chain x" ... ok testStringSelection11 (prody.tests.atomic.test_select.TestSelect) Test string selections 'chain x y' for pdb3mht ... ok testStringSelection12 (prody.tests.atomic.test_select.TestSelect) Test string selections "chain x y" ... ok testStringSelection13 (prody.tests.atomic.test_select.TestSelect) Test string selections 'chain x y z' for pdb3mht ... ok testStringSelection14 (prody.tests.atomic.test_select.TestSelect) Test string selections "chain x y z" ... ok testStringSelection15 (prody.tests.atomic.test_select.TestSelect) Test string selections 'chain x y z C' for pdb3mht ... ok testStringSelection16 (prody.tests.atomic.test_select.TestSelect) Test string selections "chain x y z C" ... ok testStringSelection17 (prody.tests.atomic.test_select.TestSelect) Test string selections 'chain C D' for pdb3mht ... ok testStringSelection18 (prody.tests.atomic.test_select.TestSelect) Test string selections "chain C D" ... ok testStringSelection19 (prody.tests.atomic.test_select.TestSelect) Test string selections 'chain CD' for pdb3mht ... ok testStringSelection2 (prody.tests.atomic.test_select.TestSelect) Test string selections "name P" ... ok testStringSelection20 (prody.tests.atomic.test_select.TestSelect) Test string selections "chain CD" ... ok testStringSelection21 (prody.tests.atomic.test_select.TestSelect) Test string selections 'resname DG' for pdb3mht ... ok testStringSelection22 (prody.tests.atomic.test_select.TestSelect) Test string selections "resname DG" ... ok testStringSelection23 (prody.tests.atomic.test_select.TestSelect) Test string selections 'resname DG ALA' for pdb3mht ... ok testStringSelection24 (prody.tests.atomic.test_select.TestSelect) Test string selections "resname DG ALA" ... ok testStringSelection25 (prody.tests.atomic.test_select.TestSelect) Test string selections 'altloc A' for pdb3mht ... ok testStringSelection26 (prody.tests.atomic.test_select.TestSelect) Test string selections "altloc A" ... ok testStringSelection27 (prody.tests.atomic.test_select.TestSelect) Test string selections 'altloc _' for pdb3mht ... ok testStringSelection28 (prody.tests.atomic.test_select.TestSelect) Test string selections "altloc _" ... ok testStringSelection29 (prody.tests.atomic.test_select.TestSelect) Test string selections 'secondary H' for pdb3mht ... ok testStringSelection3 (prody.tests.atomic.test_select.TestSelect) Test string selections 'name P CA' for pdb3mht ... ok testStringSelection30 (prody.tests.atomic.test_select.TestSelect) Test string selections "secondary H" ... ok testStringSelection31 (prody.tests.atomic.test_select.TestSelect) Test string selections 'secondary H E' for pdb3mht ... ok testStringSelection32 (prody.tests.atomic.test_select.TestSelect) Test string selections "secondary H E" ... ok testStringSelection33 (prody.tests.atomic.test_select.TestSelect) Test string selections 'secondary _' for pdb3mht ... ok testStringSelection34 (prody.tests.atomic.test_select.TestSelect) Test string selections "secondary _" ... ok testStringSelection35 (prody.tests.atomic.test_select.TestSelect) Test string selections 'segment _' for pdb3mht ... ok testStringSelection36 (prody.tests.atomic.test_select.TestSelect) Test string selections "segment _" ... ok testStringSelection4 (prody.tests.atomic.test_select.TestSelect) Test string selections "name P CA" ... ok testStringSelection5 (prody.tests.atomic.test_select.TestSelect) Test string selections 'name `A 1`' for pdb3mht ... ok testStringSelection6 (prody.tests.atomic.test_select.TestSelect) Test string selections "name `A 1`" ... ok testStringSelection7 (prody.tests.atomic.test_select.TestSelect) Test string selections 'chain C' for pdb3mht ... ok testStringSelection8 (prody.tests.atomic.test_select.TestSelect) Test string selections "chain C" ... ok testStringSelection9 (prody.tests.atomic.test_select.TestSelect) Test string selections 'chain x' for pdb3mht ... ok testSynonymsSelection1 (prody.tests.atomic.test_select.TestSelect) Test synonyms selections 'chain C' for pdb3mht ... ok testSynonymsSelection2 (prody.tests.atomic.test_select.TestSelect) Test synonyms selections "chain C" ... ok testSynonymsSelection3 (prody.tests.atomic.test_select.TestSelect) Test synonyms selections 'chain C D' for pdb3mht ... ok testSynonymsSelection4 (prody.tests.atomic.test_select.TestSelect) Test synonyms selections "chain C D" ... ok testUnintendedSelection1 (prody.tests.atomic.test_select.TestSelect) Test unintended selections 'abs beta = beta' for pdb3mht ... ok testUnintendedSelection2 (prody.tests.atomic.test_select.TestSelect) Test unintended selections "abs beta = beta" ... ok testUserdataSelection1 (prody.tests.atomic.test_select.TestSelect) Test userdata selections 'temp < 10' for pdb3mht ... ok testUserdataSelection10 (prody.tests.atomic.test_select.TestSelect) Test userdata selections "occ" ... ok testUserdataSelection11 (prody.tests.atomic.test_select.TestSelect) Test userdata selections 'occ and occupancy == 1' for pdb3mht ... ok testUserdataSelection12 (prody.tests.atomic.test_select.TestSelect) Test userdata selections "occ and occupancy == 1" ... ok testUserdataSelection13 (prody.tests.atomic.test_select.TestSelect) Test userdata selections 'occ and occupancy == 1 and oc10 - 9 == 1' for pdb3mht ... ok testUserdataSelection14 (prody.tests.atomic.test_select.TestSelect) Test userdata selections "occ and occupancy == 1 and oc10 - 9 == 1" ... ok testUserdataSelection15 (prody.tests.atomic.test_select.TestSelect) Test userdata selections 'occ and occupancy == 1 and temp < 10' for pdb3mht ... ok testUserdataSelection16 (prody.tests.atomic.test_select.TestSelect) Test userdata selections "occ and occupancy == 1 and temp < 10" ... ok testUserdataSelection17 (prody.tests.atomic.test_select.TestSelect) Test userdata selections 'occ > 0' for pdb3mht ... ok testUserdataSelection18 (prody.tests.atomic.test_select.TestSelect) Test userdata selections "occ > 0" ... ok testUserdataSelection2 (prody.tests.atomic.test_select.TestSelect) Test userdata selections "temp < 10" ... ok testUserdataSelection3 (prody.tests.atomic.test_select.TestSelect) Test userdata selections 'temp < 10 and chain D' for pdb3mht ... ok testUserdataSelection4 (prody.tests.atomic.test_select.TestSelect) Test userdata selections "temp < 10 and chain D" ... ok testUserdataSelection5 (prody.tests.atomic.test_select.TestSelect) Test userdata selections 'oc10 - 9 == 1' for pdb3mht ... ok testUserdataSelection6 (prody.tests.atomic.test_select.TestSelect) Test userdata selections "oc10 - 9 == 1" ... ok testUserdataSelection7 (prody.tests.atomic.test_select.TestSelect) Test userdata selections 'temp < 10' for pdb3mht ... ok testUserdataSelection8 (prody.tests.atomic.test_select.TestSelect) Test userdata selections "temp < 10" ... ok testUserdataSelection9 (prody.tests.atomic.test_select.TestSelect) Test userdata selections 'occ' for pdb3mht ... ok testWithinSelection1 (prody.tests.atomic.test_select.TestSelect) Test within selections 'within 10 of index 0' for pdb3mht ... ok testWithinSelection10 (prody.tests.atomic.test_select.TestSelect) Test within selections "within 5 of within 5 of within 5 of index 0" ... ok testWithinSelection11 (prody.tests.atomic.test_select.TestSelect) Test within selections 'exwithin 5 of exwithin 5 of exwithin 5 of index 0' for pdb3mht ... ok testWithinSelection12 (prody.tests.atomic.test_select.TestSelect) Test within selections "exwithin 5 of exwithin 5 of exwithin 5 of index 0" ... ok testWithinSelection13 (prody.tests.atomic.test_select.TestSelect) Test within selections 'within 1 of pdb' for pdb3mht ... ok testWithinSelection14 (prody.tests.atomic.test_select.TestSelect) Test within selections "within 1 of pdb" ... ok testWithinSelection15 (prody.tests.atomic.test_select.TestSelect) Test within selections 'exwithin 1 of pdb' for pdb3mht ... ok testWithinSelection16 (prody.tests.atomic.test_select.TestSelect) Test within selections "exwithin 1 of pdb" ... ok testWithinSelection17 (prody.tests.atomic.test_select.TestSelect) Test within selections 'exwithin 1 of ag' for pdb3mht ... ok testWithinSelection18 (prody.tests.atomic.test_select.TestSelect) Test within selections "exwithin 1 of ag" ... ok testWithinSelection19 (prody.tests.atomic.test_select.TestSelect) Test within selections 'within 100 of index 10000' for pdb3mht ... ok testWithinSelection2 (prody.tests.atomic.test_select.TestSelect) Test within selections "within 10 of index 0" ... ok testWithinSelection20 (prody.tests.atomic.test_select.TestSelect) Test within selections "within 100 of index 10000" ... ok testWithinSelection3 (prody.tests.atomic.test_select.TestSelect) Test within selections 'exwithin 100 of index 0' for pdb3mht ... ok testWithinSelection4 (prody.tests.atomic.test_select.TestSelect) Test within selections "exwithin 100 of index 0" ... ok testWithinSelection5 (prody.tests.atomic.test_select.TestSelect) Test within selections 'exwithin 4 of resname SAH' for pdb3mht ... ok testWithinSelection6 (prody.tests.atomic.test_select.TestSelect) Test within selections "exwithin 4 of resname SAH" ... ok testWithinSelection7 (prody.tests.atomic.test_select.TestSelect) Test within selections '(within 4 of water) and not water' for pdb3mht ... ok testWithinSelection8 (prody.tests.atomic.test_select.TestSelect) Test within selections "(within 4 of water) and not water" ... ok testWithinSelection9 (prody.tests.atomic.test_select.TestSelect) Test within selections 'within 5 of within 5 of within 5 of index 0' for pdb3mht ... ok testWithout_AndSelection1 (prody.tests.atomic.test_select.TestSelect) Test without_and selections 'coil protein' for pdb3mht ... ok testWithout_AndSelection10 (prody.tests.atomic.test_select.TestSelect) Test without_and selections "(protein nucleic)" ... ok testWithout_AndSelection11 (prody.tests.atomic.test_select.TestSelect) Test without_and selections 'noh hetero water' for pdb3mht ... ok testWithout_AndSelection12 (prody.tests.atomic.test_select.TestSelect) Test without_and selections "noh hetero water" ... ok testWithout_AndSelection13 (prody.tests.atomic.test_select.TestSelect) Test without_and selections 'ca occupancy > 0' for pdb3mht ... ok testWithout_AndSelection14 (prody.tests.atomic.test_select.TestSelect) Test without_and selections "ca occupancy > 0" ... ok testWithout_AndSelection15 (prody.tests.atomic.test_select.TestSelect) Test without_and selections 'ca occupancy - 0 > 0' for pdb3mht ... ok testWithout_AndSelection16 (prody.tests.atomic.test_select.TestSelect) Test without_and selections "ca occupancy - 0 > 0" ... ok testWithout_AndSelection17 (prody.tests.atomic.test_select.TestSelect) Test without_and selections 'ca occupancy - 0 > 0 + 0' for pdb3mht ... ok testWithout_AndSelection18 (prody.tests.atomic.test_select.TestSelect) Test without_and selections "ca occupancy - 0 > 0 + 0" ... ok testWithout_AndSelection19 (prody.tests.atomic.test_select.TestSelect) Test without_and selections 'occupancy > ca 0' for pdb3mht ... ok testWithout_AndSelection2 (prody.tests.atomic.test_select.TestSelect) Test without_and selections "coil protein" ... ok testWithout_AndSelection20 (prody.tests.atomic.test_select.TestSelect) Test without_and selections "occupancy > ca 0" ... ok testWithout_AndSelection21 (prody.tests.atomic.test_select.TestSelect) Test without_and selections 'noh hetero (water)' for pdb3mht ... ok testWithout_AndSelection22 (prody.tests.atomic.test_select.TestSelect) Test without_and selections "noh hetero (water)" ... ok testWithout_AndSelection23 (prody.tests.atomic.test_select.TestSelect) Test without_and selections 'noh hetero not (water)' for pdb3mht ... ok testWithout_AndSelection24 (prody.tests.atomic.test_select.TestSelect) Test without_and selections "noh hetero not (water)" ... ok testWithout_AndSelection25 (prody.tests.atomic.test_select.TestSelect) Test without_and selections '(water) hetero' for pdb3mht ... ok testWithout_AndSelection26 (prody.tests.atomic.test_select.TestSelect) Test without_and selections "(water) hetero" ... ok testWithout_AndSelection27 (prody.tests.atomic.test_select.TestSelect) Test without_and selections 'ca abs(beta) = beta + abs(0)' for pdb3mht ... ok testWithout_AndSelection28 (prody.tests.atomic.test_select.TestSelect) Test without_and selections "ca abs(beta) = beta + abs(0)" ... ok testWithout_AndSelection3 (prody.tests.atomic.test_select.TestSelect) Test without_and selections 'sidechain sc protein' for pdb3mht ... ok testWithout_AndSelection4 (prody.tests.atomic.test_select.TestSelect) Test without_and selections "sidechain sc protein" ... ok testWithout_AndSelection5 (prody.tests.atomic.test_select.TestSelect) Test without_and selections 'bbfull bb' for pdb3mht ... ok testWithout_AndSelection6 (prody.tests.atomic.test_select.TestSelect) Test without_and selections "bbfull bb" ... ok testWithout_AndSelection7 (prody.tests.atomic.test_select.TestSelect) Test without_and selections '(charged basic)' for pdb3mht ... ok testWithout_AndSelection8 (prody.tests.atomic.test_select.TestSelect) Test without_and selections "(charged basic)" ... ok testWithout_AndSelection9 (prody.tests.atomic.test_select.TestSelect) Test without_and selections '(protein nucleic)' for pdb3mht ... ok testSetData (prody.tests.atomic.test_subset.TestUserData) ... ok testDatafile_1ejg (prody.tests.datafiles.TestDatafiles) Test presence of "pdb1ejg.pdb" ... ok testDatafile_1ubi (prody.tests.datafiles.TestDatafiles) Test presence of "pdb1ubi.pdb" ... ok testDatafile_1ubi_ca (prody.tests.datafiles.TestDatafiles) Test presence of "pdb1ubi_ca.pdb" ... ok testDatafile_2gb1_truncated (prody.tests.datafiles.TestDatafiles) Test presence of "pdb2gb1_truncated.pdb" ... ok testDatafile_2k39_ca (prody.tests.datafiles.TestDatafiles) Test presence of "pdb2k39_ca.pdb" ... ok testDatafile_2nwl (prody.tests.datafiles.TestDatafiles) Test presence of "pdb2nwl-opm.pdb" ... ok testDatafile_3hsy (prody.tests.datafiles.TestDatafiles) Test presence of "pdb3hsy.pdb" ... ok testDatafile_3mht (prody.tests.datafiles.TestDatafiles) Test presence of "pdb3mht.pdb" ... ok testDatafile_3o21 (prody.tests.datafiles.TestDatafiles) Test presence of "pdb3o21.pdb" ... ok testDatafile_3p3w (prody.tests.datafiles.TestDatafiles) Test presence of "pdb3p3w.pdb" ... ok testDatafile_DI (prody.tests.datafiles.TestDatafiles) Test presence of "msa_Cys_knot_di.dat" ... ok testDatafile_Fasta (prody.tests.datafiles.TestDatafiles) Test presence of "msa_Cys_knot.fasta" ... ok testDatafile_RTER (prody.tests.datafiles.TestDatafiles) Test presence of "pdbRTER.pdb" ... ok testDatafile_SCA (prody.tests.datafiles.TestDatafiles) Test presence of "msa_Cys_knot_sca.dat" ... ok testDatafile_Selex (prody.tests.datafiles.TestDatafiles) Test presence of "msa_Cys_knot.slx" ... ok testDatafile_Stockholm (prody.tests.datafiles.TestDatafiles) Test presence of "msa_Cys_knot.sth" ... ok testDatafile_anm1ubi_evalues (prody.tests.datafiles.TestDatafiles) Test presence of "anm1ubi_evalues.dat" ... ok testDatafile_anm1ubi_hessian (prody.tests.datafiles.TestDatafiles) Test presence of "anm1ubi_hessian.coo" ... ok testDatafile_anm1ubi_vectors (prody.tests.datafiles.TestDatafiles) Test presence of "anm1ubi_vectors.dat" ... ok testDatafile_commute1ubi (prody.tests.datafiles.TestDatafiles) Test presence of "commute1ubi.dat" ... ok testDatafile_dcd (prody.tests.datafiles.TestDatafiles) Test presence of "dcd2k39_truncated.dcd" ... ok testDatafile_dssp (prody.tests.datafiles.TestDatafiles) Test presence of "pdb1r19_dssp.pdb" ... ok testDatafile_five_digits (prody.tests.datafiles.TestDatafiles) Test presence of "pdb1tw7_step3_charmm2namd.pdb" ... ok testDatafile_gnm1ubi_evalues (prody.tests.datafiles.TestDatafiles) Test presence of "gnm1ubi_evalues.dat" ... ok testDatafile_gnm1ubi_kirchhoff (prody.tests.datafiles.TestDatafiles) Test presence of "gnm1ubi_kirchhoff.coo" ... ok testDatafile_gnm1ubi_vectors (prody.tests.datafiles.TestDatafiles) Test presence of "gnm1ubi_vectors.dat" ... ok testDatafile_h36 (prody.tests.datafiles.TestDatafiles) Test presence of "pdb1tw7_step3_charmm2namd_doubled_h36.pdb" ... ok testDatafile_hex (prody.tests.datafiles.TestDatafiles) Test presence of "pdb1tw7_step3_charmm2namd_doubled_hex.pdb" ... ok testDatafile_hit1ubi (prody.tests.datafiles.TestDatafiles) Test presence of "hit1ubi.dat" ... ok testDatafile_long_chid_cif (prody.tests.datafiles.TestDatafiles) Test presence of "mmcif_6zu5.cif" ... ok testDatafile_multi_model_cif (prody.tests.datafiles.TestDatafiles) Test presence of "mmcif_6yfy.cif" ... ok testDatafile_multi_model_truncated (prody.tests.datafiles.TestDatafiles) Test presence of "pdb2k39_truncated.pdb" ... ok testDatafile_oneatom (prody.tests.datafiles.TestDatafiles) Test presence of "pdb1ejg_oneatom.pdb" ... ok testDatafile_pca2k39_cov (prody.tests.datafiles.TestDatafiles) Test presence of "pca2k39_cov.coo" ... ok testDatafile_pca2k39_evalues (prody.tests.datafiles.TestDatafiles) Test presence of "pca2k39_evalues.dat" ... ok testDatafile_pca2k39_vectors (prody.tests.datafiles.TestDatafiles) Test presence of "pca2k39_vectors.dat" ... ok testDatafile_rtb2gb1_hessian (prody.tests.datafiles.TestDatafiles) Test presence of "rtb2gb1_hessian.coo" ... ok testDatafile_rtb2gb1_project (prody.tests.datafiles.TestDatafiles) Test presence of "rtb2gb1_project.coo" ... ok testDatafile_sti (prody.tests.datafiles.TestDatafiles) Test presence of "xmlSTI.xml" ... ok testMode1d (prody.tests.dynamics.test_editing.TestExtending) ... ok testMode3d (prody.tests.dynamics.test_editing.TestExtending) ... ok testModel1d (prody.tests.dynamics.test_editing.TestExtending) ... ok testModel3d (prody.tests.dynamics.test_editing.TestExtending) ... ok testVector1d (prody.tests.dynamics.test_editing.TestExtending) ... ok testVector3d (prody.tests.dynamics.test_editing.TestExtending) ... ok testBuildHessianSlow (prody.tests.dynamics.test_enms.TestANM) ... ok testBuildMatrixCoordsArray (prody.tests.dynamics.test_enms.TestANM) Test output when *coords* is an array. ... ok testBuildMatrixCoordsWrongType (prody.tests.dynamics.test_enms.TestANM) Test response to wrong type *coords* argument. ... ok testBuildMatrixCutoffInvalidValue (prody.tests.dynamics.test_enms.TestANM) Test response to wrong *cutoff* argument. ... ok testBuildMatrixCutoffWrongType (prody.tests.dynamics.test_enms.TestANM) Test response to cutoff of wrong type. ... ok testBuildMatrixInvalidGamma (prody.tests.dynamics.test_enms.TestANM) Test response to invalid *gamma* argument. ... ok testBuildMatrixWrongCoords (prody.tests.dynamics.test_enms.TestANM) Test response to wrong coords.dtype. ... ok testBuildMatrixWrongGamma (prody.tests.dynamics.test_enms.TestANM) Test response to wrong *gamma* argument. ... ok testSetHessianWrongShape (prody.tests.dynamics.test_enms.TestANM) Test response to wrong shape *hessian* argument. ... ok testSetMatrixAcceptableDtype (prody.tests.dynamics.test_enms.TestANM) Test response to acceptable matrix.dtype. ... ok testSetMatrixNonSquare (prody.tests.dynamics.test_enms.TestANM) Test response to non-square matrix. ... ok testSetMatrixWrongDim (prody.tests.dynamics.test_enms.TestANM) Test response to wrong dim *kirchhoff* argument. ... ok testSetMatrixWrongDtype (prody.tests.dynamics.test_enms.TestANM) Test response to wrong matrix.dtype. ... ok testSetMatrixWrongType (prody.tests.dynamics.test_enms.TestANM) Test response to wrong matrix type argument. ... ok testEigenvalues (prody.tests.dynamics.test_enms.TestANMResults) Test eigenvalues. ... ok testEigenvectors (prody.tests.dynamics.test_enms.TestANMResults) Test eigenvectors. ... ok testGetCutoff (prody.tests.dynamics.test_enms.TestANMResults) Testing return type of :meth:`~.GNMBase.getCutoff`. ... ok testGetGamma (prody.tests.dynamics.test_enms.TestANMResults) Testing return type of :meth:`~.GNMBase.getGamma`. ... ok testGetHessian (prody.tests.dynamics.test_enms.TestANMResults) ... ok testHessian (prody.tests.dynamics.test_enms.TestANMResults) Test Hessian matrix. ... ok testHessianSums (prody.tests.dynamics.test_enms.TestANMResults) ... ok testHessianSymmetry (prody.tests.dynamics.test_enms.TestANMResults) ... ok testVariances (prody.tests.dynamics.test_enms.TestANMResults) Test variances. ... ok testEigenvalues (prody.tests.dynamics.test_enms.TestEXANMResults) Test eigenvalues. ... ok testEigenvectors (prody.tests.dynamics.test_enms.TestEXANMResults) Test eigenvectors. ... ok testGetCutoff (prody.tests.dynamics.test_enms.TestEXANMResults) Testing return type of :meth:`~.GNMBase.getCutoff`. ... ok testGetGamma (prody.tests.dynamics.test_enms.TestEXANMResults) Testing return type of :meth:`~.GNMBase.getGamma`. ... ok testGetHessian (prody.tests.dynamics.test_enms.TestEXANMResults) ... ok testHessian (prody.tests.dynamics.test_enms.TestEXANMResults) Test Hessian matrix. ... ok testHessianSums (prody.tests.dynamics.test_enms.TestEXANMResults) ... ok testHessianSymmetry (prody.tests.dynamics.test_enms.TestEXANMResults) ... ok testVariances (prody.tests.dynamics.test_enms.TestEXANMResults) Test variances. ... ok testBuildMatrixCoordsArray (prody.tests.dynamics.test_enms.TestGNM) Test output when *coords* is an array. ... ok testBuildMatrixCoordsWrongType (prody.tests.dynamics.test_enms.TestGNM) Test response to wrong type *coords* argument. ... ok testBuildMatrixCutoffInvalidValue (prody.tests.dynamics.test_enms.TestGNM) Test response to wrong *cutoff* argument. ... ok testBuildMatrixCutoffWrongType (prody.tests.dynamics.test_enms.TestGNM) Test response to cutoff of wrong type. ... ok testBuildMatrixInvalidGamma (prody.tests.dynamics.test_enms.TestGNM) Test response to invalid *gamma* argument. ... ok testBuildMatrixWrongCoords (prody.tests.dynamics.test_enms.TestGNM) Test response to wrong coords.dtype. ... ok testBuildMatrixWrongGamma (prody.tests.dynamics.test_enms.TestGNM) Test response to wrong *gamma* argument. ... ok testSetMatrixAcceptableDtype (prody.tests.dynamics.test_enms.TestGNM) Test response to acceptable matrix.dtype. ... ok testSetMatrixNonSquare (prody.tests.dynamics.test_enms.TestGNM) Test response to non-square matrix. ... ok testSetMatrixWrongDim (prody.tests.dynamics.test_enms.TestGNM) Test response to wrong dim *kirchhoff* argument. ... ok testSetMatrixWrongDtype (prody.tests.dynamics.test_enms.TestGNM) Test response to wrong matrix.dtype. ... ok testSetMatrixWrongType (prody.tests.dynamics.test_enms.TestGNM) Test response to wrong matrix type argument. ... ok testBuildKirchoffSlow (prody.tests.dynamics.test_enms.TestGNMResults) ... ok testCommuteTime (prody.tests.dynamics.test_enms.TestGNMResults) ... ok testEigenvalues (prody.tests.dynamics.test_enms.TestGNMResults) ... ok testEigenvectors (prody.tests.dynamics.test_enms.TestGNMResults) ... ok testGetCutoff (prody.tests.dynamics.test_enms.TestGNMResults) Testing return type of :meth:`~.GNMBase.getCutoff`. ... ok testGetGamma (prody.tests.dynamics.test_enms.TestGNMResults) Testing return type of :meth:`~.GNMBase.getGamma`. ... ok testGetKirchoff (prody.tests.dynamics.test_enms.TestGNMResults) ... ok testKirchhoff (prody.tests.dynamics.test_enms.TestGNMResults) ... ok testKirchhoffSums (prody.tests.dynamics.test_enms.TestGNMResults) ... ok testKirchhoffSymmetry (prody.tests.dynamics.test_enms.TestGNMResults) ... ok testCalcModes (prody.tests.dynamics.test_enms.TestRTB) ... ok testHessian (prody.tests.dynamics.test_enms.TestRTB) ... ok testProjection (prody.tests.dynamics.test_enms.TestRTB) ... ok testGetCutoff (prody.tests.dynamics.test_enms.testGNMBase) Testing return type of :meth:`~.GNMBase.getCutoff`. ... ok testGetGamma (prody.tests.dynamics.test_enms.testGNMBase) Testing return type of :meth:`~.GNMBase.getGamma`. ... ok testBuildMatrixCoordsArray (prody.tests.dynamics.test_pca.TestPCA) Test output when *coords* is an array. ... ok testBuildMatrixCoordsWrongType (prody.tests.dynamics.test_pca.TestPCA) Test response to wrong type *coords* argument. ... ok testBuildMatrixWrongCoords (prody.tests.dynamics.test_pca.TestPCA) Test response to wrong coords.dtype. ... ok testSetMatrixAcceptableDtype (prody.tests.dynamics.test_pca.TestPCA) Test response to acceptable matrix.dtype. ... ok testSetMatrixNonSquare (prody.tests.dynamics.test_pca.TestPCA) Test response to non-square matrix. ... ok testSetMatrixWrongDim (prody.tests.dynamics.test_pca.TestPCA) Test response to wrong dim *kirchhoff* argument. ... ok testSetMatrixWrongDtype (prody.tests.dynamics.test_pca.TestPCA) Test response to wrong matrix.dtype. ... ok testSetMatrixWrongType (prody.tests.dynamics.test_pca.TestPCA) Test response to wrong matrix type argument. ... ok testBuildMatrixCoordsArray (prody.tests.dynamics.test_pca.TestPCAResults) Test output when *coords* is an array. ... ok testBuildMatrixCoordsWrongType (prody.tests.dynamics.test_pca.TestPCAResults) Test response to wrong type *coords* argument. ... ok testBuildMatrixWrongCoords (prody.tests.dynamics.test_pca.TestPCAResults) Test response to wrong coords.dtype. ... ok testCovariance (prody.tests.dynamics.test_pca.TestPCAResults) ... ok testCovarianceSymmetry (prody.tests.dynamics.test_pca.TestPCAResults) ... ok testEigenvalues (prody.tests.dynamics.test_pca.TestPCAResults) ... ok testEigenvectors (prody.tests.dynamics.test_pca.TestPCAResults) ... ok testNumModesAll (prody.tests.dynamics.test_pca.TestPCAResults) ... ok testNumModesSet (prody.tests.dynamics.test_pca.TestPCAResults) ... ok testSetMatrixAcceptableDtype (prody.tests.dynamics.test_pca.TestPCAResults) Test response to acceptable matrix.dtype. ... ok testSetMatrixNonSquare (prody.tests.dynamics.test_pca.TestPCAResults) Test response to non-square matrix. ... ok testSetMatrixWrongDim (prody.tests.dynamics.test_pca.TestPCAResults) Test response to wrong dim *kirchhoff* argument. ... ok testSetMatrixWrongDtype (prody.tests.dynamics.test_pca.TestPCAResults) Test response to wrong matrix.dtype. ... ok testSetMatrixWrongType (prody.tests.dynamics.test_pca.TestPCAResults) Test response to wrong matrix type argument. ... ok testSlicing (prody.tests.dynamics.test_signature.TestSDArray) ... ok testCoordinates (prody.tests.ensemble.test_conformation.TestConformation) ... ok testCoordinatesForAll (prody.tests.ensemble.test_conformation.TestConformation) ... ok testGetIndex (prody.tests.ensemble.test_conformation.TestConformation) Test get index function. ... ok testGetNumAtoms (prody.tests.ensemble.test_conformation.TestConformation) Test get index function. ... ok testWeights (prody.tests.ensemble.test_conformation.TestConformation) ... ok testCoordinates (prody.tests.ensemble.test_conformation.TestPDBConformation) ... ok testCoordinatesForAll (prody.tests.ensemble.test_conformation.TestPDBConformation) ... ok testGetIndex (prody.tests.ensemble.test_conformation.TestPDBConformation) ... ok testGetNumAtoms (prody.tests.ensemble.test_conformation.TestPDBConformation) ... ok testWeights (prody.tests.ensemble.test_conformation.TestPDBConformation) ... ok testWeightsForAll (prody.tests.ensemble.test_conformation.TestPDBConformation) ... ok testConcatenation (prody.tests.ensemble.test_ensemble.TestEnsemble) Test concatenation of ensembles without weights. ... ok testConcatenationNoweightsWeights (prody.tests.ensemble.test_ensemble.TestEnsemble) Test concatenation of ensembles without and with weights. ... ok testConcatenationWeights (prody.tests.ensemble.test_ensemble.TestEnsemble) Test concatenation of ensembles with weights. ... ok testConcatenationWeightsNoweights (prody.tests.ensemble.test_ensemble.TestEnsemble) Test concatenation of ensembles with and without weights. ... ok testDelCoordsetAll (prody.tests.ensemble.test_ensemble.TestEnsemble) ... ok testDelCoordsetMiddle (prody.tests.ensemble.test_ensemble.TestEnsemble) ... ok testGetCoordinates (prody.tests.ensemble.test_ensemble.TestEnsemble) Test correctness of reference coordinates. ... ok testGetCoordsets (prody.tests.ensemble.test_ensemble.TestEnsemble) Test correctness of all coordinates. ... ok testGetNumAtoms (prody.tests.ensemble.test_ensemble.TestEnsemble) ... ok testGetNumCsets (prody.tests.ensemble.test_ensemble.TestEnsemble) ... ok testGetRMSDs (prody.tests.ensemble.test_ensemble.TestEnsemble) ... ok testGetRMSDsWeights (prody.tests.ensemble.test_ensemble.TestEnsemble) ... ok testGetWeights (prody.tests.ensemble.test_ensemble.TestEnsemble) Test correctness of all weights. ... ok testIterCoordsets (prody.tests.ensemble.test_ensemble.TestEnsemble) Test coordinate iteration. ... ok testSelection (prody.tests.ensemble.test_ensemble.TestEnsemble) Test atom selection of ensemble. ... ok testSlicing (prody.tests.ensemble.test_ensemble.TestEnsemble) Test slicing operation. ... ok testSlicingCopy (prody.tests.ensemble.test_ensemble.TestEnsemble) Test making a copy by slicing operation. ... ok testSlicingList (prody.tests.ensemble.test_ensemble.TestEnsemble) Test slicing with a list. ... ok testSlicingWeights (prody.tests.ensemble.test_ensemble.TestEnsemble) Test slicing operation with weights. ... ok testSuperpose (prody.tests.ensemble.test_ensemble.TestEnsemble) ... ok testSuperposeWeights (prody.tests.ensemble.test_ensemble.TestEnsemble) ... ok testResults (prody.tests.ensemble.test_functions.TestBuildPDBEnsemble) ... ok testInvalidType (prody.tests.ensemble.test_functions.TestCalcOccupancies) ... ok testResults (prody.tests.ensemble.test_functions.TestCalcOccupancies) ... ok testWeightsNone (prody.tests.ensemble.test_functions.TestCalcOccupancies) ... ok testResults (prody.tests.ensemble.test_functions.TestTrimPDBEnsemble) ... /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/sequence/sequence.py:52: DeprecationWarning: tostring() is deprecated. Use tobytes() instead. return self._array.tostring().decode() ok testAddCoordsets (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble) ... ok testConcatenation (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble) Test concatenation of PDB ensembles. ... ok testDelCoordsetAll (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble) Test consequences of deleting all coordinate sets. ... ok testDelCoordsetMiddle (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble) ... ok testDelCoordsetMiddleTrans (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble) ... ok testGetCoordinates (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble) ... ok testGetCoordsets (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble) ... ok testGetNumAtoms (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble) ... ok testGetNumCsets (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble) ... ok testGetWeights (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble) ... ok testIterCoordsets (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble) ... ok testSlicing (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble) ... ok testSlicingCopy (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble) ... ok testSlicingList (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble) ... ok testSlicingWeights (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble) ... ok testAllSearch (prody.tests.kdtree.test_kdtree.TestKDTree) ... ok testSearch (prody.tests.kdtree.test_kdtree.TestKDTree) ... ok testPairNoPBC (prody.tests.kdtree.test_kdtree.TestKDTreePBC) ... ok testPairPBC (prody.tests.kdtree.test_kdtree.TestKDTreePBC) ... ok testPointNoPBC (prody.tests.kdtree.test_kdtree.TestKDTreePBC) ... ok testPointPBC (prody.tests.kdtree.test_kdtree.TestKDTreePBC) ... ok testMINvsMAX (prody.tests.measure.test_contacts.TestContacts) ... ok testPBCvsNONE (prody.tests.measure.test_contacts.TestContacts) ... ok testAtomicArgumentSwitching (prody.tests.measure.test_contacts.TestNeighbors) ... ok testCoordArgumentSwitching (prody.tests.measure.test_contacts.TestNeighbors) ... ok testNoPBC (prody.tests.measure.test_contacts.TestNeighbors) ... ok testPBC (prody.tests.measure.test_contacts.TestNeighbors) ... ok testPBCAtomicArgumentSwitching (prody.tests.measure.test_contacts.TestNeighbors) ... ok testPBCCoordArgumentSwitching (prody.tests.measure.test_contacts.TestNeighbors) ... ok testCenter (prody.tests.measure.test_measure.TestCenter) ... ok testCenterWithWeights (prody.tests.measure.test_measure.TestCenter) ... ok testMultiCoordsets (prody.tests.measure.test_measure.TestCenter) ... ok testMultiCoordsetsWithWeights (prody.tests.measure.test_measure.TestCenter) ... ok testCTerPhi (prody.tests.measure.test_measure.TestDihedrals) ... ok testCTerPsi (prody.tests.measure.test_measure.TestDihedrals) ... ok testCalcPhi (prody.tests.measure.test_measure.TestDihedrals) ... ok testCalcPsi (prody.tests.measure.test_measure.TestDihedrals) ... ok testNTerPhi (prody.tests.measure.test_measure.TestDihedrals) ... ok testNTerPsi (prody.tests.measure.test_measure.TestDihedrals) ... ok testPBC (prody.tests.measure.test_measure.TestDistances) ... ok testPBCSymmetry (prody.tests.measure.test_measure.TestDistances) ... ok testMSF (prody.tests.measure.test_measure.TestMSF) ... /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/trajectory/dcdfile.py:273: DeprecationWarning: The binary mode of fromstring is deprecated, as it behaves surprisingly on unicode inputs. Use frombuffer instead xyz = fromstring(self._file.read(self._itemsize * n_floats), /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/trajectory/dcdfile.py:320: DeprecationWarning: The binary mode of fromstring is deprecated, as it behaves surprisingly on unicode inputs. Use frombuffer instead data = fromstring(data, self._dtype) /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/trajectory/dcdfile.py:294: DeprecationWarning: The binary mode of fromstring is deprecated, as it behaves surprisingly on unicode inputs. Use frombuffer instead unitcell = fromstring(self._file.read(48), dtype=np.float64) ok testMSFfloat (prody.tests.measure.test_measure.TestMSF) ... ok testByArgument (prody.tests.measure.test_transform.TestMoveAtoms) ... ok testToArgument (prody.tests.measure.test_transform.TestMoveAtoms) ... ok testTransformation (prody.tests.measure.test_transform.TestMoveAtoms) ... ok testWrap (prody.tests.measure.test_transform.TestWrapAtoms) ... ok testAgArgMultiModel (prody.tests.proteins.test_ciffile.TestParseMMCIF) Test number of coordinate sets when using *ag* arguments. ... ok testAgArgument (prody.tests.proteins.test_ciffile.TestParseMMCIF) Test outcome of valid and invalid *ag* arguments. ... /usr/lib/python3.10/traceback.py:236: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles/mmcif_6yfy.cif' mode='rt' encoding='UTF-8'> tb.tb_frame.clear() ResourceWarning: Enable tracemalloc to get the object allocation traceback ok testChainArgument (prody.tests.proteins.test_ciffile.TestParseMMCIF) Test outcome of valid and invalid *chain* arguments. ... ok testLongChainArgument (prody.tests.proteins.test_ciffile.TestParseMMCIF) Test outcome of valid and invalid *chain* arguments. ... /usr/lib/python3.10/traceback.py:236: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles/mmcif_6zu5.cif' mode='rt' encoding='UTF-8'> tb.tb_frame.clear() ResourceWarning: Enable tracemalloc to get the object allocation traceback ok testModelArgument (prody.tests.proteins.test_ciffile.TestParseMMCIF) Test outcome of valid and invalid *model* arguments. ... ok testPDBArgument (prody.tests.proteins.test_ciffile.TestParseMMCIF) Test outcome of invalid *pdb* arguments. ... ok testSubsetArgument (prody.tests.proteins.test_ciffile.TestParseMMCIF) Test outcome of valid and invalid *subset* arguments. ... ok testTitleArgument (prody.tests.proteins.test_ciffile.TestParseMMCIF) Test outcome of *title* argument. ... ok testUsualCase (prody.tests.proteins.test_ciffile.TestParseMMCIF) Test the outcome of a simple parsing scenario. ... ok testDSSPBridgePartners (prody.tests.proteins.test_dssp.TestDSSPFunctions) Check if the DSSP bridge-partners were correctly parsed and ... skipped 'dssp is not found' testHeaderContent (prody.tests.proteins.test_header.TestParsePDBHeaderOnly) ... ok testHeaderType (prody.tests.proteins.test_header.TestParsePDBHeaderOnly) ... ok testCompressedArgument (prody.tests.proteins.test_localpdb.TestFetchPDB) Test decompressing fetched PDB files. ... skipped 'Not running tests needing network access.' testFetchingMultipleFiles (prody.tests.proteins.test_localpdb.TestFetchPDB) Test the outcome of fetching multiple PDB files. ... skipped 'Not running tests needing network access.' testFetchingSingleFile (prody.tests.proteins.test_localpdb.TestFetchPDB) Test the outcome of fetching a single PDB file. ... skipped 'Not running tests needing network access.' testInvalidPDBIdentifier (prody.tests.proteins.test_localpdb.TestFetchPDB) Test outcome of passing invalid PDB identifiers. ... ok testAgArgMultiModel (prody.tests.proteins.test_pdbfile.TestParsePDB) Test number of coordinate sets when using *ag* arguments. ... ok testAgArgSingleModel (prody.tests.proteins.test_pdbfile.TestParsePDB) Test number of coordinate sets when using *ag* arguments. ... ok testAgArgument (prody.tests.proteins.test_pdbfile.TestParsePDB) Test outcome of valid and invalid *ag* arguments. ... /usr/lib/python3.10/traceback.py:236: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/datafiles/pdb2k39_truncated.pdb' mode='rt' encoding='UTF-8'> tb.tb_frame.clear() ResourceWarning: Enable tracemalloc to get the object allocation traceback ok testChainArgument (prody.tests.proteins.test_pdbfile.TestParsePDB) Test outcome of valid and invalid *chain* arguments. ... ok testFiveDigitResnum (prody.tests.proteins.test_pdbfile.TestParsePDB) Test parsing PDB files with five digit resnums ... ok testHexResnum (prody.tests.proteins.test_pdbfile.TestParsePDB) Test parsing PDB files with hexadecimal resnums ... ok testHexSerial (prody.tests.proteins.test_pdbfile.TestParsePDB) Test parsing PDB files with hexadecimal serial numbers ... ok testHybrid36Resnum (prody.tests.proteins.test_pdbfile.TestParsePDB) Test parsing PDB files with Hybrid36 resnums ... ok testHybrid36Serial (prody.tests.proteins.test_pdbfile.TestParsePDB) Test parsing PDB files with Hybrid36 serial numbers ... ok testModelArgument (prody.tests.proteins.test_pdbfile.TestParsePDB) Test outcome of valid and invalid *model* arguments. ... ok testPDBArgument (prody.tests.proteins.test_pdbfile.TestParsePDB) Test outcome of invalid *pdb* arguments. ... ok testSubsetArgument (prody.tests.proteins.test_pdbfile.TestParsePDB) Test outcome of valid and invalid *subset* arguments. ... ok testTitleArgument (prody.tests.proteins.test_pdbfile.TestParsePDB) Test outcome of *title* argument. ... ok testUsualCase (prody.tests.proteins.test_pdbfile.TestParsePDB) Test the outcome of a simple parsing scenario. ... ok testAltlocA (prody.tests.proteins.test_pdbfile.TestParsePDBAltloc) ... ok testAltlocB (prody.tests.proteins.test_pdbfile.TestParsePDBAltloc) ... ok testAltlocC (prody.tests.proteins.test_pdbfile.TestParsePDBAltloc) ... ok testAltlocNone (prody.tests.proteins.test_pdbfile.TestParsePDBAltloc) ... ok testAtomGroupContent (prody.tests.proteins.test_pdbfile.TestParsePDBHeaderAndAllModels) ... ok testAtomGroupType (prody.tests.proteins.test_pdbfile.TestParsePDBHeaderAndAllModels) ... ok testModelArgument (prody.tests.proteins.test_pdbfile.TestWritePDB) Test valid and invalid model arguments. ... /usr/lib/python3.10/traceback.py:236: ResourceWarning: unclosed file <_io.TextIOWrapper name='/tmp/test.pdb' mode='wt' encoding='UTF-8'> tb.tb_frame.clear() ResourceWarning: Enable tracemalloc to get the object allocation traceback ok testParsingOutput (prody.tests.proteins.test_pdbfile.TestWritePDB) Test if parsing output is the same as parsing original file. ... ok testWritingHex (prody.tests.proteins.test_pdbfile.TestWritePDB) Test if output from writing hexadecimal is as expected. ... ok testWritingHybrid36 (prody.tests.proteins.test_pdbfile.TestWritePDB) Test if output from writing Hybrid36 is as expected. ... ok testCompressed (prody.tests.proteins.test_wwpdb.TestFTP) ... skipped 'Not running tests needing network access.' testDecompressed (prody.tests.proteins.test_wwpdb.TestFTP) ... skipped 'Not running tests needing network access.' testCompressed (prody.tests.proteins.test_wwpdb.TestHTTP) ... skipped 'Not running tests needing network access.' testDecompressed (prody.tests.proteins.test_wwpdb.TestHTTP) ... skipped 'Not running tests needing network access.' testResidueCount (prody.tests.sequence.test_analysis.TestCalcMSAOccupancy) ... ok testResidueOccupancy (prody.tests.sequence.test_analysis.TestCalcMSAOccupancy) ... ok testSequenceCount (prody.tests.sequence.test_analysis.TestCalcMSAOccupancy) ... ok testSequenceOccupancy (prody.tests.sequence.test_analysis.TestCalcMSAOccupancy) ... ok testMATLAB (prody.tests.sequence.test_analysis.TestCalcMeff) ... ok testTwenty (prody.tests.sequence.test_analysis.TestCalcMeff) ... ok testTwentyReversed (prody.tests.sequence.test_analysis.TestCalcMeff) ... ok testZero1 (prody.tests.sequence.test_analysis.TestCalcMeff) ... ok testZero2 (prody.tests.sequence.test_analysis.TestCalcMeff) ... ok testAmbiguity (prody.tests.sequence.test_analysis.TestCalcMutualInfo) ... ok testAmbiguity2 (prody.tests.sequence.test_analysis.TestCalcMutualInfo) ... ok testAmbiguity3 (prody.tests.sequence.test_analysis.TestCalcMutualInfo) ... ok testAmbiguity4 (prody.tests.sequence.test_analysis.TestCalcMutualInfo) ... ok testAmbiguity5 (prody.tests.sequence.test_analysis.TestCalcMutualInfo) ... ok testAmbiguity6 (prody.tests.sequence.test_analysis.TestCalcMutualInfo) ... ok testAmbiguity7 (prody.tests.sequence.test_analysis.TestCalcMutualInfo) ... ok testInf (prody.tests.sequence.test_analysis.TestCalcMutualInfo) ... ok testNoAmbiguity (prody.tests.sequence.test_analysis.TestCalcMutualInfo) ... ok testNorm (prody.tests.sequence.test_analysis.TestCalcMutualInfo) ... ok testNorm2 (prody.tests.sequence.test_analysis.TestCalcMutualInfo) ... ok testSixSequences (prody.tests.sequence.test_analysis.TestCalcMutualInfo) ... ok testTwenty (prody.tests.sequence.test_analysis.TestCalcMutualInfo) ... ok testTwentyReversed (prody.tests.sequence.test_analysis.TestCalcMutualInfo) ... ok testAmbiguity (prody.tests.sequence.test_analysis.TestCalcOMES) ... ok testAmbiguity2 (prody.tests.sequence.test_analysis.TestCalcOMES) ... ok testAmbiguity3 (prody.tests.sequence.test_analysis.TestCalcOMES) ... ok testAmbiguity4 (prody.tests.sequence.test_analysis.TestCalcOMES) ... ok testAmbiguity5 (prody.tests.sequence.test_analysis.TestCalcOMES) ... ok testAmbiguity6 (prody.tests.sequence.test_analysis.TestCalcOMES) ... ok testAmbiguity7 (prody.tests.sequence.test_analysis.TestCalcOMES) ... ok testFourSequences (prody.tests.sequence.test_analysis.TestCalcOMES) ... ok testInf (prody.tests.sequence.test_analysis.TestCalcOMES) ... ok testNoAmbiguity (prody.tests.sequence.test_analysis.TestCalcOMES) ... ok testTwenty (prody.tests.sequence.test_analysis.TestCalcOMES) ... ok testTwentyReversed (prody.tests.sequence.test_analysis.TestCalcOMES) ... ok testZero (prody.tests.sequence.test_analysis.TestCalcOMES) ... ok testMATLAB (prody.tests.sequence.test_analysis.TestCalcSCA) ... ok testZero (prody.tests.sequence.test_analysis.TestCalcSCA) ... ok testAmbiguous (prody.tests.sequence.test_analysis.TestCalcShannonEntropy) ... ok testGapDividend (prody.tests.sequence.test_analysis.TestCalcShannonEntropy) ... ok testSixSequences (prody.tests.sequence.test_analysis.TestCalcShannonEntropy) ... ok testSmallProbability (prody.tests.sequence.test_analysis.TestCalcShannonEntropy) ... ok testTwenty (prody.tests.sequence.test_analysis.TestCalcShannonEntropy) ... ok testMATLAB10 (prody.tests.sequence.test_analysis.TestDirectInfo) ... /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/sequence/analysis.py:592: PendingDeprecationWarning: the matrix subclass is not the recommended way to represent matrices or deal with linear algebra (see https://docs.scipy.org/doc/numpy/user/numpy-for-matlab-users.html). Please adjust your code to use regular ndarray. c = matrix.dot(matrix(zeros((length*q, 1), float)), /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/sequence/analysis.py:593: PendingDeprecationWarning: the matrix subclass is not the recommended way to represent matrices or deal with linear algebra (see https://docs.scipy.org/doc/numpy/user/numpy-for-matlab-users.html). Please adjust your code to use regular ndarray. matrix(zeros((1, length*q), float))) /usr/lib/python3/dist-packages/numpy/matrixlib/defmatrix.py:69: PendingDeprecationWarning: the matrix subclass is not the recommended way to represent matrices or deal with linear algebra (see https://docs.scipy.org/doc/numpy/user/numpy-for-matlab-users.html). Please adjust your code to use regular ndarray. return matrix(data, dtype=dtype, copy=False) ok testMATLAB8 (prody.tests.sequence.test_analysis.TestDirectInfo) ... ok testTwenty (prody.tests.sequence.test_analysis.TestDirectInfo) ... ok testTwentyReversed (prody.tests.sequence.test_analysis.TestDirectInfo) ... ok testZero (prody.tests.sequence.test_analysis.TestDirectInfo) ... ok testZero1 (prody.tests.sequence.test_analysis.TestDirectInfo) ... ok testZero2 (prody.tests.sequence.test_analysis.TestDirectInfo) ... ok testZero3 (prody.tests.sequence.test_analysis.TestDirectInfo) ... ok testZero4 (prody.tests.sequence.test_analysis.TestDirectInfo) ... ok testIdentityMatrix (prody.tests.sequence.test_analysis.TestIdentity) ... ok testIdentityMatrixNonTurbo (prody.tests.sequence.test_analysis.TestIdentity) ... ok testUnique (prody.tests.sequence.test_analysis.TestUnique) ... ok testUnique2 (prody.tests.sequence.test_analysis.TestUnique) ... ok testMerge (prody.tests.sequence.test_msa.TestMerging) ... ok testAddition (prody.tests.sequence.test_msa.TestRefinement) ... ok testAll (prody.tests.sequence.test_msa.TestRefinement) ... ok testColocc (prody.tests.sequence.test_msa.TestRefinement) ... ok testExtension (prody.tests.sequence.test_msa.TestRefinement) ... ok testLabel (prody.tests.sequence.test_msa.TestRefinement) ... ok testRowCol (prody.tests.sequence.test_msa.TestRefinement) ... ok testRowocc (prody.tests.sequence.test_msa.TestRefinement) ... ok testSeqid (prody.tests.sequence.test_msa.TestRefinement) ... ok testSeqidLabel (prody.tests.sequence.test_msa.TestRefinement) ... ok testMSAFile (prody.tests.sequence.test_msafile.TestMSAFile) ... ok testWriteFasta (prody.tests.sequence.test_msafile.TestMSAFile) ... /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/sequence/sequence.py:32: DeprecationWarning: The binary mode of fromstring is deprecated, as it behaves surprisingly on unicode inputs. Use frombuffer instead self._seq = fromstring(one, '|S1') ok testWriteSelex (prody.tests.sequence.test_msafile.TestMSAFile) ... ok testWriteStockholm (prody.tests.sequence.test_msafile.TestMSAFile) ... ok testArray (prody.tests.sequence.test_msafile.TestParseMSA) ... ok testIterator (prody.tests.sequence.test_msafile.TestParseMSA) ... ok testMapping (prody.tests.sequence.test_msafile.TestParseMSA) ... ok testFasta (prody.tests.sequence.test_msafile.TestWriteMSA) ... ok testSelex (prody.tests.sequence.test_msafile.TestWriteMSA) ... ok testStringConversion (prody.tests.sequence.test_sequence.TestSequence) ... /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/sequence/sequence.py:36: DeprecationWarning: The binary mode of fromstring is deprecated, as it behaves surprisingly on unicode inputs. Use frombuffer instead self._seq = fromstring(args[0], '|S1') ok testParseDCD (prody.tests.trajectory.test_dcdfile.TestDCDFile) ... ok testWrite (prody.tests.trajectory.test_dcdfile.TestDCDFile) ... ok testWriteDCD (prody.tests.trajectory.test_dcdfile.TestDCDFile) ... ok testWriteModeAppend (prody.tests.trajectory.test_dcdfile.TestDCDFile) ... ok testAll (prody.tests.trajectory.test_frame.TestSuperpose) ... ok testCarbon (prody.tests.trajectory.test_frame.TestSuperpose) ... ok testCoords (prody.tests.utilities.test_checkers.TestCheckCoords) ... ok testCoordset (prody.tests.utilities.test_checkers.TestCheckCoords) ... ok testCoordsetNatoms (prody.tests.utilities.test_checkers.TestCheckCoords) ... ok testInvalidCoords (prody.tests.utilities.test_checkers.TestCheckCoords) ... ok testCorrectMonotypeOneArg (prody.tests.utilities.test_checkers.testCheckTypes) ... ok testCorrectMonotypeTwoArgs (prody.tests.utilities.test_checkers.testCheckTypes) ... ok testCorrectMultitypeOneArg (prody.tests.utilities.test_checkers.testCheckTypes) ... ok testWrongMonotypeOneArg (prody.tests.utilities.test_checkers.testCheckTypes) ... ok testWrongMonotypeTwoArgs (prody.tests.utilities.test_checkers.testCheckTypes) ... ok testWrongMultitypeOneArg (prody.tests.utilities.test_checkers.testCheckTypes) ... ok testContinuous (prody.tests.utilities.test_misctools.TestRangeString) ... ok testGapped (prody.tests.utilities.test_misctools.TestRangeString) ... ok testNegative (prody.tests.utilities.test_misctools.TestRangeString) ... ok testRepeated (prody.tests.utilities.test_misctools.TestRangeString) ... ok testBuffer (prody.tests.utilities.test_pathtools.TestGunzip) ... /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/utilities/test_pathtools.py:34: ResourceWarning: unclosed file <_io.BufferedReader name='/tmp/compressed.txt.gz'> buff = open(self.gzfn, 'rb').read() ResourceWarning: Enable tracemalloc to get the object allocation traceback ok testFile (prody.tests.utilities.test_pathtools.TestGunzip) ... /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/utilities/test_pathtools.py:29: ResourceWarning: unclosed file <_io.TextIOWrapper name='/tmp/compressed.txt' mode='r' encoding='UTF-8'> text = open(fn).read() ResourceWarning: Enable tracemalloc to get the object allocation traceback ok ====================================================================== FAIL: testFunctionSelection13 (prody.tests.atomic.test_select.TestSelect) Test function selections 'abs(x) == sqrt(sq(x))' for pdb3mht ---------------------------------------------------------------------- Traceback (most recent call last): File "/build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/atomic/test_select.py", line 442, in func self.assertEqual(len(sel), natoms, AssertionError: 3205 != 3211 : selection 'abs(x) == sqrt(sq(x))' for AtomGroup 3mht failed, expected 3211, selected 3205 ====================================================================== FAIL: testFunctionSelection14 (prody.tests.atomic.test_select.TestSelect) Test function selections "abs(x) == sqrt(sq(x))" ---------------------------------------------------------------------- Traceback (most recent call last): File "/build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build/prody/tests/atomic/test_select.py", line 483, in func self.assertEqual(len(sel), natoms, AssertionError: 3205 != 3211 : selection 'abs(x) == sqrt(sq(x))' for Selection 'all' failed, expected 3211, selected 3205 ---------------------------------------------------------------------- Ran 954 tests in 51.214s FAILED (failures=2, skipped=37) E: pybuild pybuild:388: test: plugin distutils failed with: exit code=1: cd /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.10_prody/build; python3.10 -m unittest discover -v I: pybuild base:240: cd /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build; python3.11 -m unittest discover -v /usr/lib/python3/dist-packages/Bio/pairwise2.py:278: BiopythonDeprecationWarning: Bio.pairwise2 has been deprecated, and we intend to remove it in a future release of Biopython. As an alternative, please consider using Bio.Align.PairwiseAligner as a replacement, and contact the Biopython developers if you still need the Bio.pairwise2 module. warnings.warn( testANMCommand (prody.tests.apps.test_prody_anm.TestANMCommand.testANMCommand) ... skipped 'prody command not found' testAlignConcat (prody.tests.apps.test_prody_catdcd.TestCatdcdCommand.testAlignConcat) ... skipped 'prody command not found' testAlignException (prody.tests.apps.test_prody_catdcd.TestCatdcdCommand.testAlignException) ... skipped 'prody command is not found' testIOException (prody.tests.apps.test_prody_catdcd.TestCatdcdCommand.testIOException) ... skipped 'prody command is not found' testSelectConcat (prody.tests.apps.test_prody_catdcd.TestCatdcdCommand.testSelectConcat) ... skipped 'prody command not found' testSelectException (prody.tests.apps.test_prody_catdcd.TestCatdcdCommand.testSelectException) ... skipped 'prody command is not found' testSelectException2 (prody.tests.apps.test_prody_catdcd.TestCatdcdCommand.testSelectException2) ... skipped 'prody command is not found' testSimpleConcat (prody.tests.apps.test_prody_catdcd.TestCatdcdCommand.testSimpleConcat) ... skipped 'prody command not found' testCommandExample1 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample1) Test example: $ prody anm 1p38 ... skipped 'prody command not found' testCommandExample10 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample10) Test example: $ prody align 2k39 --select "backbone and resnum < 71" ... skipped 'prody command not found' testCommandExample11 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample11) Test example: $ prody align --select "resnum < 300" 1p38 1r39 1zz2 ... skipped 'prody command not found' testCommandExample12 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample12) Test example: $ prody align --select "resnum 1 to 70" 1aar 2k39 ... skipped 'prody command not found' testCommandExample13 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample13) Test example: $ prody align --select "noh heme and chain A" 1hrc 1fi7 ... skipped 'prody command not found' testCommandExample14 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample14) Test example: $ prody biomol 2bfu ... skipped 'prody command not found' testCommandExample15 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample15) Test example: $ prody select -o B11 "resname B11" 1zz2 $ prody select -o BOG "resname BOG" 1zz2 $ prody contacts -r 4.0 -t residue -s protein 1zz2 B11.pdb BOG.pdb ... skipped 'prody command not found' testCommandExample16 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample16) Test example: $ prody fetch 1mkp 1p38 ... skipped 'prody command not found' testCommandExample17 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample17) Test example: $ prody select backbone 1p38 1r39 ... skipped 'prody command not found' testCommandExample18 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample18) Test example: $ prody energy 1p38 1r39 ... skipped 'prody command not found' testCommandExample2 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample2) Test example: $ prody anm 1aar -s "calpha and chain A and resnum < 70" -A ... skipped 'prody command not found' testCommandExample3 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample3) Test example: $ prody gnm 1p38 ... skipped 'prody command not found' testCommandExample4 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample4) Test example: $ prody gnm 1aar -c 7 -s "calpha and chain A and resnum < 70" -A ... skipped 'prody command not found' testCommandExample5 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample5) Test example: $ prody pca 2k39 ... skipped 'prody command not found' testCommandExample6 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample6) Test example: $ prody pca 2k39 --select "backbone and resnum < 71" -a -A ... skipped 'prody command not found' testCommandExample7 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample7) Test example: $ prody pca 2k39 ... skipped 'prody command not found' testCommandExample8 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample8) Test example: $ prody pca 2k39 --select "backbone and resnum < 71" -a -A ... skipped 'prody command not found' testCommandExample9 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample9) Test example: $ prody align 2k39 ... skipped 'prody command not found' testGNMCommand (prody.tests.apps.test_prody_gnm.TestGNMCommand.testGNMCommand) ... skipped 'prody command not found' testPCACommandDCD (prody.tests.apps.test_prody_pca.TestPCACommand.testPCACommandDCD) ... skipped 'prody command not found' testPCACommandPDB (prody.tests.apps.test_prody_pca.TestPCACommand.testPCACommandPDB) ... skipped 'prody command not found' testAtomGroup (prody.tests.atomic.test_atomic.TestAtomIterations.testAtomGroup) ... ok testAtomMap (prody.tests.atomic.test_atomic.TestAtomIterations.testAtomMap) ... ok testChain (prody.tests.atomic.test_atomic.TestAtomIterations.testChain) ... ok testResidue (prody.tests.atomic.test_atomic.TestAtomIterations.testResidue) ... ok testSelection (prody.tests.atomic.test_atomic.TestAtomIterations.testSelection) ... ok testAtom (prody.tests.atomic.test_atomic.TestPickling.testAtom) ... ok testAtomGroup (prody.tests.atomic.test_atomic.TestPickling.testAtomGroup) ... ok testSelection (prody.tests.atomic.test_atomic.TestPickling.testSelection) ... ok testSaveLoad (prody.tests.atomic.test_atomic.TestSaveLoad.testSaveLoad) ... ok testInstantiation (prody.tests.atomic.test_atommap.TestInstantiation.testInstantiation) ... ok testAllSelection (prody.tests.atomic.test_atommap.TestSelection.testAllSelection) ... ok testChainSelection (prody.tests.atomic.test_atommap.TestSelection.testChainSelection) ... ok testGetBoolArray (prody.tests.atomic.test_atommap.TestSelection.testGetBoolArray) ... ok testNameSelection (prody.tests.atomic.test_atommap.TestSelection.testNameSelection) ... ok testSplit (prody.tests.atomic.test_fragment.TestFragment.testSplit) ... ok testSplitCopy (prody.tests.atomic.test_fragment.TestFragment.testSplitCopy) ... ok testSplitNoh (prody.tests.atomic.test_fragment.TestFragment.testSplitNoh) ... ok testSplitNohCopy (prody.tests.atomic.test_fragment.TestFragment.testSplitNohCopy) ... ok testWhole (prody.tests.atomic.test_fragment.TestFragment.testWhole) ... ok testWhole2 (prody.tests.atomic.test_fragment.TestFragment.testWhole2) ... ok testWholeAll (prody.tests.atomic.test_fragment.TestFragment.testWholeAll) ... ok testWholeCopy (prody.tests.atomic.test_fragment.TestFragment.testWholeCopy) ... ok testWholeNoh (prody.tests.atomic.test_fragment.TestFragment.testWholeNoh) ... ok testWholeNohCopy (prody.tests.atomic.test_fragment.TestFragment.testWholeNohCopy) ... ok testCA (prody.tests.atomic.test_hierview.TestShuffled.testCA) ... ok testProtein (prody.tests.atomic.test_hierview.TestShuffled.testProtein) ... ok testNumResidues (prody.tests.atomic.test_hierview.TestTerRecord.testNumResidues) ... ok testResidueIndexing (prody.tests.atomic.test_hierview.TestTerRecord.testResidueIndexing) ... ok testSelectionResidueIndexing (prody.tests.atomic.test_hierview.TestTerRecord.testSelectionResidueIndexing) ... ok testSelectionResidueIndexing2 (prody.tests.atomic.test_hierview.TestTerRecord.testSelectionResidueIndexing2) ... ok testMacro1 (prody.tests.atomic.test_select.TestMacros.testMacro1) Test macro *cacb*: 'name CA CB' ... ok testMacro2 (prody.tests.atomic.test_select.TestMacros.testMacro2) Test macro *donors*: '(protein) and (name N NE NH2 ND2 NE2 ND1 OG OH NH1 SG OG1 NE2 NZ NE1 ND1 NE2)' ... ok testMacroFunctions (prody.tests.atomic.test_select.TestMacros.testMacroFunctions) ... ok testBondedtoSelection1 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection1) Test bondedto selections 'bonded to index 0' for imatinib ... ok testBondedtoSelection10 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection10) Test bondedto selections "bonded 2 to index 0" ... ok testBondedtoSelection11 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection11) Test bondedto selections 'bonded 0 to index 0' for imatinib ... ok testBondedtoSelection12 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection12) Test bondedto selections "bonded 0 to index 0" ... ok testBondedtoSelection13 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection13) Test bondedto selections 'bonded 3 to index 0' for imatinib ... ok testBondedtoSelection14 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection14) Test bondedto selections "bonded 3 to index 0" ... ok testBondedtoSelection15 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection15) Test bondedto selections 'bonded 4 to index 0' for imatinib ... ok testBondedtoSelection16 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection16) Test bondedto selections "bonded 4 to index 0" ... ok testBondedtoSelection17 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection17) Test bondedto selections 'bonded 4 to index 0' for imatinib ... ok testBondedtoSelection18 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection18) Test bondedto selections "bonded 4 to index 0" ... ok testBondedtoSelection19 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection19) Test bondedto selections 'bonded 4 to index 0' for imatinib ... ok testBondedtoSelection2 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection2) Test bondedto selections "bonded to index 0" ... ok testBondedtoSelection20 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection20) Test bondedto selections "bonded 4 to index 0" ... ok testBondedtoSelection21 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection21) Test bondedto selections 'exbonded 1 to index 0' for imatinib ... ok testBondedtoSelection22 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection22) Test bondedto selections "exbonded 1 to index 0" ... ok testBondedtoSelection23 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection23) Test bondedto selections 'exbonded 2 to index 0' for imatinib ... ok testBondedtoSelection24 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection24) Test bondedto selections "exbonded 2 to index 0" ... ok testBondedtoSelection25 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection25) Test bondedto selections 'exbonded 3 to index 0' for imatinib ... ok testBondedtoSelection26 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection26) Test bondedto selections "exbonded 3 to index 0" ... ok testBondedtoSelection27 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection27) Test bondedto selections 'bonded 20 to index 0' for imatinib ... ok testBondedtoSelection28 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection28) Test bondedto selections "bonded 20 to index 0" ... ok testBondedtoSelection29 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection29) Test bondedto selections 'bonded 20 to index 10' for imatinib ... ok testBondedtoSelection3 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection3) Test bondedto selections 'exbonded to index 0' for imatinib ... ok testBondedtoSelection30 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection30) Test bondedto selections "bonded 20 to index 10" ... ok testBondedtoSelection31 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection31) Test bondedto selections 'bonded to index 1000' for imatinib ... ok testBondedtoSelection32 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection32) Test bondedto selections "bonded to index 1000" ... ok testBondedtoSelection33 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection33) Test bondedto selections 'fragment 0' for imatinib ... ok testBondedtoSelection34 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection34) Test bondedto selections "fragment 0" ... ok testBondedtoSelection35 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection35) Test bondedto selections 'fragment 1' for imatinib ... ok testBondedtoSelection36 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection36) Test bondedto selections "fragment 1" ... ok testBondedtoSelection37 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection37) Test bondedto selections 'fragment 0 1 2' for imatinib ... ok testBondedtoSelection38 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection38) Test bondedto selections "fragment 0 1 2" ... ok testBondedtoSelection39 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection39) Test bondedto selections 'fragindex 0 1 2' for imatinib ... ok testBondedtoSelection4 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection4) Test bondedto selections "exbonded to index 0" ... ok testBondedtoSelection40 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection40) Test bondedto selections "fragindex 0 1 2" ... ok testBondedtoSelection41 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection41) Test bondedto selections 'fragindex 0:2' for imatinib ... ok testBondedtoSelection42 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection42) Test bondedto selections "fragindex 0:2" ... ok testBondedtoSelection5 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection5) Test bondedto selections 'bonded to index 67' for imatinib ... ok testBondedtoSelection6 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection6) Test bondedto selections "bonded to index 67" ... ok testBondedtoSelection7 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection7) Test bondedto selections 'exbonded to index 67' for imatinib ... ok testBondedtoSelection8 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection8) Test bondedto selections "exbonded to index 67" ... ok testBondedtoSelection9 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection9) Test bondedto selections 'bonded 2 to index 0' for imatinib ... ok testComparisonsSelection1 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection1) Test comparisons selections 'x = -51.659' for pdb3mht ... ok testComparisonsSelection10 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection10) Test comparisons selections "beta > 10" ... ok testComparisonsSelection11 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection11) Test comparisons selections 'beta < 10' for pdb3mht ... ok testComparisonsSelection12 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection12) Test comparisons selections "beta < 10" ... ok testComparisonsSelection13 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection13) Test comparisons selections 'occupancy > 0.999999' for pdb3mht ... ok testComparisonsSelection14 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection14) Test comparisons selections "occupancy > 0.999999" ... ok testComparisonsSelection15 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection15) Test comparisons selections '-10 <= x < 0' for pdb3mht ... ok testComparisonsSelection16 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection16) Test comparisons selections "-10 <= x < 0" ... ok testComparisonsSelection17 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection17) Test comparisons selections '11 > 10' for pdb3mht ... ok testComparisonsSelection18 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection18) Test comparisons selections "11 > 10" ... ok testComparisonsSelection19 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection19) Test comparisons selections 'radius > 10' for pdb3mht ... ok testComparisonsSelection2 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection2) Test comparisons selections "x = -51.659" ... ok testComparisonsSelection20 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection20) Test comparisons selections "radius > 10" ... ok testComparisonsSelection21 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection21) Test comparisons selections 'chain = A' for pdb3mht ... ok testComparisonsSelection22 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection22) Test comparisons selections "chain = A" ... ok testComparisonsSelection23 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection23) Test comparisons selections 'x x < 1' for pdb3mht ... ok testComparisonsSelection24 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection24) Test comparisons selections "x x < 1" ... ok testComparisonsSelection25 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection25) Test comparisons selections 'name < 1' for pdb3mht ... ok testComparisonsSelection26 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection26) Test comparisons selections "name < 1" ... ok testComparisonsSelection3 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection3) Test comparisons selections 'x != -51.659' for pdb3mht ... ok testComparisonsSelection4 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection4) Test comparisons selections "x != -51.659" ... ok testComparisonsSelection5 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection5) Test comparisons selections 'z >= 82.813' for pdb3mht ... ok testComparisonsSelection6 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection6) Test comparisons selections "z >= 82.813" ... ok testComparisonsSelection7 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection7) Test comparisons selections 'z < 82.813' for pdb3mht ... ok testComparisonsSelection8 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection8) Test comparisons selections "z < 82.813" ... ok testComparisonsSelection9 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection9) Test comparisons selections 'beta > 10' for pdb3mht ... ok testCompositeSelection1 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection1) Test composite selections 'chain x y z C and x 10' for pdb3mht ... ok testCompositeSelection10 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection10) Test composite selections "water and within 5 of not protein" ... ok testCompositeSelection11 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection11) Test composite selections 'backbone and sqrt((x - 25)**2 + (y - 74)**2 + (z - 13)**2) <= 500' for pdb3mht ... ok testCompositeSelection12 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection12) Test composite selections "backbone and sqrt((x - 25)**2 + (y - 74)**2 + (z - 13)**2) <= 500" ... ok testCompositeSelection13 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection13) Test composite selections '(not resname SAH) and (protein and name CA) or (nucleic and name P)' for pdb3mht ... ok testCompositeSelection14 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection14) Test composite selections "(not resname SAH) and (protein and name CA) or (nucleic and name P)" ... ok testCompositeSelection15 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection15) Test composite selections 'protein and (backbone or name H)' for pdb3mht ... ok testCompositeSelection16 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection16) Test composite selections "protein and (backbone or name H)" ... ok testCompositeSelection17 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection17) Test composite selections 'same residue as within 4 of and resname SAH' for pdb3mht ... ok testCompositeSelection18 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection18) Test composite selections "same residue as within 4 of and resname SAH" ... ok testCompositeSelection19 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection19) Test composite selections 'protein and name CA CB and same residue as ((x+21.2)**2 + (y-35.9)**2 + (z-80.0)**2)**0.5 < 10' for pdb3mht ... ok testCompositeSelection2 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection2) Test composite selections "chain x y z C and x 10" ... ok testCompositeSelection20 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection20) Test composite selections "protein and name CA CB and same residue as ((x+21.2)**2 + (y-35.9)**2 + (z-80.0)**2)**0.5 < 10" ... ok testCompositeSelection3 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection3) Test composite selections 'resnum `1` `2`' for pdb3mht ... ok testCompositeSelection4 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection4) Test composite selections "resnum `1` `2`" ... ok testCompositeSelection5 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection5) Test composite selections 'same residue as within 4 of resname SAH' for pdb3mht ... ok testCompositeSelection6 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection6) Test composite selections "same residue as within 4 of resname SAH" ... ok testCompositeSelection7 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection7) Test composite selections 'name CA and same residue as within 4 of resname SAH' for pdb3mht ... ok testCompositeSelection8 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection8) Test composite selections "name CA and same residue as within 4 of resname SAH" ... ok testCompositeSelection9 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection9) Test composite selections 'water and within 5 of not protein' for pdb3mht ... ok testDocexamplesSelection1 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection1) Test docexamples selections 'serial 1 2 3' for pdb3mht ... ok testDocexamplesSelection10 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection10) Test docexamples selections "beta 555.55" ... ok testDocexamplesSelection11 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection11) Test docexamples selections 'beta 1 to 500' for pdb3mht ... ok testDocexamplesSelection12 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection12) Test docexamples selections "beta 1 to 500" ... ok testDocexamplesSelection13 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection13) Test docexamples selections 'beta 1:500' for pdb3mht ... ok testDocexamplesSelection14 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection14) Test docexamples selections "beta 1:500" ... ok testDocexamplesSelection15 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection15) Test docexamples selections 'beta < 500' for pdb3mht ... ok testDocexamplesSelection16 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection16) Test docexamples selections "beta < 500" ... ok testDocexamplesSelection17 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection17) Test docexamples selections 'resnum 120A 120B' for pdb3mht ... ok testDocexamplesSelection18 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection18) Test docexamples selections "resnum 120A 120B" ... ok testDocexamplesSelection19 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection19) Test docexamples selections 'icode A' for pdb3mht ... ok testDocexamplesSelection2 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection2) Test docexamples selections "serial 1 2 3" ... ok testDocexamplesSelection20 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection20) Test docexamples selections "icode A" ... ok testDocexamplesSelection21 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection21) Test docexamples selections 'icode _' for pdb3mht ... ok testDocexamplesSelection22 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection22) Test docexamples selections "icode _" ... ok testDocexamplesSelection23 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection23) Test docexamples selections 'charge 1' for pdb3mht ... ok testDocexamplesSelection24 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection24) Test docexamples selections "charge 1" ... ok testDocexamplesSelection25 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection25) Test docexamples selections 'abs(charge) == 1' for pdb3mht ... ok testDocexamplesSelection26 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection26) Test docexamples selections "abs(charge) == 1" ... ok testDocexamplesSelection27 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection27) Test docexamples selections 'charge < 0' for pdb3mht ... ok testDocexamplesSelection28 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection28) Test docexamples selections "charge < 0" ... ok testDocexamplesSelection29 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection29) Test docexamples selections '0 < mass < 500' for pdb3mht ... ok testDocexamplesSelection3 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection3) Test docexamples selections 'serial 1 to 10' for pdb3mht ... ok testDocexamplesSelection30 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection30) Test docexamples selections "0 < mass < 500" ... ok testDocexamplesSelection31 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection31) Test docexamples selections 'abs(mass) <= mass <= 10' for pdb3mht ... ok testDocexamplesSelection32 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection32) Test docexamples selections "abs(mass) <= mass <= 10" ... ok testDocexamplesSelection4 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection4) Test docexamples selections "serial 1 to 10" ... ok testDocexamplesSelection5 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection5) Test docexamples selections 'serial 1:10:2' for pdb3mht ... ok testDocexamplesSelection6 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection6) Test docexamples selections "serial 1:10:2" ... ok testDocexamplesSelection7 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection7) Test docexamples selections 'serial < 10' for pdb3mht ... ok testDocexamplesSelection8 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection8) Test docexamples selections "serial < 10" ... ok testDocexamplesSelection9 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection9) Test docexamples selections 'beta 555.55' for pdb3mht ... ok testEquivalentSelection1 (prody.tests.atomic.test_select.TestSelect.testEquivalentSelection1) Test equivalent selections 'chain C' for pdb3mht ... ok testEquivalentSelection2 (prody.tests.atomic.test_select.TestSelect.testEquivalentSelection2) Test equivalent selections "chain C" ... ok testEquivalentSelection3 (prody.tests.atomic.test_select.TestSelect.testEquivalentSelection3) Test equivalent selections 'chain C' for pdb3mht ... ok testEquivalentSelection4 (prody.tests.atomic.test_select.TestSelect.testEquivalentSelection4) Test equivalent selections "chain C" ... ok testEquivalentSelection5 (prody.tests.atomic.test_select.TestSelect.testEquivalentSelection5) Test equivalent selections 'nucleic' for pdb3mht ... ok testEquivalentSelection6 (prody.tests.atomic.test_select.TestSelect.testEquivalentSelection6) Test equivalent selections "nucleic" ... ok testFlagsSelection1 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection1) Test flags selections 'none' for pdb3mht ... ok testFlagsSelection10 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection10) Test flags selections "aliphatic" ... ok testFlagsSelection100 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection100) Test flags selections "bridge" ... ok testFlagsSelection101 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection101) Test flags selections 'bend' for pdb3mht ... ok testFlagsSelection102 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection102) Test flags selections "bend" ... ok testFlagsSelection103 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection103) Test flags selections 'coil' for pdb3mht ... ok testFlagsSelection104 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection104) Test flags selections "coil" ... ok testFlagsSelection11 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection11) Test flags selections 'aromatic' for pdb3mht ... ok testFlagsSelection12 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection12) Test flags selections "aromatic" ... ok testFlagsSelection13 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection13) Test flags selections 'at' for pdb3mht ... ok testFlagsSelection14 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection14) Test flags selections "at" ... ok testFlagsSelection15 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection15) Test flags selections 'basic' for pdb3mht ... ok testFlagsSelection16 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection16) Test flags selections "basic" ... ok testFlagsSelection17 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection17) Test flags selections 'buried' for pdb3mht ... ok testFlagsSelection18 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection18) Test flags selections "buried" ... ok testFlagsSelection19 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection19) Test flags selections 'cg' for pdb3mht ... ok testFlagsSelection2 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection2) Test flags selections "none" ... ok testFlagsSelection20 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection20) Test flags selections "cg" ... ok testFlagsSelection21 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection21) Test flags selections 'charged' for pdb3mht ... ok testFlagsSelection22 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection22) Test flags selections "charged" ... ok testFlagsSelection23 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection23) Test flags selections 'cyclic' for pdb3mht ... ok testFlagsSelection24 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection24) Test flags selections "cyclic" ... ok testFlagsSelection25 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection25) Test flags selections 'heme' for pdb3mht ... ok testFlagsSelection26 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection26) Test flags selections "heme" ... ok testFlagsSelection27 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection27) Test flags selections 'hydrophobic' for pdb3mht ... ok testFlagsSelection28 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection28) Test flags selections "hydrophobic" ... ok testFlagsSelection29 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection29) Test flags selections 'ion' for pdb3mht ... ok testFlagsSelection3 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection3) Test flags selections 'all' for pdb3mht ... ok testFlagsSelection30 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection30) Test flags selections "ion" ... ok testFlagsSelection31 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection31) Test flags selections 'large' for pdb3mht ... ok testFlagsSelection32 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection32) Test flags selections "large" ... ok testFlagsSelection33 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection33) Test flags selections 'lipid' for pdb3mht ... ok testFlagsSelection34 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection34) Test flags selections "lipid" ... ok testFlagsSelection35 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection35) Test flags selections 'medium' for pdb3mht ... ok testFlagsSelection36 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection36) Test flags selections "medium" ... ok testFlagsSelection37 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection37) Test flags selections 'neutral' for pdb3mht ... ok testFlagsSelection38 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection38) Test flags selections "neutral" ... ok testFlagsSelection39 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection39) Test flags selections 'nucleic' for pdb3mht ... ok testFlagsSelection4 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection4) Test flags selections "all" ... ok testFlagsSelection40 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection40) Test flags selections "nucleic" ... ok testFlagsSelection41 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection41) Test flags selections 'nucleotide' for pdb3mht ... ok testFlagsSelection42 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection42) Test flags selections "nucleotide" ... ok testFlagsSelection43 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection43) Test flags selections 'nucleobase' for pdb3mht ... ok testFlagsSelection44 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection44) Test flags selections "nucleobase" ... ok testFlagsSelection45 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection45) Test flags selections 'nucleoside' for pdb3mht ... ok testFlagsSelection46 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection46) Test flags selections "nucleoside" ... ok testFlagsSelection47 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection47) Test flags selections 'polar' for pdb3mht ... ok testFlagsSelection48 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection48) Test flags selections "polar" ... ok testFlagsSelection49 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection49) Test flags selections 'protein' for pdb3mht ... ok testFlagsSelection5 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection5) Test flags selections 'acidic' for pdb3mht ... ok testFlagsSelection50 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection50) Test flags selections "protein" ... ok testFlagsSelection51 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection51) Test flags selections 'stdaa' for pdb3mht ... ok testFlagsSelection52 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection52) Test flags selections "stdaa" ... ok testFlagsSelection53 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection53) Test flags selections 'nonstdaa' for pdb3mht ... ok testFlagsSelection54 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection54) Test flags selections "nonstdaa" ... ok testFlagsSelection55 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection55) Test flags selections 'purine' for pdb3mht ... ok testFlagsSelection56 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection56) Test flags selections "purine" ... ok testFlagsSelection57 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection57) Test flags selections 'pyrimidine' for pdb3mht ... ok testFlagsSelection58 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection58) Test flags selections "pyrimidine" ... ok testFlagsSelection59 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection59) Test flags selections 'small' for pdb3mht ... ok testFlagsSelection6 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection6) Test flags selections "acidic" ... ok testFlagsSelection60 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection60) Test flags selections "small" ... ok testFlagsSelection61 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection61) Test flags selections 'sugar' for pdb3mht ... ok testFlagsSelection62 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection62) Test flags selections "sugar" ... ok testFlagsSelection63 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection63) Test flags selections 'surface' for pdb3mht ... ok testFlagsSelection64 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection64) Test flags selections "surface" ... ok testFlagsSelection65 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection65) Test flags selections 'water' for pdb3mht ... ok testFlagsSelection66 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection66) Test flags selections "water" ... ok testFlagsSelection67 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection67) Test flags selections 'hetero' for pdb3mht ... ok testFlagsSelection68 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection68) Test flags selections "hetero" ... ok testFlagsSelection69 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection69) Test flags selections 'hetatm' for pdb3mht ... ok testFlagsSelection7 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection7) Test flags selections 'acyclic' for pdb3mht ... ok testFlagsSelection70 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection70) Test flags selections "hetatm" ... ok testFlagsSelection71 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection71) Test flags selections 'calpha' for pdb3mht ... ok testFlagsSelection72 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection72) Test flags selections "calpha" ... ok testFlagsSelection73 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection73) Test flags selections 'backbone' for pdb3mht ... ok testFlagsSelection74 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection74) Test flags selections "backbone" ... ok testFlagsSelection75 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection75) Test flags selections 'backbonefull' for pdb3mht ... ok testFlagsSelection76 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection76) Test flags selections "backbonefull" ... ok testFlagsSelection77 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection77) Test flags selections 'sidechain' for pdb3mht ... ok testFlagsSelection78 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection78) Test flags selections "sidechain" ... ok testFlagsSelection79 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection79) Test flags selections 'carbon' for pdb3mht ... ok testFlagsSelection8 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection8) Test flags selections "acyclic" ... ok testFlagsSelection80 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection80) Test flags selections "carbon" ... ok testFlagsSelection81 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection81) Test flags selections 'hydrogen' for pdb3mht ... ok testFlagsSelection82 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection82) Test flags selections "hydrogen" ... ok testFlagsSelection83 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection83) Test flags selections 'noh' for pdb3mht ... ok testFlagsSelection84 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection84) Test flags selections "noh" ... ok testFlagsSelection85 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection85) Test flags selections 'nitrogen' for pdb3mht ... ok testFlagsSelection86 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection86) Test flags selections "nitrogen" ... ok testFlagsSelection87 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection87) Test flags selections 'oxygen' for pdb3mht ... ok testFlagsSelection88 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection88) Test flags selections "oxygen" ... ok testFlagsSelection89 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection89) Test flags selections 'sulfur' for pdb3mht ... ok testFlagsSelection9 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection9) Test flags selections 'aliphatic' for pdb3mht ... ok testFlagsSelection90 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection90) Test flags selections "sulfur" ... ok testFlagsSelection91 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection91) Test flags selections 'extended' for pdb3mht ... ok testFlagsSelection92 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection92) Test flags selections "extended" ... ok testFlagsSelection93 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection93) Test flags selections 'helix' for pdb3mht ... ok testFlagsSelection94 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection94) Test flags selections "helix" ... ok testFlagsSelection95 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection95) Test flags selections 'helix310' for pdb3mht ... ok testFlagsSelection96 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection96) Test flags selections "helix310" ... ok testFlagsSelection97 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection97) Test flags selections 'turn' for pdb3mht ... ok testFlagsSelection98 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection98) Test flags selections "turn" ... ok testFlagsSelection99 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection99) Test flags selections 'bridge' for pdb3mht ... ok testFloatSelection1 (prody.tests.atomic.test_select.TestSelect.testFloatSelection1) Test float selections 'beta 5.0 41.15 11.85' for pdb3mht ... ok testFloatSelection10 (prody.tests.atomic.test_select.TestSelect.testFloatSelection10) Test float selections "z 115.246 45.784" ... ok testFloatSelection11 (prody.tests.atomic.test_select.TestSelect.testFloatSelection11) Test float selections 'charge 0' for pdb3mht ... ok testFloatSelection12 (prody.tests.atomic.test_select.TestSelect.testFloatSelection12) Test float selections "charge 0" ... ok testFloatSelection13 (prody.tests.atomic.test_select.TestSelect.testFloatSelection13) Test float selections 'mass 1' for pdb3mht ... ok testFloatSelection14 (prody.tests.atomic.test_select.TestSelect.testFloatSelection14) Test float selections "mass 1" ... ok testFloatSelection15 (prody.tests.atomic.test_select.TestSelect.testFloatSelection15) Test float selections 'radius 0' for pdb3mht ... ok testFloatSelection16 (prody.tests.atomic.test_select.TestSelect.testFloatSelection16) Test float selections "radius 0" ... ok testFloatSelection17 (prody.tests.atomic.test_select.TestSelect.testFloatSelection17) Test float selections 'beta "1."' for pdb3mht ... ok testFloatSelection18 (prody.tests.atomic.test_select.TestSelect.testFloatSelection18) Test float selections "beta "1."" ... ok testFloatSelection19 (prody.tests.atomic.test_select.TestSelect.testFloatSelection19) Test float selections 'beta = "1."' for pdb3mht ... ok testFloatSelection2 (prody.tests.atomic.test_select.TestSelect.testFloatSelection2) Test float selections "beta 5.0 41.15 11.85" ... ok testFloatSelection20 (prody.tests.atomic.test_select.TestSelect.testFloatSelection20) Test float selections "beta = "1."" ... ok testFloatSelection3 (prody.tests.atomic.test_select.TestSelect.testFloatSelection3) Test float selections 'occupancy 1.0' for pdb3mht ... ok testFloatSelection4 (prody.tests.atomic.test_select.TestSelect.testFloatSelection4) Test float selections "occupancy 1.0" ... ok testFloatSelection5 (prody.tests.atomic.test_select.TestSelect.testFloatSelection5) Test float selections 'x 6.665' for pdb3mht ... ok testFloatSelection6 (prody.tests.atomic.test_select.TestSelect.testFloatSelection6) Test float selections "x 6.665" ... ok testFloatSelection7 (prody.tests.atomic.test_select.TestSelect.testFloatSelection7) Test float selections 'y 69.99 13.314' for pdb3mht ... ok testFloatSelection8 (prody.tests.atomic.test_select.TestSelect.testFloatSelection8) Test float selections "y 69.99 13.314" ... ok testFloatSelection9 (prody.tests.atomic.test_select.TestSelect.testFloatSelection9) Test float selections 'z 115.246 45.784' for pdb3mht ... ok testFunctionSelection1 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection1) Test function selections 'sqrt(x**2 + y**2 + z**2) < 100' for pdb3mht ... ok testFunctionSelection10 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection10) Test function selections "ceil(beta) == 10" ... ok testFunctionSelection11 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection11) Test function selections 'floor(beta) == 10' for pdb3mht ... ok testFunctionSelection12 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection12) Test function selections "floor(beta) == 10" ... ok testFunctionSelection13 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection13) Test function selections 'abs(x) == sqrt(sq(x))' for pdb3mht ... FAIL testFunctionSelection14 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection14) Test function selections "abs(x) == sqrt(sq(x))" ... FAIL testFunctionSelection15 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection15) Test function selections 'sq(x-5)+sq(y+4)+sq(z) > sq(100)' for pdb3mht ... ok testFunctionSelection16 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection16) Test function selections "sq(x-5)+sq(y+4)+sq(z) > sq(100)" ... ok testFunctionSelection17 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection17) Test function selections '1 > sq(occ)' for pdb3mht ... ok testFunctionSelection18 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection18) Test function selections "1 > sq(occ)" ... ok testFunctionSelection19 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection19) Test function selections 'sq(x x) > 1' for pdb3mht ... ok testFunctionSelection2 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection2) Test function selections "sqrt(x**2 + y**2 + z**2) < 100" ... ok testFunctionSelection20 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection20) Test function selections "sq(x x) > 1" ... ok testFunctionSelection3 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection3) Test function selections 'sqrt(x**2 + y**2 + z**2) == (x**2 + y**2 + z**2) ** 0.5' for pdb3mht ... ok testFunctionSelection4 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection4) Test function selections "sqrt(x**2 + y**2 + z**2) == (x**2 + y**2 + z**2) ** 0.5" ... ok testFunctionSelection5 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection5) Test function selections 'beta % 3 < 1' for pdb3mht ... ok testFunctionSelection6 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection6) Test function selections "beta % 3 < 1" ... ok testFunctionSelection7 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection7) Test function selections 'beta % 4 % 3 < 1' for pdb3mht ... ok testFunctionSelection8 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection8) Test function selections "beta % 4 % 3 < 1" ... ok testFunctionSelection9 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection9) Test function selections 'ceil(beta) == 10' for pdb3mht ... ok testIntegerSelection1 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection1) Test integer selections 'index 10 20 10000' for pdb3mht ... ok testIntegerSelection10 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection10) Test integer selections "resnum 100 105" ... ok testIntegerSelection11 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection11) Test integer selections 'resid 0' for pdb3mht ... ok testIntegerSelection12 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection12) Test integer selections "resid 0" ... ok testIntegerSelection13 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection13) Test integer selections 'resid 100 105' for pdb3mht ... ok testIntegerSelection14 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection14) Test integer selections "resid 100 105" ... ok testIntegerSelection15 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection15) Test integer selections 'resid 100 A 105' for pdb3mht ... ok testIntegerSelection16 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection16) Test integer selections "resid 100 A 105" ... ok testIntegerSelection17 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection17) Test integer selections 'fragindex 0' for pdb3mht ... ok testIntegerSelection18 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection18) Test integer selections "fragindex 0" ... ok testIntegerSelection19 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection19) Test integer selections 'fragment 0' for pdb3mht ... ok testIntegerSelection2 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection2) Test integer selections "index 10 20 10000" ... ok testIntegerSelection20 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection20) Test integer selections "fragment 0" ... ok testIntegerSelection3 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection3) Test integer selections 'serial 0' for pdb3mht ... ok testIntegerSelection4 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection4) Test integer selections "serial 0" ... ok testIntegerSelection5 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection5) Test integer selections 'serial 1 2' for pdb3mht ... ok testIntegerSelection6 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection6) Test integer selections "serial 1 2" ... ok testIntegerSelection7 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection7) Test integer selections 'resnum 0' for pdb3mht ... ok testIntegerSelection8 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection8) Test integer selections "resnum 0" ... ok testIntegerSelection9 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection9) Test integer selections 'resnum 100 105' for pdb3mht ... ok testInvalidSelection1 (prody.tests.atomic.test_select.TestSelect.testInvalidSelection1) Test invalid selections 'chain C and and chain C' for pdb3mht ... ok testInvalidSelection10 (prody.tests.atomic.test_select.TestSelect.testInvalidSelection10) Test invalid selections "sqr(x-5)+sqr(y+4)+sqr(z) > sqr(100)" ... ok testInvalidSelection11 (prody.tests.atomic.test_select.TestSelect.testInvalidSelection11) Test invalid selections 'x > sq(calpha)' for pdb3mht ... ok testInvalidSelection12 (prody.tests.atomic.test_select.TestSelect.testInvalidSelection12) Test invalid selections "x > sq(calpha)" ... ok testInvalidSelection13 (prody.tests.atomic.test_select.TestSelect.testInvalidSelection13) Test invalid selections 'x > sq(name CA and resname ALA)' for pdb3mht ... ok testInvalidSelection14 (prody.tests.atomic.test_select.TestSelect.testInvalidSelection14) Test invalid selections "x > sq(name CA and resname ALA)" ... ok testInvalidSelection15 (prody.tests.atomic.test_select.TestSelect.testInvalidSelection15) Test invalid selections 'resname ALA and +1' for pdb3mht ... ok testInvalidSelection16 (prody.tests.atomic.test_select.TestSelect.testInvalidSelection16) Test invalid selections "resname ALA and +1" ... ok testInvalidSelection2 (prody.tests.atomic.test_select.TestSelect.testInvalidSelection2) Test invalid selections "chain C and and chain C" ... ok testInvalidSelection3 (prody.tests.atomic.test_select.TestSelect.testInvalidSelection3) Test invalid selections 'chain C or or chain D' for pdb3mht ... ok testInvalidSelection4 (prody.tests.atomic.test_select.TestSelect.testInvalidSelection4) Test invalid selections "chain C or or chain D" ... ok testInvalidSelection5 (prody.tests.atomic.test_select.TestSelect.testInvalidSelection5) Test invalid selections 'chain C or not or chain D' for pdb3mht ... ok testInvalidSelection6 (prody.tests.atomic.test_select.TestSelect.testInvalidSelection6) Test invalid selections "chain C or not or chain D" ... ok testInvalidSelection7 (prody.tests.atomic.test_select.TestSelect.testInvalidSelection7) Test invalid selections 'chain C + 3' for pdb3mht ... ok testInvalidSelection8 (prody.tests.atomic.test_select.TestSelect.testInvalidSelection8) Test invalid selections "chain C + 3" ... ok testInvalidSelection9 (prody.tests.atomic.test_select.TestSelect.testInvalidSelection9) Test invalid selections 'sqr(x-5)+sqr(y+4)+sqr(z) > sqr(100)' for pdb3mht ... ok testKwargsSelection1 (prody.tests.atomic.test_select.TestSelect.testKwargsSelection1) Test kwargs selections 'within 100 of origin' for pdb3mht ... ok testKwargsSelection10 (prody.tests.atomic.test_select.TestSelect.testKwargsSelection10) Test kwargs selections "within 100 of none" ... ok testKwargsSelection2 (prody.tests.atomic.test_select.TestSelect.testKwargsSelection2) Test kwargs selections "within 100 of origin" ... ok testKwargsSelection3 (prody.tests.atomic.test_select.TestSelect.testKwargsSelection3) Test kwargs selections 'within 100 of origin' for pdb3mht ... ok testKwargsSelection4 (prody.tests.atomic.test_select.TestSelect.testKwargsSelection4) Test kwargs selections "within 100 of origin" ... ok testKwargsSelection5 (prody.tests.atomic.test_select.TestSelect.testKwargsSelection5) Test kwargs selections 'within 100 of origin' for pdb3mht ... ok testKwargsSelection6 (prody.tests.atomic.test_select.TestSelect.testKwargsSelection6) Test kwargs selections "within 100 of origin" ... ok testKwargsSelection7 (prody.tests.atomic.test_select.TestSelect.testKwargsSelection7) Test kwargs selections 'within 100 of origin' for pdb3mht ... ok testKwargsSelection8 (prody.tests.atomic.test_select.TestSelect.testKwargsSelection8) Test kwargs selections "within 100 of origin" ... ok testKwargsSelection9 (prody.tests.atomic.test_select.TestSelect.testKwargsSelection9) Test kwargs selections 'within 100 of none' for pdb3mht ... ok testLogicalSelection1 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection1) Test logical selections 'name or name' for pdb3mht ... ok testLogicalSelection10 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection10) Test logical selections "index 0 or index 1 " ... ok testLogicalSelection11 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection11) Test logical selections 'not not not not index 1' for pdb3mht ... ok testLogicalSelection12 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection12) Test logical selections "not not not not index 1" ... ok testLogicalSelection13 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection13) Test logical selections 'index 0 or index 1 or index 2' for pdb3mht ... ok testLogicalSelection14 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection14) Test logical selections "index 0 or index 1 or index 2" ... ok testLogicalSelection15 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection15) Test logical selections 'index 0 or index 1 or index 2 or index 4' for pdb3mht ... ok testLogicalSelection16 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection16) Test logical selections "index 0 or index 1 or index 2 or index 4" ... ok testLogicalSelection17 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection17) Test logical selections 'index 0 and index 1 ' for pdb3mht ... ok testLogicalSelection18 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection18) Test logical selections "index 0 and index 1 " ... ok testLogicalSelection19 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection19) Test logical selections 'index < 50 and index < 5' for pdb3mht ... ok testLogicalSelection2 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection2) Test logical selections "name or name" ... ok testLogicalSelection20 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection20) Test logical selections "index < 50 and index < 5" ... ok testLogicalSelection21 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection21) Test logical selections 'index < 50 and index < 25 and index < 5' for pdb3mht ... ok testLogicalSelection22 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection22) Test logical selections "index < 50 and index < 25 and index < 5" ... ok testLogicalSelection23 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection23) Test logical selections 'index < 5 and index < 25 and index < 50' for pdb3mht ... ok testLogicalSelection24 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection24) Test logical selections "index < 5 and index < 25 and index < 50" ... ok testLogicalSelection25 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection25) Test logical selections 'index 0 to 5 and index 0 to 25 and index 0 to 50' for pdb3mht ... ok testLogicalSelection26 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection26) Test logical selections "index 0 to 5 and index 0 to 25 and index 0 to 50" ... ok testLogicalSelection27 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection27) Test logical selections 'index < 5 and index < 25 and index < 50 or index < 50 or index < 5' for pdb3mht ... ok testLogicalSelection28 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection28) Test logical selections "index < 5 and index < 25 and index < 50 or index < 50 or index < 5" ... ok testLogicalSelection3 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection3) Test logical selections 'name and name' for pdb3mht ... ok testLogicalSelection4 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection4) Test logical selections "name and name" ... ok testLogicalSelection5 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection5) Test logical selections 'name CA and name CA' for pdb3mht ... ok testLogicalSelection6 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection6) Test logical selections "name CA and name CA" ... ok testLogicalSelection7 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection7) Test logical selections 'name CA or name CA' for pdb3mht ... ok testLogicalSelection8 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection8) Test logical selections "name CA or name CA" ... ok testLogicalSelection9 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection9) Test logical selections 'index 0 or index 1 ' for pdb3mht ... ok testOperationSelection1 (prody.tests.atomic.test_select.TestSelect.testOperationSelection1) Test operation selections 'x ** 2 < 10' for pdb3mht ... ok testOperationSelection10 (prody.tests.atomic.test_select.TestSelect.testOperationSelection10) Test operation selections "x**2 + y**2 + z**2 < 10000" ... ok testOperationSelection2 (prody.tests.atomic.test_select.TestSelect.testOperationSelection2) Test operation selections "x ** 2 < 10" ... ok testOperationSelection3 (prody.tests.atomic.test_select.TestSelect.testOperationSelection3) Test operation selections 'x ** 2 ** 2 ** 2 < 10' for pdb3mht ... ok testOperationSelection4 (prody.tests.atomic.test_select.TestSelect.testOperationSelection4) Test operation selections "x ** 2 ** 2 ** 2 < 10" ... ok testOperationSelection5 (prody.tests.atomic.test_select.TestSelect.testOperationSelection5) Test operation selections 'x ** (+2 ** (+2 ** +2)) < 10' for pdb3mht ... ok testOperationSelection6 (prody.tests.atomic.test_select.TestSelect.testOperationSelection6) Test operation selections "x ** (+2 ** (+2 ** +2)) < 10" ... ok testOperationSelection7 (prody.tests.atomic.test_select.TestSelect.testOperationSelection7) Test operation selections 'occupancy % 2 == 1' for pdb3mht ... ok testOperationSelection8 (prody.tests.atomic.test_select.TestSelect.testOperationSelection8) Test operation selections "occupancy % 2 == 1" ... ok testOperationSelection9 (prody.tests.atomic.test_select.TestSelect.testOperationSelection9) Test operation selections 'x**2 + y**2 + z**2 < 10000' for pdb3mht ... ok testRangeSelection1 (prody.tests.atomic.test_select.TestSelect.testRangeSelection1) Test range selections 'index 0:10' for pdb3mht ... ok testRangeSelection10 (prody.tests.atomic.test_select.TestSelect.testRangeSelection10) Test range selections "resnum 10to15" ... ok testRangeSelection11 (prody.tests.atomic.test_select.TestSelect.testRangeSelection11) Test range selections 'resnum 10:16:1' for pdb3mht ... ok testRangeSelection12 (prody.tests.atomic.test_select.TestSelect.testRangeSelection12) Test range selections "resnum 10:16:1" ... ok testRangeSelection13 (prody.tests.atomic.test_select.TestSelect.testRangeSelection13) Test range selections 'resnum `-3:16:1`' for pdb3mht ... ok testRangeSelection14 (prody.tests.atomic.test_select.TestSelect.testRangeSelection14) Test range selections "resnum `-3:16:1`" ... ok testRangeSelection15 (prody.tests.atomic.test_select.TestSelect.testRangeSelection15) Test range selections 'resid 10to15' for pdb3mht ... ok testRangeSelection16 (prody.tests.atomic.test_select.TestSelect.testRangeSelection16) Test range selections "resid 10to15" ... ok testRangeSelection17 (prody.tests.atomic.test_select.TestSelect.testRangeSelection17) Test range selections 'resid 10:16:1' for pdb3mht ... ok testRangeSelection18 (prody.tests.atomic.test_select.TestSelect.testRangeSelection18) Test range selections "resid 10:16:1" ... ok testRangeSelection19 (prody.tests.atomic.test_select.TestSelect.testRangeSelection19) Test range selections 'x `-10:20`' for pdb3mht ... ok testRangeSelection2 (prody.tests.atomic.test_select.TestSelect.testRangeSelection2) Test range selections "index 0:10" ... ok testRangeSelection20 (prody.tests.atomic.test_select.TestSelect.testRangeSelection20) Test range selections "x `-10:20`" ... ok testRangeSelection21 (prody.tests.atomic.test_select.TestSelect.testRangeSelection21) Test range selections 'x 0:20:1' for pdb3mht ... ok testRangeSelection22 (prody.tests.atomic.test_select.TestSelect.testRangeSelection22) Test range selections "x 0:20:1" ... ok testRangeSelection23 (prody.tests.atomic.test_select.TestSelect.testRangeSelection23) Test range selections 'beta 13.02:13.01' for pdb3mht ... ok testRangeSelection24 (prody.tests.atomic.test_select.TestSelect.testRangeSelection24) Test range selections "beta 13.02:13.01" ... ok testRangeSelection3 (prody.tests.atomic.test_select.TestSelect.testRangeSelection3) Test range selections 'index 0to10' for pdb3mht ... ok testRangeSelection4 (prody.tests.atomic.test_select.TestSelect.testRangeSelection4) Test range selections "index 0to10" ... ok testRangeSelection5 (prody.tests.atomic.test_select.TestSelect.testRangeSelection5) Test range selections 'serial 0:10:2' for pdb3mht ... ok testRangeSelection6 (prody.tests.atomic.test_select.TestSelect.testRangeSelection6) Test range selections "serial 0:10:2" ... ok testRangeSelection7 (prody.tests.atomic.test_select.TestSelect.testRangeSelection7) Test range selections 'serial 0:10:10' for pdb3mht ... ok testRangeSelection8 (prody.tests.atomic.test_select.TestSelect.testRangeSelection8) Test range selections "serial 0:10:10" ... ok testRangeSelection9 (prody.tests.atomic.test_select.TestSelect.testRangeSelection9) Test range selections 'resnum 10to15' for pdb3mht ... ok testRegexpSelection1 (prody.tests.atomic.test_select.TestSelect.testRegexpSelection1) Test regexp selections 'resname "S.."' for pdb3mht ... ok testRegexpSelection10 (prody.tests.atomic.test_select.TestSelect.testRegexpSelection10) Test regexp selections "name "C((A|B)"" ... ok testRegexpSelection2 (prody.tests.atomic.test_select.TestSelect.testRegexpSelection2) Test regexp selections "resname "S.."" ... ok testRegexpSelection3 (prody.tests.atomic.test_select.TestSelect.testRegexpSelection3) Test regexp selections 'name "C.*"' for pdb3mht ... ok testRegexpSelection4 (prody.tests.atomic.test_select.TestSelect.testRegexpSelection4) Test regexp selections "name "C.*"" ... ok testRegexpSelection5 (prody.tests.atomic.test_select.TestSelect.testRegexpSelection5) Test regexp selections 'name ".*\'"' for pdb3mht ... ok testRegexpSelection6 (prody.tests.atomic.test_select.TestSelect.testRegexpSelection6) Test regexp selections "name ".*'"" ... ok testRegexpSelection7 (prody.tests.atomic.test_select.TestSelect.testRegexpSelection7) Test regexp selections 'name "C(A|B)"' for pdb3mht ... ok testRegexpSelection8 (prody.tests.atomic.test_select.TestSelect.testRegexpSelection8) Test regexp selections "name "C(A|B)"" ... ok testRegexpSelection9 (prody.tests.atomic.test_select.TestSelect.testRegexpSelection9) Test regexp selections 'name "C((A|B)"' for pdb3mht ... ok testSameasSelection1 (prody.tests.atomic.test_select.TestSelect.testSameasSelection1) Test sameas selections 'same residue as index 0' for pdb3mht ... ok testSameasSelection10 (prody.tests.atomic.test_select.TestSelect.testSameasSelection10) Test sameas selections "same chain as chain C" ... ok testSameasSelection11 (prody.tests.atomic.test_select.TestSelect.testSameasSelection11) Test sameas selections 'same residue as chain X' for pdb3mht ... ok testSameasSelection12 (prody.tests.atomic.test_select.TestSelect.testSameasSelection12) Test sameas selections "same residue as chain X" ... ok testSameasSelection13 (prody.tests.atomic.test_select.TestSelect.testSameasSelection13) Test sameas selections 'same none as chain C' for pdb3mht ... ok testSameasSelection14 (prody.tests.atomic.test_select.TestSelect.testSameasSelection14) Test sameas selections "same none as chain C" ... ok testSameasSelection15 (prody.tests.atomic.test_select.TestSelect.testSameasSelection15) Test sameas selections 'same residue as same residue as same residue as index 0' for pdb3mht ... ok testSameasSelection16 (prody.tests.atomic.test_select.TestSelect.testSameasSelection16) Test sameas selections "same residue as same residue as same residue as index 0" ... ok testSameasSelection2 (prody.tests.atomic.test_select.TestSelect.testSameasSelection2) Test sameas selections "same residue as index 0" ... ok testSameasSelection3 (prody.tests.atomic.test_select.TestSelect.testSameasSelection3) Test sameas selections 'same chain as index 0' for pdb3mht ... ok testSameasSelection4 (prody.tests.atomic.test_select.TestSelect.testSameasSelection4) Test sameas selections "same chain as index 0" ... ok testSameasSelection5 (prody.tests.atomic.test_select.TestSelect.testSameasSelection5) Test sameas selections 'same segment as index 0' for pdb3mht ... ok testSameasSelection6 (prody.tests.atomic.test_select.TestSelect.testSameasSelection6) Test sameas selections "same segment as index 0" ... ok testSameasSelection7 (prody.tests.atomic.test_select.TestSelect.testSameasSelection7) Test sameas selections 'same residue as resname DG ALA' for pdb3mht ... ok testSameasSelection8 (prody.tests.atomic.test_select.TestSelect.testSameasSelection8) Test sameas selections "same residue as resname DG ALA" ... ok testSameasSelection9 (prody.tests.atomic.test_select.TestSelect.testSameasSelection9) Test sameas selections 'same chain as chain C' for pdb3mht ... ok testSequenceSelection1 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection1) Test sequence selections 'sequence al' for pdb3mht ... ok testSequenceSelection10 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection10) Test sequence selections "sequence FKPY" ... ok testSequenceSelection11 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection11) Test sequence selections 'sequence "SS."' for pdb3mht ... ok testSequenceSelection12 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection12) Test sequence selections "sequence "SS."" ... ok testSequenceSelection13 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection13) Test sequence selections 'sequence "S[A-Z]{2}G"' for pdb3mht ... ok testSequenceSelection14 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection14) Test sequence selections "sequence "S[A-Z]{2}G"" ... ok testSequenceSelection15 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection15) Test sequence selections 'sequence "S.S.S"' for pdb3mht ... ok testSequenceSelection16 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection16) Test sequence selections "sequence "S.S.S"" ... ok testSequenceSelection17 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection17) Test sequence selections 'sequence "."' for pdb3mht ... ok testSequenceSelection18 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection18) Test sequence selections "sequence "."" ... ok testSequenceSelection2 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection2) Test sequence selections "sequence al" ... ok testSequenceSelection3 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection3) Test sequence selections 'sequence A' for pdb3mht ... ok testSequenceSelection4 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection4) Test sequence selections "sequence A" ... ok testSequenceSelection5 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection5) Test sequence selections 'sequence MIEIK' for pdb3mht ... ok testSequenceSelection6 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection6) Test sequence selections "sequence MIEIK" ... ok testSequenceSelection7 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection7) Test sequence selections 'sequence VLNAL' for pdb3mht ... ok testSequenceSelection8 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection8) Test sequence selections "sequence VLNAL" ... ok testSequenceSelection9 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection9) Test sequence selections 'sequence FKPY' for pdb3mht ... ok testSpecialcharSelection1 (prody.tests.atomic.test_select.TestSelect.testSpecialcharSelection1) Test specialchar selections 'altloc ` `' for pdb3mht ... ok testSpecialcharSelection2 (prody.tests.atomic.test_select.TestSelect.testSpecialcharSelection2) Test specialchar selections "altloc ` `" ... ok testSpecialcharSelection3 (prody.tests.atomic.test_select.TestSelect.testSpecialcharSelection3) Test specialchar selections 'name A` `CA`' for pdb3mht ... ok testSpecialcharSelection4 (prody.tests.atomic.test_select.TestSelect.testSpecialcharSelection4) Test specialchar selections "name A` `CA`" ... ok testSpecialcharSelection5 (prody.tests.atomic.test_select.TestSelect.testSpecialcharSelection5) Test specialchar selections 'name `A``' for pdb3mht ... ok testSpecialcharSelection6 (prody.tests.atomic.test_select.TestSelect.testSpecialcharSelection6) Test specialchar selections "name `A``" ... ok testSpecialcharSelection7 (prody.tests.atomic.test_select.TestSelect.testSpecialcharSelection7) Test specialchar selections 'z `+100.291`' for pdb3mht ... ok testSpecialcharSelection8 (prody.tests.atomic.test_select.TestSelect.testSpecialcharSelection8) Test specialchar selections "z `+100.291`" ... ok testStringSelection1 (prody.tests.atomic.test_select.TestSelect.testStringSelection1) Test string selections 'name P' for pdb3mht ... ok testStringSelection10 (prody.tests.atomic.test_select.TestSelect.testStringSelection10) Test string selections "chain x" ... ok testStringSelection11 (prody.tests.atomic.test_select.TestSelect.testStringSelection11) Test string selections 'chain x y' for pdb3mht ... ok testStringSelection12 (prody.tests.atomic.test_select.TestSelect.testStringSelection12) Test string selections "chain x y" ... ok testStringSelection13 (prody.tests.atomic.test_select.TestSelect.testStringSelection13) Test string selections 'chain x y z' for pdb3mht ... ok testStringSelection14 (prody.tests.atomic.test_select.TestSelect.testStringSelection14) Test string selections "chain x y z" ... ok testStringSelection15 (prody.tests.atomic.test_select.TestSelect.testStringSelection15) Test string selections 'chain x y z C' for pdb3mht ... ok testStringSelection16 (prody.tests.atomic.test_select.TestSelect.testStringSelection16) Test string selections "chain x y z C" ... ok testStringSelection17 (prody.tests.atomic.test_select.TestSelect.testStringSelection17) Test string selections 'chain C D' for pdb3mht ... ok testStringSelection18 (prody.tests.atomic.test_select.TestSelect.testStringSelection18) Test string selections "chain C D" ... ok testStringSelection19 (prody.tests.atomic.test_select.TestSelect.testStringSelection19) Test string selections 'chain CD' for pdb3mht ... ok testStringSelection2 (prody.tests.atomic.test_select.TestSelect.testStringSelection2) Test string selections "name P" ... ok testStringSelection20 (prody.tests.atomic.test_select.TestSelect.testStringSelection20) Test string selections "chain CD" ... ok testStringSelection21 (prody.tests.atomic.test_select.TestSelect.testStringSelection21) Test string selections 'resname DG' for pdb3mht ... ok testStringSelection22 (prody.tests.atomic.test_select.TestSelect.testStringSelection22) Test string selections "resname DG" ... ok testStringSelection23 (prody.tests.atomic.test_select.TestSelect.testStringSelection23) Test string selections 'resname DG ALA' for pdb3mht ... ok testStringSelection24 (prody.tests.atomic.test_select.TestSelect.testStringSelection24) Test string selections "resname DG ALA" ... ok testStringSelection25 (prody.tests.atomic.test_select.TestSelect.testStringSelection25) Test string selections 'altloc A' for pdb3mht ... ok testStringSelection26 (prody.tests.atomic.test_select.TestSelect.testStringSelection26) Test string selections "altloc A" ... ok testStringSelection27 (prody.tests.atomic.test_select.TestSelect.testStringSelection27) Test string selections 'altloc _' for pdb3mht ... ok testStringSelection28 (prody.tests.atomic.test_select.TestSelect.testStringSelection28) Test string selections "altloc _" ... ok testStringSelection29 (prody.tests.atomic.test_select.TestSelect.testStringSelection29) Test string selections 'secondary H' for pdb3mht ... ok testStringSelection3 (prody.tests.atomic.test_select.TestSelect.testStringSelection3) Test string selections 'name P CA' for pdb3mht ... ok testStringSelection30 (prody.tests.atomic.test_select.TestSelect.testStringSelection30) Test string selections "secondary H" ... ok testStringSelection31 (prody.tests.atomic.test_select.TestSelect.testStringSelection31) Test string selections 'secondary H E' for pdb3mht ... ok testStringSelection32 (prody.tests.atomic.test_select.TestSelect.testStringSelection32) Test string selections "secondary H E" ... ok testStringSelection33 (prody.tests.atomic.test_select.TestSelect.testStringSelection33) Test string selections 'secondary _' for pdb3mht ... ok testStringSelection34 (prody.tests.atomic.test_select.TestSelect.testStringSelection34) Test string selections "secondary _" ... ok testStringSelection35 (prody.tests.atomic.test_select.TestSelect.testStringSelection35) Test string selections 'segment _' for pdb3mht ... ok testStringSelection36 (prody.tests.atomic.test_select.TestSelect.testStringSelection36) Test string selections "segment _" ... ok testStringSelection4 (prody.tests.atomic.test_select.TestSelect.testStringSelection4) Test string selections "name P CA" ... ok testStringSelection5 (prody.tests.atomic.test_select.TestSelect.testStringSelection5) Test string selections 'name `A 1`' for pdb3mht ... ok testStringSelection6 (prody.tests.atomic.test_select.TestSelect.testStringSelection6) Test string selections "name `A 1`" ... ok testStringSelection7 (prody.tests.atomic.test_select.TestSelect.testStringSelection7) Test string selections 'chain C' for pdb3mht ... ok testStringSelection8 (prody.tests.atomic.test_select.TestSelect.testStringSelection8) Test string selections "chain C" ... ok testStringSelection9 (prody.tests.atomic.test_select.TestSelect.testStringSelection9) Test string selections 'chain x' for pdb3mht ... ok testSynonymsSelection1 (prody.tests.atomic.test_select.TestSelect.testSynonymsSelection1) Test synonyms selections 'chain C' for pdb3mht ... ok testSynonymsSelection2 (prody.tests.atomic.test_select.TestSelect.testSynonymsSelection2) Test synonyms selections "chain C" ... ok testSynonymsSelection3 (prody.tests.atomic.test_select.TestSelect.testSynonymsSelection3) Test synonyms selections 'chain C D' for pdb3mht ... ok testSynonymsSelection4 (prody.tests.atomic.test_select.TestSelect.testSynonymsSelection4) Test synonyms selections "chain C D" ... ok testUnintendedSelection1 (prody.tests.atomic.test_select.TestSelect.testUnintendedSelection1) Test unintended selections 'abs beta = beta' for pdb3mht ... ok testUnintendedSelection2 (prody.tests.atomic.test_select.TestSelect.testUnintendedSelection2) Test unintended selections "abs beta = beta" ... ok testUserdataSelection1 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection1) Test userdata selections 'temp < 10' for pdb3mht ... ok testUserdataSelection10 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection10) Test userdata selections "occ" ... ok testUserdataSelection11 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection11) Test userdata selections 'occ and occupancy == 1' for pdb3mht ... ok testUserdataSelection12 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection12) Test userdata selections "occ and occupancy == 1" ... ok testUserdataSelection13 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection13) Test userdata selections 'occ and occupancy == 1 and oc10 - 9 == 1' for pdb3mht ... ok testUserdataSelection14 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection14) Test userdata selections "occ and occupancy == 1 and oc10 - 9 == 1" ... ok testUserdataSelection15 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection15) Test userdata selections 'occ and occupancy == 1 and temp < 10' for pdb3mht ... ok testUserdataSelection16 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection16) Test userdata selections "occ and occupancy == 1 and temp < 10" ... ok testUserdataSelection17 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection17) Test userdata selections 'occ > 0' for pdb3mht ... ok testUserdataSelection18 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection18) Test userdata selections "occ > 0" ... ok testUserdataSelection2 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection2) Test userdata selections "temp < 10" ... ok testUserdataSelection3 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection3) Test userdata selections 'temp < 10 and chain D' for pdb3mht ... ok testUserdataSelection4 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection4) Test userdata selections "temp < 10 and chain D" ... ok testUserdataSelection5 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection5) Test userdata selections 'oc10 - 9 == 1' for pdb3mht ... ok testUserdataSelection6 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection6) Test userdata selections "oc10 - 9 == 1" ... ok testUserdataSelection7 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection7) Test userdata selections 'temp < 10' for pdb3mht ... ok testUserdataSelection8 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection8) Test userdata selections "temp < 10" ... ok testUserdataSelection9 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection9) Test userdata selections 'occ' for pdb3mht ... ok testWithinSelection1 (prody.tests.atomic.test_select.TestSelect.testWithinSelection1) Test within selections 'within 10 of index 0' for pdb3mht ... ok testWithinSelection10 (prody.tests.atomic.test_select.TestSelect.testWithinSelection10) Test within selections "within 5 of within 5 of within 5 of index 0" ... ok testWithinSelection11 (prody.tests.atomic.test_select.TestSelect.testWithinSelection11) Test within selections 'exwithin 5 of exwithin 5 of exwithin 5 of index 0' for pdb3mht ... ok testWithinSelection12 (prody.tests.atomic.test_select.TestSelect.testWithinSelection12) Test within selections "exwithin 5 of exwithin 5 of exwithin 5 of index 0" ... ok testWithinSelection13 (prody.tests.atomic.test_select.TestSelect.testWithinSelection13) Test within selections 'within 1 of pdb' for pdb3mht ... ok testWithinSelection14 (prody.tests.atomic.test_select.TestSelect.testWithinSelection14) Test within selections "within 1 of pdb" ... ok testWithinSelection15 (prody.tests.atomic.test_select.TestSelect.testWithinSelection15) Test within selections 'exwithin 1 of pdb' for pdb3mht ... ok testWithinSelection16 (prody.tests.atomic.test_select.TestSelect.testWithinSelection16) Test within selections "exwithin 1 of pdb" ... ok testWithinSelection17 (prody.tests.atomic.test_select.TestSelect.testWithinSelection17) Test within selections 'exwithin 1 of ag' for pdb3mht ... ok testWithinSelection18 (prody.tests.atomic.test_select.TestSelect.testWithinSelection18) Test within selections "exwithin 1 of ag" ... ok testWithinSelection19 (prody.tests.atomic.test_select.TestSelect.testWithinSelection19) Test within selections 'within 100 of index 10000' for pdb3mht ... ok testWithinSelection2 (prody.tests.atomic.test_select.TestSelect.testWithinSelection2) Test within selections "within 10 of index 0" ... ok testWithinSelection20 (prody.tests.atomic.test_select.TestSelect.testWithinSelection20) Test within selections "within 100 of index 10000" ... ok testWithinSelection3 (prody.tests.atomic.test_select.TestSelect.testWithinSelection3) Test within selections 'exwithin 100 of index 0' for pdb3mht ... ok testWithinSelection4 (prody.tests.atomic.test_select.TestSelect.testWithinSelection4) Test within selections "exwithin 100 of index 0" ... ok testWithinSelection5 (prody.tests.atomic.test_select.TestSelect.testWithinSelection5) Test within selections 'exwithin 4 of resname SAH' for pdb3mht ... ok testWithinSelection6 (prody.tests.atomic.test_select.TestSelect.testWithinSelection6) Test within selections "exwithin 4 of resname SAH" ... ok testWithinSelection7 (prody.tests.atomic.test_select.TestSelect.testWithinSelection7) Test within selections '(within 4 of water) and not water' for pdb3mht ... ok testWithinSelection8 (prody.tests.atomic.test_select.TestSelect.testWithinSelection8) Test within selections "(within 4 of water) and not water" ... ok testWithinSelection9 (prody.tests.atomic.test_select.TestSelect.testWithinSelection9) Test within selections 'within 5 of within 5 of within 5 of index 0' for pdb3mht ... ok testWithout_AndSelection1 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection1) Test without_and selections 'coil protein' for pdb3mht ... ok testWithout_AndSelection10 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection10) Test without_and selections "(protein nucleic)" ... ok testWithout_AndSelection11 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection11) Test without_and selections 'noh hetero water' for pdb3mht ... ok testWithout_AndSelection12 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection12) Test without_and selections "noh hetero water" ... ok testWithout_AndSelection13 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection13) Test without_and selections 'ca occupancy > 0' for pdb3mht ... ok testWithout_AndSelection14 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection14) Test without_and selections "ca occupancy > 0" ... ok testWithout_AndSelection15 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection15) Test without_and selections 'ca occupancy - 0 > 0' for pdb3mht ... ok testWithout_AndSelection16 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection16) Test without_and selections "ca occupancy - 0 > 0" ... ok testWithout_AndSelection17 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection17) Test without_and selections 'ca occupancy - 0 > 0 + 0' for pdb3mht ... ok testWithout_AndSelection18 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection18) Test without_and selections "ca occupancy - 0 > 0 + 0" ... ok testWithout_AndSelection19 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection19) Test without_and selections 'occupancy > ca 0' for pdb3mht ... ok testWithout_AndSelection2 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection2) Test without_and selections "coil protein" ... ok testWithout_AndSelection20 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection20) Test without_and selections "occupancy > ca 0" ... ok testWithout_AndSelection21 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection21) Test without_and selections 'noh hetero (water)' for pdb3mht ... ok testWithout_AndSelection22 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection22) Test without_and selections "noh hetero (water)" ... ok testWithout_AndSelection23 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection23) Test without_and selections 'noh hetero not (water)' for pdb3mht ... ok testWithout_AndSelection24 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection24) Test without_and selections "noh hetero not (water)" ... ok testWithout_AndSelection25 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection25) Test without_and selections '(water) hetero' for pdb3mht ... ok testWithout_AndSelection26 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection26) Test without_and selections "(water) hetero" ... ok testWithout_AndSelection27 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection27) Test without_and selections 'ca abs(beta) = beta + abs(0)' for pdb3mht ... ok testWithout_AndSelection28 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection28) Test without_and selections "ca abs(beta) = beta + abs(0)" ... ok testWithout_AndSelection3 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection3) Test without_and selections 'sidechain sc protein' for pdb3mht ... ok testWithout_AndSelection4 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection4) Test without_and selections "sidechain sc protein" ... ok testWithout_AndSelection5 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection5) Test without_and selections 'bbfull bb' for pdb3mht ... ok testWithout_AndSelection6 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection6) Test without_and selections "bbfull bb" ... ok testWithout_AndSelection7 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection7) Test without_and selections '(charged basic)' for pdb3mht ... ok testWithout_AndSelection8 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection8) Test without_and selections "(charged basic)" ... ok testWithout_AndSelection9 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection9) Test without_and selections '(protein nucleic)' for pdb3mht ... ok testSetData (prody.tests.atomic.test_subset.TestUserData.testSetData) ... ok testDatafile_1ejg (prody.tests.datafiles.TestDatafiles.testDatafile_1ejg) Test presence of "pdb1ejg.pdb" ... ok testDatafile_1ubi (prody.tests.datafiles.TestDatafiles.testDatafile_1ubi) Test presence of "pdb1ubi.pdb" ... ok testDatafile_1ubi_ca (prody.tests.datafiles.TestDatafiles.testDatafile_1ubi_ca) Test presence of "pdb1ubi_ca.pdb" ... ok testDatafile_2gb1_truncated (prody.tests.datafiles.TestDatafiles.testDatafile_2gb1_truncated) Test presence of "pdb2gb1_truncated.pdb" ... ok testDatafile_2k39_ca (prody.tests.datafiles.TestDatafiles.testDatafile_2k39_ca) Test presence of "pdb2k39_ca.pdb" ... ok testDatafile_2nwl (prody.tests.datafiles.TestDatafiles.testDatafile_2nwl) Test presence of "pdb2nwl-opm.pdb" ... ok testDatafile_3hsy (prody.tests.datafiles.TestDatafiles.testDatafile_3hsy) Test presence of "pdb3hsy.pdb" ... ok testDatafile_3mht (prody.tests.datafiles.TestDatafiles.testDatafile_3mht) Test presence of "pdb3mht.pdb" ... ok testDatafile_3o21 (prody.tests.datafiles.TestDatafiles.testDatafile_3o21) Test presence of "pdb3o21.pdb" ... ok testDatafile_3p3w (prody.tests.datafiles.TestDatafiles.testDatafile_3p3w) Test presence of "pdb3p3w.pdb" ... ok testDatafile_DI (prody.tests.datafiles.TestDatafiles.testDatafile_DI) Test presence of "msa_Cys_knot_di.dat" ... ok testDatafile_Fasta (prody.tests.datafiles.TestDatafiles.testDatafile_Fasta) Test presence of "msa_Cys_knot.fasta" ... ok testDatafile_RTER (prody.tests.datafiles.TestDatafiles.testDatafile_RTER) Test presence of "pdbRTER.pdb" ... ok testDatafile_SCA (prody.tests.datafiles.TestDatafiles.testDatafile_SCA) Test presence of "msa_Cys_knot_sca.dat" ... ok testDatafile_Selex (prody.tests.datafiles.TestDatafiles.testDatafile_Selex) Test presence of "msa_Cys_knot.slx" ... ok testDatafile_Stockholm (prody.tests.datafiles.TestDatafiles.testDatafile_Stockholm) Test presence of "msa_Cys_knot.sth" ... ok testDatafile_anm1ubi_evalues (prody.tests.datafiles.TestDatafiles.testDatafile_anm1ubi_evalues) Test presence of "anm1ubi_evalues.dat" ... ok testDatafile_anm1ubi_hessian (prody.tests.datafiles.TestDatafiles.testDatafile_anm1ubi_hessian) Test presence of "anm1ubi_hessian.coo" ... ok testDatafile_anm1ubi_vectors (prody.tests.datafiles.TestDatafiles.testDatafile_anm1ubi_vectors) Test presence of "anm1ubi_vectors.dat" ... ok testDatafile_commute1ubi (prody.tests.datafiles.TestDatafiles.testDatafile_commute1ubi) Test presence of "commute1ubi.dat" ... ok testDatafile_dcd (prody.tests.datafiles.TestDatafiles.testDatafile_dcd) Test presence of "dcd2k39_truncated.dcd" ... ok testDatafile_dssp (prody.tests.datafiles.TestDatafiles.testDatafile_dssp) Test presence of "pdb1r19_dssp.pdb" ... ok testDatafile_five_digits (prody.tests.datafiles.TestDatafiles.testDatafile_five_digits) Test presence of "pdb1tw7_step3_charmm2namd.pdb" ... ok testDatafile_gnm1ubi_evalues (prody.tests.datafiles.TestDatafiles.testDatafile_gnm1ubi_evalues) Test presence of "gnm1ubi_evalues.dat" ... ok testDatafile_gnm1ubi_kirchhoff (prody.tests.datafiles.TestDatafiles.testDatafile_gnm1ubi_kirchhoff) Test presence of "gnm1ubi_kirchhoff.coo" ... ok testDatafile_gnm1ubi_vectors (prody.tests.datafiles.TestDatafiles.testDatafile_gnm1ubi_vectors) Test presence of "gnm1ubi_vectors.dat" ... ok testDatafile_h36 (prody.tests.datafiles.TestDatafiles.testDatafile_h36) Test presence of "pdb1tw7_step3_charmm2namd_doubled_h36.pdb" ... ok testDatafile_hex (prody.tests.datafiles.TestDatafiles.testDatafile_hex) Test presence of "pdb1tw7_step3_charmm2namd_doubled_hex.pdb" ... ok testDatafile_hit1ubi (prody.tests.datafiles.TestDatafiles.testDatafile_hit1ubi) Test presence of "hit1ubi.dat" ... ok testDatafile_long_chid_cif (prody.tests.datafiles.TestDatafiles.testDatafile_long_chid_cif) Test presence of "mmcif_6zu5.cif" ... ok testDatafile_multi_model_cif (prody.tests.datafiles.TestDatafiles.testDatafile_multi_model_cif) Test presence of "mmcif_6yfy.cif" ... ok testDatafile_multi_model_truncated (prody.tests.datafiles.TestDatafiles.testDatafile_multi_model_truncated) Test presence of "pdb2k39_truncated.pdb" ... ok testDatafile_oneatom (prody.tests.datafiles.TestDatafiles.testDatafile_oneatom) Test presence of "pdb1ejg_oneatom.pdb" ... ok testDatafile_pca2k39_cov (prody.tests.datafiles.TestDatafiles.testDatafile_pca2k39_cov) Test presence of "pca2k39_cov.coo" ... ok testDatafile_pca2k39_evalues (prody.tests.datafiles.TestDatafiles.testDatafile_pca2k39_evalues) Test presence of "pca2k39_evalues.dat" ... ok testDatafile_pca2k39_vectors (prody.tests.datafiles.TestDatafiles.testDatafile_pca2k39_vectors) Test presence of "pca2k39_vectors.dat" ... ok testDatafile_rtb2gb1_hessian (prody.tests.datafiles.TestDatafiles.testDatafile_rtb2gb1_hessian) Test presence of "rtb2gb1_hessian.coo" ... ok testDatafile_rtb2gb1_project (prody.tests.datafiles.TestDatafiles.testDatafile_rtb2gb1_project) Test presence of "rtb2gb1_project.coo" ... ok testDatafile_sti (prody.tests.datafiles.TestDatafiles.testDatafile_sti) Test presence of "xmlSTI.xml" ... ok testMode1d (prody.tests.dynamics.test_editing.TestExtending.testMode1d) ... ok testMode3d (prody.tests.dynamics.test_editing.TestExtending.testMode3d) ... ok testModel1d (prody.tests.dynamics.test_editing.TestExtending.testModel1d) ... ok testModel3d (prody.tests.dynamics.test_editing.TestExtending.testModel3d) ... ok testVector1d (prody.tests.dynamics.test_editing.TestExtending.testVector1d) ... ok testVector3d (prody.tests.dynamics.test_editing.TestExtending.testVector3d) ... ok testBuildHessianSlow (prody.tests.dynamics.test_enms.TestANM.testBuildHessianSlow) ... ok testBuildMatrixCoordsArray (prody.tests.dynamics.test_enms.TestANM.testBuildMatrixCoordsArray) Test output when *coords* is an array. ... ok testBuildMatrixCoordsWrongType (prody.tests.dynamics.test_enms.TestANM.testBuildMatrixCoordsWrongType) Test response to wrong type *coords* argument. ... ok testBuildMatrixCutoffInvalidValue (prody.tests.dynamics.test_enms.TestANM.testBuildMatrixCutoffInvalidValue) Test response to wrong *cutoff* argument. ... ok testBuildMatrixCutoffWrongType (prody.tests.dynamics.test_enms.TestANM.testBuildMatrixCutoffWrongType) Test response to cutoff of wrong type. ... ok testBuildMatrixInvalidGamma (prody.tests.dynamics.test_enms.TestANM.testBuildMatrixInvalidGamma) Test response to invalid *gamma* argument. ... ok testBuildMatrixWrongCoords (prody.tests.dynamics.test_enms.TestANM.testBuildMatrixWrongCoords) Test response to wrong coords.dtype. ... ok testBuildMatrixWrongGamma (prody.tests.dynamics.test_enms.TestANM.testBuildMatrixWrongGamma) Test response to wrong *gamma* argument. ... ok testSetHessianWrongShape (prody.tests.dynamics.test_enms.TestANM.testSetHessianWrongShape) Test response to wrong shape *hessian* argument. ... ok testSetMatrixAcceptableDtype (prody.tests.dynamics.test_enms.TestANM.testSetMatrixAcceptableDtype) Test response to acceptable matrix.dtype. ... ok testSetMatrixNonSquare (prody.tests.dynamics.test_enms.TestANM.testSetMatrixNonSquare) Test response to non-square matrix. ... ok testSetMatrixWrongDim (prody.tests.dynamics.test_enms.TestANM.testSetMatrixWrongDim) Test response to wrong dim *kirchhoff* argument. ... ok testSetMatrixWrongDtype (prody.tests.dynamics.test_enms.TestANM.testSetMatrixWrongDtype) Test response to wrong matrix.dtype. ... ok testSetMatrixWrongType (prody.tests.dynamics.test_enms.TestANM.testSetMatrixWrongType) Test response to wrong matrix type argument. ... ok testEigenvalues (prody.tests.dynamics.test_enms.TestANMResults.testEigenvalues) Test eigenvalues. ... ok testEigenvectors (prody.tests.dynamics.test_enms.TestANMResults.testEigenvectors) Test eigenvectors. ... ok testGetCutoff (prody.tests.dynamics.test_enms.TestANMResults.testGetCutoff) Testing return type of :meth:`~.GNMBase.getCutoff`. ... ok testGetGamma (prody.tests.dynamics.test_enms.TestANMResults.testGetGamma) Testing return type of :meth:`~.GNMBase.getGamma`. ... ok testGetHessian (prody.tests.dynamics.test_enms.TestANMResults.testGetHessian) ... ok testHessian (prody.tests.dynamics.test_enms.TestANMResults.testHessian) Test Hessian matrix. ... ok testHessianSums (prody.tests.dynamics.test_enms.TestANMResults.testHessianSums) ... ok testHessianSymmetry (prody.tests.dynamics.test_enms.TestANMResults.testHessianSymmetry) ... ok testVariances (prody.tests.dynamics.test_enms.TestANMResults.testVariances) Test variances. ... ok testEigenvalues (prody.tests.dynamics.test_enms.TestEXANMResults.testEigenvalues) Test eigenvalues. ... ok testEigenvectors (prody.tests.dynamics.test_enms.TestEXANMResults.testEigenvectors) Test eigenvectors. ... ok testGetCutoff (prody.tests.dynamics.test_enms.TestEXANMResults.testGetCutoff) Testing return type of :meth:`~.GNMBase.getCutoff`. ... ok testGetGamma (prody.tests.dynamics.test_enms.TestEXANMResults.testGetGamma) Testing return type of :meth:`~.GNMBase.getGamma`. ... ok testGetHessian (prody.tests.dynamics.test_enms.TestEXANMResults.testGetHessian) ... ok testHessian (prody.tests.dynamics.test_enms.TestEXANMResults.testHessian) Test Hessian matrix. ... ok testHessianSums (prody.tests.dynamics.test_enms.TestEXANMResults.testHessianSums) ... ok testHessianSymmetry (prody.tests.dynamics.test_enms.TestEXANMResults.testHessianSymmetry) ... ok testVariances (prody.tests.dynamics.test_enms.TestEXANMResults.testVariances) Test variances. ... ok testBuildMatrixCoordsArray (prody.tests.dynamics.test_enms.TestGNM.testBuildMatrixCoordsArray) Test output when *coords* is an array. ... ok testBuildMatrixCoordsWrongType (prody.tests.dynamics.test_enms.TestGNM.testBuildMatrixCoordsWrongType) Test response to wrong type *coords* argument. ... ok testBuildMatrixCutoffInvalidValue (prody.tests.dynamics.test_enms.TestGNM.testBuildMatrixCutoffInvalidValue) Test response to wrong *cutoff* argument. ... ok testBuildMatrixCutoffWrongType (prody.tests.dynamics.test_enms.TestGNM.testBuildMatrixCutoffWrongType) Test response to cutoff of wrong type. ... ok testBuildMatrixInvalidGamma (prody.tests.dynamics.test_enms.TestGNM.testBuildMatrixInvalidGamma) Test response to invalid *gamma* argument. ... ok testBuildMatrixWrongCoords (prody.tests.dynamics.test_enms.TestGNM.testBuildMatrixWrongCoords) Test response to wrong coords.dtype. ... ok testBuildMatrixWrongGamma (prody.tests.dynamics.test_enms.TestGNM.testBuildMatrixWrongGamma) Test response to wrong *gamma* argument. ... ok testSetMatrixAcceptableDtype (prody.tests.dynamics.test_enms.TestGNM.testSetMatrixAcceptableDtype) Test response to acceptable matrix.dtype. ... ok testSetMatrixNonSquare (prody.tests.dynamics.test_enms.TestGNM.testSetMatrixNonSquare) Test response to non-square matrix. ... ok testSetMatrixWrongDim (prody.tests.dynamics.test_enms.TestGNM.testSetMatrixWrongDim) Test response to wrong dim *kirchhoff* argument. ... ok testSetMatrixWrongDtype (prody.tests.dynamics.test_enms.TestGNM.testSetMatrixWrongDtype) Test response to wrong matrix.dtype. ... ok testSetMatrixWrongType (prody.tests.dynamics.test_enms.TestGNM.testSetMatrixWrongType) Test response to wrong matrix type argument. ... ok testBuildKirchoffSlow (prody.tests.dynamics.test_enms.TestGNMResults.testBuildKirchoffSlow) ... ok testCommuteTime (prody.tests.dynamics.test_enms.TestGNMResults.testCommuteTime) ... ok testEigenvalues (prody.tests.dynamics.test_enms.TestGNMResults.testEigenvalues) ... ok testEigenvectors (prody.tests.dynamics.test_enms.TestGNMResults.testEigenvectors) ... ok testGetCutoff (prody.tests.dynamics.test_enms.TestGNMResults.testGetCutoff) Testing return type of :meth:`~.GNMBase.getCutoff`. ... ok testGetGamma (prody.tests.dynamics.test_enms.TestGNMResults.testGetGamma) Testing return type of :meth:`~.GNMBase.getGamma`. ... ok testGetKirchoff (prody.tests.dynamics.test_enms.TestGNMResults.testGetKirchoff) ... ok testKirchhoff (prody.tests.dynamics.test_enms.TestGNMResults.testKirchhoff) ... ok testKirchhoffSums (prody.tests.dynamics.test_enms.TestGNMResults.testKirchhoffSums) ... ok testKirchhoffSymmetry (prody.tests.dynamics.test_enms.TestGNMResults.testKirchhoffSymmetry) ... ok testCalcModes (prody.tests.dynamics.test_enms.TestRTB.testCalcModes) ... ok testHessian (prody.tests.dynamics.test_enms.TestRTB.testHessian) ... ok testProjection (prody.tests.dynamics.test_enms.TestRTB.testProjection) ... ok testGetCutoff (prody.tests.dynamics.test_enms.testGNMBase.testGetCutoff) Testing return type of :meth:`~.GNMBase.getCutoff`. ... ok testGetGamma (prody.tests.dynamics.test_enms.testGNMBase.testGetGamma) Testing return type of :meth:`~.GNMBase.getGamma`. ... ok testBuildMatrixCoordsArray (prody.tests.dynamics.test_pca.TestPCA.testBuildMatrixCoordsArray) Test output when *coords* is an array. ... ok testBuildMatrixCoordsWrongType (prody.tests.dynamics.test_pca.TestPCA.testBuildMatrixCoordsWrongType) Test response to wrong type *coords* argument. ... ok testBuildMatrixWrongCoords (prody.tests.dynamics.test_pca.TestPCA.testBuildMatrixWrongCoords) Test response to wrong coords.dtype. ... ok testSetMatrixAcceptableDtype (prody.tests.dynamics.test_pca.TestPCA.testSetMatrixAcceptableDtype) Test response to acceptable matrix.dtype. ... ok testSetMatrixNonSquare (prody.tests.dynamics.test_pca.TestPCA.testSetMatrixNonSquare) Test response to non-square matrix. ... ok testSetMatrixWrongDim (prody.tests.dynamics.test_pca.TestPCA.testSetMatrixWrongDim) Test response to wrong dim *kirchhoff* argument. ... ok testSetMatrixWrongDtype (prody.tests.dynamics.test_pca.TestPCA.testSetMatrixWrongDtype) Test response to wrong matrix.dtype. ... ok testSetMatrixWrongType (prody.tests.dynamics.test_pca.TestPCA.testSetMatrixWrongType) Test response to wrong matrix type argument. ... ok testBuildMatrixCoordsArray (prody.tests.dynamics.test_pca.TestPCAResults.testBuildMatrixCoordsArray) Test output when *coords* is an array. ... ok testBuildMatrixCoordsWrongType (prody.tests.dynamics.test_pca.TestPCAResults.testBuildMatrixCoordsWrongType) Test response to wrong type *coords* argument. ... ok testBuildMatrixWrongCoords (prody.tests.dynamics.test_pca.TestPCAResults.testBuildMatrixWrongCoords) Test response to wrong coords.dtype. ... ok testCovariance (prody.tests.dynamics.test_pca.TestPCAResults.testCovariance) ... ok testCovarianceSymmetry (prody.tests.dynamics.test_pca.TestPCAResults.testCovarianceSymmetry) ... ok testEigenvalues (prody.tests.dynamics.test_pca.TestPCAResults.testEigenvalues) ... ok testEigenvectors (prody.tests.dynamics.test_pca.TestPCAResults.testEigenvectors) ... ok testNumModesAll (prody.tests.dynamics.test_pca.TestPCAResults.testNumModesAll) ... ok testNumModesSet (prody.tests.dynamics.test_pca.TestPCAResults.testNumModesSet) ... ok testSetMatrixAcceptableDtype (prody.tests.dynamics.test_pca.TestPCAResults.testSetMatrixAcceptableDtype) Test response to acceptable matrix.dtype. ... ok testSetMatrixNonSquare (prody.tests.dynamics.test_pca.TestPCAResults.testSetMatrixNonSquare) Test response to non-square matrix. ... ok testSetMatrixWrongDim (prody.tests.dynamics.test_pca.TestPCAResults.testSetMatrixWrongDim) Test response to wrong dim *kirchhoff* argument. ... ok testSetMatrixWrongDtype (prody.tests.dynamics.test_pca.TestPCAResults.testSetMatrixWrongDtype) Test response to wrong matrix.dtype. ... ok testSetMatrixWrongType (prody.tests.dynamics.test_pca.TestPCAResults.testSetMatrixWrongType) Test response to wrong matrix type argument. ... ok testSlicing (prody.tests.dynamics.test_signature.TestSDArray.testSlicing) ... ok testCoordinates (prody.tests.ensemble.test_conformation.TestConformation.testCoordinates) ... ok testCoordinatesForAll (prody.tests.ensemble.test_conformation.TestConformation.testCoordinatesForAll) ... ok testGetIndex (prody.tests.ensemble.test_conformation.TestConformation.testGetIndex) Test get index function. ... ok testGetNumAtoms (prody.tests.ensemble.test_conformation.TestConformation.testGetNumAtoms) Test get index function. ... ok testWeights (prody.tests.ensemble.test_conformation.TestConformation.testWeights) ... ok testCoordinates (prody.tests.ensemble.test_conformation.TestPDBConformation.testCoordinates) ... ok testCoordinatesForAll (prody.tests.ensemble.test_conformation.TestPDBConformation.testCoordinatesForAll) ... ok testGetIndex (prody.tests.ensemble.test_conformation.TestPDBConformation.testGetIndex) ... ok testGetNumAtoms (prody.tests.ensemble.test_conformation.TestPDBConformation.testGetNumAtoms) ... ok testWeights (prody.tests.ensemble.test_conformation.TestPDBConformation.testWeights) ... ok testWeightsForAll (prody.tests.ensemble.test_conformation.TestPDBConformation.testWeightsForAll) ... ok testConcatenation (prody.tests.ensemble.test_ensemble.TestEnsemble.testConcatenation) Test concatenation of ensembles without weights. ... ok testConcatenationNoweightsWeights (prody.tests.ensemble.test_ensemble.TestEnsemble.testConcatenationNoweightsWeights) Test concatenation of ensembles without and with weights. ... ok testConcatenationWeights (prody.tests.ensemble.test_ensemble.TestEnsemble.testConcatenationWeights) Test concatenation of ensembles with weights. ... ok testConcatenationWeightsNoweights (prody.tests.ensemble.test_ensemble.TestEnsemble.testConcatenationWeightsNoweights) Test concatenation of ensembles with and without weights. ... ok testDelCoordsetAll (prody.tests.ensemble.test_ensemble.TestEnsemble.testDelCoordsetAll) ... ok testDelCoordsetMiddle (prody.tests.ensemble.test_ensemble.TestEnsemble.testDelCoordsetMiddle) ... ok testGetCoordinates (prody.tests.ensemble.test_ensemble.TestEnsemble.testGetCoordinates) Test correctness of reference coordinates. ... ok testGetCoordsets (prody.tests.ensemble.test_ensemble.TestEnsemble.testGetCoordsets) Test correctness of all coordinates. ... ok testGetNumAtoms (prody.tests.ensemble.test_ensemble.TestEnsemble.testGetNumAtoms) ... ok testGetNumCsets (prody.tests.ensemble.test_ensemble.TestEnsemble.testGetNumCsets) ... ok testGetRMSDs (prody.tests.ensemble.test_ensemble.TestEnsemble.testGetRMSDs) ... ok testGetRMSDsWeights (prody.tests.ensemble.test_ensemble.TestEnsemble.testGetRMSDsWeights) ... ok testGetWeights (prody.tests.ensemble.test_ensemble.TestEnsemble.testGetWeights) Test correctness of all weights. ... ok testIterCoordsets (prody.tests.ensemble.test_ensemble.TestEnsemble.testIterCoordsets) Test coordinate iteration. ... ok testSelection (prody.tests.ensemble.test_ensemble.TestEnsemble.testSelection) Test atom selection of ensemble. ... ok testSlicing (prody.tests.ensemble.test_ensemble.TestEnsemble.testSlicing) Test slicing operation. ... ok testSlicingCopy (prody.tests.ensemble.test_ensemble.TestEnsemble.testSlicingCopy) Test making a copy by slicing operation. ... ok testSlicingList (prody.tests.ensemble.test_ensemble.TestEnsemble.testSlicingList) Test slicing with a list. ... ok testSlicingWeights (prody.tests.ensemble.test_ensemble.TestEnsemble.testSlicingWeights) Test slicing operation with weights. ... ok testSuperpose (prody.tests.ensemble.test_ensemble.TestEnsemble.testSuperpose) ... ok testSuperposeWeights (prody.tests.ensemble.test_ensemble.TestEnsemble.testSuperposeWeights) ... ok testResults (prody.tests.ensemble.test_functions.TestBuildPDBEnsemble.testResults) ... ok testInvalidType (prody.tests.ensemble.test_functions.TestCalcOccupancies.testInvalidType) ... ok testResults (prody.tests.ensemble.test_functions.TestCalcOccupancies.testResults) ... ok testWeightsNone (prody.tests.ensemble.test_functions.TestCalcOccupancies.testWeightsNone) ... ok testResults (prody.tests.ensemble.test_functions.TestTrimPDBEnsemble.testResults) ... /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence/sequence.py:52: DeprecationWarning: tostring() is deprecated. Use tobytes() instead. return self._array.tostring().decode() ok testAddCoordsets (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble.testAddCoordsets) ... ok testConcatenation (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble.testConcatenation) Test concatenation of PDB ensembles. ... ok testDelCoordsetAll (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble.testDelCoordsetAll) Test consequences of deleting all coordinate sets. ... ok testDelCoordsetMiddle (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble.testDelCoordsetMiddle) ... ok testDelCoordsetMiddleTrans (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble.testDelCoordsetMiddleTrans) ... ok testGetCoordinates (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble.testGetCoordinates) ... ok testGetCoordsets (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble.testGetCoordsets) ... ok testGetNumAtoms (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble.testGetNumAtoms) ... ok testGetNumCsets (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble.testGetNumCsets) ... ok testGetWeights (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble.testGetWeights) ... ok testIterCoordsets (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble.testIterCoordsets) ... ok testSlicing (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble.testSlicing) ... ok testSlicingCopy (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble.testSlicingCopy) ... ok testSlicingList (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble.testSlicingList) ... ok testSlicingWeights (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble.testSlicingWeights) ... ok testAllSearch (prody.tests.kdtree.test_kdtree.TestKDTree.testAllSearch) ... ok testSearch (prody.tests.kdtree.test_kdtree.TestKDTree.testSearch) ... ok testPairNoPBC (prody.tests.kdtree.test_kdtree.TestKDTreePBC.testPairNoPBC) ... ok testPairPBC (prody.tests.kdtree.test_kdtree.TestKDTreePBC.testPairPBC) ... ok testPointNoPBC (prody.tests.kdtree.test_kdtree.TestKDTreePBC.testPointNoPBC) ... ok testPointPBC (prody.tests.kdtree.test_kdtree.TestKDTreePBC.testPointPBC) ... ok testMINvsMAX (prody.tests.measure.test_contacts.TestContacts.testMINvsMAX) ... ok testPBCvsNONE (prody.tests.measure.test_contacts.TestContacts.testPBCvsNONE) ... ok testAtomicArgumentSwitching (prody.tests.measure.test_contacts.TestNeighbors.testAtomicArgumentSwitching) ... ok testCoordArgumentSwitching (prody.tests.measure.test_contacts.TestNeighbors.testCoordArgumentSwitching) ... ok testNoPBC (prody.tests.measure.test_contacts.TestNeighbors.testNoPBC) ... ok testPBC (prody.tests.measure.test_contacts.TestNeighbors.testPBC) ... ok testPBCAtomicArgumentSwitching (prody.tests.measure.test_contacts.TestNeighbors.testPBCAtomicArgumentSwitching) ... ok testPBCCoordArgumentSwitching (prody.tests.measure.test_contacts.TestNeighbors.testPBCCoordArgumentSwitching) ... ok testCenter (prody.tests.measure.test_measure.TestCenter.testCenter) ... ok testCenterWithWeights (prody.tests.measure.test_measure.TestCenter.testCenterWithWeights) ... ok testMultiCoordsets (prody.tests.measure.test_measure.TestCenter.testMultiCoordsets) ... ok testMultiCoordsetsWithWeights (prody.tests.measure.test_measure.TestCenter.testMultiCoordsetsWithWeights) ... ok testCTerPhi (prody.tests.measure.test_measure.TestDihedrals.testCTerPhi) ... ok testCTerPsi (prody.tests.measure.test_measure.TestDihedrals.testCTerPsi) ... ok testCalcPhi (prody.tests.measure.test_measure.TestDihedrals.testCalcPhi) ... ok testCalcPsi (prody.tests.measure.test_measure.TestDihedrals.testCalcPsi) ... ok testNTerPhi (prody.tests.measure.test_measure.TestDihedrals.testNTerPhi) ... ok testNTerPsi (prody.tests.measure.test_measure.TestDihedrals.testNTerPsi) ... ok testPBC (prody.tests.measure.test_measure.TestDistances.testPBC) ... ok testPBCSymmetry (prody.tests.measure.test_measure.TestDistances.testPBCSymmetry) ... ok testMSF (prody.tests.measure.test_measure.TestMSF.testMSF) ... /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory/dcdfile.py:273: DeprecationWarning: The binary mode of fromstring is deprecated, as it behaves surprisingly on unicode inputs. Use frombuffer instead xyz = fromstring(self._file.read(self._itemsize * n_floats), /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory/dcdfile.py:320: DeprecationWarning: The binary mode of fromstring is deprecated, as it behaves surprisingly on unicode inputs. Use frombuffer instead data = fromstring(data, self._dtype) /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory/dcdfile.py:294: DeprecationWarning: The binary mode of fromstring is deprecated, as it behaves surprisingly on unicode inputs. Use frombuffer instead unitcell = fromstring(self._file.read(48), dtype=np.float64) ok testMSFfloat (prody.tests.measure.test_measure.TestMSF.testMSFfloat) ... ok testByArgument (prody.tests.measure.test_transform.TestMoveAtoms.testByArgument) ... ok testToArgument (prody.tests.measure.test_transform.TestMoveAtoms.testToArgument) ... ok testTransformation (prody.tests.measure.test_transform.TestMoveAtoms.testTransformation) ... ok testWrap (prody.tests.measure.test_transform.TestWrapAtoms.testWrap) ... ok testAgArgMultiModel (prody.tests.proteins.test_ciffile.TestParseMMCIF.testAgArgMultiModel) Test number of coordinate sets when using *ag* arguments. ... ok testAgArgument (prody.tests.proteins.test_ciffile.TestParseMMCIF.testAgArgument) Test outcome of valid and invalid *ag* arguments. ... /usr/lib/python3.11/traceback.py:240: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/mmcif_6yfy.cif' mode='rt' encoding='UTF-8'> tb.tb_frame.clear() ResourceWarning: Enable tracemalloc to get the object allocation traceback ok testChainArgument (prody.tests.proteins.test_ciffile.TestParseMMCIF.testChainArgument) Test outcome of valid and invalid *chain* arguments. ... ok testLongChainArgument (prody.tests.proteins.test_ciffile.TestParseMMCIF.testLongChainArgument) Test outcome of valid and invalid *chain* arguments. ... /usr/lib/python3.11/traceback.py:240: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/mmcif_6zu5.cif' mode='rt' encoding='UTF-8'> tb.tb_frame.clear() ResourceWarning: Enable tracemalloc to get the object allocation traceback ok testModelArgument (prody.tests.proteins.test_ciffile.TestParseMMCIF.testModelArgument) Test outcome of valid and invalid *model* arguments. ... ok testPDBArgument (prody.tests.proteins.test_ciffile.TestParseMMCIF.testPDBArgument) Test outcome of invalid *pdb* arguments. ... ok testSubsetArgument (prody.tests.proteins.test_ciffile.TestParseMMCIF.testSubsetArgument) Test outcome of valid and invalid *subset* arguments. ... ok testTitleArgument (prody.tests.proteins.test_ciffile.TestParseMMCIF.testTitleArgument) Test outcome of *title* argument. ... ok testUsualCase (prody.tests.proteins.test_ciffile.TestParseMMCIF.testUsualCase) Test the outcome of a simple parsing scenario. ... ok testDSSPBridgePartners (prody.tests.proteins.test_dssp.TestDSSPFunctions.testDSSPBridgePartners) Check if the DSSP bridge-partners were correctly parsed and ... skipped 'dssp is not found' testHeaderContent (prody.tests.proteins.test_header.TestParsePDBHeaderOnly.testHeaderContent) ... ok testHeaderType (prody.tests.proteins.test_header.TestParsePDBHeaderOnly.testHeaderType) ... ok testCompressedArgument (prody.tests.proteins.test_localpdb.TestFetchPDB.testCompressedArgument) Test decompressing fetched PDB files. ... skipped 'Not running tests needing network access.' testFetchingMultipleFiles (prody.tests.proteins.test_localpdb.TestFetchPDB.testFetchingMultipleFiles) Test the outcome of fetching multiple PDB files. ... skipped 'Not running tests needing network access.' testFetchingSingleFile (prody.tests.proteins.test_localpdb.TestFetchPDB.testFetchingSingleFile) Test the outcome of fetching a single PDB file. ... skipped 'Not running tests needing network access.' testInvalidPDBIdentifier (prody.tests.proteins.test_localpdb.TestFetchPDB.testInvalidPDBIdentifier) Test outcome of passing invalid PDB identifiers. ... ok testAgArgMultiModel (prody.tests.proteins.test_pdbfile.TestParsePDB.testAgArgMultiModel) Test number of coordinate sets when using *ag* arguments. ... ok testAgArgSingleModel (prody.tests.proteins.test_pdbfile.TestParsePDB.testAgArgSingleModel) Test number of coordinate sets when using *ag* arguments. ... ok testAgArgument (prody.tests.proteins.test_pdbfile.TestParsePDB.testAgArgument) Test outcome of valid and invalid *ag* arguments. ... /usr/lib/python3.11/traceback.py:240: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/pdb2k39_truncated.pdb' mode='rt' encoding='UTF-8'> tb.tb_frame.clear() ResourceWarning: Enable tracemalloc to get the object allocation traceback ok testChainArgument (prody.tests.proteins.test_pdbfile.TestParsePDB.testChainArgument) Test outcome of valid and invalid *chain* arguments. ... ok testFiveDigitResnum (prody.tests.proteins.test_pdbfile.TestParsePDB.testFiveDigitResnum) Test parsing PDB files with five digit resnums ... ok testHexResnum (prody.tests.proteins.test_pdbfile.TestParsePDB.testHexResnum) Test parsing PDB files with hexadecimal resnums ... ok testHexSerial (prody.tests.proteins.test_pdbfile.TestParsePDB.testHexSerial) Test parsing PDB files with hexadecimal serial numbers ... ok testHybrid36Resnum (prody.tests.proteins.test_pdbfile.TestParsePDB.testHybrid36Resnum) Test parsing PDB files with Hybrid36 resnums ... ok testHybrid36Serial (prody.tests.proteins.test_pdbfile.TestParsePDB.testHybrid36Serial) Test parsing PDB files with Hybrid36 serial numbers ... ok testModelArgument (prody.tests.proteins.test_pdbfile.TestParsePDB.testModelArgument) Test outcome of valid and invalid *model* arguments. ... ok testPDBArgument (prody.tests.proteins.test_pdbfile.TestParsePDB.testPDBArgument) Test outcome of invalid *pdb* arguments. ... ok testSubsetArgument (prody.tests.proteins.test_pdbfile.TestParsePDB.testSubsetArgument) Test outcome of valid and invalid *subset* arguments. ... ok testTitleArgument (prody.tests.proteins.test_pdbfile.TestParsePDB.testTitleArgument) Test outcome of *title* argument. ... ok testUsualCase (prody.tests.proteins.test_pdbfile.TestParsePDB.testUsualCase) Test the outcome of a simple parsing scenario. ... ok testAltlocA (prody.tests.proteins.test_pdbfile.TestParsePDBAltloc.testAltlocA) ... ok testAltlocB (prody.tests.proteins.test_pdbfile.TestParsePDBAltloc.testAltlocB) ... ok testAltlocC (prody.tests.proteins.test_pdbfile.TestParsePDBAltloc.testAltlocC) ... ok testAltlocNone (prody.tests.proteins.test_pdbfile.TestParsePDBAltloc.testAltlocNone) ... ok testAtomGroupContent (prody.tests.proteins.test_pdbfile.TestParsePDBHeaderAndAllModels.testAtomGroupContent) ... ok testAtomGroupType (prody.tests.proteins.test_pdbfile.TestParsePDBHeaderAndAllModels.testAtomGroupType) ... ok testModelArgument (prody.tests.proteins.test_pdbfile.TestWritePDB.testModelArgument) Test valid and invalid model arguments. ... /usr/lib/python3.11/traceback.py:240: ResourceWarning: unclosed file <_io.TextIOWrapper name='/tmp/test.pdb' mode='wt' encoding='UTF-8'> tb.tb_frame.clear() ResourceWarning: Enable tracemalloc to get the object allocation traceback ok testParsingOutput (prody.tests.proteins.test_pdbfile.TestWritePDB.testParsingOutput) Test if parsing output is the same as parsing original file. ... ok testWritingHex (prody.tests.proteins.test_pdbfile.TestWritePDB.testWritingHex) Test if output from writing hexadecimal is as expected. ... ok testWritingHybrid36 (prody.tests.proteins.test_pdbfile.TestWritePDB.testWritingHybrid36) Test if output from writing Hybrid36 is as expected. ... ok testCompressed (prody.tests.proteins.test_wwpdb.TestFTP.testCompressed) ... skipped 'Not running tests needing network access.' testDecompressed (prody.tests.proteins.test_wwpdb.TestFTP.testDecompressed) ... skipped 'Not running tests needing network access.' testCompressed (prody.tests.proteins.test_wwpdb.TestHTTP.testCompressed) ... skipped 'Not running tests needing network access.' testDecompressed (prody.tests.proteins.test_wwpdb.TestHTTP.testDecompressed) ... skipped 'Not running tests needing network access.' testResidueCount (prody.tests.sequence.test_analysis.TestCalcMSAOccupancy.testResidueCount) ... ok testResidueOccupancy (prody.tests.sequence.test_analysis.TestCalcMSAOccupancy.testResidueOccupancy) ... ok testSequenceCount (prody.tests.sequence.test_analysis.TestCalcMSAOccupancy.testSequenceCount) ... ok testSequenceOccupancy (prody.tests.sequence.test_analysis.TestCalcMSAOccupancy.testSequenceOccupancy) ... ok testMATLAB (prody.tests.sequence.test_analysis.TestCalcMeff.testMATLAB) ... ok testTwenty (prody.tests.sequence.test_analysis.TestCalcMeff.testTwenty) ... ok testTwentyReversed (prody.tests.sequence.test_analysis.TestCalcMeff.testTwentyReversed) ... ok testZero1 (prody.tests.sequence.test_analysis.TestCalcMeff.testZero1) ... ok testZero2 (prody.tests.sequence.test_analysis.TestCalcMeff.testZero2) ... ok testAmbiguity (prody.tests.sequence.test_analysis.TestCalcMutualInfo.testAmbiguity) ... ok testAmbiguity2 (prody.tests.sequence.test_analysis.TestCalcMutualInfo.testAmbiguity2) ... ok testAmbiguity3 (prody.tests.sequence.test_analysis.TestCalcMutualInfo.testAmbiguity3) ... ok testAmbiguity4 (prody.tests.sequence.test_analysis.TestCalcMutualInfo.testAmbiguity4) ... ok testAmbiguity5 (prody.tests.sequence.test_analysis.TestCalcMutualInfo.testAmbiguity5) ... ok testAmbiguity6 (prody.tests.sequence.test_analysis.TestCalcMutualInfo.testAmbiguity6) ... ok testAmbiguity7 (prody.tests.sequence.test_analysis.TestCalcMutualInfo.testAmbiguity7) ... ok testInf (prody.tests.sequence.test_analysis.TestCalcMutualInfo.testInf) ... ok testNoAmbiguity (prody.tests.sequence.test_analysis.TestCalcMutualInfo.testNoAmbiguity) ... ok testNorm (prody.tests.sequence.test_analysis.TestCalcMutualInfo.testNorm) ... ok testNorm2 (prody.tests.sequence.test_analysis.TestCalcMutualInfo.testNorm2) ... ok testSixSequences (prody.tests.sequence.test_analysis.TestCalcMutualInfo.testSixSequences) ... ok testTwenty (prody.tests.sequence.test_analysis.TestCalcMutualInfo.testTwenty) ... ok testTwentyReversed (prody.tests.sequence.test_analysis.TestCalcMutualInfo.testTwentyReversed) ... ok testAmbiguity (prody.tests.sequence.test_analysis.TestCalcOMES.testAmbiguity) ... ok testAmbiguity2 (prody.tests.sequence.test_analysis.TestCalcOMES.testAmbiguity2) ... ok testAmbiguity3 (prody.tests.sequence.test_analysis.TestCalcOMES.testAmbiguity3) ... ok testAmbiguity4 (prody.tests.sequence.test_analysis.TestCalcOMES.testAmbiguity4) ... ok testAmbiguity5 (prody.tests.sequence.test_analysis.TestCalcOMES.testAmbiguity5) ... ok testAmbiguity6 (prody.tests.sequence.test_analysis.TestCalcOMES.testAmbiguity6) ... ok testAmbiguity7 (prody.tests.sequence.test_analysis.TestCalcOMES.testAmbiguity7) ... ok testFourSequences (prody.tests.sequence.test_analysis.TestCalcOMES.testFourSequences) ... ok testInf (prody.tests.sequence.test_analysis.TestCalcOMES.testInf) ... ok testNoAmbiguity (prody.tests.sequence.test_analysis.TestCalcOMES.testNoAmbiguity) ... ok testTwenty (prody.tests.sequence.test_analysis.TestCalcOMES.testTwenty) ... ok testTwentyReversed (prody.tests.sequence.test_analysis.TestCalcOMES.testTwentyReversed) ... ok testZero (prody.tests.sequence.test_analysis.TestCalcOMES.testZero) ... ok testMATLAB (prody.tests.sequence.test_analysis.TestCalcSCA.testMATLAB) ... ok testZero (prody.tests.sequence.test_analysis.TestCalcSCA.testZero) ... ok testAmbiguous (prody.tests.sequence.test_analysis.TestCalcShannonEntropy.testAmbiguous) ... ok testGapDividend (prody.tests.sequence.test_analysis.TestCalcShannonEntropy.testGapDividend) ... ok testSixSequences (prody.tests.sequence.test_analysis.TestCalcShannonEntropy.testSixSequences) ... ok testSmallProbability (prody.tests.sequence.test_analysis.TestCalcShannonEntropy.testSmallProbability) ... ok testTwenty (prody.tests.sequence.test_analysis.TestCalcShannonEntropy.testTwenty) ... ok testMATLAB10 (prody.tests.sequence.test_analysis.TestDirectInfo.testMATLAB10) ... /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence/analysis.py:592: PendingDeprecationWarning: the matrix subclass is not the recommended way to represent matrices or deal with linear algebra (see https://docs.scipy.org/doc/numpy/user/numpy-for-matlab-users.html). Please adjust your code to use regular ndarray. c = matrix.dot(matrix(zeros((length*q, 1), float)), /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence/analysis.py:593: PendingDeprecationWarning: the matrix subclass is not the recommended way to represent matrices or deal with linear algebra (see https://docs.scipy.org/doc/numpy/user/numpy-for-matlab-users.html). Please adjust your code to use regular ndarray. matrix(zeros((1, length*q), float))) /usr/lib/python3/dist-packages/numpy/matrixlib/defmatrix.py:69: PendingDeprecationWarning: the matrix subclass is not the recommended way to represent matrices or deal with linear algebra (see https://docs.scipy.org/doc/numpy/user/numpy-for-matlab-users.html). Please adjust your code to use regular ndarray. return matrix(data, dtype=dtype, copy=False) ok testMATLAB8 (prody.tests.sequence.test_analysis.TestDirectInfo.testMATLAB8) ... ok testTwenty (prody.tests.sequence.test_analysis.TestDirectInfo.testTwenty) ... ok testTwentyReversed (prody.tests.sequence.test_analysis.TestDirectInfo.testTwentyReversed) ... ok testZero (prody.tests.sequence.test_analysis.TestDirectInfo.testZero) ... ok testZero1 (prody.tests.sequence.test_analysis.TestDirectInfo.testZero1) ... ok testZero2 (prody.tests.sequence.test_analysis.TestDirectInfo.testZero2) ... ok testZero3 (prody.tests.sequence.test_analysis.TestDirectInfo.testZero3) ... ok testZero4 (prody.tests.sequence.test_analysis.TestDirectInfo.testZero4) ... ok testIdentityMatrix (prody.tests.sequence.test_analysis.TestIdentity.testIdentityMatrix) ... ok testIdentityMatrixNonTurbo (prody.tests.sequence.test_analysis.TestIdentity.testIdentityMatrixNonTurbo) ... ok testUnique (prody.tests.sequence.test_analysis.TestUnique.testUnique) ... ok testUnique2 (prody.tests.sequence.test_analysis.TestUnique.testUnique2) ... ok testMerge (prody.tests.sequence.test_msa.TestMerging.testMerge) ... ok testAddition (prody.tests.sequence.test_msa.TestRefinement.testAddition) ... ok testAll (prody.tests.sequence.test_msa.TestRefinement.testAll) ... ok testColocc (prody.tests.sequence.test_msa.TestRefinement.testColocc) ... ok testExtension (prody.tests.sequence.test_msa.TestRefinement.testExtension) ... ok testLabel (prody.tests.sequence.test_msa.TestRefinement.testLabel) ... ok testRowCol (prody.tests.sequence.test_msa.TestRefinement.testRowCol) ... ok testRowocc (prody.tests.sequence.test_msa.TestRefinement.testRowocc) ... ok testSeqid (prody.tests.sequence.test_msa.TestRefinement.testSeqid) ... ok testSeqidLabel (prody.tests.sequence.test_msa.TestRefinement.testSeqidLabel) ... ok testMSAFile (prody.tests.sequence.test_msafile.TestMSAFile.testMSAFile) ... ok testWriteFasta (prody.tests.sequence.test_msafile.TestMSAFile.testWriteFasta) ... /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence/sequence.py:32: DeprecationWarning: The binary mode of fromstring is deprecated, as it behaves surprisingly on unicode inputs. Use frombuffer instead self._seq = fromstring(one, '|S1') ok testWriteSelex (prody.tests.sequence.test_msafile.TestMSAFile.testWriteSelex) ... ok testWriteStockholm (prody.tests.sequence.test_msafile.TestMSAFile.testWriteStockholm) ... ok testArray (prody.tests.sequence.test_msafile.TestParseMSA.testArray) ... ok testIterator (prody.tests.sequence.test_msafile.TestParseMSA.testIterator) ... ok testMapping (prody.tests.sequence.test_msafile.TestParseMSA.testMapping) ... ok testFasta (prody.tests.sequence.test_msafile.TestWriteMSA.testFasta) ... ok testSelex (prody.tests.sequence.test_msafile.TestWriteMSA.testSelex) ... ok testStringConversion (prody.tests.sequence.test_sequence.TestSequence.testStringConversion) ... /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence/sequence.py:36: DeprecationWarning: The binary mode of fromstring is deprecated, as it behaves surprisingly on unicode inputs. Use frombuffer instead self._seq = fromstring(args[0], '|S1') ok testParseDCD (prody.tests.trajectory.test_dcdfile.TestDCDFile.testParseDCD) ... ok testWrite (prody.tests.trajectory.test_dcdfile.TestDCDFile.testWrite) ... ok testWriteDCD (prody.tests.trajectory.test_dcdfile.TestDCDFile.testWriteDCD) ... ok testWriteModeAppend (prody.tests.trajectory.test_dcdfile.TestDCDFile.testWriteModeAppend) ... ok testAll (prody.tests.trajectory.test_frame.TestSuperpose.testAll) ... ok testCarbon (prody.tests.trajectory.test_frame.TestSuperpose.testCarbon) ... ok testCoords (prody.tests.utilities.test_checkers.TestCheckCoords.testCoords) ... ok testCoordset (prody.tests.utilities.test_checkers.TestCheckCoords.testCoordset) ... ok testCoordsetNatoms (prody.tests.utilities.test_checkers.TestCheckCoords.testCoordsetNatoms) ... ok testInvalidCoords (prody.tests.utilities.test_checkers.TestCheckCoords.testInvalidCoords) ... ok testCorrectMonotypeOneArg (prody.tests.utilities.test_checkers.testCheckTypes.testCorrectMonotypeOneArg) ... ok testCorrectMonotypeTwoArgs (prody.tests.utilities.test_checkers.testCheckTypes.testCorrectMonotypeTwoArgs) ... ok testCorrectMultitypeOneArg (prody.tests.utilities.test_checkers.testCheckTypes.testCorrectMultitypeOneArg) ... ok testWrongMonotypeOneArg (prody.tests.utilities.test_checkers.testCheckTypes.testWrongMonotypeOneArg) ... ok testWrongMonotypeTwoArgs (prody.tests.utilities.test_checkers.testCheckTypes.testWrongMonotypeTwoArgs) ... ok testWrongMultitypeOneArg (prody.tests.utilities.test_checkers.testCheckTypes.testWrongMultitypeOneArg) ... ok testContinuous (prody.tests.utilities.test_misctools.TestRangeString.testContinuous) ... ok testGapped (prody.tests.utilities.test_misctools.TestRangeString.testGapped) ... ok testNegative (prody.tests.utilities.test_misctools.TestRangeString.testNegative) ... ok testRepeated (prody.tests.utilities.test_misctools.TestRangeString.testRepeated) ... ok testBuffer (prody.tests.utilities.test_pathtools.TestGunzip.testBuffer) ... /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/utilities/test_pathtools.py:34: ResourceWarning: unclosed file <_io.BufferedReader name='/tmp/compressed.txt.gz'> buff = open(self.gzfn, 'rb').read() ResourceWarning: Enable tracemalloc to get the object allocation traceback ok testFile (prody.tests.utilities.test_pathtools.TestGunzip.testFile) ... /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/utilities/test_pathtools.py:29: ResourceWarning: unclosed file <_io.TextIOWrapper name='/tmp/compressed.txt' mode='r' encoding='UTF-8'> text = open(fn).read() ResourceWarning: Enable tracemalloc to get the object allocation traceback ok ====================================================================== FAIL: testFunctionSelection13 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection13) Test function selections 'abs(x) == sqrt(sq(x))' for pdb3mht ---------------------------------------------------------------------- Traceback (most recent call last): File "/build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/atomic/test_select.py", line 442, in func self.assertEqual(len(sel), natoms, AssertionError: 3205 != 3211 : selection 'abs(x) == sqrt(sq(x))' for AtomGroup 3mht failed, expected 3211, selected 3205 ====================================================================== FAIL: testFunctionSelection14 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection14) Test function selections "abs(x) == sqrt(sq(x))" ---------------------------------------------------------------------- Traceback (most recent call last): File "/build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/atomic/test_select.py", line 483, in func self.assertEqual(len(sel), natoms, AssertionError: 3205 != 3211 : selection 'abs(x) == sqrt(sq(x))' for Selection 'all' failed, expected 3211, selected 3205 ---------------------------------------------------------------------- Ran 954 tests in 52.302s FAILED (failures=2, skipped=37) E: pybuild pybuild:388: test: plugin distutils failed with: exit code=1: cd /build/prody-0QIvue/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build; python3.11 -m unittest discover -v dh_auto_test: error: pybuild --test -i python{version} -p "3.10 3.11" returned exit code 13 make: *** [debian/rules:6: binary-indep] Error 25 dpkg-buildpackage: error: debian/rules binary-indep subprocess returned exit status 2 -------------------------------------------------------------------------------- Build finished at 2025-10-02T07:16:17Z Finished -------- +------------------------------------------------------------------------------+ | Cleanup Thu, 02 Oct 2025 07:16:17 +0000 | +------------------------------------------------------------------------------+ Purging /build/prody-0QIvue Not cleaning session: cloned chroot in use E: Build failure (dpkg-buildpackage died with exit 2) +------------------------------------------------------------------------------+ | Summary Thu, 02 Oct 2025 07:16:19 +0000 | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Type: all Build-Space: 232564 Build-Time: 138 Distribution: unstable Fail-Stage: build Host Architecture: amd64 Install-Time: 4 Job: /srv/rebuilderd/tmp/rebuilderdZ6eYHp/inputs/prody_2.3.1+dfsg-3.dsc Machine Architecture: amd64 Package: prody Package-Time: 157 Source-Version: 2.3.1+dfsg-3 Space: 232564 Status: attempted Version: 2.3.1+dfsg-3 -------------------------------------------------------------------------------- Finished at 2025-10-02T07:16:17Z Build needed 00:02:37, 232564k disk space E: Build failure (dpkg-buildpackage died with exit 2) sbuild failed