--- /srv/rebuilderd/tmp/rebuilderdz2AYU7/inputs/r-bioc-go.db_3.23.1-1_all.deb
+++ /srv/rebuilderd/tmp/rebuilderdz2AYU7/out/r-bioc-go.db_3.23.1-1_all.deb
├── file list
│ @@ -1,3 +1,3 @@
│  -rw-r--r--   0        0        0        4 2026-08-10 19:35:46.000000 debian-binary
│ --rw-r--r--   0        0        0     1640 2026-08-10 19:35:46.000000 control.tar.xz
│ --rw-r--r--   0        0        0 10500732 2026-08-10 19:35:46.000000 data.tar.xz
│ +-rw-r--r--   0        0        0     1636 2026-08-10 19:35:46.000000 control.tar.xz
│ +-rw-r--r--   0        0        0 10499032 2026-08-10 19:35:46.000000 data.tar.xz
├── control.tar.xz
│ ├── control.tar
│ │ ├── ./md5sums
│ │ │ ├── ./md5sums
│ │ │ │┄ Files differ
├── data.tar.xz
│ ├── data.tar
│ │ ├── file list
│ │ │ @@ -12,24 +12,24 @@
│ │ │  -rw-r--r--   0 root         (0) root         (0)      820 2026-08-10 19:35:46.000000 ./usr/lib/R/site-library/GO.db/Meta/hsearch.rds
│ │ │  -rw-r--r--   0 root         (0) root         (0)      336 2026-08-10 19:35:46.000000 ./usr/lib/R/site-library/GO.db/Meta/links.rds
│ │ │  -rw-r--r--   0 root         (0) root         (0)      250 2026-08-10 19:35:46.000000 ./usr/lib/R/site-library/GO.db/Meta/nsInfo.rds
│ │ │  -rw-r--r--   0 root         (0) root         (0)      729 2026-08-10 19:35:46.000000 ./usr/lib/R/site-library/GO.db/Meta/package.rds
│ │ │  -rw-r--r--   0 root         (0) root         (0)      281 2026-08-10 19:35:46.000000 ./usr/lib/R/site-library/GO.db/NAMESPACE
│ │ │  drwxr-xr-x   0 root         (0) root         (0)        0 2026-08-10 19:35:46.000000 ./usr/lib/R/site-library/GO.db/R/
│ │ │  -rw-r--r--   0 root         (0) root         (0)     1058 2026-08-10 19:35:46.000000 ./usr/lib/R/site-library/GO.db/R/GO.db
│ │ │ --rw-r--r--   0 root         (0) root         (0)     8315 2026-08-10 19:35:46.000000 ./usr/lib/R/site-library/GO.db/R/GO.db.rdb
│ │ │ +-rw-r--r--   0 root         (0) root         (0)     8325 2026-08-10 19:35:46.000000 ./usr/lib/R/site-library/GO.db/R/GO.db.rdb
│ │ │  -rw-r--r--   0 root         (0) root         (0)      361 2026-08-10 19:35:46.000000 ./usr/lib/R/site-library/GO.db/R/GO.db.rdx
│ │ │  drwxr-xr-x   0 root         (0) root         (0)        0 2026-08-10 19:35:46.000000 ./usr/lib/R/site-library/GO.db/extdata/
│ │ │  -rw-r--r--   0 root         (0) root         (0) 70443008 2026-08-10 19:35:46.000000 ./usr/lib/R/site-library/GO.db/extdata/GO.sqlite
│ │ │  drwxr-xr-x   0 root         (0) root         (0)        0 2026-08-10 19:35:46.000000 ./usr/lib/R/site-library/GO.db/help/
│ │ │  -rw-r--r--   0 root         (0) root         (0)      497 2026-08-10 19:35:46.000000 ./usr/lib/R/site-library/GO.db/help/AnIndex
│ │ │ --rw-r--r--   0 root         (0) root         (0)    44737 2026-08-10 19:35:46.000000 ./usr/lib/R/site-library/GO.db/help/GO.db.rdb
│ │ │ --rw-r--r--   0 root         (0) root         (0)      537 2026-08-10 19:35:46.000000 ./usr/lib/R/site-library/GO.db/help/GO.db.rdx
│ │ │ +-rw-r--r--   0 root         (0) root         (0)    45000 2026-08-10 19:35:46.000000 ./usr/lib/R/site-library/GO.db/help/GO.db.rdb
│ │ │ +-rw-r--r--   0 root         (0) root         (0)      534 2026-08-10 19:35:46.000000 ./usr/lib/R/site-library/GO.db/help/GO.db.rdx
│ │ │  -rw-r--r--   0 root         (0) root         (0)      239 2026-08-10 19:35:46.000000 ./usr/lib/R/site-library/GO.db/help/aliases.rds
│ │ │ --rw-r--r--   0 root         (0) root         (0)      263 2026-08-10 19:35:46.000000 ./usr/lib/R/site-library/GO.db/help/paths.rds
│ │ │ +-rw-r--r--   0 root         (0) root         (0)      276 2026-08-10 19:35:46.000000 ./usr/lib/R/site-library/GO.db/help/paths.rds
│ │ │  drwxr-xr-x   0 root         (0) root         (0)        0 2026-08-10 19:35:46.000000 ./usr/lib/R/site-library/GO.db/html/
│ │ │  -rw-r--r--   0 root         (0) root         (0)     4252 2026-08-10 19:35:46.000000 ./usr/lib/R/site-library/GO.db/html/00Index.html
│ │ │  -rw-r--r--   0 root         (0) root         (0)     2133 2026-08-10 19:35:46.000000 ./usr/lib/R/site-library/GO.db/html/R.css
│ │ │  drwxr-xr-x   0 root         (0) root         (0)        0 2026-08-10 19:35:46.000000 ./usr/share/
│ │ │  drwxr-xr-x   0 root         (0) root         (0)        0 2026-08-10 19:35:46.000000 ./usr/share/doc/
│ │ │  drwxr-xr-x   0 root         (0) root         (0)        0 2026-08-10 19:35:46.000000 ./usr/share/doc/r-bioc-go.db/
│ │ │  -rw-r--r--   0 root         (0) root         (0)      773 2026-08-10 19:35:46.000000 ./usr/share/doc/r-bioc-go.db/changelog.Debian.gz
│ │ ├── ./usr/lib/R/site-library/GO.db/R/GO.db.rdb
│ │ │ ├── Rscript --vanilla - {}
│ │ │ │ @@ -287,15 +287,15 @@
│ │ │ │      "imports" = "".__T__revmap:AnnotationDbi" = ".__T__revmap:AnnotationDbi", "
│ │ │ │      "imports" = ".__C__AgiAnnDbMap = ".__C__AgiAnnDbMap", ".__T__species:BiocGenerics" = ".__T__species:BiocGenerics", "
│ │ │ │      "imports" = "contents = "contents", ".__T__all:base" = ".__T__all:base", "keys<-" = "keys<-", "
│ │ │ │      "imports" = "".__T__Rattribnames<-:AnnotationDbi" = ".__T__Rattribnames<-:AnnotationDbi", "
│ │ │ │      "imports" = "mappedLkeys = "mappedLkeys", ".__T__anyNA:base" = ".__T__anyNA:base""
│ │ │ │      "imports" = "))"
│ │ │ │      "lazydata" = "<environment>"
│ │ │ │ -    "path" = ""/home/moeller/Salsa/r-bioc-go.db/debian/r-bioc-go.db/usr/lib/R/site-library/GO.db""
│ │ │ │ +    "path" = ""/build/reproducible-path/r-bioc-go.db-3.23.1/debian/r-bioc-go.db/usr/lib/R/site-library/GO.db""
│ │ │ │      "spec" = "c(name = "GO.db", version = "3.23.1")"
│ │ │ │  }
│ │ │ │  
│ │ │ │  .__S3MethodsTable__. (environment) = 
│ │ │ │  {
│ │ │ │  }
│ │ ├── ./usr/lib/R/site-library/GO.db/R/GO.db.rdx
│ │ │ ├── GO.db.rdx-content
│ │ │ │ ├── Rscript --vanilla -e 'args <- commandArgs(TRUE); readRDS(args[1])' {}
│ │ │ │ │ @@ -1,55 +1,55 @@
│ │ │ │ │  $variables
│ │ │ │ │  $variables$.__NAMESPACE__.
│ │ │ │ │ -[1] 5050   52
│ │ │ │ │ +[1] 5060   52
│ │ │ │ │  
│ │ │ │ │  $variables$.__S3MethodsTable__.
│ │ │ │ │ -[1] 5233   52
│ │ │ │ │ +[1] 5243   52
│ │ │ │ │  
│ │ │ │ │  $variables$.onLoad
│ │ │ │ │ -[1] 5285 1426
│ │ │ │ │ +[1] 5295 1426
│ │ │ │ │  
│ │ │ │ │  $variables$.onUnload
│ │ │ │ │ -[1] 6711  245
│ │ │ │ │ +[1] 6721  245
│ │ │ │ │  
│ │ │ │ │  $variables$.packageName
│ │ │ │ │ -[1] 6956   49
│ │ │ │ │ +[1] 6966   49
│ │ │ │ │  
│ │ │ │ │  $variables$GO
│ │ │ │ │ -[1] 7005  227
│ │ │ │ │ +[1] 7015  227
│ │ │ │ │  
│ │ │ │ │  $variables$GO_dbInfo
│ │ │ │ │ -[1] 7232  208
│ │ │ │ │ +[1] 7242  208
│ │ │ │ │  
│ │ │ │ │  $variables$GO_dbconn
│ │ │ │ │ -[1] 7440  208
│ │ │ │ │ +[1] 7450  208
│ │ │ │ │  
│ │ │ │ │  $variables$GO_dbfile
│ │ │ │ │ -[1] 7648  208
│ │ │ │ │ +[1] 7658  208
│ │ │ │ │  
│ │ │ │ │  $variables$GO_dbschema
│ │ │ │ │ -[1] 7856  276
│ │ │ │ │ +[1] 7866  276
│ │ │ │ │  
│ │ │ │ │  $variables$datacache
│ │ │ │ │ -[1] 8263   52
│ │ │ │ │ +[1] 8273   52
│ │ │ │ │  
│ │ │ │ │  
│ │ │ │ │  $references
│ │ │ │ │  $references$`env::1`
│ │ │ │ │ -[1]  289 4761
│ │ │ │ │ +[1]  289 4771
│ │ │ │ │  
│ │ │ │ │  $references$`env::2`
│ │ │ │ │  [1]   0 131
│ │ │ │ │  
│ │ │ │ │  $references$`env::3`
│ │ │ │ │  [1] 131 158
│ │ │ │ │  
│ │ │ │ │  $references$`env::4`
│ │ │ │ │ -[1] 5102  131
│ │ │ │ │ +[1] 5112  131
│ │ │ │ │  
│ │ │ │ │  $references$`env::5`
│ │ │ │ │ -[1] 8132  131
│ │ │ │ │ +[1] 8142  131
│ │ │ │ │  
│ │ │ │ │  
│ │ │ │ │  $compressed
│ │ │ │ │  [1] TRUE
│ │ ├── ./usr/lib/R/site-library/GO.db/help/GO.db.rdb
│ │ │ ├── Rscript --vanilla - {}
│ │ │ │ @@ -26,15 +26,15 @@
│ │ │ │          structure("## Objects in this package can be accessed using the select() interface\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("## from the AnnotationDbi package. See ?select for details.\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("columns(GO.db)\n", Rd_tag = "RCODE"), structure("\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("## Bimap interface:\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("## The 'old style' of interacting with these objects is manipulation as \n", Rd_tag = "RCODE"), 
│ │ │ │          structure("## bimaps. While this approach is still available we strongly encourage the\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("## use of select().\n", Rd_tag = "RCODE"), 
│ │ │ │ -        structure("ls(\"package:GO.db\")\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/home/moeller/Salsa/r-bioc-go.db/man/GOBASE.Rd", class = "Rd", meta = list(
│ │ │ │ +        structure("ls(\"package:GO.db\")\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GOBASE.Rd", class = "Rd", meta = list(
│ │ │ │      docType = character(0), generator = ""), prepared = 3L)
│ │ │ │  
│ │ │ │  GOBPANCESTOR (list) = structure(list(structure(list(structure("Annotation of GO Identifiers to their Biological Process Ancestors", Rd_tag = "TEXT")), Rd_tag = "\\title"), 
│ │ │ │      structure(list(structure("GOBPANCESTOR", Rd_tag = "VERB")), Rd_tag = "\\name"), 
│ │ │ │      structure(list(structure("GOBPANCESTOR", Rd_tag = "VERB")), Rd_tag = "\\alias"), 
│ │ │ │      structure(list(structure("datasets", Rd_tag = "TEXT")), Rd_tag = "\\keyword"), 
│ │ │ │      structure(list(structure("\n", Rd_tag = "TEXT"), structure("  This data set describes associations between GO Biological Process (BP)\n", Rd_tag = "TEXT"), 
│ │ │ │ @@ -72,15 +72,15 @@
│ │ │ │          structure("# Convert the object to a list\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("xx <- as.list(GOBPANCESTOR)\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("# Remove GO IDs that do not have any ancestor\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("xx <- xx[!is.na(xx)]\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("if(length(xx) > 0){\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("  # Get the ancestor GO IDs for the first two elents of xx\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("  goids <- xx[1:2]\n", Rd_tag = "RCODE"), 
│ │ │ │ -        structure("}\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/home/moeller/Salsa/r-bioc-go.db/man/GOBPANCESTOR.Rd", class = "Rd", meta = list(
│ │ │ │ +        structure("}\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GOBPANCESTOR.Rd", class = "Rd", meta = list(
│ │ │ │      docType = character(0), generator = ""), prepared = 3L)
│ │ │ │  
│ │ │ │  GOBPCHILDREN (list) = structure(list(structure(list(structure("Annotation of GO Identifiers to their Biological Process Children", Rd_tag = "TEXT")), Rd_tag = "\\title"), 
│ │ │ │      structure(list(structure("GOBPCHILDREN", Rd_tag = "VERB")), Rd_tag = "\\name"), 
│ │ │ │      structure(list(structure("GOBPCHILDREN", Rd_tag = "VERB")), Rd_tag = "\\alias"), 
│ │ │ │      structure(list(structure("datasets", Rd_tag = "TEXT")), Rd_tag = "\\keyword"), 
│ │ │ │      structure(list(structure("\n", Rd_tag = "TEXT"), structure("This data set describes associations between GO molecular function (BP)\n", Rd_tag = "TEXT"), 
│ │ │ │ @@ -125,15 +125,15 @@
│ │ │ │          structure("    # Find out the GO terms for the first parent goid\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("    GOID(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("    Term(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("    Synonym(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("    Secondary(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("    Definition(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("    Ontology(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │ -        structure("}\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/home/moeller/Salsa/r-bioc-go.db/man/GOBPCHILDREN.Rd", class = "Rd", meta = list(
│ │ │ │ +        structure("}\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GOBPCHILDREN.Rd", class = "Rd", meta = list(
│ │ │ │      docType = character(0), generator = ""), prepared = 3L)
│ │ │ │  
│ │ │ │  GOBPOFFSPRING (list) = structure(list(structure(list(structure("Annotation of GO Identifiers to their Biological Process Offspring", Rd_tag = "TEXT")), Rd_tag = "\\title"), 
│ │ │ │      structure(list(structure("GOBPOFFSPRING", Rd_tag = "VERB")), Rd_tag = "\\name"), 
│ │ │ │      structure(list(structure("GOBPOFFSPRING", Rd_tag = "VERB")), Rd_tag = "\\alias"), 
│ │ │ │      structure(list(structure("datasets", Rd_tag = "TEXT")), Rd_tag = "\\keyword"), 
│ │ │ │      structure(list(structure("\n", Rd_tag = "TEXT"), structure("  This data set describes associations between GO molecular function (BP)\n", Rd_tag = "TEXT"), 
│ │ │ │ @@ -171,15 +171,15 @@
│ │ │ │          structure("# Convert the object to a list\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("xx <- as.list(GOBPOFFSPRING)\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("# Remove GO IDs that do not have any offspring\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("xx <- xx[!is.na(xx)]\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("if(length(xx) > 0){\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("  # Get the offspring GO IDs for the first two elents of xx\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("  goids <- xx[1:2]\n", Rd_tag = "RCODE"), 
│ │ │ │ -        structure("}\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/home/moeller/Salsa/r-bioc-go.db/man/GOBPOFFSPRING.Rd", class = "Rd", meta = list(
│ │ │ │ +        structure("}\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GOBPOFFSPRING.Rd", class = "Rd", meta = list(
│ │ │ │      docType = character(0), generator = ""), prepared = 3L)
│ │ │ │  
│ │ │ │  GOBPPARENTS (list) = structure(list(structure(list(structure("Annotation of GO Identifiers to their Biological Process Parents", Rd_tag = "TEXT")), Rd_tag = "\\title"), 
│ │ │ │      structure(list(structure("GOBPPARENTS", Rd_tag = "VERB")), Rd_tag = "\\name"), 
│ │ │ │      structure(list(structure("GOBPPARENTS", Rd_tag = "VERB")), Rd_tag = "\\alias"), 
│ │ │ │      structure(list(structure("datasets", Rd_tag = "TEXT")), Rd_tag = "\\keyword"), 
│ │ │ │      structure(list(structure("\n", Rd_tag = "TEXT"), structure("  This data set describes associations between GO molecular function (BP)\n", Rd_tag = "TEXT"), 
│ │ │ │ @@ -236,15 +236,15 @@
│ │ │ │          structure("    # Find out the GO terms for the first parent goid\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("    GOID(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("    Term(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("    Synonym(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("    Secondary(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("    Definition(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("    Ontology(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │ -        structure("}\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/home/moeller/Salsa/r-bioc-go.db/man/GOBPPARENTS.Rd", class = "Rd", meta = list(
│ │ │ │ +        structure("}\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GOBPPARENTS.Rd", class = "Rd", meta = list(
│ │ │ │      docType = character(0), generator = ""), prepared = 3L)
│ │ │ │  
│ │ │ │  GOCCANCESTOR (list) = structure(list(structure(list(structure("Annotation of GO Identifiers to their Cellular Component Ancestors", Rd_tag = "TEXT")), Rd_tag = "\\title"), 
│ │ │ │      structure(list(structure("GOCCANCESTOR", Rd_tag = "VERB")), Rd_tag = "\\name"), 
│ │ │ │      structure(list(structure("GOCCANCESTOR", Rd_tag = "VERB")), Rd_tag = "\\alias"), 
│ │ │ │      structure(list(structure("datasets", Rd_tag = "TEXT")), Rd_tag = "\\keyword"), 
│ │ │ │      structure(list(structure("\n", Rd_tag = "TEXT"), structure("  This data set describes associations between GO molecular function (CC)\n", Rd_tag = "TEXT"), 
│ │ │ │ @@ -282,15 +282,15 @@
│ │ │ │          structure("# Convert the object to a list\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("xx <- as.list(GOCCANCESTOR)\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("# Remove GO IDs that do not have any ancestor\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("xx <- xx[!is.na(xx)]\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("if(length(xx) > 0){\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("  # Get the ancestor GO IDs for the first two elents of xx\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("  goids <- xx[1:2]\n", Rd_tag = "RCODE"), 
│ │ │ │ -        structure("}\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/home/moeller/Salsa/r-bioc-go.db/man/GOCCANCESTOR.Rd", class = "Rd", meta = list(
│ │ │ │ +        structure("}\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GOCCANCESTOR.Rd", class = "Rd", meta = list(
│ │ │ │      docType = character(0), generator = ""), prepared = 3L)
│ │ │ │  
│ │ │ │  GOCCCHILDREN (list) = structure(list(structure(list(structure("Annotation of GO Identifiers to their Cellular Component Children", Rd_tag = "TEXT")), Rd_tag = "\\title"), 
│ │ │ │      structure(list(structure("GOCCCHILDREN", Rd_tag = "VERB")), Rd_tag = "\\name"), 
│ │ │ │      structure(list(structure("GOCCCHILDREN", Rd_tag = "VERB")), Rd_tag = "\\alias"), 
│ │ │ │      structure(list(structure("datasets", Rd_tag = "TEXT")), Rd_tag = "\\keyword"), 
│ │ │ │      structure(list(structure("\n", Rd_tag = "TEXT"), structure("  This data set describes associations between GO molecular function (CC)\n", Rd_tag = "TEXT"), 
│ │ │ │ @@ -333,15 +333,15 @@
│ │ │ │          structure("goids <- xx[[1]]\n", Rd_tag = "RCODE"), structure("# Find out the GO terms for the first parent goid\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("GOID(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("Term(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("Synonym(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("Secondary(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("Definition(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("Ontology(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │ -        structure("}\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/home/moeller/Salsa/r-bioc-go.db/man/GOCCCHILDREN.Rd", class = "Rd", meta = list(
│ │ │ │ +        structure("}\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GOCCCHILDREN.Rd", class = "Rd", meta = list(
│ │ │ │      docType = character(0), generator = ""), prepared = 3L)
│ │ │ │  
│ │ │ │  GOCCOFFSPRING (list) = structure(list(structure(list(structure("Annotation of GO Identifiers to their Cellular Component Offspring", Rd_tag = "TEXT")), Rd_tag = "\\title"), 
│ │ │ │      structure(list(structure("GOCCOFFSPRING", Rd_tag = "VERB")), Rd_tag = "\\name"), 
│ │ │ │      structure(list(structure("GOCCOFFSPRING", Rd_tag = "VERB")), Rd_tag = "\\alias"), 
│ │ │ │      structure(list(structure("datasets", Rd_tag = "TEXT")), Rd_tag = "\\keyword"), 
│ │ │ │      structure(list(structure("\n", Rd_tag = "TEXT"), structure("  This data set describes associations between GO molecular function (MF)\n", Rd_tag = "TEXT"), 
│ │ │ │ @@ -379,15 +379,15 @@
│ │ │ │          structure("# Convert the object to a list\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("xx <- as.list(GOCCOFFSPRING)\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("# Remove GO identifiers that do not have any offspring\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("xx <- xx[!is.na(xx)]\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("if(length(xx) > 0){\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("  # Get the offspring GO identifiers for the first two elents of xx\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("  goidentifiers <- xx[1:2]\n", Rd_tag = "RCODE"), 
│ │ │ │ -        structure("}\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/home/moeller/Salsa/r-bioc-go.db/man/GOCCOFFSPRING.Rd", class = "Rd", meta = list(
│ │ │ │ +        structure("}\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GOCCOFFSPRING.Rd", class = "Rd", meta = list(
│ │ │ │      docType = character(0), generator = ""), prepared = 3L)
│ │ │ │  
│ │ │ │  GOCCPARENTS (list) = structure(list(structure(list(structure("Annotation of GO Identifiers to their Cellular Component Parents", Rd_tag = "TEXT")), Rd_tag = "\\title"), 
│ │ │ │      structure(list(structure("GOCCPARENTS", Rd_tag = "VERB")), Rd_tag = "\\name"), 
│ │ │ │      structure(list(structure("GOCCPARENTS", Rd_tag = "VERB")), Rd_tag = "\\alias"), 
│ │ │ │      structure(list(structure("datasets", Rd_tag = "TEXT")), Rd_tag = "\\keyword"), 
│ │ │ │      structure(list(structure("\n", Rd_tag = "TEXT"), structure("  This data set describes associations between GO molecular function (CC)\n", Rd_tag = "TEXT"), 
│ │ │ │ @@ -442,15 +442,15 @@
│ │ │ │          structure("   # Find out the GO terms for the first parent go ID\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("   GOID(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("   Term(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("   Synonym(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("   Secondary(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("   Definition(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("   Ontology(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │ -        structure("}\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/home/moeller/Salsa/r-bioc-go.db/man/GOCCPARENTS.Rd", class = "Rd", meta = list(
│ │ │ │ +        structure("}\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GOCCPARENTS.Rd", class = "Rd", meta = list(
│ │ │ │      docType = character(0), generator = ""), prepared = 3L)
│ │ │ │  
│ │ │ │  GOMAPCOUNTS (list) = structure(list(structure(list(structure("Number of mapped keys for the maps in package GO.db", Rd_tag = "TEXT")), Rd_tag = "\\title"), 
│ │ │ │      structure(list(structure("GOMAPCOUNTS", Rd_tag = "VERB")), Rd_tag = "\\name"), 
│ │ │ │      structure(list(structure("GOMAPCOUNTS", Rd_tag = "VERB")), Rd_tag = "\\alias"), 
│ │ │ │      structure(list(structure("datasets", Rd_tag = "TEXT")), Rd_tag = "\\keyword"), 
│ │ │ │      structure(list(structure("\n", Rd_tag = "TEXT"), structure("  GOMAPCOUNTS provides the \"map count\" (i.e. the\n", Rd_tag = "TEXT"), 
│ │ │ │ @@ -489,15 +489,15 @@
│ │ │ │          structure("\n", Rd_tag = "RCODE"), structure("## Bimap interface:\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("GOMAPCOUNTS\n", Rd_tag = "RCODE"), structure("mapnames <- names(GOMAPCOUNTS)\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("GOMAPCOUNTS[mapnames[1]]\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("x <- get(mapnames[1])\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("sum(!is.na(as.list(x)))\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("count.mappedkeys(x)   # much faster!\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("\n", Rd_tag = "RCODE"), structure("## Check the \"map count\" of all the maps in package GO.db\n", Rd_tag = "RCODE"), 
│ │ │ │ -        structure("checkMAPCOUNTS(\"GO.db\")\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/home/moeller/Salsa/r-bioc-go.db/man/GOMAPCOUNTS.Rd", class = "Rd", meta = list(
│ │ │ │ +        structure("checkMAPCOUNTS(\"GO.db\")\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GOMAPCOUNTS.Rd", class = "Rd", meta = list(
│ │ │ │      docType = character(0), generator = ""), prepared = 3L)
│ │ │ │  
│ │ │ │  GOMFANCESTOR (list) = structure(list(structure(list(structure("Annotation of GO identifiers to their Molecular Function Ancestors", Rd_tag = "TEXT")), Rd_tag = "\\title"), 
│ │ │ │      structure(list(structure("GOMFANCESTOR", Rd_tag = "VERB")), Rd_tag = "\\name"), 
│ │ │ │      structure(list(structure("GOMFANCESTOR", Rd_tag = "VERB")), Rd_tag = "\\alias"), 
│ │ │ │      structure(list(structure("datasets", Rd_tag = "TEXT")), Rd_tag = "\\keyword"), 
│ │ │ │      structure(list(structure("\n", Rd_tag = "TEXT"), structure("  This data set describes associations between GO molecular function (MF)\n", Rd_tag = "TEXT"), 
│ │ │ │ @@ -535,15 +535,15 @@
│ │ │ │          structure("# Convert the object to a list\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("xx <- as.list(GOMFANCESTOR)\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("# Remove GO identifiers that do not have any ancestor\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("xx <- xx[!is.na(xx)]\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("if(length(xx) > 0){\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("  # Get the ancestor GO identifiers for the first two elents of xx\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("  goids <- xx[1:2]\n", Rd_tag = "RCODE"), 
│ │ │ │ -        structure("}\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/home/moeller/Salsa/r-bioc-go.db/man/GOMFANCESTOR.Rd", class = "Rd", meta = list(
│ │ │ │ +        structure("}\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GOMFANCESTOR.Rd", class = "Rd", meta = list(
│ │ │ │      docType = character(0), generator = ""), prepared = 3L)
│ │ │ │  
│ │ │ │  GOMFCHILDREN (list) = structure(list(structure(list(structure("Annotation of GO Identifiers to their Molecular Function Children", Rd_tag = "TEXT")), Rd_tag = "\\title"), 
│ │ │ │      structure(list(structure("GOMFCHILDREN", Rd_tag = "VERB")), Rd_tag = "\\name"), 
│ │ │ │      structure(list(structure("GOMFCHILDREN", Rd_tag = "VERB")), Rd_tag = "\\alias"), 
│ │ │ │      structure(list(structure("datasets", Rd_tag = "TEXT")), Rd_tag = "\\keyword"), 
│ │ │ │      structure(list(structure("\n", Rd_tag = "TEXT"), structure("  This data set describes associations between GO molecular function (MF)\n", Rd_tag = "TEXT"), 
│ │ │ │ @@ -587,15 +587,15 @@
│ │ │ │          structure("    # Find out the GO terms for the first parent goid\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("    GOID(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("    Term(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("    Synonym(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("    Secondary(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("    Definition(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("    Ontology(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │ -        structure("}\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/home/moeller/Salsa/r-bioc-go.db/man/GOMFCHILDREN.Rd", class = "Rd", meta = list(
│ │ │ │ +        structure("}\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GOMFCHILDREN.Rd", class = "Rd", meta = list(
│ │ │ │      docType = character(0), generator = ""), prepared = 3L)
│ │ │ │  
│ │ │ │  GOMFOFFSPRING (list) = structure(list(structure(list(structure("Annotation of GO Identifiers to their Molecular Function Offspring", Rd_tag = "TEXT")), Rd_tag = "\\title"), 
│ │ │ │      structure(list(structure("GOMFOFFSPRING", Rd_tag = "VERB")), Rd_tag = "\\name"), 
│ │ │ │      structure(list(structure("GOMFOFFSPRING", Rd_tag = "VERB")), Rd_tag = "\\alias"), 
│ │ │ │      structure(list(structure("datasets", Rd_tag = "TEXT")), Rd_tag = "\\keyword"), 
│ │ │ │      structure(list(structure("\n", Rd_tag = "TEXT"), structure("  This data set describes associations between GO molecular function (MF)\n", Rd_tag = "TEXT"), 
│ │ │ │ @@ -632,15 +632,15 @@
│ │ │ │          structure("\n", Rd_tag = "RCODE"), structure("## Bimap interface:\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("# Convert the object to a list\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("xx <- as.list(GOMFOFFSPRING)\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("# Remove GO identifiers that do not have any offspring\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("xx <- xx[!is.na(xx)]\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("if(length(xx) > 0){\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("  # Get the offspring GO identifiers for the first two elents of xx\n", Rd_tag = "RCODE"), 
│ │ │ │ -        structure("goids <- xx[1:2]\n", Rd_tag = "RCODE"), structure("}\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/home/moeller/Salsa/r-bioc-go.db/man/GOMFOFFSPRING.Rd", class = "Rd", meta = list(
│ │ │ │ +        structure("goids <- xx[1:2]\n", Rd_tag = "RCODE"), structure("}\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GOMFOFFSPRING.Rd", class = "Rd", meta = list(
│ │ │ │      docType = character(0), generator = ""), prepared = 3L)
│ │ │ │  
│ │ │ │  GOMFPARENTS (list) = structure(list(structure(list(structure("Annotation of GO Identifiers to their Molecular Function Parents", Rd_tag = "TEXT")), Rd_tag = "\\title"), 
│ │ │ │      structure(list(structure("GOMFPARENTS", Rd_tag = "VERB")), Rd_tag = "\\name"), 
│ │ │ │      structure(list(structure("GOMFPARENTS", Rd_tag = "VERB")), Rd_tag = "\\alias"), 
│ │ │ │      structure(list(structure("datasets", Rd_tag = "TEXT")), Rd_tag = "\\keyword"), 
│ │ │ │      structure(list(structure("\n", Rd_tag = "TEXT"), structure("  This data set describes associations between GO molecular function (MF)\n", Rd_tag = "TEXT"), 
│ │ │ │ @@ -696,15 +696,15 @@
│ │ │ │          structure("    # Find out the GO terms for the first parent goid\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("    GOID(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("    Term(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("    Synonym(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("    Secondary(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("    Definition(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("    Ontology(GOTERM[[goids[1]]])\n", Rd_tag = "RCODE"), 
│ │ │ │ -        structure("}\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/home/moeller/Salsa/r-bioc-go.db/man/GOMFPARENTS.Rd", class = "Rd", meta = list(
│ │ │ │ +        structure("}\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GOMFPARENTS.Rd", class = "Rd", meta = list(
│ │ │ │      docType = character(0), generator = ""), prepared = 3L)
│ │ │ │  
│ │ │ │  GOOBSOLETE (list) = structure(list(structure(list(structure("Annotation of GO identifiers by terms defined by Gene Ontology\n", Rd_tag = "TEXT"), 
│ │ │ │      structure("  Consortium and their status are obsolete", Rd_tag = "TEXT")), Rd_tag = "\\title"), 
│ │ │ │      structure(list(structure("GOOBSOLETE", Rd_tag = "VERB")), Rd_tag = "\\name"), 
│ │ │ │      structure(list(structure("GOOBSOLETE", Rd_tag = "VERB")), Rd_tag = "\\alias"), 
│ │ │ │      structure(list(structure("datasets", Rd_tag = "TEXT")), Rd_tag = "\\keyword"), 
│ │ │ │ @@ -732,15 +732,15 @@
│ │ │ │          structure("## from the AnnotationDbi package. See ?select for details.\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("\n", Rd_tag = "RCODE"), structure("## Bimap interface:\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("# Convert the object to a list\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("xx <- as.list(GOTERM)\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("if(length(xx) > 0){\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("    # Get the TERMS for the first elent of xx\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("    GOID(xx[[1]])\n", Rd_tag = "RCODE"), structure("    Ontology(xx[[1]])\n", Rd_tag = "RCODE"), 
│ │ │ │ -        structure("}\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/home/moeller/Salsa/r-bioc-go.db/man/GOOBSOLETE.Rd", class = "Rd", meta = list(
│ │ │ │ +        structure("}\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GOOBSOLETE.Rd", class = "Rd", meta = list(
│ │ │ │      docType = character(0), generator = ""), prepared = 3L)
│ │ │ │  
│ │ │ │  GOSYNONYM (list) = structure(list(structure(list(structure("Map from GO synonyms to GO terms", Rd_tag = "TEXT")), Rd_tag = "\\title"), 
│ │ │ │      structure(list(structure("GOSYNONYM", Rd_tag = "VERB")), Rd_tag = "\\name"), 
│ │ │ │      structure(list(structure("GOSYNONYM", Rd_tag = "VERB")), Rd_tag = "\\alias"), 
│ │ │ │      structure(list(structure("datasets", Rd_tag = "TEXT")), Rd_tag = "\\keyword"), 
│ │ │ │      structure(list(structure("\n", Rd_tag = "TEXT"), structure("  GOSYNONYM is an R object that provides mapping\n", Rd_tag = "TEXT"), 
│ │ │ │ @@ -758,15 +758,15 @@
│ │ │ │          structure("## Objects in this package can be accessed using the select() interface\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("## from the AnnotationDbi package. See ?select for details.\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("\n", Rd_tag = "RCODE"), structure("## Bimap interface:\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("x <- GOSYNONYM\n", Rd_tag = "RCODE"), structure("sample(x, 3)\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("# GO ID \"GO:0009435\" has a lot of synonyms\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("GOTERM[[\"GO:0009435\"]]\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("# GO ID \"GO:0006736\" is a synonym of GO ID \"GO:0009435\"\n", Rd_tag = "RCODE"), 
│ │ │ │ -        structure("GOID(GOSYNONYM[[\"GO:0006736\"]])\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/home/moeller/Salsa/r-bioc-go.db/man/GOSYNONYM.Rd", class = "Rd", meta = list(
│ │ │ │ +        structure("GOID(GOSYNONYM[[\"GO:0006736\"]])\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GOSYNONYM.Rd", class = "Rd", meta = list(
│ │ │ │      docType = character(0), generator = ""), prepared = 3L)
│ │ │ │  
│ │ │ │  GOTERM (list) = structure(list(structure(list(structure("Annotation of GO Identifiers to GO Terms", Rd_tag = "TEXT")), Rd_tag = "\\title"), 
│ │ │ │      structure(list(structure("GOTERM", Rd_tag = "VERB")), Rd_tag = "\\name"), 
│ │ │ │      structure(list(structure("GOTERM", Rd_tag = "VERB")), Rd_tag = "\\alias"), 
│ │ │ │      structure(list(structure("datasets", Rd_tag = "TEXT")), Rd_tag = "\\keyword"), 
│ │ │ │      structure(list(structure("\n", Rd_tag = "TEXT"), structure("  This data set gives mappings between GO identifiers and their respective terms.\n", Rd_tag = "TEXT")), Rd_tag = "\\description"), 
│ │ │ │ @@ -811,15 +811,15 @@
│ │ │ │          structure("if(length(xx) > 0){\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("    # Get the TERMS for the first elent of xx\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("    GOID(xx[[1]])\n", Rd_tag = "RCODE"), structure("    Term(xx[[1]])\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("    Synonym(xx[[1]])\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("    Secondary(xx[[1]])\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("    Definition(xx[[1]])\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("    Ontology(xx[[1]])\n", Rd_tag = "RCODE"), 
│ │ │ │ -        structure("}\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/home/moeller/Salsa/r-bioc-go.db/man/GOTERM.Rd", class = "Rd", meta = list(
│ │ │ │ +        structure("}\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GOTERM.Rd", class = "Rd", meta = list(
│ │ │ │      docType = character(0), generator = ""), prepared = 3L)
│ │ │ │  
│ │ │ │  GO_dbconn (list) = structure(list(structure(list(structure("Collect information about the package annotation DB", Rd_tag = "TEXT")), Rd_tag = "\\title"), 
│ │ │ │      structure(list(structure("GO_dbconn", Rd_tag = "VERB")), Rd_tag = "\\name"), 
│ │ │ │      structure(list(structure("GO_dbconn", Rd_tag = "VERB")), Rd_tag = "\\alias"), 
│ │ │ │      structure(list(structure("GO_dbfile", Rd_tag = "VERB")), Rd_tag = "\\alias"), 
│ │ │ │      structure(list(structure("GO_dbschema", Rd_tag = "VERB")), Rd_tag = "\\alias"), 
│ │ │ │ @@ -904,15 +904,15 @@
│ │ │ │          structure(",\n", Rd_tag = "TEXT"), structure("  ", Rd_tag = "TEXT"), 
│ │ │ │          structure(list(structure(list(structure("dbInfo", Rd_tag = "TEXT")), Rd_tag = "\\link", Rd_option = structure("AnnotationDbi:AnnDbObj-class", Rd_tag = "TEXT"))), Rd_tag = "\\code"), 
│ │ │ │          structure("\n", Rd_tag = "TEXT")), Rd_tag = "\\seealso"), 
│ │ │ │      structure(list(structure("\n", Rd_tag = "RCODE"), structure("  library(DBI)\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("  ## Count the number of rows in the \"go_term\" table:\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("  dbGetQuery(GO_dbconn(), \"SELECT COUNT(*) FROM go_term\")\n", Rd_tag = "RCODE"), 
│ │ │ │          structure("\n", Rd_tag = "RCODE"), structure("  GO_dbschema()\n", Rd_tag = "RCODE"), 
│ │ │ │ -        structure("\n", Rd_tag = "RCODE"), structure("  GO_dbInfo()\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/home/moeller/Salsa/r-bioc-go.db/man/GO_dbconn.Rd", class = "Rd", meta = list(
│ │ │ │ +        structure("\n", Rd_tag = "RCODE"), structure("  GO_dbInfo()\n", Rd_tag = "RCODE")), Rd_tag = "\\examples")), Rdfile = "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GO_dbconn.Rd", class = "Rd", meta = list(
│ │ │ │      docType = character(0), generator = ""), prepared = 3L)
│ │ │ │  
│ │ │ │  hideOutput (NULL) = NULL
│ │ │ │  
│ │ │ │  safeDeparse (closure) = function (obj) 
│ │ │ │  {
│ │ │ │      tryCatch({
│ │ ├── ./usr/lib/R/site-library/GO.db/help/GO.db.rdx
│ │ │ ├── GO.db.rdx-content
│ │ │ │ ├── Rscript --vanilla -e 'args <- commandArgs(TRUE); readRDS(args[1])' {}
│ │ │ │ │ @@ -1,115 +1,115 @@
│ │ │ │ │  $variables
│ │ │ │ │  $variables$GOBASE
│ │ │ │ │ -[1]  276 1561
│ │ │ │ │ +[1]  281 1572
│ │ │ │ │  
│ │ │ │ │  $variables$GOBPANCESTOR
│ │ │ │ │ -[1] 2119 2135
│ │ │ │ │ +[1] 2139 2145
│ │ │ │ │  
│ │ │ │ │  $variables$GOBPCHILDREN
│ │ │ │ │ -[1] 4537 2282
│ │ │ │ │ +[1] 4572 2294
│ │ │ │ │  
│ │ │ │ │  $variables$GOBPOFFSPRING
│ │ │ │ │ -[1] 7102 2158
│ │ │ │ │ +[1] 7152 2168
│ │ │ │ │  
│ │ │ │ │  $variables$GOBPPARENTS
│ │ │ │ │ -[1] 9541 2705
│ │ │ │ │ +[1] 9605 2716
│ │ │ │ │  
│ │ │ │ │  $variables$GOCCANCESTOR
│ │ │ │ │ -[1] 12527  2152
│ │ │ │ │ +[1] 12607  2163
│ │ │ │ │  
│ │ │ │ │  $variables$GOCCCHILDREN
│ │ │ │ │ -[1] 14962  2233
│ │ │ │ │ +[1] 15057  2245
│ │ │ │ │  
│ │ │ │ │  $variables$GOCCOFFSPRING
│ │ │ │ │ -[1] 17478  2169
│ │ │ │ │ +[1] 17588  2180
│ │ │ │ │  
│ │ │ │ │  $variables$GOCCPARENTS
│ │ │ │ │ -[1] 19929  2649
│ │ │ │ │ +[1] 20054  2660
│ │ │ │ │  
│ │ │ │ │  $variables$GOMAPCOUNTS
│ │ │ │ │ -[1] 22859  2037
│ │ │ │ │ +[1] 22999  2050
│ │ │ │ │  
│ │ │ │ │  $variables$GOMFANCESTOR
│ │ │ │ │ -[1] 25178  2122
│ │ │ │ │ +[1] 25335  2130
│ │ │ │ │  
│ │ │ │ │  $variables$GOMFCHILDREN
│ │ │ │ │ -[1] 27583  2249
│ │ │ │ │ +[1] 27753  2258
│ │ │ │ │  
│ │ │ │ │  $variables$GOMFOFFSPRING
│ │ │ │ │ -[1] 30115  2132
│ │ │ │ │ +[1] 30297  2140
│ │ │ │ │  
│ │ │ │ │  $variables$GOMFPARENTS
│ │ │ │ │ -[1] 32529  2683
│ │ │ │ │ +[1] 32723  2692
│ │ │ │ │  
│ │ │ │ │  $variables$GOOBSOLETE
│ │ │ │ │ -[1] 35492  1732
│ │ │ │ │ +[1] 35700  1742
│ │ │ │ │  
│ │ │ │ │  $variables$GOSYNONYM
│ │ │ │ │ -[1] 37503  1308
│ │ │ │ │ +[1] 37727  1319
│ │ │ │ │  
│ │ │ │ │  $variables$GOTERM
│ │ │ │ │ -[1] 39087  2306
│ │ │ │ │ +[1] 39327  2315
│ │ │ │ │  
│ │ │ │ │  $variables$GO_dbconn
│ │ │ │ │ -[1] 41670  3067
│ │ │ │ │ +[1] 41924  3076
│ │ │ │ │  
│ │ │ │ │  
│ │ │ │ │  $references
│ │ │ │ │  $references$`env::1`
│ │ │ │ │ -[1]   0 276
│ │ │ │ │ +[1]   0 281
│ │ │ │ │  
│ │ │ │ │  $references$`env::10`
│ │ │ │ │ -[1] 22578   281
│ │ │ │ │ +[1] 22714   285
│ │ │ │ │  
│ │ │ │ │  $references$`env::11`
│ │ │ │ │ -[1] 24896   282
│ │ │ │ │ +[1] 25049   286
│ │ │ │ │  
│ │ │ │ │  $references$`env::12`
│ │ │ │ │ -[1] 27300   283
│ │ │ │ │ +[1] 27465   288
│ │ │ │ │  
│ │ │ │ │  $references$`env::13`
│ │ │ │ │ -[1] 29832   283
│ │ │ │ │ +[1] 30011   286
│ │ │ │ │  
│ │ │ │ │  $references$`env::14`
│ │ │ │ │ -[1] 32247   282
│ │ │ │ │ +[1] 32437   286
│ │ │ │ │  
│ │ │ │ │  $references$`env::15`
│ │ │ │ │ -[1] 35212   280
│ │ │ │ │ +[1] 35415   285
│ │ │ │ │  
│ │ │ │ │  $references$`env::16`
│ │ │ │ │ -[1] 37224   279
│ │ │ │ │ +[1] 37442   285
│ │ │ │ │  
│ │ │ │ │  $references$`env::17`
│ │ │ │ │ -[1] 38811   276
│ │ │ │ │ +[1] 39046   281
│ │ │ │ │  
│ │ │ │ │  $references$`env::18`
│ │ │ │ │ -[1] 41393   277
│ │ │ │ │ +[1] 41642   282
│ │ │ │ │  
│ │ │ │ │  $references$`env::2`
│ │ │ │ │ -[1] 1837  282
│ │ │ │ │ +[1] 1853  286
│ │ │ │ │  
│ │ │ │ │  $references$`env::3`
│ │ │ │ │ -[1] 4254  283
│ │ │ │ │ +[1] 4284  288
│ │ │ │ │  
│ │ │ │ │  $references$`env::4`
│ │ │ │ │ -[1] 6819  283
│ │ │ │ │ +[1] 6866  286
│ │ │ │ │  
│ │ │ │ │  $references$`env::5`
│ │ │ │ │ -[1] 9260  281
│ │ │ │ │ +[1] 9320  285
│ │ │ │ │  
│ │ │ │ │  $references$`env::6`
│ │ │ │ │ -[1] 12246   281
│ │ │ │ │ +[1] 12321   286
│ │ │ │ │  
│ │ │ │ │  $references$`env::7`
│ │ │ │ │ -[1] 14679   283
│ │ │ │ │ +[1] 14770   287
│ │ │ │ │  
│ │ │ │ │  $references$`env::8`
│ │ │ │ │ -[1] 17195   283
│ │ │ │ │ +[1] 17302   286
│ │ │ │ │  
│ │ │ │ │  $references$`env::9`
│ │ │ │ │ -[1] 19647   282
│ │ │ │ │ +[1] 19768   286
│ │ │ │ │  
│ │ │ │ │  
│ │ │ │ │  $compressed
│ │ │ │ │  [1] TRUE
│ │ ├── ./usr/lib/R/site-library/GO.db/help/paths.rds
│ │ │ ├── paths.rds-content
│ │ │ │ ├── Rscript --vanilla -e 'args <- commandArgs(TRUE); readRDS(args[1])' {}
│ │ │ │ │ @@ -1,20 +1,20 @@
│ │ │ │ │ - [1] "/home/moeller/Salsa/r-bioc-go.db/man/GOBASE.Rd"       
│ │ │ │ │ - [2] "/home/moeller/Salsa/r-bioc-go.db/man/GOBPANCESTOR.Rd" 
│ │ │ │ │ - [3] "/home/moeller/Salsa/r-bioc-go.db/man/GOBPCHILDREN.Rd" 
│ │ │ │ │ - [4] "/home/moeller/Salsa/r-bioc-go.db/man/GOBPOFFSPRING.Rd"
│ │ │ │ │ - [5] "/home/moeller/Salsa/r-bioc-go.db/man/GOBPPARENTS.Rd"  
│ │ │ │ │ - [6] "/home/moeller/Salsa/r-bioc-go.db/man/GOCCANCESTOR.Rd" 
│ │ │ │ │ - [7] "/home/moeller/Salsa/r-bioc-go.db/man/GOCCCHILDREN.Rd" 
│ │ │ │ │ - [8] "/home/moeller/Salsa/r-bioc-go.db/man/GOCCOFFSPRING.Rd"
│ │ │ │ │ - [9] "/home/moeller/Salsa/r-bioc-go.db/man/GOCCPARENTS.Rd"  
│ │ │ │ │ -[10] "/home/moeller/Salsa/r-bioc-go.db/man/GOMAPCOUNTS.Rd"  
│ │ │ │ │ -[11] "/home/moeller/Salsa/r-bioc-go.db/man/GOMFANCESTOR.Rd" 
│ │ │ │ │ -[12] "/home/moeller/Salsa/r-bioc-go.db/man/GOMFCHILDREN.Rd" 
│ │ │ │ │ -[13] "/home/moeller/Salsa/r-bioc-go.db/man/GOMFOFFSPRING.Rd"
│ │ │ │ │ -[14] "/home/moeller/Salsa/r-bioc-go.db/man/GOMFPARENTS.Rd"  
│ │ │ │ │ -[15] "/home/moeller/Salsa/r-bioc-go.db/man/GOOBSOLETE.Rd"   
│ │ │ │ │ -[16] "/home/moeller/Salsa/r-bioc-go.db/man/GOSYNONYM.Rd"    
│ │ │ │ │ -[17] "/home/moeller/Salsa/r-bioc-go.db/man/GOTERM.Rd"       
│ │ │ │ │ -[18] "/home/moeller/Salsa/r-bioc-go.db/man/GO_dbconn.Rd"    
│ │ │ │ │ + [1] "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GOBASE.Rd"       
│ │ │ │ │ + [2] "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GOBPANCESTOR.Rd" 
│ │ │ │ │ + [3] "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GOBPCHILDREN.Rd" 
│ │ │ │ │ + [4] "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GOBPOFFSPRING.Rd"
│ │ │ │ │ + [5] "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GOBPPARENTS.Rd"  
│ │ │ │ │ + [6] "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GOCCANCESTOR.Rd" 
│ │ │ │ │ + [7] "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GOCCCHILDREN.Rd" 
│ │ │ │ │ + [8] "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GOCCOFFSPRING.Rd"
│ │ │ │ │ + [9] "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GOCCPARENTS.Rd"  
│ │ │ │ │ +[10] "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GOMAPCOUNTS.Rd"  
│ │ │ │ │ +[11] "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GOMFANCESTOR.Rd" 
│ │ │ │ │ +[12] "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GOMFCHILDREN.Rd" 
│ │ │ │ │ +[13] "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GOMFOFFSPRING.Rd"
│ │ │ │ │ +[14] "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GOMFPARENTS.Rd"  
│ │ │ │ │ +[15] "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GOOBSOLETE.Rd"   
│ │ │ │ │ +[16] "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GOSYNONYM.Rd"    
│ │ │ │ │ +[17] "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GOTERM.Rd"       
│ │ │ │ │ +[18] "/build/reproducible-path/r-bioc-go.db-3.23.1/man/GO_dbconn.Rd"    
│ │ │ │ │  attr(,"first")
│ │ │ │ │ -[1] 38
│ │ │ │ │ +[1] 50