Running as unit: rb-build-i386_2-47001.service ==================================================================================== Fri Nov 29 18:28:17 UTC 2024 - running /srv/jenkins/bin/reproducible_build.sh (for job reproducible_builder_i386_2) on jenkins, called using "ionos6-i386 ionos2-i386" as arguments. Fri Nov 29 18:28:17 UTC 2024 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-nUu8aPBQ" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Fri Nov 29 18:28:17 UTC 2024 - checking /var/lib/jenkins/offline_nodes if ionos6-i386.debian.net is marked as down. Fri Nov 29 18:28:17 UTC 2024 - checking via ssh if ionos6-i386.debian.net is up. removed '/tmp/read-only-fs-test-RcyMrY' Fri Nov 29 18:28:18 UTC 2024 - checking /var/lib/jenkins/offline_nodes if ionos2-i386.debian.net is marked as down. Fri Nov 29 18:28:18 UTC 2024 - checking via ssh if ionos2-i386.debian.net is up. removed '/tmp/read-only-fs-test-lU3XRE' ok, let's check if r-bioc-genomicfeatures is building anywhere yet… ok, r-bioc-genomicfeatures is not building anywhere… UPDATE 1 ============================================================================= Initialising reproducibly build of r-bioc-genomicfeatures in experimental on i386 on jenkins now. 1st build will be done on ionos6-i386.debian.net. 2nd build will be done on ionos2-i386.debian.net. ============================================================================= Fri Nov 29 18:28:28 UTC 2024 I: starting to build r-bioc-genomicfeatures/experimental/i386 on jenkins on '2024-11-29 18:28' Fri Nov 29 18:28:28 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/i386_2/47001/console.log 1732904908 i386 experimental r-bioc-genomicfeatures Fri Nov 29 18:28:28 UTC 2024 I: Downloading source for experimental/r-bioc-genomicfeatures=1.58.0+dfsg-1 --2024-11-29 18:28:29-- http://cdn-fastly.deb.debian.org/debian/pool/main/r/r-bioc-genomicfeatures/r-bioc-genomicfeatures_1.58.0%2bdfsg-1.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2477 (2.4K) [text/prs.lines.tag] Saving to: ‘r-bioc-genomicfeatures_1.58.0+dfsg-1.dsc’ 0K .. 100% 352M=0s 2024-11-29 18:28:29 (352 MB/s) - ‘r-bioc-genomicfeatures_1.58.0+dfsg-1.dsc’ saved [2477/2477] --2024-11-29 18:28:29-- http://cdn-fastly.deb.debian.org/debian/pool/main/r/r-bioc-genomicfeatures/r-bioc-genomicfeatures_1.58.0%2bdfsg-1.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2477 (2.4K) [text/prs.lines.tag] Saving to: ‘r-bioc-genomicfeatures_1.58.0+dfsg-1.dsc’ 0K .. 100% 352M=0s 2024-11-29 18:28:29 (352 MB/s) - ‘r-bioc-genomicfeatures_1.58.0+dfsg-1.dsc’ saved [2477/2477] Fri Nov 29 18:28:29 UTC 2024 I: r-bioc-genomicfeatures_1.58.0+dfsg-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: r-bioc-genomicfeatures Binary: r-bioc-genomicfeatures Architecture: all Version: 1.58.0+dfsg-1 Maintainer: Debian R Packages Maintainers Uploaders: Andreas Tille Homepage: https://bioconductor.org/packages/GenomicFeatures/ Standards-Version: 4.7.0 Vcs-Browser: https://salsa.debian.org/r-pkg-team/r-bioc-genomicfeatures Vcs-Git: https://salsa.debian.org/r-pkg-team/r-bioc-genomicfeatures.git Testsuite: autopkgtest-pkg-r Build-Depends: debhelper-compat (= 13), dh-r, r-base-dev, r-bioc-biocgenerics (>= 0.51.2), r-bioc-s4vectors, r-bioc-iranges (>= 2.37.1), r-bioc-genomeinfodb (>= 1.35.8), r-bioc-genomicranges (>= 1.55.2), r-bioc-annotationdbi, r-cran-dbi, r-bioc-xvector, r-bioc-biostrings, r-bioc-rtracklayer, r-cran-knitr, r-cran-markdown, r-bioc-biocstyle Package-List: r-bioc-genomicfeatures deb gnu-r optional arch=all Checksums-Sha1: 0355b6ffef5e3de7f17fd29ff32cf69b9ae53e27 138012 r-bioc-genomicfeatures_1.58.0+dfsg.orig.tar.xz 861eaa40ae1d1cd6b39f1ae2c8443c78549a371a 13208 r-bioc-genomicfeatures_1.58.0+dfsg-1.debian.tar.xz Checksums-Sha256: 99e428401479fbce88bfc77a43c2c9a2a765860d64e2a67fc66692eaea60f7d8 138012 r-bioc-genomicfeatures_1.58.0+dfsg.orig.tar.xz a9fe50630e6132c5e5f06f26fa02cbbeb880ab3ad4a363cfc155f2554d640602 13208 r-bioc-genomicfeatures_1.58.0+dfsg-1.debian.tar.xz Files: 276c57c2dc4d4916eb9cdc9f27f6dcd8 138012 r-bioc-genomicfeatures_1.58.0+dfsg.orig.tar.xz 2a0e4e4e0ac5d831082e87b1b10e1bc2 13208 r-bioc-genomicfeatures_1.58.0+dfsg-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJGBAEBCgAwFiEEck1gkzcRPHEFUNdHPCZ2P2xn5uIFAmdJuMYSHGNydXNvZUBk ZWJpYW4ub3JnAAoJEDwmdj9sZ+bi6e4P/3J/R9TjhDdeePyRSpmdRLDIKRcpNMAz Bc155LKfsFiKOi+Fqt1gFJRG5yx3VypMnWP88f9ESco4HDKGCnCB4uL/LTSJ/l3g OdK54WuC9w8nW4e4ZcwJDM9otgIXE1bjmNy2UFUwib8Zdd+CeZGv+zacp/n860D9 tQuzgzFgzB7DOU/iltxxzUy1SP4DaDcpRKCMnKOdnNzZylutznur2LcM8q1+tcoL 4gDRQjlH9pBlUoW7fMpkEpJdcRNFrmaAgT83gAkKfZ0+iO/Tz5ypsJAI8gf3rVd5 uzIQPnOIyqgapSIlzCAZIEjvmIrigT+M4vpCywGfgZ9OpONhNEcNBPFCFHo27duR Qb8q83Mdf6qVzil6+WhvKXx9WHE8bFwg8HEf4OAiefmKUAisnQzSSXyc4ktXzqQ4 1pKuoso8dWzk23wBuuWcXGIbfF9KHcN0dLive4WoydRjs2rihyiQUvIbXb8naKrC CDeWOG1L/fhXPUPwC3OpTq1kDhHBwlJOGhXlfIYIMRxeLm1usB2od0cwv/GSd0QV opZ6d/sKo021Idslk+m0tHg98uVAJVQSq5cuiRMGM+C8TdshBuRk9uKDQLS+j9e/ aEAG7hKnJt0aLZvm26fmsGPt7wMU1NbtYtbVEaiLE7hYLy3pdHXxyg9A7uO/6Og0 yub/oIt2aSwI =RcC2 -----END PGP SIGNATURE----- Fri Nov 29 18:28:29 UTC 2024 I: Checking whether the package is not for us Fri Nov 29 18:28:29 UTC 2024 I: Starting 1st build on remote node ionos6-i386.debian.net. Fri Nov 29 18:28:29 UTC 2024 I: Preparing to do remote build '1' on ionos6-i386.debian.net. Fri Nov 29 18:28:29 UTC 2024 - checking /var/lib/jenkins/offline_nodes if ionos6-i386.debian.net is marked as down. Fri Nov 29 18:28:29 UTC 2024 - checking via ssh if ionos6-i386.debian.net is up. removed '/tmp/read-only-fs-test-aBYQ5A' ==================================================================================== Fri Jan 2 00:51:29 UTC 2026 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on ionos6-i386, called using "1 r-bioc-genomicfeatures experimental /srv/reproducible-results/rbuild-debian/r-b-build.1bXF2QsP 1.58.0+dfsg-1" as arguments. Fri Jan 2 00:51:29 UTC 2026 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-Pq7xcWPz" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Fri Jan 2 00:51:29 UTC 2026 I: Downloading source for experimental/r-bioc-genomicfeatures=1.58.0+dfsg-1 Reading package lists... NOTICE: 'r-bioc-genomicfeatures' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/r-pkg-team/r-bioc-genomicfeatures.git Please use: git clone https://salsa.debian.org/r-pkg-team/r-bioc-genomicfeatures.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 154 kB of source archives. Get:1 http://cdn-fastly.deb.debian.org/debian experimental/main r-bioc-genomicfeatures 1.58.0+dfsg-1 (dsc) [2477 B] Get:2 http://cdn-fastly.deb.debian.org/debian experimental/main r-bioc-genomicfeatures 1.58.0+dfsg-1 (tar) [138 kB] Get:3 http://cdn-fastly.deb.debian.org/debian experimental/main r-bioc-genomicfeatures 1.58.0+dfsg-1 (diff) [13.2 kB] Fetched 154 kB in 0s (13.5 MB/s) Download complete and in download only mode Reading package lists... NOTICE: 'r-bioc-genomicfeatures' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/r-pkg-team/r-bioc-genomicfeatures.git Please use: git clone https://salsa.debian.org/r-pkg-team/r-bioc-genomicfeatures.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 154 kB of source archives. Get:1 http://cdn-fastly.deb.debian.org/debian experimental/main r-bioc-genomicfeatures 1.58.0+dfsg-1 (dsc) [2477 B] Get:2 http://cdn-fastly.deb.debian.org/debian experimental/main r-bioc-genomicfeatures 1.58.0+dfsg-1 (tar) [138 kB] Get:3 http://cdn-fastly.deb.debian.org/debian experimental/main r-bioc-genomicfeatures 1.58.0+dfsg-1 (diff) [13.2 kB] Fetched 154 kB in 0s (13.5 MB/s) Download complete and in download only mode ============================================================================= Building r-bioc-genomicfeatures in experimental on i386 on ionos6-i386 now. Date: Fri Jan 2 01:51:29 CET 2026 Date UTC: Fri Jan 2 00:51:29 UTC 2026 ============================================================================= W: /root/.pbuilderrc does not exist I: Logging to b1/build.log I: pbuilder: network access will be disabled during build I: Current time: Thu Jan 1 12:51:29 -12 2026 I: pbuilder-time-stamp: 1767315089 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/experimental-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: using eatmydata during job I: Copying source file I: copying [r-bioc-genomicfeatures_1.58.0+dfsg-1.dsc] I: copying [./r-bioc-genomicfeatures_1.58.0+dfsg.orig.tar.xz] I: copying [./r-bioc-genomicfeatures_1.58.0+dfsg-1.debian.tar.xz] I: Extracting source gpgv: Signature made Fri Nov 29 12:51:18 2024 gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 gpgv: issuer "crusoe@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./r-bioc-genomicfeatures_1.58.0+dfsg-1.dsc: no acceptable signature found dpkg-source: info: extracting r-bioc-genomicfeatures in r-bioc-genomicfeatures-1.58.0+dfsg dpkg-source: info: unpacking r-bioc-genomicfeatures_1.58.0+dfsg.orig.tar.xz dpkg-source: info: unpacking r-bioc-genomicfeatures_1.58.0+dfsg-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying Fix_autopkgtest.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/44352/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='i386' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=22 ' DISTRIBUTION='experimental' HOME='/root' HOST_ARCH='i386' IFS=' ' INVOCATION_ID='07308e98abb34ef3b909c5f54125508c' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' LD_LIBRARY_PATH='/usr/lib/libeatmydata' LD_PRELOAD='libeatmydata.so' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='44352' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.1bXF2QsP/pbuilderrc_m4Ua --distribution experimental --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/experimental-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.1bXF2QsP/b1 --logfile b1/build.log r-bioc-genomicfeatures_1.58.0+dfsg-1.dsc' SUDO_GID='112' SUDO_UID='107' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://213.165.73.152:3128' I: uname -a Linux ionos6-i386 6.1.0-28-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.119-1 (2024-11-22) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin I: user script /srv/workspace/pbuilder/44352/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: i386 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), dh-r, r-base-dev, r-bioc-biocgenerics (>= 0.51.2), r-bioc-s4vectors, r-bioc-iranges (>= 2.37.1), r-bioc-genomeinfodb (>= 1.35.8), r-bioc-genomicranges (>= 1.55.2), r-bioc-annotationdbi, r-cran-dbi, r-bioc-xvector, r-bioc-biostrings, r-bioc-rtracklayer, r-cran-knitr, r-cran-markdown, r-bioc-biocstyle dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19956 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-r; however: Package dh-r is not installed. pbuilder-satisfydepends-dummy depends on r-base-dev; however: Package r-base-dev is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-biocgenerics (>= 0.51.2); however: Package r-bioc-biocgenerics is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-s4vectors; however: Package r-bioc-s4vectors is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-iranges (>= 2.37.1); however: Package r-bioc-iranges is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-genomeinfodb (>= 1.35.8); however: Package r-bioc-genomeinfodb is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-genomicranges (>= 1.55.2); however: Package r-bioc-genomicranges is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-annotationdbi; however: Package r-bioc-annotationdbi is not installed. pbuilder-satisfydepends-dummy depends on r-cran-dbi; however: Package r-cran-dbi is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-xvector; however: Package r-bioc-xvector is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-biostrings; however: Package r-bioc-biostrings is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-rtracklayer; however: Package r-bioc-rtracklayer is not installed. pbuilder-satisfydepends-dummy depends on r-cran-knitr; however: Package r-cran-knitr is not installed. pbuilder-satisfydepends-dummy depends on r-cran-markdown; however: Package r-cran-markdown is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-biocstyle; however: Package r-bioc-biocstyle is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} ca-certificates{a} dctrl-tools{a} debhelper{a} dh-autoreconf{a} dh-r{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} fonts-glyphicons-halflings{a} fonts-mathjax{a} gettext{a} gettext-base{a} gfortran{a} gfortran-14{a} gfortran-14-i686-linux-gnu{a} gfortran-i686-linux-gnu{a} groff-base{a} icu-devtools{a} intltool-debian{a} libalgorithm-c3-perl{a} libarchive-zip-perl{a} libb-hooks-endofscope-perl{a} libb-hooks-op-check-perl{a} libblas-dev{a} libblas3{a} libbrotli1{a} libbz2-dev{a} libcairo2{a} libclass-c3-perl{a} libclass-load-perl{a} libclass-load-xs-perl{a} libclone-perl{a} libcom-err2{a} libcurl3t64-gnutls{a} libcurl4t64{a} libdata-optlist-perl{a} libdatrie1{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libdevel-callchecker-perl{a} libdevel-globaldestruction-perl{a} libdevel-overloadinfo-perl{a} libdevel-stacktrace-perl{a} libdist-checkconflicts-perl{a} libdynaloader-functions-perl{a} libelf1t64{a} libencode-locale-perl{a} libeval-closure-perl{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfile-which-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgfortran-14-dev{a} libgfortran5{a} libglib2.0-0t64{a} libgraphite2-3{a} libgssapi-krb5-2{a} libharfbuzz0b{a} libhttp-date-perl{a} libhttp-message-perl{a} libice6{a} libicu-dev{a} libicu72{a} libio-html-perl{a} libjbig0{a} libjpeg-dev{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} libjs-bootstrap{a} libjs-highlight.js{a} libjs-jquery{a} libjs-jquery-datatables{a} libjs-mathjax{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblapack-dev{a} liblapack3{a} libldap-2.5-0{a} liblerc4{a} liblwp-mediatypes-perl{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libmodule-implementation-perl{a} libmodule-runtime-conflicts-perl{a} libmodule-runtime-perl{a} libmoose-perl{a} libmro-compat-perl{a} libnamespace-clean-perl{a} libncurses-dev{a} libncurses6{a} libnghttp2-14{a} libnghttp3-9{a} libngtcp2-16{a} libngtcp2-crypto-gnutls8{a} libpackage-deprecationmanager-perl{a} libpackage-stash-perl{a} libpackage-stash-xs-perl{a} libpango-1.0-0{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libpaper-utils{a} libpaper1{a} libparams-classify-perl{a} libparams-util-perl{a} libpcre2-16-0{a} libpcre2-32-0{a} libpcre2-dev{a} libpcre2-posix3{a} libpipeline1{a} libpixman-1-0{a} libpkgconf3{a} libpng-dev{a} libpng16-16t64{a} libpsl5t64{a} libreadline-dev{a} libreadline8t64{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsharpyuv0{a} libsm6{a} libssh2-1t64{a} libsub-exporter-perl{a} libsub-exporter-progressive-perl{a} libsub-identify-perl{a} libsub-install-perl{a} libsub-name-perl{a} libswitch-perl{a} libtcl8.6{a} libthai-data{a} libthai0{a} libtiff6{a} libtimedate-perl{a} libtirpc-common{a} libtirpc-dev{a} libtirpc3t64{a} libtk8.6{a} libtool{a} libtry-tiny-perl{a} libuchardet0{a} liburi-perl{a} libvariable-magic-perl{a} libwebp7{a} libwww-curl-perl{a} libwww-curl-simple-perl{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb-render0{a} libxcb-shm0{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxft2{a} libxml2{a} libxmuu1{a} libxrender1{a} libxss1{a} libxt6t64{a} m4{a} man-db{a} node-normalize.css{a} openssl{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} r-base-core{a} r-base-dev{a} r-bioc-biocgenerics{a} r-bioc-s4vectors{a} r-cran-commonmark{a} r-cran-dbi{a} r-cran-evaluate{a} r-cran-highr{a} r-cran-knitr{a} r-cran-markdown{a} r-cran-xfun{a} r-cran-yaml{a} readline-common{a} sensible-utils{a} tzdata{a} ucf{a} unzip{a} x11-common{a} xauth{a} xdg-utils{a} zip{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: bzip2-doc cme curl devscripts git-buildpackage javascript-common krb5-locales libarchive-cpio-perl libclass-c3-xs-perl libdevel-lexalias-perl libdevel-partialdump-perl libfile-mimeinfo-perl libglib2.0-data libgpm2 libio-compress-brotli-perl libldap-common libltdl-dev libmail-sendmail-perl libnet-dbus-perl libpng-tools libsasl2-modules libx11-protocol-perl lynx node-highlight.js publicsuffix r-cran-bslib r-cran-codetools r-cran-covr r-cran-curl r-cran-digest r-cran-formatr r-cran-ggplot2 r-cran-gridsvg r-cran-htmlwidgets r-cran-jpeg r-cran-jsonlite r-cran-lattice r-cran-magick r-cran-mime r-cran-png r-cran-ragg r-cran-rcurl r-cran-remotes r-cran-renv r-cran-reticulate r-cran-rgl r-cran-rlang r-cran-rmarkdown r-cran-rstudioapi r-cran-runit r-cran-sass r-cran-svglite r-cran-testit r-cran-testthat r-cran-tibble r-cran-tikzdevice r-cran-tinytex r-cran-webshot r-cran-withr r-cran-xml2 r-doc-html r-recommended shared-mime-info wget x11-utils x11-xserver-utils xdg-user-dirs 0 packages upgraded, 203 newly installed, 0 to remove and 0 not upgraded. Need to get 119 MB of archives. After unpacking 382 MB will be used. The following packages have unmet dependencies: pbuilder-satisfydepends-dummy : Depends: r-bioc-biocgenerics (>= 0.51.2) but 0.50.0-2 is to be installed Depends: r-bioc-iranges (>= 2.37.1) which is a virtual package and is not provided by any available package Depends: r-bioc-genomeinfodb (>= 1.35.8) but it is not installable Depends: r-bioc-genomicranges (>= 1.55.2) which is a virtual package and is not provided by any available package Depends: r-bioc-annotationdbi but it is not installable Depends: r-bioc-xvector which is a virtual package and is not provided by any available package Depends: r-bioc-biostrings which is a virtual package and is not provided by any available package Depends: r-bioc-rtracklayer which is a virtual package and is not provided by any available package Depends: r-bioc-biocstyle but it is not installable Unable to resolve dependencies! Giving up... The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} ca-certificates{a} dctrl-tools{a} debhelper{a} dh-autoreconf{a} dh-r{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} fonts-glyphicons-halflings{a} fonts-mathjax{a} gettext{a} gettext-base{a} gfortran{a} gfortran-14{a} gfortran-14-i686-linux-gnu{a} gfortran-i686-linux-gnu{a} groff-base{a} icu-devtools{a} intltool-debian{a} libalgorithm-c3-perl{a} libarchive-zip-perl{a} libb-hooks-endofscope-perl{a} libb-hooks-op-check-perl{a} libblas-dev{a} libblas3{a} libbrotli1{a} libbz2-dev{a} libcairo2{a} libclass-c3-perl{a} libclass-load-perl{a} libclass-load-xs-perl{a} libclone-perl{a} libcom-err2{a} libcurl3t64-gnutls{a} libcurl4t64{a} libdata-optlist-perl{a} libdatrie1{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libdevel-callchecker-perl{a} libdevel-globaldestruction-perl{a} libdevel-overloadinfo-perl{a} libdevel-stacktrace-perl{a} libdist-checkconflicts-perl{a} libdynaloader-functions-perl{a} libelf1t64{a} libencode-locale-perl{a} libeval-closure-perl{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfile-which-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgfortran-14-dev{a} libgfortran5{a} libglib2.0-0t64{a} libgraphite2-3{a} libgssapi-krb5-2{a} libharfbuzz0b{a} libhttp-date-perl{a} libhttp-message-perl{a} libice6{a} libicu-dev{a} libicu72{a} libio-html-perl{a} libjbig0{a} libjpeg-dev{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} libjs-bootstrap{a} libjs-highlight.js{a} libjs-jquery{a} libjs-jquery-datatables{a} libjs-mathjax{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblapack-dev{a} liblapack3{a} libldap-2.5-0{a} liblerc4{a} liblwp-mediatypes-perl{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libmodule-implementation-perl{a} libmodule-runtime-conflicts-perl{a} libmodule-runtime-perl{a} libmoose-perl{a} libmro-compat-perl{a} libnamespace-clean-perl{a} libncurses-dev{a} libncurses6{a} libnghttp2-14{a} libnghttp3-9{a} libngtcp2-16{a} libngtcp2-crypto-gnutls8{a} libpackage-deprecationmanager-perl{a} libpackage-stash-perl{a} libpackage-stash-xs-perl{a} libpango-1.0-0{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libpaper-utils{a} libpaper1{a} libparams-classify-perl{a} libparams-util-perl{a} libpcre2-16-0{a} libpcre2-32-0{a} libpcre2-dev{a} libpcre2-posix3{a} libpipeline1{a} libpixman-1-0{a} libpkgconf3{a} libpng-dev{a} libpng16-16t64{a} libpsl5t64{a} libreadline-dev{a} libreadline8t64{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsharpyuv0{a} libsm6{a} libssh2-1t64{a} libsub-exporter-perl{a} libsub-exporter-progressive-perl{a} libsub-identify-perl{a} libsub-install-perl{a} libsub-name-perl{a} libswitch-perl{a} libtcl8.6{a} libthai-data{a} libthai0{a} libtiff6{a} libtimedate-perl{a} libtirpc-common{a} libtirpc-dev{a} libtirpc3t64{a} libtk8.6{a} libtool{a} libtry-tiny-perl{a} libuchardet0{a} liburi-perl{a} libvariable-magic-perl{a} libwebp7{a} libwww-curl-perl{a} libwww-curl-simple-perl{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb-render0{a} libxcb-shm0{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxft2{a} libxml2{a} libxmuu1{a} libxrender1{a} libxss1{a} libxt6t64{a} m4{a} man-db{a} node-normalize.css{a} openssl{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} r-base-core{a} r-base-dev{a} r-bioc-biocgenerics{a} r-bioc-s4vectors{a} r-cran-commonmark{a} r-cran-dbi{a} r-cran-evaluate{a} r-cran-highr{a} r-cran-knitr{a} r-cran-markdown{a} r-cran-xfun{a} r-cran-yaml{a} readline-common{a} sensible-utils{a} tzdata{a} ucf{a} unzip{a} x11-common{a} xauth{a} xdg-utils{a} zip{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: bzip2-doc cme curl devscripts git-buildpackage javascript-common krb5-locales libarchive-cpio-perl libclass-c3-xs-perl libdevel-lexalias-perl libdevel-partialdump-perl libfile-mimeinfo-perl libglib2.0-data libgpm2 libio-compress-brotli-perl libldap-common libltdl-dev libmail-sendmail-perl libnet-dbus-perl libpng-tools libsasl2-modules libx11-protocol-perl lynx node-highlight.js publicsuffix r-cran-bslib r-cran-codetools r-cran-covr r-cran-curl r-cran-digest r-cran-formatr r-cran-ggplot2 r-cran-gridsvg r-cran-htmlwidgets r-cran-jpeg r-cran-jsonlite r-cran-lattice r-cran-magick r-cran-mime r-cran-png r-cran-ragg r-cran-rcurl r-cran-remotes r-cran-renv r-cran-reticulate r-cran-rgl r-cran-rlang r-cran-rmarkdown r-cran-rstudioapi r-cran-runit r-cran-sass r-cran-svglite r-cran-testit r-cran-testthat r-cran-tibble r-cran-tikzdevice r-cran-tinytex r-cran-webshot r-cran-withr r-cran-xml2 r-doc-html r-recommended shared-mime-info wget x11-utils x11-xserver-utils xdg-user-dirs 0 packages upgraded, 203 newly installed, 0 to remove and 0 not upgraded. Need to get 119 MB of archives. After unpacking 382 MB will be used. Abort. E: pbuilder-satisfydepends failed. I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/44352 and its subdirectories Starting cleanup. All cleanup done. Fri Jan 2 00:51:43 UTC 2026 - reproducible_build.sh stopped running as /tmp/jenkins-script-Pq7xcWPz, removing. /srv/reproducible-results/rbuild-debian/r-b-build.1bXF2QsP: total 16 drwxr-xr-x 2 jenkins jenkins 4096 Nov 29 18:28 b1 drwxr-xr-x 2 jenkins jenkins 4096 Nov 29 18:28 b2 -rw-r--r-- 1 jenkins jenkins 2477 Nov 29 12:56 r-bioc-genomicfeatures_1.58.0+dfsg-1.dsc -rw------- 1 jenkins jenkins 3728 Nov 29 18:28 rbuildlog.Z7gpWjD /srv/reproducible-results/rbuild-debian/r-b-build.1bXF2QsP/b1: total 20 -rw-r--r-- 1 jenkins jenkins 18296 Nov 29 18:28 build.log /srv/reproducible-results/rbuild-debian/r-b-build.1bXF2QsP/b2: total 0 Fri Nov 29 18:28:45 UTC 2024 I: Deleting $TMPDIR on ionos6-i386.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Thu Jan 1 12:51:29 -12 2026 I: pbuilder-time-stamp: 1767315089 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/experimental-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: using eatmydata during job I: Copying source file I: copying [r-bioc-genomicfeatures_1.58.0+dfsg-1.dsc] I: copying [./r-bioc-genomicfeatures_1.58.0+dfsg.orig.tar.xz] I: copying [./r-bioc-genomicfeatures_1.58.0+dfsg-1.debian.tar.xz] I: Extracting source gpgv: Signature made Fri Nov 29 12:51:18 2024 gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 gpgv: issuer "crusoe@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./r-bioc-genomicfeatures_1.58.0+dfsg-1.dsc: no acceptable signature found dpkg-source: info: extracting r-bioc-genomicfeatures in r-bioc-genomicfeatures-1.58.0+dfsg dpkg-source: info: unpacking r-bioc-genomicfeatures_1.58.0+dfsg.orig.tar.xz dpkg-source: info: unpacking r-bioc-genomicfeatures_1.58.0+dfsg-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying Fix_autopkgtest.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/44352/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='i386' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=22 ' DISTRIBUTION='experimental' HOME='/root' HOST_ARCH='i386' IFS=' ' INVOCATION_ID='07308e98abb34ef3b909c5f54125508c' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' LD_LIBRARY_PATH='/usr/lib/libeatmydata' LD_PRELOAD='libeatmydata.so' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='44352' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.1bXF2QsP/pbuilderrc_m4Ua --distribution experimental --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/experimental-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.1bXF2QsP/b1 --logfile b1/build.log r-bioc-genomicfeatures_1.58.0+dfsg-1.dsc' SUDO_GID='112' SUDO_UID='107' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://213.165.73.152:3128' I: uname -a Linux ionos6-i386 6.1.0-28-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.119-1 (2024-11-22) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin I: user script /srv/workspace/pbuilder/44352/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: i386 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), dh-r, r-base-dev, r-bioc-biocgenerics (>= 0.51.2), r-bioc-s4vectors, r-bioc-iranges (>= 2.37.1), r-bioc-genomeinfodb (>= 1.35.8), r-bioc-genomicranges (>= 1.55.2), r-bioc-annotationdbi, r-cran-dbi, r-bioc-xvector, r-bioc-biostrings, r-bioc-rtracklayer, r-cran-knitr, r-cran-markdown, r-bioc-biocstyle dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19956 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-r; however: Package dh-r is not installed. pbuilder-satisfydepends-dummy depends on r-base-dev; however: Package r-base-dev is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-biocgenerics (>= 0.51.2); however: Package r-bioc-biocgenerics is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-s4vectors; however: Package r-bioc-s4vectors is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-iranges (>= 2.37.1); however: Package r-bioc-iranges is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-genomeinfodb (>= 1.35.8); however: Package r-bioc-genomeinfodb is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-genomicranges (>= 1.55.2); however: Package r-bioc-genomicranges is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-annotationdbi; however: Package r-bioc-annotationdbi is not installed. pbuilder-satisfydepends-dummy depends on r-cran-dbi; however: Package r-cran-dbi is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-xvector; however: Package r-bioc-xvector is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-biostrings; however: Package r-bioc-biostrings is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-rtracklayer; however: Package r-bioc-rtracklayer is not installed. pbuilder-satisfydepends-dummy depends on r-cran-knitr; however: Package r-cran-knitr is not installed. pbuilder-satisfydepends-dummy depends on r-cran-markdown; however: Package r-cran-markdown is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-biocstyle; however: Package r-bioc-biocstyle is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} ca-certificates{a} dctrl-tools{a} debhelper{a} dh-autoreconf{a} dh-r{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} fonts-glyphicons-halflings{a} fonts-mathjax{a} gettext{a} gettext-base{a} gfortran{a} gfortran-14{a} gfortran-14-i686-linux-gnu{a} gfortran-i686-linux-gnu{a} groff-base{a} icu-devtools{a} intltool-debian{a} libalgorithm-c3-perl{a} libarchive-zip-perl{a} libb-hooks-endofscope-perl{a} libb-hooks-op-check-perl{a} libblas-dev{a} libblas3{a} libbrotli1{a} libbz2-dev{a} libcairo2{a} libclass-c3-perl{a} libclass-load-perl{a} libclass-load-xs-perl{a} libclone-perl{a} libcom-err2{a} libcurl3t64-gnutls{a} libcurl4t64{a} libdata-optlist-perl{a} libdatrie1{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libdevel-callchecker-perl{a} libdevel-globaldestruction-perl{a} libdevel-overloadinfo-perl{a} libdevel-stacktrace-perl{a} libdist-checkconflicts-perl{a} libdynaloader-functions-perl{a} libelf1t64{a} libencode-locale-perl{a} libeval-closure-perl{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfile-which-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgfortran-14-dev{a} libgfortran5{a} libglib2.0-0t64{a} libgraphite2-3{a} libgssapi-krb5-2{a} libharfbuzz0b{a} libhttp-date-perl{a} libhttp-message-perl{a} libice6{a} libicu-dev{a} libicu72{a} libio-html-perl{a} libjbig0{a} libjpeg-dev{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} libjs-bootstrap{a} libjs-highlight.js{a} libjs-jquery{a} libjs-jquery-datatables{a} libjs-mathjax{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblapack-dev{a} liblapack3{a} libldap-2.5-0{a} liblerc4{a} liblwp-mediatypes-perl{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libmodule-implementation-perl{a} libmodule-runtime-conflicts-perl{a} libmodule-runtime-perl{a} libmoose-perl{a} libmro-compat-perl{a} libnamespace-clean-perl{a} libncurses-dev{a} libncurses6{a} libnghttp2-14{a} libnghttp3-9{a} libngtcp2-16{a} libngtcp2-crypto-gnutls8{a} libpackage-deprecationmanager-perl{a} libpackage-stash-perl{a} libpackage-stash-xs-perl{a} libpango-1.0-0{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libpaper-utils{a} libpaper1{a} libparams-classify-perl{a} libparams-util-perl{a} libpcre2-16-0{a} libpcre2-32-0{a} libpcre2-dev{a} libpcre2-posix3{a} libpipeline1{a} libpixman-1-0{a} libpkgconf3{a} libpng-dev{a} libpng16-16t64{a} libpsl5t64{a} libreadline-dev{a} libreadline8t64{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsharpyuv0{a} libsm6{a} libssh2-1t64{a} libsub-exporter-perl{a} libsub-exporter-progressive-perl{a} libsub-identify-perl{a} libsub-install-perl{a} libsub-name-perl{a} libswitch-perl{a} libtcl8.6{a} libthai-data{a} libthai0{a} libtiff6{a} libtimedate-perl{a} libtirpc-common{a} libtirpc-dev{a} libtirpc3t64{a} libtk8.6{a} libtool{a} libtry-tiny-perl{a} libuchardet0{a} liburi-perl{a} libvariable-magic-perl{a} libwebp7{a} libwww-curl-perl{a} libwww-curl-simple-perl{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb-render0{a} libxcb-shm0{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxft2{a} libxml2{a} libxmuu1{a} libxrender1{a} libxss1{a} libxt6t64{a} m4{a} man-db{a} node-normalize.css{a} openssl{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} r-base-core{a} r-base-dev{a} r-bioc-biocgenerics{a} r-bioc-s4vectors{a} r-cran-commonmark{a} r-cran-dbi{a} r-cran-evaluate{a} r-cran-highr{a} r-cran-knitr{a} r-cran-markdown{a} r-cran-xfun{a} r-cran-yaml{a} readline-common{a} sensible-utils{a} tzdata{a} ucf{a} unzip{a} x11-common{a} xauth{a} xdg-utils{a} zip{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: bzip2-doc cme curl devscripts git-buildpackage javascript-common krb5-locales libarchive-cpio-perl libclass-c3-xs-perl libdevel-lexalias-perl libdevel-partialdump-perl libfile-mimeinfo-perl libglib2.0-data libgpm2 libio-compress-brotli-perl libldap-common libltdl-dev libmail-sendmail-perl libnet-dbus-perl libpng-tools libsasl2-modules libx11-protocol-perl lynx node-highlight.js publicsuffix r-cran-bslib r-cran-codetools r-cran-covr r-cran-curl r-cran-digest r-cran-formatr r-cran-ggplot2 r-cran-gridsvg r-cran-htmlwidgets r-cran-jpeg r-cran-jsonlite r-cran-lattice r-cran-magick r-cran-mime r-cran-png r-cran-ragg r-cran-rcurl r-cran-remotes r-cran-renv r-cran-reticulate r-cran-rgl r-cran-rlang r-cran-rmarkdown r-cran-rstudioapi r-cran-runit r-cran-sass r-cran-svglite r-cran-testit r-cran-testthat r-cran-tibble r-cran-tikzdevice r-cran-tinytex r-cran-webshot r-cran-withr r-cran-xml2 r-doc-html r-recommended shared-mime-info wget x11-utils x11-xserver-utils xdg-user-dirs 0 packages upgraded, 203 newly installed, 0 to remove and 0 not upgraded. Need to get 119 MB of archives. After unpacking 382 MB will be used. The following packages have unmet dependencies: pbuilder-satisfydepends-dummy : Depends: r-bioc-biocgenerics (>= 0.51.2) but 0.50.0-2 is to be installed Depends: r-bioc-iranges (>= 2.37.1) which is a virtual package and is not provided by any available package Depends: r-bioc-genomeinfodb (>= 1.35.8) but it is not installable Depends: r-bioc-genomicranges (>= 1.55.2) which is a virtual package and is not provided by any available package Depends: r-bioc-annotationdbi but it is not installable Depends: r-bioc-xvector which is a virtual package and is not provided by any available package Depends: r-bioc-biostrings which is a virtual package and is not provided by any available package Depends: r-bioc-rtracklayer which is a virtual package and is not provided by any available package Depends: r-bioc-biocstyle but it is not installable Unable to resolve dependencies! Giving up... The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} ca-certificates{a} dctrl-tools{a} debhelper{a} dh-autoreconf{a} dh-r{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} fonts-glyphicons-halflings{a} fonts-mathjax{a} gettext{a} gettext-base{a} gfortran{a} gfortran-14{a} gfortran-14-i686-linux-gnu{a} gfortran-i686-linux-gnu{a} groff-base{a} icu-devtools{a} intltool-debian{a} libalgorithm-c3-perl{a} libarchive-zip-perl{a} libb-hooks-endofscope-perl{a} libb-hooks-op-check-perl{a} libblas-dev{a} libblas3{a} libbrotli1{a} libbz2-dev{a} libcairo2{a} libclass-c3-perl{a} libclass-load-perl{a} libclass-load-xs-perl{a} libclone-perl{a} libcom-err2{a} libcurl3t64-gnutls{a} libcurl4t64{a} libdata-optlist-perl{a} libdatrie1{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libdevel-callchecker-perl{a} libdevel-globaldestruction-perl{a} libdevel-overloadinfo-perl{a} libdevel-stacktrace-perl{a} libdist-checkconflicts-perl{a} libdynaloader-functions-perl{a} libelf1t64{a} libencode-locale-perl{a} libeval-closure-perl{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfile-which-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgfortran-14-dev{a} libgfortran5{a} libglib2.0-0t64{a} libgraphite2-3{a} libgssapi-krb5-2{a} libharfbuzz0b{a} libhttp-date-perl{a} libhttp-message-perl{a} libice6{a} libicu-dev{a} libicu72{a} libio-html-perl{a} libjbig0{a} libjpeg-dev{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} libjs-bootstrap{a} libjs-highlight.js{a} libjs-jquery{a} libjs-jquery-datatables{a} libjs-mathjax{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblapack-dev{a} liblapack3{a} libldap-2.5-0{a} liblerc4{a} liblwp-mediatypes-perl{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libmodule-implementation-perl{a} libmodule-runtime-conflicts-perl{a} libmodule-runtime-perl{a} libmoose-perl{a} libmro-compat-perl{a} libnamespace-clean-perl{a} libncurses-dev{a} libncurses6{a} libnghttp2-14{a} libnghttp3-9{a} libngtcp2-16{a} libngtcp2-crypto-gnutls8{a} libpackage-deprecationmanager-perl{a} libpackage-stash-perl{a} libpackage-stash-xs-perl{a} libpango-1.0-0{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libpaper-utils{a} libpaper1{a} libparams-classify-perl{a} libparams-util-perl{a} libpcre2-16-0{a} libpcre2-32-0{a} libpcre2-dev{a} libpcre2-posix3{a} libpipeline1{a} libpixman-1-0{a} libpkgconf3{a} libpng-dev{a} libpng16-16t64{a} libpsl5t64{a} libreadline-dev{a} libreadline8t64{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsharpyuv0{a} libsm6{a} libssh2-1t64{a} libsub-exporter-perl{a} libsub-exporter-progressive-perl{a} libsub-identify-perl{a} libsub-install-perl{a} libsub-name-perl{a} libswitch-perl{a} libtcl8.6{a} libthai-data{a} libthai0{a} libtiff6{a} libtimedate-perl{a} libtirpc-common{a} libtirpc-dev{a} libtirpc3t64{a} libtk8.6{a} libtool{a} libtry-tiny-perl{a} libuchardet0{a} liburi-perl{a} libvariable-magic-perl{a} libwebp7{a} libwww-curl-perl{a} libwww-curl-simple-perl{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb-render0{a} libxcb-shm0{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxft2{a} libxml2{a} libxmuu1{a} libxrender1{a} libxss1{a} libxt6t64{a} m4{a} man-db{a} node-normalize.css{a} openssl{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} r-base-core{a} r-base-dev{a} r-bioc-biocgenerics{a} r-bioc-s4vectors{a} r-cran-commonmark{a} r-cran-dbi{a} r-cran-evaluate{a} r-cran-highr{a} r-cran-knitr{a} r-cran-markdown{a} r-cran-xfun{a} r-cran-yaml{a} readline-common{a} sensible-utils{a} tzdata{a} ucf{a} unzip{a} x11-common{a} xauth{a} xdg-utils{a} zip{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: bzip2-doc cme curl devscripts git-buildpackage javascript-common krb5-locales libarchive-cpio-perl libclass-c3-xs-perl libdevel-lexalias-perl libdevel-partialdump-perl libfile-mimeinfo-perl libglib2.0-data libgpm2 libio-compress-brotli-perl libldap-common libltdl-dev libmail-sendmail-perl libnet-dbus-perl libpng-tools libsasl2-modules libx11-protocol-perl lynx node-highlight.js publicsuffix r-cran-bslib r-cran-codetools r-cran-covr r-cran-curl r-cran-digest r-cran-formatr r-cran-ggplot2 r-cran-gridsvg r-cran-htmlwidgets r-cran-jpeg r-cran-jsonlite r-cran-lattice r-cran-magick r-cran-mime r-cran-png r-cran-ragg r-cran-rcurl r-cran-remotes r-cran-renv r-cran-reticulate r-cran-rgl r-cran-rlang r-cran-rmarkdown r-cran-rstudioapi r-cran-runit r-cran-sass r-cran-svglite r-cran-testit r-cran-testthat r-cran-tibble r-cran-tikzdevice r-cran-tinytex r-cran-webshot r-cran-withr r-cran-xml2 r-doc-html r-recommended shared-mime-info wget x11-utils x11-xserver-utils xdg-user-dirs 0 packages upgraded, 203 newly installed, 0 to remove and 0 not upgraded. Need to get 119 MB of archives. After unpacking 382 MB will be used. Abort. E: pbuilder-satisfydepends failed. I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/44352 and its subdirectories r-bioc-genomicfeatures failed to build from source. Fri Nov 29 18:28:45 UTC 2024 W: No second build log, what happened? Compressing the 1st log... b1/build.log: 75.5% -- replaced with stdout Fri Nov 29 18:28:45 UTC 2024 W: Downloading the build dependencies failed Fri Nov 29 18:28:45 UTC 2024 W: Maybe there was a network problem, or the build dependencies are currently uninstallable; consider filing a bug in the last case. Fri Nov 29 18:28:45 UTC 2024 W: Network problems are automatically rescheduled after some hours. INSERT 0 1 INSERT 0 1 DELETE 1 [2024-11-29 18:28:46] INFO: Starting at 2024-11-29 18:28:46.360168 [2024-11-29 18:28:46] INFO: Generating the pages of 1 package(s) [2024-11-29 18:28:46] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/armhf/r-bioc-genomicfeatures_1.56.0+dfsg-1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/armhf/r-bioc-genomicfeatures_1.56.0+dfsg-1.diff.gz is missing [2024-11-29 18:28:46] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/i386/r-bioc-genomicfeatures_1.56.0+dfsg-1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/i386/r-bioc-genomicfeatures_1.56.0+dfsg-1.diff.gz is missing [2024-11-29 18:28:46] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/trixie/armhf/r-bioc-genomicfeatures_1.56.0+dfsg-1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/armhf/r-bioc-genomicfeatures_1.56.0+dfsg-1.diff.gz is missing [2024-11-29 18:28:46] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/trixie/i386/r-bioc-genomicfeatures_1.56.0+dfsg-1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/i386/r-bioc-genomicfeatures_1.56.0+dfsg-1.diff.gz is missing [2024-11-29 18:28:47] CRITICAL: https://tests.reproducible-builds.org/debian/experimental/i386/r-bioc-genomicfeatures didn't produce a buildlog, even though it has been built. [2024-11-29 18:28:47] INFO: Finished at 2024-11-29 18:28:47.038462, took: 0:00:00.678301 Fri Nov 29 18:28:47 UTC 2024 - successfully updated the database and updated https://tests.reproducible-builds.org/debian/rb-pkg/experimental/i386/r-bioc-genomicfeatures.html Starting cleanup. /var/lib/jenkins/userContent/reproducible/debian/rbuild/experimental/i386/r-bioc-genomicfeatures_1.58.0+dfsg-1.rbuild.log: 72.0% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/rbuild/experimental/i386/r-bioc-genomicfeatures_1.58.0+dfsg-1.rbuild.log.gz [2024-11-29 18:28:47] INFO: Starting at 2024-11-29 18:28:47.418828 [2024-11-29 18:28:47] INFO: Generating the pages of 1 package(s) [2024-11-29 18:28:47] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/armhf/r-bioc-genomicfeatures_1.56.0+dfsg-1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/armhf/r-bioc-genomicfeatures_1.56.0+dfsg-1.diff.gz is missing [2024-11-29 18:28:47] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/i386/r-bioc-genomicfeatures_1.56.0+dfsg-1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/i386/r-bioc-genomicfeatures_1.56.0+dfsg-1.diff.gz is missing [2024-11-29 18:28:47] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/trixie/armhf/r-bioc-genomicfeatures_1.56.0+dfsg-1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/armhf/r-bioc-genomicfeatures_1.56.0+dfsg-1.diff.gz is missing [2024-11-29 18:28:47] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/trixie/i386/r-bioc-genomicfeatures_1.56.0+dfsg-1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/i386/r-bioc-genomicfeatures_1.56.0+dfsg-1.diff.gz is missing [2024-11-29 18:28:48] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/experimental/i386/r-bioc-genomicfeatures_1.58.0+dfsg-1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/experimental/i386/r-bioc-genomicfeatures_1.58.0+dfsg-1.diff.gz is missing [2024-11-29 18:28:48] INFO: Finished at 2024-11-29 18:28:48.090395, took: 0:00:00.671574 All cleanup done. Fri Nov 29 18:28:48 UTC 2024 - total duration: 0h 0m 28s. Fri Nov 29 18:28:48 UTC 2024 - reproducible_build.sh stopped running as /tmp/jenkins-script-nUu8aPBQ, removing. Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 30.545s CPU time consumed: 4.824s