Running as unit: rb-build-i386_3-51298.service ==================================================================================== Wed Jan 22 23:33:27 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job reproducible_builder_i386_3) on jenkins, called using "ionos2-i386 ionos16-i386" as arguments. Wed Jan 22 23:33:27 UTC 2025 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-g5FTaObT" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Wed Jan 22 23:33:27 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos2-i386.debian.net is marked as down. Wed Jan 22 23:33:27 UTC 2025 - checking via ssh if ionos2-i386.debian.net is up. removed '/tmp/read-only-fs-test-fYM9gD' Wed Jan 22 23:33:27 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos16-i386.debian.net is marked as down. Wed Jan 22 23:33:27 UTC 2025 - checking via ssh if ionos16-i386.debian.net is up. removed '/tmp/read-only-fs-test-0jE5ic' ok, let's check if r-bioc-rtracklayer is building anywhere yet… ok, r-bioc-rtracklayer is not building anywhere… UPDATE 1 ============================================================================= Initialising reproducibly build of r-bioc-rtracklayer in trixie on i386 on jenkins now. 1st build will be done on ionos2-i386.debian.net. 2nd build will be done on ionos16-i386.debian.net. ============================================================================= Wed Jan 22 23:33:47 UTC 2025 I: starting to build r-bioc-rtracklayer/trixie/i386 on jenkins on '2025-01-22 23:33' Wed Jan 22 23:33:47 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/i386_3/51298/console.log 1737588827 i386 trixie r-bioc-rtracklayer Wed Jan 22 23:33:47 UTC 2025 I: Downloading source for trixie/r-bioc-rtracklayer=1.66.0-2 --2025-01-22 23:33:47-- http://deb.debian.org/debian/pool/main/r/r-bioc-rtracklayer/r-bioc-rtracklayer_1.66.0-2.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2459 (2.4K) [text/prs.lines.tag] Saving to: ‘r-bioc-rtracklayer_1.66.0-2.dsc’ 0K .. 100% 398M=0s 2025-01-22 23:33:47 (398 MB/s) - ‘r-bioc-rtracklayer_1.66.0-2.dsc’ saved [2459/2459] --2025-01-22 23:33:47-- http://deb.debian.org/debian/pool/main/r/r-bioc-rtracklayer/r-bioc-rtracklayer_1.66.0-2.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2459 (2.4K) [text/prs.lines.tag] Saving to: ‘r-bioc-rtracklayer_1.66.0-2.dsc’ 0K .. 100% 398M=0s 2025-01-22 23:33:47 (398 MB/s) - ‘r-bioc-rtracklayer_1.66.0-2.dsc’ saved [2459/2459] Wed Jan 22 23:33:47 UTC 2025 I: r-bioc-rtracklayer_1.66.0-2.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: r-bioc-rtracklayer Binary: r-bioc-rtracklayer Architecture: any Version: 1.66.0-2 Maintainer: Debian R Packages Maintainers Uploaders: Andreas Tille , Charles Plessy Homepage: https://bioconductor.org/packages/rtracklayer/ Standards-Version: 4.7.0 Vcs-Browser: https://salsa.debian.org/r-pkg-team/r-bioc-rtracklayer Vcs-Git: https://salsa.debian.org/r-pkg-team/r-bioc-rtracklayer.git Testsuite: autopkgtest-pkg-r Build-Depends: debhelper-compat (= 13), dh-r, r-base-dev, r-bioc-genomicranges, r-cran-xml, r-bioc-biocgenerics, r-bioc-s4vectors, r-bioc-iranges, r-bioc-xvector, r-bioc-genomeinfodb, r-bioc-biostrings, r-bioc-zlibbioc, r-cran-curl, r-cran-httr, r-bioc-rsamtools, r-bioc-genomicalignments, r-bioc-biocio, r-cran-restfulr, architecture-is-64-bit, libcurl4-openssl-dev Package-List: r-bioc-rtracklayer deb gnu-r optional arch=any Checksums-Sha1: 6e2bca9b4a319b288dcdd6c611171a974537c6d4 4112666 r-bioc-rtracklayer_1.66.0.orig.tar.gz 81928c4dcc1182b64ab0df5a78a771ab021d7027 27524 r-bioc-rtracklayer_1.66.0-2.debian.tar.xz Checksums-Sha256: 6f35a3465ecd67f1b9e4904a064ea533b7ec6d2509d467e9520336a87a0e093e 4112666 r-bioc-rtracklayer_1.66.0.orig.tar.gz c69f9e10497b3b5b927390e7430820359c0e45c9cef65907343fd84bb008e6df 27524 r-bioc-rtracklayer_1.66.0-2.debian.tar.xz Files: a104b15f928583554639289984edec35 4112666 r-bioc-rtracklayer_1.66.0.orig.tar.gz 9b3965f0d9ad23acb8ad2662105082d5 27524 r-bioc-rtracklayer_1.66.0-2.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJGBAEBCgAwFiEEck1gkzcRPHEFUNdHPCZ2P2xn5uIFAmeFIfESHGNydXNvZUBk ZWJpYW4ub3JnAAoJEDwmdj9sZ+bigMAQAKF0hPJ/L5y/xUunXB+PZkdDDHjBZkfU PjRxPZY9F3WpV+DmxrglV34GPvHDpcv7+ruW444M4A79WwwqqjRJhPq72MbN9R0M 2vMK1y9ddxddORBVDsIu2oH9ci7WS24jBlQQIgOtKz/MdknEDkJuN8yHVlxX/lua x9YlD+698XnIicF9TEG2jopASPsE72IRJJyG23A1JNwBly+Oyt09xmhisHrZDOpw CACTDTmw+G94ivNaOcfy/L3vc4SkL498ud8Gwza+kZHNrW4iqy0yJn1GZwXVprr8 Tj9jHvfw5VpTwwl6aFzKTb0co8y4ZlbQGkTzcPz20BrIaAi4k+C7TzV1/quTaY2N 6Xbq55dQP/buMgOYscHRrcK66HitLKGLNes50vgcnqeTckmD9fhrZsgh3VKlhha9 E6YE5dtLU54G5ssvWXqMndM14wH1PzQckMc2Ph/MuMEamAKtjhPZSTneQ5+ompn/ bY4tf9KV3F1xgFPHwWoBXAqMbY7qBPOMnl4+5Z9ZmoaGTALdwidqtwrLxnd9CGlz Q4iVSDxfHwhz2oEn1Ga4gXYoGknNyNjbxCl53Qba2IC1oA5ITIPJJ5DtRF+d/DOA StEgW0+pwEdGfD0TcAAkGqzxdDYVGThL2GVrfICCj/bgZtKOj3lbrzu1QKVYisf+ 6lg4P8mLyLej =gj2E -----END PGP SIGNATURE----- Wed Jan 22 23:33:47 UTC 2025 I: Checking whether the package is not for us Wed Jan 22 23:33:47 UTC 2025 I: Starting 1st build on remote node ionos2-i386.debian.net. Wed Jan 22 23:33:47 UTC 2025 I: Preparing to do remote build '1' on ionos2-i386.debian.net. Wed Jan 22 23:33:47 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos2-i386.debian.net is marked as down. Wed Jan 22 23:33:47 UTC 2025 - checking via ssh if ionos2-i386.debian.net is up. removed '/tmp/read-only-fs-test-3MOuB8' ==================================================================================== Wed Jan 22 23:33:48 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on ionos2-i386, called using "1 r-bioc-rtracklayer trixie /srv/reproducible-results/rbuild-debian/r-b-build.KBuEJLLE 1.66.0-2" as arguments. Wed Jan 22 23:33:48 UTC 2025 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-tK71ff2K" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Wed Jan 22 23:33:48 UTC 2025 I: Downloading source for trixie/r-bioc-rtracklayer=1.66.0-2 Reading package lists... NOTICE: 'r-bioc-rtracklayer' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/r-pkg-team/r-bioc-rtracklayer.git Please use: git clone https://salsa.debian.org/r-pkg-team/r-bioc-rtracklayer.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 4143 kB of source archives. Get:1 http://deb.debian.org/debian trixie/main r-bioc-rtracklayer 1.66.0-2 (dsc) [2459 B] Get:2 http://deb.debian.org/debian trixie/main r-bioc-rtracklayer 1.66.0-2 (tar) [4113 kB] Get:3 http://deb.debian.org/debian trixie/main r-bioc-rtracklayer 1.66.0-2 (diff) [27.5 kB] Fetched 4143 kB in 0s (35.8 MB/s) Download complete and in download only mode Reading package lists... NOTICE: 'r-bioc-rtracklayer' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/r-pkg-team/r-bioc-rtracklayer.git Please use: git clone https://salsa.debian.org/r-pkg-team/r-bioc-rtracklayer.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 4143 kB of source archives. Get:1 http://deb.debian.org/debian trixie/main r-bioc-rtracklayer 1.66.0-2 (dsc) [2459 B] Get:2 http://deb.debian.org/debian trixie/main r-bioc-rtracklayer 1.66.0-2 (tar) [4113 kB] Get:3 http://deb.debian.org/debian trixie/main r-bioc-rtracklayer 1.66.0-2 (diff) [27.5 kB] Fetched 4143 kB in 0s (35.8 MB/s) Download complete and in download only mode ============================================================================= Building r-bioc-rtracklayer in trixie on i386 on ionos2-i386 now. Date: Thu Jan 23 00:33:48 CET 2025 Date UTC: Wed Jan 22 23:33:48 UTC 2025 ============================================================================= W: /root/.pbuilderrc does not exist I: Logging to b1/build.log I: pbuilder: network access will be disabled during build I: Current time: Wed Jan 22 11:33:49 -12 2025 I: pbuilder-time-stamp: 1737588829 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-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-rtracklayer_1.66.0-2.dsc] I: copying [./r-bioc-rtracklayer_1.66.0.orig.tar.gz] I: copying [./r-bioc-rtracklayer_1.66.0-2.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./r-bioc-rtracklayer_1.66.0-2.dsc: unsupported subcommand dpkg-source: info: extracting r-bioc-rtracklayer in r-bioc-rtracklayer-1.66.0 dpkg-source: info: unpacking r-bioc-rtracklayer_1.66.0.orig.tar.gz dpkg-source: info: unpacking r-bioc-rtracklayer_1.66.0-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying delete_configure.patch 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/5379/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=11 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='i386' IFS=' ' INVOCATION_ID='1f77067db2c04b0ca0c2b7494232f7e7' 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='5379' 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.KBuEJLLE/pbuilderrc_CXJe --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.KBuEJLLE/b1 --logfile b1/build.log r-bioc-rtracklayer_1.66.0-2.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://46.16.76.132:3128' I: uname -a Linux ionos2-i386 6.1.0-30-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.124-1 (2025-01-12) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin I: user script /srv/workspace/pbuilder/5379/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-genomicranges, r-cran-xml, r-bioc-biocgenerics, r-bioc-s4vectors, r-bioc-iranges, r-bioc-xvector, r-bioc-genomeinfodb, r-bioc-biostrings, r-bioc-zlibbioc, r-cran-curl, r-cran-httr, r-bioc-rsamtools, r-bioc-genomicalignments, r-bioc-biocio, r-cran-restfulr, architecture-is-64-bit, libcurl4-openssl-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19842 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-genomicranges; however: Package r-bioc-genomicranges is not installed. pbuilder-satisfydepends-dummy depends on r-cran-xml; however: Package r-cran-xml is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-biocgenerics; 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; however: Package r-bioc-iranges 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-genomeinfodb; however: Package r-bioc-genomeinfodb 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-zlibbioc; however: Package r-bioc-zlibbioc is not installed. pbuilder-satisfydepends-dummy depends on r-cran-curl; however: Package r-cran-curl is not installed. pbuilder-satisfydepends-dummy depends on r-cran-httr; however: Package r-cran-httr is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-rsamtools; however: Package r-bioc-rsamtools is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-genomicalignments; however: Package r-bioc-genomicalignments is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-biocio; however: Package r-bioc-biocio is not installed. pbuilder-satisfydepends-dummy depends on r-cran-restfulr; however: Package r-cran-restfulr is not installed. pbuilder-satisfydepends-dummy depends on architecture-is-64-bit; however: Package architecture-is-64-bit is not installed. pbuilder-satisfydepends-dummy depends on libcurl4-openssl-dev; however: Package libcurl4-openssl-dev 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} comerr-dev{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} 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} krb5-multidev{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} libbrotli-dev{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} libcurl4-openssl-dev{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} libevent-2.1-7t64{a} libexpat1{a} libffi8{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} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgnutls30t64{a} libgraphite2-3{a} libgssapi-krb5-2{a} libgssrpc4t64{a} libharfbuzz0b{a} libhttp-date-perl{a} libhttp-message-perl{a} libice6{a} libicu-dev{a} libicu72{a} libidn2-0{a} libidn2-dev{a} libio-html-perl{a} libjbig0{a} libjpeg-dev{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} libk5crypto3{a} libkadm5clnt-mit12{a} libkadm5srv-mit12{a} libkdb5-10t64{a} libkeyutils1{a} libkrb5-3{a} libkrb5-dev{a} libkrb5support0{a} liblapack-dev{a} liblapack3{a} libldap-dev{a} libldap2{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} libnghttp2-dev{a} libnghttp3-9{a} libngtcp2-16{a} libngtcp2-crypto-gnutls8{a} libp11-kit-dev{a} libp11-kit0{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} libpaper2{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} libproc2-0{a} libpsl-dev{a} libpsl5t64{a} libreadline-dev{a} libreadline8t64{a} librtmp-dev{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsharpyuv0{a} libsm6{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{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} libtasn1-6{a} libtasn1-6-dev{a} libtcl8.6{a} libtext-charwidth-perl{a} libtext-wrapi18n-perl{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} libunbound8{a} libunistring5{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} libzstd-dev{a} m4{a} man-db{a} nettle-dev{a} openssl{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} procps{a} r-base-core{a} r-base-dev{a} r-bioc-biocgenerics{a} r-bioc-biocio{a} r-bioc-s4vectors{a} r-bioc-zlibbioc{a} r-cran-askpass{a} r-cran-bitops{a} r-cran-curl{a} r-cran-httr{a} r-cran-jsonlite{a} r-cran-mime{a} r-cran-openssl{a} r-cran-r6{a} r-cran-rcurl{a} r-cran-restfulr{a} r-cran-rjson{a} r-cran-sys{a} r-cran-xml{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 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 libtasn1-doc libx11-protocol-perl linux-sysctl-defaults lynx psmisc publicsuffix r-cran-covr r-cran-digest r-cran-httpuv r-cran-jpeg r-cran-knitr r-cran-later r-cran-png r-cran-r.rsp r-cran-readr r-cran-rmarkdown r-cran-runit r-cran-sf r-cran-sodium r-cran-spelling r-cran-testthat r-cran-vctrs r-cran-webutils r-cran-xml2 r-doc-html r-recommended shared-mime-info wget x11-utils x11-xserver-utils xdg-user-dirs 0 packages upgraded, 240 newly installed, 0 to remove and 0 not upgraded. Need to get 127 MB of archives. After unpacking 381 MB will be used. The following packages have unmet dependencies: pbuilder-satisfydepends-dummy : Depends: r-bioc-genomicranges which is a virtual package and is not provided by any available package Depends: r-bioc-iranges which is a virtual package and is not provided by any available package Depends: r-bioc-xvector which is a virtual package and is not provided by any available package Depends: r-bioc-genomeinfodb but it is not installable Depends: r-bioc-biostrings which is a virtual package and is not provided by any available package Depends: r-bioc-rsamtools which is a virtual package and is not provided by any available package Depends: r-bioc-genomicalignments which is a virtual package and is not provided by any available package Depends: architecture-is-64-bit which is a virtual package and is not provided by any available package 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} comerr-dev{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} 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} krb5-multidev{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} libbrotli-dev{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} libcurl4-openssl-dev{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} libevent-2.1-7t64{a} libexpat1{a} libffi8{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} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgnutls30t64{a} libgraphite2-3{a} libgssapi-krb5-2{a} libgssrpc4t64{a} libharfbuzz0b{a} libhttp-date-perl{a} libhttp-message-perl{a} libice6{a} libicu-dev{a} libicu72{a} libidn2-0{a} libidn2-dev{a} libio-html-perl{a} libjbig0{a} libjpeg-dev{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} libk5crypto3{a} libkadm5clnt-mit12{a} libkadm5srv-mit12{a} libkdb5-10t64{a} libkeyutils1{a} libkrb5-3{a} libkrb5-dev{a} libkrb5support0{a} liblapack-dev{a} liblapack3{a} libldap-dev{a} libldap2{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} libnghttp2-dev{a} libnghttp3-9{a} libngtcp2-16{a} libngtcp2-crypto-gnutls8{a} libp11-kit-dev{a} libp11-kit0{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} libpaper2{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} libproc2-0{a} libpsl-dev{a} libpsl5t64{a} libreadline-dev{a} libreadline8t64{a} librtmp-dev{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsharpyuv0{a} libsm6{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{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} libtasn1-6{a} libtasn1-6-dev{a} libtcl8.6{a} libtext-charwidth-perl{a} libtext-wrapi18n-perl{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} libunbound8{a} libunistring5{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} libzstd-dev{a} m4{a} man-db{a} nettle-dev{a} openssl{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} procps{a} r-base-core{a} r-base-dev{a} r-bioc-biocgenerics{a} r-bioc-biocio{a} r-bioc-s4vectors{a} r-bioc-zlibbioc{a} r-cran-askpass{a} r-cran-bitops{a} r-cran-curl{a} r-cran-httr{a} r-cran-jsonlite{a} r-cran-mime{a} r-cran-openssl{a} r-cran-r6{a} r-cran-rcurl{a} r-cran-restfulr{a} r-cran-rjson{a} r-cran-sys{a} r-cran-xml{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 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 libtasn1-doc libx11-protocol-perl linux-sysctl-defaults lynx psmisc publicsuffix r-cran-covr r-cran-digest r-cran-httpuv r-cran-jpeg r-cran-knitr r-cran-later r-cran-png r-cran-r.rsp r-cran-readr r-cran-rmarkdown r-cran-runit r-cran-sf r-cran-sodium r-cran-spelling r-cran-testthat r-cran-vctrs r-cran-webutils r-cran-xml2 r-doc-html r-recommended shared-mime-info wget x11-utils x11-xserver-utils xdg-user-dirs 0 packages upgraded, 240 newly installed, 0 to remove and 0 not upgraded. Need to get 127 MB of archives. After unpacking 381 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/5379 and its subdirectories Starting cleanup. All cleanup done. Wed Jan 22 23:34:07 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-tK71ff2K, removing. /srv/reproducible-results/rbuild-debian/r-b-build.KBuEJLLE: total 16 drwxr-xr-x 2 jenkins jenkins 4096 Jan 22 23:34 b1 drwxr-xr-x 2 jenkins jenkins 4096 Jan 22 23:33 b2 -rw-r--r-- 1 jenkins jenkins 2459 Jan 13 14:27 r-bioc-rtracklayer_1.66.0-2.dsc -rw------- 1 jenkins jenkins 3632 Jan 22 23:33 rbuildlog.KcCDWVp /srv/reproducible-results/rbuild-debian/r-b-build.KBuEJLLE/b1: total 20 -rw-r--r-- 1 jenkins jenkins 19086 Jan 22 23:34 build.log /srv/reproducible-results/rbuild-debian/r-b-build.KBuEJLLE/b2: total 0 Wed Jan 22 23:34:08 UTC 2025 I: Deleting $TMPDIR on ionos2-i386.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Wed Jan 22 11:33:49 -12 2025 I: pbuilder-time-stamp: 1737588829 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-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-rtracklayer_1.66.0-2.dsc] I: copying [./r-bioc-rtracklayer_1.66.0.orig.tar.gz] I: copying [./r-bioc-rtracklayer_1.66.0-2.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./r-bioc-rtracklayer_1.66.0-2.dsc: unsupported subcommand dpkg-source: info: extracting r-bioc-rtracklayer in r-bioc-rtracklayer-1.66.0 dpkg-source: info: unpacking r-bioc-rtracklayer_1.66.0.orig.tar.gz dpkg-source: info: unpacking r-bioc-rtracklayer_1.66.0-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying delete_configure.patch 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/5379/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=11 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='i386' IFS=' ' INVOCATION_ID='1f77067db2c04b0ca0c2b7494232f7e7' 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='5379' 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.KBuEJLLE/pbuilderrc_CXJe --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.KBuEJLLE/b1 --logfile b1/build.log r-bioc-rtracklayer_1.66.0-2.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://46.16.76.132:3128' I: uname -a Linux ionos2-i386 6.1.0-30-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.124-1 (2025-01-12) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin I: user script /srv/workspace/pbuilder/5379/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-genomicranges, r-cran-xml, r-bioc-biocgenerics, r-bioc-s4vectors, r-bioc-iranges, r-bioc-xvector, r-bioc-genomeinfodb, r-bioc-biostrings, r-bioc-zlibbioc, r-cran-curl, r-cran-httr, r-bioc-rsamtools, r-bioc-genomicalignments, r-bioc-biocio, r-cran-restfulr, architecture-is-64-bit, libcurl4-openssl-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19842 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-genomicranges; however: Package r-bioc-genomicranges is not installed. pbuilder-satisfydepends-dummy depends on r-cran-xml; however: Package r-cran-xml is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-biocgenerics; 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; however: Package r-bioc-iranges 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-genomeinfodb; however: Package r-bioc-genomeinfodb 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-zlibbioc; however: Package r-bioc-zlibbioc is not installed. pbuilder-satisfydepends-dummy depends on r-cran-curl; however: Package r-cran-curl is not installed. pbuilder-satisfydepends-dummy depends on r-cran-httr; however: Package r-cran-httr is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-rsamtools; however: Package r-bioc-rsamtools is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-genomicalignments; however: Package r-bioc-genomicalignments is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-biocio; however: Package r-bioc-biocio is not installed. pbuilder-satisfydepends-dummy depends on r-cran-restfulr; however: Package r-cran-restfulr is not installed. pbuilder-satisfydepends-dummy depends on architecture-is-64-bit; however: Package architecture-is-64-bit is not installed. pbuilder-satisfydepends-dummy depends on libcurl4-openssl-dev; however: Package libcurl4-openssl-dev 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} comerr-dev{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} 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} krb5-multidev{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} libbrotli-dev{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} libcurl4-openssl-dev{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} libevent-2.1-7t64{a} libexpat1{a} libffi8{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} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgnutls30t64{a} libgraphite2-3{a} libgssapi-krb5-2{a} libgssrpc4t64{a} libharfbuzz0b{a} libhttp-date-perl{a} libhttp-message-perl{a} libice6{a} libicu-dev{a} libicu72{a} libidn2-0{a} libidn2-dev{a} libio-html-perl{a} libjbig0{a} libjpeg-dev{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} libk5crypto3{a} libkadm5clnt-mit12{a} libkadm5srv-mit12{a} libkdb5-10t64{a} libkeyutils1{a} libkrb5-3{a} libkrb5-dev{a} libkrb5support0{a} liblapack-dev{a} liblapack3{a} libldap-dev{a} libldap2{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} libnghttp2-dev{a} libnghttp3-9{a} libngtcp2-16{a} libngtcp2-crypto-gnutls8{a} libp11-kit-dev{a} libp11-kit0{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} libpaper2{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} libproc2-0{a} libpsl-dev{a} libpsl5t64{a} libreadline-dev{a} libreadline8t64{a} librtmp-dev{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsharpyuv0{a} libsm6{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{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} libtasn1-6{a} libtasn1-6-dev{a} libtcl8.6{a} libtext-charwidth-perl{a} libtext-wrapi18n-perl{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} libunbound8{a} libunistring5{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} libzstd-dev{a} m4{a} man-db{a} nettle-dev{a} openssl{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} procps{a} r-base-core{a} r-base-dev{a} r-bioc-biocgenerics{a} r-bioc-biocio{a} r-bioc-s4vectors{a} r-bioc-zlibbioc{a} r-cran-askpass{a} r-cran-bitops{a} r-cran-curl{a} r-cran-httr{a} r-cran-jsonlite{a} r-cran-mime{a} r-cran-openssl{a} r-cran-r6{a} r-cran-rcurl{a} r-cran-restfulr{a} r-cran-rjson{a} r-cran-sys{a} r-cran-xml{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 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 libtasn1-doc libx11-protocol-perl linux-sysctl-defaults lynx psmisc publicsuffix r-cran-covr r-cran-digest r-cran-httpuv r-cran-jpeg r-cran-knitr r-cran-later r-cran-png r-cran-r.rsp r-cran-readr r-cran-rmarkdown r-cran-runit r-cran-sf r-cran-sodium r-cran-spelling r-cran-testthat r-cran-vctrs r-cran-webutils r-cran-xml2 r-doc-html r-recommended shared-mime-info wget x11-utils x11-xserver-utils xdg-user-dirs 0 packages upgraded, 240 newly installed, 0 to remove and 0 not upgraded. Need to get 127 MB of archives. After unpacking 381 MB will be used. The following packages have unmet dependencies: pbuilder-satisfydepends-dummy : Depends: r-bioc-genomicranges which is a virtual package and is not provided by any available package Depends: r-bioc-iranges which is a virtual package and is not provided by any available package Depends: r-bioc-xvector which is a virtual package and is not provided by any available package Depends: r-bioc-genomeinfodb but it is not installable Depends: r-bioc-biostrings which is a virtual package and is not provided by any available package Depends: r-bioc-rsamtools which is a virtual package and is not provided by any available package Depends: r-bioc-genomicalignments which is a virtual package and is not provided by any available package Depends: architecture-is-64-bit which is a virtual package and is not provided by any available package 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} comerr-dev{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} 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} krb5-multidev{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} libbrotli-dev{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} libcurl4-openssl-dev{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} libevent-2.1-7t64{a} libexpat1{a} libffi8{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} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgnutls30t64{a} libgraphite2-3{a} libgssapi-krb5-2{a} libgssrpc4t64{a} libharfbuzz0b{a} libhttp-date-perl{a} libhttp-message-perl{a} libice6{a} libicu-dev{a} libicu72{a} libidn2-0{a} libidn2-dev{a} libio-html-perl{a} libjbig0{a} libjpeg-dev{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} libk5crypto3{a} libkadm5clnt-mit12{a} libkadm5srv-mit12{a} libkdb5-10t64{a} libkeyutils1{a} libkrb5-3{a} libkrb5-dev{a} libkrb5support0{a} liblapack-dev{a} liblapack3{a} libldap-dev{a} libldap2{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} libnghttp2-dev{a} libnghttp3-9{a} libngtcp2-16{a} libngtcp2-crypto-gnutls8{a} libp11-kit-dev{a} libp11-kit0{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} libpaper2{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} libproc2-0{a} libpsl-dev{a} libpsl5t64{a} libreadline-dev{a} libreadline8t64{a} librtmp-dev{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsharpyuv0{a} libsm6{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{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} libtasn1-6{a} libtasn1-6-dev{a} libtcl8.6{a} libtext-charwidth-perl{a} libtext-wrapi18n-perl{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} libunbound8{a} libunistring5{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} libzstd-dev{a} m4{a} man-db{a} nettle-dev{a} openssl{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} procps{a} r-base-core{a} r-base-dev{a} r-bioc-biocgenerics{a} r-bioc-biocio{a} r-bioc-s4vectors{a} r-bioc-zlibbioc{a} r-cran-askpass{a} r-cran-bitops{a} r-cran-curl{a} r-cran-httr{a} r-cran-jsonlite{a} r-cran-mime{a} r-cran-openssl{a} r-cran-r6{a} r-cran-rcurl{a} r-cran-restfulr{a} r-cran-rjson{a} r-cran-sys{a} r-cran-xml{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 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 libtasn1-doc libx11-protocol-perl linux-sysctl-defaults lynx psmisc publicsuffix r-cran-covr r-cran-digest r-cran-httpuv r-cran-jpeg r-cran-knitr r-cran-later r-cran-png r-cran-r.rsp r-cran-readr r-cran-rmarkdown r-cran-runit r-cran-sf r-cran-sodium r-cran-spelling r-cran-testthat r-cran-vctrs r-cran-webutils r-cran-xml2 r-doc-html r-recommended shared-mime-info wget x11-utils x11-xserver-utils xdg-user-dirs 0 packages upgraded, 240 newly installed, 0 to remove and 0 not upgraded. Need to get 127 MB of archives. After unpacking 381 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/5379 and its subdirectories r-bioc-rtracklayer failed to build from source. Wed Jan 22 23:34:08 UTC 2025 W: No second build log, what happened? Compressing the 1st log... b1/build.log: 76.6% -- replaced with stdout Wed Jan 22 23:34:08 UTC 2025 W: Downloading the build dependencies failed Wed Jan 22 23:34:08 UTC 2025 W: Maybe there was a network problem, or the build dependencies are currently uninstallable; consider filing a bug in the last case. Wed Jan 22 23:34:08 UTC 2025 W: Network problems are automatically rescheduled after some hours. INSERT 0 1 INSERT 0 1 DELETE 1 [2025-01-22 23:34:09] INFO: Starting at 2025-01-22 23:34:09.532837 [2025-01-22 23:34:09] INFO: Generating the pages of 1 package(s) [2025-01-22 23:34:09] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/armhf/r-bioc-rtracklayer_1.66.0-2.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/armhf/r-bioc-rtracklayer_1.66.0-2.diff.gz is missing [2025-01-22 23:34:09] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/i386/r-bioc-rtracklayer_1.66.0-2.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/i386/r-bioc-rtracklayer_1.66.0-2.diff.gz is missing [2025-01-22 23:34:10] CRITICAL: https://tests.reproducible-builds.org/debian/trixie/i386/r-bioc-rtracklayer didn't produce a buildlog, even though it has been built. [2025-01-22 23:34:10] INFO: Finished at 2025-01-22 23:34:10.239950, took: 0:00:00.707121 Wed Jan 22 23:34:10 UTC 2025 - successfully updated the database and updated https://tests.reproducible-builds.org/debian/rb-pkg/trixie/i386/r-bioc-rtracklayer.html Starting cleanup. /var/lib/jenkins/userContent/reproducible/debian/rbuild/trixie/i386/r-bioc-rtracklayer_1.66.0-2.rbuild.log: 72.9% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/rbuild/trixie/i386/r-bioc-rtracklayer_1.66.0-2.rbuild.log.gz [2025-01-22 23:34:10] INFO: Starting at 2025-01-22 23:34:10.639709 [2025-01-22 23:34:10] INFO: Generating the pages of 1 package(s) [2025-01-22 23:34:11] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/armhf/r-bioc-rtracklayer_1.66.0-2.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/armhf/r-bioc-rtracklayer_1.66.0-2.diff.gz is missing [2025-01-22 23:34:11] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/i386/r-bioc-rtracklayer_1.66.0-2.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/i386/r-bioc-rtracklayer_1.66.0-2.diff.gz is missing [2025-01-22 23:34:11] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/trixie/i386/r-bioc-rtracklayer_1.66.0-2.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/i386/r-bioc-rtracklayer_1.66.0-2.diff.gz is missing [2025-01-22 23:34:11] INFO: Finished at 2025-01-22 23:34:11.263766, took: 0:00:00.624063 All cleanup done. Wed Jan 22 23:34:11 UTC 2025 - total duration: 0h 0m 41s. Wed Jan 22 23:34:11 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-g5FTaObT, removing. Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 44.011s CPU time consumed: 5.268s