Running as unit: rb-build-i386_14-52523.service ==================================================================================== Mon Nov 25 09:01:48 UTC 2024 - running /srv/jenkins/bin/reproducible_build.sh (for job reproducible_builder_i386_14) on jenkins, called using "infom08-i386 infom07-i386" as arguments. Mon Nov 25 09:01:48 UTC 2024 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-iomGDaU6" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Mon Nov 25 09:01:48 UTC 2024 - checking /var/lib/jenkins/offline_nodes if infom08-i386.debian.net is marked as down. Mon Nov 25 09:01:48 UTC 2024 - checking via ssh if infom08-i386.debian.net is up. removed '/tmp/read-only-fs-test-fxBMtb' Mon Nov 25 09:01:49 UTC 2024 - checking /var/lib/jenkins/offline_nodes if infom07-i386.debian.net is marked as down. Mon Nov 25 09:01:49 UTC 2024 - checking via ssh if infom07-i386.debian.net is up. removed '/tmp/read-only-fs-test-Itm1Yk' ok, let's check if trinityrnaseq is building anywhere yet… ok, trinityrnaseq is not building anywhere… UPDATE 1 ============================================================================= Initialising reproducibly build of trinityrnaseq in bullseye on i386 on jenkins now. 1st build will be done on infom08-i386.debian.net. 2nd build will be done on infom07-i386.debian.net. ============================================================================= Mon Nov 25 09:01:59 UTC 2024 I: starting to build trinityrnaseq/bullseye/i386 on jenkins on '2024-11-25 09:01' Mon Nov 25 09:01:59 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/i386_14/52523/console.log 1732525319 i386 bullseye trinityrnaseq Mon Nov 25 09:01:59 UTC 2024 I: Downloading source for bullseye/trinityrnaseq=2.11.0+dfsg-6 --2024-11-25 09:02:00-- http://cdn-fastly.deb.debian.org/debian/pool/main/t/trinityrnaseq/trinityrnaseq_2.11.0%2bdfsg-6.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2637 (2.6K) [text/prs.lines.tag] Saving to: ‘trinityrnaseq_2.11.0+dfsg-6.dsc’ 0K .. 100% 308M=0s 2024-11-25 09:02:00 (308 MB/s) - ‘trinityrnaseq_2.11.0+dfsg-6.dsc’ saved [2637/2637] --2024-11-25 09:02:00-- http://cdn-fastly.deb.debian.org/debian/pool/main/t/trinityrnaseq/trinityrnaseq_2.11.0%2bdfsg-6.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2637 (2.6K) [text/prs.lines.tag] Saving to: ‘trinityrnaseq_2.11.0+dfsg-6.dsc’ 0K .. 100% 308M=0s 2024-11-25 09:02:00 (308 MB/s) - ‘trinityrnaseq_2.11.0+dfsg-6.dsc’ saved [2637/2637] Mon Nov 25 09:02:00 UTC 2024 I: trinityrnaseq_2.11.0+dfsg-6.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: trinityrnaseq Binary: trinityrnaseq, trinityrnaseq-examples Architecture: any all Version: 2.11.0+dfsg-6 Maintainer: Debian Med Packaging Team Uploaders: Michael R. Crusoe Homepage: https://trinityrnaseq.github.io/ Standards-Version: 4.5.1 Vcs-Browser: https://salsa.debian.org/med-team/trinityrnaseq Vcs-Git: https://salsa.debian.org/med-team/trinityrnaseq.git Testsuite: autopkgtest Testsuite-Triggers: r-cran-tidyverse Build-Depends: debhelper-compat (= 13), jellyfish, libjung-free-java, javahelper, libgetopt-java, default-jdk, parafly, libjs-jquery, jaligner, libhts-dev, bowtie2, salmon, zlib1g-dev, cmake, r-bioc-edger, r-bioc-deseq2, r-bioc-rots, r-cran-fastcluster, liburi-perl, r-cran-ape, r-bioc-ctc, r-cran-gplots, r-cran-readr, r-bioc-biobase, r-bioc-qvalue, r-bioc-goseq, r-bioc-tximport, python3-htseq, rna-star, picard-tools, gmap, hisat2, subread, kallisto, python3-hisat2, r-cran-argparse, r-bioc-dexseq, tabix Package-List: trinityrnaseq deb science optional arch=any trinityrnaseq-examples deb science optional arch=all Checksums-Sha1: 833cd913ce9c7f864a6fa240268225cd1d6bd04e 258759712 trinityrnaseq_2.11.0+dfsg.orig.tar.xz 796978d36bc7980943fb58528e8ebe9bb607b2e4 152172 trinityrnaseq_2.11.0+dfsg-6.debian.tar.xz Checksums-Sha256: 78a9de6063044c5880196d706ad23e8db437795df26eb0b521e386a4146356d0 258759712 trinityrnaseq_2.11.0+dfsg.orig.tar.xz fc9140f1bc855eb64c37f0b7eff876ee86858a1ccd30b0325089289a8f9b49c9 152172 trinityrnaseq_2.11.0+dfsg-6.debian.tar.xz Files: a877bd080145ccb922f3906dcd5e9efc 258759712 trinityrnaseq_2.11.0+dfsg.orig.tar.xz 7180988fa4cbd3d8b9f85ac8a1b0c702 152172 trinityrnaseq_2.11.0+dfsg-6.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEck1gkzcRPHEFUNdHPCZ2P2xn5uIFAmAG3CUACgkQPCZ2P2xn 5uKW4w/9EiW6QBzumWI3yJ1n/sQFsFf04JGCQBIETTv3pIjngorf1X9bn4077Agh MzDG0o5sahv4HdknqPy6+5HjvEGrNEXmal+AK9csE+12KLKmwwq3lSYI+a9sgdj1 tdHLebB45rOCG5rVLFzWgZoSLFFg1fXHVI1cNurhGT+FnPpYVO8L9Kld97yqyQyL nURKx6BpqYBmkLh5I/CyoBHi/s39DqEd9WV2BSWte6k8oVKmqiU92x/glRVyZn/m 7qhPtMgzN+ARJbvrhLPofOKRD57uE/vucsyZwbqD58Xg/K1jOyAdjYYgoKGA/kiL ROowY1rVHZlqmNfHjhIEBY/3MxNf5u983qe1kSMR1S4eVG5x2GODS9Si2N1z32Ik Q6PmMECKUj7uXTJdFBeKZnADrPx9EGWdHvNvMMYcRPfGZ4ofXL2ep1JQvGsBIdl+ e2G2sOyPDlhO47fYiGyuCNhm8h5DdZ/v0i2NmWxYe2oDMKuODvi/zeaY11SJ9uWn EIo4f/na6AmJaowsrzZtb6mDncxHvcQyE+zKeDuZJMKHNpzip64Arbet+og2sF5f grKwZHtPeZCpELr5+3f0obVBplvVGkAmWxb1XA9qn+VyD7F7/JAG2c+Ng7bOejdY Sn8DcJhC8IHAxSRG62j7tVHob7iiufZyp1lJunZ9YJ3PA5OSyMI= =wLnH -----END PGP SIGNATURE----- Mon Nov 25 09:02:00 UTC 2024 I: Checking whether the package is not for us Mon Nov 25 09:02:00 UTC 2024 I: Starting 1st build on remote node infom08-i386.debian.net. Mon Nov 25 09:02:00 UTC 2024 I: Preparing to do remote build '1' on infom08-i386.debian.net. Mon Nov 25 09:02:00 UTC 2024 - checking /var/lib/jenkins/offline_nodes if infom08-i386.debian.net is marked as down. Mon Nov 25 09:02:00 UTC 2024 - checking via ssh if infom08-i386.debian.net is up. removed '/tmp/read-only-fs-test-6pHgqa' ==================================================================================== Sun Dec 28 15:25:01 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on infom08-i386, called using "1 trinityrnaseq bullseye /srv/reproducible-results/rbuild-debian/r-b-build.30d5lYYF 2.11.0+dfsg-6" as arguments. Sun Dec 28 15:25:01 UTC 2025 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-mGoMnatj" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Sun Dec 28 15:25:01 UTC 2025 I: Downloading source for bullseye/trinityrnaseq=2.11.0+dfsg-6 Reading package lists... NOTICE: 'trinityrnaseq' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/trinityrnaseq.git Please use: git clone https://salsa.debian.org/med-team/trinityrnaseq.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 259 MB of source archives. Get:1 http://deb.debian.org/debian bullseye/main trinityrnaseq 2.11.0+dfsg-6 (dsc) [2637 B] Get:2 http://deb.debian.org/debian bullseye/main trinityrnaseq 2.11.0+dfsg-6 (tar) [259 MB] Get:3 http://deb.debian.org/debian bullseye/main trinityrnaseq 2.11.0+dfsg-6 (diff) [152 kB] Fetched 259 MB in 4s (63.4 MB/s) Download complete and in download only mode Reading package lists... NOTICE: 'trinityrnaseq' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/trinityrnaseq.git Please use: git clone https://salsa.debian.org/med-team/trinityrnaseq.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 259 MB of source archives. Get:1 http://deb.debian.org/debian bullseye/main trinityrnaseq 2.11.0+dfsg-6 (dsc) [2637 B] Get:2 http://deb.debian.org/debian bullseye/main trinityrnaseq 2.11.0+dfsg-6 (tar) [259 MB] Get:3 http://deb.debian.org/debian bullseye/main trinityrnaseq 2.11.0+dfsg-6 (diff) [152 kB] Fetched 259 MB in 4s (63.4 MB/s) Download complete and in download only mode ============================================================================= Building trinityrnaseq in bullseye on i386 on infom08-i386 now. Date: Sun Dec 28 15:25:05 UTC 2025 Date UTC: Sun Dec 28 15:25:05 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: Sun Dec 28 03:25:05 -12 2025 I: pbuilder-time-stamp: 1766935505 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-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 [trinityrnaseq_2.11.0+dfsg-6.dsc] I: copying [./trinityrnaseq_2.11.0+dfsg.orig.tar.xz] I: copying [./trinityrnaseq_2.11.0+dfsg-6.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.Dl2WNpya/trustedkeys.kbx': General error gpgv: Signature made Tue Jan 19 01:18:29 2021 -12 gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./trinityrnaseq_2.11.0+dfsg-6.dsc dpkg-source: info: extracting trinityrnaseq in trinityrnaseq-2.11.0+dfsg dpkg-source: info: unpacking trinityrnaseq_2.11.0+dfsg.orig.tar.xz dpkg-source: info: unpacking trinityrnaseq_2.11.0+dfsg-6.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying STAR_genomeSAindexNbases dpkg-source: info: applying butterfly dpkg-source: info: applying jellyfish-path dpkg-source: info: applying update-paths dpkg-source: info: applying collections15-to-4 dpkg-source: info: applying 0002-fix_istream_failure_call.patch dpkg-source: info: applying fix_system_paths dpkg-source: info: applying disable-version-check dpkg-source: info: applying adjust-trimmomatic-adapters-path dpkg-source: info: applying NeedlemanWunschGotohBanded.patch dpkg-source: info: applying python3 dpkg-source: info: applying unfix_num_of_cores dpkg-source: info: applying hardening dpkg-source: info: applying seqtk-trinity-hardening dpkg-source: info: applying skip_gatk_test dpkg-source: info: applying skip_tximportData_tests dpkg-source: info: applying submake dpkg-source: info: applying skip_blat dpkg-source: info: applying fix-gcc-10.patch dpkg-source: info: applying bamsifter_build dpkg-source: info: applying skip_DTU_STAR_test dpkg-source: info: applying strip_m64 I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/21678/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,-fixfilepath parallel=6 ' DISTRIBUTION='bullseye' HOME='/root' HOST_ARCH='i386' IFS=' ' INVOCATION_ID='78b16944ee274997a841fb92d1039063' 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='21678' 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.30d5lYYF/pbuilderrc_r0Hj --distribution bullseye --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.30d5lYYF/b1 --logfile b1/build.log trinityrnaseq_2.11.0+dfsg-6.dsc' SUDO_GID='111' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' I: uname -a Linux infom08-i386 6.11.5+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.11.5-1~bpo12+1 (2024-11-11) x86_64 GNU/Linux I: ls -l /bin total 5772 -rwxr-xr-x 1 root root 1367848 Mar 27 2022 bash -rwxr-xr-x 3 root root 38280 Jul 20 2020 bunzip2 -rwxr-xr-x 3 root root 38280 Jul 20 2020 bzcat lrwxrwxrwx 1 root root 6 Jul 20 2020 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Jul 20 2020 bzdiff lrwxrwxrwx 1 root root 6 Jul 20 2020 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Sep 4 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 20 2020 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Jul 20 2020 bzgrep -rwxr-xr-x 3 root root 38280 Jul 20 2020 bzip2 -rwxr-xr-x 1 root root 17768 Jul 20 2020 bzip2recover lrwxrwxrwx 1 root root 6 Jul 20 2020 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 20 2020 bzmore -rwxr-xr-x 1 root root 38824 Sep 22 2020 cat -rwxr-xr-x 1 root root 71624 Sep 22 2020 chgrp -rwxr-xr-x 1 root root 67528 Sep 22 2020 chmod -rwxr-xr-x 1 root root 75752 Sep 22 2020 chown -rwxr-xr-x 1 root root 157960 Sep 22 2020 cp -rwxr-xr-x 1 root root 128724 Dec 10 2020 dash -rwxr-xr-x 1 root root 124904 Sep 22 2020 date -rwxr-xr-x 1 root root 92172 Sep 22 2020 dd -rwxr-xr-x 1 root root 100752 Sep 22 2020 df -rwxr-xr-x 1 root root 153964 Sep 22 2020 dir -rwxr-xr-x 1 root root 83644 Mar 27 2024 dmesg lrwxrwxrwx 1 root root 8 Nov 6 2019 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Nov 6 2019 domainname -> hostname -rwxr-xr-x 1 root root 34664 Sep 22 2020 echo -rwxr-xr-x 1 root root 28 Jan 24 2023 egrep -rwxr-xr-x 1 root root 34664 Sep 22 2020 false -rwxr-xr-x 1 root root 28 Jan 24 2023 fgrep -rwxr-xr-x 1 root root 71928 Mar 27 2024 findmnt -rwsr-xr-x 1 root root 30112 Feb 26 2021 fusermount -rwxr-xr-x 1 root root 210488 Jan 24 2023 grep -rwxr-xr-x 2 root root 2346 Apr 9 2022 gunzip -rwxr-xr-x 1 root root 6447 Apr 9 2022 gzexe -rwxr-xr-x 1 root root 100952 Apr 9 2022 gzip -rwxr-xr-x 1 root root 21916 Nov 6 2019 hostname -rwxr-xr-x 1 root root 83980 Sep 22 2020 ln -rwxr-xr-x 1 root root 55572 Feb 7 2020 login -rwxr-xr-x 1 root root 153964 Sep 22 2020 ls -rwxr-xr-x 1 root root 153124 Mar 27 2024 lsblk -rwxr-xr-x 1 root root 96328 Sep 22 2020 mkdir -rwxr-xr-x 1 root root 79912 Sep 22 2020 mknod -rwxr-xr-x 1 root root 47048 Sep 22 2020 mktemp -rwxr-xr-x 1 root root 58920 Mar 27 2024 more -rwsr-xr-x 1 root root 50720 Mar 27 2024 mount -rwxr-xr-x 1 root root 13856 Mar 27 2024 mountpoint -rwxr-xr-x 1 root root 157996 Sep 22 2020 mv lrwxrwxrwx 1 root root 8 Nov 6 2019 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Dec 16 2021 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 38824 Sep 22 2020 pwd lrwxrwxrwx 1 root root 4 Mar 27 2022 rbash -> bash -rwxr-xr-x 1 root root 46984 Sep 22 2020 readlink -rwxr-xr-x 1 root root 75720 Sep 22 2020 rm -rwxr-xr-x 1 root root 46984 Sep 22 2020 rmdir -rwxr-xr-x 1 root root 22292 Sep 27 2020 run-parts -rwxr-xr-x 1 root root 125036 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 Dec 10 03:47 sh -> dash -rwxr-xr-x 1 root root 34696 Sep 22 2020 sleep -rwxr-xr-x 1 root root 83880 Sep 22 2020 stty -rwsr-xr-x 1 root root 79396 Mar 27 2024 su -rwxr-xr-x 1 root root 34696 Sep 22 2020 sync -rwxr-xr-x 1 root root 598488 Jan 19 2024 tar -rwxr-xr-x 1 root root 13860 Sep 27 2020 tempfile -rwxr-xr-x 1 root root 108520 Sep 22 2020 touch -rwxr-xr-x 1 root root 34664 Sep 22 2020 true -rwxr-xr-x 1 root root 17768 Feb 26 2021 ulockmgr_server -rwsr-xr-x 1 root root 30236 Mar 27 2024 umount -rwxr-xr-x 1 root root 34664 Sep 22 2020 uname -rwxr-xr-x 2 root root 2346 Apr 9 2022 uncompress -rwxr-xr-x 1 root root 153964 Sep 22 2020 vdir -rwxr-xr-x 1 root root 63024 Mar 27 2024 wdctl lrwxrwxrwx 1 root root 8 Nov 6 2019 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Apr 9 2022 zcat -rwxr-xr-x 1 root root 1678 Apr 9 2022 zcmp -rwxr-xr-x 1 root root 5898 Apr 9 2022 zdiff -rwxr-xr-x 1 root root 29 Apr 9 2022 zegrep -rwxr-xr-x 1 root root 29 Apr 9 2022 zfgrep -rwxr-xr-x 1 root root 2081 Apr 9 2022 zforce -rwxr-xr-x 1 root root 8049 Apr 9 2022 zgrep -rwxr-xr-x 1 root root 2206 Apr 9 2022 zless -rwxr-xr-x 1 root root 1842 Apr 9 2022 zmore -rwxr-xr-x 1 root root 4577 Apr 9 2022 znew I: user script /srv/workspace/pbuilder/21678/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), jellyfish, libjung-free-java, javahelper, libgetopt-java, default-jdk, parafly, libjs-jquery, jaligner, libhts-dev, bowtie2, salmon, zlib1g-dev, cmake, r-bioc-edger, r-bioc-deseq2, r-bioc-rots, r-cran-fastcluster, liburi-perl, r-cran-ape, r-bioc-ctc, r-cran-gplots, r-cran-readr, r-bioc-biobase, r-bioc-qvalue, r-bioc-goseq, r-bioc-tximport, python3-htseq, rna-star, picard-tools, gmap, hisat2, subread, kallisto, python3-hisat2, r-cran-argparse, r-bioc-dexseq, tabix dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19730 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 jellyfish; however: Package jellyfish is not installed. pbuilder-satisfydepends-dummy depends on libjung-free-java; however: Package libjung-free-java is not installed. pbuilder-satisfydepends-dummy depends on javahelper; however: Package javahelper is not installed. pbuilder-satisfydepends-dummy depends on libgetopt-java; however: Package libgetopt-java is not installed. pbuilder-satisfydepends-dummy depends on default-jdk; however: Package default-jdk is not installed. pbuilder-satisfydepends-dummy depends on parafly; however: Package parafly is not installed. pbuilder-satisfydepends-dummy depends on libjs-jquery; however: Package libjs-jquery is not installed. pbuilder-satisfydepends-dummy depends on jaligner; however: Package jaligner is not installed. pbuilder-satisfydepends-dummy depends on libhts-dev; however: Package libhts-dev is not installed. pbuilder-satisfydepends-dummy depends on bowtie2; however: Package bowtie2 is not installed. pbuilder-satisfydepends-dummy depends on salmon; however: Package salmon is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-edger; however: Package r-bioc-edger is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-deseq2; however: Package r-bioc-deseq2 is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-rots; however: Package r-bioc-rots is not installed. pbuilder-satisfydepends-dummy depends on r-cran-fastcluster; however: Package r-cran-fastcluster is not installed. pbuilder-satisfydepends-dummy depends on liburi-perl; however: Package liburi-perl is not installed. pbuilder-satisfydepends-dummy depends on r-cran-ape; however: Package r-cran-ape is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-ctc; however: Package r-bioc-ctc is not installed. pbuilder-satisfydepends-dummy depends on r-cran-gplots; however: Package r-cran-gplots is not installed. pbuilder-satisfydepends-dummy depends on r-cran-readr; however: Package r-cran-readr is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-biobase; however: Package r-bioc-biobase is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-qvalue; however: Package r-bioc-qvalue is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-goseq; however: Package r-bioc-goseq is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-tximport; however: Package r-bioc-tximport is not installed. pbuilder-satisfydepends-dummy depends on python3-htseq; however: Package python3-htseq is not installed. pbuilder-satisfydepends-dummy depends on rna-star; however: Package rna-star is not installed. pbuilder-satisfydepends-dummy depends on picard-tools; however: Package picard-tools is not installed. pbuilder-satisfydepends-dummy depends on gmap; however: Package gmap is not installed. pbuilder-satisfydepends-dummy depends on hisat2; however: Package hisat2 is not installed. pbuilder-satisfydepends-dummy depends on subread; however: Package subread is not installed. pbuilder-satisfydepends-dummy depends on kallisto; however: Package kallisto is not installed. pbuilder-satisfydepends-dummy depends on python3-hisat2; however: Package python3-hisat2 is not installed. pbuilder-satisfydepends-dummy depends on r-cran-argparse; however: Package r-cran-argparse is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-dexseq; however: Package r-bioc-dexseq is not installed. pbuilder-satisfydepends-dummy depends on tabix; however: Package tabix 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: ant{a} ant-optional{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} ca-certificates{a} ca-certificates-java{a} cmake{a} cmake-data{a} dctrl-tools{a} debhelper{a} default-jdk{a} default-jdk-headless{a} default-jre{a} default-jre-headless{a} devscripts{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dirmngr{a} dwz{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} gettext{a} gettext-base{a} gmap{a} gnupg{a} gnupg-l10n{a} gnupg-utils{a} gpg{a} gpg-agent{a} gpg-wks-client{a} gpg-wks-server{a} gpgconf{a} gpgsm{a} groff-base{a} hisat2{a} intltool-debian{a} jaligner{a} java-common{a} javahelper{a} jellyfish{a} kallisto{a} libactivation-java{a} libaopalliance-java{a} libapache-pom-java{a} libarchive-zip-perl{a} libarchive13{a} libargs4j-java{a} libasound2{a} libasound2-data{a} libassuan0{a} libatinject-jsr330-api-java{a} libavahi-client3{a} libavahi-common-data{a} libavahi-common3{a} libb-hooks-op-check-perl{a} libbarclay-java{a} libblas3{a} libboost-dev{a} libboost1.74-dev{a} libbrotli1{a} libbsd0{a} libcairo2{a} libcdi-api-java{a} libclass-method-modifiers-perl{a} libcodemodel-java{a} libcolt-free-java{a} libcommons-cli-java{a} libcommons-codec-java{a} libcommons-collections4-java{a} libcommons-compress-java{a} libcommons-io-java{a} libcommons-jexl2-java{a} libcommons-lang3-java{a} libcommons-logging-java{a} libcommons-math3-java{a} libcommons-parent-java{a} libconcurrent-java{a} libcups2{a} libcurl3-gnutls{a} libcurl4{a} libcurl4-gnutls-dev{a} libdatrie1{a} libdbus-1-3{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libdevel-callchecker-perl{a} libdom4j-java{a} libdrm-amdgpu1{a} libdrm-common{a} libdrm-intel1{a} libdrm-nouveau2{a} libdrm-radeon1{a} 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r-cran-memoise{a} r-cran-mgcv{a} r-cran-mime{a} r-cran-munsell{a} r-cran-nlme{a} r-cran-openssl{a} r-cran-pillar{a} r-cran-pkgbuild{a} r-cran-pkgconfig{a} r-cran-pkgkitten{a} r-cran-pkgload{a} r-cran-plogr{a} r-cran-plyr{a} r-cran-praise{a} r-cran-prettyunits{a} r-cran-processx{a} r-cran-progress{a} r-cran-ps{a} r-cran-purrr{a} r-cran-r6{a} r-cran-rappdirs{a} r-cran-rcolorbrewer{a} r-cran-rcpp{a} r-cran-rcpparmadillo{a} r-cran-rcurl{a} r-cran-readr{a} r-cran-rematch2{a} r-cran-reshape2{a} r-cran-rlang{a} r-cran-rprojroot{a} r-cran-rsqlite{a} r-cran-rstudioapi{a} r-cran-scales{a} r-cran-snow{a} r-cran-statmod{a} r-cran-stringi{a} r-cran-stringr{a} r-cran-survival{a} r-cran-sys{a} r-cran-testthat{a} r-cran-tibble{a} r-cran-tidyselect{a} r-cran-utf8{a} r-cran-vctrs{a} r-cran-viridislite{a} r-cran-waldo{a} r-cran-withr{a} r-cran-xml{a} r-cran-xml2{a} r-cran-xtable{a} readline-common{a} sensible-utils{a} subread{a} tabix{a} ucf{a} unzip{a} wdiff{a} x11-common{a} xdg-utils{a} zip{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: alsa-topology-conf alsa-ucm-conf bcftools curl dbus debian-keyring dput dput-ng dupload equivs fonts-dejavu-extra javascript-common libarchive-cpio-perl libatk-wrapper-java-jni libclass-xsaccessor-perl libclone-perl libdata-dump-perl libdistro-info-perl libfile-mimeinfo-perl libgit-wrapper-perl libgitlab-api-v4-perl libglib2.0-data libgpm2 libhtml-form-perl libhtml-format-perl libhttp-daemon-perl libjansi-java libldap-common liblist-compare-perl libltdl-dev libmail-sendmail-perl libmailtools-perl libnamespace-clean-perl libnet-dbus-perl libsasl2-modules libsoap-lite-perl libstring-shellquote-perl libsub-name-perl libx11-protocol-perl libxt-dev licensecheck lintian lynx mesa-vulkan-drivers pristine-tar psmisc publicsuffix python3-apt python3-debian python3-magic python3-requests python3-unidiff python3-xdg r-base-dev r-bioc-glmgampoi r-bioc-org.hs.eg.db r-bioc-shortread r-cran-abind r-cran-batchjobs r-cran-batchtools r-cran-class r-cran-cliapp r-cran-codetools r-cran-data.table r-cran-dbitest r-cran-decor r-cran-domc r-cran-doparallel r-cran-hexbin r-cran-htmltools r-cran-htmlwidgets r-cran-httpuv r-cran-knitr r-cran-lubridate r-cran-mapproj r-cran-mockery r-cran-mockr r-cran-quantreg r-cran-rmarkdown r-cran-rmpi r-cran-rmysql r-cran-rpostgresql r-cran-runit r-cran-sodium r-cran-sp r-cran-testit r-cran-tidyr r-cran-vdiffr r-cran-webutils r-doc-html r-recommended samtools shared-mime-info strace wget x11-utils x11-xserver-utils xdg-user-dirs 0 packages upgraded, 483 newly installed, 0 to remove and 0 not upgraded. Need to get 562 MB of archives. After unpacking 1367 MB will be used. The following packages have unmet dependencies: pbuilder-satisfydepends-dummy : Depends: bowtie2 which is a virtual package and is not provided by any available package Depends: salmon which is a virtual package and is not provided by any available package Depends: rna-star 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: ant{a} ant-optional{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} ca-certificates{a} ca-certificates-java{a} cmake{a} cmake-data{a} dctrl-tools{a} debhelper{a} default-jdk{a} default-jdk-headless{a} default-jre{a} default-jre-headless{a} devscripts{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dirmngr{a} dwz{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} gettext{a} gettext-base{a} gmap{a} gnupg{a} gnupg-l10n{a} gnupg-utils{a} gpg{a} gpg-agent{a} gpg-wks-client{a} gpg-wks-server{a} gpgconf{a} gpgsm{a} groff-base{a} hisat2{a} intltool-debian{a} jaligner{a} java-common{a} javahelper{a} jellyfish{a} kallisto{a} libactivation-java{a} libaopalliance-java{a} libapache-pom-java{a} libarchive-zip-perl{a} libarchive13{a} libargs4j-java{a} libasound2{a} libasound2-data{a} libassuan0{a} libatinject-jsr330-api-java{a} libavahi-client3{a} libavahi-common-data{a} libavahi-common3{a} libb-hooks-op-check-perl{a} libbarclay-java{a} libblas3{a} libboost-dev{a} libboost1.74-dev{a} libbrotli1{a} libbsd0{a} libcairo2{a} libcdi-api-java{a} libclass-method-modifiers-perl{a} libcodemodel-java{a} libcolt-free-java{a} libcommons-cli-java{a} libcommons-codec-java{a} libcommons-collections4-java{a} libcommons-compress-java{a} libcommons-io-java{a} libcommons-jexl2-java{a} libcommons-lang3-java{a} libcommons-logging-java{a} libcommons-math3-java{a} libcommons-parent-java{a} libconcurrent-java{a} libcups2{a} libcurl3-gnutls{a} libcurl4{a} libcurl4-gnutls-dev{a} libdatrie1{a} libdbus-1-3{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libdevel-callchecker-perl{a} libdom4j-java{a} libdrm-amdgpu1{a} libdrm-common{a} libdrm-intel1{a} libdrm-nouveau2{a} libdrm-radeon1{a} libdrm2{a} libdtd-parser-java{a} libdynaloader-functions-perl{a} libedit2{a} libelf1{a} libencode-locale-perl{a} libexpat1{a} libfastinfoset-java{a} libfile-dirlist-perl{a} libfile-homedir-perl{a} libfile-listing-perl{a} libfile-stripnondeterminism-perl{a} libfile-touch-perl{a} libfile-which-perl{a} libfontconfig1{a} libfreemarker-java{a} libfreetype6{a} libfribidi0{a} libgatk-native-bindings-java{a} libgeronimo-annotation-1.3-spec-java{a} libgeronimo-interceptor-3.0-spec-java{a} libgetopt-java{a} libgfortran5{a} libgif7{a} libgkl-java{a} libgl1{a} libgl1-mesa-dri{a} libglapi-mesa{a} libglib2.0-0{a} libglvnd0{a} libglx-mesa0{a} libglx0{a} libgoogle-gson-java{a} libgraphite2-3{a} libguava-java{a} libguice-java{a} libharfbuzz0b{a} libhtml-parser-perl{a} libhtml-tagset-perl{a} libhtml-tree-perl{a} libhts-dev{a} libhts3{a} libhtsjdk-java{a} libhttp-cookies-perl{a} libhttp-date-perl{a} libhttp-message-perl{a} libhttp-negotiate-perl{a} libhttpclient-java{a} libhttpcore-java{a} libice6{a} libicu67{a} libimport-into-perl{a} libio-html-perl{a} libio-pty-perl{a} libio-socket-ssl-perl{a} libipc-run-perl{a} libistack-commons-java{a} libjaxb-api-java{a} libjaxb-java{a} libjaxen-java{a} libjbig0{a} libjellyfish-2.0-2{a} libjoptsimple-java{a} libjpeg62-turbo{a} libjs-jquery{a} libjsoncpp24{a} libjsoup-java{a} libjsr305-java{a} libjung-free-java{a} libksba8{a} liblapack3{a} liblcms2-2{a} libldap-2.4-2{a} liblightcouch-java{a} libllvm11{a} liblog4j2-java{a} liblwp-mediatypes-perl{a} liblwp-protocol-https-perl{a} liblzma-dev{a} libmagic-mgc{a} libmagic1{a} libmaven-file-management-java{a} libmaven-parent-java{a} libmaven-resolver-java{a} libmaven-shared-io-java{a} libmaven-shared-utils-java{a} libmaven3-core-java{a} libmd0{a} libmodule-runtime-perl{a} libmongodb-java{a} libmoo-perl{a} libmpdec3{a} libncurses6{a} libnet-http-perl{a} libnet-ssleay-perl{a} libnghttp2-14{a} libngs-java{a} libngs-sdk-dev{a} libngs-sdk2{a} libnpth0{a} libnspr4{a} libnss3{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} libpciaccess0{a} libpcsclite1{a} libpicard-java{a} libpipeline1{a} libpixman-1-0{a} libplexus-archiver-java{a} libplexus-cipher-java{a} libplexus-classworlds-java{a} libplexus-component-annotations-java{a} libplexus-interpolation-java{a} libplexus-io-java{a} libplexus-sec-dispatcher-java{a} libplexus-utils2-java{a} libpng16-16{a} libprocps8{a} libpsl5{a} libpython3-stdlib{a} libpython3.9-minimal{a} libpython3.9-stdlib{a} libreadline8{a} librelaxng-datatype-java{a} librhash0{a} librngom-java{a} librole-tiny-perl{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsensors-config{a} libsensors5{a} libsigsegv2{a} libsisu-inject-java{a} libsisu-plexus-java{a} libslf4j-java{a} libsm6{a} libsnappy-java{a} libsnappy-jni{a} libsnappy1v5{a} libssh2-1{a} libstax-ex-java{a} libstreambuffer-java{a} libstrictures-perl{a} libsub-override-perl{a} libsub-quote-perl{a} libtcl8.6{a} libthai-data{a} libthai0{a} libtiff5{a} libtimedate-perl{a} libtk8.6{a} libtool{a} libtry-tiny-perl{a} libtxw2-java{a} libuchardet0{a} liburi-perl{a} libuv1{a} libvecmath-java{a} libvulkan1{a} libwagon-http-java{a} libwagon-provider-api-java{a} libwebp6{a} libwww-perl{a} libwww-robotrules-perl{a} libx11-6{a} libx11-data{a} libx11-xcb1{a} libxau6{a} libxcb-dri2-0{a} libxcb-dri3-0{a} libxcb-glx0{a} libxcb-present0{a} libxcb-render0{a} libxcb-shm0{a} libxcb-sync1{a} libxcb-xfixes0{a} libxcb1{a} libxdamage1{a} libxdmcp6{a} libxext6{a} libxfixes3{a} libxft2{a} libxi6{a} libxml-commons-resolver1.1-java{a} libxml2{a} libxrender1{a} libxshmfence1{a} libxsom-java{a} libxss1{a} libxt6{a} libxtst6{a} libxxf86vm1{a} libxz-java{a} libz3-4{a} littler{a} m4{a} man-db{a} media-types{a} netbase{a} node-html5shiv{a} openjdk-11-jdk{a} openjdk-11-jdk-headless{a} openjdk-11-jre{a} openjdk-11-jre-headless{a} openssl{a} parafly{a} patchutils{a} perl-openssl-defaults{a} picard-tools{a} pinentry-curses{a} po-debconf{a} procps{a} python3{a} python3-hisat2{a} python3-htseq{a} python3-minimal{a} python3-numpy{a} python3-pkg-resources{a} python3-pysam{a} python3.9{a} python3.9-minimal{a} r-base-core{a} r-bioc-annotate{a} r-bioc-annotationdbi{a} r-bioc-biobase{a} r-bioc-biocfilecache{a} r-bioc-biocgenerics{a} r-bioc-biocparallel{a} r-bioc-biomart{a} r-bioc-biostrings{a} r-bioc-ctc{a} r-bioc-delayedarray{a} r-bioc-deseq2{a} r-bioc-dexseq{a} r-bioc-edger{a} r-bioc-genefilter{a} r-bioc-genelendatabase{a} r-bioc-geneplotter{a} r-bioc-genomeinfodb{a} r-bioc-genomeinfodbdata{a} r-bioc-genomicalignments{a} r-bioc-genomicfeatures{a} r-bioc-genomicranges{a} r-bioc-go.db{a} r-bioc-goseq{a} r-bioc-iranges{a} r-bioc-limma{a} r-bioc-matrixgenerics{a} r-bioc-qvalue{a} r-bioc-rhtslib{a} r-bioc-rots{a} r-bioc-rsamtools{a} r-bioc-rtracklayer{a} r-bioc-s4vectors{a} r-bioc-summarizedexperiment{a} r-bioc-tximport{a} r-bioc-xvector{a} r-bioc-zlibbioc{a} r-cran-amap{a} r-cran-ape{a} r-cran-argparse{a} r-cran-askpass{a} r-cran-assertthat{a} r-cran-bh{a} r-cran-biasedurn{a} r-cran-bit{a} r-cran-bit64{a} r-cran-bitops{a} r-cran-blob{a} r-cran-brio{a} r-cran-cachem{a} r-cran-callr{a} r-cran-catools{a} r-cran-cli{a} r-cran-clipr{a} r-cran-colorspace{a} r-cran-cpp11{a} r-cran-crayon{a} r-cran-curl{a} r-cran-dbi{a} r-cran-dbplyr{a} r-cran-desc{a} r-cran-diffobj{a} r-cran-digest{a} r-cran-dplyr{a} r-cran-ellipsis{a} r-cran-evaluate{a} r-cran-fansi{a} r-cran-farver{a} r-cran-fastcluster{a} r-cran-fastmap{a} r-cran-findpython{a} r-cran-formatr{a} r-cran-futile.logger{a} r-cran-futile.options{a} r-cran-gdata{a} r-cran-generics{a} r-cran-ggplot2{a} r-cran-glue{a} r-cran-gplots{a} r-cran-gtable{a} r-cran-gtools{a} r-cran-hms{a} r-cran-httr{a} r-cran-hwriter{a} r-cran-isoband{a} r-cran-jsonlite{a} r-cran-kernsmooth{a} r-cran-labeling{a} r-cran-lambda.r{a} r-cran-lattice{a} r-cran-lifecycle{a} r-cran-littler{a} r-cran-locfit{a} r-cran-magrittr{a} r-cran-mass{a} r-cran-matrix{a} r-cran-matrixstats{a} r-cran-memoise{a} r-cran-mgcv{a} r-cran-mime{a} r-cran-munsell{a} r-cran-nlme{a} r-cran-openssl{a} r-cran-pillar{a} r-cran-pkgbuild{a} r-cran-pkgconfig{a} r-cran-pkgkitten{a} r-cran-pkgload{a} r-cran-plogr{a} r-cran-plyr{a} r-cran-praise{a} r-cran-prettyunits{a} r-cran-processx{a} r-cran-progress{a} r-cran-ps{a} r-cran-purrr{a} r-cran-r6{a} r-cran-rappdirs{a} r-cran-rcolorbrewer{a} r-cran-rcpp{a} r-cran-rcpparmadillo{a} r-cran-rcurl{a} r-cran-readr{a} r-cran-rematch2{a} r-cran-reshape2{a} r-cran-rlang{a} r-cran-rprojroot{a} r-cran-rsqlite{a} r-cran-rstudioapi{a} r-cran-scales{a} r-cran-snow{a} r-cran-statmod{a} r-cran-stringi{a} r-cran-stringr{a} r-cran-survival{a} r-cran-sys{a} r-cran-testthat{a} r-cran-tibble{a} r-cran-tidyselect{a} r-cran-utf8{a} r-cran-vctrs{a} r-cran-viridislite{a} r-cran-waldo{a} r-cran-withr{a} r-cran-xml{a} r-cran-xml2{a} r-cran-xtable{a} readline-common{a} sensible-utils{a} subread{a} tabix{a} ucf{a} unzip{a} wdiff{a} x11-common{a} xdg-utils{a} zip{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: alsa-topology-conf alsa-ucm-conf bcftools curl dbus debian-keyring dput dput-ng dupload equivs fonts-dejavu-extra javascript-common libarchive-cpio-perl libatk-wrapper-java-jni libclass-xsaccessor-perl libclone-perl libdata-dump-perl libdistro-info-perl libfile-mimeinfo-perl libgit-wrapper-perl libgitlab-api-v4-perl libglib2.0-data libgpm2 libhtml-form-perl libhtml-format-perl libhttp-daemon-perl libjansi-java libldap-common liblist-compare-perl libltdl-dev libmail-sendmail-perl libmailtools-perl libnamespace-clean-perl libnet-dbus-perl libsasl2-modules libsoap-lite-perl libstring-shellquote-perl libsub-name-perl libx11-protocol-perl libxt-dev licensecheck lintian lynx mesa-vulkan-drivers pristine-tar psmisc publicsuffix python3-apt python3-debian python3-magic python3-requests python3-unidiff python3-xdg r-base-dev r-bioc-glmgampoi r-bioc-org.hs.eg.db r-bioc-shortread r-cran-abind r-cran-batchjobs r-cran-batchtools r-cran-class r-cran-cliapp r-cran-codetools r-cran-data.table r-cran-dbitest r-cran-decor r-cran-domc r-cran-doparallel r-cran-hexbin r-cran-htmltools r-cran-htmlwidgets r-cran-httpuv r-cran-knitr r-cran-lubridate r-cran-mapproj r-cran-mockery r-cran-mockr r-cran-quantreg r-cran-rmarkdown r-cran-rmpi r-cran-rmysql r-cran-rpostgresql r-cran-runit r-cran-sodium r-cran-sp r-cran-testit r-cran-tidyr r-cran-vdiffr r-cran-webutils r-doc-html r-recommended samtools shared-mime-info strace wget x11-utils x11-xserver-utils xdg-user-dirs 0 packages upgraded, 483 newly installed, 0 to remove and 0 not upgraded. Need to get 562 MB of archives. After unpacking 1367 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/21678 and its subdirectories Starting cleanup. All cleanup done. Sun Dec 28 15:25:43 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-mGoMnatj, removing. /srv/reproducible-results/rbuild-debian/r-b-build.30d5lYYF: total 16 drwxr-xr-x 2 jenkins jenkins 4096 Nov 25 09:02 b1 drwxr-xr-x 2 jenkins jenkins 4096 Nov 25 09:02 b2 -rw------- 1 jenkins jenkins 3820 Nov 25 09:02 rbuildlog.0YgXpLP -rw-r--r-- 1 jenkins jenkins 2637 Jan 19 2021 trinityrnaseq_2.11.0+dfsg-6.dsc /srv/reproducible-results/rbuild-debian/r-b-build.30d5lYYF/b1: total 36 -rw-r--r-- 1 jenkins jenkins 36267 Nov 25 09:02 build.log /srv/reproducible-results/rbuild-debian/r-b-build.30d5lYYF/b2: total 0 Mon Nov 25 09:02:45 UTC 2024 I: Deleting $TMPDIR on infom08-i386.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sun Dec 28 03:25:05 -12 2025 I: pbuilder-time-stamp: 1766935505 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-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 [trinityrnaseq_2.11.0+dfsg-6.dsc] I: copying [./trinityrnaseq_2.11.0+dfsg.orig.tar.xz] I: copying [./trinityrnaseq_2.11.0+dfsg-6.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.Dl2WNpya/trustedkeys.kbx': General error gpgv: Signature made Tue Jan 19 01:18:29 2021 -12 gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./trinityrnaseq_2.11.0+dfsg-6.dsc dpkg-source: info: extracting trinityrnaseq in trinityrnaseq-2.11.0+dfsg dpkg-source: info: unpacking trinityrnaseq_2.11.0+dfsg.orig.tar.xz dpkg-source: info: unpacking trinityrnaseq_2.11.0+dfsg-6.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying STAR_genomeSAindexNbases dpkg-source: info: applying butterfly dpkg-source: info: applying jellyfish-path dpkg-source: info: applying update-paths dpkg-source: info: applying collections15-to-4 dpkg-source: info: applying 0002-fix_istream_failure_call.patch dpkg-source: info: applying fix_system_paths dpkg-source: info: applying disable-version-check dpkg-source: info: applying adjust-trimmomatic-adapters-path dpkg-source: info: applying NeedlemanWunschGotohBanded.patch dpkg-source: info: applying python3 dpkg-source: info: applying unfix_num_of_cores dpkg-source: info: applying hardening dpkg-source: info: applying seqtk-trinity-hardening dpkg-source: info: applying skip_gatk_test dpkg-source: info: applying skip_tximportData_tests dpkg-source: info: applying submake dpkg-source: info: applying skip_blat dpkg-source: info: applying fix-gcc-10.patch dpkg-source: info: applying bamsifter_build dpkg-source: info: applying skip_DTU_STAR_test dpkg-source: info: applying strip_m64 I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/21678/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,-fixfilepath parallel=6 ' DISTRIBUTION='bullseye' HOME='/root' HOST_ARCH='i386' IFS=' ' INVOCATION_ID='78b16944ee274997a841fb92d1039063' 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='21678' 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.30d5lYYF/pbuilderrc_r0Hj --distribution bullseye --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.30d5lYYF/b1 --logfile b1/build.log trinityrnaseq_2.11.0+dfsg-6.dsc' SUDO_GID='111' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' I: uname -a Linux infom08-i386 6.11.5+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.11.5-1~bpo12+1 (2024-11-11) x86_64 GNU/Linux I: ls -l /bin total 5772 -rwxr-xr-x 1 root root 1367848 Mar 27 2022 bash -rwxr-xr-x 3 root root 38280 Jul 20 2020 bunzip2 -rwxr-xr-x 3 root root 38280 Jul 20 2020 bzcat lrwxrwxrwx 1 root root 6 Jul 20 2020 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Jul 20 2020 bzdiff lrwxrwxrwx 1 root root 6 Jul 20 2020 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Sep 4 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 20 2020 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Jul 20 2020 bzgrep -rwxr-xr-x 3 root root 38280 Jul 20 2020 bzip2 -rwxr-xr-x 1 root root 17768 Jul 20 2020 bzip2recover lrwxrwxrwx 1 root root 6 Jul 20 2020 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 20 2020 bzmore -rwxr-xr-x 1 root root 38824 Sep 22 2020 cat -rwxr-xr-x 1 root root 71624 Sep 22 2020 chgrp -rwxr-xr-x 1 root root 67528 Sep 22 2020 chmod -rwxr-xr-x 1 root root 75752 Sep 22 2020 chown -rwxr-xr-x 1 root root 157960 Sep 22 2020 cp -rwxr-xr-x 1 root root 128724 Dec 10 2020 dash -rwxr-xr-x 1 root root 124904 Sep 22 2020 date -rwxr-xr-x 1 root root 92172 Sep 22 2020 dd -rwxr-xr-x 1 root root 100752 Sep 22 2020 df -rwxr-xr-x 1 root root 153964 Sep 22 2020 dir -rwxr-xr-x 1 root root 83644 Mar 27 2024 dmesg lrwxrwxrwx 1 root root 8 Nov 6 2019 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Nov 6 2019 domainname -> hostname -rwxr-xr-x 1 root root 34664 Sep 22 2020 echo -rwxr-xr-x 1 root root 28 Jan 24 2023 egrep -rwxr-xr-x 1 root root 34664 Sep 22 2020 false -rwxr-xr-x 1 root root 28 Jan 24 2023 fgrep -rwxr-xr-x 1 root root 71928 Mar 27 2024 findmnt -rwsr-xr-x 1 root root 30112 Feb 26 2021 fusermount -rwxr-xr-x 1 root root 210488 Jan 24 2023 grep -rwxr-xr-x 2 root root 2346 Apr 9 2022 gunzip -rwxr-xr-x 1 root root 6447 Apr 9 2022 gzexe -rwxr-xr-x 1 root root 100952 Apr 9 2022 gzip -rwxr-xr-x 1 root root 21916 Nov 6 2019 hostname -rwxr-xr-x 1 root root 83980 Sep 22 2020 ln -rwxr-xr-x 1 root root 55572 Feb 7 2020 login -rwxr-xr-x 1 root root 153964 Sep 22 2020 ls -rwxr-xr-x 1 root root 153124 Mar 27 2024 lsblk -rwxr-xr-x 1 root root 96328 Sep 22 2020 mkdir -rwxr-xr-x 1 root root 79912 Sep 22 2020 mknod -rwxr-xr-x 1 root root 47048 Sep 22 2020 mktemp -rwxr-xr-x 1 root root 58920 Mar 27 2024 more -rwsr-xr-x 1 root root 50720 Mar 27 2024 mount -rwxr-xr-x 1 root root 13856 Mar 27 2024 mountpoint -rwxr-xr-x 1 root root 157996 Sep 22 2020 mv lrwxrwxrwx 1 root root 8 Nov 6 2019 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Dec 16 2021 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 38824 Sep 22 2020 pwd lrwxrwxrwx 1 root root 4 Mar 27 2022 rbash -> bash -rwxr-xr-x 1 root root 46984 Sep 22 2020 readlink -rwxr-xr-x 1 root root 75720 Sep 22 2020 rm -rwxr-xr-x 1 root root 46984 Sep 22 2020 rmdir -rwxr-xr-x 1 root root 22292 Sep 27 2020 run-parts -rwxr-xr-x 1 root root 125036 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 Dec 10 03:47 sh -> dash -rwxr-xr-x 1 root root 34696 Sep 22 2020 sleep -rwxr-xr-x 1 root root 83880 Sep 22 2020 stty -rwsr-xr-x 1 root root 79396 Mar 27 2024 su -rwxr-xr-x 1 root root 34696 Sep 22 2020 sync -rwxr-xr-x 1 root root 598488 Jan 19 2024 tar -rwxr-xr-x 1 root root 13860 Sep 27 2020 tempfile -rwxr-xr-x 1 root root 108520 Sep 22 2020 touch -rwxr-xr-x 1 root root 34664 Sep 22 2020 true -rwxr-xr-x 1 root root 17768 Feb 26 2021 ulockmgr_server -rwsr-xr-x 1 root root 30236 Mar 27 2024 umount -rwxr-xr-x 1 root root 34664 Sep 22 2020 uname -rwxr-xr-x 2 root root 2346 Apr 9 2022 uncompress -rwxr-xr-x 1 root root 153964 Sep 22 2020 vdir -rwxr-xr-x 1 root root 63024 Mar 27 2024 wdctl lrwxrwxrwx 1 root root 8 Nov 6 2019 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Apr 9 2022 zcat -rwxr-xr-x 1 root root 1678 Apr 9 2022 zcmp -rwxr-xr-x 1 root root 5898 Apr 9 2022 zdiff -rwxr-xr-x 1 root root 29 Apr 9 2022 zegrep -rwxr-xr-x 1 root root 29 Apr 9 2022 zfgrep -rwxr-xr-x 1 root root 2081 Apr 9 2022 zforce -rwxr-xr-x 1 root root 8049 Apr 9 2022 zgrep -rwxr-xr-x 1 root root 2206 Apr 9 2022 zless -rwxr-xr-x 1 root root 1842 Apr 9 2022 zmore -rwxr-xr-x 1 root root 4577 Apr 9 2022 znew I: user script /srv/workspace/pbuilder/21678/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), jellyfish, libjung-free-java, javahelper, libgetopt-java, default-jdk, parafly, libjs-jquery, jaligner, libhts-dev, bowtie2, salmon, zlib1g-dev, cmake, r-bioc-edger, r-bioc-deseq2, r-bioc-rots, r-cran-fastcluster, liburi-perl, r-cran-ape, r-bioc-ctc, r-cran-gplots, r-cran-readr, r-bioc-biobase, r-bioc-qvalue, r-bioc-goseq, r-bioc-tximport, python3-htseq, rna-star, picard-tools, gmap, hisat2, subread, kallisto, python3-hisat2, r-cran-argparse, r-bioc-dexseq, tabix dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19730 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 jellyfish; however: Package jellyfish is not installed. pbuilder-satisfydepends-dummy depends on libjung-free-java; however: Package libjung-free-java is not installed. pbuilder-satisfydepends-dummy depends on javahelper; however: Package javahelper is not installed. pbuilder-satisfydepends-dummy depends on libgetopt-java; however: Package libgetopt-java is not installed. pbuilder-satisfydepends-dummy depends on default-jdk; however: Package default-jdk is not installed. pbuilder-satisfydepends-dummy depends on parafly; however: Package parafly is not installed. pbuilder-satisfydepends-dummy depends on libjs-jquery; however: Package libjs-jquery is not installed. pbuilder-satisfydepends-dummy depends on jaligner; however: Package jaligner is not installed. pbuilder-satisfydepends-dummy depends on libhts-dev; however: Package libhts-dev is not installed. pbuilder-satisfydepends-dummy depends on bowtie2; however: Package bowtie2 is not installed. pbuilder-satisfydepends-dummy depends on salmon; however: Package salmon is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-edger; however: Package r-bioc-edger is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-deseq2; however: Package r-bioc-deseq2 is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-rots; however: Package r-bioc-rots is not installed. pbuilder-satisfydepends-dummy depends on r-cran-fastcluster; however: Package r-cran-fastcluster is not installed. pbuilder-satisfydepends-dummy depends on liburi-perl; however: Package liburi-perl is not installed. pbuilder-satisfydepends-dummy depends on r-cran-ape; however: Package r-cran-ape is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-ctc; however: Package r-bioc-ctc is not installed. pbuilder-satisfydepends-dummy depends on r-cran-gplots; however: Package r-cran-gplots is not installed. pbuilder-satisfydepends-dummy depends on r-cran-readr; however: Package r-cran-readr is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-biobase; however: Package r-bioc-biobase is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-qvalue; however: Package r-bioc-qvalue is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-goseq; however: Package r-bioc-goseq is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-tximport; however: Package r-bioc-tximport is not installed. pbuilder-satisfydepends-dummy depends on python3-htseq; however: Package python3-htseq is not installed. pbuilder-satisfydepends-dummy depends on rna-star; however: Package rna-star is not installed. pbuilder-satisfydepends-dummy depends on picard-tools; however: Package picard-tools is not installed. pbuilder-satisfydepends-dummy depends on gmap; however: Package gmap is not installed. pbuilder-satisfydepends-dummy depends on hisat2; however: Package hisat2 is not installed. pbuilder-satisfydepends-dummy depends on subread; however: Package subread is not installed. pbuilder-satisfydepends-dummy depends on kallisto; however: Package kallisto is not installed. pbuilder-satisfydepends-dummy depends on python3-hisat2; however: Package python3-hisat2 is not installed. pbuilder-satisfydepends-dummy depends on r-cran-argparse; however: Package r-cran-argparse is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-dexseq; however: Package r-bioc-dexseq is not installed. pbuilder-satisfydepends-dummy depends on tabix; however: Package tabix 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: ant{a} ant-optional{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} ca-certificates{a} ca-certificates-java{a} cmake{a} cmake-data{a} dctrl-tools{a} debhelper{a} default-jdk{a} default-jdk-headless{a} default-jre{a} default-jre-headless{a} devscripts{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dirmngr{a} dwz{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} gettext{a} gettext-base{a} gmap{a} gnupg{a} gnupg-l10n{a} gnupg-utils{a} gpg{a} gpg-agent{a} gpg-wks-client{a} gpg-wks-server{a} gpgconf{a} gpgsm{a} groff-base{a} hisat2{a} intltool-debian{a} jaligner{a} java-common{a} javahelper{a} jellyfish{a} kallisto{a} libactivation-java{a} libaopalliance-java{a} libapache-pom-java{a} libarchive-zip-perl{a} libarchive13{a} libargs4j-java{a} libasound2{a} libasound2-data{a} libassuan0{a} libatinject-jsr330-api-java{a} libavahi-client3{a} libavahi-common-data{a} libavahi-common3{a} libb-hooks-op-check-perl{a} libbarclay-java{a} libblas3{a} libboost-dev{a} libboost1.74-dev{a} libbrotli1{a} libbsd0{a} libcairo2{a} libcdi-api-java{a} libclass-method-modifiers-perl{a} libcodemodel-java{a} libcolt-free-java{a} libcommons-cli-java{a} libcommons-codec-java{a} libcommons-collections4-java{a} libcommons-compress-java{a} libcommons-io-java{a} libcommons-jexl2-java{a} libcommons-lang3-java{a} libcommons-logging-java{a} libcommons-math3-java{a} libcommons-parent-java{a} libconcurrent-java{a} libcups2{a} libcurl3-gnutls{a} libcurl4{a} libcurl4-gnutls-dev{a} libdatrie1{a} libdbus-1-3{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libdevel-callchecker-perl{a} libdom4j-java{a} libdrm-amdgpu1{a} libdrm-common{a} libdrm-intel1{a} libdrm-nouveau2{a} libdrm-radeon1{a} libdrm2{a} libdtd-parser-java{a} libdynaloader-functions-perl{a} libedit2{a} libelf1{a} libencode-locale-perl{a} libexpat1{a} libfastinfoset-java{a} libfile-dirlist-perl{a} libfile-homedir-perl{a} libfile-listing-perl{a} libfile-stripnondeterminism-perl{a} libfile-touch-perl{a} libfile-which-perl{a} libfontconfig1{a} libfreemarker-java{a} libfreetype6{a} libfribidi0{a} libgatk-native-bindings-java{a} libgeronimo-annotation-1.3-spec-java{a} libgeronimo-interceptor-3.0-spec-java{a} libgetopt-java{a} libgfortran5{a} libgif7{a} libgkl-java{a} libgl1{a} libgl1-mesa-dri{a} libglapi-mesa{a} libglib2.0-0{a} libglvnd0{a} libglx-mesa0{a} libglx0{a} libgoogle-gson-java{a} libgraphite2-3{a} libguava-java{a} libguice-java{a} libharfbuzz0b{a} libhtml-parser-perl{a} libhtml-tagset-perl{a} libhtml-tree-perl{a} libhts-dev{a} libhts3{a} libhtsjdk-java{a} libhttp-cookies-perl{a} libhttp-date-perl{a} libhttp-message-perl{a} libhttp-negotiate-perl{a} libhttpclient-java{a} libhttpcore-java{a} libice6{a} libicu67{a} libimport-into-perl{a} libio-html-perl{a} libio-pty-perl{a} libio-socket-ssl-perl{a} libipc-run-perl{a} libistack-commons-java{a} libjaxb-api-java{a} libjaxb-java{a} libjaxen-java{a} libjbig0{a} libjellyfish-2.0-2{a} libjoptsimple-java{a} libjpeg62-turbo{a} libjs-jquery{a} libjsoncpp24{a} libjsoup-java{a} libjsr305-java{a} libjung-free-java{a} libksba8{a} liblapack3{a} liblcms2-2{a} libldap-2.4-2{a} liblightcouch-java{a} libllvm11{a} liblog4j2-java{a} liblwp-mediatypes-perl{a} liblwp-protocol-https-perl{a} liblzma-dev{a} libmagic-mgc{a} libmagic1{a} libmaven-file-management-java{a} libmaven-parent-java{a} libmaven-resolver-java{a} libmaven-shared-io-java{a} libmaven-shared-utils-java{a} libmaven3-core-java{a} libmd0{a} libmodule-runtime-perl{a} libmongodb-java{a} libmoo-perl{a} libmpdec3{a} libncurses6{a} libnet-http-perl{a} libnet-ssleay-perl{a} libnghttp2-14{a} libngs-java{a} libngs-sdk-dev{a} libngs-sdk2{a} libnpth0{a} libnspr4{a} libnss3{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} libpciaccess0{a} libpcsclite1{a} libpicard-java{a} libpipeline1{a} libpixman-1-0{a} libplexus-archiver-java{a} libplexus-cipher-java{a} libplexus-classworlds-java{a} libplexus-component-annotations-java{a} libplexus-interpolation-java{a} libplexus-io-java{a} libplexus-sec-dispatcher-java{a} libplexus-utils2-java{a} libpng16-16{a} libprocps8{a} libpsl5{a} libpython3-stdlib{a} libpython3.9-minimal{a} libpython3.9-stdlib{a} libreadline8{a} librelaxng-datatype-java{a} librhash0{a} librngom-java{a} librole-tiny-perl{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsensors-config{a} libsensors5{a} libsigsegv2{a} libsisu-inject-java{a} libsisu-plexus-java{a} libslf4j-java{a} libsm6{a} libsnappy-java{a} libsnappy-jni{a} libsnappy1v5{a} libssh2-1{a} libstax-ex-java{a} libstreambuffer-java{a} libstrictures-perl{a} libsub-override-perl{a} libsub-quote-perl{a} libtcl8.6{a} libthai-data{a} libthai0{a} libtiff5{a} libtimedate-perl{a} libtk8.6{a} libtool{a} libtry-tiny-perl{a} libtxw2-java{a} libuchardet0{a} liburi-perl{a} libuv1{a} libvecmath-java{a} libvulkan1{a} libwagon-http-java{a} libwagon-provider-api-java{a} libwebp6{a} libwww-perl{a} libwww-robotrules-perl{a} libx11-6{a} libx11-data{a} libx11-xcb1{a} libxau6{a} libxcb-dri2-0{a} libxcb-dri3-0{a} libxcb-glx0{a} libxcb-present0{a} libxcb-render0{a} libxcb-shm0{a} libxcb-sync1{a} libxcb-xfixes0{a} libxcb1{a} libxdamage1{a} libxdmcp6{a} libxext6{a} libxfixes3{a} libxft2{a} libxi6{a} libxml-commons-resolver1.1-java{a} libxml2{a} libxrender1{a} libxshmfence1{a} libxsom-java{a} libxss1{a} libxt6{a} libxtst6{a} libxxf86vm1{a} libxz-java{a} libz3-4{a} littler{a} m4{a} man-db{a} media-types{a} netbase{a} node-html5shiv{a} openjdk-11-jdk{a} openjdk-11-jdk-headless{a} openjdk-11-jre{a} openjdk-11-jre-headless{a} openssl{a} parafly{a} patchutils{a} perl-openssl-defaults{a} picard-tools{a} pinentry-curses{a} po-debconf{a} procps{a} python3{a} python3-hisat2{a} python3-htseq{a} python3-minimal{a} python3-numpy{a} python3-pkg-resources{a} python3-pysam{a} python3.9{a} python3.9-minimal{a} r-base-core{a} r-bioc-annotate{a} r-bioc-annotationdbi{a} r-bioc-biobase{a} r-bioc-biocfilecache{a} r-bioc-biocgenerics{a} r-bioc-biocparallel{a} r-bioc-biomart{a} r-bioc-biostrings{a} r-bioc-ctc{a} r-bioc-delayedarray{a} r-bioc-deseq2{a} r-bioc-dexseq{a} r-bioc-edger{a} r-bioc-genefilter{a} r-bioc-genelendatabase{a} r-bioc-geneplotter{a} r-bioc-genomeinfodb{a} r-bioc-genomeinfodbdata{a} r-bioc-genomicalignments{a} r-bioc-genomicfeatures{a} r-bioc-genomicranges{a} r-bioc-go.db{a} r-bioc-goseq{a} r-bioc-iranges{a} r-bioc-limma{a} r-bioc-matrixgenerics{a} r-bioc-qvalue{a} r-bioc-rhtslib{a} r-bioc-rots{a} r-bioc-rsamtools{a} r-bioc-rtracklayer{a} r-bioc-s4vectors{a} r-bioc-summarizedexperiment{a} r-bioc-tximport{a} r-bioc-xvector{a} r-bioc-zlibbioc{a} r-cran-amap{a} r-cran-ape{a} r-cran-argparse{a} r-cran-askpass{a} r-cran-assertthat{a} r-cran-bh{a} r-cran-biasedurn{a} r-cran-bit{a} r-cran-bit64{a} r-cran-bitops{a} r-cran-blob{a} r-cran-brio{a} r-cran-cachem{a} r-cran-callr{a} r-cran-catools{a} r-cran-cli{a} r-cran-clipr{a} r-cran-colorspace{a} r-cran-cpp11{a} r-cran-crayon{a} r-cran-curl{a} r-cran-dbi{a} r-cran-dbplyr{a} r-cran-desc{a} r-cran-diffobj{a} r-cran-digest{a} r-cran-dplyr{a} r-cran-ellipsis{a} r-cran-evaluate{a} r-cran-fansi{a} r-cran-farver{a} r-cran-fastcluster{a} r-cran-fastmap{a} r-cran-findpython{a} r-cran-formatr{a} r-cran-futile.logger{a} r-cran-futile.options{a} r-cran-gdata{a} r-cran-generics{a} r-cran-ggplot2{a} r-cran-glue{a} r-cran-gplots{a} r-cran-gtable{a} r-cran-gtools{a} r-cran-hms{a} r-cran-httr{a} r-cran-hwriter{a} r-cran-isoband{a} r-cran-jsonlite{a} r-cran-kernsmooth{a} r-cran-labeling{a} r-cran-lambda.r{a} r-cran-lattice{a} r-cran-lifecycle{a} r-cran-littler{a} r-cran-locfit{a} r-cran-magrittr{a} r-cran-mass{a} r-cran-matrix{a} r-cran-matrixstats{a} r-cran-memoise{a} r-cran-mgcv{a} r-cran-mime{a} r-cran-munsell{a} r-cran-nlme{a} r-cran-openssl{a} r-cran-pillar{a} r-cran-pkgbuild{a} r-cran-pkgconfig{a} r-cran-pkgkitten{a} r-cran-pkgload{a} r-cran-plogr{a} r-cran-plyr{a} r-cran-praise{a} r-cran-prettyunits{a} r-cran-processx{a} r-cran-progress{a} r-cran-ps{a} r-cran-purrr{a} r-cran-r6{a} r-cran-rappdirs{a} r-cran-rcolorbrewer{a} r-cran-rcpp{a} r-cran-rcpparmadillo{a} r-cran-rcurl{a} r-cran-readr{a} r-cran-rematch2{a} r-cran-reshape2{a} r-cran-rlang{a} r-cran-rprojroot{a} r-cran-rsqlite{a} r-cran-rstudioapi{a} r-cran-scales{a} r-cran-snow{a} r-cran-statmod{a} r-cran-stringi{a} r-cran-stringr{a} r-cran-survival{a} r-cran-sys{a} r-cran-testthat{a} r-cran-tibble{a} r-cran-tidyselect{a} r-cran-utf8{a} r-cran-vctrs{a} r-cran-viridislite{a} r-cran-waldo{a} r-cran-withr{a} r-cran-xml{a} r-cran-xml2{a} r-cran-xtable{a} readline-common{a} sensible-utils{a} subread{a} tabix{a} ucf{a} unzip{a} wdiff{a} x11-common{a} xdg-utils{a} zip{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: alsa-topology-conf alsa-ucm-conf bcftools curl dbus debian-keyring dput dput-ng dupload equivs fonts-dejavu-extra javascript-common libarchive-cpio-perl libatk-wrapper-java-jni libclass-xsaccessor-perl libclone-perl libdata-dump-perl libdistro-info-perl libfile-mimeinfo-perl libgit-wrapper-perl libgitlab-api-v4-perl libglib2.0-data libgpm2 libhtml-form-perl libhtml-format-perl libhttp-daemon-perl libjansi-java libldap-common liblist-compare-perl libltdl-dev libmail-sendmail-perl libmailtools-perl libnamespace-clean-perl libnet-dbus-perl libsasl2-modules libsoap-lite-perl libstring-shellquote-perl libsub-name-perl libx11-protocol-perl libxt-dev licensecheck lintian lynx mesa-vulkan-drivers pristine-tar psmisc publicsuffix python3-apt python3-debian python3-magic python3-requests python3-unidiff python3-xdg r-base-dev r-bioc-glmgampoi r-bioc-org.hs.eg.db r-bioc-shortread r-cran-abind r-cran-batchjobs r-cran-batchtools r-cran-class r-cran-cliapp r-cran-codetools r-cran-data.table r-cran-dbitest r-cran-decor r-cran-domc r-cran-doparallel r-cran-hexbin r-cran-htmltools r-cran-htmlwidgets r-cran-httpuv r-cran-knitr r-cran-lubridate r-cran-mapproj r-cran-mockery r-cran-mockr r-cran-quantreg r-cran-rmarkdown r-cran-rmpi r-cran-rmysql r-cran-rpostgresql r-cran-runit r-cran-sodium r-cran-sp r-cran-testit r-cran-tidyr r-cran-vdiffr r-cran-webutils r-doc-html r-recommended samtools shared-mime-info strace wget x11-utils x11-xserver-utils xdg-user-dirs 0 packages upgraded, 483 newly installed, 0 to remove and 0 not upgraded. Need to get 562 MB of archives. After unpacking 1367 MB will be used. The following packages have unmet dependencies: pbuilder-satisfydepends-dummy : Depends: bowtie2 which is a virtual package and is not provided by any available package Depends: salmon which is a virtual package and is not provided by any available package Depends: rna-star 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: ant{a} ant-optional{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} ca-certificates{a} ca-certificates-java{a} cmake{a} cmake-data{a} dctrl-tools{a} debhelper{a} default-jdk{a} default-jdk-headless{a} default-jre{a} default-jre-headless{a} devscripts{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dirmngr{a} dwz{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} gettext{a} gettext-base{a} gmap{a} gnupg{a} gnupg-l10n{a} gnupg-utils{a} gpg{a} gpg-agent{a} gpg-wks-client{a} gpg-wks-server{a} gpgconf{a} gpgsm{a} groff-base{a} hisat2{a} intltool-debian{a} jaligner{a} java-common{a} javahelper{a} jellyfish{a} kallisto{a} libactivation-java{a} libaopalliance-java{a} libapache-pom-java{a} libarchive-zip-perl{a} libarchive13{a} libargs4j-java{a} libasound2{a} libasound2-data{a} libassuan0{a} libatinject-jsr330-api-java{a} libavahi-client3{a} libavahi-common-data{a} libavahi-common3{a} libb-hooks-op-check-perl{a} libbarclay-java{a} libblas3{a} libboost-dev{a} libboost1.74-dev{a} libbrotli1{a} libbsd0{a} libcairo2{a} libcdi-api-java{a} libclass-method-modifiers-perl{a} libcodemodel-java{a} libcolt-free-java{a} libcommons-cli-java{a} libcommons-codec-java{a} libcommons-collections4-java{a} libcommons-compress-java{a} libcommons-io-java{a} libcommons-jexl2-java{a} libcommons-lang3-java{a} libcommons-logging-java{a} libcommons-math3-java{a} libcommons-parent-java{a} libconcurrent-java{a} libcups2{a} libcurl3-gnutls{a} libcurl4{a} libcurl4-gnutls-dev{a} libdatrie1{a} libdbus-1-3{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libdevel-callchecker-perl{a} libdom4j-java{a} libdrm-amdgpu1{a} libdrm-common{a} libdrm-intel1{a} libdrm-nouveau2{a} libdrm-radeon1{a} libdrm2{a} libdtd-parser-java{a} libdynaloader-functions-perl{a} libedit2{a} libelf1{a} libencode-locale-perl{a} libexpat1{a} libfastinfoset-java{a} libfile-dirlist-perl{a} libfile-homedir-perl{a} libfile-listing-perl{a} libfile-stripnondeterminism-perl{a} libfile-touch-perl{a} libfile-which-perl{a} libfontconfig1{a} libfreemarker-java{a} libfreetype6{a} libfribidi0{a} libgatk-native-bindings-java{a} libgeronimo-annotation-1.3-spec-java{a} libgeronimo-interceptor-3.0-spec-java{a} libgetopt-java{a} libgfortran5{a} libgif7{a} libgkl-java{a} libgl1{a} libgl1-mesa-dri{a} libglapi-mesa{a} libglib2.0-0{a} libglvnd0{a} libglx-mesa0{a} libglx0{a} libgoogle-gson-java{a} libgraphite2-3{a} libguava-java{a} libguice-java{a} libharfbuzz0b{a} libhtml-parser-perl{a} libhtml-tagset-perl{a} libhtml-tree-perl{a} libhts-dev{a} libhts3{a} libhtsjdk-java{a} libhttp-cookies-perl{a} libhttp-date-perl{a} libhttp-message-perl{a} libhttp-negotiate-perl{a} libhttpclient-java{a} libhttpcore-java{a} libice6{a} libicu67{a} libimport-into-perl{a} libio-html-perl{a} libio-pty-perl{a} libio-socket-ssl-perl{a} libipc-run-perl{a} libistack-commons-java{a} libjaxb-api-java{a} libjaxb-java{a} libjaxen-java{a} libjbig0{a} libjellyfish-2.0-2{a} libjoptsimple-java{a} libjpeg62-turbo{a} libjs-jquery{a} libjsoncpp24{a} libjsoup-java{a} libjsr305-java{a} libjung-free-java{a} libksba8{a} liblapack3{a} liblcms2-2{a} libldap-2.4-2{a} liblightcouch-java{a} libllvm11{a} liblog4j2-java{a} liblwp-mediatypes-perl{a} liblwp-protocol-https-perl{a} liblzma-dev{a} libmagic-mgc{a} libmagic1{a} libmaven-file-management-java{a} libmaven-parent-java{a} libmaven-resolver-java{a} libmaven-shared-io-java{a} libmaven-shared-utils-java{a} libmaven3-core-java{a} libmd0{a} libmodule-runtime-perl{a} libmongodb-java{a} libmoo-perl{a} libmpdec3{a} libncurses6{a} libnet-http-perl{a} libnet-ssleay-perl{a} libnghttp2-14{a} libngs-java{a} libngs-sdk-dev{a} libngs-sdk2{a} libnpth0{a} libnspr4{a} libnss3{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} libpciaccess0{a} libpcsclite1{a} libpicard-java{a} libpipeline1{a} libpixman-1-0{a} libplexus-archiver-java{a} libplexus-cipher-java{a} libplexus-classworlds-java{a} libplexus-component-annotations-java{a} libplexus-interpolation-java{a} libplexus-io-java{a} libplexus-sec-dispatcher-java{a} libplexus-utils2-java{a} libpng16-16{a} libprocps8{a} libpsl5{a} libpython3-stdlib{a} libpython3.9-minimal{a} libpython3.9-stdlib{a} libreadline8{a} librelaxng-datatype-java{a} librhash0{a} librngom-java{a} librole-tiny-perl{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsensors-config{a} libsensors5{a} libsigsegv2{a} libsisu-inject-java{a} libsisu-plexus-java{a} libslf4j-java{a} libsm6{a} libsnappy-java{a} libsnappy-jni{a} libsnappy1v5{a} libssh2-1{a} libstax-ex-java{a} libstreambuffer-java{a} libstrictures-perl{a} libsub-override-perl{a} libsub-quote-perl{a} libtcl8.6{a} libthai-data{a} libthai0{a} libtiff5{a} libtimedate-perl{a} libtk8.6{a} libtool{a} libtry-tiny-perl{a} libtxw2-java{a} libuchardet0{a} liburi-perl{a} libuv1{a} libvecmath-java{a} libvulkan1{a} libwagon-http-java{a} libwagon-provider-api-java{a} libwebp6{a} libwww-perl{a} libwww-robotrules-perl{a} libx11-6{a} libx11-data{a} libx11-xcb1{a} libxau6{a} libxcb-dri2-0{a} libxcb-dri3-0{a} libxcb-glx0{a} libxcb-present0{a} libxcb-render0{a} libxcb-shm0{a} libxcb-sync1{a} libxcb-xfixes0{a} libxcb1{a} libxdamage1{a} libxdmcp6{a} libxext6{a} libxfixes3{a} libxft2{a} libxi6{a} libxml-commons-resolver1.1-java{a} libxml2{a} libxrender1{a} libxshmfence1{a} libxsom-java{a} libxss1{a} libxt6{a} libxtst6{a} libxxf86vm1{a} libxz-java{a} libz3-4{a} littler{a} m4{a} man-db{a} media-types{a} netbase{a} node-html5shiv{a} openjdk-11-jdk{a} openjdk-11-jdk-headless{a} openjdk-11-jre{a} openjdk-11-jre-headless{a} openssl{a} parafly{a} patchutils{a} perl-openssl-defaults{a} picard-tools{a} pinentry-curses{a} po-debconf{a} procps{a} python3{a} python3-hisat2{a} python3-htseq{a} python3-minimal{a} python3-numpy{a} python3-pkg-resources{a} python3-pysam{a} python3.9{a} python3.9-minimal{a} r-base-core{a} r-bioc-annotate{a} r-bioc-annotationdbi{a} r-bioc-biobase{a} r-bioc-biocfilecache{a} r-bioc-biocgenerics{a} r-bioc-biocparallel{a} r-bioc-biomart{a} r-bioc-biostrings{a} r-bioc-ctc{a} r-bioc-delayedarray{a} r-bioc-deseq2{a} r-bioc-dexseq{a} r-bioc-edger{a} r-bioc-genefilter{a} r-bioc-genelendatabase{a} r-bioc-geneplotter{a} r-bioc-genomeinfodb{a} r-bioc-genomeinfodbdata{a} r-bioc-genomicalignments{a} r-bioc-genomicfeatures{a} r-bioc-genomicranges{a} r-bioc-go.db{a} r-bioc-goseq{a} r-bioc-iranges{a} r-bioc-limma{a} r-bioc-matrixgenerics{a} r-bioc-qvalue{a} r-bioc-rhtslib{a} r-bioc-rots{a} r-bioc-rsamtools{a} r-bioc-rtracklayer{a} r-bioc-s4vectors{a} r-bioc-summarizedexperiment{a} r-bioc-tximport{a} r-bioc-xvector{a} r-bioc-zlibbioc{a} r-cran-amap{a} r-cran-ape{a} r-cran-argparse{a} r-cran-askpass{a} r-cran-assertthat{a} r-cran-bh{a} r-cran-biasedurn{a} r-cran-bit{a} r-cran-bit64{a} r-cran-bitops{a} r-cran-blob{a} r-cran-brio{a} r-cran-cachem{a} r-cran-callr{a} r-cran-catools{a} r-cran-cli{a} r-cran-clipr{a} r-cran-colorspace{a} r-cran-cpp11{a} r-cran-crayon{a} r-cran-curl{a} r-cran-dbi{a} r-cran-dbplyr{a} r-cran-desc{a} r-cran-diffobj{a} r-cran-digest{a} r-cran-dplyr{a} r-cran-ellipsis{a} r-cran-evaluate{a} r-cran-fansi{a} r-cran-farver{a} r-cran-fastcluster{a} r-cran-fastmap{a} r-cran-findpython{a} r-cran-formatr{a} r-cran-futile.logger{a} r-cran-futile.options{a} r-cran-gdata{a} r-cran-generics{a} r-cran-ggplot2{a} r-cran-glue{a} r-cran-gplots{a} r-cran-gtable{a} r-cran-gtools{a} r-cran-hms{a} r-cran-httr{a} r-cran-hwriter{a} r-cran-isoband{a} r-cran-jsonlite{a} r-cran-kernsmooth{a} r-cran-labeling{a} r-cran-lambda.r{a} r-cran-lattice{a} r-cran-lifecycle{a} r-cran-littler{a} r-cran-locfit{a} r-cran-magrittr{a} r-cran-mass{a} r-cran-matrix{a} r-cran-matrixstats{a} r-cran-memoise{a} r-cran-mgcv{a} r-cran-mime{a} r-cran-munsell{a} r-cran-nlme{a} r-cran-openssl{a} r-cran-pillar{a} r-cran-pkgbuild{a} r-cran-pkgconfig{a} r-cran-pkgkitten{a} r-cran-pkgload{a} r-cran-plogr{a} r-cran-plyr{a} r-cran-praise{a} r-cran-prettyunits{a} r-cran-processx{a} r-cran-progress{a} r-cran-ps{a} r-cran-purrr{a} r-cran-r6{a} r-cran-rappdirs{a} r-cran-rcolorbrewer{a} r-cran-rcpp{a} r-cran-rcpparmadillo{a} r-cran-rcurl{a} r-cran-readr{a} r-cran-rematch2{a} r-cran-reshape2{a} r-cran-rlang{a} r-cran-rprojroot{a} r-cran-rsqlite{a} r-cran-rstudioapi{a} r-cran-scales{a} r-cran-snow{a} r-cran-statmod{a} r-cran-stringi{a} r-cran-stringr{a} r-cran-survival{a} r-cran-sys{a} r-cran-testthat{a} r-cran-tibble{a} r-cran-tidyselect{a} r-cran-utf8{a} r-cran-vctrs{a} r-cran-viridislite{a} r-cran-waldo{a} r-cran-withr{a} r-cran-xml{a} r-cran-xml2{a} r-cran-xtable{a} readline-common{a} sensible-utils{a} subread{a} tabix{a} ucf{a} unzip{a} wdiff{a} x11-common{a} xdg-utils{a} zip{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: alsa-topology-conf alsa-ucm-conf bcftools curl dbus debian-keyring dput dput-ng dupload equivs fonts-dejavu-extra javascript-common libarchive-cpio-perl libatk-wrapper-java-jni libclass-xsaccessor-perl libclone-perl libdata-dump-perl libdistro-info-perl libfile-mimeinfo-perl libgit-wrapper-perl libgitlab-api-v4-perl libglib2.0-data libgpm2 libhtml-form-perl libhtml-format-perl libhttp-daemon-perl libjansi-java libldap-common liblist-compare-perl libltdl-dev libmail-sendmail-perl libmailtools-perl libnamespace-clean-perl libnet-dbus-perl libsasl2-modules libsoap-lite-perl libstring-shellquote-perl libsub-name-perl libx11-protocol-perl libxt-dev licensecheck lintian lynx mesa-vulkan-drivers pristine-tar psmisc publicsuffix python3-apt python3-debian python3-magic python3-requests python3-unidiff python3-xdg r-base-dev r-bioc-glmgampoi r-bioc-org.hs.eg.db r-bioc-shortread r-cran-abind r-cran-batchjobs r-cran-batchtools r-cran-class r-cran-cliapp r-cran-codetools r-cran-data.table r-cran-dbitest r-cran-decor r-cran-domc r-cran-doparallel r-cran-hexbin r-cran-htmltools r-cran-htmlwidgets r-cran-httpuv r-cran-knitr r-cran-lubridate r-cran-mapproj r-cran-mockery r-cran-mockr r-cran-quantreg r-cran-rmarkdown r-cran-rmpi r-cran-rmysql r-cran-rpostgresql r-cran-runit r-cran-sodium r-cran-sp r-cran-testit r-cran-tidyr r-cran-vdiffr r-cran-webutils r-doc-html r-recommended samtools shared-mime-info strace wget x11-utils x11-xserver-utils xdg-user-dirs 0 packages upgraded, 483 newly installed, 0 to remove and 0 not upgraded. Need to get 562 MB of archives. After unpacking 1367 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/21678 and its subdirectories trinityrnaseq failed to build from source. removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/bullseye/i386/trinityrnaseq_2.11.0+dfsg-6.rbuild.log' removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/bullseye/i386/trinityrnaseq_2.11.0+dfsg-6.rbuild.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/bullseye/i386/trinityrnaseq_2.11.0+dfsg-6.build1.log.gz' Mon Nov 25 09:02:46 UTC 2024 W: No second build log, what happened? Compressing the 1st log... b1/build.log: 79.0% -- replaced with stdout Mon Nov 25 09:02:46 UTC 2024 W: Downloading the build dependencies failed Mon Nov 25 09:02:46 UTC 2024 W: Maybe there was a network problem, or the build dependencies are currently uninstallable; consider filing a bug in the last case. Mon Nov 25 09:02:46 UTC 2024 W: Network problems are automatically rescheduled after some hours. INSERT 0 1 INSERT 0 1 DELETE 1 [2024-11-25 09:02:46] INFO: Starting at 2024-11-25 09:02:46.937130 [2024-11-25 09:02:47] INFO: Generating the pages of 1 package(s) [2024-11-25 09:02:48] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/armhf/trinityrnaseq_2.15.2+dfsg-1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/armhf/trinityrnaseq_2.15.2+dfsg-1.diff.gz is missing [2024-11-25 09:02:48] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/i386/trinityrnaseq_2.15.2+dfsg-1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/i386/trinityrnaseq_2.15.2+dfsg-1.diff.gz is missing [2024-11-25 09:02:48] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/trixie/armhf/trinityrnaseq_2.15.2+dfsg-1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/armhf/trinityrnaseq_2.15.2+dfsg-1.diff.gz is missing [2024-11-25 09:02:48] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/trixie/i386/trinityrnaseq_2.15.2+dfsg-1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/i386/trinityrnaseq_2.15.2+dfsg-1.diff.gz is missing [2024-11-25 09:02:48] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/bullseye/armhf/trinityrnaseq_2.11.0+dfsg-6.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/bullseye/armhf/trinityrnaseq_2.11.0+dfsg-6.diff.gz is missing [2024-11-25 09:02:48] CRITICAL: https://tests.reproducible-builds.org/debian/bullseye/i386/trinityrnaseq didn't produce a buildlog, even though it has been built. [2024-11-25 09:02:48] INFO: Finished at 2024-11-25 09:02:48.400733, took: 0:00:01.463609 Mon Nov 25 09:02:48 UTC 2024 - successfully updated the database and updated https://tests.reproducible-builds.org/debian/rb-pkg/bullseye/i386/trinityrnaseq.html Starting cleanup. /var/lib/jenkins/userContent/reproducible/debian/rbuild/bullseye/i386/trinityrnaseq_2.11.0+dfsg-6.rbuild.log: 76.8% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/rbuild/bullseye/i386/trinityrnaseq_2.11.0+dfsg-6.rbuild.log.gz [2024-11-25 09:02:48] INFO: Starting at 2024-11-25 09:02:48.794325 [2024-11-25 09:02:48] INFO: Generating the pages of 1 package(s) [2024-11-25 09:02:50] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/armhf/trinityrnaseq_2.15.2+dfsg-1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/armhf/trinityrnaseq_2.15.2+dfsg-1.diff.gz is missing [2024-11-25 09:02:50] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/i386/trinityrnaseq_2.15.2+dfsg-1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/i386/trinityrnaseq_2.15.2+dfsg-1.diff.gz is missing [2024-11-25 09:02:50] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/trixie/armhf/trinityrnaseq_2.15.2+dfsg-1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/armhf/trinityrnaseq_2.15.2+dfsg-1.diff.gz is missing [2024-11-25 09:02:50] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/trixie/i386/trinityrnaseq_2.15.2+dfsg-1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/i386/trinityrnaseq_2.15.2+dfsg-1.diff.gz is missing [2024-11-25 09:02:50] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/bullseye/armhf/trinityrnaseq_2.11.0+dfsg-6.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/bullseye/armhf/trinityrnaseq_2.11.0+dfsg-6.diff.gz is missing [2024-11-25 09:02:50] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/bullseye/i386/trinityrnaseq_2.11.0+dfsg-6.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/bullseye/i386/trinityrnaseq_2.11.0+dfsg-6.diff.gz is missing [2024-11-25 09:02:50] INFO: Finished at 2024-11-25 09:02:50.180174, took: 0:00:01.385854 All cleanup done. Mon Nov 25 09:02:50 UTC 2024 - total duration: 0h 0m 58s. Mon Nov 25 09:02:50 UTC 2024 - reproducible_build.sh stopped running as /tmp/jenkins-script-iomGDaU6, removing. Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 1min 1.440s CPU time consumed: 6.970s