Thu Nov 14 01:03:59 UTC 2024 I: starting to build qcumber/trixie/armhf on jenkins on '2024-11-14 01:03' Thu Nov 14 01:03:59 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/armhf_2/9100/console.log Thu Nov 14 01:03:59 UTC 2024 I: Downloading source for trixie/qcumber=2.3.0-2 --2024-11-14 01:03:59-- http://deb.debian.org/debian/pool/main/q/qcumber/qcumber_2.3.0-2.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2027 (2.0K) [text/prs.lines.tag] Saving to: ‘qcumber_2.3.0-2.dsc’ 0K . 100% 192M=0s 2024-11-14 01:03:59 (192 MB/s) - ‘qcumber_2.3.0-2.dsc’ saved [2027/2027] Thu Nov 14 01:03:59 UTC 2024 I: qcumber_2.3.0-2.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: qcumber Binary: qcumber Architecture: all Version: 2.3.0-2 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://gitlab.com/RKIBioinformaticsPipelines/QCumber Standards-Version: 4.5.1 Vcs-Browser: https://salsa.debian.org/med-team/qcumber Vcs-Git: https://salsa.debian.org/med-team/qcumber.git Build-Depends: debhelper-compat (= 13), dh-python, python3-all, python3-setuptools, fastqc, trimmomatic, bowtie2, kraken, texlive-latex-base Package-List: qcumber deb science optional arch=all Checksums-Sha1: 7fb82fccdbd84d093993b3eebb14aaec1b58a4b7 262470 qcumber_2.3.0.orig.tar.gz 996d3497769862e4686f2a17b26a58e12b535c23 127048 qcumber_2.3.0-2.debian.tar.xz Checksums-Sha256: 36ec44df8ef1ce038de4164b96992d46bbc5ad3144c9b246f06d91dacdc014cb 262470 qcumber_2.3.0.orig.tar.gz 448fda5aa4aee5bf919fc5371fb40b160a2b2c19c905e330f7613af62b0130fd 127048 qcumber_2.3.0-2.debian.tar.xz Files: 0d775c2cb4a97d0a8eefb337b2b2209a 262470 qcumber_2.3.0.orig.tar.gz 5c31ca7a254eef63d3a2c937c678be2e 127048 qcumber_2.3.0-2.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAl/7gogACgkQeTz2fo8N EdooNA/7BE8kXfIIxxWSXhKhg/pIibCwF/KPJ67Sl4EiMU3LM+nI/BBHGsR5xm/1 Zfss5dyD9Kyr1vdJoxWQHCNvmVw/XH4OTQIqDKBlRl4q0kzVe2Y7XZJ3rEiTBgpx Pd+xrprNh4J0C0oISADOdb2LJ4NFM7ipuUDbm/VuAWreNEkaCitz6e6rfAb2Czbb awJa9hGLMEncuePePnOcEvAQ/2S6t3R7rJ3dE48s7gKA/+bV/kCp4JZIV73w+jWf fKnImO+OixdBrLtkoX0vz1sE622kl+AJ7XN8fkWTJsvuCAVxzE522cgk7yhD8NGK OX9eJoW73nGnPdov03DuGpfJNMKzWf419/eIlU0a2Ep9BmExGOumkVY9jq9M4QIJ 6HTQ8boRZDNQGnz18Ua8hQFSxUYUjJcbPMY4D3EukcVVN5HDIieNWizBYv3VvMZf c8C+erDk02DV2TbnN2aXRtH7TR69qUEfX95oM+9yjrExFd2iiboeY7NhOvEaAFPc 8vs9lq8c9GWr0ANvYq6MIkIJbm+vDaoRMVkCaKYvnROD5YHZjuXTuRhbodQAhivg mb0gEkpENeeixxFZJSNOWNDWgJI7v9IE02tNV5nteSuOMpP1TI4tkrPCEdXqG8Q9 Vw/ybAQNPnUqj/g/cz7ogRjZ9OI5j9yFwby6uH3Ok45s+yW7Nzw= =eoBu -----END PGP SIGNATURE----- Thu Nov 14 01:03:59 UTC 2024 I: Checking whether the package is not for us Thu Nov 14 01:03:59 UTC 2024 I: Starting 1st build on remote node virt32a-armhf-rb.debian.net. Thu Nov 14 01:03:59 UTC 2024 I: Preparing to do remote build '1' on virt32a-armhf-rb.debian.net. Thu Nov 14 01:04:40 UTC 2024 I: Deleting $TMPDIR on virt32a-armhf-rb.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Wed Nov 13 13:04:06 -12 2024 I: pbuilder-time-stamp: 1731546246 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: Copying source file I: copying [qcumber_2.3.0-2.dsc] I: copying [./qcumber_2.3.0.orig.tar.gz] I: copying [./qcumber_2.3.0-2.debian.tar.xz] I: Extracting source gpgv: Signature made Sun Jan 10 22:41:12 2021 gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./qcumber_2.3.0-2.dsc: no acceptable signature found dpkg-source: info: extracting qcumber in qcumber-2.3.0 dpkg-source: info: unpacking qcumber_2.3.0.orig.tar.gz dpkg-source: info: unpacking qcumber_2.3.0-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying check_fasta.patch dpkg-source: info: applying make_executable.patch dpkg-source: info: applying fix_html_file_licenses.patch dpkg-source: info: applying add-python-shebang.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/3571/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='armhf' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=3 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='armhf' IFS=' ' INVOCATION_ID='ec3122fd4bca4d428e56d7a9fef3e631' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' 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='3571' 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.sDWIkkKD/pbuilderrc_c2Wn --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.sDWIkkKD/b1 --logfile b1/build.log qcumber_2.3.0-2.dsc' SUDO_GID='113' SUDO_UID='107' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://10.0.0.15:3142/' I: uname -a Linux virt32a 6.1.0-27-armmp-lpae #1 SMP Debian 6.1.115-1 (2024-11-01) armv7l GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 4 21:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/3571/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: armhf 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-python, python3-all, python3-setuptools, fastqc, trimmomatic, bowtie2, kraken, texlive-latex-base dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19692 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-python; however: Package dh-python is not installed. pbuilder-satisfydepends-dummy depends on python3-all; however: Package python3-all is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on fastqc; however: Package fastqc is not installed. pbuilder-satisfydepends-dummy depends on trimmomatic; however: Package trimmomatic is not installed. pbuilder-satisfydepends-dummy depends on bowtie2; however: Package bowtie2 is not installed. pbuilder-satisfydepends-dummy depends on kraken; however: Package kraken is not installed. pbuilder-satisfydepends-dummy depends on texlive-latex-base; however: Package texlive-latex-base 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: adwaita-icon-theme{a} at-spi2-common{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} ca-certificates{a} ca-certificates-java{a} dbus{a} dbus-bin{a} dbus-daemon{a} dbus-session-bus-common{a} dbus-system-bus-common{a} dbus-user-session{a} dconf-gsettings-backend{a} dconf-service{a} debhelper{a} default-jre{a} default-jre-headless{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} fonts-lmodern{a} gettext{a} gettext-base{a} groff-base{a} gtk-update-icon-cache{a} hicolor-icon-theme{a} intltool-debian{a} java-common{a} libapparmor1{a} libarchive-zip-perl{a} libasound2-data{a} libasound2t64{a} libatk-bridge2.0-0t64{a} libatk1.0-0t64{a} libatspi2.0-0t64{a} libavahi-client3{a} libavahi-common-data{a} libavahi-common3{a} libbrotli1{a} libcairo-gobject2{a} libcairo2{a} libcloudproviders0{a} libcolord2{a} libcom-err2{a} libcups2t64{a} libdatrie1{a} libdbus-1-3{a} libdconf1{a} libdebhelper-perl{a} libdeflate0{a} libdrm-amdgpu1{a} libdrm-common{a} libdrm-radeon1{a} libdrm2{a} libedit2{a} libelf1t64{a} libepoxy0{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgbm1{a} libgdk-pixbuf-2.0-0{a} libgdk-pixbuf2.0-common{a} libgif7{a} libgl1{a} libgl1-mesa-dri{a} libglapi-mesa{a} libglib2.0-0t64{a} libglvnd0{a} libglx-mesa0{a} libglx0{a} libgraphite2-3{a} libgssapi-krb5-2{a} libgtk-3-0t64{a} libgtk-3-common{a} libharfbuzz0b{a} libice6{a} libicu72{a} libjbig0{a} libjbzip2-java{a} libjpeg62-turbo{a} libk5crypto3{a} libkeyutils1{a} libkpathsea6{a} libkrb5-3{a} libkrb5support0{a} liblcms2-2{a} liblerc4{a} libllvm19{a} libmagic-mgc{a} libmagic1t64{a} libmpfi0{a} libnsl2{a} libnspr4{a} libnss3{a} libpam-systemd{a} libpango-1.0-0{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libpaper-utils{a} libpaper1{a} libpcsclite1{a} libpipeline1{a} libpixman-1-0{a} libpng16-16t64{a} libpotrace0{a} libproc2-0{a} libptexenc1{a} libpython3-stdlib{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libreadline8t64{a} libsensors-config{a} libsensors5{a} libsharpyuv0{a} libsm6{a} libsynctex2{a} libsystemd-shared{a} libteckit0{a} libtexlua53-5{a} libthai-data{a} libthai0{a} libtiff6{a} libtirpc-common{a} libtirpc3t64{a} libtool{a} libuchardet0{a} libvulkan1{a} libwayland-client0{a} libwayland-cursor0{a} libwayland-egl1{a} libwayland-server0{a} libwebp7{a} libx11-6{a} libx11-data{a} libx11-xcb1{a} libxau6{a} libxaw7{a} libxcb-dri2-0{a} libxcb-dri3-0{a} libxcb-glx0{a} libxcb-present0{a} libxcb-randr0{a} libxcb-render0{a} libxcb-shm0{a} libxcb-sync1{a} libxcb-xfixes0{a} libxcb1{a} libxcomposite1{a} libxcursor1{a} libxdamage1{a} libxdmcp6{a} libxext6{a} libxfixes3{a} libxi6{a} libxinerama1{a} libxkbcommon0{a} libxml2{a} libxmu6{a} libxpm4{a} libxrandr2{a} libxrender1{a} libxshmfence1{a} libxt6t64{a} libxtst6{a} libxxf86vm1{a} libz3-4{a} libzzip-0-13t64{a} m4{a} man-db{a} media-types{a} mesa-libgallium{a} netbase{a} openjdk-21-jre{a} openjdk-21-jre-headless{a} openssl{a} po-debconf{a} procps{a} python3{a} python3-all{a} python3-autocommand{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-minimal{a} python3-more-itertools{a} python3-pkg-resources{a} python3-setuptools{a} python3-typeguard{a} python3-typing-extensions{a} python3-zipp{a} python3.12{a} python3.12-minimal{a} readline-common{a} sensible-utils{a} shared-mime-info{a} systemd{a} systemd-sysv{a} t1utils{a} tex-common{a} texlive-base{a} texlive-binaries{a} texlive-latex-base{a} trimmomatic{a} tzdata{a} ucf{a} x11-common{a} xdg-utils{a} xkb-data{a} The following packages are RECOMMENDED but will NOT be installed: alsa-topology-conf alsa-ucm-conf at-spi2-core chrony curl dvisvgm fonts-dejavu-extra krb5-locales libarchive-cpio-perl libatk-wrapper-java-jni libfile-mimeinfo-perl libgdk-pixbuf2.0-bin libglib2.0-data libgtk-3-bin libkmod2 libltdl-dev libmail-sendmail-perl libnet-dbus-perl libnss-systemd librsvg2-common libx11-protocol-perl linux-sysctl-defaults lmodern lynx mesa-vulkan-drivers ntpsec openntpd psmisc systemd-cryptsetup systemd-timesyncd wget x11-utils x11-xserver-utils xdg-user-dirs 0 packages upgraded, 220 newly installed, 0 to remove and 0 not upgraded. Need to get 171 MB of archives. After unpacking 665 MB will be used. The following packages have unmet dependencies: pbuilder-satisfydepends-dummy : Depends: fastqc but it is not installable Depends: bowtie2 which is a virtual package and is not provided by any available package Depends: kraken 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: adwaita-icon-theme{a} at-spi2-common{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} ca-certificates{a} ca-certificates-java{a} dbus{a} dbus-bin{a} dbus-daemon{a} dbus-session-bus-common{a} dbus-system-bus-common{a} dbus-user-session{a} dconf-gsettings-backend{a} dconf-service{a} debhelper{a} default-jre{a} default-jre-headless{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} fonts-lmodern{a} gettext{a} gettext-base{a} groff-base{a} gtk-update-icon-cache{a} hicolor-icon-theme{a} intltool-debian{a} java-common{a} libapparmor1{a} libarchive-zip-perl{a} libasound2-data{a} libasound2t64{a} libatk-bridge2.0-0t64{a} libatk1.0-0t64{a} libatspi2.0-0t64{a} libavahi-client3{a} libavahi-common-data{a} libavahi-common3{a} libbrotli1{a} libcairo-gobject2{a} libcairo2{a} libcloudproviders0{a} libcolord2{a} libcom-err2{a} libcups2t64{a} libdatrie1{a} libdbus-1-3{a} libdconf1{a} libdebhelper-perl{a} libdeflate0{a} libdrm-amdgpu1{a} libdrm-common{a} libdrm-radeon1{a} libdrm2{a} libedit2{a} libelf1t64{a} libepoxy0{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgbm1{a} libgdk-pixbuf-2.0-0{a} libgdk-pixbuf2.0-common{a} libgif7{a} libgl1{a} libgl1-mesa-dri{a} libglapi-mesa{a} libglib2.0-0t64{a} libglvnd0{a} libglx-mesa0{a} libglx0{a} libgraphite2-3{a} libgssapi-krb5-2{a} libgtk-3-0t64{a} libgtk-3-common{a} libharfbuzz0b{a} libice6{a} libicu72{a} libjbig0{a} libjbzip2-java{a} libjpeg62-turbo{a} libk5crypto3{a} libkeyutils1{a} libkpathsea6{a} libkrb5-3{a} libkrb5support0{a} liblcms2-2{a} liblerc4{a} libllvm19{a} libmagic-mgc{a} libmagic1t64{a} libmpfi0{a} libnsl2{a} libnspr4{a} libnss3{a} libpam-systemd{a} libpango-1.0-0{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libpaper-utils{a} libpaper1{a} libpcsclite1{a} libpipeline1{a} libpixman-1-0{a} libpng16-16t64{a} libpotrace0{a} libproc2-0{a} libptexenc1{a} libpython3-stdlib{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libreadline8t64{a} libsensors-config{a} libsensors5{a} libsharpyuv0{a} libsm6{a} libsynctex2{a} libsystemd-shared{a} libteckit0{a} libtexlua53-5{a} libthai-data{a} libthai0{a} libtiff6{a} libtirpc-common{a} libtirpc3t64{a} libtool{a} libuchardet0{a} libvulkan1{a} libwayland-client0{a} libwayland-cursor0{a} libwayland-egl1{a} libwayland-server0{a} libwebp7{a} libx11-6{a} libx11-data{a} libx11-xcb1{a} libxau6{a} libxaw7{a} libxcb-dri2-0{a} libxcb-dri3-0{a} libxcb-glx0{a} libxcb-present0{a} libxcb-randr0{a} libxcb-render0{a} libxcb-shm0{a} libxcb-sync1{a} libxcb-xfixes0{a} libxcb1{a} libxcomposite1{a} libxcursor1{a} libxdamage1{a} libxdmcp6{a} libxext6{a} libxfixes3{a} libxi6{a} libxinerama1{a} libxkbcommon0{a} libxml2{a} libxmu6{a} libxpm4{a} libxrandr2{a} libxrender1{a} libxshmfence1{a} libxt6t64{a} libxtst6{a} libxxf86vm1{a} libz3-4{a} libzzip-0-13t64{a} m4{a} man-db{a} media-types{a} mesa-libgallium{a} netbase{a} openjdk-21-jre{a} openjdk-21-jre-headless{a} openssl{a} po-debconf{a} procps{a} python3{a} python3-all{a} python3-autocommand{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-minimal{a} python3-more-itertools{a} python3-pkg-resources{a} python3-setuptools{a} python3-typeguard{a} python3-typing-extensions{a} python3-zipp{a} python3.12{a} python3.12-minimal{a} readline-common{a} sensible-utils{a} shared-mime-info{a} systemd{a} systemd-sysv{a} t1utils{a} tex-common{a} texlive-base{a} texlive-binaries{a} texlive-latex-base{a} trimmomatic{a} tzdata{a} ucf{a} x11-common{a} xdg-utils{a} xkb-data{a} The following packages are RECOMMENDED but will NOT be installed: alsa-topology-conf alsa-ucm-conf at-spi2-core chrony curl dvisvgm fonts-dejavu-extra krb5-locales libarchive-cpio-perl libatk-wrapper-java-jni libfile-mimeinfo-perl libgdk-pixbuf2.0-bin libglib2.0-data libgtk-3-bin libkmod2 libltdl-dev libmail-sendmail-perl libnet-dbus-perl libnss-systemd librsvg2-common libx11-protocol-perl linux-sysctl-defaults lmodern lynx mesa-vulkan-drivers ntpsec openntpd psmisc systemd-cryptsetup systemd-timesyncd wget x11-utils x11-xserver-utils xdg-user-dirs 0 packages upgraded, 220 newly installed, 0 to remove and 0 not upgraded. Need to get 171 MB of archives. After unpacking 665 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/3571 and its subdirectories Thu Nov 14 01:04:43 UTC 2024 W: No second build log, what happened? Thu Nov 14 01:04:43 UTC 2024 W: Downloading the build dependencies failed Thu Nov 14 01:04:43 UTC 2024 W: Maybe there was a network problem, or the build dependencies are currently uninstallable; consider filing a bug in the last case. Thu Nov 14 01:04:43 UTC 2024 W: Network problems are automatically rescheduled after some hours.