Sun Jul 7 01:29:55 UTC 2024 I: starting to build srst2/trixie/armhf on jenkins on '2024-07-07 01:29' Sun Jul 7 01:29:55 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/armhf_17/8431/console.log Sun Jul 7 01:29:55 UTC 2024 I: Downloading source for trixie/srst2=0.2.0-12 --2024-07-07 01:29:55-- http://deb.debian.org/debian/pool/main/s/srst2/srst2_0.2.0-12.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2153 (2.1K) [text/prs.lines.tag] Saving to: ‘srst2_0.2.0-12.dsc’ 0K .. 100% 296M=0s 2024-07-07 01:29:55 (296 MB/s) - ‘srst2_0.2.0-12.dsc’ saved [2153/2153] Sun Jul 7 01:29:55 UTC 2024 I: srst2_0.2.0-12.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: srst2 Binary: srst2 Architecture: any Version: 0.2.0-12 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille , Étienne Mollier Homepage: https://katholt.github.io/srst2/ Standards-Version: 4.7.0 Vcs-Browser: https://salsa.debian.org/med-team/srst2 Vcs-Git: https://salsa.debian.org/med-team/srst2.git Testsuite: autopkgtest Testsuite-Triggers: python3-mock Build-Depends: debhelper-compat (= 13), dh-sequence-python3, python3, python3-setuptools, discount , dos2unix, python3-scipy , bowtie2 , samtools Package-List: srst2 deb science optional arch=any Checksums-Sha1: b10c53e3a16271e4506ce253200410884b02679a 1380071 srst2_0.2.0.orig.tar.gz a9a59242e6f57c4840805a45f1a8fdf1b49861d8 17948 srst2_0.2.0-12.debian.tar.xz Checksums-Sha256: 352c59bdf00039dfa5610a4b88049a0eb114d7c2a305d4924b6e605cc6d15123 1380071 srst2_0.2.0.orig.tar.gz b6d8dbadd53e2623cb8993e7724830e718cb88977ed5fe40bfb40ab4e3ed0e30 17948 srst2_0.2.0-12.debian.tar.xz Files: ef447fc394d2f60adc2a32edd6ebe374 1380071 srst2_0.2.0.orig.tar.gz 838175139f0a92b93ffe9fe18f3027d5 17948 srst2_0.2.0-12.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJGBAEBCgAwFiEEc0cUmcxg7Z7ugFlGxb1sjyKV1QIFAmZrlSkSHHBsZXNzeUBk ZWJpYW4ub3JnAAoJEMW9bI8ildUCY+IQAI7DedFIRPQ99yBJ8DPSaOo7I7xddrpE X8YxaKmh2SaA7xsTLh5/IwMRm/Lu2jh9zqgPwNRj4B6CcANN2RlxLxFnUMfQ0pm2 ZNEcpT+S68cG32+YSnZt7mhK5Gtnbx2/nAuZyZr4w+sfK5zoooODx26ZSUr00GSn toChB3gz0NVCEed93NaxkMZblPOB1fz9MtdK5HhwfT9ySEbFKWbow4Y5D2oQ8SP0 vhwBH8bJ85JghYqbvoNdw96/TbkywXmVlqRDqeff4a5H68K5DDQb4CLQQUJnlaG1 WdoSaAfNniRE4bzoRsY7ke7Ra4RGxK3k9wBrl3xEPEP9ZSJ2+g7FvEGs1lQobRON 28HhLmHwEGHyGodsKZ8YxXNSrN3oD8s63kbbFhy8xYQ75GhlVNDtrqtCSiroSLxM NoO9m5czQnBcH6tVs9ZnpQgzRPiOFgk1vDerrcn/TgufiVukAQhQrjgwbNRgvz42 H47ozStdGu75R0pR5/jLINWq40qho6Slfz9WKVh0l0s+iulzK47JZZ90fkbUNtIL WntIow7YTa4qJXrsCDUtIKb8bOqiUmaDZrWWKSPx2iZx6CAgpwIvwA/hPsOGCRQO WczPl7qNYLDgi2fsuJxjkl7ype1r6YyFDyU4BNrXCH+oimzUdVFFNVvufCk+Rbg6 WKkDhawTVXUo =1TAv -----END PGP SIGNATURE----- Sun Jul 7 01:29:55 UTC 2024 I: Checking whether the package is not for us Sun Jul 7 01:29:55 UTC 2024 I: Starting 1st build on remote node virt32b-armhf-rb.debian.net. Sun Jul 7 01:29:55 UTC 2024 I: Preparing to do remote build '1' on virt32b-armhf-rb.debian.net. Sun Jul 7 01:30:34 UTC 2024 I: Deleting $TMPDIR on virt32b-armhf-rb.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sat Jul 6 13:30:02 -12 2024 I: pbuilder-time-stamp: 1720315802 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 [srst2_0.2.0-12.dsc] I: copying [./srst2_0.2.0.orig.tar.gz] I: copying [./srst2_0.2.0-12.debian.tar.xz] I: Extracting source gpgv: Signature made Fri Jun 14 00:56:09 2024 gpgv: using RSA key 73471499CC60ED9EEE805946C5BD6C8F2295D502 gpgv: issuer "plessy@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./srst2_0.2.0-12.dsc: no acceptable signature found dpkg-source: info: extracting srst2 in srst2-0.2.0 dpkg-source: info: unpacking srst2_0.2.0.orig.tar.gz dpkg-source: info: unpacking srst2_0.2.0-12.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying check_command_line_arguments.patch dpkg-source: info: applying add_usr_bin_python_to_scripts.patch dpkg-source: info: applying fix_test.patch dpkg-source: info: applying fix_grep_call.patch dpkg-source: info: applying 2to3.patch dpkg-source: info: applying biopython-1.78.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/19279/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='e0a9a56eb5184c36939e8f7e6bb67227' 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='19279' 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.8n64DV7V/pbuilderrc_Riyx --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.8n64DV7V/b1 --logfile b1/build.log srst2_0.2.0-12.dsc' SUDO_GID='112' SUDO_UID='106' 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 virt32b 6.1.0-22-armmp-lpae #1 SMP Debian 6.1.94-1 (2024-06-21) armv7l GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Jun 5 22:35 /bin -> usr/bin I: user script /srv/workspace/pbuilder/19279/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-sequence-python3, python3, python3-setuptools, discount, dos2unix, python3-scipy, bowtie2, samtools dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19412 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-sequence-python3; however: Package dh-sequence-python3 is not installed. pbuilder-satisfydepends-dummy depends on python3; however: Package python3 is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on discount; however: Package discount is not installed. pbuilder-satisfydepends-dummy depends on dos2unix; however: Package dos2unix is not installed. pbuilder-satisfydepends-dummy depends on python3-scipy; however: Package python3-scipy is not installed. pbuilder-satisfydepends-dummy depends on bowtie2; however: Package bowtie2 is not installed. pbuilder-satisfydepends-dummy depends on samtools; however: Package samtools is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} discount{a} dos2unix{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libblas3{a} libbrotli1{a} libcom-err2{a} libcurl3t64-gnutls{a} libdebhelper-perl{a} libdeflate0{a} libelf1t64{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libgssapi-krb5-2{a} libhts3t64{a} libhtscodecs2{a} libicu72{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblapack3{a} liblbfgsb0{a} libldap-2.5-0{a} libmagic-mgc{a} libmagic1t64{a} libmarkdown2{a} libncurses6{a} libnghttp2-14{a} libpipeline1{a} libpsl5t64{a} libpython3-stdlib{a} libpython3.11-minimal{a} libpython3.11-stdlib{a} libreadline8t64{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1t64{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} media-types{a} netbase{a} po-debconf{a} python3{a} python3-decorator{a} python3-distutils{a} python3-lib2to3{a} python3-minimal{a} python3-numpy{a} python3-pkg-resources{a} python3-scipy{a} python3-setuptools{a} python3.11{a} python3.11-minimal{a} readline-common{a} samtools{a} sensible-utils{a} tzdata{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl krb5-locales libarchive-cpio-perl libgpm2 libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx publicsuffix python3-pil wget 0 packages upgraded, 77 newly installed, 0 to remove and 0 not upgraded. Need to get 53.5 MB of archives. After unpacking 214 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 Unable to resolve dependencies! Giving up... The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} discount{a} dos2unix{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libblas3{a} libbrotli1{a} libcom-err2{a} libcurl3t64-gnutls{a} libdebhelper-perl{a} libdeflate0{a} libelf1t64{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libgssapi-krb5-2{a} libhts3t64{a} libhtscodecs2{a} libicu72{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblapack3{a} liblbfgsb0{a} libldap-2.5-0{a} libmagic-mgc{a} libmagic1t64{a} libmarkdown2{a} libncurses6{a} libnghttp2-14{a} libpipeline1{a} libpsl5t64{a} libpython3-stdlib{a} libpython3.11-minimal{a} libpython3.11-stdlib{a} libreadline8t64{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1t64{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} media-types{a} netbase{a} po-debconf{a} python3{a} python3-decorator{a} python3-distutils{a} python3-lib2to3{a} python3-minimal{a} python3-numpy{a} python3-pkg-resources{a} python3-scipy{a} python3-setuptools{a} python3.11{a} python3.11-minimal{a} readline-common{a} samtools{a} sensible-utils{a} tzdata{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl krb5-locales libarchive-cpio-perl libgpm2 libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx publicsuffix python3-pil wget 0 packages upgraded, 77 newly installed, 0 to remove and 0 not upgraded. Need to get 53.5 MB of archives. After unpacking 214 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/19279 and its subdirectories Sun Jul 7 01:30:37 UTC 2024 W: No second build log, what happened? Sun Jul 7 01:30:37 UTC 2024 W: Downloading the build dependencies failed Sun Jul 7 01:30:37 UTC 2024 W: Maybe there was a network problem, or the build dependencies are currently uninstallable; consider filing a bug in the last case. Sun Jul 7 01:30:37 UTC 2024 W: Network problems are automatically rescheduled after some hours.