Sun Sep 26 16:25:13 UTC 2021 I: starting to build paleomix/buster/i386 on jenkins on '2021-09-26 16:24' Sun Sep 26 16:25:13 UTC 2021 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/i386_1/111/console.log Sun Sep 26 16:25:13 UTC 2021 I: Downloading source for buster/paleomix=1.2.13.3-1 --2021-09-26 16:25:15-- http://deb.debian.org/debian/pool/main/p/paleomix/paleomix_1.2.13.3-1.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2151 (2.1K) Saving to: ‘paleomix_1.2.13.3-1.dsc’ 0K .. 100% 136M=0s 2021-09-26 16:25:15 (136 MB/s) - ‘paleomix_1.2.13.3-1.dsc’ saved [2151/2151] Sun Sep 26 16:25:15 UTC 2021 I: paleomix_1.2.13.3-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: paleomix Binary: paleomix Architecture: any Version: 1.2.13.3-1 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: http://geogenetics.ku.dk/publications/paleomix Standards-Version: 4.2.1 Vcs-Browser: https://salsa.debian.org/med-team/paleomix Vcs-Git: https://salsa.debian.org/med-team/paleomix.git Testsuite: autopkgtest Build-Depends: debhelper (>= 11~), dh-python, python, python-setuptools, python-coverage, python-flexmock, python-nose, python-pysam, python-setproctitle, default-jre-headless, bowtie2, rsync Package-List: paleomix deb science optional arch=any Checksums-Sha1: b622af06935e06cb5ae69d5508e30e708be47584 5149194 paleomix_1.2.13.3.orig.tar.gz 9542287dc0d6a67ed459d4464aa7409f2845424e 11184 paleomix_1.2.13.3-1.debian.tar.xz Checksums-Sha256: 6a49cef2d42350cbc239bd6a23c5eefad79f23bd586a22b85b3a8a04ed5b0d6e 5149194 paleomix_1.2.13.3.orig.tar.gz 9452bf09617105b2a4b6a675a83e043d1c058ccf8a3f8bb890dec85a460e463a 11184 paleomix_1.2.13.3-1.debian.tar.xz Files: b307762da41fcf5c698dba4e88ef1183 5149194 paleomix_1.2.13.3.orig.tar.gz b3605195c37138f160f7cbb9d31ff553 11184 paleomix_1.2.13.3-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAlwXmsgRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtEsdg//Rgc0/l6m3L2pwpXyNjXnqN2R2ZrEflZH 7iUc9+kjud524JnRwfB/8P38mnQ+lona/gvYKiujBgUTEUDluyWvs35/q7n5c5y6 CK4XPWAjlK6cMtwShW4LdHySMxkiVDdj+LwQVtPWl+icxtXDknIoGSqVSPVk01KH WYJiD/ZhmdDFqsxVVVPLF6ksIu6BlToNMyBHkkpgF1xuQyFnhTvlQdYCGFM2yC71 JIRe0L9D+J/Km0Udis6aSPQkM/jIQCsRhCvZJKhrK9pmlrli8/rp/tsL9V9EiFbT u/4UYRfzeQJtZ9hBPNFMuFuyDSlv9ne5VDXsHnQFj5g83cwTSIFSPrU8jWByczvq TLT+DaQ+arknAClPqj7djeKLi30PDganmRmAH5Mcxxy63M363ymTdEevFltfk5ci gNtd+BihhTxfVJjrOH1kVM+WCQspdqZr4pOu3yZR6VMM7x43A8tFahsrGO1xjVi/ m9lPJO15q/+uSzCJoBVyCmN9+yGVBmMMlVeepAy5aTN8Gw5dnIEnvBlmEhM71JT8 fOUb3ecuVdPgiOCHxoBOIKiEKWRI0vLbPbq5Bx//qu87oyq2btnkDLv70tszZT5h ipl6U4cRvpXC7WapjA/ROYJKaNSwjTqdl0vxnxEy4Qoa+4AkOjx30+31eBzFgycP +M91LTuE9cA= =Andd -----END PGP SIGNATURE----- Sun Sep 26 16:25:15 UTC 2021 I: Checking whether the package is not for us Sun Sep 26 16:25:15 UTC 2021 I: Starting 1st build on remote node ionos2-i386.debian.net. Sun Sep 26 16:25:15 UTC 2021 I: Preparing to do remote build '1' on ionos2-i386.debian.net. Sun Sep 26 16:25:58 UTC 2021 I: Deleting $TMPDIR on ionos2-i386.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sun Sep 26 04:25:19 -12 2021 I: pbuilder-time-stamp: 1632673519 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/buster-reproducible-base.tgz] I: copying local configuration 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 [paleomix_1.2.13.3-1.dsc] I: copying [./paleomix_1.2.13.3.orig.tar.gz] I: copying [./paleomix_1.2.13.3-1.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/root/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Mon Dec 17 00:47:04 2018 -12 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./paleomix_1.2.13.3-1.dsc dpkg-source: info: extracting paleomix in paleomix-1.2.13.3 dpkg-source: info: unpacking paleomix_1.2.13.3.orig.tar.gz dpkg-source: info: unpacking paleomix_1.2.13.3-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying avoid_downloading_prerequisites.patch dpkg-source: info: applying avoid_privacy_breach.patch dpkg-source: info: applying adapt_java_calling_test.patch I: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/27763/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='i386' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=8' DISTRIBUTION='' HOME='/root' HOST_ARCH='i386' IFS=' ' INVOCATION_ID='13a46836ee604f6eb4449a2513aa6c9f' 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='27763' 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/tmp.mCPuGhn0m8/pbuilderrc_P3RH --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/buster-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.mCPuGhn0m8/b1 --logfile b1/build.log paleomix_1.2.13.3-1.dsc' SUDO_GID='112' SUDO_UID='107' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://78.137.99.97:3128' I: uname -a Linux ionos2-i386 5.10.0-8-686-pae #1 SMP Debian 5.10.46-4 (2021-08-03) i686 GNU/Linux I: ls -l /bin total 5476 -rwxr-xr-x 1 root root 1302248 Apr 17 2019 bash -rwxr-xr-x 3 root root 38280 Jul 10 2019 bunzip2 -rwxr-xr-x 3 root root 38280 Jul 10 2019 bzcat lrwxrwxrwx 1 root root 6 Jul 10 2019 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2227 Jul 10 2019 bzdiff lrwxrwxrwx 1 root root 6 Jul 10 2019 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Jun 24 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 10 2019 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3641 Jul 10 2019 bzgrep -rwxr-xr-x 3 root root 38280 Jul 10 2019 bzip2 -rwxr-xr-x 1 root root 17768 Jul 10 2019 bzip2recover lrwxrwxrwx 1 root root 6 Jul 10 2019 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 10 2019 bzmore -rwxr-xr-x 1 root root 38692 Feb 28 2019 cat -rwxr-xr-x 1 root root 75588 Feb 28 2019 chgrp -rwxr-xr-x 1 root root 63268 Feb 28 2019 chmod -rwxr-xr-x 1 root root 75588 Feb 28 2019 chown -rwxr-xr-x 1 root root 153732 Feb 28 2019 cp -rwxr-xr-x 1 root root 132820 Jan 17 2019 dash -rwxr-xr-x 1 root root 120676 Feb 28 2019 date -rwxr-xr-x 1 root root 92040 Feb 28 2019 dd -rwxr-xr-x 1 root root 100620 Feb 28 2019 df -rwxr-xr-x 1 root root 149736 Feb 28 2019 dir -rwxr-xr-x 1 root root 79412 Jan 9 2019 dmesg lrwxrwxrwx 1 root root 8 Sep 26 2018 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Sep 26 2018 domainname -> hostname -rwxr-xr-x 1 root root 34532 Feb 28 2019 echo -rwxr-xr-x 1 root root 28 Jan 7 2019 egrep -rwxr-xr-x 1 root root 34532 Feb 28 2019 false -rwxr-xr-x 1 root root 28 Jan 7 2019 fgrep -rwxr-xr-x 1 root root 67700 Jan 9 2019 findmnt -rwsr-xr-x 1 root root 30112 Apr 22 2020 fusermount -rwxr-xr-x 1 root root 206392 Jan 7 2019 grep -rwxr-xr-x 2 root root 2345 Jan 5 2019 gunzip -rwxr-xr-x 1 root root 6375 Jan 5 2019 gzexe -rwxr-xr-x 1 root root 100952 Jan 5 2019 gzip -rwxr-xr-x 1 root root 21916 Sep 26 2018 hostname -rwxr-xr-x 1 root root 79752 Feb 28 2019 ln -rwxr-xr-x 1 root root 55400 Jul 26 2018 login -rwxr-xr-x 1 root root 149736 Feb 28 2019 ls -rwxr-xr-x 1 root root 112032 Jan 9 2019 lsblk -rwxr-xr-x 1 root root 87972 Feb 28 2019 mkdir -rwxr-xr-x 1 root root 79748 Feb 28 2019 mknod -rwxr-xr-x 1 root root 46916 Feb 28 2019 mktemp -rwxr-xr-x 1 root root 42348 Jan 9 2019 more -rwsr-xr-x 1 root root 50592 Jan 9 2019 mount -rwxr-xr-x 1 root root 13724 Jan 9 2019 mountpoint -rwxr-xr-x 1 root root 157832 Feb 28 2019 mv lrwxrwxrwx 1 root root 8 Sep 26 2018 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Feb 14 2019 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 38660 Feb 28 2019 pwd lrwxrwxrwx 1 root root 4 Apr 17 2019 rbash -> bash -rwxr-xr-x 1 root root 46852 Feb 28 2019 readlink -rwxr-xr-x 1 root root 75588 Feb 28 2019 rm -rwxr-xr-x 1 root root 42756 Feb 28 2019 rmdir -rwxr-xr-x 1 root root 22276 Jan 21 2019 run-parts -rwxr-xr-x 1 root root 125036 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 Sep 6 20:24 sh -> dash -rwxr-xr-x 1 root root 34532 Feb 28 2019 sleep -rwxr-xr-x 1 root root 79652 Feb 28 2019 stty -rwsr-xr-x 1 root root 71072 Jan 9 2019 su -rwxr-xr-x 1 root root 34564 Feb 28 2019 sync -rwxr-xr-x 1 root root 504024 Apr 23 2019 tar -rwxr-xr-x 1 root root 13860 Jan 21 2019 tempfile -rwxr-xr-x 1 root root 104292 Feb 28 2019 touch -rwxr-xr-x 1 root root 34532 Feb 28 2019 true -rwxr-xr-x 1 root root 17768 Apr 22 2020 ulockmgr_server -rwsr-xr-x 1 root root 30108 Jan 9 2019 umount -rwxr-xr-x 1 root root 34532 Feb 28 2019 uname -rwxr-xr-x 2 root root 2345 Jan 5 2019 uncompress -rwxr-xr-x 1 root root 149736 Feb 28 2019 vdir -rwxr-xr-x 1 root root 34208 Jan 9 2019 wdctl -rwxr-xr-x 1 root root 946 Jan 21 2019 which lrwxrwxrwx 1 root root 8 Sep 26 2018 ypdomainname -> hostname -rwxr-xr-x 1 root root 1983 Jan 5 2019 zcat -rwxr-xr-x 1 root root 1677 Jan 5 2019 zcmp -rwxr-xr-x 1 root root 5879 Jan 5 2019 zdiff -rwxr-xr-x 1 root root 29 Jan 5 2019 zegrep -rwxr-xr-x 1 root root 29 Jan 5 2019 zfgrep -rwxr-xr-x 1 root root 2080 Jan 5 2019 zforce -rwxr-xr-x 1 root root 7584 Jan 5 2019 zgrep -rwxr-xr-x 1 root root 2205 Jan 5 2019 zless -rwxr-xr-x 1 root root 1841 Jan 5 2019 zmore -rwxr-xr-x 1 root root 4552 Jan 5 2019 znew I: user script /srv/workspace/pbuilder/27763/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 (>= 11~), dh-python, python, python-setuptools, python-coverage, python-flexmock, python-nose, python-pysam, python-setproctitle, default-jre-headless, bowtie2, rsync dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19234 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 (>= 11~); however: Package debhelper is not installed. pbuilder-satisfydepends-dummy depends on dh-python; however: Package dh-python is not installed. pbuilder-satisfydepends-dummy depends on python; however: Package python is not installed. pbuilder-satisfydepends-dummy depends on python-setuptools; however: Package python-setuptools is not installed. pbuilder-satisfydepends-dummy depends on python-coverage; however: Package python-coverage is not installed. pbuilder-satisfydepends-dummy depends on python-flexmock; however: Package python-flexmock is not installed. pbuilder-satisfydepends-dummy depends on python-nose; however: Package python-nose is not installed. pbuilder-satisfydepends-dummy depends on python-pysam; however: Package python-pysam is not installed. pbuilder-satisfydepends-dummy depends on python-setproctitle; however: Package python-setproctitle is not installed. pbuilder-satisfydepends-dummy depends on default-jre-headless; however: Package default-jre-headless is not installed. pbuilder-satisfydepends-dummy depends on bowtie2; however: Package bowtie2 is not installed. pbuilder-satisfydepends-dummy depends on rsync; however: Package rsync 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} bsdmainutils{a} ca-certificates{a} ca-certificates-java{a} debhelper{a} default-jre-headless{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig-config{a} fonts-dejavu-core{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} java-common{a} libarchive-zip-perl{a} libasound2{a} libasound2-data{a} libavahi-client3{a} libavahi-common-data{a} libavahi-common3{a} libbsd0{a} libcroco3{a} libcups2{a} libdbus-1-3{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfreetype6{a} libglib2.0-0{a} libgraphite2-3{a} libgssapi-krb5-2{a} libharfbuzz0b{a} libicu63{a} libjpeg62-turbo{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblcms2-2{a} libmagic-mgc{a} libmagic1{a} libmpdec2{a} libncurses6{a} libnspr4{a} libnss3{a} libpcsclite1{a} libpipeline1{a} libpng16-16{a} libpopt0{a} libpython-stdlib{a} libpython2-stdlib{a} libpython2.7-minimal{a} libpython2.7-stdlib{a} libpython3-stdlib{a} libpython3.7-minimal{a} libpython3.7-stdlib{a} libreadline7{a} libsigsegv2{a} libssl1.1{a} libtool{a} libuchardet0{a} libxml2{a} lsb-base{a} m4{a} man-db{a} mime-support{a} openjdk-11-jre-headless{a} openssl{a} po-debconf{a} python{a} python-coverage{a} python-flexmock{a} python-minimal{a} python-nose{a} python-pkg-resources{a} python-setproctitle{a} python-setuptools{a} python2{a} python2-minimal{a} python2.7{a} python2.7-minimal{a} python3{a} python3-distutils{a} python3-lib2to3{a} python3-minimal{a} python3.7{a} python3.7-minimal{a} readline-common{a} rsync{a} sensible-utils{a} ucf{a} The following packages are RECOMMENDED but will NOT be installed: curl dbus krb5-locales libarchive-cpio-perl libglib2.0-data libgpm2 libjs-jquery libjs-jquery-isonscreen libjs-jquery-tablesorter libjs-jquery-throttle-debounce libltdl-dev libmail-sendmail-perl lynx shared-mime-info wget xdg-user-dirs 0 packages upgraded, 99 newly installed, 0 to remove and 0 not upgraded. Need to get 77.2 MB of archives. After unpacking 304 MB will be used. The following packages have unmet dependencies: pbuilder-satisfydepends-dummy : Depends: python-pysam which is a virtual package and is not provided by any available package 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} bsdmainutils{a} ca-certificates{a} ca-certificates-java{a} debhelper{a} default-jre-headless{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig-config{a} fonts-dejavu-core{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} java-common{a} libarchive-zip-perl{a} libasound2{a} libasound2-data{a} libavahi-client3{a} libavahi-common-data{a} libavahi-common3{a} libbsd0{a} libcroco3{a} libcups2{a} libdbus-1-3{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfreetype6{a} libglib2.0-0{a} libgraphite2-3{a} libgssapi-krb5-2{a} libharfbuzz0b{a} libicu63{a} libjpeg62-turbo{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblcms2-2{a} libmagic-mgc{a} libmagic1{a} libmpdec2{a} libncurses6{a} libnspr4{a} libnss3{a} libpcsclite1{a} libpipeline1{a} libpng16-16{a} libpopt0{a} libpython-stdlib{a} libpython2-stdlib{a} libpython2.7-minimal{a} libpython2.7-stdlib{a} libpython3-stdlib{a} libpython3.7-minimal{a} libpython3.7-stdlib{a} libreadline7{a} libsigsegv2{a} libssl1.1{a} libtool{a} libuchardet0{a} libxml2{a} lsb-base{a} m4{a} man-db{a} mime-support{a} openjdk-11-jre-headless{a} openssl{a} po-debconf{a} python{a} python-coverage{a} python-flexmock{a} python-minimal{a} python-nose{a} python-pkg-resources{a} python-setproctitle{a} python-setuptools{a} python2{a} python2-minimal{a} python2.7{a} python2.7-minimal{a} python3{a} python3-distutils{a} python3-lib2to3{a} python3-minimal{a} python3.7{a} python3.7-minimal{a} readline-common{a} rsync{a} sensible-utils{a} ucf{a} The following packages are RECOMMENDED but will NOT be installed: curl dbus krb5-locales libarchive-cpio-perl libglib2.0-data libgpm2 libjs-jquery libjs-jquery-isonscreen libjs-jquery-tablesorter libjs-jquery-throttle-debounce libltdl-dev libmail-sendmail-perl lynx shared-mime-info wget xdg-user-dirs 0 packages upgraded, 99 newly installed, 0 to remove and 0 not upgraded. Need to get 77.2 MB of archives. After unpacking 304 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/27763 and its subdirectories Sun Sep 26 16:26:04 UTC 2021 W: No second build log, what happened? Sun Sep 26 16:26:04 UTC 2021 W: Downloading the build dependencies failed Sun Sep 26 16:26:04 UTC 2021 W: Maybe there was a network problem, or the build dependencies are currently uninstallable; consider filing a bug in the last case. Sun Sep 26 16:26:04 UTC 2021 W: Network problems are automatically rescheduled after some hours.