Mon Mar 10 20:04:02 UTC 2025 I: starting to build minimac4/trixie/arm64 on jenkins on '2025-03-10 20:03'
Mon Mar 10 20:04:02 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_8/52993/console.log
Mon Mar 10 20:04:02 UTC 2025 I: Downloading source for trixie/minimac4=4.1.6-1
--2025-03-10 20:04:02-- http://deb.debian.org/debian/pool/main/m/minimac4/minimac4_4.1.6-1.dsc
Connecting to 46.16.76.132:3128... connected.
Proxy request sent, awaiting response... 200 OK
Length: 2288 (2.2K) [text/prs.lines.tag]
Saving to: ‘minimac4_4.1.6-1.dsc’
0K .. 100% 318M=0s
2025-03-10 20:04:02 (318 MB/s) - ‘minimac4_4.1.6-1.dsc’ saved [2288/2288]
Mon Mar 10 20:04:02 UTC 2025 I: minimac4_4.1.6-1.dsc
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA512
Format: 3.0 (quilt)
Source: minimac4
Binary: minimac4
Architecture: any
Version: 4.1.6-1
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Dylan Aïssi <daissi@debian.org>, Étienne Mollier <emollier@debian.org>
Homepage: https://genome.sph.umich.edu/wiki/Minimac4
Standards-Version: 4.6.2
Vcs-Browser: https://salsa.debian.org/med-team/minimac4
Vcs-Git: https://salsa.debian.org/med-team/minimac4.git
Testsuite: autopkgtest
Testsuite-Triggers: bcftools
Build-Depends: debhelper-compat (= 13), cmake, zlib1g-dev, libstatgen-dev, libshrinkwrap-dev, libsavvy-dev, libomp-jonathonl-dev, liblzma-dev, libzstd-dev, bcftools <!nocheck>
Package-List:
minimac4 deb science optional arch=any
Checksums-Sha1:
190a527edb4cf800a0c3b6ed2cc732442c10ef72 53460 minimac4_4.1.6.orig.tar.gz
8104bc421b8d4b717ca4608f39775675dda37d23 5368 minimac4_4.1.6-1.debian.tar.xz
Checksums-Sha256:
0bce8d6edbf5d5d944b19c4e36403d0bc1d18f2d6003d88e01086488c3eb9333 53460 minimac4_4.1.6.orig.tar.gz
994819c4e4ff50247f6f7420ed438e7cd802baaa445beecf3f581ef8ef346b2c 5368 minimac4_4.1.6-1.debian.tar.xz
Files:
e7c0cfe90add2248fc79824add76253a 53460 minimac4_4.1.6.orig.tar.gz
86de610bf26bb05bae065ea9149df3d1 5368 minimac4_4.1.6-1.debian.tar.xz
Dgit: f06073708f98230727f744ec1f0ae2b7a82b38c1 debian archive/debian/4.1.6-1 https://git.dgit.debian.org/minimac4
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Mon Mar 10 20:04:02 UTC 2025 I: Checking whether the package is not for us
Mon Mar 10 20:04:02 UTC 2025 I: Starting 1st build on remote node codethink04-arm64.debian.net.
Mon Mar 10 20:04:02 UTC 2025 I: Preparing to do remote build '1' on codethink04-arm64.debian.net.
Mon Mar 10 20:04:21 UTC 2025 I: Deleting $TMPDIR on codethink04-arm64.debian.net.
I: pbuilder: network access will be disabled during build
I: Current time: Mon Mar 10 08:04:04 -12 2025
I: pbuilder-time-stamp: 1741637044
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 [minimac4_4.1.6-1.dsc]
I: copying [./minimac4_4.1.6.orig.tar.gz]
I: copying [./minimac4_4.1.6-1.debian.tar.xz]
I: Extracting source
dpkg-source: warning: cannot verify inline signature for ./minimac4_4.1.6-1.dsc: unsupported subcommand
dpkg-source: info: extracting minimac4 in minimac4-4.1.6
dpkg-source: info: unpacking minimac4_4.1.6.orig.tar.gz
dpkg-source: info: unpacking minimac4_4.1.6-1.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying Use_shared_zlib.patch
dpkg-source: info: applying lzma.patch
I: Not using root during the build.
I: Installing the build-deps
I: user script /srv/workspace/pbuilder/811992/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='arm64'
DEBIAN_FRONTEND='noninteractive'
DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 '
DISTRIBUTION='trixie'
HOME='/root'
HOST_ARCH='arm64'
IFS='
'
INVOCATION_ID='271339e4f45c4186a99efb6396cfd8d9'
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='811992'
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.hOw65hQQ/pbuilderrc_ah8D --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.hOw65hQQ/b1 --logfile b1/build.log minimac4_4.1.6-1.dsc'
SUDO_GID='109'
SUDO_UID='104'
SUDO_USER='jenkins'
TERM='unknown'
TZ='/usr/share/zoneinfo/Etc/GMT+12'
USER='root'
_='/usr/bin/systemd-run'
http_proxy='http://192.168.101.4:3128'
I: uname -a
Linux codethink04-arm64 6.1.0-31-cloud-arm64 #1 SMP Debian 6.1.128-1 (2025-02-07) aarch64 GNU/Linux
I: ls -l /bin
lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin
I: user script /srv/workspace/pbuilder/811992/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: arm64
Maintainer: Debian Pbuilder Team <pbuilder-maint@lists.alioth.debian.org>
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), cmake, zlib1g-dev, libstatgen-dev, libshrinkwrap-dev, libsavvy-dev, libomp-jonathonl-dev, liblzma-dev, libzstd-dev, bcftools
dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'.
Selecting previously unselected package pbuilder-satisfydepends-dummy.
(Reading database ... 19914 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 cmake; however:
Package cmake is not installed.
pbuilder-satisfydepends-dummy depends on zlib1g-dev; however:
Package zlib1g-dev is not installed.
pbuilder-satisfydepends-dummy depends on libstatgen-dev; however:
Package libstatgen-dev is not installed.
pbuilder-satisfydepends-dummy depends on libshrinkwrap-dev; however:
Package libshrinkwrap-dev is not installed.
pbuilder-satisfydepends-dummy depends on libsavvy-dev; however:
Package libsavvy-dev is not installed.
pbuilder-satisfydepends-dummy depends on libomp-jonathonl-dev; however:
Package libomp-jonathonl-dev is not installed.
pbuilder-satisfydepends-dummy depends on liblzma-dev; however:
Package liblzma-dev is not installed.
pbuilder-satisfydepends-dummy depends on libzstd-dev; however:
Package libzstd-dev is not installed.
pbuilder-satisfydepends-dummy depends on bcftools; however:
Package bcftools 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} bcftools{a} bsdextrautils{a} cmake{a} cmake-data{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libarchive13t64{a} libbrotli1{a} libcom-err2{a} libcurl3t64-gnutls{a} libcurl4t64{a} libdebhelper-perl{a} libdeflate0{a} libelf1t64{a} libexpat1{a} libffi8{a} libfile-stripnondeterminism-perl{a} libgnutls30t64{a} libgssapi-krb5-2{a} libhts3t64{a} libhtscodecs2{a} libicu72{a} libidn2-0{a} libjsoncpp26{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap2{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnghttp3-9{a} libngtcp2-16{a} libngtcp2-crypto-gnutls8{a} libomp-jonathonl-dev{a} libp11-kit0{a} libpipeline1{a} libproc2-0{a} libpsl5t64{a} librhash1{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsavvy-dev{a} libshrinkwrap-dev{a} libssh2-1t64{a} libtasn1-6{a} libtool{a} libuchardet0{a} libunistring5{a} libuv1t64{a} libxml2{a} libzstd-dev{a} m4{a} man-db{a} po-debconf{a} procps{a} sensible-utils{a} zlib1g-dev{a}
The following packages are RECOMMENDED but will NOT be installed:
ca-certificates curl krb5-locales libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules linux-sysctl-defaults lynx psmisc publicsuffix python3-gffutils python3-matplotlib wget
0 packages upgraded, 73 newly installed, 0 to remove and 0 not upgraded.
Need to get 41.3 MB of archives. After unpacking 159 MB will be used.
The following packages have unmet dependencies:
pbuilder-satisfydepends-dummy : Depends: libstatgen-dev 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} bcftools{a} bsdextrautils{a} cmake{a} cmake-data{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libarchive13t64{a} libbrotli1{a} libcom-err2{a} libcurl3t64-gnutls{a} libcurl4t64{a} libdebhelper-perl{a} libdeflate0{a} libelf1t64{a} libexpat1{a} libffi8{a} libfile-stripnondeterminism-perl{a} libgnutls30t64{a} libgssapi-krb5-2{a} libhts3t64{a} libhtscodecs2{a} libicu72{a} libidn2-0{a} libjsoncpp26{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap2{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnghttp3-9{a} libngtcp2-16{a} libngtcp2-crypto-gnutls8{a} libomp-jonathonl-dev{a} libp11-kit0{a} libpipeline1{a} libproc2-0{a} libpsl5t64{a} librhash1{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsavvy-dev{a} libshrinkwrap-dev{a} libssh2-1t64{a} libtasn1-6{a} libtool{a} libuchardet0{a} libunistring5{a} libuv1t64{a} libxml2{a} libzstd-dev{a} m4{a} man-db{a} po-debconf{a} procps{a} sensible-utils{a} zlib1g-dev{a}
The following packages are RECOMMENDED but will NOT be installed:
ca-certificates curl krb5-locales libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules linux-sysctl-defaults lynx psmisc publicsuffix python3-gffutils python3-matplotlib wget
0 packages upgraded, 73 newly installed, 0 to remove and 0 not upgraded.
Need to get 41.3 MB of archives. After unpacking 159 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/811992 and its subdirectories
Mon Mar 10 20:04:22 UTC 2025 W: No second build log, what happened?
Mon Mar 10 20:04:22 UTC 2025 W: Downloading the build dependencies failed
Mon Mar 10 20:04:22 UTC 2025 W: Maybe there was a network problem, or the build dependencies are currently uninstallable; consider filing a bug in the last case.
Mon Mar 10 20:04:22 UTC 2025 W: Network problems are automatically rescheduled after some hours.