Wed Dec 25 03:17:17 UTC 2024 I: starting to build promod3/unstable/arm64 on jenkins on '2024-12-25 03:17' Wed Dec 25 03:17:17 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_20/51312/console.log Wed Dec 25 03:17:17 UTC 2024 I: Downloading source for unstable/promod3=3.4.1+ds-1 --2024-12-25 03:17:17-- http://deb.debian.org/debian/pool/main/p/promod3/promod3_3.4.1%2bds-1.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 3239 (3.2K) [text/prs.lines.tag] Saving to: ‘promod3_3.4.1+ds-1.dsc’ 0K ... 100% 381M=0s 2024-12-25 03:17:17 (381 MB/s) - ‘promod3_3.4.1+ds-1.dsc’ saved [3239/3239] Wed Dec 25 03:17:17 UTC 2024 I: promod3_3.4.1+ds-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: promod3 Binary: libpromod3-core-dev, libpromod3-core3.4, libpromod3-loop-dev, libpromod3-loop3.4, libpromod3-modelling-dev, libpromod3-modelling3.4, libpromod3-scoring-dev, libpromod3-scoring3.4, libpromod3-sidechain-dev, libpromod3-sidechain3.4, promod3, promod3-data, python3-promod3 Architecture: any all Version: 3.4.1+ds-1 Maintainer: Debichem Team Uploaders: Andrius Merkys , Homepage: https://openstructure.org/promod3/ Standards-Version: 4.5.1 Vcs-Browser: https://salsa.debian.org/debichem-team/promod3 Vcs-Git: https://salsa.debian.org/debichem-team/promod3.git Build-Depends: cmake, debhelper-compat (= 13), dh-python, libboost-filesystem-dev, libboost-iostreams-dev, libboost-program-options-dev, libboost-python-dev, libboost-test-dev, libeigen3-dev, libost-base-dev, libost-conop-dev, libost-geom-dev, libost-img-dev, libost-info-dev, libost-io-dev, libost-mol-alg-dev, libost-mol-dev, libost-mol-mm-dev, libost-seq-alg-dev, libost-seq-dev, libsqlite3-dev, openstructure (>= 2.5.0), python3-dev, python3-ost Package-List: libpromod3-core-dev deb libdevel optional arch=any libpromod3-core3.4 deb libs optional arch=any libpromod3-loop-dev deb libdevel optional arch=any libpromod3-loop3.4 deb libs optional arch=any libpromod3-modelling-dev deb libdevel optional arch=any libpromod3-modelling3.4 deb libs optional arch=any libpromod3-scoring-dev deb libdevel optional arch=any libpromod3-scoring3.4 deb libs optional arch=any libpromod3-sidechain-dev deb libdevel optional arch=any libpromod3-sidechain3.4 deb libs optional arch=any promod3 deb science optional arch=all promod3-data deb science optional arch=all python3-promod3 deb python optional arch=any Checksums-Sha1: d216db19e30f5870a04bb7ee1e47c3a286d28796 398710548 promod3_3.4.1+ds.orig.tar.xz 247edf33bea9ed7c9f6c4efbabd049882648d3c7 5864 promod3_3.4.1+ds-1.debian.tar.xz Checksums-Sha256: 128214ac529b3418ffdbc29bd64348745e79adecb573c6fc4086f491d45b057e 398710548 promod3_3.4.1+ds.orig.tar.xz 88b01e034a9d5be51dfc5c2ca1961c344804af79a4ad9d9b9f08c7b6f2bdc8a4 5864 promod3_3.4.1+ds-1.debian.tar.xz Files: c56210d82a7e4192401010b310b7bfb9 398710548 promod3_3.4.1+ds.orig.tar.xz 4001287f7e785b33a5821d488e41bd93 5864 promod3_3.4.1+ds-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJGBAEBCgAwFiEEdyKS9veshfrgQdQe5fQ/nCc08ocFAmdgPpISHG1lcmt5c0Bk ZWJpYW4ub3JnAAoJEOX0P5wnNPKHxbgP+gInYIaNn+fEII721RlCSdTN4M7y+3KN 1bv7JFxHwSP5uZRSpywV93D5JLcOiqmWTUzZKnhNpwbwVIZSjFyQiNiP1DPXhZT4 tq2wCGoueHWxNLVhtWKG3FNZYwOah58fj590NS29GWxTWAvNX8Oo7Nl9lUAc+EJm PDegffWur4YeKxdVXNEXl93q5yNn1QHr92ZhE6dPrKi8J1WGq7mZFZH2dRdQhV9x +/x2Il+UlzJwJIkVdPlu5o4OCVAKb7+QA82aA4AKJn3cTpNkZpUYQUGV5lSX/ZCK qfvWbrWlGPKC1PtiQxwk1/hfZuvRzu/K+uQEplnOzOxDRz8EnIaXGq5z+WMtZ3DS wTyLEdwZOlKabcMLyGKXmAFgjQ1pBixMyxAo6wn4hZ+oCZpGK8JUd+Ghhonc7Tct 8YTQyU+M0UT/PstRzukUOrxYY49mmQENr3c0zuFg4jvy7kp9sDXu4Z32s792lyR0 4fBO0MAp5VkFtwRCPuWvbn8tKgEhDlWjpvmhbiJQjpBBBKRom+Y5XvVcGOlJhbVP bEodgLBW+I4XlsyhJOD2Hszd0thPY1/be/uRp55C6FE2nMDDHlJhlBeGHQNfHiTt bRDFQaFGl4/UxDhL2GSCM+epQ9k5kRR+fmsGrbGZlsO/WssjD8dNJebVHRj4vuUt 9nj47/TfBGv5 =guW/ -----END PGP SIGNATURE----- Wed Dec 25 03:17:17 UTC 2024 I: Checking whether the package is not for us Wed Dec 25 03:17:17 UTC 2024 I: Starting 1st build on remote node codethink02-arm64.debian.net. Wed Dec 25 03:17:17 UTC 2024 I: Preparing to do remote build '1' on codethink02-arm64.debian.net. Wed Dec 25 03:17:50 UTC 2024 I: Deleting $TMPDIR on codethink02-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Tue Dec 24 15:17:28 -12 2024 I: pbuilder-time-stamp: 1735096648 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-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 [promod3_3.4.1+ds-1.dsc] I: copying [./promod3_3.4.1+ds.orig.tar.xz] I: copying [./promod3_3.4.1+ds-1.debian.tar.xz] I: Extracting source gpgv: Signature made Mon Dec 16 14:52:02 2024 gpgv: using RSA key 772292F6F7AC85FAE041D41EE5F43F9C2734F287 gpgv: issuer "merkys@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./promod3_3.4.1+ds-1.dsc: no acceptable signature found dpkg-source: info: extracting promod3 in promod3-3.4.1+ds dpkg-source: info: unpacking promod3_3.4.1+ds.orig.tar.xz dpkg-source: info: unpacking promod3_3.4.1+ds-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying find-OST.patch dpkg-source: info: applying add-python3-shebangs.patch dpkg-source: info: applying promod-executable.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1862342/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='unstable' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='83450a5ffe7d4c198e49a07940801591' 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='1862342' 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.Dn5AhdOm/pbuilderrc_XWRA --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.Dn5AhdOm/b1 --logfile b1/build.log promod3_3.4.1+ds-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 codethink02-arm64 6.1.0-28-cloud-arm64 #1 SMP Debian 6.1.119-1 (2024-11-22) 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/1862342/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 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: cmake, debhelper-compat (= 13), dh-python, libboost-filesystem-dev, libboost-iostreams-dev, libboost-program-options-dev, libboost-python-dev, libboost-test-dev, libeigen3-dev, libost-base-dev, libost-conop-dev, libost-geom-dev, libost-img-dev, libost-info-dev, libost-io-dev, libost-mol-alg-dev, libost-mol-dev, libost-mol-mm-dev, libost-seq-alg-dev, libost-seq-dev, libsqlite3-dev, openstructure (>= 2.5.0), python3-dev, python3-ost dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 20096 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 cmake; however: Package cmake is not installed. 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 libboost-filesystem-dev; however: Package libboost-filesystem-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-iostreams-dev; however: Package libboost-iostreams-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-program-options-dev; however: Package libboost-program-options-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-python-dev; however: Package libboost-python-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-test-dev; however: Package libboost-test-dev is not installed. pbuilder-satisfydepends-dummy depends on libeigen3-dev; however: Package libeigen3-dev is not installed. pbuilder-satisfydepends-dummy depends on libost-base-dev; however: Package libost-base-dev is not installed. pbuilder-satisfydepends-dummy depends on libost-conop-dev; however: Package libost-conop-dev is not installed. pbuilder-satisfydepends-dummy depends on libost-geom-dev; however: Package libost-geom-dev is not installed. pbuilder-satisfydepends-dummy depends on libost-img-dev; however: Package libost-img-dev is not installed. pbuilder-satisfydepends-dummy depends on libost-info-dev; however: Package libost-info-dev is not installed. pbuilder-satisfydepends-dummy depends on libost-io-dev; however: Package libost-io-dev is not installed. pbuilder-satisfydepends-dummy depends on libost-mol-alg-dev; however: Package libost-mol-alg-dev is not installed. pbuilder-satisfydepends-dummy depends on libost-mol-dev; however: Package libost-mol-dev is not installed. pbuilder-satisfydepends-dummy depends on libost-mol-mm-dev; however: Package libost-mol-mm-dev is not installed. pbuilder-satisfydepends-dummy depends on libost-seq-alg-dev; however: Package libost-seq-alg-dev is not installed. pbuilder-satisfydepends-dummy depends on libost-seq-dev; however: Package libost-seq-dev is not installed. pbuilder-satisfydepends-dummy depends on libsqlite3-dev; however: Package libsqlite3-dev is not installed. pbuilder-satisfydepends-dummy depends on openstructure (>= 2.5.0); however: Package openstructure is not installed. pbuilder-satisfydepends-dummy depends on python3-dev; however: Package python3-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-ost; however: Package python3-ost 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} cmake{a} cmake-data{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} icu-devtools{a} intltool-debian{a} libarchive-zip-perl{a} libarchive13t64{a} libboost-atomic1.83-dev{a} libboost-atomic1.83.0{a} libboost-filesystem-dev{a} libboost-filesystem1.83-dev{a} libboost-filesystem1.83.0{a} libboost-iostreams-dev{a} libboost-iostreams1.83-dev{a} libboost-program-options-dev{a} libboost-program-options1.83-dev{a} libboost-program-options1.83.0{a} libboost-python-dev{a} libboost-python1.83-dev{a} libboost-python1.83.0{a} libboost-regex1.83-dev{a} libboost-regex1.83.0{a} libboost-system1.83-dev{a} libboost-system1.83.0{a} libboost-test-dev{a} libboost-test1.83-dev{a} libboost-test1.83.0{a} libboost1.83-dev{a} libbrotli1{a} libcom-err2{a} libcurl4t64{a} libdebhelper-perl{a} libeigen3-dev{a} libelf1t64{a} libexpat1{a} libexpat1-dev{a} libfile-stripnondeterminism-perl{a} libgssapi-krb5-2{a} libicu-dev{a} libicu72{a} libjs-jquery{a} libjs-sphinxdoc{a} libjs-underscore{a} libjsoncpp26{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap-2.5-0{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnsl2{a} libpipeline1{a} libpkgconf3{a} libproc2-0{a} libpsl5t64{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.12-dev{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libpython3.12t64{a} libreadline8t64{a} librhash1{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsqlite3-dev{a} libssh2-1t64{a} libtirpc-common{a} libtirpc3t64{a} libtool{a} libuchardet0{a} libuv1t64{a} libxml2{a} m4{a} man-db{a} media-types{a} netbase{a} pkg-config{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} procps{a} python3{a} python3-autocommand{a} python3-dev{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{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-dev{a} python3.12-minimal{a} readline-common{a} sensible-utils{a} tzdata{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl javascript-common krb5-locales libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules linux-sysctl-defaults lynx psmisc publicsuffix wget 0 packages upgraded, 119 newly installed, 0 to remove and 0 not upgraded. Need to get 79.4 MB of archives. After unpacking 482 MB will be used. The following packages have unmet dependencies: pbuilder-satisfydepends-dummy : Depends: libost-base-dev which is a virtual package and is not provided by any available package Depends: libost-conop-dev which is a virtual package and is not provided by any available package Depends: libost-geom-dev which is a virtual package and is not provided by any available package Depends: libost-img-dev which is a virtual package and is not provided by any available package Depends: libost-info-dev which is a virtual package and is not provided by any available package Depends: libost-io-dev which is a virtual package and is not provided by any available package Depends: libost-mol-alg-dev which is a virtual package and is not provided by any available package Depends: libost-mol-dev which is a virtual package and is not provided by any available package Depends: libost-mol-mm-dev which is a virtual package and is not provided by any available package Depends: libost-seq-alg-dev which is a virtual package and is not provided by any available package Depends: libost-seq-dev which is a virtual package and is not provided by any available package Depends: openstructure (>= 2.5.0) which is a virtual package and is not provided by any available package Depends: python3-ost 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} cmake{a} cmake-data{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} icu-devtools{a} intltool-debian{a} libarchive-zip-perl{a} libarchive13t64{a} libboost-atomic1.83-dev{a} libboost-atomic1.83.0{a} libboost-filesystem-dev{a} libboost-filesystem1.83-dev{a} libboost-filesystem1.83.0{a} libboost-iostreams-dev{a} libboost-iostreams1.83-dev{a} libboost-program-options-dev{a} libboost-program-options1.83-dev{a} libboost-program-options1.83.0{a} libboost-python-dev{a} libboost-python1.83-dev{a} libboost-python1.83.0{a} libboost-regex1.83-dev{a} libboost-regex1.83.0{a} libboost-system1.83-dev{a} libboost-system1.83.0{a} libboost-test-dev{a} libboost-test1.83-dev{a} libboost-test1.83.0{a} libboost1.83-dev{a} libbrotli1{a} libcom-err2{a} libcurl4t64{a} libdebhelper-perl{a} libeigen3-dev{a} libelf1t64{a} libexpat1{a} libexpat1-dev{a} libfile-stripnondeterminism-perl{a} libgssapi-krb5-2{a} libicu-dev{a} libicu72{a} libjs-jquery{a} libjs-sphinxdoc{a} libjs-underscore{a} libjsoncpp26{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap-2.5-0{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnsl2{a} libpipeline1{a} libpkgconf3{a} libproc2-0{a} libpsl5t64{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.12-dev{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libpython3.12t64{a} libreadline8t64{a} librhash1{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsqlite3-dev{a} libssh2-1t64{a} libtirpc-common{a} libtirpc3t64{a} libtool{a} libuchardet0{a} libuv1t64{a} libxml2{a} m4{a} man-db{a} media-types{a} netbase{a} pkg-config{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} procps{a} python3{a} python3-autocommand{a} python3-dev{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{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-dev{a} python3.12-minimal{a} readline-common{a} sensible-utils{a} tzdata{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl javascript-common krb5-locales libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules linux-sysctl-defaults lynx psmisc publicsuffix wget 0 packages upgraded, 119 newly installed, 0 to remove and 0 not upgraded. Need to get 79.4 MB of archives. After unpacking 482 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/1862342 and its subdirectories Wed Dec 25 03:17:52 UTC 2024 W: No second build log, what happened? Wed Dec 25 03:17:52 UTC 2024 W: Downloading the build dependencies failed Wed Dec 25 03:17:52 UTC 2024 W: Maybe there was a network problem, or the build dependencies are currently uninstallable; consider filing a bug in the last case. Wed Dec 25 03:17:52 UTC 2024 W: Network problems are automatically rescheduled after some hours.