Thu Dec 12 08:32:59 UTC 2024 I: starting to build pbseqlib/unstable/armhf on jenkins on '2024-12-12 08:32' Thu Dec 12 08:32:59 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/armhf_12/10462/console.log Thu Dec 12 08:32:59 UTC 2024 I: Downloading source for unstable/pbseqlib=5.3.5+dfsg-9 --2024-12-12 08:32:59-- http://deb.debian.org/debian/pool/main/p/pbseqlib/pbseqlib_5.3.5%2bdfsg-9.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2488 (2.4K) [text/prs.lines.tag] Saving to: ‘pbseqlib_5.3.5+dfsg-9.dsc’ 0K .. 100% 383M=0s 2024-12-12 08:32:59 (383 MB/s) - ‘pbseqlib_5.3.5+dfsg-9.dsc’ saved [2488/2488] Thu Dec 12 08:32:59 UTC 2024 I: pbseqlib_5.3.5+dfsg-9.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: pbseqlib Binary: libblasr-dev, libblasr5.3.5, libpbseq, libpbseq-dev, libpbdata-dev, libpbihdf-dev Architecture: any Version: 5.3.5+dfsg-9 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://github.com/PacificBiosciences/blasr_libcpp Standards-Version: 4.7.0 Vcs-Browser: https://salsa.debian.org/med-team/pbseqlib Vcs-Git: https://salsa.debian.org/med-team/pbseqlib.git Build-Depends: debhelper-compat (= 13), d-shlibs, meson, pkgconf, cmake, googletest , libgtest-dev , zlib1g-dev, libhdf5-dev, libboost-dev, libpbbam-dev (>> 2.3.0), libpbcopper-dev (>> 2.2.0), libhts-dev (>= 1.20+ds-2~) Package-List: libblasr-dev deb libdevel optional arch=any libblasr5.3.5 deb libs optional arch=any libpbdata-dev deb libdevel optional arch=any libpbihdf-dev deb libdevel optional arch=any libpbseq deb science optional arch=any libpbseq-dev deb libdevel optional arch=any Checksums-Sha1: 52e008afcd7a07d4df0a18e2299c8b8e7c480e91 973104 pbseqlib_5.3.5+dfsg.orig.tar.xz f2e05277f8a615e6967713e9810613c9630be98c 11996 pbseqlib_5.3.5+dfsg-9.debian.tar.xz Checksums-Sha256: 81afecd5d7ccb3cd70ed42cd8afa64876fde4c0deee89e1112c7f3b3d6ee8c49 973104 pbseqlib_5.3.5+dfsg.orig.tar.xz d0db35e6971f64040cd249cfd0e3040a0887bb197eda7bc4824fc1aebefec0d2 11996 pbseqlib_5.3.5+dfsg-9.debian.tar.xz Files: 53cbc19d8c807640dafbd04fcc47f86e 973104 pbseqlib_5.3.5+dfsg.orig.tar.xz 34af7862540223c48b87a926864c9617 11996 pbseqlib_5.3.5+dfsg-9.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmdYHVcRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtHNWA/8DGYnWEWyEXXYUnMYMK6t050/IJsVYAWZ mS6lzxj0BAktsVoOVfU1kN8ormqFMavE72x9RiYlCOyPTCvpLlO1SWrHyDqFNXpp A3xYjoHWGAM1ZhbW+ipH1cJm8USKlMLBAnsrku6rsu6zL5dW6sRw/+zxAp6CfQb9 Wkno5nUJf9BY9/GTTOIkfoI4GXY/eAPHu0c61FrNVEZsEgDssNbBsgR1m46gv14X EBnn3n2VBGUE758NVkU3POA0j4+rLJE5V34N4yQ+XgjNVkwl9l6xYoD65OgPElI0 62iOyOI3/TgdNWocK09ICpZuk7EhcGbxLdGfbAtBZzct5vxPpWYV+c7INf3Wi1+T 6t29gg1flqbKwKY6AhPYUoQPxjQaaqabT7qYucACXrf1fhOsnT+gema3dlgwweXC DarKi4QFzWEMrnmjdX0mZD8WM3XVRa7o7dLmPdU1JtpZA5iHBvsuJgZiJJuNRW1J pOr+rBrGmAsN0O+5ATJfk94enoBEe4aR/qDOhy3ImC567cMVFFyIM+FMfCMH3lXD lMNoaIl7LRKUsFVoslJSEFjC2vCoRe7z0fX4jq0lWoWe5B53qC3ntvjGPyui2dWV jWKWx8bEX+A07QmPtuw92KPtyxAwGNPEFmHcUfLCnJZGXXLpsBeXEs/Aw/Jr38MD ymAqiwyZxPs= =5Vu1 -----END PGP SIGNATURE----- Thu Dec 12 08:32:59 UTC 2024 I: Checking whether the package is not for us Thu Dec 12 08:32:59 UTC 2024 I: Starting 1st build on remote node virt64a-armhf-rb.debian.net. Thu Dec 12 08:32:59 UTC 2024 I: Preparing to do remote build '1' on virt64a-armhf-rb.debian.net. Thu Dec 12 08:33:47 UTC 2024 I: Deleting $TMPDIR on virt64a-armhf-rb.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Wed Dec 11 20:33:06 -12 2024 I: pbuilder-time-stamp: 1733992386 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 [pbseqlib_5.3.5+dfsg-9.dsc] I: copying [./pbseqlib_5.3.5+dfsg.orig.tar.xz] I: copying [./pbseqlib_5.3.5+dfsg-9.debian.tar.xz] I: Extracting source gpgv: Signature made Tue Dec 10 10:52:07 2024 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./pbseqlib_5.3.5+dfsg-9.dsc: no acceptable signature found dpkg-source: info: extracting pbseqlib in pbseqlib-5.3.5+dfsg dpkg-source: info: unpacking pbseqlib_5.3.5+dfsg.orig.tar.xz dpkg-source: info: unpacking pbseqlib_5.3.5+dfsg-9.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying hdf5-1.10.1-support.patch dpkg-source: info: applying hdf5-1.10.0-support.patch dpkg-source: info: applying meson.patch dpkg-source: info: applying static+shared_lib.patch dpkg-source: info: applying gcc-13.patch dpkg-source: info: applying pbbam_2.3.0 dpkg-source: info: applying gcc-14.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/17110/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='unstable' HOME='/root' HOST_ARCH='armhf' IFS=' ' INVOCATION_ID='8e17bc49cb704059980675d7fb486251' 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='17110' 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.gCHMXPT4/pbuilderrc_C9aX --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.gCHMXPT4/b1 --logfile b1/build.log pbseqlib_5.3.5+dfsg-9.dsc' SUDO_GID='114' SUDO_UID='108' 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 virt64a 6.1.0-28-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/17110/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), d-shlibs, meson, pkgconf, cmake, googletest, libgtest-dev, zlib1g-dev, libhdf5-dev, libboost-dev, libpbbam-dev (>> 2.3.0), libpbcopper-dev (>> 2.2.0), libhts-dev (>= 1.20+ds-2~) dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19680 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 d-shlibs; however: Package d-shlibs is not installed. pbuilder-satisfydepends-dummy depends on meson; however: Package meson is not installed. pbuilder-satisfydepends-dummy depends on pkgconf; however: Package pkgconf is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on googletest; however: Package googletest is not installed. pbuilder-satisfydepends-dummy depends on libgtest-dev; however: Package libgtest-dev is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on libhdf5-dev; however: Package libhdf5-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-dev; however: Package libboost-dev is not installed. pbuilder-satisfydepends-dummy depends on libpbbam-dev (>> 2.3.0); however: Package libpbbam-dev is not installed. pbuilder-satisfydepends-dummy depends on libpbcopper-dev (>> 2.2.0); however: Package libpbcopper-dev is not installed. pbuilder-satisfydepends-dummy depends on libhts-dev (>= 1.20+ds-2~); however: Package libhts-dev 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} comerr-dev{a} d-shlibs{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} googletest{a} groff-base{a} hdf5-helpers{a} intltool-debian{a} krb5-multidev{a} libaec-dev{a} libaec0{a} libarchive-zip-perl{a} libarchive13t64{a} libboost-dev{a} libboost1.83-dev{a} libbrotli-dev{a} libbrotli1{a} libbz2-dev{a} libcom-err2{a} libcurl3t64-gnutls{a} libcurl4-gnutls-dev{a} libcurl4t64{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libelf1t64{a} libevent-2.1-7t64{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgssapi-krb5-2{a} libgssrpc4t64{a} libgtest-dev{a} libhdf5-310{a} libhdf5-cpp-310{a} libhdf5-dev{a} libhdf5-fortran-310{a} libhdf5-hl-310{a} libhdf5-hl-cpp-310{a} libhdf5-hl-fortran-310{a} libhts-dev{a} libhts3t64{a} libhtscodecs2{a} libicu72{a} libidn2-dev{a} libjpeg-dev{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} libjsoncpp26{a} libk5crypto3{a} libkadm5clnt-mit12{a} libkadm5srv-mit12{a} libkdb5-10t64{a} libkeyutils1{a} libkrb5-3{a} libkrb5-dev{a} libkrb5support0{a} libldap-2.5-0{a} libldap-dev{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnghttp2-dev{a} libnghttp3-9{a} libnghttp3-dev{a} libngtcp2-16{a} libngtcp2-crypto-gnutls-dev{a} libngtcp2-crypto-gnutls8{a} libngtcp2-dev{a} libnsl2{a} libp11-kit-dev{a} libpipeline1{a} libpkgconf3{a} libproc2-0{a} libpsl-dev{a} libpsl5t64{a} libpython3-stdlib{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libreadline8t64{a} librhash1{a} librtmp-dev{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{a} libsz2{a} libtasn1-6-dev{a} libtirpc-common{a} libtirpc3t64{a} libtool{a} libuchardet0{a} libunbound8{a} libuv1t64{a} libxml2{a} libzstd-dev{a} m4{a} man-db{a} media-types{a} meson{a} netbase{a} nettle-dev{a} ninja-build{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} procps{a} python3{a} python3-autocommand{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-minimal{a} readline-common{a} sensible-utils{a} tzdata{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: bzip2-doc ca-certificates curl krb5-locales libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules libssl3 libtasn1-doc linux-sysctl-defaults lynx psmisc publicsuffix wget 0 packages upgraded, 146 newly installed, 0 to remove and 0 not upgraded. Need to get 69.7 MB of archives. After unpacking 369 MB will be used. The following packages have unmet dependencies: pbuilder-satisfydepends-dummy : Depends: libpbbam-dev (> 2.3.0) which is a virtual package and is not provided by any available package Depends: libpbcopper-dev (> 2.2.0) 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} comerr-dev{a} d-shlibs{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} googletest{a} groff-base{a} hdf5-helpers{a} intltool-debian{a} krb5-multidev{a} libaec-dev{a} libaec0{a} libarchive-zip-perl{a} libarchive13t64{a} libboost-dev{a} libboost1.83-dev{a} libbrotli-dev{a} libbrotli1{a} libbz2-dev{a} libcom-err2{a} libcurl3t64-gnutls{a} libcurl4-gnutls-dev{a} libcurl4t64{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libelf1t64{a} libevent-2.1-7t64{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgssapi-krb5-2{a} libgssrpc4t64{a} libgtest-dev{a} libhdf5-310{a} libhdf5-cpp-310{a} libhdf5-dev{a} libhdf5-fortran-310{a} libhdf5-hl-310{a} libhdf5-hl-cpp-310{a} libhdf5-hl-fortran-310{a} libhts-dev{a} libhts3t64{a} libhtscodecs2{a} libicu72{a} libidn2-dev{a} libjpeg-dev{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} libjsoncpp26{a} libk5crypto3{a} libkadm5clnt-mit12{a} libkadm5srv-mit12{a} libkdb5-10t64{a} libkeyutils1{a} libkrb5-3{a} libkrb5-dev{a} libkrb5support0{a} libldap-2.5-0{a} libldap-dev{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnghttp2-dev{a} libnghttp3-9{a} libnghttp3-dev{a} libngtcp2-16{a} libngtcp2-crypto-gnutls-dev{a} libngtcp2-crypto-gnutls8{a} libngtcp2-dev{a} libnsl2{a} libp11-kit-dev{a} libpipeline1{a} libpkgconf3{a} libproc2-0{a} libpsl-dev{a} libpsl5t64{a} libpython3-stdlib{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libreadline8t64{a} librhash1{a} librtmp-dev{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{a} libsz2{a} libtasn1-6-dev{a} libtirpc-common{a} libtirpc3t64{a} libtool{a} libuchardet0{a} libunbound8{a} libuv1t64{a} libxml2{a} libzstd-dev{a} m4{a} man-db{a} media-types{a} meson{a} netbase{a} nettle-dev{a} ninja-build{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} procps{a} python3{a} python3-autocommand{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-minimal{a} readline-common{a} sensible-utils{a} tzdata{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: bzip2-doc ca-certificates curl krb5-locales libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules libssl3 libtasn1-doc linux-sysctl-defaults lynx psmisc publicsuffix wget 0 packages upgraded, 146 newly installed, 0 to remove and 0 not upgraded. Need to get 69.7 MB of archives. After unpacking 369 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/17110 and its subdirectories Thu Dec 12 08:33:49 UTC 2024 W: No second build log, what happened? Thu Dec 12 08:33:49 UTC 2024 W: Downloading the build dependencies failed Thu Dec 12 08:33:49 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 Dec 12 08:33:49 UTC 2024 W: Network problems are automatically rescheduled after some hours.