Mon Sep 15 21:33:19 UTC 2025 I: starting to build discosnp/forky/amd64 on jenkins on '2025-09-15 21:33' Mon Sep 15 21:33:19 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_8/72540/console.log Mon Sep 15 21:33:19 UTC 2025 I: Downloading source for forky/discosnp=1:2.6.2-4 --2025-09-15 21:33:19-- http://deb.debian.org/debian/pool/main/d/discosnp/discosnp_2.6.2-4.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2266 (2.2K) [text/prs.lines.tag] Saving to: ‘discosnp_2.6.2-4.dsc’ 0K .. 100% 163M=0s 2025-09-15 21:33:19 (163 MB/s) - ‘discosnp_2.6.2-4.dsc’ saved [2266/2266] Mon Sep 15 21:33:19 UTC 2025 I: discosnp_2.6.2-4.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: discosnp Binary: discosnp Architecture: any-amd64 arm64 loong64 mips64el ppc64el ia64 ppc64 riscv64 sparc64 alpha Version: 1:2.6.2-4 Maintainer: Debian Med Packaging Team Uploaders: Olivier Sallou , Andreas Tille Homepage: http://colibread.inria.fr/discosnp/ Standards-Version: 4.7.0 Vcs-Browser: https://salsa.debian.org/med-team/discosnp Vcs-Git: https://salsa.debian.org/med-team/discosnp.git Testsuite: autopkgtest Testsuite-Triggers: python3 Build-Depends: debhelper-compat (= 13), dh-sequence-python3, python3, cmake, libgatbcore-dev, libboost-dev, libhdf5-dev, zlib1g-dev Package-List: discosnp deb science optional arch=any-amd64,arm64,loong64,mips64el,ppc64el,ia64,ppc64,riscv64,sparc64,alpha Checksums-Sha1: 8658a569f07cf68056126a75398759d83ad7c5f0 1390275 discosnp_2.6.2.orig.tar.gz 9ce24235367186397f916dfd7f881ef9fe60bbb0 23632 discosnp_2.6.2-4.debian.tar.xz Checksums-Sha256: 06c3683b2aaa665daf43254b4d97a7d0516dcea1c551a72e17669f2d52ad1fd6 1390275 discosnp_2.6.2.orig.tar.gz 6155ca768dc6dc660f871347c78770da1624dee694faa63b53fa872f4dce6ed1 23632 discosnp_2.6.2-4.debian.tar.xz Files: e6e7099629b69ead20a34f61e881aeb3 1390275 discosnp_2.6.2.orig.tar.gz 05a353b355853afe88e1d8c2dab6c93a 23632 discosnp_2.6.2-4.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmdUJ54RHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtHU6A/+ODDaplziVDTbRbo3pOhFcYZJy9F9KC7a LZY9GRdycfVjupMP1nkZK210fXZ6L9VpO3UJz025D0FsbAP+M2TQOXKMxweXQeqH J4BwJhLMhSs4LIVYnLaKA8N+K/ETwde65R/Jv6snGOx9wJHIihP5ASfdD/hmEFdy ELYyyJ6cmqbkP0YDdeFPRXpOHMTgzvGdjmubM7+QSadAZBRT1t+HQGhBL99UzZkz cws7fvpwmHkoKSTZNpuUvw6iQUtzEpvSjg4rEWNPJlizg8AHSuH1BxA4p99D9Qqs BwrRl8B20JV4N0LW7qDSFzJzbHYDozQH4xjAzLjvZNdQ6rOCGaBFTO0+u5wBoqZJ qcV2sIj9d0zEIxoQUE+AXuA7+Moz4AIu5O7dBUV6FvHB3kAm0QKICIrfQgeeIZi8 Tgz0zNLfIkMeu7Wu6/Q1gjKAfOzwjJkeIQs2cS4MoTLjG7znnwM7L6IL/0BCUv8I BHSrsBf9Ian9ABzhW2ouJdMZVEpi2uqZasu4CuAN5rHQdOFbhAosI0w754nlH/j/ eQcKnklrt667X+4Dygso0Vr81zXlm7ZIgI0wj4kDzvKKPN0v0UBDtk+jLzgRflkj 3U6plVnxPLhoeD5N6EI9gOqSuYSlM2DdcdNgF123SXbkWvoz/OFU9tVIsR8al/te yHAPOX1xoOo= =afVC -----END PGP SIGNATURE----- Mon Sep 15 21:33:20 UTC 2025 I: Checking whether the package is not for us Mon Sep 15 21:33:20 UTC 2025 I: Starting 1st build on remote node ionos15-amd64.debian.net. Mon Sep 15 21:33:20 UTC 2025 I: Preparing to do remote build '1' on ionos15-amd64.debian.net. Mon Sep 15 21:37:29 UTC 2025 I: Deleting $TMPDIR on ionos15-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sun Oct 18 15:56:20 -12 2026 I: pbuilder-time-stamp: 1792382180 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/forky-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 [discosnp_2.6.2-4.dsc] I: copying [./discosnp_2.6.2.orig.tar.gz] I: copying [./discosnp_2.6.2-4.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./discosnp_2.6.2-4.dsc: no acceptable signature found dpkg-source: info: extracting discosnp in discosnp-2.6.2 dpkg-source: info: unpacking discosnp_2.6.2.orig.tar.gz dpkg-source: info: unpacking discosnp_2.6.2-4.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying use_debian_packaged_gatb-core.patch dpkg-source: info: applying no_install_to_wrong_dir.patch dpkg-source: info: applying path_to_readme_file_names.patch dpkg-source: info: applying spelling.patch dpkg-source: info: applying adapt_test_scripts.patch dpkg-source: info: applying 2to3.patch dpkg-source: info: applying shell_syntax.patch dpkg-source: info: applying python3.12-syntax.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/441560/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='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' DISTRIBUTION='forky' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='b183eeb298fb4439b6ccfbb5b14c9c9e' 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='441560' 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.MDSJYvfu/pbuilderrc_yeCG --distribution forky --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.MDSJYvfu/b1 --logfile b1/build.log discosnp_2.6.2-4.dsc' SUDO_GID='111' SUDO_HOME='/var/lib/jenkins' SUDO_UID='106' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://213.165.73.152:3128' I: uname -a Linux ionos15-amd64 6.12.43+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.43-1 (2025-08-27) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 10 2025 /bin -> usr/bin I: user script /srv/workspace/pbuilder/441560/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: amd64 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, cmake, libgatbcore-dev, libboost-dev, libhdf5-dev, zlib1g-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19917 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 cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on libgatbcore-dev; however: Package libgatbcore-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-dev; however: Package libboost-dev is not installed. pbuilder-satisfydepends-dummy depends on libhdf5-dev; however: Package libhdf5-dev is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-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} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} file{a} gcc-14-base{a} gettext{a} gettext-base{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} libcom-err2{a} libcurl4-openssl-dev{a} libcurl4t64{a} libdebhelper-perl{a} libelf1t64{a} libevent-2.1-7t64{a} libexpat1{a} libffi8{a} libfile-stripnondeterminism-perl{a} libgatbcore-dev{a} libgatbcore3{a} libgcc-14-dev{a} libgfortran5{a} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgnutls30t64{a} libgssapi-krb5-2{a} libgssrpc4t64{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} libidn2-0{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-dev{a} libldap2{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnghttp2-dev{a} libnghttp3-9{a} libnghttp3-dev{a} libp11-kit-dev{a} libp11-kit0{a} libpipeline1{a} libpkgconf3{a} libproc2-0{a} libpsl-dev{a} libpsl5t64{a} libpython3-stdlib{a} libpython3.13-minimal{a} libpython3.13-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} libstdc++-14-dev{a} libsz2{a} libtasn1-6{a} libtasn1-6-dev{a} libtool{a} libuchardet0{a} libunbound8{a} libunistring5{a} libuv1t64{a} libxml2-16{a} libzstd-dev{a} m4{a} man-db{a} media-types{a} netbase{a} nettle-dev{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} procps{a} python3{a} python3-minimal{a} python3.13{a} python3.13-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 krb5-locales libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules libtasn1-doc linux-sysctl-defaults lynx psmisc publicsuffix wget 0 packages upgraded, 126 newly installed, 0 to remove and 0 not upgraded. Need to get 78.5 MB of archives. After unpacking 501 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian forky/main amd64 libexpat1 amd64 2.7.1-2 [108 kB] Get: 2 http://deb.debian.org/debian forky/main amd64 libpython3.13-minimal amd64 3.13.7-1 [864 kB] Get: 3 http://deb.debian.org/debian forky/main amd64 python3.13-minimal amd64 3.13.7-1 [2216 kB] Get: 4 http://deb.debian.org/debian forky/main amd64 python3-minimal amd64 3.13.7-1 [27.2 kB] Get: 5 http://deb.debian.org/debian forky/main amd64 media-types all 13.0.0 [29.3 kB] Get: 6 http://deb.debian.org/debian forky/main amd64 netbase all 6.5 [12.4 kB] Get: 7 http://deb.debian.org/debian forky/main amd64 tzdata all 2025b-5 [260 kB] Get: 8 http://deb.debian.org/debian forky/main amd64 libffi8 amd64 3.5.2-2 [25.5 kB] Get: 9 http://deb.debian.org/debian forky/main amd64 readline-common all 8.3-3 [74.8 kB] Get: 10 http://deb.debian.org/debian forky/main amd64 libreadline8t64 amd64 8.3-3 [191 kB] Get: 11 http://deb.debian.org/debian forky/main amd64 libpython3.13-stdlib amd64 3.13.7-1 [1960 kB] Get: 12 http://deb.debian.org/debian forky/main amd64 python3.13 amd64 3.13.7-1 [761 kB] Get: 13 http://deb.debian.org/debian forky/main amd64 libpython3-stdlib amd64 3.13.7-1 [10.2 kB] Get: 14 http://deb.debian.org/debian forky/main amd64 python3 amd64 3.13.7-1 [28.3 kB] Get: 15 http://deb.debian.org/debian forky/main amd64 libproc2-0 amd64 2:4.0.4-9 [65.6 kB] Get: 16 http://deb.debian.org/debian forky/main amd64 procps amd64 2:4.0.4-9 [882 kB] Get: 17 http://deb.debian.org/debian forky/main amd64 sensible-utils all 0.0.26 [27.0 kB] Get: 18 http://deb.debian.org/debian forky/main amd64 libmagic-mgc amd64 1:5.46-5 [338 kB] Get: 19 http://deb.debian.org/debian forky/main amd64 libmagic1t64 amd64 1:5.46-5 [109 kB] Get: 20 http://deb.debian.org/debian forky/main amd64 file amd64 1:5.46-5 [43.6 kB] Get: 21 http://deb.debian.org/debian forky/main amd64 gettext-base amd64 0.23.1-2+b1 [244 kB] Get: 22 http://deb.debian.org/debian forky/main amd64 libuchardet0 amd64 0.0.8-2 [68.5 kB] Get: 23 http://deb.debian.org/debian forky/main amd64 groff-base amd64 1.23.0-9 [1187 kB] Get: 24 http://deb.debian.org/debian forky/main amd64 bsdextrautils amd64 2.41.1-3 [100 kB] Get: 25 http://deb.debian.org/debian forky/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 26 http://deb.debian.org/debian forky/main amd64 man-db amd64 2.13.1-1 [1469 kB] Get: 27 http://deb.debian.org/debian forky/main amd64 m4 amd64 1.4.20-1 [324 kB] Get: 28 http://deb.debian.org/debian forky/main amd64 autoconf all 2.72-3.1 [494 kB] Get: 29 http://deb.debian.org/debian forky/main amd64 autotools-dev all 20240727.1 [60.2 kB] Get: 30 http://deb.debian.org/debian forky/main amd64 automake all 1:1.17-4 [862 kB] Get: 31 http://deb.debian.org/debian forky/main amd64 autopoint all 0.23.1-2 [770 kB] Get: 32 http://deb.debian.org/debian forky/main amd64 cmake-data all 4.1.1+really3.31.6-1 [2268 kB] Get: 33 http://deb.debian.org/debian forky/main amd64 libxml2-16 amd64 2.14.5+dfsg-0.2 [638 kB] Get: 34 http://deb.debian.org/debian forky/main amd64 libarchive13t64 amd64 3.7.4-4+b1 [349 kB] Get: 35 http://deb.debian.org/debian forky/main amd64 libbrotli1 amd64 1.1.0-2+b7 [307 kB] Get: 36 http://deb.debian.org/debian forky/main amd64 libkrb5support0 amd64 1.21.3-5 [33.0 kB] Get: 37 http://deb.debian.org/debian forky/main amd64 libcom-err2 amd64 1.47.2-3+b3 [25.0 kB] Get: 38 http://deb.debian.org/debian forky/main amd64 libk5crypto3 amd64 1.21.3-5 [81.5 kB] Get: 39 http://deb.debian.org/debian forky/main amd64 libkeyutils1 amd64 1.6.3-6 [9456 B] Get: 40 http://deb.debian.org/debian forky/main amd64 libkrb5-3 amd64 1.21.3-5 [326 kB] Get: 41 http://deb.debian.org/debian forky/main amd64 libgssapi-krb5-2 amd64 1.21.3-5 [138 kB] Get: 42 http://deb.debian.org/debian forky/main amd64 libunistring5 amd64 1.3-2 [477 kB] Get: 43 http://deb.debian.org/debian forky/main amd64 libidn2-0 amd64 2.3.8-4 [110 kB] Get: 44 http://deb.debian.org/debian forky/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-9 [19.8 kB] Get: 45 http://deb.debian.org/debian forky/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-9 [57.5 kB] Get: 46 http://deb.debian.org/debian forky/main amd64 libldap2 amd64 2.6.10+dfsg-1 [194 kB] Get: 47 http://deb.debian.org/debian forky/main amd64 libnghttp2-14 amd64 1.64.0-1.1+b1 [76.2 kB] Get: 48 http://deb.debian.org/debian forky/main amd64 libnghttp3-9 amd64 1.11.0-1 [73.7 kB] Get: 49 http://deb.debian.org/debian forky/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get: 50 http://deb.debian.org/debian forky/main amd64 libp11-kit0 amd64 0.25.5-3 [425 kB] Get: 51 http://deb.debian.org/debian forky/main amd64 libtasn1-6 amd64 4.20.0-2 [49.9 kB] Get: 52 http://deb.debian.org/debian forky/main amd64 libgnutls30t64 amd64 3.8.9-3 [1465 kB] Get: 53 http://deb.debian.org/debian forky/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-3 [58.3 kB] Get: 54 http://deb.debian.org/debian forky/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get: 55 http://deb.debian.org/debian forky/main amd64 libcurl4t64 amd64 8.15.0-1 [392 kB] Get: 56 http://deb.debian.org/debian forky/main amd64 libjsoncpp26 amd64 1.9.6-4 [89.4 kB] Get: 57 http://deb.debian.org/debian forky/main amd64 librhash1 amd64 1.4.6-1 [137 kB] Get: 58 http://deb.debian.org/debian forky/main amd64 libuv1t64 amd64 1.51.0-2 [155 kB] Get: 59 http://deb.debian.org/debian forky/main amd64 cmake amd64 4.1.1+really3.31.6-1 [12.0 MB] Get: 60 http://deb.debian.org/debian forky/main amd64 comerr-dev amd64 2.1-1.47.2-3+b3 [56.7 kB] Get: 61 http://deb.debian.org/debian forky/main amd64 libdebhelper-perl all 13.26 [91.8 kB] Get: 62 http://deb.debian.org/debian forky/main amd64 libtool all 2.5.4-5 [540 kB] Get: 63 http://deb.debian.org/debian forky/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 64 http://deb.debian.org/debian forky/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 65 http://deb.debian.org/debian forky/main amd64 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB] Get: 66 http://deb.debian.org/debian forky/main amd64 dh-strip-nondeterminism all 1.15.0-1 [8812 B] Get: 67 http://deb.debian.org/debian forky/main amd64 libelf1t64 amd64 0.193-3 [192 kB] Get: 68 http://deb.debian.org/debian forky/main amd64 dwz amd64 0.16-2 [108 kB] Get: 69 http://deb.debian.org/debian forky/main amd64 gettext amd64 0.23.1-2+b1 [1680 kB] Get: 70 http://deb.debian.org/debian forky/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 71 http://deb.debian.org/debian forky/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 72 http://deb.debian.org/debian forky/main amd64 debhelper all 13.26 [939 kB] Get: 73 http://deb.debian.org/debian forky/main amd64 dh-python all 6.20250414 [116 kB] Get: 74 http://deb.debian.org/debian forky/main amd64 gcc-14-base amd64 14.3.0-7 [52.0 kB] Get: 75 http://deb.debian.org/debian forky/main amd64 hdf5-helpers amd64 1.14.5+repack-3 [26.6 kB] Get: 76 http://deb.debian.org/debian forky/main amd64 libgssrpc4t64 amd64 1.21.3-5 [60.0 kB] Get: 77 http://deb.debian.org/debian forky/main amd64 libkadm5clnt-mit12 amd64 1.21.3-5 [42.5 kB] Get: 78 http://deb.debian.org/debian forky/main amd64 libkdb5-10t64 amd64 1.21.3-5 [42.6 kB] Get: 79 http://deb.debian.org/debian forky/main amd64 libkadm5srv-mit12 amd64 1.21.3-5 [54.2 kB] Get: 80 http://deb.debian.org/debian forky/main amd64 krb5-multidev amd64 1.21.3-5 [126 kB] Get: 81 http://deb.debian.org/debian forky/main amd64 libaec0 amd64 1.1.4-2 [23.8 kB] Get: 82 http://deb.debian.org/debian forky/main amd64 libsz2 amd64 1.1.4-2 [8108 B] Get: 83 http://deb.debian.org/debian forky/main amd64 libaec-dev amd64 1.1.4-2 [21.5 kB] Get: 84 http://deb.debian.org/debian forky/main amd64 libgcc-14-dev amd64 14.3.0-7 [2671 kB] Get: 85 http://deb.debian.org/debian forky/main amd64 libstdc++-14-dev amd64 14.3.0-7 [2649 kB] Get: 86 http://deb.debian.org/debian forky/main amd64 libboost1.83-dev amd64 1.83.0-4.2 [10.6 MB] Get: 87 http://deb.debian.org/debian forky/main amd64 libboost-dev amd64 1.83.0.2+b2 [3836 B] Get: 88 http://deb.debian.org/debian forky/main amd64 libbrotli-dev amd64 1.1.0-2+b7 [316 kB] Get: 89 http://deb.debian.org/debian forky/main amd64 libidn2-dev amd64 2.3.8-4 [103 kB] Get: 90 http://deb.debian.org/debian forky/main amd64 libkrb5-dev amd64 1.21.3-5 [16.1 kB] Get: 91 http://deb.debian.org/debian forky/main amd64 libldap-dev amd64 2.6.10+dfsg-1 [312 kB] Get: 92 http://deb.debian.org/debian forky/main amd64 libpkgconf3 amd64 1.8.1-4 [36.4 kB] Get: 93 http://deb.debian.org/debian forky/main amd64 pkgconf-bin amd64 1.8.1-4 [30.2 kB] Get: 94 http://deb.debian.org/debian forky/main amd64 pkgconf amd64 1.8.1-4 [26.2 kB] Get: 95 http://deb.debian.org/debian forky/main amd64 libnghttp2-dev amd64 1.64.0-1.1+b1 [117 kB] Get: 96 http://deb.debian.org/debian forky/main amd64 libnghttp3-dev amd64 1.11.0-1 [101 kB] Get: 97 http://deb.debian.org/debian forky/main amd64 libpsl-dev amd64 0.21.2-1.1+b1 [77.6 kB] Get: 98 http://deb.debian.org/debian forky/main amd64 libgmpxx4ldbl amd64 2:6.3.0+dfsg-5 [330 kB] Get: 99 http://deb.debian.org/debian forky/main amd64 libgmp-dev amd64 2:6.3.0+dfsg-5 [658 kB] Get: 100 http://deb.debian.org/debian forky/main amd64 libevent-2.1-7t64 amd64 2.1.12-stable-10+b1 [182 kB] Get: 101 http://deb.debian.org/debian forky/main amd64 libunbound8 amd64 1.23.1-1 [606 kB] Get: 102 http://deb.debian.org/debian forky/main amd64 libgnutls-dane0t64 amd64 3.8.9-3 [455 kB] Get: 103 http://deb.debian.org/debian forky/main amd64 libgnutls-openssl27t64 amd64 3.8.9-3 [455 kB] Get: 104 http://deb.debian.org/debian forky/main amd64 libp11-kit-dev amd64 0.25.5-3 [208 kB] Get: 105 http://deb.debian.org/debian forky/main amd64 libtasn1-6-dev amd64 4.20.0-2 [99.2 kB] Get: 106 http://deb.debian.org/debian forky/main amd64 nettle-dev amd64 3.10.1-1 [1318 kB] Get: 107 http://deb.debian.org/debian forky/main amd64 libgnutls28-dev amd64 3.8.9-3 [1406 kB] Get: 108 http://deb.debian.org/debian forky/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] Get: 109 http://deb.debian.org/debian forky/main amd64 librtmp-dev amd64 2.4+20151223.gitfa8646d.1-3 [67.9 kB] Get: 110 http://deb.debian.org/debian forky/main amd64 libssl-dev amd64 3.5.2-1 [2957 kB] Get: 111 http://deb.debian.org/debian forky/main amd64 libssh2-1-dev amd64 1.11.1-1 [393 kB] Get: 112 http://deb.debian.org/debian forky/main amd64 libzstd-dev amd64 1.5.7+dfsg-1.1 [389 kB] Get: 113 http://deb.debian.org/debian forky/main amd64 libcurl4-openssl-dev amd64 8.15.0-1 [511 kB] Get: 114 http://deb.debian.org/debian forky/main amd64 libgatbcore3 amd64 1.4.2+dfsg-13+b4 [1837 kB] Get: 115 http://deb.debian.org/debian forky/main amd64 libgatbcore-dev amd64 1.4.2+dfsg-13+b4 [3806 kB] Get: 116 http://deb.debian.org/debian forky/main amd64 libgfortran5 amd64 15.2.0-3 [894 kB] Get: 117 http://deb.debian.org/debian forky/main amd64 libhdf5-310 amd64 1.14.5+repack-3 [1344 kB] Get: 118 http://deb.debian.org/debian forky/main amd64 libhdf5-cpp-310 amd64 1.14.5+repack-3 [133 kB] Get: 119 http://deb.debian.org/debian forky/main amd64 libhdf5-fortran-310 amd64 1.14.5+repack-3 [111 kB] Get: 120 http://deb.debian.org/debian forky/main amd64 libhdf5-hl-310 amd64 1.14.5+repack-3 [69.3 kB] Get: 121 http://deb.debian.org/debian forky/main amd64 libhdf5-hl-fortran-310 amd64 1.14.5+repack-3 [43.9 kB] Get: 122 http://deb.debian.org/debian forky/main amd64 libhdf5-hl-cpp-310 amd64 1.14.5+repack-3 [24.4 kB] Get: 123 http://deb.debian.org/debian forky/main amd64 libjpeg62-turbo amd64 1:2.1.5-4 [168 kB] Get: 124 http://deb.debian.org/debian forky/main amd64 libjpeg62-turbo-dev amd64 1:2.1.5-4 [292 kB] Get: 125 http://deb.debian.org/debian forky/main amd64 libjpeg-dev amd64 1:2.1.5-4 [72.2 kB] Get: 126 http://deb.debian.org/debian forky/main amd64 libhdf5-dev amd64 1.14.5+repack-3 [3165 kB] Fetched 78.5 MB in 22s (3551 kB/s) Preconfiguring packages ... Selecting previously unselected package libexpat1:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19917 files and directories currently installed.) Preparing to unpack .../libexpat1_2.7.1-2_amd64.deb ... Unpacking libexpat1:amd64 (2.7.1-2) ... Selecting previously unselected package libpython3.13-minimal:amd64. Preparing to unpack .../libpython3.13-minimal_3.13.7-1_amd64.deb ... Unpacking libpython3.13-minimal:amd64 (3.13.7-1) ... Selecting previously unselected package python3.13-minimal. Preparing to unpack .../python3.13-minimal_3.13.7-1_amd64.deb ... Unpacking python3.13-minimal (3.13.7-1) ... Setting up libpython3.13-minimal:amd64 (3.13.7-1) ... Setting up libexpat1:amd64 (2.7.1-2) ... Setting up python3.13-minimal (3.13.7-1) ... Selecting previously unselected package python3-minimal. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20251 files and directories currently installed.) 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Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:amd64 (8.3-3) ... Selecting previously unselected package libpython3.13-stdlib:amd64. Preparing to unpack .../7-libpython3.13-stdlib_3.13.7-1_amd64.deb ... Unpacking libpython3.13-stdlib:amd64 (3.13.7-1) ... Selecting previously unselected package python3.13. Preparing to unpack .../8-python3.13_3.13.7-1_amd64.deb ... Unpacking python3.13 (3.13.7-1) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../9-libpython3-stdlib_3.13.7-1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.13.7-1) ... Setting up python3-minimal (3.13.7-1) ... Selecting previously unselected package python3. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 21266 files and directories currently installed.) Preparing to unpack .../000-python3_3.13.7-1_amd64.deb ... Unpacking python3 (3.13.7-1) ... Selecting previously unselected package libproc2-0:amd64. 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Unpacking gettext-base (0.23.1-2+b1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../008-libuchardet0_0.0.8-2_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-2) ... Selecting previously unselected package groff-base. Preparing to unpack .../009-groff-base_1.23.0-9_amd64.deb ... Unpacking groff-base (1.23.0-9) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../010-bsdextrautils_2.41.1-3_amd64.deb ... Unpacking bsdextrautils (2.41.1-3) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../011-libpipeline1_1.5.8-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../012-man-db_2.13.1-1_amd64.deb ... Unpacking man-db (2.13.1-1) ... Selecting previously unselected package m4. Preparing to unpack .../013-m4_1.4.20-1_amd64.deb ... Unpacking m4 (1.4.20-1) ... Selecting previously unselected package autoconf. 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Unpacking libsasl2-2:amd64 (2.1.28+dfsg1-9) ... Selecting previously unselected package libldap2:amd64. Preparing to unpack .../032-libldap2_2.6.10+dfsg-1_amd64.deb ... Unpacking libldap2:amd64 (2.6.10+dfsg-1) ... Selecting previously unselected package libnghttp2-14:amd64. Preparing to unpack .../033-libnghttp2-14_1.64.0-1.1+b1_amd64.deb ... Unpacking libnghttp2-14:amd64 (1.64.0-1.1+b1) ... Selecting previously unselected package libnghttp3-9:amd64. Preparing to unpack .../034-libnghttp3-9_1.11.0-1_amd64.deb ... Unpacking libnghttp3-9:amd64 (1.11.0-1) ... Selecting previously unselected package libpsl5t64:amd64. Preparing to unpack .../035-libpsl5t64_0.21.2-1.1+b1_amd64.deb ... Unpacking libpsl5t64:amd64 (0.21.2-1.1+b1) ... Selecting previously unselected package libp11-kit0:amd64. Preparing to unpack .../036-libp11-kit0_0.25.5-3_amd64.deb ... Unpacking libp11-kit0:amd64 (0.25.5-3) ... Selecting previously unselected package libtasn1-6:amd64. Preparing to unpack .../037-libtasn1-6_4.20.0-2_amd64.deb ... Unpacking libtasn1-6:amd64 (4.20.0-2) ... Selecting previously unselected package libgnutls30t64:amd64. Preparing to unpack .../038-libgnutls30t64_3.8.9-3_amd64.deb ... Unpacking libgnutls30t64:amd64 (3.8.9-3) ... Selecting previously unselected package librtmp1:amd64. Preparing to unpack .../039-librtmp1_2.4+20151223.gitfa8646d.1-3_amd64.deb ... Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-3) ... Selecting previously unselected package libssh2-1t64:amd64. Preparing to unpack .../040-libssh2-1t64_1.11.1-1_amd64.deb ... Unpacking libssh2-1t64:amd64 (1.11.1-1) ... Selecting previously unselected package libcurl4t64:amd64. Preparing to unpack .../041-libcurl4t64_8.15.0-1_amd64.deb ... Unpacking libcurl4t64:amd64 (8.15.0-1) ... Selecting previously unselected package libjsoncpp26:amd64. Preparing to unpack .../042-libjsoncpp26_1.9.6-4_amd64.deb ... Unpacking libjsoncpp26:amd64 (1.9.6-4) ... Selecting previously unselected package librhash1:amd64. Preparing to unpack .../043-librhash1_1.4.6-1_amd64.deb ... Unpacking librhash1:amd64 (1.4.6-1) ... Selecting previously unselected package libuv1t64:amd64. Preparing to unpack .../044-libuv1t64_1.51.0-2_amd64.deb ... Unpacking libuv1t64:amd64 (1.51.0-2) ... Selecting previously unselected package cmake. Preparing to unpack .../045-cmake_4.1.1+really3.31.6-1_amd64.deb ... Unpacking cmake (4.1.1+really3.31.6-1) ... Selecting previously unselected package comerr-dev:amd64. Preparing to unpack .../046-comerr-dev_2.1-1.47.2-3+b3_amd64.deb ... Unpacking comerr-dev:amd64 (2.1-1.47.2-3+b3) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../047-libdebhelper-perl_13.26_all.deb ... Unpacking libdebhelper-perl (13.26) ... Selecting previously unselected package libtool. Preparing to unpack .../048-libtool_2.5.4-5_all.deb ... Unpacking libtool (2.5.4-5) ... 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Setting up krb5-multidev:amd64 (1.21.3-5) ... Setting up libhdf5-cpp-310:amd64 (1.14.5+repack-3) ... Setting up libhdf5-hl-310:amd64 (1.14.5+repack-3) ... Setting up libkrb5-dev:amd64 (1.21.3-5) ... Setting up libcurl4-openssl-dev:amd64 (8.15.0-1) ... Setting up libhdf5-hl-cpp-310:amd64 (1.14.5+repack-3) ... Setting up libhdf5-hl-fortran-310:amd64 (1.14.5+repack-3) ... Setting up libhdf5-dev (1.14.5+repack-3) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/pkgconfig/hdf5-serial.pc to provide /usr/lib/x86_64-linux-gnu/pkgconfig/hdf5.pc (hdf5.pc) in auto mode Processing triggers for libc-bin (2.41-12) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/discosnp-2.6.2/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../discosnp_2.6.2-4_source.changes dpkg-buildpackage: info: source package discosnp dpkg-buildpackage: info: source version 1:2.6.2-4 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure cd obj-x86_64-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb PKG_CONFIG=/usr/bin/pkg-config cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu .. CMake Warning (dev) at CMakeLists.txt:1 (project): cmake_minimum_required() should be called prior to this top-level project() call. Please see the cmake-commands(7) manual for usage documentation of both commands. This warning is for project developers. Use -Wno-dev to suppress it. -- The C compiler identification is GNU 15.2.0 -- The CXX compiler identification is GNU 15.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done CMake Deprecation Warning at CMakeLists.txt:3 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. -- Configuring done (0.8s) -- Generating done (0.2s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_FIND_USE_PACKAGE_REGISTRY FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu dh_auto_build cd obj-x86_64-linux-gnu && make -j42 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/discosnp-2.6.2 -B/build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu' make -f tools/kissnp2/CMakeFiles/kissnp2.dir/build.make tools/kissnp2/CMakeFiles/kissnp2.dir/depend make -f tools/kissreads2/CMakeFiles/kissreads2.dir/build.make tools/kissreads2/CMakeFiles/kissreads2.dir/depend make -f tools/QHC/CMakeFiles/quick_hierarchical_clustering.dir/build.make tools/QHC/CMakeFiles/quick_hierarchical_clustering.dir/depend make -f tools/read_file_names/CMakeFiles/read_file_names.dir/build.make tools/read_file_names/CMakeFiles/read_file_names.dir/depend make[3]: Entering directory '/build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/discosnp-2.6.2 /build/reproducible-path/discosnp-2.6.2/tools/kissnp2 /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu/tools/kissnp2 /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu/tools/kissnp2/CMakeFiles/kissnp2.dir/DependInfo.cmake "--color=" make -f tools/create_coverage_h5_file/CMakeFiles/create_coverage_h5_file.dir/build.make tools/create_coverage_h5_file/CMakeFiles/create_coverage_h5_file.dir/depend make[3]: Entering directory '/build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/discosnp-2.6.2 /build/reproducible-path/discosnp-2.6.2/tools/kissreads2 /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu/tools/kissreads2 /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu/tools/kissreads2/CMakeFiles/kissreads2.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/discosnp-2.6.2 /build/reproducible-path/discosnp-2.6.2/tools/QHC /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu/tools/QHC /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu/tools/QHC/CMakeFiles/quick_hierarchical_clustering.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/discosnp-2.6.2 /build/reproducible-path/discosnp-2.6.2/tools/read_file_names /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu/tools/read_file_names /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu/tools/read_file_names/CMakeFiles/read_file_names.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/discosnp-2.6.2 /build/reproducible-path/discosnp-2.6.2/tools/create_coverage_h5_file /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu/tools/create_coverage_h5_file /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu/tools/create_coverage_h5_file/CMakeFiles/create_coverage_h5_file.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu' make -f tools/read_file_names/CMakeFiles/read_file_names.dir/build.make tools/read_file_names/CMakeFiles/read_file_names.dir/build make -f tools/kissnp2/CMakeFiles/kissnp2.dir/build.make tools/kissnp2/CMakeFiles/kissnp2.dir/build make[3]: Leaving directory '/build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu' make -f tools/kissreads2/CMakeFiles/kissreads2.dir/build.make tools/kissreads2/CMakeFiles/kissreads2.dir/build make[3]: Entering directory '/build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu' make -f tools/QHC/CMakeFiles/quick_hierarchical_clustering.dir/build.make tools/QHC/CMakeFiles/quick_hierarchical_clustering.dir/build make -f tools/create_coverage_h5_file/CMakeFiles/create_coverage_h5_file.dir/build.make tools/create_coverage_h5_file/CMakeFiles/create_coverage_h5_file.dir/build make[3]: Entering directory '/build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu' [ 65%] Building CXX object tools/kissnp2/CMakeFiles/kissnp2.dir/src/main.cpp.o [ 55%] Building CXX object tools/create_coverage_h5_file/CMakeFiles/create_coverage_h5_file.dir/src/create_coverage_h5_file.cpp.o [ 35%] Building CXX object tools/QHC/CMakeFiles/quick_hierarchical_clustering.dir/src/quick_hierarchical_clustering.cpp.o [ 25%] Building CXX object tools/kissnp2/CMakeFiles/kissnp2.dir/src/Kissnp2.cpp.o [ 75%] Building CXX object tools/kissreads2/CMakeFiles/kissreads2.dir/src/commons.cpp.o [ 75%] Building CXX object tools/kissnp2/CMakeFiles/kissnp2.dir/src/Bubble.cpp.o [ 50%] Building CXX object tools/kissreads2/CMakeFiles/kissreads2.dir/src/interface_xhash.cpp.o [ 75%] Building CXX object tools/kissreads2/CMakeFiles/kissreads2.dir/src/fragment.cpp.o [ 75%] Building CXX object tools/kissreads2/CMakeFiles/kissreads2.dir/src/read_mapper.cpp.o [ 75%] Building CXX object tools/kissreads2/CMakeFiles/kissreads2.dir/src/fragment_index.cpp.o [ 75%] Building CXX object tools/kissreads2/CMakeFiles/kissreads2.dir/src/main.cpp.o [ 75%] Building CXX object tools/read_file_names/CMakeFiles/read_file_names.dir/src/get_read_file_names.cpp.o [ 75%] Building CXX object tools/kissnp2/CMakeFiles/kissnp2.dir/src/Filter.cpp.o [ 75%] Building CXX object tools/kissreads2/CMakeFiles/kissreads2.dir/src/outputs.cpp.o [ 75%] Building CXX object tools/kissreads2/CMakeFiles/kissreads2.dir/src/Kissreads2.cpp.o cd /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu/tools/kissnp2 && /usr/bin/c++ -I/build/reproducible-path/discosnp-2.6.2/tools/kissnp2/src -g -O2 -ffile-prefix-map=/build/reproducible-path/discosnp-2.6.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tools/kissnp2/CMakeFiles/kissnp2.dir/src/main.cpp.o -MF CMakeFiles/kissnp2.dir/src/main.cpp.o.d -o CMakeFiles/kissnp2.dir/src/main.cpp.o -c /build/reproducible-path/discosnp-2.6.2/tools/kissnp2/src/main.cpp cd /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu/tools/kissreads2 && /usr/bin/c++ -I/build/reproducible-path/discosnp-2.6.2/tools/kissreads2/src -g -O2 -ffile-prefix-map=/build/reproducible-path/discosnp-2.6.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tools/kissreads2/CMakeFiles/kissreads2.dir/src/interface_xhash.cpp.o -MF CMakeFiles/kissreads2.dir/src/interface_xhash.cpp.o.d -o CMakeFiles/kissreads2.dir/src/interface_xhash.cpp.o -c /build/reproducible-path/discosnp-2.6.2/tools/kissreads2/src/interface_xhash.cpp cd /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu/tools/kissnp2 && /usr/bin/c++ -I/build/reproducible-path/discosnp-2.6.2/tools/kissnp2/src -g -O2 -ffile-prefix-map=/build/reproducible-path/discosnp-2.6.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tools/kissnp2/CMakeFiles/kissnp2.dir/src/Kissnp2.cpp.o -MF CMakeFiles/kissnp2.dir/src/Kissnp2.cpp.o.d -o CMakeFiles/kissnp2.dir/src/Kissnp2.cpp.o -c /build/reproducible-path/discosnp-2.6.2/tools/kissnp2/src/Kissnp2.cpp cd /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu/tools/kissnp2 && /usr/bin/c++ -I/build/reproducible-path/discosnp-2.6.2/tools/kissnp2/src -g -O2 -ffile-prefix-map=/build/reproducible-path/discosnp-2.6.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tools/kissnp2/CMakeFiles/kissnp2.dir/src/Bubble.cpp.o -MF CMakeFiles/kissnp2.dir/src/Bubble.cpp.o.d -o CMakeFiles/kissnp2.dir/src/Bubble.cpp.o -c /build/reproducible-path/discosnp-2.6.2/tools/kissnp2/src/Bubble.cpp cd /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu/tools/kissnp2 && /usr/bin/c++ -I/build/reproducible-path/discosnp-2.6.2/tools/kissnp2/src -g -O2 -ffile-prefix-map=/build/reproducible-path/discosnp-2.6.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tools/kissnp2/CMakeFiles/kissnp2.dir/src/Filter.cpp.o -MF CMakeFiles/kissnp2.dir/src/Filter.cpp.o.d -o CMakeFiles/kissnp2.dir/src/Filter.cpp.o -c /build/reproducible-path/discosnp-2.6.2/tools/kissnp2/src/Filter.cpp cd /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu/tools/create_coverage_h5_file && /usr/bin/c++ -I/build/reproducible-path/discosnp-2.6.2/tools/create_coverage_h5_file/src -g -O2 -ffile-prefix-map=/build/reproducible-path/discosnp-2.6.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tools/create_coverage_h5_file/CMakeFiles/create_coverage_h5_file.dir/src/create_coverage_h5_file.cpp.o -MF CMakeFiles/create_coverage_h5_file.dir/src/create_coverage_h5_file.cpp.o.d -o CMakeFiles/create_coverage_h5_file.dir/src/create_coverage_h5_file.cpp.o -c /build/reproducible-path/discosnp-2.6.2/tools/create_coverage_h5_file/src/create_coverage_h5_file.cpp cd /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu/tools/QHC && /usr/bin/c++ -I/build/reproducible-path/discosnp-2.6.2/tools/QHC/src -g -O2 -ffile-prefix-map=/build/reproducible-path/discosnp-2.6.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tools/QHC/CMakeFiles/quick_hierarchical_clustering.dir/src/quick_hierarchical_clustering.cpp.o -MF CMakeFiles/quick_hierarchical_clustering.dir/src/quick_hierarchical_clustering.cpp.o.d -o CMakeFiles/quick_hierarchical_clustering.dir/src/quick_hierarchical_clustering.cpp.o -c /build/reproducible-path/discosnp-2.6.2/tools/QHC/src/quick_hierarchical_clustering.cpp cd /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu/tools/read_file_names && /usr/bin/c++ -I/build/reproducible-path/discosnp-2.6.2/tools/read_file_names/src -g -O2 -ffile-prefix-map=/build/reproducible-path/discosnp-2.6.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tools/read_file_names/CMakeFiles/read_file_names.dir/src/get_read_file_names.cpp.o -MF CMakeFiles/read_file_names.dir/src/get_read_file_names.cpp.o.d -o CMakeFiles/read_file_names.dir/src/get_read_file_names.cpp.o -c /build/reproducible-path/discosnp-2.6.2/tools/read_file_names/src/get_read_file_names.cpp cd /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu/tools/kissreads2 && /usr/bin/c++ -I/build/reproducible-path/discosnp-2.6.2/tools/kissreads2/src -g -O2 -ffile-prefix-map=/build/reproducible-path/discosnp-2.6.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tools/kissreads2/CMakeFiles/kissreads2.dir/src/commons.cpp.o -MF CMakeFiles/kissreads2.dir/src/commons.cpp.o.d -o CMakeFiles/kissreads2.dir/src/commons.cpp.o -c /build/reproducible-path/discosnp-2.6.2/tools/kissreads2/src/commons.cpp cd /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu/tools/kissreads2 && /usr/bin/c++ -I/build/reproducible-path/discosnp-2.6.2/tools/kissreads2/src -g -O2 -ffile-prefix-map=/build/reproducible-path/discosnp-2.6.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tools/kissreads2/CMakeFiles/kissreads2.dir/src/Kissreads2.cpp.o -MF CMakeFiles/kissreads2.dir/src/Kissreads2.cpp.o.d -o CMakeFiles/kissreads2.dir/src/Kissreads2.cpp.o -c /build/reproducible-path/discosnp-2.6.2/tools/kissreads2/src/Kissreads2.cpp cd /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu/tools/kissreads2 && /usr/bin/c++ -I/build/reproducible-path/discosnp-2.6.2/tools/kissreads2/src -g -O2 -ffile-prefix-map=/build/reproducible-path/discosnp-2.6.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tools/kissreads2/CMakeFiles/kissreads2.dir/src/fragment.cpp.o -MF CMakeFiles/kissreads2.dir/src/fragment.cpp.o.d -o CMakeFiles/kissreads2.dir/src/fragment.cpp.o -c /build/reproducible-path/discosnp-2.6.2/tools/kissreads2/src/fragment.cpp cd /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu/tools/kissreads2 && /usr/bin/c++ -I/build/reproducible-path/discosnp-2.6.2/tools/kissreads2/src -g -O2 -ffile-prefix-map=/build/reproducible-path/discosnp-2.6.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tools/kissreads2/CMakeFiles/kissreads2.dir/src/fragment_index.cpp.o -MF CMakeFiles/kissreads2.dir/src/fragment_index.cpp.o.d -o CMakeFiles/kissreads2.dir/src/fragment_index.cpp.o -c /build/reproducible-path/discosnp-2.6.2/tools/kissreads2/src/fragment_index.cpp cd /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu/tools/kissreads2 && /usr/bin/c++ -I/build/reproducible-path/discosnp-2.6.2/tools/kissreads2/src -g -O2 -ffile-prefix-map=/build/reproducible-path/discosnp-2.6.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tools/kissreads2/CMakeFiles/kissreads2.dir/src/main.cpp.o -MF CMakeFiles/kissreads2.dir/src/main.cpp.o.d -o CMakeFiles/kissreads2.dir/src/main.cpp.o -c /build/reproducible-path/discosnp-2.6.2/tools/kissreads2/src/main.cpp cd /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu/tools/kissreads2 && /usr/bin/c++ -I/build/reproducible-path/discosnp-2.6.2/tools/kissreads2/src -g -O2 -ffile-prefix-map=/build/reproducible-path/discosnp-2.6.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tools/kissreads2/CMakeFiles/kissreads2.dir/src/outputs.cpp.o -MF CMakeFiles/kissreads2.dir/src/outputs.cpp.o.d -o CMakeFiles/kissreads2.dir/src/outputs.cpp.o -c /build/reproducible-path/discosnp-2.6.2/tools/kissreads2/src/outputs.cpp cd /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu/tools/kissreads2 && /usr/bin/c++ -I/build/reproducible-path/discosnp-2.6.2/tools/kissreads2/src -g -O2 -ffile-prefix-map=/build/reproducible-path/discosnp-2.6.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tools/kissreads2/CMakeFiles/kissreads2.dir/src/read_mapper.cpp.o -MF CMakeFiles/kissreads2.dir/src/read_mapper.cpp.o.d -o CMakeFiles/kissreads2.dir/src/read_mapper.cpp.o -c /build/reproducible-path/discosnp-2.6.2/tools/kissreads2/src/read_mapper.cpp [ 80%] Linking CXX executable ../../bin/quick_hierarchical_clustering cd /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu/tools/QHC && /usr/bin/cmake -E cmake_link_script CMakeFiles/quick_hierarchical_clustering.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/discosnp-2.6.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic -Wl,--dependency-file=CMakeFiles/quick_hierarchical_clustering.dir/link.d CMakeFiles/quick_hierarchical_clustering.dir/src/quick_hierarchical_clustering.cpp.o -o ../../bin/quick_hierarchical_clustering -L/usr/lib/x86_64-linux-gnu/hdf5/serial -Wl,-rpath,/usr/lib/x86_64-linux-gnu/hdf5/serial: -lgatbcore -lhdf5 -lz make[3]: Leaving directory '/build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu' [ 80%] Built target quick_hierarchical_clustering [ 85%] Linking CXX executable ../../bin/read_file_names cd /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu/tools/read_file_names && /usr/bin/cmake -E cmake_link_script CMakeFiles/read_file_names.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/discosnp-2.6.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic -Wl,--dependency-file=CMakeFiles/read_file_names.dir/link.d CMakeFiles/read_file_names.dir/src/get_read_file_names.cpp.o -o ../../bin/read_file_names -L/usr/lib/x86_64-linux-gnu/hdf5/serial -Wl,-rpath,/usr/lib/x86_64-linux-gnu/hdf5/serial: -lgatbcore -lhdf5 -lz make[3]: Leaving directory '/build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu' [ 85%] Built target read_file_names [ 90%] Linking CXX executable ../../bin/create_coverage_h5_file cd /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu/tools/create_coverage_h5_file && /usr/bin/cmake -E cmake_link_script CMakeFiles/create_coverage_h5_file.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/discosnp-2.6.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic -Wl,--dependency-file=CMakeFiles/create_coverage_h5_file.dir/link.d CMakeFiles/create_coverage_h5_file.dir/src/create_coverage_h5_file.cpp.o -o ../../bin/create_coverage_h5_file -L/usr/lib/x86_64-linux-gnu/hdf5/serial -Wl,-rpath,/usr/lib/x86_64-linux-gnu/hdf5/serial: -lgatbcore -lhdf5 -lz make[3]: Leaving directory '/build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu' [ 90%] Built target create_coverage_h5_file [ 95%] Linking CXX executable ../../bin/kissreads2 [100%] Linking CXX executable ../../bin/kissnp2 cd /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu/tools/kissreads2 && /usr/bin/cmake -E cmake_link_script CMakeFiles/kissreads2.dir/link.txt --verbose=1 cd /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu/tools/kissnp2 && /usr/bin/cmake -E cmake_link_script CMakeFiles/kissnp2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/discosnp-2.6.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic -Wl,--dependency-file=CMakeFiles/kissnp2.dir/link.d CMakeFiles/kissnp2.dir/src/Bubble.cpp.o CMakeFiles/kissnp2.dir/src/Filter.cpp.o CMakeFiles/kissnp2.dir/src/Kissnp2.cpp.o CMakeFiles/kissnp2.dir/src/main.cpp.o -o ../../bin/kissnp2 -L/usr/lib/x86_64-linux-gnu/hdf5/serial -Wl,-rpath,/usr/lib/x86_64-linux-gnu/hdf5/serial: -lgatbcore -lhdf5 -lz /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/discosnp-2.6.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic -Wl,--dependency-file=CMakeFiles/kissreads2.dir/link.d CMakeFiles/kissreads2.dir/src/Kissreads2.cpp.o CMakeFiles/kissreads2.dir/src/commons.cpp.o CMakeFiles/kissreads2.dir/src/fragment.cpp.o CMakeFiles/kissreads2.dir/src/fragment_index.cpp.o CMakeFiles/kissreads2.dir/src/interface_xhash.cpp.o CMakeFiles/kissreads2.dir/src/main.cpp.o CMakeFiles/kissreads2.dir/src/outputs.cpp.o CMakeFiles/kissreads2.dir/src/read_mapper.cpp.o -o ../../bin/kissreads2 -L/usr/lib/x86_64-linux-gnu/hdf5/serial -Wl,-rpath,/usr/lib/x86_64-linux-gnu/hdf5/serial: -lgatbcore -lhdf5 -lz make[3]: Leaving directory '/build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu' [100%] Built target kissnp2 [100%] Built target kissreads2 make[2]: Leaving directory '/build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu' dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/discosnp/ cd obj-x86_64-linux-gnu && make -j42 install DESTDIR=/build/reproducible-path/discosnp-2.6.2/debian/discosnp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/discosnp-2.6.2 -B/build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/reproducible-path/discosnp-2.6.2/debian/discosnp/usr/bin/kissnp2 -- Set non-toolchain portion of runtime path of "/build/reproducible-path/discosnp-2.6.2/debian/discosnp/usr/bin/kissnp2" to "" -- Installing: /build/reproducible-path/discosnp-2.6.2/debian/discosnp/usr/bin/kissreads2 -- Set non-toolchain portion of runtime path of "/build/reproducible-path/discosnp-2.6.2/debian/discosnp/usr/bin/kissreads2" to "" -- Installing: /build/reproducible-path/discosnp-2.6.2/debian/discosnp/usr/bin/quick_hierarchical_clustering -- Set non-toolchain portion of runtime path of "/build/reproducible-path/discosnp-2.6.2/debian/discosnp/usr/bin/quick_hierarchical_clustering" to "" -- Installing: /build/reproducible-path/discosnp-2.6.2/debian/discosnp/usr/bin/read_file_names -- Set non-toolchain portion of runtime path of "/build/reproducible-path/discosnp-2.6.2/debian/discosnp/usr/bin/read_file_names" to "" -- Installing: /build/reproducible-path/discosnp-2.6.2/debian/discosnp/usr/bin/create_coverage_h5_file -- Set non-toolchain portion of runtime path of "/build/reproducible-path/discosnp-2.6.2/debian/discosnp/usr/bin/create_coverage_h5_file" to "" make[1]: Leaving directory '/build/reproducible-path/discosnp-2.6.2/obj-x86_64-linux-gnu' debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/discosnp-2.6.2' dh_install mkdir -p debian/discosnp/usr/lib/discosnp/bin mv debian/discosnp/usr/bin/read_file_names debian/discosnp/usr/lib/discosnp/bin mv debian/discosnp/usr/bin/quick_hierarchical_clustering debian/discosnp/usr/lib/discosnp/bin rm -rf debian/discosnp/usr/share/discosnp/scripts/jenkins make[1]: Leaving directory '/build/reproducible-path/discosnp-2.6.2' dh_installdocs dh_installchangelogs debian/rules override_dh_installman make[1]: Entering directory '/build/reproducible-path/discosnp-2.6.2' dh_installman # dh_installman interprets .sh as language - just copy manpages manually cp -a debian/mans/*.sh.1 debian/discosnp/usr/share/man/man1 make[1]: Leaving directory '/build/reproducible-path/discosnp-2.6.2' dh_python3 I: dh_python3 tools:114: replacing shebang in debian/discosnp/usr/share/discosnp/discoSnpRAD/post-processing_scripts/1SNP_per_cluster.py I: dh_python3 tools:114: replacing shebang in debian/discosnp/usr/share/discosnp/discoSnpRAD/post-processing_scripts/filter_by_cluster_size_and_rank.py I: dh_python3 tools:114: replacing shebang in debian/discosnp/usr/share/discosnp/discoSnpRAD/post-processing_scripts/filter_paralogs.py I: dh_python3 tools:114: replacing shebang in debian/discosnp/usr/share/discosnp/discoSnpRAD/clustering_scripts/fasta_and_cluster_to_filtered_vcf.py I: dh_python3 tools:114: replacing shebang in debian/discosnp/usr/share/discosnp/scripts/ClassVCF_creator.py I: dh_python3 tools:114: replacing shebang in debian/discosnp/usr/share/discosnp/scripts/VCF_creator.py I: dh_python3 tools:114: replacing shebang in debian/discosnp/usr/share/discosnp/scripts/create_filtered_vcf.py I: dh_python3 tools:114: replacing shebang in debian/discosnp/usr/share/discosnp/scripts/discoSnp++_to_csv.py I: dh_python3 tools:114: replacing shebang in debian/discosnp/usr/share/discosnp/scripts/filterOnBestDP_multiple_variant_at_same_pos.py I: dh_python3 tools:114: replacing shebang in debian/discosnp/usr/share/discosnp/scripts/functionObjectVCF_creator.py I: dh_python3 tools:114: replacing shebang in debian/discosnp/usr/share/discosnp/scripts/keep_extensions_disco_file.py I: dh_python3 tools:114: replacing shebang in debian/discosnp/usr/share/discosnp/scripts/redundancy_removal_discosnp.py I: dh_python3 tools:114: replacing shebang in debian/discosnp/usr/share/discosnp/scripts/vcf_formatting_functions.py I: dh_python3 tools:114: replacing shebang in debian/discosnp/usr/share/discosnp/scripts/k3000/K3000.py I: dh_python3 tools:114: replacing shebang in debian/discosnp/usr/share/discosnp/scripts/k3000/K3000_common.py I: dh_python3 tools:114: replacing shebang in debian/discosnp/usr/share/discosnp/scripts/k3000/K3000_facts_to_gfa.py I: dh_python3 tools:114: replacing shebang in debian/discosnp/usr/share/discosnp/scripts/k3000/K3000_filter_badly_overlapping_variants.py I: dh_python3 tools:114: replacing shebang in debian/discosnp/usr/share/discosnp/scripts/k3000/K3000_node_ids_to_node_sequences.py I: dh_python3 tools:114: replacing shebang in debian/discosnp/usr/share/discosnp/scripts/k3000/K3000_paths_to_fa.py I: dh_python3 tools:114: replacing shebang in debian/discosnp/usr/share/discosnp/scripts/k3000/K3000_phased_paths_to_fa.py dh_lintian dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'discosnp-dbgsym' in '../discosnp-dbgsym_2.6.2-4_amd64.deb'. dpkg-deb: building package 'discosnp' in '../discosnp_2.6.2-4_amd64.deb'. dpkg-genbuildinfo --build=binary -O../discosnp_2.6.2-4_amd64.buildinfo dpkg-genchanges --build=binary -O../discosnp_2.6.2-4_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration 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/441560 and its subdirectories I: Current time: Sun Oct 18 16:00:27 -12 2026 I: pbuilder-time-stamp: 1792382427 Mon Sep 15 21:37:29 UTC 2025 I: 1st build successful. Starting 2nd build on remote node ionos11-amd64.debian.net. Mon Sep 15 21:37:29 UTC 2025 I: Preparing to do remote build '2' on ionos11-amd64.debian.net. Mon Sep 15 21:43:31 UTC 2025 I: Deleting $TMPDIR on ionos11-amd64.debian.net. Mon Sep 15 21:43:32 UTC 2025 I: discosnp_2.6.2-4_amd64.changes: Format: 1.8 Date: Sat, 07 Dec 2024 10:07:19 +0100 Source: discosnp Binary: discosnp discosnp-dbgsym Architecture: amd64 Version: 1:2.6.2-4 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: discosnp - discovering Single Nucleotide Polymorphism from raw set(s) of rea Closes: 1085542 Changes: discosnp (1:2.6.2-4) unstable; urgency=medium . * Fix Python3.12 syntax Closes: #1085542 * Standards-Version: 4.7.0 (routine-update) Checksums-Sha1: 6c928e56908d66de2ec87e401e5b7c742304756b 2592976 discosnp-dbgsym_2.6.2-4_amd64.deb 51840fd63043b865c4b2f569549aac09f59aff7c 7990 discosnp_2.6.2-4_amd64.buildinfo 5b4768bb3364274ae61f99dd4f0723b0d3319fa3 1475272 discosnp_2.6.2-4_amd64.deb Checksums-Sha256: 44c0bb3f887368e4fc62dd4369a833c4f2f6f682b67947b241002694853c1eb6 2592976 discosnp-dbgsym_2.6.2-4_amd64.deb 1c5f298c780e0d97ce513c90ee4c99a28e830aaea963c07ca24620244090a077 7990 discosnp_2.6.2-4_amd64.buildinfo 463eae1d3904315f755e88517e10a919353f60cdd44a09fd7c72302a575128d6 1475272 discosnp_2.6.2-4_amd64.deb Files: 4ad37c34bdf80d8df26bdbde177b95df 2592976 debug optional discosnp-dbgsym_2.6.2-4_amd64.deb 4f6991ad1288677063bdf1369f795f12 7990 science optional discosnp_2.6.2-4_amd64.buildinfo 8618ac21d01054000b80e379ffff86d4 1475272 science optional discosnp_2.6.2-4_amd64.deb Mon Sep 15 21:43:32 UTC 2025 I: diffoscope 306 will be used to compare the two builds: Running as unit: rb-diffoscope-amd64_8-72540.service; invocation ID: dbe50baf21f14bb38c57284b027c0218 # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.MDSJYvfu/discosnp_2.6.2-4.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.MDSJYvfu/discosnp_2.6.2-4.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.MDSJYvfu/discosnp_2.6.2-4.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.MDSJYvfu/b1/discosnp_2.6.2-4_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.MDSJYvfu/b2/discosnp_2.6.2-4_amd64.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call diffoscope.comparators.binary.FilesystemFile ## main (total time: 0.003s) 0.003s 2 calls outputs 0.000s 1 call cleanup Finished with result: success Main processes terminated with: code=exited, status=0/SUCCESS Service runtime: 215ms CPU time consumed: 182ms Memory peak: 19M (swap: 0B) Mon Sep 15 21:47:50 UTC 2025 I: diffoscope 306 found no differences in the changes files, and a .buildinfo file also exists. Mon Sep 15 21:47:50 UTC 2025 I: discosnp from forky built successfully and reproducibly on amd64. Mon Sep 15 21:47:51 UTC 2025 I: Removing signed discosnp_2.6.2-4_amd64.buildinfo.asc files: removed './b1/discosnp_2.6.2-4_amd64.buildinfo.asc' removed './b2/discosnp_2.6.2-4_amd64.buildinfo.asc'