Fri Mar 7 08:24:10 UTC 2025 I: starting to build mindthegap/unstable/amd64 on jenkins on '2025-03-07 08:23' Fri Mar 7 08:24:10 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_36/51402/console.log Fri Mar 7 08:24:10 UTC 2025 I: Downloading source for unstable/mindthegap=2.3.0-4 --2025-03-07 08:24:10-- http://deb.debian.org/debian/pool/main/m/mindthegap/mindthegap_2.3.0-4.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2441 (2.4K) [text/prs.lines.tag] Saving to: ‘mindthegap_2.3.0-4.dsc’ 0K .. 100% 277M=0s 2025-03-07 08:24:10 (277 MB/s) - ‘mindthegap_2.3.0-4.dsc’ saved [2441/2441] Fri Mar 7 08:24:10 UTC 2025 I: mindthegap_2.3.0-4.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: mindthegap Binary: mindthegap, mindthegap-examples Architecture: any-amd64 arm64 loong64 mips64el ppc64el ia64 ppc64 riscv64 sparc64 alpha all Version: 2.3.0-4 Maintainer: Debian Med Packaging Team Uploaders: Shayan Doust , Étienne Mollier Homepage: https://github.com/GATB/MindTheGap Standards-Version: 4.7.0 Vcs-Browser: https://salsa.debian.org/med-team/mindthegap Vcs-Git: https://salsa.debian.org/med-team/mindthegap.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), cmake, libgatbcore-dev (>= 1.4.2+dfsg-7), libboost-dev, zlib1g-dev, libhdf5-dev Package-List: mindthegap deb science optional arch=any-amd64,arm64,loong64,mips64el,ppc64el,ia64,ppc64,riscv64,sparc64,alpha mindthegap-examples deb science optional arch=all Checksums-Sha1: 2822f481a334d040916ee2b4e875ef83de67e430 777831 mindthegap_2.3.0.orig.tar.gz 248efba0de4057bc4a90fe168dd33fc2f8a3e392 8148 mindthegap_2.3.0-4.debian.tar.xz Checksums-Sha256: 1d886d34bb892079121755c856329155f332e4bc19eaf31b41ce3d0333544ac5 777831 mindthegap_2.3.0.orig.tar.gz d53e6efe402f9e33e153af48a1ef4c41ffde7f5a95d3b6fe081b2dfb5d2dc10d 8148 mindthegap_2.3.0-4.debian.tar.xz Files: 7a5d75e60c812e921dd4a60fd71c9b74 777831 mindthegap_2.3.0.orig.tar.gz e0edfc0969b45deb1cd1d723dac5f7e9 8148 mindthegap_2.3.0-4.debian.tar.xz Dgit: 6736096075ffa4861be0620511992de69917750e debian archive/debian/2.3.0-4 https://git.dgit.debian.org/mindthegap -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmbbWQcUHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdp7gxAAgEKVr8SwCVEV8e6ZypyZ9GYpLpgh IkKwpNvs6WuNdOa2aS4LRyLi2wmZt55dGcoIElBpQa8tp7OSL1GxPWzQGw6LRurh LU+bPIZMxBNqvqDENDPoPQ4Sh+W7RstYQ9gDcGiJtNZZBRP6By4cu6kJklerNnP+ jZ7iFvkkl66h/JesjGJq6b6Q2Q4f0y59FNpW2ExCqSgNwPDRunmBkotI0x1c5ZxY zsrc2yzOWyLqI7W3edRbKtIGD94SSsax5erDAeazJGCjanWOfQC+ozcUxrLneb2q Z5JubKukm111RvGzqv/muhXWdWDiKa8nyjijH8GEQArClHIUrcNMTTxCi85DxPpV SLwM/OYS5kAVOTNe2UTY2PP0hN4E9QMhQxtV4qZy9lYWqD8aI9V9dXxPbxZZUz7P LldImOki9LYT5wbArdaKuVGhdT3HLDhYw8z/h07TAhMVQblhTazfCv/f6u5iT5K3 kjhRUwQthpOwR6FN9+23L1tCIkg63Sc3I/6O6GwniKHIXmZXvbCSdTpbJEwUZLBU uMldXOXpAomzGxJPgw7npDSWeE42W5bb83fEgN2y1f50c1kvUg8IHkJ0gUw4gN5D R5PTtxD1Z33IETvw9WKkRScSrtd3sw0CDHJIxEJhgsfS+w1AZDbbxeV/lYEHYJix VyAqm7rK6bfrOec= =RxFO -----END PGP SIGNATURE----- Fri Mar 7 08:24:10 UTC 2025 I: Checking whether the package is not for us Fri Mar 7 08:24:10 UTC 2025 I: Starting 1st build on remote node infom02-amd64.debian.net. Fri Mar 7 08:24:10 UTC 2025 I: Preparing to do remote build '1' on infom02-amd64.debian.net. Fri Mar 7 08:27:01 UTC 2025 I: Deleting $TMPDIR on infom02-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Thu Apr 9 02:47:13 -12 2026 I: pbuilder-time-stamp: 1775746033 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 [mindthegap_2.3.0-4.dsc] I: copying [./mindthegap_2.3.0.orig.tar.gz] I: copying [./mindthegap_2.3.0-4.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./mindthegap_2.3.0-4.dsc: unsupported subcommand dpkg-source: info: extracting mindthegap in mindthegap-2.3.0 dpkg-source: info: unpacking mindthegap_2.3.0.orig.tar.gz dpkg-source: info: unpacking mindthegap_2.3.0-4.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 remove_unnecessary_installs.patch dpkg-source: info: applying modify_tests_for_autopkgtest.patch dpkg-source: info: applying 2to3.patch dpkg-source: info: applying fix-use-as-function.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/2752283/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=12 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='b63663af79c44238be21f1184c1990a6' 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='2752283' 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.PvYrUN7X/pbuilderrc_kQZq --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.PvYrUN7X/b1 --logfile b1/build.log mindthegap_2.3.0-4.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' I: uname -a Linux infom02-amd64 6.12.12+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.12-1~bpo12+1 (2025-02-23) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Mar 4 2025 /bin -> usr/bin I: user script /srv/workspace/pbuilder/2752283/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), cmake, libgatbcore-dev (>= 1.4.2+dfsg-7), libboost-dev, zlib1g-dev, libhdf5-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 ... 19783 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on libgatbcore-dev (>= 1.4.2+dfsg-7); 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 zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on libhdf5-dev; however: Package libhdf5-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-strip-nondeterminism{a} dwz{a} file{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} 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} libicu72{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} 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{a} libtasn1-6-dev{a} libtool{a} libuchardet0{a} libunbound8{a} libunistring5{a} libuv1t64{a} libxml2{a} libzstd-dev{a} m4{a} man-db{a} nettle-dev{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} procps{a} sensible-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl krb5-locales libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules libtasn1-doc linux-sysctl-defaults lynx psmisc publicsuffix wget 0 packages upgraded, 111 newly installed, 0 to remove and 0 not upgraded. Need to get 75.5 MB of archives. After unpacking 466 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main amd64 libproc2-0 amd64 2:4.0.4-7 [64.9 kB] Get: 2 http://deb.debian.org/debian unstable/main amd64 procps amd64 2:4.0.4-7 [878 kB] Get: 3 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get: 4 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB] Get: 5 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB] Get: 6 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.45-3+b1 [43.3 kB] Get: 7 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.23.1-1 [243 kB] Get: 8 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 9 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-7 [1185 kB] Get: 10 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.40.4-5 [92.4 kB] Get: 11 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 12 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get: 13 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-7 [294 kB] Get: 14 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3 [493 kB] Get: 15 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 16 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.17-3 [862 kB] Get: 17 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.23.1-1 [770 kB] Get: 18 http://deb.debian.org/debian unstable/main amd64 cmake-data all 3.31.6-1 [2268 kB] Get: 19 http://deb.debian.org/debian unstable/main amd64 libicu72 amd64 72.1-6 [9421 kB] Get: 20 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2+b2 [699 kB] Get: 21 http://deb.debian.org/debian unstable/main amd64 libarchive13t64 amd64 3.7.4-1.1 [349 kB] Get: 22 http://deb.debian.org/debian unstable/main amd64 libbrotli1 amd64 1.1.0-2+b7 [307 kB] Get: 23 http://deb.debian.org/debian unstable/main amd64 libkrb5support0 amd64 1.21.3-4 [32.8 kB] Get: 24 http://deb.debian.org/debian unstable/main amd64 libcom-err2 amd64 1.47.2-1 [24.0 kB] Get: 25 http://deb.debian.org/debian unstable/main amd64 libk5crypto3 amd64 1.21.3-4 [80.9 kB] Get: 26 http://deb.debian.org/debian unstable/main amd64 libkeyutils1 amd64 1.6.3-4 [9092 B] Get: 27 http://deb.debian.org/debian unstable/main amd64 libkrb5-3 amd64 1.21.3-4 [326 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.21.3-4 [138 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 libunistring5 amd64 1.3-1 [476 kB] Get: 30 http://deb.debian.org/debian unstable/main amd64 libidn2-0 amd64 2.3.7-2+b1 [129 kB] Get: 31 http://deb.debian.org/debian unstable/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-9 [19.8 kB] Get: 32 http://deb.debian.org/debian unstable/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-9 [57.5 kB] Get: 33 http://deb.debian.org/debian unstable/main amd64 libldap2 amd64 2.6.9+dfsg-1 [192 kB] Get: 34 http://deb.debian.org/debian unstable/main amd64 libnghttp2-14 amd64 1.64.0-1 [75.5 kB] Get: 35 http://deb.debian.org/debian unstable/main amd64 libnghttp3-9 amd64 1.8.0-1 [67.7 kB] Get: 36 http://deb.debian.org/debian unstable/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get: 37 http://deb.debian.org/debian unstable/main amd64 libffi8 amd64 3.4.7-1 [23.9 kB] Get: 38 http://deb.debian.org/debian unstable/main amd64 libp11-kit0 amd64 0.25.5-3 [425 kB] Get: 39 http://deb.debian.org/debian unstable/main amd64 libtasn1-6 amd64 4.20.0-2 [49.9 kB] Get: 40 http://deb.debian.org/debian unstable/main amd64 libgnutls30t64 amd64 3.8.9-2 [1464 kB] Get: 41 http://deb.debian.org/debian unstable/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b5 [58.8 kB] Get: 42 http://deb.debian.org/debian unstable/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get: 43 http://deb.debian.org/debian unstable/main amd64 libcurl4t64 amd64 8.12.1-3 [369 kB] Get: 44 http://deb.debian.org/debian unstable/main amd64 libexpat1 amd64 2.6.4-1 [106 kB] Get: 45 http://deb.debian.org/debian unstable/main amd64 libjsoncpp26 amd64 1.9.6-3 [81.7 kB] Get: 46 http://deb.debian.org/debian unstable/main amd64 librhash1 amd64 1.4.5-1 [132 kB] Get: 47 http://deb.debian.org/debian unstable/main amd64 libuv1t64 amd64 1.50.0-2 [154 kB] Get: 48 http://deb.debian.org/debian unstable/main amd64 cmake amd64 3.31.6-1 [12.0 MB] Get: 49 http://deb.debian.org/debian unstable/main amd64 comerr-dev amd64 2.1-1.47.2-1 [55.7 kB] Get: 50 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.24.1 [90.9 kB] Get: 51 http://deb.debian.org/debian unstable/main amd64 libtool all 2.5.4-4 [539 kB] Get: 52 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 53 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 54 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 55 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 56 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 57 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 58 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.23.1-1 [1680 kB] Get: 59 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 60 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 61 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.24.1 [920 kB] Get: 62 http://deb.debian.org/debian unstable/main amd64 hdf5-helpers amd64 1.14.5+repack-3 [26.6 kB] Get: 63 http://deb.debian.org/debian unstable/main amd64 libgssrpc4t64 amd64 1.21.3-4 [60.0 kB] Get: 64 http://deb.debian.org/debian unstable/main amd64 libkadm5clnt-mit12 amd64 1.21.3-4 [42.2 kB] Get: 65 http://deb.debian.org/debian unstable/main amd64 libkdb5-10t64 amd64 1.21.3-4 [42.4 kB] Get: 66 http://deb.debian.org/debian unstable/main amd64 libkadm5srv-mit12 amd64 1.21.3-4 [54.2 kB] Get: 67 http://deb.debian.org/debian unstable/main amd64 krb5-multidev amd64 1.21.3-4 [126 kB] Get: 68 http://deb.debian.org/debian unstable/main amd64 libaec0 amd64 1.1.3-1+b1 [23.8 kB] Get: 69 http://deb.debian.org/debian unstable/main amd64 libsz2 amd64 1.1.3-1+b1 [8080 B] Get: 70 http://deb.debian.org/debian unstable/main amd64 libaec-dev amd64 1.1.3-1+b1 [21.5 kB] Get: 71 http://deb.debian.org/debian unstable/main amd64 libboost1.83-dev amd64 1.83.0-4.1+b1 [10.6 MB] Get: 72 http://deb.debian.org/debian unstable/main amd64 libboost-dev amd64 1.83.0.2+b2 [3836 B] Get: 73 http://deb.debian.org/debian unstable/main amd64 libbrotli-dev amd64 1.1.0-2+b7 [316 kB] Get: 74 http://deb.debian.org/debian unstable/main amd64 libidn2-dev amd64 2.3.7-2+b1 [123 kB] Get: 75 http://deb.debian.org/debian unstable/main amd64 libkrb5-dev amd64 1.21.3-4 [15.9 kB] Get: 76 http://deb.debian.org/debian unstable/main amd64 libldap-dev amd64 2.6.9+dfsg-1 [307 kB] Get: 77 http://deb.debian.org/debian unstable/main amd64 libpkgconf3 amd64 1.8.1-4 [36.4 kB] Get: 78 http://deb.debian.org/debian unstable/main amd64 pkgconf-bin amd64 1.8.1-4 [30.2 kB] Get: 79 http://deb.debian.org/debian unstable/main amd64 pkgconf amd64 1.8.1-4 [26.2 kB] Get: 80 http://deb.debian.org/debian unstable/main amd64 libnghttp2-dev amd64 1.64.0-1 [115 kB] Get: 81 http://deb.debian.org/debian unstable/main amd64 libnghttp3-dev amd64 1.8.0-1 [91.3 kB] Get: 82 http://deb.debian.org/debian unstable/main amd64 libpsl-dev amd64 0.21.2-1.1+b1 [77.6 kB] Get: 83 http://deb.debian.org/debian unstable/main amd64 libgmpxx4ldbl amd64 2:6.3.0+dfsg-3 [329 kB] Get: 84 http://deb.debian.org/debian unstable/main amd64 libgmp-dev amd64 2:6.3.0+dfsg-3 [642 kB] Get: 85 http://deb.debian.org/debian unstable/main amd64 libevent-2.1-7t64 amd64 2.1.12-stable-10+b1 [182 kB] Get: 86 http://deb.debian.org/debian unstable/main amd64 libunbound8 amd64 1.22.0-1+b1 [598 kB] Get: 87 http://deb.debian.org/debian unstable/main amd64 libgnutls-dane0t64 amd64 3.8.9-2 [455 kB] Get: 88 http://deb.debian.org/debian unstable/main amd64 libgnutls-openssl27t64 amd64 3.8.9-2 [455 kB] Get: 89 http://deb.debian.org/debian unstable/main amd64 libp11-kit-dev amd64 0.25.5-3 [208 kB] Get: 90 http://deb.debian.org/debian unstable/main amd64 libtasn1-6-dev amd64 4.20.0-2 [99.2 kB] Get: 91 http://deb.debian.org/debian unstable/main amd64 nettle-dev amd64 3.10.1-1 [1318 kB] Get: 92 http://deb.debian.org/debian unstable/main amd64 libgnutls28-dev amd64 3.8.9-2 [1401 kB] Get: 93 http://deb.debian.org/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] Get: 94 http://deb.debian.org/debian unstable/main amd64 librtmp-dev amd64 2.4+20151223.gitfa8646d.1-2+b5 [68.0 kB] Get: 95 http://deb.debian.org/debian unstable/main amd64 libssl-dev amd64 3.4.1-1 [2787 kB] Get: 96 http://deb.debian.org/debian unstable/main amd64 libssh2-1-dev amd64 1.11.1-1 [393 kB] Get: 97 http://deb.debian.org/debian unstable/main amd64 libzstd-dev amd64 1.5.6+dfsg-2 [365 kB] Get: 98 http://deb.debian.org/debian unstable/main amd64 libcurl4-openssl-dev amd64 8.12.1-3 [483 kB] Get: 99 http://deb.debian.org/debian unstable/main amd64 libgatbcore3 amd64 1.4.2+dfsg-13+b4 [1837 kB] Get: 100 http://deb.debian.org/debian unstable/main amd64 libgatbcore-dev amd64 1.4.2+dfsg-13+b4 [3806 kB] Get: 101 http://deb.debian.org/debian unstable/main amd64 libgfortran5 amd64 14.2.0-17 [836 kB] Get: 102 http://deb.debian.org/debian unstable/main amd64 libhdf5-310 amd64 1.14.5+repack-3 [1344 kB] Get: 103 http://deb.debian.org/debian unstable/main amd64 libhdf5-cpp-310 amd64 1.14.5+repack-3 [133 kB] Get: 104 http://deb.debian.org/debian unstable/main amd64 libhdf5-fortran-310 amd64 1.14.5+repack-3 [111 kB] Get: 105 http://deb.debian.org/debian unstable/main amd64 libhdf5-hl-310 amd64 1.14.5+repack-3 [69.3 kB] Get: 106 http://deb.debian.org/debian unstable/main amd64 libhdf5-hl-fortran-310 amd64 1.14.5+repack-3 [43.9 kB] Get: 107 http://deb.debian.org/debian unstable/main amd64 libhdf5-hl-cpp-310 amd64 1.14.5+repack-3 [24.4 kB] Get: 108 http://deb.debian.org/debian unstable/main amd64 libjpeg62-turbo amd64 1:2.1.5-3.1 [168 kB] Get: 109 http://deb.debian.org/debian unstable/main amd64 libjpeg62-turbo-dev amd64 1:2.1.5-3.1 [292 kB] Get: 110 http://deb.debian.org/debian unstable/main amd64 libjpeg-dev amd64 1:2.1.5-3.1 [72.0 kB] Get: 111 http://deb.debian.org/debian unstable/main amd64 libhdf5-dev amd64 1.14.5+repack-3 [3165 kB] Fetched 75.5 MB in 3s (30.2 MB/s) Preconfiguring packages ... Selecting previously unselected package libproc2-0: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 ... 19783 files and directories currently installed.) Preparing to unpack .../000-libproc2-0_2%3a4.0.4-7_amd64.deb ... Unpacking libproc2-0:amd64 (2:4.0.4-7) ... Selecting previously unselected package procps. Preparing to unpack .../001-procps_2%3a4.0.4-7_amd64.deb ... Unpacking procps (2:4.0.4-7) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../002-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../003-libmagic-mgc_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../004-libmagic1t64_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../005-file_1%3a5.45-3+b1_amd64.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../006-gettext-base_0.23.1-1_amd64.deb ... Unpacking gettext-base (0.23.1-1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../007-libuchardet0_0.0.8-1+b2_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../008-groff-base_1.23.0-7_amd64.deb ... Unpacking groff-base (1.23.0-7) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../009-bsdextrautils_2.40.4-5_amd64.deb ... Unpacking bsdextrautils (2.40.4-5) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../010-libpipeline1_1.5.8-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../011-man-db_2.13.0-1_amd64.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package m4. Preparing to unpack .../012-m4_1.4.19-7_amd64.deb ... Unpacking m4 (1.4.19-7) ... Selecting previously unselected package autoconf. Preparing to unpack .../013-autoconf_2.72-3_all.deb ... Unpacking autoconf (2.72-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../014-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../015-automake_1%3a1.17-3_all.deb ... Unpacking automake (1:1.17-3) ... Selecting previously unselected package autopoint. Preparing to unpack .../016-autopoint_0.23.1-1_all.deb ... Unpacking autopoint (0.23.1-1) ... Selecting previously unselected package cmake-data. Preparing to unpack .../017-cmake-data_3.31.6-1_all.deb ... Unpacking cmake-data (3.31.6-1) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../018-libicu72_72.1-6_amd64.deb ... Unpacking libicu72:amd64 (72.1-6) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../019-libxml2_2.12.7+dfsg+really2.9.14-0.2+b2_amd64.deb ... Unpacking libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b2) ... Selecting previously unselected package libarchive13t64:amd64. Preparing to unpack .../020-libarchive13t64_3.7.4-1.1_amd64.deb ... Unpacking libarchive13t64:amd64 (3.7.4-1.1) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../021-libbrotli1_1.1.0-2+b7_amd64.deb ... Unpacking libbrotli1:amd64 (1.1.0-2+b7) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../022-libkrb5support0_1.21.3-4_amd64.deb ... Unpacking libkrb5support0:amd64 (1.21.3-4) ... Selecting previously unselected package libcom-err2:amd64. Preparing to unpack .../023-libcom-err2_1.47.2-1_amd64.deb ... Unpacking libcom-err2:amd64 (1.47.2-1) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../024-libk5crypto3_1.21.3-4_amd64.deb ... Unpacking libk5crypto3:amd64 (1.21.3-4) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../025-libkeyutils1_1.6.3-4_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-4) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../026-libkrb5-3_1.21.3-4_amd64.deb ... Unpacking libkrb5-3:amd64 (1.21.3-4) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../027-libgssapi-krb5-2_1.21.3-4_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.21.3-4) ... Selecting previously unselected package libunistring5:amd64. Preparing to unpack .../028-libunistring5_1.3-1_amd64.deb ... Unpacking libunistring5:amd64 (1.3-1) ... Selecting previously unselected package libidn2-0:amd64. Preparing to unpack .../029-libidn2-0_2.3.7-2+b1_amd64.deb ... Unpacking libidn2-0:amd64 (2.3.7-2+b1) ... Selecting previously unselected package libsasl2-modules-db:amd64. Preparing to unpack .../030-libsasl2-modules-db_2.1.28+dfsg1-9_amd64.deb ... Unpacking libsasl2-modules-db:amd64 (2.1.28+dfsg1-9) ... Selecting previously unselected package libsasl2-2:amd64. Preparing to unpack .../031-libsasl2-2_2.1.28+dfsg1-9_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.28+dfsg1-9) ... Selecting previously unselected package libldap2:amd64. Preparing to unpack .../032-libldap2_2.6.9+dfsg-1_amd64.deb ... Unpacking libldap2:amd64 (2.6.9+dfsg-1) ... Selecting previously unselected package libnghttp2-14:amd64. Preparing to unpack .../033-libnghttp2-14_1.64.0-1_amd64.deb ... Unpacking libnghttp2-14:amd64 (1.64.0-1) ... Selecting previously unselected package libnghttp3-9:amd64. Preparing to unpack .../034-libnghttp3-9_1.8.0-1_amd64.deb ... Unpacking libnghttp3-9:amd64 (1.8.0-1) ... 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 libffi8:amd64. Preparing to unpack .../036-libffi8_3.4.7-1_amd64.deb ... Unpacking libffi8:amd64 (3.4.7-1) ... Selecting previously unselected package libp11-kit0:amd64. Preparing to unpack .../037-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 .../038-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 .../039-libgnutls30t64_3.8.9-2_amd64.deb ... Unpacking libgnutls30t64:amd64 (3.8.9-2) ... Selecting previously unselected package librtmp1:amd64. Preparing to unpack .../040-librtmp1_2.4+20151223.gitfa8646d.1-2+b5_amd64.deb ... Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Selecting previously unselected package libssh2-1t64:amd64. Preparing to unpack .../041-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 .../042-libcurl4t64_8.12.1-3_amd64.deb ... Unpacking libcurl4t64:amd64 (8.12.1-3) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../043-libexpat1_2.6.4-1_amd64.deb ... Unpacking libexpat1:amd64 (2.6.4-1) ... Selecting previously unselected package libjsoncpp26:amd64. Preparing to unpack .../044-libjsoncpp26_1.9.6-3_amd64.deb ... Unpacking libjsoncpp26:amd64 (1.9.6-3) ... Selecting previously unselected package librhash1:amd64. Preparing to unpack .../045-librhash1_1.4.5-1_amd64.deb ... Unpacking librhash1:amd64 (1.4.5-1) ... Selecting previously unselected package libuv1t64:amd64. Preparing to unpack .../046-libuv1t64_1.50.0-2_amd64.deb ... Unpacking libuv1t64:amd64 (1.50.0-2) ... Selecting previously unselected package cmake. Preparing to unpack .../047-cmake_3.31.6-1_amd64.deb ... Unpacking cmake (3.31.6-1) ... Selecting previously unselected package comerr-dev:amd64. Preparing to unpack .../048-comerr-dev_2.1-1.47.2-1_amd64.deb ... Unpacking comerr-dev:amd64 (2.1-1.47.2-1) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../049-libdebhelper-perl_13.24.1_all.deb ... Unpacking libdebhelper-perl (13.24.1) ... Selecting previously unselected package libtool. Preparing to unpack .../050-libtool_2.5.4-4_all.deb ... Unpacking libtool (2.5.4-4) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../051-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../052-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../053-libfile-stripnondeterminism-perl_1.14.1-2_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.14.1-2) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../054-dh-strip-nondeterminism_1.14.1-2_all.deb ... Unpacking dh-strip-nondeterminism (1.14.1-2) ... Selecting previously unselected package libelf1t64:amd64. Preparing to unpack .../055-libelf1t64_0.192-4_amd64.deb ... Unpacking libelf1t64:amd64 (0.192-4) ... Selecting previously unselected package dwz. Preparing to unpack .../056-dwz_0.15-1+b1_amd64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package gettext. Preparing to unpack .../057-gettext_0.23.1-1_amd64.deb ... Unpacking gettext (0.23.1-1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../058-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../059-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../060-debhelper_13.24.1_all.deb ... Unpacking debhelper (13.24.1) ... Selecting previously unselected package hdf5-helpers. Preparing to unpack .../061-hdf5-helpers_1.14.5+repack-3_amd64.deb ... Unpacking hdf5-helpers (1.14.5+repack-3) ... Selecting previously unselected package libgssrpc4t64:amd64. Preparing to unpack .../062-libgssrpc4t64_1.21.3-4_amd64.deb ... Unpacking libgssrpc4t64:amd64 (1.21.3-4) ... Selecting previously unselected package libkadm5clnt-mit12:amd64. Preparing to unpack .../063-libkadm5clnt-mit12_1.21.3-4_amd64.deb ... Unpacking libkadm5clnt-mit12:amd64 (1.21.3-4) ... Selecting previously unselected package libkdb5-10t64:amd64. Preparing to unpack .../064-libkdb5-10t64_1.21.3-4_amd64.deb ... Unpacking libkdb5-10t64:amd64 (1.21.3-4) ... Selecting previously unselected package libkadm5srv-mit12:amd64. Preparing to unpack .../065-libkadm5srv-mit12_1.21.3-4_amd64.deb ... Unpacking libkadm5srv-mit12:amd64 (1.21.3-4) ... Selecting previously unselected package krb5-multidev:amd64. Preparing to unpack .../066-krb5-multidev_1.21.3-4_amd64.deb ... Unpacking krb5-multidev:amd64 (1.21.3-4) ... Selecting previously unselected package libaec0:amd64. Preparing to unpack .../067-libaec0_1.1.3-1+b1_amd64.deb ... Unpacking libaec0:amd64 (1.1.3-1+b1) ... Selecting previously unselected package libsz2:amd64. Preparing to unpack .../068-libsz2_1.1.3-1+b1_amd64.deb ... Unpacking libsz2:amd64 (1.1.3-1+b1) ... Selecting previously unselected package libaec-dev:amd64. Preparing to unpack .../069-libaec-dev_1.1.3-1+b1_amd64.deb ... Unpacking libaec-dev:amd64 (1.1.3-1+b1) ... Selecting previously unselected package libboost1.83-dev:amd64. Preparing to unpack .../070-libboost1.83-dev_1.83.0-4.1+b1_amd64.deb ... Unpacking libboost1.83-dev:amd64 (1.83.0-4.1+b1) ... Selecting previously unselected package libboost-dev:amd64. Preparing to unpack .../071-libboost-dev_1.83.0.2+b2_amd64.deb ... Unpacking libboost-dev:amd64 (1.83.0.2+b2) ... Selecting previously unselected package libbrotli-dev:amd64. Preparing to unpack .../072-libbrotli-dev_1.1.0-2+b7_amd64.deb ... Unpacking libbrotli-dev:amd64 (1.1.0-2+b7) ... Selecting previously unselected package libidn2-dev:amd64. Preparing to unpack .../073-libidn2-dev_2.3.7-2+b1_amd64.deb ... Unpacking libidn2-dev:amd64 (2.3.7-2+b1) ... Selecting previously unselected package libkrb5-dev:amd64. Preparing to unpack .../074-libkrb5-dev_1.21.3-4_amd64.deb ... Unpacking libkrb5-dev:amd64 (1.21.3-4) ... Selecting previously unselected package libldap-dev:amd64. Preparing to unpack .../075-libldap-dev_2.6.9+dfsg-1_amd64.deb ... Unpacking libldap-dev:amd64 (2.6.9+dfsg-1) ... Selecting previously unselected package libpkgconf3:amd64. Preparing to unpack .../076-libpkgconf3_1.8.1-4_amd64.deb ... Unpacking libpkgconf3:amd64 (1.8.1-4) ... Selecting previously unselected package pkgconf-bin. Preparing to unpack .../077-pkgconf-bin_1.8.1-4_amd64.deb ... Unpacking pkgconf-bin (1.8.1-4) ... Selecting previously unselected package pkgconf:amd64. Preparing to unpack .../078-pkgconf_1.8.1-4_amd64.deb ... Unpacking pkgconf:amd64 (1.8.1-4) ... Selecting previously unselected package libnghttp2-dev:amd64. Preparing to unpack .../079-libnghttp2-dev_1.64.0-1_amd64.deb ... Unpacking libnghttp2-dev:amd64 (1.64.0-1) ... Selecting previously unselected package libnghttp3-dev:amd64. Preparing to unpack .../080-libnghttp3-dev_1.8.0-1_amd64.deb ... Unpacking libnghttp3-dev:amd64 (1.8.0-1) ... Selecting previously unselected package libpsl-dev:amd64. Preparing to unpack .../081-libpsl-dev_0.21.2-1.1+b1_amd64.deb ... Unpacking libpsl-dev:amd64 (0.21.2-1.1+b1) ... Selecting previously unselected package libgmpxx4ldbl:amd64. Preparing to unpack .../082-libgmpxx4ldbl_2%3a6.3.0+dfsg-3_amd64.deb ... Unpacking libgmpxx4ldbl:amd64 (2:6.3.0+dfsg-3) ... Selecting previously unselected package libgmp-dev:amd64. Preparing to unpack .../083-libgmp-dev_2%3a6.3.0+dfsg-3_amd64.deb ... Unpacking libgmp-dev:amd64 (2:6.3.0+dfsg-3) ... Selecting previously unselected package libevent-2.1-7t64:amd64. Preparing to unpack .../084-libevent-2.1-7t64_2.1.12-stable-10+b1_amd64.deb ... Unpacking libevent-2.1-7t64:amd64 (2.1.12-stable-10+b1) ... Selecting previously unselected package libunbound8:amd64. Preparing to unpack .../085-libunbound8_1.22.0-1+b1_amd64.deb ... Unpacking libunbound8:amd64 (1.22.0-1+b1) ... Selecting previously unselected package libgnutls-dane0t64:amd64. Preparing to unpack .../086-libgnutls-dane0t64_3.8.9-2_amd64.deb ... Unpacking libgnutls-dane0t64:amd64 (3.8.9-2) ... Selecting previously unselected package libgnutls-openssl27t64:amd64. Preparing to unpack .../087-libgnutls-openssl27t64_3.8.9-2_amd64.deb ... Unpacking libgnutls-openssl27t64:amd64 (3.8.9-2) ... Selecting previously unselected package libp11-kit-dev:amd64. Preparing to unpack .../088-libp11-kit-dev_0.25.5-3_amd64.deb ... Unpacking libp11-kit-dev:amd64 (0.25.5-3) ... Selecting previously unselected package libtasn1-6-dev:amd64. Preparing to unpack .../089-libtasn1-6-dev_4.20.0-2_amd64.deb ... Unpacking libtasn1-6-dev:amd64 (4.20.0-2) ... Selecting previously unselected package nettle-dev:amd64. Preparing to unpack .../090-nettle-dev_3.10.1-1_amd64.deb ... Unpacking nettle-dev:amd64 (3.10.1-1) ... Selecting previously unselected package libgnutls28-dev:amd64. Preparing to unpack .../091-libgnutls28-dev_3.8.9-2_amd64.deb ... Unpacking libgnutls28-dev:amd64 (3.8.9-2) ... Selecting previously unselected package zlib1g-dev:amd64. Preparing to unpack .../092-zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1+b1_amd64.deb ... Unpacking zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1+b1) ... Selecting previously unselected package librtmp-dev:amd64. Preparing to unpack .../093-librtmp-dev_2.4+20151223.gitfa8646d.1-2+b5_amd64.deb ... Unpacking librtmp-dev:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Selecting previously unselected package libssl-dev:amd64. Preparing to unpack .../094-libssl-dev_3.4.1-1_amd64.deb ... Unpacking libssl-dev:amd64 (3.4.1-1) ... Selecting previously unselected package libssh2-1-dev:amd64. Preparing to unpack .../095-libssh2-1-dev_1.11.1-1_amd64.deb ... Unpacking libssh2-1-dev:amd64 (1.11.1-1) ... Selecting previously unselected package libzstd-dev:amd64. Preparing to unpack .../096-libzstd-dev_1.5.6+dfsg-2_amd64.deb ... Unpacking libzstd-dev:amd64 (1.5.6+dfsg-2) ... Selecting previously unselected package libcurl4-openssl-dev:amd64. Preparing to unpack .../097-libcurl4-openssl-dev_8.12.1-3_amd64.deb ... Unpacking libcurl4-openssl-dev:amd64 (8.12.1-3) ... Selecting previously unselected package libgatbcore3:amd64. Preparing to unpack .../098-libgatbcore3_1.4.2+dfsg-13+b4_amd64.deb ... Unpacking libgatbcore3:amd64 (1.4.2+dfsg-13+b4) ... Selecting previously unselected package libgatbcore-dev:amd64. Preparing to unpack .../099-libgatbcore-dev_1.4.2+dfsg-13+b4_amd64.deb ... Unpacking libgatbcore-dev:amd64 (1.4.2+dfsg-13+b4) ... Selecting previously unselected package libgfortran5:amd64. Preparing to unpack .../100-libgfortran5_14.2.0-17_amd64.deb ... Unpacking libgfortran5:amd64 (14.2.0-17) ... Selecting previously unselected package libhdf5-310:amd64. Preparing to unpack .../101-libhdf5-310_1.14.5+repack-3_amd64.deb ... Unpacking libhdf5-310:amd64 (1.14.5+repack-3) ... Selecting previously unselected package libhdf5-cpp-310:amd64. Preparing to unpack .../102-libhdf5-cpp-310_1.14.5+repack-3_amd64.deb ... Unpacking libhdf5-cpp-310:amd64 (1.14.5+repack-3) ... Selecting previously unselected package libhdf5-fortran-310:amd64. Preparing to unpack .../103-libhdf5-fortran-310_1.14.5+repack-3_amd64.deb ... Unpacking libhdf5-fortran-310:amd64 (1.14.5+repack-3) ... Selecting previously unselected package libhdf5-hl-310:amd64. Preparing to unpack .../104-libhdf5-hl-310_1.14.5+repack-3_amd64.deb ... Unpacking libhdf5-hl-310:amd64 (1.14.5+repack-3) ... Selecting previously unselected package libhdf5-hl-fortran-310:amd64. Preparing to unpack .../105-libhdf5-hl-fortran-310_1.14.5+repack-3_amd64.deb ... Unpacking libhdf5-hl-fortran-310:amd64 (1.14.5+repack-3) ... Selecting previously unselected package libhdf5-hl-cpp-310:amd64. Preparing to unpack .../106-libhdf5-hl-cpp-310_1.14.5+repack-3_amd64.deb ... Unpacking libhdf5-hl-cpp-310:amd64 (1.14.5+repack-3) ... Selecting previously unselected package libjpeg62-turbo:amd64. Preparing to unpack .../107-libjpeg62-turbo_1%3a2.1.5-3.1_amd64.deb ... Unpacking libjpeg62-turbo:amd64 (1:2.1.5-3.1) ... Selecting previously unselected package libjpeg62-turbo-dev:amd64. Preparing to unpack .../108-libjpeg62-turbo-dev_1%3a2.1.5-3.1_amd64.deb ... Unpacking libjpeg62-turbo-dev:amd64 (1:2.1.5-3.1) ... Selecting previously unselected package libjpeg-dev:amd64. Preparing to unpack .../109-libjpeg-dev_1%3a2.1.5-3.1_amd64.deb ... Unpacking libjpeg-dev:amd64 (1:2.1.5-3.1) ... Selecting previously unselected package libhdf5-dev. Preparing to unpack .../110-libhdf5-dev_1.14.5+repack-3_amd64.deb ... Unpacking libhdf5-dev (1.14.5+repack-3) ... Setting up libexpat1:amd64 (2.6.4-1) ... Setting up libpipeline1:amd64 (1.5.8-1) ... Setting up libkeyutils1:amd64 (1.6.3-4) ... Setting up libboost1.83-dev:amd64 (1.83.0-4.1+b1) ... Setting up libicu72:amd64 (72.1-6) ... Setting up libzstd-dev:amd64 (1.5.6+dfsg-2) ... Setting up bsdextrautils (2.40.4-5) ... Setting up hdf5-helpers (1.14.5+repack-3) ... Setting up libmagic-mgc (1:5.45-3+b1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.24.1) ... Setting up libbrotli1:amd64 (1.1.0-2+b7) ... Setting up libuv1t64:amd64 (1.50.0-2) ... Setting up libmagic1t64:amd64 (1:5.45-3+b1) ... Setting up libnghttp2-14:amd64 (1.64.0-1) ... Setting up gettext-base (0.23.1-1) ... Setting up m4 (1.4.19-7) ... Setting up libevent-2.1-7t64:amd64 (2.1.12-stable-10+b1) ... Setting up libcom-err2:amd64 (1.47.2-1) ... Setting up file (1:5.45-3+b1) ... Setting up libaec0:amd64 (1.1.3-1+b1) ... Setting up libelf1t64:amd64 (0.192-4) ... Setting up libkrb5support0:amd64 (1.21.3-4) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-9) ... Setting up autotools-dev (20220109.1) ... Setting up libunbound8:amd64 (1.22.0-1+b1) ... Setting up libpkgconf3:amd64 (1.8.1-4) ... Setting up libgmpxx4ldbl:amd64 (2:6.3.0+dfsg-3) ... Setting up libjpeg62-turbo:amd64 (1:2.1.5-3.1) ... Setting up libjpeg62-turbo-dev:amd64 (1:2.1.5-3.1) ... Setting up libjsoncpp26:amd64 (1.9.6-3) ... Setting up libproc2-0:amd64 (2:4.0.4-7) ... Setting up comerr-dev:amd64 (2.1-1.47.2-1) ... Setting up libunistring5:amd64 (1.3-1) ... Setting up libssl-dev:amd64 (3.4.1-1) ... Setting up autopoint (0.23.1-1) ... Setting up pkgconf-bin (1.8.1-4) ... Setting up libk5crypto3:amd64 (1.21.3-4) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg1-9) ... Setting up libgfortran5:amd64 (14.2.0-17) ... Setting up libgatbcore3:amd64 (1.4.2+dfsg-13+b4) ... Setting up autoconf (2.72-3) ... Setting up libnghttp3-9:amd64 (1.8.0-1) ... Setting up libnghttp3-dev:amd64 (1.8.0-1) ... Setting up zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up libffi8:amd64 (3.4.7-1) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... Setting up libuchardet0:amd64 (0.0.8-1+b2) ... Setting up procps (2:4.0.4-7) ... Setting up libtasn1-6:amd64 (4.20.0-2) ... Setting up cmake-data (3.31.6-1) ... Setting up librhash1:amd64 (1.4.5-1) ... Setting up libkrb5-3:amd64 (1.21.3-4) ... Setting up libboost-dev:amd64 (1.83.0.2+b2) ... Setting up libssh2-1t64:amd64 (1.11.1-1) ... Setting up libtasn1-6-dev:amd64 (4.20.0-2) ... Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b2) ... Setting up libldap2:amd64 (2.6.9+dfsg-1) ... Setting up libbrotli-dev:amd64 (1.1.0-2+b7) ... Setting up libsz2:amd64 (1.1.3-1+b1) ... Setting up automake (1:1.17-3) ... update-alternatives: using /usr/bin/automake-1.17 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.1-2) ... Setting up gettext (0.23.1-1) ... Setting up libgmp-dev:amd64 (2:6.3.0+dfsg-3) ... Setting up nettle-dev:amd64 (3.10.1-1) ... Setting up libtool (2.5.4-4) ... Setting up libaec-dev:amd64 (1.1.3-1+b1) ... Setting up libjpeg-dev:amd64 (1:2.1.5-3.1) ... Setting up libidn2-0:amd64 (2.3.7-2+b1) ... Setting up pkgconf:amd64 (1.8.1-4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libldap-dev:amd64 (2.6.9+dfsg-1) ... Setting up libp11-kit0:amd64 (0.25.5-3) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-4) ... Setting up libgatbcore-dev:amd64 (1.4.2+dfsg-13+b4) ... Setting up libssh2-1-dev:amd64 (1.11.1-1) ... Setting up libidn2-dev:amd64 (2.3.7-2+b1) ... Setting up dh-strip-nondeterminism (1.14.1-2) ... Setting up groff-base (1.23.0-7) ... Setting up libarchive13t64:amd64 (3.7.4-1.1) ... Setting up libp11-kit-dev:amd64 (0.25.5-3) ... Setting up libgnutls30t64:amd64 (3.8.9-2) ... Setting up libgnutls-openssl27t64:amd64 (3.8.9-2) ... Setting up libnghttp2-dev:amd64 (1.64.0-1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libpsl5t64:amd64 (0.21.2-1.1+b1) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libpsl-dev:amd64 (0.21.2-1.1+b1) ... Setting up libgnutls-dane0t64:amd64 (3.8.9-2) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libgssrpc4t64:amd64 (1.21.3-4) ... Setting up libkadm5clnt-mit12:amd64 (1.21.3-4) ... Setting up libgnutls28-dev:amd64 (3.8.9-2) ... Setting up libcurl4t64:amd64 (8.12.1-3) ... Setting up libkdb5-10t64:amd64 (1.21.3-4) ... Setting up debhelper (13.24.1) ... Setting up librtmp-dev:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libhdf5-310:amd64 (1.14.5+repack-3) ... Setting up libkadm5srv-mit12:amd64 (1.21.3-4) ... Setting up cmake (3.31.6-1) ... Setting up libhdf5-fortran-310:amd64 (1.14.5+repack-3) ... Setting up krb5-multidev:amd64 (1.21.3-4) ... 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 (1.21.3-4) ... Setting up libcurl4-openssl-dev:amd64 (8.12.1-3) ... 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 (2.41-3) ... 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/mindthegap-2.3.0/ && 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 > ../mindthegap_2.3.0-4_source.changes dpkg-buildpackage: info: source package mindthegap dpkg-buildpackage: info: source version 2.3.0-4 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier 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:142: Syntax Warning in cmake code at column 42 Argument not separated from preceding token by whitespace. This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at CMakeLists.txt:147: Syntax Warning in cmake code at column 38 Argument not separated from preceding token by whitespace. This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at CMakeLists.txt:21 (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 14.2.0 -- The CXX compiler identification is GNU 14.2.0 -- 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:23 (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. -- cxx: -g -O2 -ffile-prefix-map=/build/reproducible-path/mindthegap-2.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -- Configuring done (1.1s) -- Generating done (0.0s) 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/mindthegap-2.3.0/obj-x86_64-linux-gnu dh_auto_build cd obj-x86_64-linux-gnu && make -j12 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/mindthegap-2.3.0/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/mindthegap-2.3.0 -B/build/reproducible-path/mindthegap-2.3.0/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/mindthegap-2.3.0/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/mindthegap-2.3.0/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/reproducible-path/mindthegap-2.3.0/obj-x86_64-linux-gnu' make -f CMakeFiles/MindTheGap.dir/build.make CMakeFiles/MindTheGap.dir/depend make -f CMakeFiles/nwalign.dir/build.make CMakeFiles/nwalign.dir/depend make[3]: Entering directory '/build/reproducible-path/mindthegap-2.3.0/obj-x86_64-linux-gnu' cd /build/reproducible-path/mindthegap-2.3.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/mindthegap-2.3.0 /build/reproducible-path/mindthegap-2.3.0 /build/reproducible-path/mindthegap-2.3.0/obj-x86_64-linux-gnu /build/reproducible-path/mindthegap-2.3.0/obj-x86_64-linux-gnu /build/reproducible-path/mindthegap-2.3.0/obj-x86_64-linux-gnu/CMakeFiles/MindTheGap.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/mindthegap-2.3.0/obj-x86_64-linux-gnu' cd /build/reproducible-path/mindthegap-2.3.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/mindthegap-2.3.0 /build/reproducible-path/mindthegap-2.3.0 /build/reproducible-path/mindthegap-2.3.0/obj-x86_64-linux-gnu /build/reproducible-path/mindthegap-2.3.0/obj-x86_64-linux-gnu /build/reproducible-path/mindthegap-2.3.0/obj-x86_64-linux-gnu/CMakeFiles/nwalign.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/mindthegap-2.3.0/obj-x86_64-linux-gnu' make -f CMakeFiles/nwalign.dir/build.make CMakeFiles/nwalign.dir/build make[3]: Entering directory '/build/reproducible-path/mindthegap-2.3.0/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/mindthegap-2.3.0/obj-x86_64-linux-gnu' make -f CMakeFiles/MindTheGap.dir/build.make CMakeFiles/MindTheGap.dir/build make[3]: Entering directory '/build/reproducible-path/mindthegap-2.3.0/obj-x86_64-linux-gnu' [ 10%] Building CXX object CMakeFiles/nwalign.dir/src/nwAlign/nwalign.cpp.o /usr/bin/c++ -I/build/reproducible-path/mindthegap-2.3.0/src -I"/build/reproducible-path/mindthegap-2.3.0/src/*" -g -O2 -ffile-prefix-map=/build/reproducible-path/mindthegap-2.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT CMakeFiles/nwalign.dir/src/nwAlign/nwalign.cpp.o -MF CMakeFiles/nwalign.dir/src/nwAlign/nwalign.cpp.o.d -o CMakeFiles/nwalign.dir/src/nwAlign/nwalign.cpp.o -c /build/reproducible-path/mindthegap-2.3.0/src/nwAlign/nwalign.cpp [ 20%] Building CXX object CMakeFiles/MindTheGap.dir/src/IGraphOutput.cpp.o /usr/bin/c++ -I/build/reproducible-path/mindthegap-2.3.0/src -I"/build/reproducible-path/mindthegap-2.3.0/src/*" -g -O2 -ffile-prefix-map=/build/reproducible-path/mindthegap-2.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT CMakeFiles/MindTheGap.dir/src/IGraphOutput.cpp.o -MF CMakeFiles/MindTheGap.dir/src/IGraphOutput.cpp.o.d -o CMakeFiles/MindTheGap.dir/src/IGraphOutput.cpp.o -c /build/reproducible-path/mindthegap-2.3.0/src/IGraphOutput.cpp [ 40%] Building CXX object CMakeFiles/MindTheGap.dir/src/GraphAnalysis.cpp.o [ 50%] Building CXX object CMakeFiles/MindTheGap.dir/src/Filler.cpp.o /usr/bin/c++ -I/build/reproducible-path/mindthegap-2.3.0/src -I"/build/reproducible-path/mindthegap-2.3.0/src/*" -g -O2 -ffile-prefix-map=/build/reproducible-path/mindthegap-2.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT CMakeFiles/MindTheGap.dir/src/GraphAnalysis.cpp.o -MF CMakeFiles/MindTheGap.dir/src/GraphAnalysis.cpp.o.d -o CMakeFiles/MindTheGap.dir/src/GraphAnalysis.cpp.o -c /build/reproducible-path/mindthegap-2.3.0/src/GraphAnalysis.cpp [ 30%] Building CXX object CMakeFiles/MindTheGap.dir/src/GraphOutputDot.cpp.o /usr/bin/c++ -I/build/reproducible-path/mindthegap-2.3.0/src -I"/build/reproducible-path/mindthegap-2.3.0/src/*" -g -O2 -ffile-prefix-map=/build/reproducible-path/mindthegap-2.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT CMakeFiles/MindTheGap.dir/src/Filler.cpp.o -MF CMakeFiles/MindTheGap.dir/src/Filler.cpp.o.d -o CMakeFiles/MindTheGap.dir/src/Filler.cpp.o -c /build/reproducible-path/mindthegap-2.3.0/src/Filler.cpp [ 60%] Building CXX object CMakeFiles/MindTheGap.dir/src/Utils.cpp.o /usr/bin/c++ -I/build/reproducible-path/mindthegap-2.3.0/src -I"/build/reproducible-path/mindthegap-2.3.0/src/*" -g -O2 -ffile-prefix-map=/build/reproducible-path/mindthegap-2.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT CMakeFiles/MindTheGap.dir/src/Utils.cpp.o -MF CMakeFiles/MindTheGap.dir/src/Utils.cpp.o.d -o CMakeFiles/MindTheGap.dir/src/Utils.cpp.o -c /build/reproducible-path/mindthegap-2.3.0/src/Utils.cpp [ 70%] Building CXX object CMakeFiles/MindTheGap.dir/src/main.cpp.o [ 80%] Building CXX object CMakeFiles/MindTheGap.dir/src/Finder.cpp.o /usr/bin/c++ -I/build/reproducible-path/mindthegap-2.3.0/src -I"/build/reproducible-path/mindthegap-2.3.0/src/*" -g -O2 -ffile-prefix-map=/build/reproducible-path/mindthegap-2.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT CMakeFiles/MindTheGap.dir/src/GraphOutputDot.cpp.o -MF CMakeFiles/MindTheGap.dir/src/GraphOutputDot.cpp.o.d -o CMakeFiles/MindTheGap.dir/src/GraphOutputDot.cpp.o -c /build/reproducible-path/mindthegap-2.3.0/src/GraphOutputDot.cpp /usr/bin/c++ -I/build/reproducible-path/mindthegap-2.3.0/src -I"/build/reproducible-path/mindthegap-2.3.0/src/*" -g -O2 -ffile-prefix-map=/build/reproducible-path/mindthegap-2.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT CMakeFiles/MindTheGap.dir/src/main.cpp.o -MF CMakeFiles/MindTheGap.dir/src/main.cpp.o.d -o CMakeFiles/MindTheGap.dir/src/main.cpp.o -c /build/reproducible-path/mindthegap-2.3.0/src/main.cpp /usr/bin/c++ -I/build/reproducible-path/mindthegap-2.3.0/src -I"/build/reproducible-path/mindthegap-2.3.0/src/*" -g -O2 -ffile-prefix-map=/build/reproducible-path/mindthegap-2.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT CMakeFiles/MindTheGap.dir/src/Finder.cpp.o -MF CMakeFiles/MindTheGap.dir/src/Finder.cpp.o.d -o CMakeFiles/MindTheGap.dir/src/Finder.cpp.o -c /build/reproducible-path/mindthegap-2.3.0/src/Finder.cpp In file included from /build/reproducible-path/mindthegap-2.3.0/src/GraphOutputDot.hpp:24, from /build/reproducible-path/mindthegap-2.3.0/src/GraphOutputDot.cpp:20: /build/reproducible-path/mindthegap-2.3.0/src/IGraphOutput.hpp:54:61: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 54 | template <> struct hash::Type> : public unary_function::Type, size_t> | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from /usr/include/gatb/system/api/types.hpp:44, from /usr/include/gatb/system/api/IMemory.hpp:34, from /usr/include/gatb/system/impl/MemoryCommon.hpp:31, from /usr/include/gatb/system/impl/System.hpp:32, from /usr/include/gatb/gatb_core.hpp:31, from /build/reproducible-path/mindthegap-2.3.0/src/IGraphOutput.hpp:24: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/IGraphOutput.hpp:58:61: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 58 | template <> struct hash::Type> : public unary_function::Type, size_t> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/IGraphOutput.hpp:62:61: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 62 | template <> struct hash::Type> : public unary_function::Type, size_t> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/IGraphOutput.hpp:66:61: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 66 | template <> struct hash::Type> : public unary_function::Type, size_t> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/mindthegap-2.3.0/src/GraphOutputDot.hpp:24, from /build/reproducible-path/mindthegap-2.3.0/src/Filler.hpp:26, from /build/reproducible-path/mindthegap-2.3.0/src/GraphAnalysis.hpp:32, from /build/reproducible-path/mindthegap-2.3.0/src/GraphAnalysis.cpp:20: /build/reproducible-path/mindthegap-2.3.0/src/IGraphOutput.hpp:54:61: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 54 | template <> struct hash::Type> : public unary_function::Type, size_t> | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /build/reproducible-path/mindthegap-2.3.0/src/GraphAnalysis.hpp:20: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/IGraphOutput.hpp:58:61: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 58 | template <> struct hash::Type> : public unary_function::Type, size_t> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/IGraphOutput.hpp:62:61: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 62 | template <> struct hash::Type> : public unary_function::Type, size_t> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/IGraphOutput.hpp:66:61: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 66 | template <> struct hash::Type> : public unary_function::Type, size_t> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/mindthegap-2.3.0/src/GraphOutputDot.hpp:24, from /build/reproducible-path/mindthegap-2.3.0/src/Filler.hpp:26, from /build/reproducible-path/mindthegap-2.3.0/src/main.cpp:23: /build/reproducible-path/mindthegap-2.3.0/src/IGraphOutput.hpp:54:61: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 54 | template <> struct hash::Type> : public unary_function::Type, size_t> | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from /usr/include/gatb/system/api/types.hpp:44, from /usr/include/gatb/system/api/IMemory.hpp:34, from /usr/include/gatb/system/impl/MemoryCommon.hpp:31, from /usr/include/gatb/system/impl/System.hpp:32, from /usr/include/gatb/gatb_core.hpp:31, from /build/reproducible-path/mindthegap-2.3.0/src/Finder.hpp:25, from /build/reproducible-path/mindthegap-2.3.0/src/main.cpp:22: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/IGraphOutput.hpp:58:61: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 58 | template <> struct hash::Type> : public unary_function::Type, size_t> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/IGraphOutput.hpp:62:61: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 62 | template <> struct hash::Type> : public unary_function::Type, size_t> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/IGraphOutput.hpp:66:61: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 66 | template <> struct hash::Type> : public unary_function::Type, size_t> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/mindthegap-2.3.0/src/IGraphOutput.cpp:20: /build/reproducible-path/mindthegap-2.3.0/src/IGraphOutput.hpp:54:61: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 54 | template <> struct hash::Type> : public unary_function::Type, size_t> | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from /usr/include/gatb/system/api/types.hpp:44, from /usr/include/gatb/system/api/IMemory.hpp:34, from /usr/include/gatb/system/impl/MemoryCommon.hpp:31, from /usr/include/gatb/system/impl/System.hpp:32, from /usr/include/gatb/gatb_core.hpp:31, from /build/reproducible-path/mindthegap-2.3.0/src/IGraphOutput.hpp:24: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/IGraphOutput.hpp:58:61: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 58 | template <> struct hash::Type> : public unary_function::Type, size_t> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/IGraphOutput.hpp:62:61: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 62 | template <> struct hash::Type> : public unary_function::Type, size_t> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/IGraphOutput.hpp:66:61: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 66 | template <> struct hash::Type> : public unary_function::Type, size_t> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/mindthegap-2.3.0/src/GraphOutputDot.hpp:24, from /build/reproducible-path/mindthegap-2.3.0/src/Filler.hpp:26, from /build/reproducible-path/mindthegap-2.3.0/src/Filler.cpp:21: /build/reproducible-path/mindthegap-2.3.0/src/IGraphOutput.hpp:54:61: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 54 | template <> struct hash::Type> : public unary_function::Type, size_t> | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from /usr/include/gatb/system/api/types.hpp:44, from /usr/include/gatb/system/api/IMemory.hpp:34, from /usr/include/gatb/system/impl/MemoryCommon.hpp:31, from /usr/include/gatb/system/impl/System.hpp:32, from /usr/include/gatb/gatb_core.hpp:31, from /build/reproducible-path/mindthegap-2.3.0/src/Filler.hpp:25: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/IGraphOutput.hpp:58:61: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 58 | template <> struct hash::Type> : public unary_function::Type, size_t> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/IGraphOutput.hpp:62:61: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 62 | template <> struct hash::Type> : public unary_function::Type, size_t> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/IGraphOutput.hpp:66:61: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 66 | template <> struct hash::Type> : public unary_function::Type, size_t> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/Filler.cpp: In member function 'void Filler::writeFilledBreakpoint(std::vector&, std::string, std::string)': /build/reproducible-path/mindthegap-2.3.0/src/Filler.cpp:1052:65: warning: format '%f' expects argument of type 'double', but argument 6 has type 'const char*' [-Wformat=] 1052 | fprintf(_insert_file,">%s_len_%d_qual_%i_avg_cov_%.2f_median_cov_%.2f %s\n", | ~~~^ | | | double | %.2s 1053 | seedName.c_str(),llen,it->qual,solu_i.c_str() | ~~~~~~~~~~~~~~ | | | const char* /build/reproducible-path/mindthegap-2.3.0/src/Filler.cpp:1052:86: warning: format '%s' expects argument of type 'char*', but argument 8 has type 'double' [-Wformat=] 1052 | fprintf(_insert_file,">%s_len_%d_qual_%i_avg_cov_%.2f_median_cov_%.2f %s\n", | ~^ | | | char* | %f 1053 | seedName.c_str(),llen,it->qual,solu_i.c_str() 1054 | ,it->avg_coverage,it->median_coverage); | ~~~~~~~~~~~~~~~~~~~ | | | double /build/reproducible-path/mindthegap-2.3.0/src/Filler.cpp: In instantiation of 'void breakpointFunctor::operator()(gatb::core::bank::Sequence&) [with long unsigned int span = 128]': /usr/include/gatb/tools/designpattern/api/ICommand.hpp:324:69: required from 'void gatb::core::tools::dp::IDispatcher::IteratorCommand::execute() [with Item = gatb::core::bank::Sequence; Functor = breakpointFunctor<128>]' 324 | for (size_t i=0; i std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::substr(size_type, size_type) const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator; size_type = long unsigned int]', declared with attribute 'nodiscard' [-Wunused-result] 654 | sourceSequence.substr(sourceSequence.size()- _object->_kmerSize,_object->_kmerSize); //suffix of size _kmerSize | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:54, from /usr/include/gatb/system/api/IMemory.hpp:35: /usr/include/c++/14/bits/basic_string.h:3208:7: note: declared here 3208 | substr(size_type __pos = 0, size_type __n = npos) const | ^~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/Filler.cpp:658:38: warning: ignoring return value of 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc> std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::substr(size_type, size_type) const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator; size_type = long unsigned int]', declared with attribute 'nodiscard' [-Wunused-result] 658 | targetSequence.substr(0,_object->_kmerSize); //prefix of size _kmerSize | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/basic_string.h:3208:7: note: declared here 3208 | substr(size_type __pos = 0, size_type __n = npos) const | ^~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/Filler.cpp: In instantiation of 'void breakpointFunctor::operator()(gatb::core::bank::Sequence&) [with long unsigned int span = 96]': /usr/include/gatb/tools/designpattern/api/ICommand.hpp:324:69: required from 'void gatb::core::tools::dp::IDispatcher::IteratorCommand::execute() [with Item = gatb::core::bank::Sequence; Functor = breakpointFunctor<96>]' 324 | for (size_t i=0; i std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::substr(size_type, size_type) const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator; size_type = long unsigned int]', declared with attribute 'nodiscard' [-Wunused-result] 654 | sourceSequence.substr(sourceSequence.size()- _object->_kmerSize,_object->_kmerSize); //suffix of size _kmerSize | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/basic_string.h:3208:7: note: declared here 3208 | substr(size_type __pos = 0, size_type __n = npos) const | ^~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/Filler.cpp:658:38: warning: ignoring return value of 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc> std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::substr(size_type, size_type) const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator; size_type = long unsigned int]', declared with attribute 'nodiscard' [-Wunused-result] 658 | targetSequence.substr(0,_object->_kmerSize); //prefix of size _kmerSize | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/basic_string.h:3208:7: note: declared here 3208 | substr(size_type __pos = 0, size_type __n = npos) const | ^~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/Filler.cpp: In instantiation of 'void breakpointFunctor::operator()(gatb::core::bank::Sequence&) [with long unsigned int span = 64]': /usr/include/gatb/tools/designpattern/api/ICommand.hpp:324:69: required from 'void gatb::core::tools::dp::IDispatcher::IteratorCommand::execute() [with Item = gatb::core::bank::Sequence; Functor = breakpointFunctor<64>]' 324 | for (size_t i=0; i std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::substr(size_type, size_type) const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator; size_type = long unsigned int]', declared with attribute 'nodiscard' [-Wunused-result] 654 | sourceSequence.substr(sourceSequence.size()- _object->_kmerSize,_object->_kmerSize); //suffix of size _kmerSize | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/basic_string.h:3208:7: note: declared here 3208 | substr(size_type __pos = 0, size_type __n = npos) const | ^~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/Filler.cpp:658:38: warning: ignoring return value of 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc> std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::substr(size_type, size_type) const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator; size_type = long unsigned int]', declared with attribute 'nodiscard' [-Wunused-result] 658 | targetSequence.substr(0,_object->_kmerSize); //prefix of size _kmerSize | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/basic_string.h:3208:7: note: declared here 3208 | substr(size_type __pos = 0, size_type __n = npos) const | ^~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/Filler.cpp: In instantiation of 'void breakpointFunctor::operator()(gatb::core::bank::Sequence&) [with long unsigned int span = 32]': /usr/include/gatb/tools/designpattern/api/ICommand.hpp:324:69: required from 'void gatb::core::tools::dp::IDispatcher::IteratorCommand::execute() [with Item = gatb::core::bank::Sequence; Functor = breakpointFunctor<32>]' 324 | for (size_t i=0; i std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::substr(size_type, size_type) const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator; size_type = long unsigned int]', declared with attribute 'nodiscard' [-Wunused-result] 654 | sourceSequence.substr(sourceSequence.size()- _object->_kmerSize,_object->_kmerSize); //suffix of size _kmerSize | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/basic_string.h:3208:7: note: declared here 3208 | substr(size_type __pos = 0, size_type __n = npos) const | ^~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/Filler.cpp:658:38: warning: ignoring return value of 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc> std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::substr(size_type, size_type) const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator; size_type = long unsigned int]', declared with attribute 'nodiscard' [-Wunused-result] 658 | targetSequence.substr(0,_object->_kmerSize); //prefix of size _kmerSize | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/basic_string.h:3208:7: note: declared here 3208 | substr(size_type __pos = 0, size_type __n = npos) const | ^~~~~~ In file included from /build/reproducible-path/mindthegap-2.3.0/src/Finder.cpp:22: /build/reproducible-path/mindthegap-2.3.0/src/FindBreakpoints.hpp: In instantiation of 'void FindBreakpoints::writeIndel(int, std::string&, uint64_t, std::string, std::string, int, std::string) [with long unsigned int span = 128; std::string = std::__cxx11::basic_string; uint64_t = long unsigned int]': /build/reproducible-path/mindthegap-2.3.0/src/FindHeteroInsertion.hpp:119:30: required from 'bool FindHeteroInsertion::update() [with long unsigned int span = 128]' 119 | this->_find->writeIndel(this->_find->breakpoint_id(), this->_find->chrom_name(), this->_find->position() - 1, ref, inser_base_one, i, STR_HET_TYPE); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/FindHeteroInsertion.hpp:48:6: required from here 48 | bool FindHeteroInsertion::update() | ^~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/FindBreakpoints.hpp:693:46: warning: format '%lli' expects argument of type 'long long int', but argument 4 has type 'uint64_t' {aka 'long unsigned int'} [-Wformat=] 693 | fprintf(this->finder->_vcf_file, "%s\t%lli\tbkpt%i\t%s\t%s\t.\tPASS\tTYPE=INS;LEN=%i;FUZZY=%i\tGT\t%s\n", | ~~~^ | | | long long int | %li 694 | chrom_name.c_str(), 695 | position + 1, //switch to 1-based | ~~~~~~~~~~~~ | | | uint64_t {aka long unsigned int} /build/reproducible-path/mindthegap-2.3.0/src/FindBreakpoints.hpp: In instantiation of 'void FindBreakpoints::writeBreakpoint(int, std::string&, uint64_t, std::string&, std::string&, int, std::string, bool, bool) [with long unsigned int span = 128; std::string = std::__cxx11::basic_string; uint64_t = long unsigned int]': /build/reproducible-path/mindthegap-2.3.0/src/FindHeteroInsertion.hpp:145:57: required from 'bool FindHeteroInsertion::update() [with long unsigned int span = 128]' 145 | this->_find->writeBreakpoint(this->_find->breakpoint_id(), this->_find->chrom_name(), this->_find->position() - 1 + i, kmer_begin_str, kmer_end_str, i, STR_HET_TYPE, this->_find->het_kmer_history(this->_find->het_kmer_begin_index() + i).is_repeated, this->_find->kmer_end_is_repeated()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/FindHeteroInsertion.hpp:48:6: required from here 48 | bool FindHeteroInsertion::update() | ^~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/FindBreakpoints.hpp:642:63: warning: format '%lli' expects argument of type 'long long int', but argument 5 has type 'uint64_t' {aka 'long unsigned int'} [-Wformat=] 642 | fprintf(this->finder->_breakpoint_file,">bkpt%i_%s_pos_%lli_fuzzy_%i_%s %s left_kmer\n%s\n>bkpt%i_%s_pos_%lli_fuzzy_%i_%s %s right_kmer\n%s\n", | ~~~^ | | | long long int | %li ...... 645 | position+1, //switch to 1-based | ~~~~~~~~~~ | | | uint64_t {aka long unsigned int} /build/reproducible-path/mindthegap-2.3.0/src/FindBreakpoints.hpp:642:113: warning: format '%lli' expects argument of type 'long long int', but argument 12 has type 'uint64_t' {aka 'long unsigned int'} [-Wformat=] 642 | fprintf(this->finder->_breakpoint_file,">bkpt%i_%s_pos_%lli_fuzzy_%i_%s %s left_kmer\n%s\n>bkpt%i_%s_pos_%lli_fuzzy_%i_%s %s right_kmer\n%s\n", | ~~~^ | | | long long int | %li ...... 652 | position+1, //switch to 1-based | ~~~~~~~~~~ | | | uint64_t {aka long unsigned int} /build/reproducible-path/mindthegap-2.3.0/src/FindBreakpoints.hpp: In instantiation of 'void FindBreakpoints::writeVcfVariant(int, std::string&, uint64_t, char*, char*, int, std::string) [with long unsigned int span = 128; std::string = std::__cxx11::basic_string; uint64_t = long unsigned int]': /build/reproducible-path/mindthegap-2.3.0/src/FindDeletion.hpp:158:30: required from 'bool FindDeletion::update() [with long unsigned int span = 128]' 158 | this->_find->writeVcfVariant(this->_find->breakpoint_id(), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 159 | this->_find->chrom_name(), | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 | del_start_pos, del_sequence, alt_char, repeat_size, STR_DEL_TYPE); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/FindDeletion.hpp:62:6: required from here 62 | bool FindDeletion::update() | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/FindBreakpoints.hpp:668:49: warning: format '%lli' expects argument of type 'long long int', but argument 4 has type 'uint64_t' {aka 'long unsigned int'} [-Wformat=] 668 | fprintf(this->finder->_vcf_file,"%s\t%lli\tbkpt%i\t%s\t%s\t.\tPASS\tTYPE=%s;LEN=%i;FUZZY=%i\tGT\t1/1\n", | ~~~^ | | | long long int | %li 669 | chrom_name.c_str(), 670 | position+1, //switch to 1-based | ~~~~~~~~~~ | | | uint64_t {aka long unsigned int} /build/reproducible-path/mindthegap-2.3.0/src/FindBreakpoints.hpp: In instantiation of 'void FindBreakpoints::writeIndel(int, std::string&, uint64_t, std::string, std::string, int, std::string) [with long unsigned int span = 96; std::string = std::__cxx11::basic_string; uint64_t = long unsigned int]': /build/reproducible-path/mindthegap-2.3.0/src/FindHeteroInsertion.hpp:119:30: required from 'bool FindHeteroInsertion::update() [with long unsigned int span = 96]' 119 | this->_find->writeIndel(this->_find->breakpoint_id(), this->_find->chrom_name(), this->_find->position() - 1, ref, inser_base_one, i, STR_HET_TYPE); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/FindHeteroInsertion.hpp:48:6: required from here 48 | bool FindHeteroInsertion::update() | ^~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/FindBreakpoints.hpp:693:46: warning: format '%lli' expects argument of type 'long long int', but argument 4 has type 'uint64_t' {aka 'long unsigned int'} [-Wformat=] 693 | fprintf(this->finder->_vcf_file, "%s\t%lli\tbkpt%i\t%s\t%s\t.\tPASS\tTYPE=INS;LEN=%i;FUZZY=%i\tGT\t%s\n", | ~~~^ | | | long long int | %li 694 | chrom_name.c_str(), 695 | position + 1, //switch to 1-based | ~~~~~~~~~~~~ | | | uint64_t {aka long unsigned int} /build/reproducible-path/mindthegap-2.3.0/src/FindBreakpoints.hpp: In instantiation of 'void FindBreakpoints::writeBreakpoint(int, std::string&, uint64_t, std::string&, std::string&, int, std::string, bool, bool) [with long unsigned int span = 96; std::string = std::__cxx11::basic_string; uint64_t = long unsigned int]': /build/reproducible-path/mindthegap-2.3.0/src/FindHeteroInsertion.hpp:145:57: required from 'bool FindHeteroInsertion::update() [with long unsigned int span = 96]' 145 | this->_find->writeBreakpoint(this->_find->breakpoint_id(), this->_find->chrom_name(), this->_find->position() - 1 + i, kmer_begin_str, kmer_end_str, i, STR_HET_TYPE, this->_find->het_kmer_history(this->_find->het_kmer_begin_index() + i).is_repeated, this->_find->kmer_end_is_repeated()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/FindHeteroInsertion.hpp:48:6: required from here 48 | bool FindHeteroInsertion::update() | ^~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/FindBreakpoints.hpp:642:63: warning: format '%lli' expects argument of type 'long long int', but argument 5 has type 'uint64_t' {aka 'long unsigned int'} [-Wformat=] 642 | fprintf(this->finder->_breakpoint_file,">bkpt%i_%s_pos_%lli_fuzzy_%i_%s %s left_kmer\n%s\n>bkpt%i_%s_pos_%lli_fuzzy_%i_%s %s right_kmer\n%s\n", | ~~~^ | | | long long int | %li ...... 645 | position+1, //switch to 1-based | ~~~~~~~~~~ | | | uint64_t {aka long unsigned int} /build/reproducible-path/mindthegap-2.3.0/src/FindBreakpoints.hpp:642:113: warning: format '%lli' expects argument of type 'long long int', but argument 12 has type 'uint64_t' {aka 'long unsigned int'} [-Wformat=] 642 | fprintf(this->finder->_breakpoint_file,">bkpt%i_%s_pos_%lli_fuzzy_%i_%s %s left_kmer\n%s\n>bkpt%i_%s_pos_%lli_fuzzy_%i_%s %s right_kmer\n%s\n", | ~~~^ | | | long long int | %li ...... 652 | position+1, //switch to 1-based | ~~~~~~~~~~ | | | uint64_t {aka long unsigned int} /build/reproducible-path/mindthegap-2.3.0/src/FindBreakpoints.hpp: In instantiation of 'void FindBreakpoints::writeVcfVariant(int, std::string&, uint64_t, char*, char*, int, std::string) [with long unsigned int span = 96; std::string = std::__cxx11::basic_string; uint64_t = long unsigned int]': /build/reproducible-path/mindthegap-2.3.0/src/FindDeletion.hpp:158:30: required from 'bool FindDeletion::update() [with long unsigned int span = 96]' 158 | this->_find->writeVcfVariant(this->_find->breakpoint_id(), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 159 | this->_find->chrom_name(), | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 | del_start_pos, del_sequence, alt_char, repeat_size, STR_DEL_TYPE); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/FindDeletion.hpp:62:6: required from here 62 | bool FindDeletion::update() | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/FindBreakpoints.hpp:668:49: warning: format '%lli' expects argument of type 'long long int', but argument 4 has type 'uint64_t' {aka 'long unsigned int'} [-Wformat=] 668 | fprintf(this->finder->_vcf_file,"%s\t%lli\tbkpt%i\t%s\t%s\t.\tPASS\tTYPE=%s;LEN=%i;FUZZY=%i\tGT\t1/1\n", | ~~~^ | | | long long int | %li 669 | chrom_name.c_str(), 670 | position+1, //switch to 1-based | ~~~~~~~~~~ | | | uint64_t {aka long unsigned int} /build/reproducible-path/mindthegap-2.3.0/src/FindBreakpoints.hpp: In instantiation of 'void FindBreakpoints::writeIndel(int, std::string&, uint64_t, std::string, std::string, int, std::string) [with long unsigned int span = 64; std::string = std::__cxx11::basic_string; uint64_t = long unsigned int]': /build/reproducible-path/mindthegap-2.3.0/src/FindHeteroInsertion.hpp:119:30: required from 'bool FindHeteroInsertion::update() [with long unsigned int span = 64]' 119 | this->_find->writeIndel(this->_find->breakpoint_id(), this->_find->chrom_name(), this->_find->position() - 1, ref, inser_base_one, i, STR_HET_TYPE); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/FindHeteroInsertion.hpp:48:6: required from here 48 | bool FindHeteroInsertion::update() | ^~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/FindBreakpoints.hpp:693:46: warning: format '%lli' expects argument of type 'long long int', but argument 4 has type 'uint64_t' {aka 'long unsigned int'} [-Wformat=] 693 | fprintf(this->finder->_vcf_file, "%s\t%lli\tbkpt%i\t%s\t%s\t.\tPASS\tTYPE=INS;LEN=%i;FUZZY=%i\tGT\t%s\n", | ~~~^ | | | long long int | %li 694 | chrom_name.c_str(), 695 | position + 1, //switch to 1-based | ~~~~~~~~~~~~ | | | uint64_t {aka long unsigned int} /build/reproducible-path/mindthegap-2.3.0/src/FindBreakpoints.hpp: In instantiation of 'void FindBreakpoints::writeBreakpoint(int, std::string&, uint64_t, std::string&, std::string&, int, std::string, bool, bool) [with long unsigned int span = 64; std::string = std::__cxx11::basic_string; uint64_t = long unsigned int]': /build/reproducible-path/mindthegap-2.3.0/src/FindHeteroInsertion.hpp:145:57: required from 'bool FindHeteroInsertion::update() [with long unsigned int span = 64]' 145 | this->_find->writeBreakpoint(this->_find->breakpoint_id(), this->_find->chrom_name(), this->_find->position() - 1 + i, kmer_begin_str, kmer_end_str, i, STR_HET_TYPE, this->_find->het_kmer_history(this->_find->het_kmer_begin_index() + i).is_repeated, this->_find->kmer_end_is_repeated()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/FindHeteroInsertion.hpp:48:6: required from here 48 | bool FindHeteroInsertion::update() | ^~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/FindBreakpoints.hpp:642:63: warning: format '%lli' expects argument of type 'long long int', but argument 5 has type 'uint64_t' {aka 'long unsigned int'} [-Wformat=] 642 | fprintf(this->finder->_breakpoint_file,">bkpt%i_%s_pos_%lli_fuzzy_%i_%s %s left_kmer\n%s\n>bkpt%i_%s_pos_%lli_fuzzy_%i_%s %s right_kmer\n%s\n", | ~~~^ | | | long long int | %li ...... 645 | position+1, //switch to 1-based | ~~~~~~~~~~ | | | uint64_t {aka long unsigned int} /build/reproducible-path/mindthegap-2.3.0/src/FindBreakpoints.hpp:642:113: warning: format '%lli' expects argument of type 'long long int', but argument 12 has type 'uint64_t' {aka 'long unsigned int'} [-Wformat=] 642 | fprintf(this->finder->_breakpoint_file,">bkpt%i_%s_pos_%lli_fuzzy_%i_%s %s left_kmer\n%s\n>bkpt%i_%s_pos_%lli_fuzzy_%i_%s %s right_kmer\n%s\n", | ~~~^ | | | long long int | %li ...... 652 | position+1, //switch to 1-based | ~~~~~~~~~~ | | | uint64_t {aka long unsigned int} /build/reproducible-path/mindthegap-2.3.0/src/FindBreakpoints.hpp: In instantiation of 'void FindBreakpoints::writeVcfVariant(int, std::string&, uint64_t, char*, char*, int, std::string) [with long unsigned int span = 64; std::string = std::__cxx11::basic_string; uint64_t = long unsigned int]': /build/reproducible-path/mindthegap-2.3.0/src/FindDeletion.hpp:158:30: required from 'bool FindDeletion::update() [with long unsigned int span = 64]' 158 | this->_find->writeVcfVariant(this->_find->breakpoint_id(), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 159 | this->_find->chrom_name(), | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 | del_start_pos, del_sequence, alt_char, repeat_size, STR_DEL_TYPE); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/FindDeletion.hpp:62:6: required from here 62 | bool FindDeletion::update() | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/FindBreakpoints.hpp:668:49: warning: format '%lli' expects argument of type 'long long int', but argument 4 has type 'uint64_t' {aka 'long unsigned int'} [-Wformat=] 668 | fprintf(this->finder->_vcf_file,"%s\t%lli\tbkpt%i\t%s\t%s\t.\tPASS\tTYPE=%s;LEN=%i;FUZZY=%i\tGT\t1/1\n", | ~~~^ | | | long long int | %li 669 | chrom_name.c_str(), 670 | position+1, //switch to 1-based | ~~~~~~~~~~ | | | uint64_t {aka long unsigned int} /build/reproducible-path/mindthegap-2.3.0/src/FindBreakpoints.hpp: In instantiation of 'void FindBreakpoints::writeIndel(int, std::string&, uint64_t, std::string, std::string, int, std::string) [with long unsigned int span = 32; std::string = std::__cxx11::basic_string; uint64_t = long unsigned int]': /build/reproducible-path/mindthegap-2.3.0/src/FindHeteroInsertion.hpp:119:30: required from 'bool FindHeteroInsertion::update() [with long unsigned int span = 32]' 119 | this->_find->writeIndel(this->_find->breakpoint_id(), this->_find->chrom_name(), this->_find->position() - 1, ref, inser_base_one, i, STR_HET_TYPE); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/FindHeteroInsertion.hpp:48:6: required from here 48 | bool FindHeteroInsertion::update() | ^~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/FindBreakpoints.hpp:693:46: warning: format '%lli' expects argument of type 'long long int', but argument 4 has type 'uint64_t' {aka 'long unsigned int'} [-Wformat=] 693 | fprintf(this->finder->_vcf_file, "%s\t%lli\tbkpt%i\t%s\t%s\t.\tPASS\tTYPE=INS;LEN=%i;FUZZY=%i\tGT\t%s\n", | ~~~^ | | | long long int | %li 694 | chrom_name.c_str(), 695 | position + 1, //switch to 1-based | ~~~~~~~~~~~~ | | | uint64_t {aka long unsigned int} /build/reproducible-path/mindthegap-2.3.0/src/FindBreakpoints.hpp: In instantiation of 'void FindBreakpoints::writeBreakpoint(int, std::string&, uint64_t, std::string&, std::string&, int, std::string, bool, bool) [with long unsigned int span = 32; std::string = std::__cxx11::basic_string; uint64_t = long unsigned int]': /build/reproducible-path/mindthegap-2.3.0/src/FindHeteroInsertion.hpp:145:57: required from 'bool FindHeteroInsertion::update() [with long unsigned int span = 32]' 145 | this->_find->writeBreakpoint(this->_find->breakpoint_id(), this->_find->chrom_name(), this->_find->position() - 1 + i, kmer_begin_str, kmer_end_str, i, STR_HET_TYPE, this->_find->het_kmer_history(this->_find->het_kmer_begin_index() + i).is_repeated, this->_find->kmer_end_is_repeated()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/FindHeteroInsertion.hpp:48:6: required from here 48 | bool FindHeteroInsertion::update() | ^~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/FindBreakpoints.hpp:642:63: warning: format '%lli' expects argument of type 'long long int', but argument 5 has type 'uint64_t' {aka 'long unsigned int'} [-Wformat=] 642 | fprintf(this->finder->_breakpoint_file,">bkpt%i_%s_pos_%lli_fuzzy_%i_%s %s left_kmer\n%s\n>bkpt%i_%s_pos_%lli_fuzzy_%i_%s %s right_kmer\n%s\n", | ~~~^ | | | long long int | %li ...... 645 | position+1, //switch to 1-based | ~~~~~~~~~~ | | | uint64_t {aka long unsigned int} /build/reproducible-path/mindthegap-2.3.0/src/FindBreakpoints.hpp:642:113: warning: format '%lli' expects argument of type 'long long int', but argument 12 has type 'uint64_t' {aka 'long unsigned int'} [-Wformat=] 642 | fprintf(this->finder->_breakpoint_file,">bkpt%i_%s_pos_%lli_fuzzy_%i_%s %s left_kmer\n%s\n>bkpt%i_%s_pos_%lli_fuzzy_%i_%s %s right_kmer\n%s\n", | ~~~^ | | | long long int | %li ...... 652 | position+1, //switch to 1-based | ~~~~~~~~~~ | | | uint64_t {aka long unsigned int} /build/reproducible-path/mindthegap-2.3.0/src/FindBreakpoints.hpp: In instantiation of 'void FindBreakpoints::writeVcfVariant(int, std::string&, uint64_t, char*, char*, int, std::string) [with long unsigned int span = 32; std::string = std::__cxx11::basic_string; uint64_t = long unsigned int]': /build/reproducible-path/mindthegap-2.3.0/src/FindDeletion.hpp:158:30: required from 'bool FindDeletion::update() [with long unsigned int span = 32]' 158 | this->_find->writeVcfVariant(this->_find->breakpoint_id(), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 159 | this->_find->chrom_name(), | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 | del_start_pos, del_sequence, alt_char, repeat_size, STR_DEL_TYPE); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/FindDeletion.hpp:62:6: required from here 62 | bool FindDeletion::update() | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/mindthegap-2.3.0/src/FindBreakpoints.hpp:668:49: warning: format '%lli' expects argument of type 'long long int', but argument 4 has type 'uint64_t' {aka 'long unsigned int'} [-Wformat=] 668 | fprintf(this->finder->_vcf_file,"%s\t%lli\tbkpt%i\t%s\t%s\t.\tPASS\tTYPE=%s;LEN=%i;FUZZY=%i\tGT\t1/1\n", | ~~~^ | | | long long int | %li 669 | chrom_name.c_str(), 670 | position+1, //switch to 1-based | ~~~~~~~~~~ | | | uint64_t {aka long unsigned int} [ 90%] Linking CXX executable bin/nwalign /usr/bin/cmake -E cmake_link_script CMakeFiles/nwalign.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mindthegap-2.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic -Wl,--dependency-file=CMakeFiles/nwalign.dir/link.d CMakeFiles/nwalign.dir/src/nwAlign/nwalign.cpp.o -o bin/nwalign -L/usr/lib/x86_64-linux-gnu/hdf5/serial -Wl,-rpath,/usr/lib/x86_64-linux-gnu/hdf5/serial -lgatbcore -lhdf5 make[3]: Leaving directory '/build/reproducible-path/mindthegap-2.3.0/obj-x86_64-linux-gnu' [ 90%] Built target nwalign [100%] Linking CXX executable bin/MindTheGap /usr/bin/cmake -E cmake_link_script CMakeFiles/MindTheGap.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mindthegap-2.3.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic -Wl,--dependency-file=CMakeFiles/MindTheGap.dir/link.d CMakeFiles/MindTheGap.dir/src/main.cpp.o CMakeFiles/MindTheGap.dir/src/Filler.cpp.o CMakeFiles/MindTheGap.dir/src/Finder.cpp.o CMakeFiles/MindTheGap.dir/src/GraphAnalysis.cpp.o CMakeFiles/MindTheGap.dir/src/GraphOutputDot.cpp.o CMakeFiles/MindTheGap.dir/src/IGraphOutput.cpp.o CMakeFiles/MindTheGap.dir/src/Utils.cpp.o -o bin/MindTheGap -L/usr/lib/x86_64-linux-gnu/hdf5/serial -Wl,-rpath,/usr/lib/x86_64-linux-gnu/hdf5/serial: -lgatbcore -lhdf5 make[3]: Leaving directory '/build/reproducible-path/mindthegap-2.3.0/obj-x86_64-linux-gnu' [100%] Built target MindTheGap make[2]: Leaving directory '/build/reproducible-path/mindthegap-2.3.0/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/mindthegap-2.3.0/obj-x86_64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/reproducible-path/mindthegap-2.3.0/obj-x86_64-linux-gnu' dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install cd obj-x86_64-linux-gnu && make -j12 install DESTDIR=/build/reproducible-path/mindthegap-2.3.0/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/mindthegap-2.3.0/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/mindthegap-2.3.0 -B/build/reproducible-path/mindthegap-2.3.0/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/reproducible-path/mindthegap-2.3.0/obj-x86_64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/reproducible-path/mindthegap-2.3.0/obj-x86_64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/reproducible-path/mindthegap-2.3.0/debian/tmp/usr/bin/MindTheGap -- Set non-toolchain portion of runtime path of "/build/reproducible-path/mindthegap-2.3.0/debian/tmp/usr/bin/MindTheGap" to "" make[1]: Leaving directory '/build/reproducible-path/mindthegap-2.3.0/obj-x86_64-linux-gnu' dh_install dh_installdocs dh_installchangelogs dh_installman 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 dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/mindthegap/usr/bin/MindTheGap was not linked against libhdf5_serial.so.310 (it uses none of the library's symbols) dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'mindthegap-dbgsym' in '../mindthegap-dbgsym_2.3.0-4_amd64.deb'. dpkg-deb: building package 'mindthegap' in '../mindthegap_2.3.0-4_amd64.deb'. dpkg-deb: building package 'mindthegap-examples' in '../mindthegap-examples_2.3.0-4_all.deb'. dpkg-genbuildinfo --build=binary -O../mindthegap_2.3.0-4_amd64.buildinfo dpkg-genchanges --build=binary -O../mindthegap_2.3.0-4_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/2752283 and its subdirectories I: Current time: Thu Apr 9 02:50:00 -12 2026 I: pbuilder-time-stamp: 1775746200 Fri Mar 7 08:27:01 UTC 2025 I: 1st build successful. Starting 2nd build on remote node infom01-amd64.debian.net. Fri Mar 7 08:27:01 UTC 2025 I: Preparing to do remote build '2' on infom01-amd64.debian.net. Fri Mar 7 08:29:02 UTC 2025 I: Deleting $TMPDIR on infom01-amd64.debian.net. Fri Mar 7 08:29:02 UTC 2025 I: mindthegap_2.3.0-4_amd64.changes: Format: 1.8 Date: Fri, 06 Sep 2024 21:01:08 +0200 Source: mindthegap Binary: mindthegap mindthegap-dbgsym mindthegap-examples Architecture: amd64 all Version: 2.3.0-4 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Étienne Mollier Description: mindthegap - performs detection and assembly of DNA insertion variants in NGS mindthegap-examples - optional scripts and example resources for mindthegap Closes: 1075273 Changes: mindthegap (2.3.0-4) unstable; urgency=medium . * fix-use-as-function.patch: new: fix build failure with gcc-14. (Closes: #1075273) * d/control: declare compliance to standards version 4.7.0. * d/control: add myself to uploaders. * d/salsa-ci.yml: do not test build on i386 due to missing dependency. Checksums-Sha1: 2c031355842cbafc8560c15828c13838199760b3 3467360 mindthegap-dbgsym_2.3.0-4_amd64.deb bd6e650030c21585c03d2ead646af29d6a732584 648276 mindthegap-examples_2.3.0-4_all.deb d658582ba49f6eb680b80d899124f2548d26c650 7851 mindthegap_2.3.0-4_amd64.buildinfo 541afcae4fabb22f1722e6464e4e0d36be7e3c10 253344 mindthegap_2.3.0-4_amd64.deb Checksums-Sha256: 6967be96188d0139a20e02029290dd76bfc062973d219545800ead80d61a6cbe 3467360 mindthegap-dbgsym_2.3.0-4_amd64.deb 91afe02e9a4f7a4d8c3a77f1492d181c74f2a1ff9d4a8f72381aa88283ea7410 648276 mindthegap-examples_2.3.0-4_all.deb 979ab0a92ddeecb3b969285fb7b8fc781dff464dce4d945e48aee9d2028662f4 7851 mindthegap_2.3.0-4_amd64.buildinfo 763f9ebccbf15e14fae6e7bf5c91234d180d2df220bbc5a148487c7a811cd37f 253344 mindthegap_2.3.0-4_amd64.deb Files: 60855daae3e1d9be096787d5dc18c883 3467360 debug optional mindthegap-dbgsym_2.3.0-4_amd64.deb cb4567b8aa22f9ec02901cd3f6ae793b 648276 science optional mindthegap-examples_2.3.0-4_all.deb 38c4f115d015433b897471e5917c648c 7851 science optional mindthegap_2.3.0-4_amd64.buildinfo be6e490c69c025ade03215921d5697b0 253344 science optional mindthegap_2.3.0-4_amd64.deb Fri Mar 7 08:29:03 UTC 2025 I: diffoscope 289 will be used to compare the two builds: Running as unit: rb-diffoscope-amd64_36-51402.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.PvYrUN7X/mindthegap_2.3.0-4.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.PvYrUN7X/mindthegap_2.3.0-4.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.PvYrUN7X/mindthegap_2.3.0-4.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.PvYrUN7X/b1/mindthegap_2.3.0-4_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.PvYrUN7X/b2/mindthegap_2.3.0-4_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 Service runtime: 226ms CPU time consumed: 227ms Fri Mar 7 08:29:04 UTC 2025 I: diffoscope 289 found no differences in the changes files, and a .buildinfo file also exists. Fri Mar 7 08:29:04 UTC 2025 I: mindthegap from unstable built successfully and reproducibly on amd64. Fri Mar 7 08:29:05 UTC 2025 I: Submitting .buildinfo files to external archives: Fri Mar 7 08:29:05 UTC 2025 I: Submitting 12K b1/mindthegap_2.3.0-4_amd64.buildinfo.asc Fri Mar 7 08:29:06 UTC 2025 I: Submitting 12K b2/mindthegap_2.3.0-4_amd64.buildinfo.asc Fri Mar 7 08:29:07 UTC 2025 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Fri Mar 7 08:29:07 UTC 2025 I: Done submitting .buildinfo files. Fri Mar 7 08:29:07 UTC 2025 I: Removing signed mindthegap_2.3.0-4_amd64.buildinfo.asc files: removed './b1/mindthegap_2.3.0-4_amd64.buildinfo.asc' removed './b2/mindthegap_2.3.0-4_amd64.buildinfo.asc'