I: pbuilder: network access will be disabled during build I: Current time: Wed Apr 3 04:17:59 +14 2024 I: pbuilder-time-stamp: 1712067479 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: using eatmydata during job I: Copying source file I: copying [hinge_0.5.0-7.dsc] I: copying [./hinge_0.5.0.orig.tar.gz] I: copying [./hinge_0.5.0-7.debian.tar.xz] I: Extracting source gpgv: Signature made Wed Dec 22 07:23:38 2021 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./hinge_0.5.0-7.dsc: no acceptable signature found dpkg-source: info: extracting hinge in hinge-0.5.0 dpkg-source: info: unpacking hinge_0.5.0.orig.tar.gz dpkg-source: info: unpacking hinge_0.5.0-7.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying external-spdlog.patch dpkg-source: info: applying libspdlog-14.0.patch dpkg-source: info: applying libspdlog-1:1.3.0 dpkg-source: info: applying 2to3.patch dpkg-source: info: applying spdlog-1.5.0.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/24485/tmp/hooks/D01_modify_environment starting debug: Running on ionos2-i386. I: Changing host+domainname to test build reproducibility I: Adding a custom variable just for the fun of it... I: Changing /bin/sh to bash '/bin/sh' -> '/bin/bash' lrwxrwxrwx 1 root root 9 Apr 2 14:18 /bin/sh -> /bin/bash I: Setting pbuilder2's login shell to /bin/bash I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other I: user script /srv/workspace/pbuilder/24485/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/24485/tmp/hooks/D02_print_environment starting I: set BASH=/bin/sh BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath BASH_ALIASES=() BASH_ARGC=() BASH_ARGV=() BASH_CMDS=() BASH_LINENO=([0]="12" [1]="0") BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") BASH_VERSINFO=([0]="5" [1]="2" [2]="21" [3]="1" [4]="release" [5]="i686-pc-linux-gnu") BASH_VERSION='5.2.21(1)-release' BUILDDIR=/build/reproducible-path BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=i386 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=7 ' DIRSTACK=() DISTRIBUTION=trixie EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=i686 HOST_ARCH=i386 IFS=' ' INVOCATION_ID=167b2cf19e4a415088d5ae6901dfc4d0 LANG=C LANGUAGE=de_CH:de LC_ALL=C LD_LIBRARY_PATH=/usr/lib/libeatmydata LD_PRELOAD=libeatmydata.so MACHTYPE=i686-pc-linux-gnu MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnu PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path PBCURRENTCOMMANDLINEOPERATION=build PBUILDER_OPERATION=build PBUILDER_PKGDATADIR=/usr/share/pbuilder PBUILDER_PKGLIBDIR=/usr/lib/pbuilder PBUILDER_SYSCONFDIR=/etc PIPESTATUS=([0]="0") POSIXLY_CORRECT=y PPID=24485 PS4='+ ' PWD=/ SHELL=/bin/bash SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix SHLVL=3 SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.1sfmvWzH/pbuilderrc_bwVL --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.1sfmvWzH/b2 --logfile b2/build.log hinge_0.5.0-7.dsc' SUDO_GID=112 SUDO_UID=107 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://78.137.99.97:3128 I: uname -a Linux i-capture-the-hostname 6.1.0-18-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.76-1 (2024-02-01) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Apr 1 11:23 /bin -> usr/bin I: user script /srv/workspace/pbuilder/24485/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: i386 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, libspdlog-dev, libboost-dev, libboost-graph-dev, libhdf5-dev, zlib1g-dev, pandoc, python3, daligner, dazzdb, dascrubber, python3-numpy, python3-ujson, python3-colormap, python3-pbcore, python3-networkx, python3-matplotlib dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19876 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 libspdlog-dev; however: Package libspdlog-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-dev; however: Package libboost-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-graph-dev; however: Package libboost-graph-dev is not installed. pbuilder-satisfydepends-dummy depends on libhdf5-dev; however: Package libhdf5-dev is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on pandoc; however: Package pandoc is not installed. pbuilder-satisfydepends-dummy depends on python3; however: Package python3 is not installed. pbuilder-satisfydepends-dummy depends on daligner; however: Package daligner is not installed. pbuilder-satisfydepends-dummy depends on dazzdb; however: Package dazzdb is not installed. pbuilder-satisfydepends-dummy depends on dascrubber; however: Package dascrubber is not installed. pbuilder-satisfydepends-dummy depends on python3-numpy; however: Package python3-numpy is not installed. pbuilder-satisfydepends-dummy depends on python3-ujson; however: Package python3-ujson is not installed. pbuilder-satisfydepends-dummy depends on python3-colormap; however: Package python3-colormap is not installed. pbuilder-satisfydepends-dummy depends on python3-pbcore; however: Package python3-pbcore is not installed. pbuilder-satisfydepends-dummy depends on python3-networkx; however: Package python3-networkx is not installed. pbuilder-satisfydepends-dummy depends on python3-matplotlib; however: Package python3-matplotlib 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} blt{a} bsdextrautils{a} catch2{a} cmake{a} cmake-data{a} daligner{a} dascrubber{a} dazzdb{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-extra{a} fonts-dejavu-mono{a} fonts-lyx{a} fonts-urw-base35{a} gettext{a} gettext-base{a} groff-base{a} hdf5-helpers{a} icu-devtools{a} intltool-debian{a} libaec-dev{a} libaec0{a} libarchive-zip-perl{a} libarchive13{a} libblas3{a} libboost-dev{a} libboost-graph-dev{a} libboost-graph1.83-dev{a} libboost-graph1.83.0{a} libboost-regex1.83-dev{a} libboost-regex1.83.0{a} libboost-serialization1.83-dev{a} libboost-serialization1.83.0{a} libboost-test1.83-dev{a} libboost-test1.83.0{a} libboost1.83-dev{a} libbrotli1{a} libbsd0{a} libcairo2{a} libcurl3-gnutls{a} libcurl4{a} libcurl4-openssl-dev{a} libdebhelper-perl{a} libdeflate0{a} libdouble-conversion3{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfmt-dev{a} libfmt9{a} libfontconfig1{a} libfontenc1{a} libfreetype6{a} libfribidi0{a} libgfortran5{a} libglib2.0-0{a} libgraphite2-3{a} libharfbuzz0b{a} libhdf5-103-1{a} libhdf5-cpp-103-1{a} libhdf5-dev{a} libhdf5-fortran-102{a} libhdf5-hl-100{a} libhdf5-hl-cpp-100{a} libhdf5-hl-fortran-100{a} libhts3{a} libhtscodecs2{a} libicu-dev{a} libicu72{a} libimagequant0{a} libjbig0{a} libjpeg-dev{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} libjs-jquery{a} libjs-jquery-ui{a} libjsoncpp25{a} liblapack3{a} liblbfgsb0{a} liblcms2-2{a} libldap-2.5-0{a} liblerc4{a} liblua5.4-0{a} libmagic-mgc{a} libmagic1{a} libnghttp2-14{a} libopenjp2-7{a} libpipeline1{a} libpixman-1-0{a} libpng16-16{a} libproc2-0{a} libpsl5{a} libpython3-stdlib{a} libpython3.11-minimal{a} libpython3.11-stdlib{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libqhull-r8.0{a} libraqm0{a} libreadline8{a} librhash0{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsharpyuv0{a} libspdlog-dev{a} libspdlog1.12{a} libssh2-1{a} libssl-dev{a} libsub-override-perl{a} libsz2{a} libtcl8.6{a} libtiff6{a} libtk8.6{a} libtool{a} libuchardet0{a} libuv1{a} libwebp7{a} libwebpdemux2{a} libwebpmux3{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb-render0{a} libxcb-shm0{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxft2{a} libxml2{a} libxrender1{a} libxslt1.1{a} libxss1{a} libyaml-0-2{a} m4{a} man-db{a} media-types{a} netbase{a} pandoc{a} pandoc-data{a} po-debconf{a} procps{a} python-matplotlib-data{a} python3{a} python3-appdirs{a} python3-attr{a} python3-biopython{a} python3-brotli{a} python3-cairo{a} python3-chardet{a} python3-colorama{a} python3-colorlog{a} python3-colormap{a} python3-contourpy{a} python3-cycler{a} python3-dateutil{a} python3-decorator{a} python3-easydev{a} python3-fonttools{a} python3-freetype{a} python3-fs{a} python3-kiwisolver{a} python3-lxml{a} python3-lz4{a} python3-matplotlib{a} python3-minimal{a} python3-mpmath{a} python3-networkx{a} python3-numpy{a} python3-packaging{a} python3-pbcore{a} python3-pexpect{a} python3-pil{a} python3-pil.imagetk{a} python3-pkg-resources{a} python3-ptyprocess{a} python3-pyparsing{a} python3-pysam{a} python3-reportlab{a} python3-rlpycairo{a} python3-scipy{a} python3-six{a} python3-sympy{a} python3-tk{a} python3-tz{a} python3-ufolib2{a} python3-ujson{a} python3-unicodedata2{a} python3.11{a} python3.11-minimal{a} python3.12{a} python3.12-minimal{a} readline-common{a} sensible-utils{a} sgml-base{a} tk8.6-blt2.5{a} tzdata{a} unicode-data{a} w3c-sgml-lib{a} x11-common{a} xfonts-encodings{a} xfonts-utils{a} xml-core{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl isympy-common javascript-common libarchive-cpio-perl libglib2.0-data libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx ncbi-blast+ psmisc publicsuffix python-biopython-doc python3-bs4 python3-cssselect python3-gdal python3-h5py python3-html5lib python3-olefile python3-pydot python3-pygraphviz python3-yaml shared-mime-info wget xdg-user-dirs 0 packages upgraded, 213 newly installed, 0 to remove and 0 not upgraded. Need to get 218 MB of archives. After unpacking 1170 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main i386 libpython3.11-minimal i386 3.11.8-1 [817 kB] Get: 2 http://deb.debian.org/debian trixie/main i386 libexpat1 i386 2.5.0-2+b2 [104 kB] Get: 3 http://deb.debian.org/debian trixie/main i386 python3.11-minimal i386 3.11.8-1 [2087 kB] Get: 4 http://deb.debian.org/debian trixie/main i386 python3-minimal i386 3.11.6-1 [26.2 kB] Get: 5 http://deb.debian.org/debian trixie/main i386 media-types all 10.1.0 [26.9 kB] Get: 6 http://deb.debian.org/debian trixie/main i386 netbase all 6.4 [12.8 kB] Get: 7 http://deb.debian.org/debian trixie/main i386 tzdata all 2024a-1 [255 kB] Get: 8 http://deb.debian.org/debian trixie/main i386 readline-common all 8.2-3 [69.1 kB] Get: 9 http://deb.debian.org/debian trixie/main i386 libreadline8 i386 8.2-3+b1 [171 kB] Get: 10 http://deb.debian.org/debian trixie/main i386 libpython3.11-stdlib i386 3.11.8-1 [1821 kB] Get: 11 http://deb.debian.org/debian trixie/main i386 python3.11 i386 3.11.8-1 [597 kB] Get: 12 http://deb.debian.org/debian trixie/main i386 libpython3-stdlib i386 3.11.6-1 [9224 B] Get: 13 http://deb.debian.org/debian trixie/main i386 python3 i386 3.11.6-1 [26.2 kB] Get: 14 http://deb.debian.org/debian trixie/main i386 libpython3.12-minimal i386 3.12.2-1 [807 kB] Get: 15 http://deb.debian.org/debian trixie/main i386 python3.12-minimal i386 3.12.2-1 [2244 kB] Get: 16 http://deb.debian.org/debian trixie/main i386 sgml-base all 1.31 [15.4 kB] Get: 17 http://deb.debian.org/debian trixie/main i386 libproc2-0 i386 2:4.0.4-4 [65.4 kB] Get: 18 http://deb.debian.org/debian trixie/main i386 procps i386 2:4.0.4-4 [876 kB] Get: 19 http://deb.debian.org/debian trixie/main i386 sensible-utils all 0.0.22 [22.4 kB] Get: 20 http://deb.debian.org/debian trixie/main i386 libmagic-mgc i386 1:5.45-2+b1 [314 kB] Get: 21 http://deb.debian.org/debian trixie/main i386 libmagic1 i386 1:5.45-2+b1 [114 kB] Get: 22 http://deb.debian.org/debian trixie/main i386 file i386 1:5.45-2+b1 [43.0 kB] Get: 23 http://deb.debian.org/debian trixie/main i386 gettext-base i386 0.21-14+b1 [162 kB] Get: 24 http://deb.debian.org/debian trixie/main i386 libuchardet0 i386 0.0.8-1+b1 [69.1 kB] Get: 25 http://deb.debian.org/debian trixie/main i386 groff-base i386 1.23.0-3 [1195 kB] Get: 26 http://deb.debian.org/debian trixie/main i386 bsdextrautils i386 2.39.3-6 [93.3 kB] Get: 27 http://deb.debian.org/debian trixie/main i386 libpipeline1 i386 1.5.7-1+b2 [39.6 kB] Get: 28 http://deb.debian.org/debian trixie/main i386 man-db i386 2.12.0-3 [1413 kB] Get: 29 http://deb.debian.org/debian trixie/main i386 m4 i386 1.4.19-4 [293 kB] Get: 30 http://deb.debian.org/debian trixie/main i386 autoconf all 2.71-3 [332 kB] Get: 31 http://deb.debian.org/debian trixie/main i386 autotools-dev all 20220109.1 [51.6 kB] Get: 32 http://deb.debian.org/debian trixie/main i386 automake all 1:1.16.5-1.3 [823 kB] Get: 33 http://deb.debian.org/debian trixie/main i386 autopoint all 0.21-14 [496 kB] Get: 34 http://deb.debian.org/debian trixie/main i386 libtcl8.6 i386 8.6.14+dfsg-1 [1095 kB] Get: 35 http://deb.debian.org/debian trixie/main i386 libbrotli1 i386 1.1.0-2+b3 [314 kB] Get: 36 http://deb.debian.org/debian trixie/main i386 libpng16-16 i386 1.6.43-1 [285 kB] Get: 37 http://deb.debian.org/debian trixie/main i386 libfreetype6 i386 2.13.2+dfsg-1+b1 [449 kB] Get: 38 http://deb.debian.org/debian trixie/main i386 fonts-dejavu-mono all 2.37-8 [489 kB] Get: 39 http://deb.debian.org/debian trixie/main i386 fonts-dejavu-core all 2.37-8 [840 kB] Get: 40 http://deb.debian.org/debian trixie/main i386 libfontenc1 i386 1:1.1.8-1 [23.1 kB] Get: 41 http://deb.debian.org/debian trixie/main i386 x11-common all 1:7.7+23 [252 kB] Get: 42 http://deb.debian.org/debian trixie/main i386 xfonts-encodings all 1:1.0.4-2.2 [577 kB] Get: 43 http://deb.debian.org/debian trixie/main i386 xfonts-utils i386 1:7.7+6 [95.2 kB] Get: 44 http://deb.debian.org/debian trixie/main i386 fonts-urw-base35 all 20200910-8 [10.8 MB] Get: 45 http://deb.debian.org/debian trixie/main i386 fontconfig-config i386 2.15.0-1.1 [317 kB] Get: 46 http://deb.debian.org/debian trixie/main i386 libfontconfig1 i386 2.15.0-1.1 [401 kB] Get: 47 http://deb.debian.org/debian trixie/main i386 libxau6 i386 1:1.0.9-1 [20.0 kB] Get: 48 http://deb.debian.org/debian trixie/main i386 libbsd0 i386 0.12.2-1 [134 kB] Get: 49 http://deb.debian.org/debian trixie/main i386 libxdmcp6 i386 1:1.1.2-3 [26.7 kB] Get: 50 http://deb.debian.org/debian trixie/main i386 libxcb1 i386 1.15-1 [148 kB] Get: 51 http://deb.debian.org/debian trixie/main i386 libx11-data all 2:1.8.7-1 [328 kB] Get: 52 http://deb.debian.org/debian trixie/main i386 libx11-6 i386 2:1.8.7-1 [822 kB] Get: 53 http://deb.debian.org/debian trixie/main i386 libxrender1 i386 1:0.9.10-1.1 [34.1 kB] Get: 54 http://deb.debian.org/debian trixie/main i386 libxft2 i386 2.3.6-1+b1 [55.3 kB] Get: 55 http://deb.debian.org/debian trixie/main i386 libxext6 i386 2:1.3.4-1+b1 [55.3 kB] Get: 56 http://deb.debian.org/debian trixie/main i386 libxss1 i386 1:1.2.3-1 [18.1 kB] Get: 57 http://deb.debian.org/debian trixie/main i386 libtk8.6 i386 8.6.14-1 [826 kB] Get: 58 http://deb.debian.org/debian trixie/main i386 tk8.6-blt2.5 i386 2.5.3+dfsg-7 [616 kB] Get: 59 http://deb.debian.org/debian trixie/main i386 blt i386 2.5.3+dfsg-7 [6024 B] Get: 60 http://deb.debian.org/debian trixie/main i386 catch2 i386 3.4.0-1 [606 kB] Get: 61 http://deb.debian.org/debian trixie/main i386 libicu72 i386 72.1-4+b1 [9549 kB] Get: 62 http://deb.debian.org/debian trixie/main i386 libxml2 i386 2.9.14+dfsg-1.3+b2 [727 kB] Get: 63 http://deb.debian.org/debian trixie/main i386 libarchive13 i386 3.7.2-1 [386 kB] Get: 64 http://deb.debian.org/debian trixie/main i386 libsasl2-modules-db i386 2.1.28+dfsg1-4+b1 [20.7 kB] Get: 65 http://deb.debian.org/debian trixie/main i386 libsasl2-2 i386 2.1.28+dfsg1-4+b1 [60.7 kB] Get: 66 http://deb.debian.org/debian trixie/main i386 libldap-2.5-0 i386 2.5.13+dfsg-5+b3 [196 kB] Get: 67 http://deb.debian.org/debian trixie/main i386 libnghttp2-14 i386 1.59.0-1 [82.5 kB] Get: 68 http://deb.debian.org/debian trixie/main i386 libpsl5 i386 0.21.2-1+b1 [59.7 kB] Get: 69 http://deb.debian.org/debian trixie/main i386 librtmp1 i386 2.4+20151223.gitfa8646d.1-2+b2 [64.3 kB] Get: 70 http://deb.debian.org/debian trixie/main i386 libssh2-1 i386 1.11.0-4 [224 kB] Get: 71 http://deb.debian.org/debian trixie/main i386 libcurl4 i386 8.5.0-2 [463 kB] Get: 72 http://deb.debian.org/debian trixie/main i386 libjsoncpp25 i386 1.9.5-6+b2 [89.2 kB] Get: 73 http://deb.debian.org/debian trixie/main i386 librhash0 i386 1.4.3-3+b1 [143 kB] Get: 74 http://deb.debian.org/debian trixie/main i386 libuv1 i386 1.48.0-1 [156 kB] Get: 75 http://deb.debian.org/debian trixie/main i386 cmake-data all 3.28.3-1 [2128 kB] Get: 76 http://deb.debian.org/debian trixie/main i386 cmake i386 3.28.3-1 [11.7 MB] Get: 77 http://deb.debian.org/debian trixie/main i386 daligner i386 1.0+git20240119.335105d-2 [233 kB] Get: 78 http://deb.debian.org/debian trixie/main i386 dascrubber i386 1.1-4 [161 kB] Get: 79 http://deb.debian.org/debian trixie/main i386 dazzdb i386 1.0+git20230919.414ad05-2 [219 kB] Get: 80 http://deb.debian.org/debian trixie/main i386 libdebhelper-perl all 13.15.3 [88.0 kB] Get: 81 http://deb.debian.org/debian trixie/main i386 libtool all 2.4.7-7 [517 kB] Get: 82 http://deb.debian.org/debian trixie/main i386 dh-autoreconf all 20 [17.1 kB] Get: 83 http://deb.debian.org/debian trixie/main i386 libarchive-zip-perl all 1.68-1 [104 kB] Get: 84 http://deb.debian.org/debian trixie/main i386 libsub-override-perl all 0.10-1 [10.6 kB] Get: 85 http://deb.debian.org/debian trixie/main i386 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 86 http://deb.debian.org/debian trixie/main i386 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 87 http://deb.debian.org/debian trixie/main i386 libelf1 i386 0.190-1+b1 [182 kB] Get: 88 http://deb.debian.org/debian trixie/main i386 dwz i386 0.15-1 [118 kB] Get: 89 http://deb.debian.org/debian trixie/main i386 gettext i386 0.21-14+b1 [1311 kB] Get: 90 http://deb.debian.org/debian trixie/main i386 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 91 http://deb.debian.org/debian trixie/main i386 po-debconf all 1.0.21+nmu1 [248 kB] Get: 92 http://deb.debian.org/debian trixie/main i386 debhelper all 13.15.3 [901 kB] Get: 93 http://deb.debian.org/debian trixie/main i386 fonts-dejavu-extra all 2.37-8 [1792 kB] Get: 94 http://deb.debian.org/debian trixie/main i386 fonts-lyx all 2.4.0~RC3-1 [189 kB] Get: 95 http://deb.debian.org/debian trixie/main i386 hdf5-helpers i386 1.10.10+repack-3+b1 [23.5 kB] Get: 96 http://deb.debian.org/debian trixie/main i386 icu-devtools i386 72.1-4+b1 [216 kB] Get: 97 http://deb.debian.org/debian trixie/main i386 libaec0 i386 1.1.3-1 [24.5 kB] Get: 98 http://deb.debian.org/debian trixie/main i386 libsz2 i386 1.1.3-1 [7824 B] Get: 99 http://deb.debian.org/debian trixie/main i386 libaec-dev i386 1.1.3-1 [22.4 kB] Get: 100 http://deb.debian.org/debian trixie/main i386 libblas3 i386 3.12.0-3 [140 kB] Get: 101 http://deb.debian.org/debian trixie/main i386 libboost1.83-dev i386 1.83.0-2+b2 [10.6 MB] Get: 102 http://deb.debian.org/debian trixie/main i386 libboost-dev i386 1.83.0.2+b2 [3840 B] Get: 103 http://deb.debian.org/debian trixie/main i386 libboost-graph1.83.0 i386 1.83.0-2+b2 [366 kB] Get: 104 http://deb.debian.org/debian trixie/main i386 libboost-regex1.83.0 i386 1.83.0-2+b2 [328 kB] Get: 105 http://deb.debian.org/debian trixie/main i386 libicu-dev i386 72.1-4+b1 [10.6 MB] Get: 106 http://deb.debian.org/debian trixie/main i386 libboost-regex1.83-dev i386 1.83.0-2+b2 [347 kB] Get: 107 http://deb.debian.org/debian trixie/main i386 libboost-serialization1.83.0 i386 1.83.0-2+b2 [341 kB] Get: 108 http://deb.debian.org/debian trixie/main i386 libboost-serialization1.83-dev i386 1.83.0-2+b2 [383 kB] Get: 109 http://deb.debian.org/debian trixie/main i386 libboost-test1.83.0 i386 1.83.0-2+b2 [479 kB] Get: 110 http://deb.debian.org/debian trixie/main i386 libboost-test1.83-dev i386 1.83.0-2+b2 [553 kB] Get: 111 http://deb.debian.org/debian trixie/main i386 libboost-graph1.83-dev i386 1.83.0-2+b2 [392 kB] Get: 112 http://deb.debian.org/debian trixie/main i386 libboost-graph-dev i386 1.83.0.2+b2 [3708 B] Get: 113 http://deb.debian.org/debian trixie/main i386 libpixman-1-0 i386 0.42.2-1+b1 [555 kB] Get: 114 http://deb.debian.org/debian trixie/main i386 libxcb-render0 i386 1.15-1 [116 kB] Get: 115 http://deb.debian.org/debian trixie/main i386 libxcb-shm0 i386 1.15-1 [106 kB] Get: 116 http://deb.debian.org/debian trixie/main i386 libcairo2 i386 1.18.0-1+b1 [587 kB] Get: 117 http://deb.debian.org/debian trixie/main i386 libcurl3-gnutls i386 8.5.0-2 [454 kB] Get: 118 http://deb.debian.org/debian trixie/main i386 libcurl4-openssl-dev i386 8.5.0-2 [582 kB] Get: 119 http://deb.debian.org/debian trixie/main i386 libdeflate0 i386 1.20-1 [46.9 kB] Get: 120 http://deb.debian.org/debian trixie/main i386 libdouble-conversion3 i386 3.3.0-1+b1 [44.9 kB] Get: 121 http://deb.debian.org/debian trixie/main i386 libfmt9 i386 9.1.0+ds1-2 [119 kB] Get: 122 http://deb.debian.org/debian trixie/main i386 libfmt-dev i386 9.1.0+ds1-2 [171 kB] Get: 123 http://deb.debian.org/debian trixie/main i386 libfribidi0 i386 1.0.13-3+b1 [71.8 kB] Get: 124 http://deb.debian.org/debian trixie/main i386 libgfortran5 i386 14-20240201-3 [733 kB] Get: 125 http://deb.debian.org/debian trixie/main i386 libglib2.0-0 i386 2.78.4-1 [1520 kB] Get: 126 http://deb.debian.org/debian trixie/main i386 libgraphite2-3 i386 1.3.14-2 [77.7 kB] Get: 127 http://deb.debian.org/debian trixie/main i386 libharfbuzz0b i386 8.3.0-2 [2234 kB] Get: 128 http://deb.debian.org/debian trixie/main i386 libhdf5-103-1 i386 1.10.10+repack-3+b1 [1177 kB] Get: 129 http://deb.debian.org/debian trixie/main i386 libhdf5-cpp-103-1 i386 1.10.10+repack-3+b1 [138 kB] Get: 130 http://deb.debian.org/debian trixie/main i386 libhdf5-fortran-102 i386 1.10.10+repack-3+b1 [97.9 kB] Get: 131 http://deb.debian.org/debian trixie/main i386 libhdf5-hl-100 i386 1.10.10+repack-3+b1 [74.3 kB] Get: 132 http://deb.debian.org/debian trixie/main i386 libhdf5-hl-fortran-100 i386 1.10.10+repack-3+b1 [41.8 kB] Get: 133 http://deb.debian.org/debian trixie/main i386 libhdf5-hl-cpp-100 i386 1.10.10+repack-3+b1 [21.7 kB] Get: 134 http://deb.debian.org/debian trixie/main i386 zlib1g-dev i386 1:1.3.dfsg-3+b1 [915 kB] Get: 135 http://deb.debian.org/debian trixie/main i386 libjpeg62-turbo i386 1:2.1.5-2+b2 [169 kB] Get: 136 http://deb.debian.org/debian trixie/main i386 libjpeg62-turbo-dev i386 1:2.1.5-2+b2 [303 kB] Get: 137 http://deb.debian.org/debian trixie/main i386 libjpeg-dev i386 1:2.1.5-2+b2 [72.1 kB] Get: 138 http://deb.debian.org/debian trixie/main i386 libssl-dev i386 3.1.5-1 [2502 kB] Get: 139 http://deb.debian.org/debian trixie/main i386 libhdf5-dev i386 1.10.10+repack-3+b1 [2773 kB] Get: 140 http://deb.debian.org/debian trixie/main i386 libhtscodecs2 i386 1.6.0-1+b1 [68.5 kB] Get: 141 http://deb.debian.org/debian trixie/main i386 libhts3 i386 1.19+ds-1 [490 kB] Get: 142 http://deb.debian.org/debian trixie/main i386 libimagequant0 i386 2.18.0-1 [35.6 kB] Get: 143 http://deb.debian.org/debian trixie/main i386 libjbig0 i386 2.1-6.1+b1 [31.8 kB] Get: 144 http://deb.debian.org/debian trixie/main i386 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 145 http://deb.debian.org/debian trixie/main i386 libjs-jquery-ui all 1.13.2+dfsg-1 [250 kB] Get: 146 http://deb.debian.org/debian trixie/main i386 liblapack3 i386 3.12.0-3 [2167 kB] Get: 147 http://deb.debian.org/debian trixie/main i386 liblbfgsb0 i386 3.0+dfsg.4-1+b1 [29.1 kB] Get: 148 http://deb.debian.org/debian trixie/main i386 liblcms2-2 i386 2.14-2+b1 [165 kB] Get: 149 http://deb.debian.org/debian trixie/main i386 liblerc4 i386 4.0.0+ds-4+b1 [180 kB] Get: 150 http://deb.debian.org/debian trixie/main i386 liblua5.4-0 i386 5.4.6-3 [168 kB] Get: 151 http://deb.debian.org/debian trixie/main i386 libopenjp2-7 i386 2.5.0-2+b2 [197 kB] Get: 152 http://deb.debian.org/debian trixie/main i386 libpython3.12-stdlib i386 3.12.2-1 [1927 kB] Get: 153 http://deb.debian.org/debian trixie/main i386 libqhull-r8.0 i386 2020.2-6+b1 [256 kB] Get: 154 http://deb.debian.org/debian trixie/main i386 libraqm0 i386 0.10.1-1+b1 [14.7 kB] Get: 155 http://deb.debian.org/debian trixie/main i386 libsharpyuv0 i386 1.3.2-0.4 [107 kB] Get: 156 http://deb.debian.org/debian trixie/main i386 libspdlog1.12 i386 1:1.12.0+ds-2+b1 [148 kB] Get: 157 http://deb.debian.org/debian trixie/main i386 libspdlog-dev i386 1:1.12.0+ds-2+b1 [85.5 kB] Get: 158 http://deb.debian.org/debian trixie/main i386 libwebp7 i386 1.3.2-0.4 [314 kB] Get: 159 http://deb.debian.org/debian trixie/main i386 libtiff6 i386 4.5.1+git230720-4 [338 kB] Get: 160 http://deb.debian.org/debian trixie/main i386 libwebpdemux2 i386 1.3.2-0.4 [108 kB] Get: 161 http://deb.debian.org/debian trixie/main i386 libwebpmux3 i386 1.3.2-0.4 [121 kB] Get: 162 http://deb.debian.org/debian trixie/main i386 libxslt1.1 i386 1.1.35-1 [253 kB] Get: 163 http://deb.debian.org/debian trixie/main i386 libyaml-0-2 i386 0.2.5-1 [55.9 kB] Get: 164 http://deb.debian.org/debian trixie/main i386 pandoc-data all 3.1.3-1 [445 kB] Get: 165 http://deb.debian.org/debian trixie/main i386 pandoc i386 3.1.3+ds-2 [35.7 MB] Get: 166 http://deb.debian.org/debian trixie/main i386 python-matplotlib-data all 3.6.3-1 [2744 kB] Get: 167 http://deb.debian.org/debian trixie/main i386 python3-appdirs all 1.4.4-4 [12.5 kB] Get: 168 http://deb.debian.org/debian trixie/main i386 python3-attr all 23.2.0-2 [65.5 kB] Get: 169 http://deb.debian.org/debian trixie/main i386 python3-pkg-resources all 68.1.2-2 [241 kB] Get: 170 http://deb.debian.org/debian trixie/main i386 python3.12 i386 3.12.2-1 [653 kB] Get: 171 http://deb.debian.org/debian trixie/main i386 python3-numpy i386 1:1.24.2-2 [4879 kB] Get: 172 http://deb.debian.org/debian trixie/main i386 python3-chardet all 5.2.0+dfsg-1 [107 kB] Get: 173 http://deb.debian.org/debian trixie/main i386 python3-tk i386 3.11.5-1 [108 kB] Get: 174 http://deb.debian.org/debian trixie/main i386 python3-pil.imagetk i386 10.2.0-1 [78.0 kB] Get: 175 http://deb.debian.org/debian trixie/main i386 python3-pil i386 10.2.0-1 [526 kB] Get: 176 http://deb.debian.org/debian trixie/main i386 python3-cairo i386 1.25.1-2 [142 kB] Get: 177 http://deb.debian.org/debian trixie/main i386 python3-freetype all 2.4.0-1 [80.3 kB] Get: 178 http://deb.debian.org/debian trixie/main i386 python3-rlpycairo all 0.3.0-3 [9904 B] Get: 179 http://deb.debian.org/debian trixie/main i386 python3-reportlab all 4.1.0-1 [674 kB] Get: 180 http://deb.debian.org/debian trixie/main i386 xml-core all 0.19 [20.1 kB] Get: 181 http://deb.debian.org/debian trixie/main i386 w3c-sgml-lib all 1.3-3 [273 kB] Get: 182 http://deb.debian.org/debian trixie/main i386 python3-biopython i386 1.81+dfsg-3 [1616 kB] Get: 183 http://deb.debian.org/debian trixie/main i386 python3-brotli i386 1.1.0-2+b3 [323 kB] Get: 184 http://deb.debian.org/debian trixie/main i386 python3-colorama all 0.4.6-4 [36.2 kB] Get: 185 http://deb.debian.org/debian trixie/main i386 python3-colorlog all 6.8.2-1 [27.2 kB] Get: 186 http://deb.debian.org/debian trixie/main i386 python3-ptyprocess all 0.7.0-5 [14.7 kB] Get: 187 http://deb.debian.org/debian trixie/main i386 python3-pexpect all 4.9-2 [55.5 kB] Get: 188 http://deb.debian.org/debian trixie/main i386 python3-easydev all 0.12.1+dfsg-1 [35.3 kB] Get: 189 http://deb.debian.org/debian trixie/main i386 python3-six all 1.16.0-6 [16.3 kB] Get: 190 http://deb.debian.org/debian trixie/main i386 python3-dateutil all 2.9.0-2 [79.4 kB] Get: 191 http://deb.debian.org/debian trixie/main i386 python3-pyparsing all 3.1.1-1 [145 kB] Get: 192 http://deb.debian.org/debian trixie/main i386 python3-contourpy i386 1.0.7-3 [295 kB] Get: 193 http://deb.debian.org/debian trixie/main i386 python3-cycler all 0.12.1-1 [9496 B] Get: 194 http://deb.debian.org/debian trixie/main i386 python3-decorator all 5.1.1-5 [15.1 kB] Get: 195 http://deb.debian.org/debian trixie/main i386 python3-scipy i386 1.11.4-6 [19.0 MB] Get: 196 http://deb.debian.org/debian trixie/main i386 python3-ufolib2 all 0.16.0+dfsg1-1 [32.9 kB] Get: 197 http://deb.debian.org/debian trixie/main i386 python3-mpmath all 1.3.0-1 [419 kB] Get: 198 http://deb.debian.org/debian trixie/main i386 python3-sympy all 1.12-7 [3869 kB] Get: 199 http://deb.debian.org/debian trixie/main i386 python3-tz all 2024.1-2 [30.9 kB] Get: 200 http://deb.debian.org/debian trixie/main i386 python3-fs all 2.4.16-3 [95.3 kB] Get: 201 http://deb.debian.org/debian trixie/main i386 python3-lxml i386 5.1.0-1 [2065 kB] Get: 202 http://deb.debian.org/debian trixie/main i386 python3-lz4 i386 4.0.2+dfsg-1+b3 [25.6 kB] Get: 203 http://deb.debian.org/debian trixie/main i386 python3-unicodedata2 i386 15.1.0+ds-1+b1 [298 kB] Get: 204 http://deb.debian.org/debian trixie/main i386 unicode-data all 15.1.0-1 [8547 kB] Get: 205 http://deb.debian.org/debian trixie/main i386 python3-fonttools i386 4.46.0-1 [1613 kB] Get: 206 http://deb.debian.org/debian trixie/main i386 python3-kiwisolver i386 1.4.4-2 [83.9 kB] Get: 207 http://deb.debian.org/debian trixie/main i386 python3-packaging all 23.2-1 [44.8 kB] Get: 208 http://deb.debian.org/debian trixie/main i386 python3-matplotlib i386 3.6.3-1+b2 [8100 kB] Get: 209 http://deb.debian.org/debian trixie/main i386 python3-colormap all 1.0.6-1 [15.6 kB] Get: 210 http://deb.debian.org/debian trixie/main i386 python3-networkx all 2.8.8-2 [1425 kB] Get: 211 http://deb.debian.org/debian trixie/main i386 python3-pysam i386 0.22.0+ds-1+b1 [4120 kB] Get: 212 http://deb.debian.org/debian trixie/main i386 python3-pbcore all 2.1.2+dfsg-7 [2831 kB] Get: 213 http://deb.debian.org/debian trixie/main i386 python3-ujson i386 5.9.0-1+b1 [28.8 kB] Fetched 218 MB in 9s (24.6 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.11-minimal:i386. (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 ... 19876 files and directories currently installed.) Preparing to unpack .../libpython3.11-minimal_3.11.8-1_i386.deb ... Unpacking libpython3.11-minimal:i386 (3.11.8-1) ... Selecting previously unselected package libexpat1:i386. Preparing to unpack .../libexpat1_2.5.0-2+b2_i386.deb ... Unpacking libexpat1:i386 (2.5.0-2+b2) ... Selecting previously unselected package python3.11-minimal. Preparing to unpack .../python3.11-minimal_3.11.8-1_i386.deb ... Unpacking python3.11-minimal (3.11.8-1) ... Setting up libpython3.11-minimal:i386 (3.11.8-1) ... Setting up libexpat1:i386 (2.5.0-2+b2) ... Setting up python3.11-minimal (3.11.8-1) ... Selecting previously unselected package python3-minimal. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20193 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.11.6-1_i386.deb ... Unpacking python3-minimal (3.11.6-1) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_10.1.0_all.deb ... Unpacking media-types (10.1.0) ... Selecting previously unselected package netbase. Preparing to unpack .../2-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package tzdata. Preparing to unpack .../3-tzdata_2024a-1_all.deb ... Unpacking tzdata (2024a-1) ... Selecting previously unselected package readline-common. Preparing to unpack .../4-readline-common_8.2-3_all.deb ... Unpacking readline-common (8.2-3) ... Selecting previously unselected package libreadline8:i386. Preparing to unpack .../5-libreadline8_8.2-3+b1_i386.deb ... Unpacking libreadline8:i386 (8.2-3+b1) ... Selecting previously unselected package libpython3.11-stdlib:i386. Preparing to unpack .../6-libpython3.11-stdlib_3.11.8-1_i386.deb ... Unpacking libpython3.11-stdlib:i386 (3.11.8-1) ... Selecting previously unselected package python3.11. Preparing to unpack .../7-python3.11_3.11.8-1_i386.deb ... Unpacking python3.11 (3.11.8-1) ... Selecting previously unselected package libpython3-stdlib:i386. Preparing to unpack .../8-libpython3-stdlib_3.11.6-1_i386.deb ... Unpacking libpython3-stdlib:i386 (3.11.6-1) ... Setting up python3-minimal (3.11.6-1) ... Selecting previously unselected package python3. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 21181 files and directories currently installed.) Preparing to unpack .../000-python3_3.11.6-1_i386.deb ... Unpacking python3 (3.11.6-1) ... Selecting previously unselected package libpython3.12-minimal:i386. Preparing to unpack .../001-libpython3.12-minimal_3.12.2-1_i386.deb ... Unpacking libpython3.12-minimal:i386 (3.12.2-1) ... Selecting previously unselected package python3.12-minimal. 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Setting up tk8.6-blt2.5 (2.5.3+dfsg-7) ... Setting up python3-pysam (0.22.0+ds-1+b1) ... Setting up python3-cairo (1.25.1-2) ... Setting up python3-colorama (0.4.6-4) ... Setting up python3-colorlog (6.8.2-1) ... Setting up python3-lz4 (4.0.2+dfsg-1+b3) ... Setting up python3-unicodedata2 (15.1.0+ds-1+b1) ... Setting up blt (2.5.3+dfsg-7) ... Setting up python3-tk:i386 (3.11.5-1) ... Setting up python3-networkx (2.8.8-2) ... /usr/lib/python3/dist-packages/networkx/readwrite/tests/test_gml.py:556: SyntaxWarning: invalid octal escape sequence '\420' "graph [edge [ source u'u\4200' target u'u\4200' ] " /usr/lib/python3/dist-packages/networkx/readwrite/tests/test_gml.py:557: SyntaxWarning: invalid octal escape sequence '\420' + "node [ id u'u\4200' label b ] ]" Setting up python3-fs (2.4.16-3) ... Setting up python3-chardet (5.2.0+dfsg-1) ... Setting up python3-pil.imagetk:i386 (10.2.0-1) ... Setting up python3-rlpycairo (0.3.0-3) ... Setting up python3-pexpect (4.9-2) ... 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Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: user script /srv/workspace/pbuilder/24485/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for trixie I: user script /srv/workspace/pbuilder/24485/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/hinge-0.5.0/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../hinge_0.5.0-7_source.changes dpkg-buildpackage: info: source package hinge dpkg-buildpackage: info: source version 0.5.0-7 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 debian/rules clean dh clean dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure cd obj-i686-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb 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/i386-linux-gnu .. CMake Deprecation Warning at CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- The C compiler identification is GNU 13.2.0 -- The CXX compiler identification is GNU 13.2.0 -- 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 src/CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. CMake Deprecation Warning at src/lib/CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Found ZLIB: /usr/lib/i386-linux-gnu/libz.so (found version "1.3") CMake Deprecation Warning at src/filter/CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. CMake Deprecation Warning at src/maximal/CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. CMake Deprecation Warning at src/consensus/CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. CMake Deprecation Warning at src/layout/CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Found Boost: /usr/lib/i386-linux-gnu/cmake/Boost-1.83.0/BoostConfig.cmake (found version "1.83.0") found components: graph CMake Deprecation Warning at src/test/CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring done (6.1s) CMake Warning (dev) at src/filter/CMakeLists.txt:4 (add_executable): Policy CMP0115 is not set: Source file extensions must be explicit. Run "cmake --help-policy CMP0115" for policy details. Use the cmake_policy command to set the policy and suppress this warning. File: /build/reproducible-path/hinge-0.5.0/src/filter/filter.cpp This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at src/maximal/CMakeLists.txt:4 (add_executable): Policy CMP0115 is not set: Source file extensions must be explicit. Run "cmake --help-policy CMP0115" for policy details. Use the cmake_policy command to set the policy and suppress this warning. File: /build/reproducible-path/hinge-0.5.0/src/maximal/maximal.cpp This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at src/consensus/CMakeLists.txt:4 (add_executable): Policy CMP0115 is not set: Source file extensions must be explicit. Run "cmake --help-policy CMP0115" for policy details. Use the cmake_policy command to set the policy and suppress this warning. File: /build/reproducible-path/hinge-0.5.0/src/consensus/draft.cpp This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at src/layout/CMakeLists.txt:9 (add_executable): Policy CMP0115 is not set: Source file extensions must be explicit. Run "cmake --help-policy CMP0115" for policy details. Use the cmake_policy command to set the policy and suppress this warning. File: /build/reproducible-path/hinge-0.5.0/src/layout/hinging.cpp This warning is for project developers. Use -Wno-dev to suppress it. -- Generating done (0.1s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu dh_auto_build cd obj-i686-linux-gnu && make -j7 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/hinge-0.5.0 -B/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/CMakeFiles /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: 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Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/lib /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib/CMakeFiles/ini.dir/DependInfo.cmake "--color=" make -f bin/lib/CMakeFiles/LA.dir/build.make bin/lib/CMakeFiles/LA.dir/depend make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/lib /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib/CMakeFiles/DB.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' make -f bin/lib/CMakeFiles/PAF.dir/build.make bin/lib/CMakeFiles/PAF.dir/depend cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/lib /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib/CMakeFiles/LA.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' make -f bin/lib/CMakeFiles/kmer_lookup.dir/build.make bin/lib/CMakeFiles/kmer_lookup.dir/depend cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/lib /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib 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bin/lib/CMakeFiles/ini.dir/build.make bin/lib/CMakeFiles/ini.dir/build make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' make -f bin/lib/CMakeFiles/DW_banded.dir/build.make bin/lib/CMakeFiles/DW_banded.dir/depend make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/lib /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib/CMakeFiles/DW_banded.dir/DependInfo.cmake "--color=" make -f bin/lib/CMakeFiles/DB.dir/build.make bin/lib/CMakeFiles/DB.dir/build make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' [ 3%] Generating hinge.1 make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' make -f bin/lib/CMakeFiles/LA.dir/build.make bin/lib/CMakeFiles/LA.dir/build cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin && /usr/bin/pandoc --from markdown --to man -s /build/reproducible-path/hinge-0.5.0/src/hinge.1.md -o hinge.1 make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' make -f bin/lib/CMakeFiles/PAF.dir/build.make bin/lib/CMakeFiles/PAF.dir/build make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' make -f bin/lib/CMakeFiles/kmer_lookup.dir/build.make bin/lib/CMakeFiles/kmer_lookup.dir/build [ 6%] Building C object bin/lib/CMakeFiles/ini.dir/ini.c.o cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib && /usr/bin/cc -I/build/reproducible-path/hinge-0.5.0/src/include -g -O2 -ffile-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -MD -MT bin/lib/CMakeFiles/ini.dir/ini.c.o -MF CMakeFiles/ini.dir/ini.c.o.d -o CMakeFiles/ini.dir/ini.c.o -c /build/reproducible-path/hinge-0.5.0/src/lib/ini.c make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' [ 10%] Building C object bin/lib/CMakeFiles/DB.dir/DB.c.o make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' make -f bin/lib/CMakeFiles/DW_banded.dir/build.make bin/lib/CMakeFiles/DW_banded.dir/build cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib && /usr/bin/cc -I/build/reproducible-path/hinge-0.5.0/src/include -g -O2 -ffile-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -MD -MT bin/lib/CMakeFiles/DB.dir/DB.c.o -MF CMakeFiles/DB.dir/DB.c.o.d -o CMakeFiles/DB.dir/DB.c.o -c /build/reproducible-path/hinge-0.5.0/src/lib/DB.c [ 13%] Building C object bin/lib/CMakeFiles/LA.dir/align.c.o cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib && /usr/bin/cc -I/build/reproducible-path/hinge-0.5.0/src/include -g -O2 -ffile-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -MD -MT bin/lib/CMakeFiles/LA.dir/align.c.o -MF CMakeFiles/LA.dir/align.c.o.d -o CMakeFiles/LA.dir/align.c.o -c /build/reproducible-path/hinge-0.5.0/src/lib/align.c [ 17%] Building C object bin/lib/CMakeFiles/PAF.dir/paf.c.o cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib && /usr/bin/cc -I/build/reproducible-path/hinge-0.5.0/src/include -g -O2 -ffile-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -MD -MT bin/lib/CMakeFiles/PAF.dir/paf.c.o -MF CMakeFiles/PAF.dir/paf.c.o.d -o CMakeFiles/PAF.dir/paf.c.o -c /build/reproducible-path/hinge-0.5.0/src/lib/paf.c [ 20%] Building C object bin/lib/CMakeFiles/kmer_lookup.dir/kmer_lookup.c.o make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib && /usr/bin/cc -I/build/reproducible-path/hinge-0.5.0/src/include -g -O2 -ffile-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -MD -MT bin/lib/CMakeFiles/kmer_lookup.dir/kmer_lookup.c.o -MF CMakeFiles/kmer_lookup.dir/kmer_lookup.c.o.d -o CMakeFiles/kmer_lookup.dir/kmer_lookup.c.o -c /build/reproducible-path/hinge-0.5.0/src/lib/kmer_lookup.c [ 24%] Building C object bin/lib/CMakeFiles/DW_banded.dir/DW_banded.c.o cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib && /usr/bin/cc -I/build/reproducible-path/hinge-0.5.0/src/include -g -O2 -ffile-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -MD -MT bin/lib/CMakeFiles/DW_banded.dir/DW_banded.c.o -MF CMakeFiles/DW_banded.dir/DW_banded.c.o.d -o CMakeFiles/DW_banded.dir/DW_banded.c.o -c /build/reproducible-path/hinge-0.5.0/src/lib/DW_banded.c /build/reproducible-path/hinge-0.5.0/src/lib/DB.c: In function 'Load_QVs': /build/reproducible-path/hinge-0.5.0/src/lib/DB.c:916:9: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 916 | fscanf(istub,DB_NFILE,&nfiles); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/hinge-0.5.0/src/lib/DB.c:920:13: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 920 | { fscanf(istub,DB_FDATA,&last,fname,prolog); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/hinge-0.5.0/src/lib/DB.c:925:13: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 925 | { fscanf(istub,DB_FDATA,&last,fname,prolog); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 27%] Building CXX object bin/lib/CMakeFiles/ini.dir/INIReader.cpp.o cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib && /usr/bin/c++ -I/build/reproducible-path/hinge-0.5.0/src/include -g -O2 -ffile-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -fopenmp -MD -MT bin/lib/CMakeFiles/ini.dir/INIReader.cpp.o -MF CMakeFiles/ini.dir/INIReader.cpp.o.d -o CMakeFiles/ini.dir/INIReader.cpp.o -c /build/reproducible-path/hinge-0.5.0/src/lib/INIReader.cpp [ 31%] Linking C static library libPAF.a cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib && /usr/bin/cmake -P CMakeFiles/PAF.dir/cmake_clean_target.cmake cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/PAF.dir/link.txt --verbose=1 /build/reproducible-path/hinge-0.5.0/src/lib/kmer_lookup.c: In function 'find_best_aln_range': /build/reproducible-path/hinge-0.5.0/src/lib/kmer_lookup.c:347:14: warning: argument 1 range [2147483648, 4294967295] exceeds maximum object size 2147483647 [-Walloc-size-larger-than=] 347 | q_coor = calloc( km_ptr->count, sizeof(seq_coor_t) ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/hinge-0.5.0/src/lib/kmer_lookup.c:56: /usr/include/stdlib.h:556:14: note: in a call to allocation function 'calloc' declared here 556 | extern void *calloc (size_t __nmemb, size_t __size) | ^~~~~~ /build/reproducible-path/hinge-0.5.0/src/lib/kmer_lookup.c:348:14: warning: argument 1 range [2147483648, 4294967295] exceeds maximum object size 2147483647 [-Walloc-size-larger-than=] 348 | t_coor = calloc( km_ptr->count, sizeof(seq_coor_t) ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/stdlib.h:556:14: note: in a call to allocation function 'calloc' declared here 556 | extern void *calloc (size_t __nmemb, size_t __size) | ^~~~~~ /usr/bin/ar qc libPAF.a CMakeFiles/PAF.dir/paf.c.o /usr/bin/ranlib libPAF.a make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' [ 34%] Linking C static library libDW_banded.a cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib && /usr/bin/cmake -P CMakeFiles/DW_banded.dir/cmake_clean_target.cmake [ 34%] Built target PAF [ 37%] Building C object bin/lib/CMakeFiles/DB.dir/QV.c.o cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib && /usr/bin/cc -I/build/reproducible-path/hinge-0.5.0/src/include -g -O2 -ffile-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -MD -MT bin/lib/CMakeFiles/DB.dir/QV.c.o -MF CMakeFiles/DB.dir/QV.c.o.d -o CMakeFiles/DB.dir/QV.c.o -c /build/reproducible-path/hinge-0.5.0/src/lib/QV.c cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/DW_banded.dir/link.txt --verbose=1 /usr/bin/ar qc libDW_banded.a CMakeFiles/DW_banded.dir/DW_banded.c.o /usr/bin/ranlib libDW_banded.a make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' [ 37%] Built target DW_banded /build/reproducible-path/hinge-0.5.0/src/lib/QV.c: In function 'Build_Table': /build/reproducible-path/hinge-0.5.0/src/lib/QV.c:164:23: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] 164 | { uint64 symbol = (uint64) (node->lft); | ^ /build/reproducible-path/hinge-0.5.0/src/lib/QV.c: In function 'Huffman': /build/reproducible-path/hinge-0.5.0/src/lib/QV.c:211:33: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] 211 | node[value].lft = (HTree *) (uint64) i; | ^ [ 41%] Linking C static library libkmer_lookup.a cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib && /usr/bin/cmake -P CMakeFiles/kmer_lookup.dir/cmake_clean_target.cmake cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/kmer_lookup.dir/link.txt --verbose=1 /build/reproducible-path/hinge-0.5.0/src/lib/DB.c: In function 'Open_DB': /build/reproducible-path/hinge-0.5.0/src/lib/DB.c:533:11: warning: 'free' called on pointer 'p' with nonzero offset 32 [-Wfree-nonheap-object] 533 | free(reads); | ^~~~~~~~~~~ In function 'Malloc', inlined from 'Open_DB' at /build/reproducible-path/hinge-0.5.0/src/lib/DB.c:525:29: /build/reproducible-path/hinge-0.5.0/src/lib/DB.c:84:12: note: returned from 'malloc' 84 | if ((p = malloc(size)) == NULL) | ^~~~~~~~~~~~ /usr/bin/ar qc libkmer_lookup.a CMakeFiles/kmer_lookup.dir/kmer_lookup.c.o /usr/bin/ranlib libkmer_lookup.a make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' [ 41%] Built target kmer_lookup make -f bin/lib/CMakeFiles/falcon.dir/build.make bin/lib/CMakeFiles/falcon.dir/depend make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/lib /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib/CMakeFiles/falcon.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' make -f bin/lib/CMakeFiles/falcon.dir/build.make bin/lib/CMakeFiles/falcon.dir/build make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' [ 44%] Building C object bin/lib/CMakeFiles/falcon.dir/falcon.c.o make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib && /usr/bin/cc -I/build/reproducible-path/hinge-0.5.0/src/include -g -O2 -ffile-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -MD -MT bin/lib/CMakeFiles/falcon.dir/falcon.c.o -MF CMakeFiles/falcon.dir/falcon.c.o.d -o CMakeFiles/falcon.dir/falcon.c.o -c /build/reproducible-path/hinge-0.5.0/src/lib/falcon.c [ 44%] Built target man /build/reproducible-path/hinge-0.5.0/src/lib/DB.c: In function 'Read_All_Sequences': /build/reproducible-path/hinge-0.5.0/src/lib/DB.c:1587:15: warning: 'free' called on pointer 'p' with nonzero offset 1 [-Wfree-nonheap-object] 1587 | free(seq); | ^~~~~~~~~ In function 'Malloc', inlined from 'Read_All_Sequences' at /build/reproducible-path/hinge-0.5.0/src/lib/DB.c:1564:18: /build/reproducible-path/hinge-0.5.0/src/lib/DB.c:84:12: note: returned from 'malloc' 84 | if ((p = malloc(size)) == NULL) | ^~~~~~~~~~~~ [ 48%] Linking C static library libfalcon.a cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib && /usr/bin/cmake -P CMakeFiles/falcon.dir/cmake_clean_target.cmake cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/falcon.dir/link.txt --verbose=1 [ 51%] Linking C static library libDB.a cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib && /usr/bin/cmake -P CMakeFiles/DB.dir/cmake_clean_target.cmake /usr/bin/ar qc libfalcon.a CMakeFiles/falcon.dir/falcon.c.o cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/DB.dir/link.txt --verbose=1 /usr/bin/ranlib libfalcon.a make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' /usr/bin/ar qc libDB.a CMakeFiles/DB.dir/DB.c.o CMakeFiles/DB.dir/QV.c.o /usr/bin/ranlib libDB.a [ 51%] Built target falcon make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' [ 51%] Built target DB [ 55%] Linking CXX static library libini.a cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib && /usr/bin/cmake -P CMakeFiles/ini.dir/cmake_clean_target.cmake cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/ini.dir/link.txt --verbose=1 /usr/bin/ar qc libini.a CMakeFiles/ini.dir/ini.c.o CMakeFiles/ini.dir/INIReader.cpp.o /usr/bin/ranlib libini.a make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' [ 55%] Built target ini [ 58%] Linking C static library libLA.a cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib && /usr/bin/cmake -P CMakeFiles/LA.dir/cmake_clean_target.cmake cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/LA.dir/link.txt --verbose=1 /usr/bin/ar qc libLA.a CMakeFiles/LA.dir/align.c.o /usr/bin/ranlib libLA.a make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' [ 58%] Built target LA make -f bin/lib/CMakeFiles/LAInterface.dir/build.make bin/lib/CMakeFiles/LAInterface.dir/depend make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/lib /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib/CMakeFiles/LAInterface.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' make -f bin/lib/CMakeFiles/LAInterface.dir/build.make bin/lib/CMakeFiles/LAInterface.dir/build make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' [ 62%] Building CXX object bin/lib/CMakeFiles/LAInterface.dir/LAInterface.cpp.o cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib && /usr/bin/c++ -I/build/reproducible-path/hinge-0.5.0/src/include -g -O2 -ffile-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -fopenmp -MD -MT bin/lib/CMakeFiles/LAInterface.dir/LAInterface.cpp.o -MF CMakeFiles/LAInterface.dir/LAInterface.cpp.o.d -o CMakeFiles/LAInterface.dir/LAInterface.cpp.o -c /build/reproducible-path/hinge-0.5.0/src/lib/LAInterface.cpp /build/reproducible-path/hinge-0.5.0/src/lib/LAInterface.cpp: In member function 'void LAInterface::getOverlapw(std::vector&, int, int)': /build/reproducible-path/hinge-0.5.0/src/lib/LAInterface.cpp:1666:22: warning: format '%d' expects argument of type 'int', but argument 2 has type 'int64' {aka 'long long int'} [-Wformat=] 1666 | printf("%d percent finished\n", j/(novl/100)); | ~^ ~~~~~~~~~~~~ | | | | int int64 {aka long long int} | %lld [ 65%] Linking CXX static library libLAInterface.a cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib && /usr/bin/cmake -P CMakeFiles/LAInterface.dir/cmake_clean_target.cmake cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/LAInterface.dir/link.txt --verbose=1 /usr/bin/ar qc libLAInterface.a CMakeFiles/LAInterface.dir/LAInterface.cpp.o /usr/bin/ranlib libLAInterface.a make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' [ 65%] Built target LAInterface make -f bin/filter/CMakeFiles/Reads_filter.dir/build.make bin/filter/CMakeFiles/Reads_filter.dir/depend make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/filter /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/filter /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/filter/CMakeFiles/Reads_filter.dir/DependInfo.cmake "--color=" make -f bin/maximal/CMakeFiles/get_maximal_reads.dir/build.make bin/maximal/CMakeFiles/get_maximal_reads.dir/depend make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/maximal /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/maximal /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/maximal/CMakeFiles/get_maximal_reads.dir/DependInfo.cmake "--color=" make -f bin/consensus/CMakeFiles/draft_assembly.dir/build.make bin/consensus/CMakeFiles/draft_assembly.dir/depend make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' make -f bin/consensus/CMakeFiles/consensus.dir/build.make bin/consensus/CMakeFiles/consensus.dir/depend cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/consensus /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/consensus /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/consensus/CMakeFiles/draft_assembly.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' make -f bin/layout/CMakeFiles/hinging.dir/build.make bin/layout/CMakeFiles/hinging.dir/depend cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/consensus /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/consensus /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/consensus/CMakeFiles/consensus.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/hinge-0.5.0 /build/reproducible-path/hinge-0.5.0/src/layout /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/layout /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/layout/CMakeFiles/hinging.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' make -f bin/filter/CMakeFiles/Reads_filter.dir/build.make bin/filter/CMakeFiles/Reads_filter.dir/build make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' make -f bin/maximal/CMakeFiles/get_maximal_reads.dir/build.make bin/maximal/CMakeFiles/get_maximal_reads.dir/build make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' make -f bin/consensus/CMakeFiles/draft_assembly.dir/build.make bin/consensus/CMakeFiles/draft_assembly.dir/build make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' make -f bin/consensus/CMakeFiles/consensus.dir/build.make bin/consensus/CMakeFiles/consensus.dir/build make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' [ 68%] Building CXX object bin/filter/CMakeFiles/Reads_filter.dir/filter.cpp.o make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' make -f bin/layout/CMakeFiles/hinging.dir/build.make bin/layout/CMakeFiles/hinging.dir/build cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/filter && /usr/bin/c++ -DSPDLOG_FMT_EXTERNAL -I/build/reproducible-path/hinge-0.5.0/src/include -g -O2 -ffile-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -fopenmp -MD -MT bin/filter/CMakeFiles/Reads_filter.dir/filter.cpp.o -MF CMakeFiles/Reads_filter.dir/filter.cpp.o.d -o CMakeFiles/Reads_filter.dir/filter.cpp.o -c /build/reproducible-path/hinge-0.5.0/src/filter/filter.cpp make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' [ 72%] Building CXX object bin/maximal/CMakeFiles/get_maximal_reads.dir/maximal.cpp.o cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/maximal && /usr/bin/c++ -DSPDLOG_FMT_EXTERNAL -I/build/reproducible-path/hinge-0.5.0/src/include -g -O2 -ffile-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -fopenmp -MD -MT bin/maximal/CMakeFiles/get_maximal_reads.dir/maximal.cpp.o -MF CMakeFiles/get_maximal_reads.dir/maximal.cpp.o.d -o CMakeFiles/get_maximal_reads.dir/maximal.cpp.o -c /build/reproducible-path/hinge-0.5.0/src/maximal/maximal.cpp [ 75%] Building CXX object bin/consensus/CMakeFiles/draft_assembly.dir/draft.cpp.o cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/consensus && /usr/bin/c++ -DSPDLOG_FMT_EXTERNAL -I/build/reproducible-path/hinge-0.5.0/src/include -g -O2 -ffile-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -fopenmp -MD -MT bin/consensus/CMakeFiles/draft_assembly.dir/draft.cpp.o -MF CMakeFiles/draft_assembly.dir/draft.cpp.o.d -o CMakeFiles/draft_assembly.dir/draft.cpp.o -c /build/reproducible-path/hinge-0.5.0/src/consensus/draft.cpp [ 79%] Building CXX object bin/layout/CMakeFiles/hinging.dir/hinging.cpp.o [ 82%] Building CXX object bin/consensus/CMakeFiles/consensus.dir/consensus.cpp.o cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/layout && /usr/bin/c++ -DBOOST_GRAPH_NO_LIB -DBOOST_REGEX_NO_LIB -DSPDLOG_FMT_EXTERNAL -I/build/reproducible-path/hinge-0.5.0/src/include -g -O2 -ffile-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -fopenmp -MD -MT bin/layout/CMakeFiles/hinging.dir/hinging.cpp.o -MF CMakeFiles/hinging.dir/hinging.cpp.o.d -o CMakeFiles/hinging.dir/hinging.cpp.o -c /build/reproducible-path/hinge-0.5.0/src/layout/hinging.cpp cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/consensus && /usr/bin/c++ -DSPDLOG_FMT_EXTERNAL -I/build/reproducible-path/hinge-0.5.0/src/include -g -O2 -ffile-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -fopenmp -MD -MT bin/consensus/CMakeFiles/consensus.dir/consensus.cpp.o -MF CMakeFiles/consensus.dir/consensus.cpp.o.d -o CMakeFiles/consensus.dir/consensus.cpp.o -c /build/reproducible-path/hinge-0.5.0/src/consensus/consensus.cpp /build/reproducible-path/hinge-0.5.0/src/consensus/consensus.cpp: In function 'int main(int, char**)': /build/reproducible-path/hinge-0.5.0/src/consensus/consensus.cpp:126:15: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] 126 | printf("%lu\n", res.size()); | ~~^ ~~~~~~~~~~ | | | | | std::vector::size_type {aka unsigned int} | long unsigned int | %u /build/reproducible-path/hinge-0.5.0/src/consensus/consensus.cpp:137:22: warning: format '%lu' expects argument of type 'long unsigned int', but argument 3 has type 'std::vector::size_type' {aka 'unsigned int'} [-Wformat=] 137 | printf("%d %lu\n", i, idx[i].size()); | ~~^ ~~~~~~~~~~~~~ | | | | long unsigned int std::vector::size_type {aka unsigned int} | %u [ 86%] Linking CXX executable consensus cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/consensus && /usr/bin/cmake -E cmake_link_script CMakeFiles/consensus.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/consensus.dir/consensus.cpp.o -o consensus -lfmt ../lib/libLAInterface.a ../lib/libfalcon.a ../lib/libini.a ../lib/libLA.a ../lib/libDB.a ../lib/libPAF.a -lz ../lib/libkmer_lookup.a ../lib/libDW_banded.a make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' [ 86%] Built target consensus /build/reproducible-path/hinge-0.5.0/src/consensus/draft.cpp: In function 'int draft_assembly_ctg(std::vector >&, LAInterface&, std::vector&, std::unordered_map >&, std::unordered_map > >&, std::vector&, int, int, int, int, int, bool, bool, std::string&)': /build/reproducible-path/hinge-0.5.0/src/consensus/draft.cpp:514:24: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'std::vector > >::size_type' {aka 'unsigned int'} [-Wformat=] 514 | printf("In total %lu lanes\n", lanes.size()); | ~~^ ~~~~~~~~~~~~ | | | | long unsigned int std::vector > >::size_type {aka unsigned int} | %u [ 89%] Linking CXX executable get_maximal_reads cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/maximal && /usr/bin/cmake -E cmake_link_script CMakeFiles/get_maximal_reads.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/get_maximal_reads.dir/maximal.cpp.o -o get_maximal_reads -lfmt ../lib/libLAInterface.a ../lib/libini.a ../lib/libLA.a ../lib/libDB.a ../lib/libPAF.a -lz make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' [ 89%] Built target get_maximal_reads [ 93%] Linking CXX executable draft_assembly cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/consensus && /usr/bin/cmake -E cmake_link_script CMakeFiles/draft_assembly.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/draft_assembly.dir/draft.cpp.o -o draft_assembly -lfmt ../lib/libLAInterface.a ../lib/libini.a ../lib/libfalcon.a ../lib/libLA.a ../lib/libDB.a ../lib/libPAF.a -lz ../lib/libkmer_lookup.a ../lib/libDW_banded.a [ 96%] Linking CXX executable hinging cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/layout && /usr/bin/cmake -E cmake_link_script CMakeFiles/hinging.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/hinging.dir/hinging.cpp.o -o hinging -lfmt ../lib/libLAInterface.a ../lib/libini.a /usr/lib/i386-linux-gnu/libboost_graph.a ../lib/libLA.a ../lib/libDB.a ../lib/libPAF.a -lz /usr/lib/i386-linux-gnu/libboost_regex.a -licudata -licui18n -licuuc make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' [ 96%] Built target draft_assembly make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' [ 96%] Built target hinging [100%] Linking CXX executable Reads_filter cd /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/filter && /usr/bin/cmake -E cmake_link_script CMakeFiles/Reads_filter.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/hinge-0.5.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/Reads_filter.dir/filter.cpp.o -o Reads_filter -lfmt ../lib/libLAInterface.a ../lib/libini.a ../lib/libLA.a ../lib/libDB.a ../lib/libPAF.a -lz make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' [100%] Built target Reads_filter make[2]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/hinge/ cd obj-i686-linux-gnu && make -j7 install DESTDIR=/build/reproducible-path/hinge-0.5.0/debian/hinge AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/hinge-0.5.0 -B/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/pipeline_nctc.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/add_groundtruth_json.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/draft_assembly.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/condense_graph.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/create_hgraph.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/draw_pileup_region.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/parse.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/parse_read.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/interface_utils.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/pileup.ipynb -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/draw2_pileup_w_repeat.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/get_draft_path.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/draw2.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/clip_ends.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/run_parse_read.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/draw_pileup_region_find_bridges.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/get_draft_path_norevcomp.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/create_bandage_file.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/pruning_and_clipping.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/parallel_draw_large.sh -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/add_groundtruth.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/random_condensation.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/draw2_pileup.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/run_mapping2.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/draw2_pileup_region.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/pipeline_consensus.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/fasta_to_fastq.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/run_mapping3.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/get_draft_annotation.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/condense_graph_and_annotate.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/parse_alignment.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/draft_assembly_not_perfect.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/parallel_draw.sh -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/download_NCTC_pipeline.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/run_parse_alignment.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/split_las.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/merge_hinges.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/get_consensus_gfa.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/correct_head.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/longest_path.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/pipeline_consensus_norevcomp.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/get_NCTC_json.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/condense_graph_with_gt.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/create_hgraph_nogt.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/run_mapping.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/parse_qv.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/condense_graph_annotate_clip_ends.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/compute_n50_from_draft.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/unitig.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/connected.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/condense_graph_create_gfa_compute_n50.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/pruning_and_clipping_nanopore.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/repeat_annotate_reads.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/Visualise_graph.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/get_single_strand.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/share/man/man1/hinge.1 -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/bin/hinge -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/Reads_filter -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/get_maximal_reads -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/draft_assembly -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/consensus -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/hinging make[1]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' dh_installdocs dh_installchangelogs debian/rules override_dh_installexamples make[1]: Entering directory '/build/reproducible-path/hinge-0.5.0' dh_installexamples # only install nominal.ini from the utils/ directory, but preserve # the directory structure (since demo scripts expect it) mkdir -p debian/hinge/usr/share/doc/hinge/examples/utils \ && cp utils/nominal.ini debian/hinge/usr/share/doc/hinge/examples/utils make[1]: Leaving directory '/build/reproducible-path/hinge-0.5.0' 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 dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'hinge' in '../hinge_0.5.0-7_i386.deb'. dpkg-deb: building package 'hinge-dbgsym' in '../hinge-dbgsym_0.5.0-7_i386.deb'. dpkg-genbuildinfo --build=binary -O../hinge_0.5.0-7_i386.buildinfo dpkg-genchanges --build=binary -O../hinge_0.5.0-7_i386.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: user script /srv/workspace/pbuilder/24485/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/24485/tmp/hooks/B01_cleanup finished 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/24485 and its subdirectories I: Current time: Wed Apr 3 04:28:46 +14 2024 I: pbuilder-time-stamp: 1712068126