I: pbuilder: network access will be disabled during build I: Current time: Thu Mar 19 01:16:07 +14 2026 I: pbuilder-time-stamp: 1773832567 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: 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 dpkg-source: warning: cannot verify inline signature for ./hinge_0.5.0-7.dsc: unsupported subcommand 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/37928/tmp/hooks/D01_modify_environment starting debug: Running on ionos6-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 Mar 18 11:16 /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/37928/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/37928/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]="37" [3]="1" [4]="release" [5]="i686-pc-linux-gnu") BASH_VERSION='5.2.37(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=21 ' DIRSTACK=() DISTRIBUTION=unstable EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=i686 HOST_ARCH=i386 IFS=' ' INVOCATION_ID=b7293a68572c4b859bbcc69196a63d41 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=37928 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.vgZjCjS2/pbuilderrc_YYLe --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.vgZjCjS2/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://213.165.73.152:3128 I: uname -a Linux i-capture-the-hostname 6.1.0-31-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.128-1 (2025-02-07) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin I: user script /srv/workspace/pbuilder/37928/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 ... 19794 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} cmake{a} cmake-data{a} comerr-dev{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-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} krb5-multidev{a} libaec-dev{a} libaec0{a} libarchive-zip-perl{a} libarchive13t64{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} libbrotli-dev{a} libbrotli1{a} libcairo2{a} libcom-err2{a} libcurl3t64-gnutls{a} libcurl4-openssl-dev{a} libcurl4t64{a} libdebhelper-perl{a} libdeflate0{a} libdouble-conversion3{a} libelf1t64{a} libevent-2.1-7t64{a} libexpat1{a} libffi8{a} libfile-stripnondeterminism-perl{a} libfmt-dev{a} libfmt10{a} libfontconfig1{a} libfontenc1{a} libfreetype6{a} libfribidi0{a} libgcrypt20{a} libgfortran5{a} libglib2.0-0t64{a} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgnutls30t64{a} libgpg-error0{a} libgraphite2-3{a} libgssapi-krb5-2{a} libgssrpc4t64{a} libharfbuzz0b{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} libhts3t64{a} libhtscodecs2{a} libicu-dev{a} libicu72{a} libidn2-0{a} libidn2-dev{a} libimagequant0{a} libjbig0{a} libjpeg-dev{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} libjs-jquery{a} libjs-jquery-ui{a} libjsoncpp26{a} libk5crypto3{a} libkadm5clnt-mit12{a} libkadm5srv-mit12{a} libkdb5-10t64{a} libkeyutils1{a} libkrb5-3{a} libkrb5-dev{a} libkrb5support0{a} liblapack3{a} liblbfgsb0{a} liblcms2-2{a} libldap-dev{a} libldap2{a} liblerc4{a} liblua5.4-0{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnghttp2-dev{a} libnghttp3-9{a} libngtcp2-16{a} libngtcp2-crypto-gnutls8{a} libnuma1{a} libopenjp2-7{a} libp11-kit-dev{a} libp11-kit0{a} libpipeline1{a} libpixman-1-0{a} libpkgconf3{a} libpng16-16t64{a} libproc2-0{a} libpsl-dev{a} libpsl5t64{a} libpython3-stdlib{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libqhull-r8.0{a} libraqm0{a} libreadline8t64{a} librhash1{a} librtmp-dev{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsharpyuv0{a} libspdlog-dev{a} libspdlog1.15{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{a} libsz2{a} libtasn1-6{a} libtasn1-6-dev{a} libtcl8.6{a} libtiff6{a} libtk8.6{a} libtool{a} libuchardet0{a} libunbound8{a} libunistring5{a} libuv1t64{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} libzstd-dev{a} m4{a} man-db{a} media-types{a} netbase{a} nettle-dev{a} pandoc{a} pandoc-data{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} procps{a} python-matplotlib-data{a} python3{a} python3-attr{a} python3-autocommand{a} python3-biopython{a} python3-brotli{a} python3-cairo{a} python3-chardet{a} python3-colormap{a} python3-contourpy{a} python3-cycler{a} python3-dateutil{a} python3-decorator{a} python3-fonttools{a} python3-freetype{a} python3-fs{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-kiwisolver{a} python3-lxml{a} python3-lz4{a} python3-matplotlib{a} python3-minimal{a} python3-more-itertools{a} python3-mpmath{a} python3-networkx{a} python3-numpy{a} python3-numpy-dev{a} python3-packaging{a} python3-pbcore{a} python3-pil{a} python3-pil.imagetk{a} python3-pkg-resources{a} python3-platformdirs{a} python3-pyparsing{a} python3-pysam{a} python3-pytz{a} python3-reportlab{a} python3-rlpycairo{a} python3-scipy{a} python3-sympy{a} python3-tk{a} python3-typeguard{a} python3-typing-extensions{a} python3-tz{a} python3-ufolib2{a} python3-ujson{a} python3-unicodedata2{a} python3.12-tk{a} python3.13{a} python3.13-minimal{a} python3.13-tk{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 fonts-dejavu-extra isympy-common javascript-common krb5-locales libarchive-cpio-perl libglib2.0-data libgpg-error-l10n libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules libtasn1-doc linux-sysctl-defaults lynx ncbi-blast+ psmisc publicsuffix python-biopython-doc python3-bs4 python3-cssselect python3-gdal python3-h5py python3-html5lib python3-olefile python3-pooch python3-pydot python3-pygraphviz python3-yaml shared-mime-info wget xdg-user-dirs 0 packages upgraded, 256 newly installed, 0 to remove and 0 not upgraded. Need to get 240 MB of archives. After unpacking 1282 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main i386 libpython3.13-minimal i386 3.13.2-1 [859 kB] Get: 2 http://deb.debian.org/debian unstable/main i386 libexpat1 i386 2.6.4-1 [107 kB] Get: 3 http://deb.debian.org/debian unstable/main i386 python3.13-minimal i386 3.13.2-1 [2266 kB] Get: 4 http://deb.debian.org/debian unstable/main i386 python3-minimal i386 3.13.1-2 [27.0 kB] Get: 5 http://deb.debian.org/debian unstable/main i386 media-types all 11.0.0 [27.6 kB] Get: 6 http://deb.debian.org/debian unstable/main i386 netbase all 6.4 [12.8 kB] Get: 7 http://deb.debian.org/debian unstable/main i386 tzdata all 2025a-2 [259 kB] Get: 8 http://deb.debian.org/debian unstable/main i386 libffi8 i386 3.4.7-1 [21.4 kB] Get: 9 http://deb.debian.org/debian unstable/main i386 readline-common all 8.2-6 [69.4 kB] Get: 10 http://deb.debian.org/debian unstable/main i386 libreadline8t64 i386 8.2-6 [173 kB] Get: 11 http://deb.debian.org/debian unstable/main i386 libpython3.13-stdlib i386 3.13.2-1 [1985 kB] Get: 12 http://deb.debian.org/debian unstable/main i386 python3.13 i386 3.13.2-1 [745 kB] Get: 13 http://deb.debian.org/debian unstable/main i386 libpython3-stdlib i386 3.13.1-2 [9952 B] Get: 14 http://deb.debian.org/debian unstable/main i386 python3 i386 3.13.1-2 [28.0 kB] Get: 15 http://deb.debian.org/debian unstable/main i386 sgml-base all 1.31 [15.4 kB] Get: 16 http://deb.debian.org/debian unstable/main i386 libproc2-0 i386 2:4.0.4-7 [66.0 kB] Get: 17 http://deb.debian.org/debian unstable/main i386 procps i386 2:4.0.4-7 [876 kB] Get: 18 http://deb.debian.org/debian unstable/main i386 sensible-utils all 0.0.24 [24.8 kB] Get: 19 http://deb.debian.org/debian unstable/main i386 libmagic-mgc i386 1:5.45-3+b1 [314 kB] Get: 20 http://deb.debian.org/debian unstable/main i386 libmagic1t64 i386 1:5.45-3+b1 [115 kB] Get: 21 http://deb.debian.org/debian unstable/main i386 file i386 1:5.45-3+b1 [43.2 kB] Get: 22 http://deb.debian.org/debian unstable/main i386 gettext-base i386 0.23.1-1 [245 kB] Get: 23 http://deb.debian.org/debian unstable/main i386 libuchardet0 i386 0.0.8-1+b2 [69.2 kB] Get: 24 http://deb.debian.org/debian unstable/main i386 groff-base i386 1.23.0-7 [1199 kB] Get: 25 http://deb.debian.org/debian unstable/main i386 bsdextrautils i386 2.40.4-3 [96.2 kB] Get: 26 http://deb.debian.org/debian unstable/main i386 libpipeline1 i386 1.5.8-1 [41.2 kB] Get: 27 http://deb.debian.org/debian unstable/main i386 man-db i386 2.13.0-1 [1428 kB] Get: 28 http://deb.debian.org/debian unstable/main i386 m4 i386 1.4.19-5 [301 kB] Get: 29 http://deb.debian.org/debian unstable/main i386 autoconf all 2.72-3 [493 kB] Get: 30 http://deb.debian.org/debian unstable/main i386 autotools-dev all 20220109.1 [51.6 kB] Get: 31 http://deb.debian.org/debian unstable/main i386 automake all 1:1.17-3 [862 kB] Get: 32 http://deb.debian.org/debian unstable/main i386 autopoint all 0.23.1-1 [770 kB] Get: 33 http://deb.debian.org/debian unstable/main i386 libtcl8.6 i386 8.6.16+dfsg-1 [1103 kB] Get: 34 http://deb.debian.org/debian unstable/main i386 libbrotli1 i386 1.1.0-2+b6 [308 kB] Get: 35 http://deb.debian.org/debian unstable/main i386 libpng16-16t64 i386 1.6.46-4 [292 kB] Get: 36 http://deb.debian.org/debian unstable/main i386 libfreetype6 i386 2.13.3+dfsg-1 [464 kB] Get: 37 http://deb.debian.org/debian unstable/main i386 fonts-dejavu-mono all 2.37-8 [489 kB] Get: 38 http://deb.debian.org/debian unstable/main i386 fonts-dejavu-core all 2.37-8 [840 kB] Get: 39 http://deb.debian.org/debian unstable/main i386 libfontenc1 i386 1:1.1.8-1+b2 [23.4 kB] Get: 40 http://deb.debian.org/debian unstable/main i386 x11-common all 1:7.7+24 [217 kB] Get: 41 http://deb.debian.org/debian unstable/main i386 xfonts-encodings all 1:1.0.4-2.2 [577 kB] Get: 42 http://deb.debian.org/debian unstable/main i386 xfonts-utils i386 1:7.7+7 [95.1 kB] Get: 43 http://deb.debian.org/debian unstable/main i386 fonts-urw-base35 all 20200910-8 [10.8 MB] Get: 44 http://deb.debian.org/debian unstable/main i386 fontconfig-config i386 2.15.0-2 [317 kB] Get: 45 http://deb.debian.org/debian unstable/main i386 libfontconfig1 i386 2.15.0-2 [402 kB] Get: 46 http://deb.debian.org/debian unstable/main i386 libxau6 i386 1:1.0.11-1 [20.7 kB] Get: 47 http://deb.debian.org/debian unstable/main i386 libxdmcp6 i386 1:1.1.5-1 [28.2 kB] Get: 48 http://deb.debian.org/debian unstable/main i386 libxcb1 i386 1.17.0-2+b1 [148 kB] Get: 49 http://deb.debian.org/debian unstable/main i386 libx11-data all 2:1.8.10-2 [337 kB] Get: 50 http://deb.debian.org/debian unstable/main i386 libx11-6 i386 2:1.8.10-2 [834 kB] Get: 51 http://deb.debian.org/debian unstable/main i386 libxrender1 i386 1:0.9.10-1.1+b4 [28.8 kB] Get: 52 http://deb.debian.org/debian unstable/main i386 libxft2 i386 2.3.6-1+b4 [55.3 kB] Get: 53 http://deb.debian.org/debian unstable/main i386 libxext6 i386 2:1.3.4-1+b3 [52.5 kB] Get: 54 http://deb.debian.org/debian unstable/main i386 libxss1 i386 1:1.2.3-1+b3 [17.3 kB] Get: 55 http://deb.debian.org/debian unstable/main i386 libtk8.6 i386 8.6.16-1 [834 kB] Get: 56 http://deb.debian.org/debian unstable/main i386 tk8.6-blt2.5 i386 2.5.3+dfsg-7 [616 kB] Get: 57 http://deb.debian.org/debian unstable/main i386 blt i386 2.5.3+dfsg-7 [6024 B] Get: 58 http://deb.debian.org/debian unstable/main i386 cmake-data all 3.31.5-2 [2267 kB] Get: 59 http://deb.debian.org/debian unstable/main i386 libicu72 i386 72.1-6 [9582 kB] Get: 60 http://deb.debian.org/debian unstable/main i386 libxml2 i386 2.12.7+dfsg+really2.9.14-0.2+b1 [734 kB] Get: 61 http://deb.debian.org/debian unstable/main i386 libarchive13t64 i386 3.7.4-1.1 [390 kB] Get: 62 http://deb.debian.org/debian unstable/main i386 libkrb5support0 i386 1.21.3-4 [35.0 kB] Get: 63 http://deb.debian.org/debian unstable/main i386 libcom-err2 i386 1.47.2-1 [24.3 kB] Get: 64 http://deb.debian.org/debian unstable/main i386 libk5crypto3 i386 1.21.3-4 [83.7 kB] Get: 65 http://deb.debian.org/debian unstable/main i386 libkeyutils1 i386 1.6.3-4 [9600 B] Get: 66 http://deb.debian.org/debian unstable/main i386 libkrb5-3 i386 1.21.3-4 [354 kB] Get: 67 http://deb.debian.org/debian unstable/main i386 libgssapi-krb5-2 i386 1.21.3-4 [149 kB] Get: 68 http://deb.debian.org/debian unstable/main i386 libunistring5 i386 1.3-1 [458 kB] Get: 69 http://deb.debian.org/debian unstable/main i386 libidn2-0 i386 2.3.7-2+b1 [130 kB] Get: 70 http://deb.debian.org/debian unstable/main i386 libsasl2-modules-db i386 2.1.28+dfsg1-8+b1 [20.9 kB] Get: 71 http://deb.debian.org/debian unstable/main i386 libsasl2-2 i386 2.1.28+dfsg1-8+b1 [61.3 kB] Get: 72 http://deb.debian.org/debian unstable/main i386 libldap2 i386 2.6.9+dfsg-1 [205 kB] Get: 73 http://deb.debian.org/debian unstable/main i386 libnghttp2-14 i386 1.64.0-1 [82.4 kB] Get: 74 http://deb.debian.org/debian unstable/main i386 libpsl5t64 i386 0.21.2-1.1+b1 [57.7 kB] Get: 75 http://deb.debian.org/debian unstable/main i386 libp11-kit0 i386 0.25.5-3 [423 kB] Get: 76 http://deb.debian.org/debian unstable/main i386 libtasn1-6 i386 4.20.0-1 [51.6 kB] Get: 77 http://deb.debian.org/debian unstable/main i386 libgnutls30t64 i386 3.8.9-2 [1462 kB] Get: 78 http://deb.debian.org/debian unstable/main i386 librtmp1 i386 2.4+20151223.gitfa8646d.1-2+b5 [62.4 kB] Get: 79 http://deb.debian.org/debian unstable/main i386 libssh2-1t64 i386 1.11.1-1 [256 kB] Get: 80 http://deb.debian.org/debian unstable/main i386 libcurl4t64 i386 8.12.0+git20250209.89ed161+ds-1 [398 kB] Get: 81 http://deb.debian.org/debian unstable/main i386 libjsoncpp26 i386 1.9.6-3 [90.0 kB] Get: 82 http://deb.debian.org/debian unstable/main i386 librhash1 i386 1.4.5-1 [144 kB] Get: 83 http://deb.debian.org/debian unstable/main i386 libuv1t64 i386 1.50.0-2 [163 kB] Get: 84 http://deb.debian.org/debian unstable/main i386 cmake i386 3.31.5-2 [13.1 MB] Get: 85 http://deb.debian.org/debian unstable/main i386 comerr-dev i386 2.1-1.47.2-1 [56.2 kB] Get: 86 http://deb.debian.org/debian unstable/main i386 daligner i386 1.0+git20240119.335105d-3 [233 kB] Get: 87 http://deb.debian.org/debian unstable/main i386 dascrubber i386 1.1-4 [161 kB] Get: 88 http://deb.debian.org/debian unstable/main i386 dazzdb i386 1.0+git20240115.be65e59-1 [219 kB] Get: 89 http://deb.debian.org/debian unstable/main i386 libdebhelper-perl all 13.24.1 [90.9 kB] Get: 90 http://deb.debian.org/debian unstable/main i386 libtool all 2.5.4-3 [539 kB] Get: 91 http://deb.debian.org/debian unstable/main i386 dh-autoreconf all 20 [17.1 kB] Get: 92 http://deb.debian.org/debian unstable/main i386 libarchive-zip-perl all 1.68-1 [104 kB] Get: 93 http://deb.debian.org/debian unstable/main i386 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 94 http://deb.debian.org/debian unstable/main i386 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 95 http://deb.debian.org/debian unstable/main i386 libelf1t64 i386 0.192-4 [195 kB] Get: 96 http://deb.debian.org/debian unstable/main i386 dwz i386 0.15-1+b1 [116 kB] Get: 97 http://deb.debian.org/debian unstable/main i386 gettext i386 0.23.1-1 [1714 kB] Get: 98 http://deb.debian.org/debian unstable/main i386 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 99 http://deb.debian.org/debian unstable/main i386 po-debconf all 1.0.21+nmu1 [248 kB] Get: 100 http://deb.debian.org/debian unstable/main i386 debhelper all 13.24.1 [920 kB] Get: 101 http://deb.debian.org/debian unstable/main i386 fonts-lyx all 2.4.3-1 [190 kB] Get: 102 http://deb.debian.org/debian unstable/main i386 hdf5-helpers i386 1.14.5+repack-3 [26.6 kB] Get: 103 http://deb.debian.org/debian unstable/main i386 icu-devtools i386 72.1-6 [218 kB] Get: 104 http://deb.debian.org/debian unstable/main i386 libgssrpc4t64 i386 1.21.3-4 [63.4 kB] Get: 105 http://deb.debian.org/debian unstable/main i386 libkadm5clnt-mit12 i386 1.21.3-4 [44.1 kB] Get: 106 http://deb.debian.org/debian unstable/main i386 libkdb5-10t64 i386 1.21.3-4 [45.3 kB] Get: 107 http://deb.debian.org/debian unstable/main i386 libkadm5srv-mit12 i386 1.21.3-4 [57.7 kB] Get: 108 http://deb.debian.org/debian unstable/main i386 krb5-multidev i386 1.21.3-4 [126 kB] Get: 109 http://deb.debian.org/debian unstable/main i386 libaec0 i386 1.1.3-1+b1 [25.0 kB] Get: 110 http://deb.debian.org/debian unstable/main i386 libsz2 i386 1.1.3-1+b1 [8128 B] Get: 111 http://deb.debian.org/debian unstable/main i386 libaec-dev i386 1.1.3-1+b1 [23.0 kB] Get: 112 http://deb.debian.org/debian unstable/main i386 libblas3 i386 3.12.1-2 [150 kB] Get: 113 http://deb.debian.org/debian unstable/main i386 libboost1.83-dev i386 1.83.0-4 [10.6 MB] Get: 114 http://deb.debian.org/debian unstable/main i386 libboost-dev i386 1.83.0.2+b2 [3840 B] Get: 115 http://deb.debian.org/debian unstable/main i386 libboost-graph1.83.0 i386 1.83.0-4 [365 kB] Get: 116 http://deb.debian.org/debian unstable/main i386 libboost-regex1.83.0 i386 1.83.0-4 [329 kB] Get: 117 http://deb.debian.org/debian unstable/main i386 libicu-dev i386 72.1-6 [10.6 MB] Get: 118 http://deb.debian.org/debian unstable/main i386 libboost-regex1.83-dev i386 1.83.0-4 [347 kB] Get: 119 http://deb.debian.org/debian unstable/main i386 libboost-serialization1.83.0 i386 1.83.0-4 [343 kB] Get: 120 http://deb.debian.org/debian unstable/main i386 libboost-serialization1.83-dev i386 1.83.0-4 [386 kB] Get: 121 http://deb.debian.org/debian unstable/main i386 libboost-test1.83.0 i386 1.83.0-4 [485 kB] Get: 122 http://deb.debian.org/debian unstable/main i386 libboost-test1.83-dev i386 1.83.0-4 [560 kB] Get: 123 http://deb.debian.org/debian unstable/main i386 libboost-graph1.83-dev i386 1.83.0-4 [391 kB] Get: 124 http://deb.debian.org/debian unstable/main i386 libboost-graph-dev i386 1.83.0.2+b2 [3708 B] Get: 125 http://deb.debian.org/debian unstable/main i386 libbrotli-dev i386 1.1.0-2+b6 [313 kB] Get: 126 http://deb.debian.org/debian unstable/main i386 libpixman-1-0 i386 0.44.0-3 [246 kB] Get: 127 http://deb.debian.org/debian unstable/main i386 libxcb-render0 i386 1.17.0-2+b1 [116 kB] Get: 128 http://deb.debian.org/debian unstable/main i386 libxcb-shm0 i386 1.17.0-2+b1 [105 kB] Get: 129 http://deb.debian.org/debian unstable/main i386 libcairo2 i386 1.18.2-2 [591 kB] Get: 130 http://deb.debian.org/debian unstable/main i386 libnghttp3-9 i386 1.6.0-2 [75.9 kB] Get: 131 http://deb.debian.org/debian unstable/main i386 libngtcp2-16 i386 1.9.1-1 [151 kB] Get: 132 http://deb.debian.org/debian unstable/main i386 libngtcp2-crypto-gnutls8 i386 1.9.1-1 [19.1 kB] Get: 133 http://deb.debian.org/debian unstable/main i386 libcurl3t64-gnutls i386 8.12.0+git20250209.89ed161+ds-1 [411 kB] Get: 134 http://deb.debian.org/debian unstable/main i386 libidn2-dev i386 2.3.7-2+b1 [126 kB] Get: 135 http://deb.debian.org/debian unstable/main i386 libkrb5-dev i386 1.21.3-4 [15.9 kB] Get: 136 http://deb.debian.org/debian unstable/main i386 libldap-dev i386 2.6.9+dfsg-1 [328 kB] Get: 137 http://deb.debian.org/debian unstable/main i386 libpkgconf3 i386 1.8.1-4 [38.4 kB] Get: 138 http://deb.debian.org/debian unstable/main i386 pkgconf-bin i386 1.8.1-4 [30.6 kB] Get: 139 http://deb.debian.org/debian unstable/main i386 pkgconf i386 1.8.1-4 [26.2 kB] Get: 140 http://deb.debian.org/debian unstable/main i386 libnghttp2-dev i386 1.64.0-1 [123 kB] Get: 141 http://deb.debian.org/debian unstable/main i386 libpsl-dev i386 0.21.2-1.1+b1 [78.4 kB] Get: 142 http://deb.debian.org/debian unstable/main i386 libgmpxx4ldbl i386 2:6.3.0+dfsg-3 [329 kB] Get: 143 http://deb.debian.org/debian unstable/main i386 libgmp-dev i386 2:6.3.0+dfsg-3 [661 kB] Get: 144 http://deb.debian.org/debian unstable/main i386 libevent-2.1-7t64 i386 2.1.12-stable-10+b1 [195 kB] Get: 145 http://deb.debian.org/debian unstable/main i386 libunbound8 i386 1.22.0-1+b1 [633 kB] Get: 146 http://deb.debian.org/debian unstable/main i386 libgnutls-dane0t64 i386 3.8.9-2 [453 kB] Get: 147 http://deb.debian.org/debian unstable/main i386 libgnutls-openssl27t64 i386 3.8.9-2 [453 kB] Get: 148 http://deb.debian.org/debian unstable/main i386 libp11-kit-dev i386 0.25.5-3 [208 kB] Get: 149 http://deb.debian.org/debian unstable/main i386 libtasn1-6-dev i386 4.20.0-1 [103 kB] Get: 150 http://deb.debian.org/debian unstable/main i386 nettle-dev i386 3.10-1+b1 [1334 kB] Get: 151 http://deb.debian.org/debian unstable/main i386 libgnutls28-dev i386 3.8.9-2 [1464 kB] Get: 152 http://deb.debian.org/debian unstable/main i386 zlib1g-dev i386 1:1.3.dfsg+really1.3.1-1+b1 [916 kB] Get: 153 http://deb.debian.org/debian unstable/main i386 librtmp-dev i386 2.4+20151223.gitfa8646d.1-2+b5 [72.3 kB] Get: 154 http://deb.debian.org/debian unstable/main i386 libssl-dev i386 3.4.1-1 [2837 kB] Get: 155 http://deb.debian.org/debian unstable/main i386 libssh2-1-dev i386 1.11.1-1 [407 kB] Get: 156 http://deb.debian.org/debian unstable/main i386 libzstd-dev i386 1.5.6+dfsg-2 [354 kB] Get: 157 http://deb.debian.org/debian unstable/main i386 libcurl4-openssl-dev i386 8.12.0+git20250209.89ed161+ds-1 [527 kB] Get: 158 http://deb.debian.org/debian unstable/main i386 libdeflate0 i386 1.23-1+b1 [48.4 kB] Get: 159 http://deb.debian.org/debian unstable/main i386 libdouble-conversion3 i386 3.3.0-1+b3 [45.8 kB] Get: 160 http://deb.debian.org/debian unstable/main i386 libfmt10 i386 10.1.1+ds1-4 [134 kB] Get: 161 http://deb.debian.org/debian unstable/main i386 libfmt-dev i386 10.1.1+ds1-4 [177 kB] Get: 162 http://deb.debian.org/debian unstable/main i386 libfribidi0 i386 1.0.16-1 [27.0 kB] Get: 163 http://deb.debian.org/debian unstable/main i386 libgpg-error0 i386 1.51-3 [87.3 kB] Get: 164 http://deb.debian.org/debian unstable/main i386 libgcrypt20 i386 1.11.0-7 [799 kB] Get: 165 http://deb.debian.org/debian unstable/main i386 libgfortran5 i386 14.2.0-16 [735 kB] Get: 166 http://deb.debian.org/debian unstable/main i386 libglib2.0-0t64 i386 2.83.3-2 [1581 kB] Get: 167 http://deb.debian.org/debian unstable/main i386 libgraphite2-3 i386 1.3.14-2+b1 [77.8 kB] Get: 168 http://deb.debian.org/debian unstable/main i386 libharfbuzz0b i386 10.2.0-1 [504 kB] Get: 169 http://deb.debian.org/debian unstable/main i386 libhdf5-310 i386 1.14.5+repack-3 [1327 kB] Get: 170 http://deb.debian.org/debian unstable/main i386 libhdf5-cpp-310 i386 1.14.5+repack-3 [140 kB] Get: 171 http://deb.debian.org/debian unstable/main i386 libhdf5-fortran-310 i386 1.14.5+repack-3 [119 kB] Get: 172 http://deb.debian.org/debian unstable/main i386 libhdf5-hl-310 i386 1.14.5+repack-3 [81.6 kB] Get: 173 http://deb.debian.org/debian unstable/main i386 libhdf5-hl-fortran-310 i386 1.14.5+repack-3 [45.7 kB] Get: 174 http://deb.debian.org/debian unstable/main i386 libhdf5-hl-cpp-310 i386 1.14.5+repack-3 [24.9 kB] Get: 175 http://deb.debian.org/debian unstable/main i386 libjpeg62-turbo i386 1:2.1.5-3+b1 [171 kB] Get: 176 http://deb.debian.org/debian unstable/main i386 libjpeg62-turbo-dev i386 1:2.1.5-3+b1 [305 kB] Get: 177 http://deb.debian.org/debian unstable/main i386 libjpeg-dev i386 1:2.1.5-3+b1 [72.2 kB] Get: 178 http://deb.debian.org/debian unstable/main i386 libhdf5-dev i386 1.14.5+repack-3 [3319 kB] Get: 179 http://deb.debian.org/debian unstable/main i386 libhtscodecs2 i386 1.6.1-1 [70.8 kB] Get: 180 http://deb.debian.org/debian unstable/main i386 libhts3t64 i386 1.21+ds-1 [506 kB] Get: 181 http://deb.debian.org/debian unstable/main i386 libimagequant0 i386 2.18.0-1+b2 [36.0 kB] Get: 182 http://deb.debian.org/debian unstable/main i386 libjbig0 i386 2.1-6.1+b2 [32.2 kB] Get: 183 http://deb.debian.org/debian unstable/main i386 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 184 http://deb.debian.org/debian unstable/main i386 libjs-jquery-ui all 1.13.2+dfsg-1 [250 kB] Get: 185 http://deb.debian.org/debian unstable/main i386 liblapack3 i386 3.12.1-2 [2198 kB] Get: 186 http://deb.debian.org/debian unstable/main i386 liblbfgsb0 i386 3.0+dfsg.4-1+b2 [29.5 kB] Get: 187 http://deb.debian.org/debian unstable/main i386 liblcms2-2 i386 2.16-2 [171 kB] Get: 188 http://deb.debian.org/debian unstable/main i386 liblerc4 i386 4.0.0+ds-5 [191 kB] Get: 189 http://deb.debian.org/debian unstable/main i386 liblua5.4-0 i386 5.4.7-1+b2 [170 kB] Get: 190 http://deb.debian.org/debian unstable/main i386 libnuma1 i386 2.0.18-1+b1 [23.9 kB] Get: 191 http://deb.debian.org/debian unstable/main i386 libopenjp2-7 i386 2.5.3-1 [215 kB] Get: 192 http://deb.debian.org/debian unstable/main i386 libqhull-r8.0 i386 2020.2-6+b2 [259 kB] Get: 193 http://deb.debian.org/debian unstable/main i386 libraqm0 i386 0.10.2-1 [14.6 kB] Get: 194 http://deb.debian.org/debian unstable/main i386 libsharpyuv0 i386 1.5.0-0.1 [115 kB] Get: 195 http://deb.debian.org/debian unstable/main i386 libspdlog1.15 i386 1:1.15.1+ds-1 [119 kB] Get: 196 http://deb.debian.org/debian unstable/main i386 libspdlog-dev i386 1:1.15.1+ds-1 [90.8 kB] Get: 197 http://deb.debian.org/debian unstable/main i386 libwebp7 i386 1.5.0-0.1 [329 kB] Get: 198 http://deb.debian.org/debian unstable/main i386 libtiff6 i386 4.5.1+git230720-5 [339 kB] Get: 199 http://deb.debian.org/debian unstable/main i386 libwebpdemux2 i386 1.5.0-0.1 [114 kB] Get: 200 http://deb.debian.org/debian unstable/main i386 libwebpmux3 i386 1.5.0-0.1 [127 kB] Get: 201 http://deb.debian.org/debian unstable/main i386 libxslt1.1 i386 1.1.35-1.1+b1 [243 kB] Get: 202 http://deb.debian.org/debian unstable/main i386 libyaml-0-2 i386 0.2.5-2 [55.8 kB] Get: 203 http://deb.debian.org/debian unstable/main i386 pandoc-data all 3.1.11.1-3 [459 kB] Get: 204 http://deb.debian.org/debian unstable/main i386 pandoc i386 3.1.11.1+ds-2 [37.3 MB] Get: 205 http://deb.debian.org/debian unstable/main i386 python-matplotlib-data all 3.8.3-3 [2731 kB] Get: 206 http://deb.debian.org/debian unstable/main i386 python3-attr all 25.1.0-1 [68.7 kB] Get: 207 http://deb.debian.org/debian unstable/main i386 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 208 http://deb.debian.org/debian unstable/main i386 python3-numpy-dev i386 1:2.2.2+ds-2 [145 kB] Get: 209 http://deb.debian.org/debian unstable/main i386 python3-numpy i386 1:2.2.2+ds-2 [7536 kB] Get: 210 http://deb.debian.org/debian unstable/main i386 python3-chardet all 5.2.0+dfsg-2 [108 kB] Get: 211 http://deb.debian.org/debian unstable/main i386 python3.12-tk i386 3.12.9-1 [114 kB] Get: 212 http://deb.debian.org/debian unstable/main i386 python3.13-tk i386 3.13.2-1 [104 kB] Get: 213 http://deb.debian.org/debian unstable/main i386 python3-tk i386 3.13.1-1 [9464 B] Get: 214 http://deb.debian.org/debian unstable/main i386 python3-pil.imagetk i386 11.1.0-5 [81.8 kB] Get: 215 http://deb.debian.org/debian unstable/main i386 python3-pil i386 11.1.0-5 [535 kB] Get: 216 http://deb.debian.org/debian unstable/main i386 python3-cairo i386 1.26.1-2+b1 [131 kB] Get: 217 http://deb.debian.org/debian unstable/main i386 python3-freetype all 2.5.1-1 [89.3 kB] Get: 218 http://deb.debian.org/debian unstable/main i386 python3-rlpycairo all 0.3.0-3 [9904 B] Get: 219 http://deb.debian.org/debian unstable/main i386 python3-reportlab all 4.3.0-1 [1157 kB] Get: 220 http://deb.debian.org/debian unstable/main i386 xml-core all 0.19 [20.1 kB] Get: 221 http://deb.debian.org/debian unstable/main i386 w3c-sgml-lib all 1.3-3 [273 kB] Get: 222 http://deb.debian.org/debian unstable/main i386 python3-biopython i386 1.85+dfsg-2 [1673 kB] Get: 223 http://deb.debian.org/debian unstable/main i386 python3-brotli i386 1.1.0-2+b6 [319 kB] Get: 224 http://deb.debian.org/debian unstable/main i386 python3-dateutil all 2.9.0-3 [79.3 kB] Get: 225 http://deb.debian.org/debian unstable/main i386 python3-pyparsing all 3.1.2-1 [146 kB] Get: 226 http://deb.debian.org/debian unstable/main i386 python3-contourpy i386 1.3.1-1 [271 kB] Get: 227 http://deb.debian.org/debian unstable/main i386 python3-cycler all 0.12.1-1 [9496 B] Get: 228 http://deb.debian.org/debian unstable/main i386 python3-pytz all 2025.1-3 [150 kB] Get: 229 http://deb.debian.org/debian unstable/main i386 python3-tz all 2025.1-3 [4004 B] Get: 230 http://deb.debian.org/debian unstable/main i386 python3-platformdirs all 4.3.6-1 [16.6 kB] Get: 231 http://deb.debian.org/debian unstable/main i386 python3-fs all 2.4.16-6 [95.1 kB] Get: 232 http://deb.debian.org/debian unstable/main i386 python3-lxml i386 5.3.1-1 [1587 kB] Get: 233 http://deb.debian.org/debian unstable/main i386 python3-lz4 i386 4.4.0+dfsg-1 [25.5 kB] Get: 234 http://deb.debian.org/debian unstable/main i386 python3-decorator all 5.1.1-5 [15.1 kB] Get: 235 http://deb.debian.org/debian unstable/main i386 python3-scipy i386 1.14.1-4 [20.1 MB] Get: 236 http://deb.debian.org/debian unstable/main i386 python3-mpmath all 1.3.0-1 [419 kB] Get: 237 http://deb.debian.org/debian unstable/main i386 python3-sympy all 1.13.3-2 [4148 kB] Get: 238 http://deb.debian.org/debian unstable/main i386 python3-ufolib2 all 0.17.0+dfsg1-1 [33.0 kB] Get: 239 http://deb.debian.org/debian unstable/main i386 python3-unicodedata2 i386 15.1.0+ds-1+b3 [297 kB] Get: 240 http://deb.debian.org/debian unstable/main i386 unicode-data all 15.1.0-1 [8547 kB] Get: 241 http://deb.debian.org/debian unstable/main i386 python3-fonttools i386 4.55.3-2 [1591 kB] Get: 242 http://deb.debian.org/debian unstable/main i386 python3-kiwisolver i386 1.4.7-3 [83.3 kB] Get: 243 http://deb.debian.org/debian unstable/main i386 python3-packaging all 24.2-1 [55.3 kB] Get: 244 http://deb.debian.org/debian unstable/main i386 python3-matplotlib i386 3.8.3-3+b3 [5658 kB] Get: 245 http://deb.debian.org/debian unstable/main i386 python3-colormap all 1.3.0-1 [17.6 kB] Get: 246 http://deb.debian.org/debian unstable/main i386 python3-more-itertools all 10.6.0-1 [65.3 kB] Get: 247 http://deb.debian.org/debian unstable/main i386 python3-typing-extensions all 4.12.2-2 [73.0 kB] Get: 248 http://deb.debian.org/debian unstable/main i386 python3-typeguard all 4.4.1-1 [37.0 kB] Get: 249 http://deb.debian.org/debian unstable/main i386 python3-inflect all 7.3.1-2 [32.4 kB] Get: 250 http://deb.debian.org/debian unstable/main i386 python3-jaraco.context all 6.0.0-1 [7984 B] Get: 251 http://deb.debian.org/debian unstable/main i386 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 252 http://deb.debian.org/debian unstable/main i386 python3-pkg-resources all 75.6.0-1 [222 kB] Get: 253 http://deb.debian.org/debian unstable/main i386 python3-networkx all 3.2.1-5 [13.0 MB] Get: 254 http://deb.debian.org/debian unstable/main i386 python3-pysam i386 0.23.0+ds-1 [4332 kB] Get: 255 http://deb.debian.org/debian unstable/main i386 python3-pbcore all 2.1.2+dfsg-10 [2831 kB] Get: 256 http://deb.debian.org/debian unstable/main i386 python3-ujson i386 5.10.0-1+b3 [26.9 kB] Fetched 240 MB in 3s (95.8 MB/s) Preconfiguring packages ... Selecting previously unselected package libpython3.13-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 ... 19794 files and directories currently installed.) Preparing to unpack .../libpython3.13-minimal_3.13.2-1_i386.deb ... Unpacking libpython3.13-minimal:i386 (3.13.2-1) ... Selecting previously unselected package libexpat1:i386. Preparing to unpack .../libexpat1_2.6.4-1_i386.deb ... Unpacking libexpat1:i386 (2.6.4-1) ... 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Adding 'diversion of /lib/i386-linux-gnu/libhistory.so.8 to /lib/i386-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/i386-linux-gnu/libhistory.so.8.2 to /lib/i386-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/i386-linux-gnu/libreadline.so.8 to /lib/i386-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/i386-linux-gnu/libreadline.so.8.2 to /lib/i386-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:i386 (8.2-6) ... Selecting previously unselected package libpython3.13-stdlib:i386. Preparing to unpack .../7-libpython3.13-stdlib_3.13.2-1_i386.deb ... Unpacking libpython3.13-stdlib:i386 (3.13.2-1) ... Selecting previously unselected package python3.13. Preparing to unpack .../8-python3.13_3.13.2-1_i386.deb ... Unpacking python3.13 (3.13.2-1) ... Selecting previously unselected package libpython3-stdlib:i386. 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Current default time zone: 'Etc/UTC' Local time is now: Wed Mar 18 11:16:47 UTC 2026. Universal Time is now: Wed Mar 18 11:16:47 UTC 2026. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up unicode-data (15.1.0-1) ... Setting up dazzdb (1.0+git20240115.be65e59-1) ... Setting up libboost-serialization1.83.0:i386 (1.83.0-4) ... Setting up libfontenc1:i386 (1:1.1.8-1+b2) ... Setting up autotools-dev (20220109.1) ... Setting up libblas3:i386 (3.12.1-2) ... update-alternatives: using /usr/lib/i386-linux-gnu/blas/libblas.so.3 to provide /usr/lib/i386-linux-gnu/libblas.so.3 (libblas.so.3-i386-linux-gnu) in auto mode Setting up libunbound8:i386 (1.22.0-1+b1) ... Setting up libpkgconf3:i386 (1.8.1-4) ... Setting up libgmpxx4ldbl:i386 (2:6.3.0+dfsg-3) ... Setting up libjpeg62-turbo:i386 (1:2.1.5-3+b1) ... Setting up libx11-data (2:1.8.10-2) ... Setting up libjpeg62-turbo-dev:i386 (1:2.1.5-3+b1) ... Setting up libjsoncpp26:i386 (1.9.6-3) ... 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Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Setting up python-matplotlib-data (3.8.3-3) ... Setting up libtasn1-6-dev:i386 (4.20.0-1) ... Setting up libwebpmux3:i386 (1.5.0-0.1) ... Setting up readline-common (8.2-6) ... Setting up libicu-dev:i386 (72.1-6) ... Setting up libxml2:i386 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Setting up libldap2:i386 (2.6.9+dfsg-1) ... Setting up libbrotli-dev:i386 (1.1.0-2+b6) ... Setting up libfmt10:i386 (10.1.1+ds1-4) ... Setting up libsz2:i386 (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 liblapack3:i386 (3.12.1-2) ... update-alternatives: using /usr/lib/i386-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/i386-linux-gnu/liblapack.so.3 (liblapack.so.3-i386-linux-gnu) in auto mode Setting up gettext (0.23.1-1) ... Setting up libgmp-dev:i386 (2:6.3.0+dfsg-3) ... 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Setting up libfmt-dev:i386 (10.1.1+ds1-4) ... Setting up libboost-regex1.83-dev:i386 (1.83.0-4) ... Setting up libspdlog1.15:i386 (1:1.15.1+ds-1) ... Setting up libssh2-1-dev:i386 (1.11.1-1) ... Setting up libidn2-dev:i386 (2.3.7-2+b1) ... Setting up libreadline8t64:i386 (8.2-6) ... Setting up dh-strip-nondeterminism (1.14.1-2) ... Setting up groff-base (1.23.0-7) ... Setting up xml-core (0.19) ... Setting up libxslt1.1:i386 (1.1.35-1.1+b1) ... Setting up libharfbuzz0b:i386 (10.2.0-1) ... Setting up libxss1:i386 (1:1.2.3-1+b3) ... Setting up libfontconfig1:i386 (2.15.0-2) ... Setting up libarchive13t64:i386 (3.7.4-1.1) ... Setting up libpython3.13-stdlib:i386 (3.13.2-1) ... Setting up libp11-kit-dev:i386 (0.25.5-3) ... Setting up libpython3-stdlib:i386 (3.13.1-2) ... Setting up liblbfgsb0:i386 (3.0+dfsg.4-1+b2) ... Setting up libgnutls30t64:i386 (3.8.9-2) ... Setting up libgnutls-openssl27t64:i386 (3.8.9-2) ... Setting up libnghttp2-dev:i386 (1.64.0-1) ... 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Setting up libhdf5-dev (1.14.5+repack-3) ... update-alternatives: using /usr/lib/i386-linux-gnu/pkgconfig/hdf5-serial.pc to provide /usr/lib/i386-linux-gnu/pkgconfig/hdf5.pc (hdf5.pc) in auto mode Setting up python3-fonttools (4.55.3-2) ... Setting up python3-ufolib2 (0.17.0+dfsg1-1) ... Setting up python3-matplotlib (3.8.3-3+b3) ... Setting up python3-colormap (1.3.0-1) ... Processing triggers for libc-bin (2.40-6) ... Processing triggers for sgml-base (1.31) ... Setting up w3c-sgml-lib (1.3-3) ... Setting up python3-biopython (1.85+dfsg-2) ... Setting up python3-pbcore (2.1.2+dfsg-10) ... 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: user script /srv/workspace/pbuilder/37928/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for unstable I: user script /srv/workspace/pbuilder/37928/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 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/i386-linux-gnu .. CMake Deprecation Warning at CMakeLists.txt:1 (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. -- 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 src/CMakeLists.txt:1 (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. CMake Deprecation Warning at src/lib/CMakeLists.txt:1 (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. -- Found ZLIB: /usr/lib/i386-linux-gnu/libz.so (found version "1.3.1") CMake Deprecation Warning at src/filter/CMakeLists.txt:1 (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. CMake Deprecation Warning at src/maximal/CMakeLists.txt:1 (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. CMake Deprecation Warning at src/consensus/CMakeLists.txt:1 (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. CMake Deprecation Warning at src/layout/CMakeLists.txt:1 (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. CMake Warning (dev) at src/layout/CMakeLists.txt:5 (FIND_PACKAGE): Policy CMP0167 is not set: The FindBoost module is removed. Run "cmake --help-policy CMP0167" for policy details. Use the cmake_policy command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. -- 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 < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. -- Configuring done (0.5s) 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 (0.0s) 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 -j21 "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]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' make -f bin/CMakeFiles/man.dir/build.make bin/CMakeFiles/man.dir/depend make -f bin/lib/CMakeFiles/ini.dir/build.make bin/lib/CMakeFiles/ini.dir/depend make -f bin/lib/CMakeFiles/DB.dir/build.make bin/lib/CMakeFiles/DB.dir/depend make -f bin/lib/CMakeFiles/LA.dir/build.make bin/lib/CMakeFiles/LA.dir/depend make -f bin/lib/CMakeFiles/PAF.dir/build.make bin/lib/CMakeFiles/PAF.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 /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin /build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu/bin/CMakeFiles/man.dir/DependInfo.cmake "--color=" make -f bin/lib/CMakeFiles/kmer_lookup.dir/build.make bin/lib/CMakeFiles/kmer_lookup.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/ini.dir/DependInfo.cmake "--color=" make -f bin/lib/CMakeFiles/DW_banded.dir/build.make bin/lib/CMakeFiles/DW_banded.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' 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' 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/PAF.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/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[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/kmer_lookup.dir/DependInfo.cmake "--color=" 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 -f bin/CMakeFiles/man.dir/build.make bin/CMakeFiles/man.dir/build make -f bin/lib/CMakeFiles/ini.dir/build.make bin/lib/CMakeFiles/ini.dir/build 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 -f bin/lib/CMakeFiles/LA.dir/build.make bin/lib/CMakeFiles/LA.dir/build 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[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/lib/CMakeFiles/DW_banded.dir/build.make bin/lib/CMakeFiles/DW_banded.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/lib/CMakeFiles/kmer_lookup.dir/build.make bin/lib/CMakeFiles/kmer_lookup.dir/build make[3]: Entering 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[3]: Entering 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 -f bin/lib/CMakeFiles/DB.dir/build.make bin/lib/CMakeFiles/DB.dir/build make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' [ 3%] Building C object bin/lib/CMakeFiles/ini.dir/ini.c.o [ 6%] Generating hinge.1 [ 10%] 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 -Werror=implicit-function-declaration -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 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 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 -Werror=implicit-function-declaration -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 [ 13%] Building CXX object bin/lib/CMakeFiles/ini.dir/INIReader.cpp.o [ 17%] Building C object bin/lib/CMakeFiles/PAF.dir/paf.c.o [ 20%] 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/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 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 -Werror=implicit-function-declaration -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 [ 24%] Building C object bin/lib/CMakeFiles/kmer_lookup.dir/kmer_lookup.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 -Werror=implicit-function-declaration -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 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 -Werror=implicit-function-declaration -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 [ 27%] Building C object bin/lib/CMakeFiles/DB.dir/DB.c.o [ 31%] 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 -Werror=implicit-function-declaration -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 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 -Werror=implicit-function-declaration -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 make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' [ 31%] Built target man /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; | ^ /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); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 34%] 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 /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%] Built target PAF [ 37%] 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 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 [ 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 /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) | ^~~~~~~~~~~~ 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 /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 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 -Werror=implicit-function-declaration -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 [ 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 /usr/bin/ar qc libfalcon.a CMakeFiles/falcon.dir/falcon.c.o /usr/bin/ranlib libfalcon.a make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' /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%] Built target falcon [ 51%] 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' [ 51%] Built target ini [ 55%] 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 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/ar qc libDB.a CMakeFiles/DB.dir/DB.c.o CMakeFiles/DB.dir/QV.c.o /usr/bin/ranlib libDB.a make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' [ 55%] Built target DB [ 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 -f bin/maximal/CMakeFiles/get_maximal_reads.dir/build.make bin/maximal/CMakeFiles/get_maximal_reads.dir/depend make -f bin/consensus/CMakeFiles/draft_assembly.dir/build.make bin/consensus/CMakeFiles/draft_assembly.dir/depend make -f bin/consensus/CMakeFiles/consensus.dir/build.make bin/consensus/CMakeFiles/consensus.dir/depend make -f bin/layout/CMakeFiles/hinging.dir/build.make bin/layout/CMakeFiles/hinging.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[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[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/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' 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/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]: Leaving 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 -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' make -f bin/layout/CMakeFiles/hinging.dir/build.make bin/layout/CMakeFiles/hinging.dir/build make[3]: Entering 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[3]: Entering 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[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]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' [ 68%] 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 [ 72%] 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 [ 75%] Building CXX object bin/consensus/CMakeFiles/consensus.dir/consensus.cpp.o [ 79%] Building CXX object bin/layout/CMakeFiles/hinging.dir/hinging.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/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 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 [ 82%] Building CXX object bin/filter/CMakeFiles/Reads_filter.dir/filter.cpp.o 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 /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 -Wl,--dependency-file=CMakeFiles/consensus.dir/link.d 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 -Wl,--dependency-file=CMakeFiles/get_maximal_reads.dir/link.d 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 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 -Wl,--dependency-file=CMakeFiles/Reads_filter.dir/link.d 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' [ 93%] Built target Reads_filter [ 96%] 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 -Wl,--dependency-file=CMakeFiles/draft_assembly.dir/link.d 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 make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-i686-linux-gnu' [ 96%] Built target draft_assembly [100%] 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 -Wl,--dependency-file=CMakeFiles/hinging.dir/link.d 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' [100%] Built target hinging 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 -j21 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/draw_pileup_region_find_bridges.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/get_single_strand.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/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/get_draft_path.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/interface_utils.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/get_consensus_gfa.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/condense_graph.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/draft_assembly_not_perfect.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/draw2_pileup_region.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/merge_hinges.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/pruning_and_clipping_nanopore.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/create_hgraph.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/get_draft_path_norevcomp.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/run_mapping.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/pipeline_nctc.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/parse.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/run_mapping3.py -- 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/fasta_to_fastq.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/compute_n50_from_draft.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/clip_ends.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/draw2_pileup_w_repeat.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/draw2_pileup.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/parallel_draw_large.sh -- 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/condense_graph_with_gt.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/get_draft_annotation.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/split_las.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/parse_read.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/get_NCTC_json.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/37928/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/37928/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/37928 and its subdirectories I: Current time: Thu Mar 19 01:18:45 +14 2026 I: pbuilder-time-stamp: 1773832725