I: pbuilder: network access will be disabled during build I: Current time: Sat Nov 23 20:21:37 +14 2024 I: pbuilder-time-stamp: 1732342897 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [hinge_0.5.0-7.dsc] I: copying [./hinge_0.5.0.orig.tar.gz] I: copying [./hinge_0.5.0-7.debian.tar.xz] I: Extracting source gpgv: Signature made Wed Dec 22 07:23:38 2021 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./hinge_0.5.0-7.dsc: no acceptable signature found dpkg-source: info: extracting hinge in hinge-0.5.0 dpkg-source: info: unpacking hinge_0.5.0.orig.tar.gz dpkg-source: info: unpacking hinge_0.5.0-7.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying external-spdlog.patch dpkg-source: info: applying libspdlog-14.0.patch dpkg-source: info: applying libspdlog-1:1.3.0 dpkg-source: info: applying 2to3.patch dpkg-source: info: applying spdlog-1.5.0.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/944/tmp/hooks/D01_modify_environment starting debug: Running on virt64a. 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 Nov 23 06:21 /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/944/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/944/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]="32" [3]="1" [4]="release" [5]="arm-unknown-linux-gnueabihf") BASH_VERSION='5.2.32(1)-release' BUILDDIR=/build/reproducible-path BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=armhf DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=4 ' DIRSTACK=() DISTRIBUTION=unstable EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=arm HOST_ARCH=armhf IFS=' ' INVOCATION_ID=2fed8f6028b34ef09023f3a30c80697f LANG=C LANGUAGE=it_CH:it LC_ALL=C MACHTYPE=arm-unknown-linux-gnueabihf MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnueabihf 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=944 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.EH7HSMjn/pbuilderrc_tVmV --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.EH7HSMjn/b2 --logfile b2/build.log hinge_0.5.0-7.dsc' SUDO_GID=114 SUDO_UID=108 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://10.0.0.15:3142/ I: uname -a Linux i-capture-the-hostname 6.1.0-27-arm64 #1 SMP Debian 6.1.115-1 (2024-11-01) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 4 21:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/944/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: armhf Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), 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 ... 19686 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on libspdlog-dev; however: Package libspdlog-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-dev; however: Package libboost-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-graph-dev; however: Package libboost-graph-dev is not installed. pbuilder-satisfydepends-dummy depends on libhdf5-dev; however: Package libhdf5-dev is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on pandoc; however: Package pandoc is not installed. pbuilder-satisfydepends-dummy depends on python3; however: Package python3 is not installed. pbuilder-satisfydepends-dummy depends on daligner; however: Package daligner is not installed. pbuilder-satisfydepends-dummy depends on dazzdb; however: Package dazzdb is not installed. pbuilder-satisfydepends-dummy depends on dascrubber; however: Package dascrubber is not installed. pbuilder-satisfydepends-dummy depends on python3-numpy; however: Package python3-numpy is not installed. pbuilder-satisfydepends-dummy depends on python3-ujson; however: Package python3-ujson is not installed. pbuilder-satisfydepends-dummy depends on python3-colormap; however: Package python3-colormap is not installed. pbuilder-satisfydepends-dummy depends on python3-pbcore; however: Package python3-pbcore is not installed. pbuilder-satisfydepends-dummy depends on python3-networkx; however: Package python3-networkx is not installed. pbuilder-satisfydepends-dummy depends on python3-matplotlib; however: Package python3-matplotlib is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} blt{a} bsdextrautils{a} catch2{a} cmake{a} cmake-data{a} 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} libcatch2-dev{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} libfile-stripnondeterminism-perl{a} libfmt-dev{a} libfmt10{a} libfontconfig1{a} libfontenc1{a} libfreetype6{a} libfribidi0{a} libgfortran5{a} libglib2.0-0t64{a} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgraphite2-3{a} libgssapi-krb5-2{a} libgssrpc4t64{a} libharfbuzz0b{a} libhdf5-103-1t64{a} libhdf5-cpp-103-1t64{a} libhdf5-dev{a} libhdf5-fortran-102t64{a} libhdf5-hl-100t64{a} libhdf5-hl-cpp-100t64{a} libhdf5-hl-fortran-100t64{a} libhts3t64{a} libhtscodecs2{a} libicu-dev{a} libicu72{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-2.5-0{a} libldap-dev{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} libnsl2{a} libnuma1{a} libopenjp2-7{a} libp11-kit-dev{a} libpipeline1{a} libpixman-1-0{a} libpkgconf3{a} libpng16-16t64{a} libproc2-0{a} libpsl-dev{a} libpsl5t64{a} libpython3-stdlib{a} libpython3.12-minimal{a} libpython3.12-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} libspdlog1.12{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{a} libsz2{a} libtasn1-6-dev{a} libtcl8.6{a} libtiff6{a} libtirpc-common{a} libtirpc3t64{a} libtk8.6{a} libtool{a} libuchardet0{a} libunbound8{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-appdirs{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-packaging{a} python3-pbcore{a} python3-pil{a} python3-pil.imagetk{a} python3-pkg-resources{a} python3-pyparsing{a} python3-pysam{a} python3-reportlab{a} python3-rlpycairo{a} python3-scipy{a} python3-six{a} python3-sympy{a} python3-tk{a} python3-typeguard{a} python3-typing-extensions{a} python3-tz{a} python3-ufolib2{a} python3-ujson{a} python3-unicodedata2{a} python3.12{a} python3.12-minimal{a} python3.12-tk{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 libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules libssl3 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, 252 newly installed, 0 to remove and 0 not upgraded. Need to get 210 MB of archives. After unpacking 1090 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main armhf libpython3.12-minimal armhf 3.12.7-3 [800 kB] Get: 2 http://deb.debian.org/debian unstable/main armhf libexpat1 armhf 2.6.4-1 [83.5 kB] Get: 3 http://deb.debian.org/debian unstable/main armhf python3.12-minimal armhf 3.12.7-3 [1808 kB] Get: 4 http://deb.debian.org/debian unstable/main armhf python3-minimal armhf 3.12.7-1 [26.8 kB] Get: 5 http://deb.debian.org/debian unstable/main armhf media-types all 10.1.0 [26.9 kB] Get: 6 http://deb.debian.org/debian unstable/main armhf netbase all 6.4 [12.8 kB] Get: 7 http://deb.debian.org/debian unstable/main armhf tzdata all 2024b-3 [255 kB] Get: 8 http://deb.debian.org/debian unstable/main armhf libkrb5support0 armhf 1.21.3-3 [30.0 kB] Get: 9 http://deb.debian.org/debian unstable/main armhf libcom-err2 armhf 1.47.1-1+b1 [22.3 kB] Get: 10 http://deb.debian.org/debian unstable/main armhf libk5crypto3 armhf 1.21.3-3 [75.8 kB] Get: 11 http://deb.debian.org/debian unstable/main armhf libkeyutils1 armhf 1.6.3-4 [8096 B] Get: 12 http://deb.debian.org/debian unstable/main armhf libkrb5-3 armhf 1.21.3-3 [283 kB] Get: 13 http://deb.debian.org/debian unstable/main armhf libgssapi-krb5-2 armhf 1.21.3-3 [114 kB] Get: 14 http://deb.debian.org/debian unstable/main armhf libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get: 15 http://deb.debian.org/debian unstable/main armhf libtirpc3t64 armhf 1.3.4+ds-1.3+b1 [71.3 kB] Get: 16 http://deb.debian.org/debian unstable/main armhf libnsl2 armhf 1.3.0-3+b3 [35.0 kB] Get: 17 http://deb.debian.org/debian unstable/main armhf readline-common all 8.2-5 [69.3 kB] Get: 18 http://deb.debian.org/debian unstable/main armhf libreadline8t64 armhf 8.2-5 [146 kB] Get: 19 http://deb.debian.org/debian unstable/main armhf libpython3.12-stdlib armhf 3.12.7-3 [1819 kB] Get: 20 http://deb.debian.org/debian unstable/main armhf python3.12 armhf 3.12.7-3 [671 kB] Get: 21 http://deb.debian.org/debian unstable/main armhf libpython3-stdlib armhf 3.12.7-1 [9712 B] Get: 22 http://deb.debian.org/debian unstable/main armhf python3 armhf 3.12.7-1 [27.8 kB] Get: 23 http://deb.debian.org/debian unstable/main armhf sgml-base all 1.31 [15.4 kB] Get: 24 http://deb.debian.org/debian unstable/main armhf libproc2-0 armhf 2:4.0.4-6 [56.0 kB] Get: 25 http://deb.debian.org/debian unstable/main armhf procps armhf 2:4.0.4-6 [864 kB] Get: 26 http://deb.debian.org/debian unstable/main armhf sensible-utils all 0.0.24 [24.8 kB] Get: 27 http://deb.debian.org/debian unstable/main armhf libmagic-mgc armhf 1:5.45-3+b1 [314 kB] Get: 28 http://deb.debian.org/debian unstable/main armhf libmagic1t64 armhf 1:5.45-3+b1 [98.5 kB] Get: 29 http://deb.debian.org/debian unstable/main armhf file armhf 1:5.45-3+b1 [42.3 kB] Get: 30 http://deb.debian.org/debian unstable/main armhf gettext-base armhf 0.22.5-2 [195 kB] Get: 31 http://deb.debian.org/debian unstable/main armhf libuchardet0 armhf 0.0.8-1+b2 [65.6 kB] Get: 32 http://deb.debian.org/debian unstable/main armhf groff-base armhf 1.23.0-5 [1091 kB] Get: 33 http://deb.debian.org/debian unstable/main armhf bsdextrautils armhf 2.40.2-11 [83.6 kB] Get: 34 http://deb.debian.org/debian unstable/main armhf libpipeline1 armhf 1.5.8-1 [35.0 kB] Get: 35 http://deb.debian.org/debian unstable/main armhf man-db armhf 2.13.0-1 [1382 kB] Get: 36 http://deb.debian.org/debian unstable/main armhf m4 armhf 1.4.19-4 [264 kB] Get: 37 http://deb.debian.org/debian unstable/main armhf autoconf all 2.72-3 [493 kB] Get: 38 http://deb.debian.org/debian unstable/main armhf autotools-dev all 20220109.1 [51.6 kB] Get: 39 http://deb.debian.org/debian unstable/main armhf automake all 1:1.16.5-1.3 [823 kB] Get: 40 http://deb.debian.org/debian unstable/main armhf autopoint all 0.22.5-2 [723 kB] Get: 41 http://deb.debian.org/debian unstable/main armhf libtcl8.6 armhf 8.6.15+dfsg-2 [934 kB] Get: 42 http://deb.debian.org/debian unstable/main armhf libbrotli1 armhf 1.1.0-2+b6 [282 kB] Get: 43 http://deb.debian.org/debian unstable/main armhf libpng16-16t64 armhf 1.6.44-2 [263 kB] Get: 44 http://deb.debian.org/debian unstable/main armhf libfreetype6 armhf 2.13.3+dfsg-1 [385 kB] Get: 45 http://deb.debian.org/debian unstable/main armhf fonts-dejavu-mono all 2.37-8 [489 kB] Get: 46 http://deb.debian.org/debian unstable/main armhf fonts-dejavu-core all 2.37-8 [840 kB] Get: 47 http://deb.debian.org/debian unstable/main armhf libfontenc1 armhf 1:1.1.8-1+b1 [20.8 kB] Get: 48 http://deb.debian.org/debian unstable/main armhf x11-common all 1:7.7+23.1 [216 kB] Get: 49 http://deb.debian.org/debian unstable/main armhf xfonts-encodings all 1:1.0.4-2.2 [577 kB] Get: 50 http://deb.debian.org/debian unstable/main armhf xfonts-utils armhf 1:7.7+7 [84.2 kB] Get: 51 http://deb.debian.org/debian unstable/main armhf fonts-urw-base35 all 20200910-8 [10.8 MB] Get: 52 http://deb.debian.org/debian unstable/main armhf fontconfig-config armhf 2.15.0-1.1+b1 [318 kB] Get: 53 http://deb.debian.org/debian unstable/main armhf libfontconfig1 armhf 2.15.0-1.1+b1 [371 kB] Get: 54 http://deb.debian.org/debian unstable/main armhf libxau6 armhf 1:1.0.11-1 [19.7 kB] Get: 55 http://deb.debian.org/debian unstable/main armhf libxdmcp6 armhf 1:1.1.5-1 [26.4 kB] Get: 56 http://deb.debian.org/debian unstable/main armhf libxcb1 armhf 1.17.0-2+b1 [140 kB] Get: 57 http://deb.debian.org/debian unstable/main armhf libx11-data all 2:1.8.10-2 [337 kB] Get: 58 http://deb.debian.org/debian unstable/main armhf libx11-6 armhf 2:1.8.10-2 [750 kB] Get: 59 http://deb.debian.org/debian unstable/main armhf libxrender1 armhf 1:0.9.10-1.1+b2 [25.0 kB] Get: 60 http://deb.debian.org/debian unstable/main armhf libxft2 armhf 2.3.6-1+b2 [46.5 kB] Get: 61 http://deb.debian.org/debian unstable/main armhf libxext6 armhf 2:1.3.4-1+b2 [45.2 kB] Get: 62 http://deb.debian.org/debian unstable/main armhf libxss1 armhf 1:1.2.3-1+b2 [16.4 kB] Get: 63 http://deb.debian.org/debian unstable/main armhf libtk8.6 armhf 8.6.15-1 [697 kB] Get: 64 http://deb.debian.org/debian unstable/main armhf tk8.6-blt2.5 armhf 2.5.3+dfsg-7 [481 kB] Get: 65 http://deb.debian.org/debian unstable/main armhf blt armhf 2.5.3+dfsg-7 [6024 B] Get: 66 http://deb.debian.org/debian unstable/main armhf libcatch2-dev armhf 3.7.1-0.4 [584 kB] Get: 67 http://deb.debian.org/debian unstable/main armhf catch2 all 3.7.1-0.4 [5052 B] Get: 68 http://deb.debian.org/debian unstable/main armhf cmake-data all 3.31.1-1 [2267 kB] Get: 69 http://deb.debian.org/debian unstable/main armhf libicu72 armhf 72.1-5+b1 [9088 kB] Get: 70 http://deb.debian.org/debian unstable/main armhf libxml2 armhf 2.12.7+dfsg+really2.9.14-0.2+b1 [605 kB] Get: 71 http://deb.debian.org/debian unstable/main armhf libarchive13t64 armhf 3.7.4-1.1 [306 kB] Get: 72 http://deb.debian.org/debian unstable/main armhf libsasl2-modules-db armhf 2.1.28+dfsg1-8 [18.2 kB] Get: 73 http://deb.debian.org/debian unstable/main armhf libsasl2-2 armhf 2.1.28+dfsg1-8 [50.2 kB] Get: 74 http://deb.debian.org/debian unstable/main armhf libldap-2.5-0 armhf 2.5.18+dfsg-3+b1 [163 kB] Get: 75 http://deb.debian.org/debian unstable/main armhf libnghttp2-14 armhf 1.64.0-1 [62.9 kB] Get: 76 http://deb.debian.org/debian unstable/main armhf libpsl5t64 armhf 0.21.2-1.1+b1 [55.8 kB] Get: 77 http://deb.debian.org/debian unstable/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b5 [53.2 kB] Get: 78 http://deb.debian.org/debian unstable/main armhf libssh2-1t64 armhf 1.11.1-1 [227 kB] Get: 79 http://deb.debian.org/debian unstable/main armhf libcurl4t64 armhf 8.11.0-1 [303 kB] Get: 80 http://deb.debian.org/debian unstable/main armhf libjsoncpp26 armhf 1.9.6-3 [69.9 kB] Get: 81 http://deb.debian.org/debian unstable/main armhf librhash1 armhf 1.4.5-1 [143 kB] Get: 82 http://deb.debian.org/debian unstable/main armhf libuv1t64 armhf 1.48.0-7 [134 kB] Get: 83 http://deb.debian.org/debian unstable/main armhf cmake armhf 3.31.1-1 [5747 kB] Get: 84 http://deb.debian.org/debian unstable/main armhf comerr-dev armhf 2.1-1.47.1-1+b1 [54.3 kB] Get: 85 http://deb.debian.org/debian unstable/main armhf daligner armhf 1.0+git20240119.335105d-3 [203 kB] Get: 86 http://deb.debian.org/debian unstable/main armhf dascrubber armhf 1.1-4 [141 kB] Get: 87 http://deb.debian.org/debian unstable/main armhf dazzdb armhf 1.0+git20240115.be65e59-1 [199 kB] Get: 88 http://deb.debian.org/debian unstable/main armhf libdebhelper-perl all 13.20 [89.7 kB] Get: 89 http://deb.debian.org/debian unstable/main armhf libtool all 2.4.7-8 [517 kB] Get: 90 http://deb.debian.org/debian unstable/main armhf dh-autoreconf all 20 [17.1 kB] Get: 91 http://deb.debian.org/debian unstable/main armhf libarchive-zip-perl all 1.68-1 [104 kB] Get: 92 http://deb.debian.org/debian unstable/main armhf libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 93 http://deb.debian.org/debian unstable/main armhf dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 94 http://deb.debian.org/debian unstable/main armhf libelf1t64 armhf 0.192-4 [184 kB] Get: 95 http://deb.debian.org/debian unstable/main armhf dwz armhf 0.15-1+b2 [106 kB] Get: 96 http://deb.debian.org/debian unstable/main armhf gettext armhf 0.22.5-2 [1485 kB] Get: 97 http://deb.debian.org/debian unstable/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 98 http://deb.debian.org/debian unstable/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 99 http://deb.debian.org/debian unstable/main armhf debhelper all 13.20 [915 kB] Get: 100 http://deb.debian.org/debian unstable/main armhf fonts-lyx all 2.4.2.1-1 [190 kB] Get: 101 http://deb.debian.org/debian unstable/main armhf hdf5-helpers armhf 1.10.10+repack-4 [23.5 kB] Get: 102 http://deb.debian.org/debian unstable/main armhf icu-devtools armhf 72.1-5+b1 [187 kB] Get: 103 http://deb.debian.org/debian unstable/main armhf libgssrpc4t64 armhf 1.21.3-3 [52.5 kB] Get: 104 http://deb.debian.org/debian unstable/main armhf libkadm5clnt-mit12 armhf 1.21.3-3 [37.0 kB] Get: 105 http://deb.debian.org/debian unstable/main armhf libkdb5-10t64 armhf 1.21.3-3 [37.1 kB] Get: 106 http://deb.debian.org/debian unstable/main armhf libkadm5srv-mit12 armhf 1.21.3-3 [46.7 kB] Get: 107 http://deb.debian.org/debian unstable/main armhf krb5-multidev armhf 1.21.3-3 [126 kB] Get: 108 http://deb.debian.org/debian unstable/main armhf libaec0 armhf 1.1.3-1+b1 [21.9 kB] Get: 109 http://deb.debian.org/debian unstable/main armhf libsz2 armhf 1.1.3-1+b1 [8036 B] Get: 110 http://deb.debian.org/debian unstable/main armhf libaec-dev armhf 1.1.3-1+b1 [19.3 kB] Get: 111 http://deb.debian.org/debian unstable/main armhf libblas3 armhf 3.12.0-4 [111 kB] Get: 112 http://deb.debian.org/debian unstable/main armhf libboost1.83-dev armhf 1.83.0-3.2+b1 [10.6 MB] Get: 113 http://deb.debian.org/debian unstable/main armhf libboost-dev armhf 1.83.0.2+b2 [3832 B] Get: 114 http://deb.debian.org/debian unstable/main armhf libboost-graph1.83.0 armhf 1.83.0-3.2+b1 [335 kB] Get: 115 http://deb.debian.org/debian unstable/main armhf libboost-regex1.83.0 armhf 1.83.0-3.2+b1 [308 kB] Get: 116 http://deb.debian.org/debian unstable/main armhf libicu-dev armhf 72.1-5+b1 [10.1 MB] Get: 117 http://deb.debian.org/debian unstable/main armhf libboost-regex1.83-dev armhf 1.83.0-3.2+b1 [335 kB] Get: 118 http://deb.debian.org/debian unstable/main armhf libboost-serialization1.83.0 armhf 1.83.0-3.2+b1 [317 kB] Get: 119 http://deb.debian.org/debian unstable/main armhf libboost-serialization1.83-dev armhf 1.83.0-3.2+b1 [384 kB] Get: 120 http://deb.debian.org/debian unstable/main armhf libboost-test1.83.0 armhf 1.83.0-3.2+b1 [431 kB] Get: 121 http://deb.debian.org/debian unstable/main armhf libboost-test1.83-dev armhf 1.83.0-3.2+b1 [532 kB] Get: 122 http://deb.debian.org/debian unstable/main armhf libboost-graph1.83-dev armhf 1.83.0-3.2+b1 [376 kB] Get: 123 http://deb.debian.org/debian unstable/main armhf libboost-graph-dev armhf 1.83.0.2+b2 [3688 B] Get: 124 http://deb.debian.org/debian unstable/main armhf libbrotli-dev armhf 1.1.0-2+b6 [293 kB] Get: 125 http://deb.debian.org/debian unstable/main armhf libpixman-1-0 armhf 0.44.0-3 [164 kB] Get: 126 http://deb.debian.org/debian unstable/main armhf libxcb-render0 armhf 1.17.0-2+b1 [114 kB] Get: 127 http://deb.debian.org/debian unstable/main armhf libxcb-shm0 armhf 1.17.0-2+b1 [105 kB] Get: 128 http://deb.debian.org/debian unstable/main armhf libcairo2 armhf 1.18.2-2 [443 kB] Get: 129 http://deb.debian.org/debian unstable/main armhf libnghttp3-9 armhf 1.4.0-1+b1 [55.0 kB] Get: 130 http://deb.debian.org/debian unstable/main armhf libngtcp2-16 armhf 1.6.0-1 [118 kB] Get: 131 http://deb.debian.org/debian unstable/main armhf libngtcp2-crypto-gnutls8 armhf 1.6.0-1 [17.1 kB] Get: 132 http://deb.debian.org/debian unstable/main armhf libcurl3t64-gnutls armhf 8.11.0-1 [310 kB] Get: 133 http://deb.debian.org/debian unstable/main armhf libidn2-dev armhf 2.3.7-2+b1 [119 kB] Get: 134 http://deb.debian.org/debian unstable/main armhf libkrb5-dev armhf 1.21.3-3 [15.8 kB] Get: 135 http://deb.debian.org/debian unstable/main armhf libldap-dev armhf 2.5.18+dfsg-3+b1 [282 kB] Get: 136 http://deb.debian.org/debian unstable/main armhf libpkgconf3 armhf 1.8.1-4 [31.8 kB] Get: 137 http://deb.debian.org/debian unstable/main armhf pkgconf-bin armhf 1.8.1-4 [29.2 kB] Get: 138 http://deb.debian.org/debian unstable/main armhf pkgconf armhf 1.8.1-4 [26.1 kB] Get: 139 http://deb.debian.org/debian unstable/main armhf libnghttp2-dev armhf 1.64.0-1 [103 kB] Get: 140 http://deb.debian.org/debian unstable/main armhf libpsl-dev armhf 0.21.2-1.1+b1 [76.8 kB] Get: 141 http://deb.debian.org/debian unstable/main armhf libgmpxx4ldbl armhf 2:6.3.0+dfsg-2+b2 [328 kB] Get: 142 http://deb.debian.org/debian unstable/main armhf libgmp-dev armhf 2:6.3.0+dfsg-2+b2 [593 kB] Get: 143 http://deb.debian.org/debian unstable/main armhf libevent-2.1-7t64 armhf 2.1.12-stable-10+b1 [164 kB] Get: 144 http://deb.debian.org/debian unstable/main armhf libunbound8 armhf 1.22.0-1 [539 kB] Get: 145 http://deb.debian.org/debian unstable/main armhf libgnutls-dane0t64 armhf 3.8.8-2 [440 kB] Get: 146 http://deb.debian.org/debian unstable/main armhf libgnutls-openssl27t64 armhf 3.8.8-2 [440 kB] Get: 147 http://deb.debian.org/debian unstable/main armhf libp11-kit-dev armhf 0.25.5-2+b1 [208 kB] Get: 148 http://deb.debian.org/debian unstable/main armhf libtasn1-6-dev armhf 4.19.0-3+b3 [93.2 kB] Get: 149 http://deb.debian.org/debian unstable/main armhf nettle-dev armhf 3.10-1+b1 [1313 kB] Get: 150 http://deb.debian.org/debian unstable/main armhf libgnutls28-dev armhf 3.8.8-2 [1328 kB] Get: 151 http://deb.debian.org/debian unstable/main armhf zlib1g-dev armhf 1:1.3.dfsg+really1.3.1-1+b1 [905 kB] Get: 152 http://deb.debian.org/debian unstable/main armhf librtmp-dev armhf 2.4+20151223.gitfa8646d.1-2+b5 [63.6 kB] Get: 153 http://deb.debian.org/debian unstable/main armhf libssl-dev armhf 3.3.2-2 [2385 kB] Get: 154 http://deb.debian.org/debian unstable/main armhf libssh2-1-dev armhf 1.11.1-1 [378 kB] Get: 155 http://deb.debian.org/debian unstable/main armhf libzstd-dev armhf 1.5.6+dfsg-1+b1 [327 kB] Get: 156 http://deb.debian.org/debian unstable/main armhf libcurl4-openssl-dev armhf 8.11.0-1 [423 kB] Get: 157 http://deb.debian.org/debian unstable/main armhf libdeflate0 armhf 1.22-1 [36.3 kB] Get: 158 http://deb.debian.org/debian unstable/main armhf libdouble-conversion3 armhf 3.3.0-1+b2 [39.2 kB] Get: 159 http://deb.debian.org/debian unstable/main armhf libfmt10 armhf 10.1.1+ds1-4 [118 kB] Get: 160 http://deb.debian.org/debian unstable/main armhf libfmt-dev armhf 10.1.1+ds1-4 [177 kB] Get: 161 http://deb.debian.org/debian unstable/main armhf libfribidi0 armhf 1.0.15-1 [70.0 kB] Get: 162 http://deb.debian.org/debian unstable/main armhf libgfortran5 armhf 14.2.0-8 [263 kB] Get: 163 http://deb.debian.org/debian unstable/main armhf libglib2.0-0t64 armhf 2.82.2-3 [1326 kB] Get: 164 http://deb.debian.org/debian unstable/main armhf libgraphite2-3 armhf 1.3.14-2+b1 [63.1 kB] Get: 165 http://deb.debian.org/debian unstable/main armhf libharfbuzz0b armhf 10.0.1-1 [418 kB] Get: 166 http://deb.debian.org/debian unstable/main armhf libhdf5-103-1t64 armhf 1.10.10+repack-4 [1196 kB] Get: 167 http://deb.debian.org/debian unstable/main armhf libhdf5-cpp-103-1t64 armhf 1.10.10+repack-4 [121 kB] Get: 168 http://deb.debian.org/debian unstable/main armhf libhdf5-fortran-102t64 armhf 1.10.10+repack-4 [78.5 kB] Get: 169 http://deb.debian.org/debian unstable/main armhf libhdf5-hl-100t64 armhf 1.10.10+repack-4 [62.3 kB] Get: 170 http://deb.debian.org/debian unstable/main armhf libhdf5-hl-fortran-100t64 armhf 1.10.10+repack-4 [35.1 kB] Get: 171 http://deb.debian.org/debian unstable/main armhf libhdf5-hl-cpp-100t64 armhf 1.10.10+repack-4 [21.0 kB] Get: 172 http://deb.debian.org/debian unstable/main armhf libjpeg62-turbo armhf 1:2.1.5-3+b1 [145 kB] Get: 173 http://deb.debian.org/debian unstable/main armhf libjpeg62-turbo-dev armhf 1:2.1.5-3+b1 [263 kB] Get: 174 http://deb.debian.org/debian unstable/main armhf libjpeg-dev armhf 1:2.1.5-3+b1 [72.2 kB] Get: 175 http://deb.debian.org/debian unstable/main armhf libhdf5-dev armhf 1.10.10+repack-4 [2616 kB] Get: 176 http://deb.debian.org/debian unstable/main armhf libhtscodecs2 armhf 1.6.1-1 [63.1 kB] Get: 177 http://deb.debian.org/debian unstable/main armhf libhts3t64 armhf 1.20+ds-2 [401 kB] Get: 178 http://deb.debian.org/debian unstable/main armhf libimagequant0 armhf 2.18.0-1+b2 [30.5 kB] Get: 179 http://deb.debian.org/debian unstable/main armhf libjbig0 armhf 2.1-6.1+b2 [27.3 kB] Get: 180 http://deb.debian.org/debian unstable/main armhf libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 181 http://deb.debian.org/debian unstable/main armhf libjs-jquery-ui all 1.13.2+dfsg-1 [250 kB] Get: 182 http://deb.debian.org/debian unstable/main armhf liblapack3 armhf 3.12.0-4 [1828 kB] Get: 183 http://deb.debian.org/debian unstable/main armhf liblbfgsb0 armhf 3.0+dfsg.4-1+b2 [25.6 kB] Get: 184 http://deb.debian.org/debian unstable/main armhf liblcms2-2 armhf 2.16-2 [131 kB] Get: 185 http://deb.debian.org/debian unstable/main armhf liblerc4 armhf 4.0.0+ds-5 [146 kB] Get: 186 http://deb.debian.org/debian unstable/main armhf liblua5.4-0 armhf 5.4.6-3+b2 [122 kB] Get: 187 http://deb.debian.org/debian unstable/main armhf libnuma1 armhf 2.0.18-1+b1 [18.9 kB] Get: 188 http://deb.debian.org/debian unstable/main armhf libopenjp2-7 armhf 2.5.0-2+b4 [179 kB] Get: 189 http://deb.debian.org/debian unstable/main armhf libqhull-r8.0 armhf 2020.2-6+b2 [220 kB] Get: 190 http://deb.debian.org/debian unstable/main armhf libraqm0 armhf 0.10.1-1+b2 [11.8 kB] Get: 191 http://deb.debian.org/debian unstable/main armhf libsharpyuv0 armhf 1.4.0-0.1+b1 [111 kB] Get: 192 http://deb.debian.org/debian unstable/main armhf libspdlog1.12 armhf 1:1.12.0+ds-2+b3 [92.9 kB] Get: 193 http://deb.debian.org/debian unstable/main armhf libspdlog-dev armhf 1:1.12.0+ds-2+b3 [85.5 kB] Get: 194 http://deb.debian.org/debian unstable/main armhf libwebp7 armhf 1.4.0-0.1+b1 [266 kB] Get: 195 http://deb.debian.org/debian unstable/main armhf libtiff6 armhf 4.5.1+git230720-5 [302 kB] Get: 196 http://deb.debian.org/debian unstable/main armhf libwebpdemux2 armhf 1.4.0-0.1+b1 [110 kB] Get: 197 http://deb.debian.org/debian unstable/main armhf libwebpmux3 armhf 1.4.0-0.1+b1 [120 kB] Get: 198 http://deb.debian.org/debian unstable/main armhf libxslt1.1 armhf 1.1.35-1.1+b1 [212 kB] Get: 199 http://deb.debian.org/debian unstable/main armhf libyaml-0-2 armhf 0.2.5-1+b2 [45.4 kB] Get: 200 http://deb.debian.org/debian unstable/main armhf pandoc-data all 3.1.11.1-3 [459 kB] Get: 201 http://deb.debian.org/debian unstable/main armhf pandoc armhf 3.1.11.1+ds-2 [32.7 MB] Get: 202 http://deb.debian.org/debian unstable/main armhf python-matplotlib-data all 3.8.3-3 [2731 kB] Get: 203 http://deb.debian.org/debian unstable/main armhf python3-appdirs all 1.4.4-4 [12.5 kB] Get: 204 http://deb.debian.org/debian unstable/main armhf python3-attr all 24.2.0-1 [68.4 kB] Get: 205 http://deb.debian.org/debian unstable/main armhf python3-autocommand all 2.2.2-3 [13.6 kB] Get: 206 http://deb.debian.org/debian unstable/main armhf python3-more-itertools all 10.5.0-1 [63.8 kB] Get: 207 http://deb.debian.org/debian unstable/main armhf python3-typing-extensions all 4.12.2-2 [73.0 kB] Get: 208 http://deb.debian.org/debian unstable/main armhf python3-typeguard all 4.4.1-1 [37.0 kB] Get: 209 http://deb.debian.org/debian unstable/main armhf python3-inflect all 7.3.1-2 [32.4 kB] Get: 210 http://deb.debian.org/debian unstable/main armhf python3-jaraco.context all 6.0.0-1 [7984 B] Get: 211 http://deb.debian.org/debian unstable/main armhf python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 212 http://deb.debian.org/debian unstable/main armhf python3-pkg-resources all 75.2.0-1 [213 kB] Get: 213 http://deb.debian.org/debian unstable/main armhf python3-numpy armhf 1:1.26.4+ds-12 [3676 kB] Get: 214 http://deb.debian.org/debian unstable/main armhf python3-chardet all 5.2.0+dfsg-1 [107 kB] Get: 215 http://deb.debian.org/debian unstable/main armhf python3.12-tk armhf 3.12.7-3 [109 kB] Get: 216 http://deb.debian.org/debian unstable/main armhf python3.13-tk armhf 3.13.0-2 [99.7 kB] Get: 217 http://deb.debian.org/debian unstable/main armhf python3-tk armhf 3.12.7-1 [9444 B] Get: 218 http://deb.debian.org/debian unstable/main armhf python3-pil.imagetk armhf 10.4.0-1+b1 [79.3 kB] Get: 219 http://deb.debian.org/debian unstable/main armhf python3-pil armhf 10.4.0-1+b1 [478 kB] Get: 220 http://deb.debian.org/debian unstable/main armhf python3-cairo armhf 1.26.1-2+b1 [120 kB] Get: 221 http://deb.debian.org/debian unstable/main armhf python3-freetype all 2.5.1-1 [89.3 kB] Get: 222 http://deb.debian.org/debian unstable/main armhf python3-rlpycairo all 0.3.0-3 [9904 B] Get: 223 http://deb.debian.org/debian unstable/main armhf python3-reportlab all 4.2.5-1 [1117 kB] Get: 224 http://deb.debian.org/debian unstable/main armhf xml-core all 0.19 [20.1 kB] Get: 225 http://deb.debian.org/debian unstable/main armhf w3c-sgml-lib all 1.3-3 [273 kB] Get: 226 http://deb.debian.org/debian unstable/main armhf python3-biopython armhf 1.84+dfsg-4+b1 [1625 kB] Get: 227 http://deb.debian.org/debian unstable/main armhf python3-brotli armhf 1.1.0-2+b6 [302 kB] Get: 228 http://deb.debian.org/debian unstable/main armhf python3-dateutil all 2.9.0-3 [79.3 kB] Get: 229 http://deb.debian.org/debian unstable/main armhf python3-pyparsing all 3.1.2-1 [146 kB] Get: 230 http://deb.debian.org/debian unstable/main armhf python3-contourpy armhf 1.3.0-2+b1 [217 kB] Get: 231 http://deb.debian.org/debian unstable/main armhf python3-cycler all 0.12.1-1 [9496 B] Get: 232 http://deb.debian.org/debian unstable/main armhf python3-tz all 2024.1-2 [30.9 kB] Get: 233 http://deb.debian.org/debian unstable/main armhf python3-six all 1.16.0-7 [16.4 kB] Get: 234 http://deb.debian.org/debian unstable/main armhf python3-fs all 2.4.16-4 [95.4 kB] Get: 235 http://deb.debian.org/debian unstable/main armhf python3-lxml armhf 5.3.0-1+b1 [1468 kB] Get: 236 http://deb.debian.org/debian unstable/main armhf python3-lz4 armhf 4.0.2+dfsg-1+b5 [24.0 kB] Get: 237 http://deb.debian.org/debian unstable/main armhf python3-decorator all 5.1.1-5 [15.1 kB] Get: 238 http://deb.debian.org/debian unstable/main armhf python3-scipy armhf 1.14.1-2 [17.8 MB] Get: 239 http://deb.debian.org/debian unstable/main armhf python3-mpmath all 1.3.0-1 [419 kB] Get: 240 http://deb.debian.org/debian unstable/main armhf python3-sympy all 1.13.3-1 [4147 kB] Get: 241 http://deb.debian.org/debian unstable/main armhf python3-ufolib2 all 0.16.1+dfsg1-1 [32.9 kB] Get: 242 http://deb.debian.org/debian unstable/main armhf python3-unicodedata2 armhf 15.1.0+ds-1+b3 [296 kB] Get: 243 http://deb.debian.org/debian unstable/main armhf unicode-data all 15.1.0-1 [8547 kB] Get: 244 http://deb.debian.org/debian unstable/main armhf python3-fonttools armhf 4.55.0-3 [1529 kB] Get: 245 http://deb.debian.org/debian unstable/main armhf python3-kiwisolver armhf 1.4.7-2+b1 [64.9 kB] Get: 246 http://deb.debian.org/debian unstable/main armhf python3-packaging all 24.2-1 [55.3 kB] Get: 247 http://deb.debian.org/debian unstable/main armhf python3-matplotlib armhf 3.8.3-3+b1 [5579 kB] Get: 248 http://deb.debian.org/debian unstable/main armhf python3-colormap all 1.2.0-1 [16.7 kB] Get: 249 http://deb.debian.org/debian unstable/main armhf python3-networkx all 3.2.1-4 [14.2 MB] Get: 250 http://deb.debian.org/debian unstable/main armhf python3-pysam armhf 0.22.1+ds-2+b2 [3755 kB] Get: 251 http://deb.debian.org/debian unstable/main armhf python3-pbcore all 2.1.2+dfsg-9 [2831 kB] Get: 252 http://deb.debian.org/debian unstable/main armhf python3-ujson armhf 5.10.0-1+b3 [22.9 kB] Fetched 210 MB in 4s (51.5 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.12-minimal:armhf. (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 ... 19686 files and directories currently installed.) Preparing to unpack .../libpython3.12-minimal_3.12.7-3_armhf.deb ... Unpacking libpython3.12-minimal:armhf (3.12.7-3) ... Selecting previously unselected package libexpat1:armhf. Preparing to unpack .../libexpat1_2.6.4-1_armhf.deb ... Unpacking libexpat1:armhf (2.6.4-1) ... Selecting previously unselected package python3.12-minimal. Preparing to unpack .../python3.12-minimal_3.12.7-3_armhf.deb ... Unpacking python3.12-minimal (3.12.7-3) ... Setting up libpython3.12-minimal:armhf (3.12.7-3) ... Setting up libexpat1:armhf (2.6.4-1) ... Setting up python3.12-minimal (3.12.7-3) ... Selecting previously unselected package python3-minimal. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20006 files and directories currently installed.) Preparing to unpack .../00-python3-minimal_3.12.7-1_armhf.deb ... Unpacking python3-minimal (3.12.7-1) ... Selecting previously unselected package media-types. Preparing to unpack .../01-media-types_10.1.0_all.deb ... Unpacking media-types (10.1.0) ... Selecting previously unselected package netbase. Preparing to unpack .../02-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package tzdata. Preparing to unpack .../03-tzdata_2024b-3_all.deb ... Unpacking tzdata (2024b-3) ... Selecting previously unselected package libkrb5support0:armhf. Preparing to unpack .../04-libkrb5support0_1.21.3-3_armhf.deb ... Unpacking libkrb5support0:armhf (1.21.3-3) ... Selecting previously unselected package libcom-err2:armhf. Preparing to unpack .../05-libcom-err2_1.47.1-1+b1_armhf.deb ... Unpacking libcom-err2:armhf (1.47.1-1+b1) ... Selecting previously unselected package libk5crypto3:armhf. Preparing to unpack .../06-libk5crypto3_1.21.3-3_armhf.deb ... Unpacking libk5crypto3:armhf (1.21.3-3) ... Selecting previously unselected package libkeyutils1:armhf. Preparing to unpack .../07-libkeyutils1_1.6.3-4_armhf.deb ... Unpacking libkeyutils1:armhf (1.6.3-4) ... Selecting previously unselected package libkrb5-3:armhf. Preparing to unpack .../08-libkrb5-3_1.21.3-3_armhf.deb ... Unpacking libkrb5-3:armhf (1.21.3-3) ... Selecting previously unselected package libgssapi-krb5-2:armhf. Preparing to unpack .../09-libgssapi-krb5-2_1.21.3-3_armhf.deb ... Unpacking libgssapi-krb5-2:armhf (1.21.3-3) ... Selecting previously unselected package libtirpc-common. Preparing to unpack .../10-libtirpc-common_1.3.4+ds-1.3_all.deb ... Unpacking libtirpc-common (1.3.4+ds-1.3) ... Selecting previously unselected package libtirpc3t64:armhf. Preparing to unpack .../11-libtirpc3t64_1.3.4+ds-1.3+b1_armhf.deb ... Adding 'diversion of /lib/arm-linux-gnueabihf/libtirpc.so.3 to /lib/arm-linux-gnueabihf/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libtirpc.so.3.0.0 to /lib/arm-linux-gnueabihf/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:armhf (1.3.4+ds-1.3+b1) ... Selecting previously unselected package libnsl2:armhf. Preparing to unpack .../12-libnsl2_1.3.0-3+b3_armhf.deb ... Unpacking libnsl2:armhf (1.3.0-3+b3) ... Selecting previously unselected package readline-common. Preparing to unpack .../13-readline-common_8.2-5_all.deb ... Unpacking readline-common (8.2-5) ... Selecting previously unselected package libreadline8t64:armhf. Preparing to unpack .../14-libreadline8t64_8.2-5_armhf.deb ... Adding 'diversion of /lib/arm-linux-gnueabihf/libhistory.so.8 to /lib/arm-linux-gnueabihf/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libhistory.so.8.2 to /lib/arm-linux-gnueabihf/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libreadline.so.8 to /lib/arm-linux-gnueabihf/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libreadline.so.8.2 to /lib/arm-linux-gnueabihf/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:armhf (8.2-5) ... Selecting previously unselected package libpython3.12-stdlib:armhf. Preparing to unpack .../15-libpython3.12-stdlib_3.12.7-3_armhf.deb ... Unpacking libpython3.12-stdlib:armhf (3.12.7-3) ... Selecting previously unselected package python3.12. Preparing to unpack .../16-python3.12_3.12.7-3_armhf.deb ... Unpacking python3.12 (3.12.7-3) ... Selecting previously unselected package libpython3-stdlib:armhf. Preparing to unpack .../17-libpython3-stdlib_3.12.7-1_armhf.deb ... Unpacking libpython3-stdlib:armhf (3.12.7-1) ... Setting up python3-minimal (3.12.7-1) ... Selecting previously unselected package python3. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 21068 files and directories currently installed.) Preparing to unpack .../000-python3_3.12.7-1_armhf.deb ... Unpacking python3 (3.12.7-1) ... Selecting previously unselected package sgml-base. Preparing to unpack .../001-sgml-base_1.31_all.deb ... Unpacking sgml-base (1.31) ... Selecting previously unselected package libproc2-0:armhf. Preparing to unpack .../002-libproc2-0_2%3a4.0.4-6_armhf.deb ... Unpacking libproc2-0:armhf (2:4.0.4-6) ... Selecting previously unselected package procps. Preparing to unpack .../003-procps_2%3a4.0.4-6_armhf.deb ... Unpacking procps (2:4.0.4-6) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../004-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../005-libmagic-mgc_1%3a5.45-3+b1_armhf.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:armhf. Preparing to unpack .../006-libmagic1t64_1%3a5.45-3+b1_armhf.deb ... Unpacking libmagic1t64:armhf (1:5.45-3+b1) ... Selecting previously unselected package file. 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Unpacking libfontenc1:armhf (1:1.1.8-1+b1) ... Selecting previously unselected package x11-common. Preparing to unpack .../026-x11-common_1%3a7.7+23.1_all.deb ... Unpacking x11-common (1:7.7+23.1) ... Selecting previously unselected package xfonts-encodings. Preparing to unpack .../027-xfonts-encodings_1%3a1.0.4-2.2_all.deb ... Unpacking xfonts-encodings (1:1.0.4-2.2) ... Selecting previously unselected package xfonts-utils. Preparing to unpack .../028-xfonts-utils_1%3a7.7+7_armhf.deb ... Unpacking xfonts-utils (1:7.7+7) ... Selecting previously unselected package fonts-urw-base35. Preparing to unpack .../029-fonts-urw-base35_20200910-8_all.deb ... Unpacking fonts-urw-base35 (20200910-8) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../030-fontconfig-config_2.15.0-1.1+b1_armhf.deb ... Unpacking fontconfig-config (2.15.0-1.1+b1) ... Selecting previously unselected package libfontconfig1:armhf. 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Unpacking libpsl5t64:armhf (0.21.2-1.1+b1) ... Selecting previously unselected package librtmp1:armhf. Preparing to unpack .../055-librtmp1_2.4+20151223.gitfa8646d.1-2+b5_armhf.deb ... Unpacking librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b5) ... Selecting previously unselected package libssh2-1t64:armhf. Preparing to unpack .../056-libssh2-1t64_1.11.1-1_armhf.deb ... Unpacking libssh2-1t64:armhf (1.11.1-1) ... Selecting previously unselected package libcurl4t64:armhf. Preparing to unpack .../057-libcurl4t64_8.11.0-1_armhf.deb ... Unpacking libcurl4t64:armhf (8.11.0-1) ... Selecting previously unselected package libjsoncpp26:armhf. Preparing to unpack .../058-libjsoncpp26_1.9.6-3_armhf.deb ... Unpacking libjsoncpp26:armhf (1.9.6-3) ... Selecting previously unselected package librhash1:armhf. Preparing to unpack .../059-librhash1_1.4.5-1_armhf.deb ... Unpacking librhash1:armhf (1.4.5-1) ... Selecting previously unselected package libuv1t64:armhf. 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Setting up x11-common (1:7.7+23.1) ... invoke-rc.d: could not determine current runlevel Setting up X socket directories... /tmp/.X11-unix /tmp/.ICE-unix. Setting up libpsl5t64:armhf (0.21.2-1.1+b1) ... Setting up libnghttp2-14:armhf (1.64.0-1) ... Setting up libdeflate0:armhf (1.22-1) ... Setting up gettext-base (0.22.5-2) ... Setting up m4 (1.4.19-4) ... Setting up libevent-2.1-7t64:armhf (2.1.12-stable-10+b1) ... Setting up libqhull-r8.0:armhf (2020.2-6+b2) ... Setting up libxcb-shm0:armhf (1.17.0-2+b1) ... Setting up libcom-err2:armhf (1.47.1-1+b1) ... Setting up file (1:5.45-3+b1) ... Setting up libjbig0:armhf (2.1-6.1+b2) ... Setting up libaec0:armhf (1.1.3-1+b1) ... Setting up libelf1t64:armhf (0.192-4) ... Setting up libpsl-dev:armhf (0.21.2-1.1+b1) ... Setting up libkrb5support0:armhf (1.21.3-3) ... Setting up libsasl2-modules-db:armhf (2.1.28+dfsg1-8) ... Setting up tzdata (2024b-3) ... Current default time zone: 'Etc/UTC' Local time is now: Sat Nov 23 06:23:29 UTC 2024. Universal Time is now: Sat Nov 23 06:23:29 UTC 2024. 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:armhf (1.83.0-3.2+b1) ... Setting up libfontenc1:armhf (1:1.1.8-1+b1) ... Setting up autotools-dev (20220109.1) ... Setting up libglib2.0-0t64:armhf (2.82.2-3) ... No schema files found: doing nothing. Setting up libblas3:armhf (3.12.0-4) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so.3 to provide /usr/lib/arm-linux-gnueabihf/libblas.so.3 (libblas.so.3-arm-linux-gnueabihf) in auto mode Setting up libunbound8:armhf (1.22.0-1) ... Setting up libpkgconf3:armhf (1.8.1-4) ... Setting up libgmpxx4ldbl:armhf (2:6.3.0+dfsg-2+b2) ... Setting up libjpeg62-turbo:armhf (1:2.1.5-3+b1) ... Setting up libgnutls-dane0t64:armhf (3.8.8-2) ... Setting up libx11-data (2:1.8.10-2) ... Setting up libjpeg62-turbo-dev:armhf (1:2.1.5-3+b1) ... Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libjsoncpp26:armhf (1.9.6-3) ... Setting up xfonts-encodings (1:1.0.4-2.2) ... Setting up libfribidi0:armhf (1.0.15-1) ... Setting up libimagequant0:armhf (2.18.0-1+b2) ... Setting up libproc2-0:armhf (2:4.0.4-6) ... Setting up comerr-dev:armhf (2.1-1.47.1-1+b1) ... Setting up fonts-dejavu-mono (2.37-8) ... Setting up libssl-dev:armhf (3.3.2-2) ... Setting up libpng16-16t64:armhf (1.6.44-2) ... Setting up libtcl8.6:armhf (8.6.15+dfsg-2) ... Setting up autopoint (0.22.5-2) ... Setting up icu-devtools (72.1-5+b1) ... Setting up fonts-dejavu-core (2.37-8) ... Setting up pkgconf-bin (1.8.1-4) ... Setting up libk5crypto3:armhf (1.21.3-3) ... Setting up libidn2-dev:armhf (2.3.7-2+b1) ... Setting up libboost-test1.83.0:armhf (1.83.0-3.2+b1) ... Setting up libsasl2-2:armhf (2.1.28+dfsg1-8) ... Setting up libgfortran5:armhf (14.2.0-8) ... Setting up autoconf (2.72-3) ... Setting up libnghttp3-9:armhf (1.4.0-1+b1) ... Setting up libwebp7:armhf (1.4.0-0.1+b1) ... Setting up zlib1g-dev:armhf (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up libnuma1:armhf (2.0.18-1+b1) ... Setting up dwz (0.15-1+b2) ... Setting up sensible-utils (0.0.24) ... Setting up libtiff6:armhf (4.5.1+git230720-5) ... Setting up libuchardet0:armhf (0.0.8-1+b2) ... Setting up procps (2:4.0.4-6) ... Setting up libboost-graph1.83.0:armhf (1.83.0-3.2+b1) ... Setting up daligner (1.0+git20240119.335105d-3) ... Setting up liblua5.4-0:armhf (5.4.6-3+b2) ... Setting up libopenjp2-7:armhf (2.5.0-2+b4) ... Setting up libx11-6:armhf (2:1.8.10-2) ... Setting up netbase (6.4) ... Setting up libngtcp2-16:armhf (1.6.0-1) ... Setting up sgml-base (1.31) ... Setting up cmake-data (3.31.1-1) ... Setting up librhash1:armhf (1.4.5-1) ... Setting up libkrb5-3:armhf (1.21.3-3) ... Setting up libboost-dev:armhf (1.83.0.2+b2) ... Setting up libssh2-1t64:armhf (1.11.1-1) ... Setting up pandoc-data (3.1.11.1-3) ... 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:armhf (4.19.0-3+b3) ... Setting up libwebpmux3:armhf (1.4.0-0.1+b1) ... Setting up libcatch2-dev (3.7.1-0.4) ... Setting up readline-common (8.2-5) ... Setting up libicu-dev:armhf (72.1-5+b1) ... Setting up libxml2:armhf (2.12.7+dfsg+really2.9.14-0.2+b1) ... Setting up libbrotli-dev:armhf (1.1.0-2+b6) ... Setting up libfmt10:armhf (10.1.1+ds1-4) ... Setting up libngtcp2-crypto-gnutls8:armhf (1.6.0-1) ... Setting up libp11-kit-dev:armhf (0.25.5-2+b1) ... Setting up libsz2:armhf (1.1.3-1+b1) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... Setting up catch2 (3.7.1-0.4) ... Setting up liblapack3:armhf (3.12.0-4) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode Setting up gettext (0.22.5-2) ... Setting up libgmp-dev:armhf (2:6.3.0+dfsg-2+b2) ... Setting up libspdlog1.12:armhf (1:1.12.0+ds-2+b3) ... Setting up nettle-dev:armhf (3.10-1+b1) ... Setting up libxrender1:armhf (1:0.9.10-1.1+b2) ... Setting up libtool (2.4.7-8) ... Setting up fontconfig-config (2.15.0-1.1+b1) ... Setting up libwebpdemux2:armhf (1.4.0-0.1+b1) ... Setting up libaec-dev:armhf (1.1.3-1+b1) ... Setting up libboost-serialization1.83-dev:armhf (1.83.0-3.2+b1) ... Setting up libjpeg-dev:armhf (1:2.1.5-3+b1) ... Setting up libxext6:armhf (2:1.3.4-1+b2) ... Setting up libboost-test1.83-dev:armhf (1.83.0-3.2+b1) ... Setting up libldap-2.5-0:armhf (2.5.18+dfsg-3+b1) ... Setting up pkgconf:armhf (1.8.1-4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... Setting up pandoc (3.1.11.1+ds-2) ... Setting up libfreetype6:armhf (2.13.3+dfsg-1) ... Setting up libldap-dev:armhf (2.5.18+dfsg-3+b1) ... Setting up libgssapi-krb5-2:armhf (1.21.3-3) ... Setting up libfmt-dev:armhf (10.1.1+ds1-4) ... Setting up libboost-regex1.83-dev:armhf (1.83.0-3.2+b1) ... Setting up libssh2-1-dev:armhf (1.11.1-1) ... Setting up libreadline8t64:armhf (8.2-5) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up groff-base (1.23.0-5) ... Setting up xml-core (0.19) ... Setting up libxslt1.1:armhf (1.1.35-1.1+b1) ... Setting up libharfbuzz0b:armhf (10.0.1-1) ... Setting up libxss1:armhf (1:1.2.3-1+b2) ... Setting up libfontconfig1:armhf (2.15.0-1.1+b1) ... Setting up libarchive13t64:armhf (3.7.4-1.1) ... Setting up liblbfgsb0:armhf (3.0+dfsg.4-1+b2) ... Setting up libgnutls28-dev:armhf (3.8.8-2) ... Setting up libnghttp2-dev:armhf (1.64.0-1) ... Setting up libxft2:armhf (2.3.6-1+b2) ... Setting up libcurl4t64:armhf (8.11.0-1) ... Setting up libtirpc3t64:armhf (1.3.4+ds-1.3+b1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libtk8.6:armhf (8.6.15-1) ... Setting up python3.12-tk (3.12.7-3) ... Setting up libcurl3t64-gnutls:armhf (8.11.0-1) ... Setting up xfonts-utils (1:7.7+7) ... Setting up libspdlog-dev:armhf (1:1.12.0+ds-2+b3) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libboost-graph1.83-dev:armhf (1.83.0-3.2+b1) ... Setting up libcairo2:armhf (1.18.2-2) ... Setting up python3.13-tk (3.13.0-2) ... Setting up libgssrpc4t64:armhf (1.21.3-3) ... Setting up libraqm0:armhf (0.10.1-1+b2) ... Setting up librtmp-dev:armhf (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libnsl2:armhf (1.3.0-3+b3) ... Setting up cmake (3.31.1-1) ... Setting up libhts3t64:armhf (1.20+ds-2) ... 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Setting up python3-autocommand (2.2.2-3) ... Setting up python3-ujson:armhf (5.10.0-1+b3) ... Setting up python3-tz (2024.1-2) ... Setting up python3-six (1.16.0-7) ... Setting up libkrb5-dev:armhf (1.21.3-3) ... Setting up python3-pil:armhf (10.4.0-1+b1) ... Setting up python3-decorator (5.1.1-5) ... Setting up python3-packaging (24.2-1) ... Setting up python3-pyparsing (3.1.2-1) ... Setting up libcurl4-openssl-dev:armhf (8.11.0-1) ... Setting up python3-brotli (1.1.0-2+b6) ... Setting up python3-cycler (0.12.1-1) ... Setting up libhdf5-dev (1.10.10+repack-4) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/pkgconfig/hdf5-serial.pc to provide /usr/lib/arm-linux-gnueabihf/pkgconfig/hdf5.pc (hdf5.pc) in auto mode Setting up python3-kiwisolver (1.4.7-2+b1) ... Setting up python3-typing-extensions (4.12.2-2) ... Setting up python3-lxml:armhf (5.3.0-1+b1) ... Setting up python3-dateutil (2.9.0-3) ... Setting up python3-mpmath (1.3.0-1) ... 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Building tag database... -> Finished parsing the build-deps I: Building the package I: user script /srv/workspace/pbuilder/944/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for unstable I: user script /srv/workspace/pbuilder/944/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 armhf debian/rules clean dh clean dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure cd obj-arm-linux-gnueabihf && 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/arm-linux-gnueabihf .. 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/arm-linux-gnueabihf/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/arm-linux-gnueabihf/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 (1.3s) CMake Warning (dev) at src/filter/CMakeLists.txt:4 (add_executable): Policy CMP0115 is not set: Source file extensions must be explicit. Run "cmake --help-policy CMP0115" for policy details. Use the cmake_policy command to set the policy and suppress this warning. File: /build/reproducible-path/hinge-0.5.0/src/filter/filter.cpp This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at src/maximal/CMakeLists.txt:4 (add_executable): Policy CMP0115 is not set: Source file extensions must be explicit. Run "cmake --help-policy CMP0115" for policy details. Use the cmake_policy command to set the policy and suppress this warning. File: /build/reproducible-path/hinge-0.5.0/src/maximal/maximal.cpp This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at src/consensus/CMakeLists.txt:4 (add_executable): Policy CMP0115 is not set: Source file extensions must be explicit. Run "cmake --help-policy CMP0115" for policy details. Use the cmake_policy command to set the policy and suppress this warning. File: /build/reproducible-path/hinge-0.5.0/src/consensus/draft.cpp This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at src/layout/CMakeLists.txt:9 (add_executable): Policy CMP0115 is not set: Source file extensions must be explicit. Run "cmake --help-policy CMP0115" for policy details. Use the cmake_policy command to set the policy and suppress this warning. File: /build/reproducible-path/hinge-0.5.0/src/layout/hinging.cpp This warning is for project developers. Use -Wno-dev to suppress it. -- Generating done (0.1s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf dh_auto_build cd obj-arm-linux-gnueabihf && make -j4 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/build/reproducible-path/hinge-0.5.0 -B/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/CMakeFiles /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' 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[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf && /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-arm-linux-gnueabihf /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/bin /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/bin/CMakeFiles/man.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf && /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-arm-linux-gnueabihf /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/bin/lib /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/bin/lib/CMakeFiles/ini.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf && /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-arm-linux-gnueabihf /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/bin/lib /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/bin/lib/CMakeFiles/DB.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf && /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-arm-linux-gnueabihf /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/bin/lib /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/bin/lib/CMakeFiles/LA.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' 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 -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-arm-linux-gnueabihf' make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' make -f bin/lib/CMakeFiles/LA.dir/build.make bin/lib/CMakeFiles/LA.dir/build make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' [ 10%] Building C object bin/lib/CMakeFiles/DB.dir/DB.c.o [ 10%] Building C object bin/lib/CMakeFiles/ini.dir/ini.c.o [ 10%] Generating hinge.1 cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/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 -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -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-arm-linux-gnueabihf/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-arm-linux-gnueabihf/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 -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -MD -MT bin/lib/CMakeFiles/DB.dir/DB.c.o -MF CMakeFiles/DB.dir/DB.c.o.d -o CMakeFiles/DB.dir/DB.c.o -c /build/reproducible-path/hinge-0.5.0/src/lib/DB.c [ 13%] Building C object bin/lib/CMakeFiles/LA.dir/align.c.o cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/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 -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -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 /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); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' [ 13%] Built target man 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-arm-linux-gnueabihf' cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf && /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-arm-linux-gnueabihf /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/bin/lib /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/bin/lib/CMakeFiles/PAF.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' 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-arm-linux-gnueabihf' [ 17%] Building C object bin/lib/CMakeFiles/PAF.dir/paf.c.o cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/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 -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -MD -MT bin/lib/CMakeFiles/PAF.dir/paf.c.o -MF CMakeFiles/PAF.dir/paf.c.o.d -o CMakeFiles/PAF.dir/paf.c.o -c /build/reproducible-path/hinge-0.5.0/src/lib/paf.c [ 20%] Building CXX object bin/lib/CMakeFiles/ini.dir/INIReader.cpp.o cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/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 -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -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 [ 24%] Linking C static library libPAF.a cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/bin/lib && /usr/bin/cmake -P CMakeFiles/PAF.dir/cmake_clean_target.cmake cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/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-arm-linux-gnueabihf' [ 24%] Built target PAF 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-arm-linux-gnueabihf' cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf && /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-arm-linux-gnueabihf /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/bin/lib /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/bin/lib/CMakeFiles/kmer_lookup.dir/DependInfo.cmake "--color=" /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 40 [-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) | ^~~~~~~~~~~~ make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' 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-arm-linux-gnueabihf' [ 27%] Building C object bin/lib/CMakeFiles/kmer_lookup.dir/kmer_lookup.c.o cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/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 -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -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 [ 31%] Linking C static library libkmer_lookup.a cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/bin/lib && /usr/bin/cmake -P CMakeFiles/kmer_lookup.dir/cmake_clean_target.cmake cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/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-arm-linux-gnueabihf' [ 31%] Built target kmer_lookup 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-arm-linux-gnueabihf' cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf && /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-arm-linux-gnueabihf /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/bin/lib /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/bin/lib/CMakeFiles/DW_banded.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' make -f bin/lib/CMakeFiles/DW_banded.dir/build.make bin/lib/CMakeFiles/DW_banded.dir/build make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' [ 34%] Building C object bin/lib/CMakeFiles/DW_banded.dir/DW_banded.c.o cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/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 -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -MD -MT bin/lib/CMakeFiles/DW_banded.dir/DW_banded.c.o -MF CMakeFiles/DW_banded.dir/DW_banded.c.o.d -o CMakeFiles/DW_banded.dir/DW_banded.c.o -c /build/reproducible-path/hinge-0.5.0/src/lib/DW_banded.c /build/reproducible-path/hinge-0.5.0/src/lib/DB.c: In function '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) | ^~~~~~~~~~~~ [ 37%] Linking C static library libDW_banded.a cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/bin/lib && /usr/bin/cmake -P CMakeFiles/DW_banded.dir/cmake_clean_target.cmake [ 41%] Building C object bin/lib/CMakeFiles/DB.dir/QV.c.o cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/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 -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -MD -MT bin/lib/CMakeFiles/DB.dir/QV.c.o -MF CMakeFiles/DB.dir/QV.c.o.d -o CMakeFiles/DB.dir/QV.c.o -c /build/reproducible-path/hinge-0.5.0/src/lib/QV.c cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/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-arm-linux-gnueabihf' [ 41%] Built target DW_banded 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-arm-linux-gnueabihf' cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf && /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-arm-linux-gnueabihf /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/bin/lib /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/bin/lib/CMakeFiles/falcon.dir/DependInfo.cmake "--color=" /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; | ^ make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' 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-arm-linux-gnueabihf' [ 44%] Building C object bin/lib/CMakeFiles/falcon.dir/falcon.c.o cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/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 -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -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 CXX static library libini.a cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/bin/lib && /usr/bin/cmake -P CMakeFiles/ini.dir/cmake_clean_target.cmake cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/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-arm-linux-gnueabihf' [ 48%] Built target ini [ 51%] Linking C static library libfalcon.a cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/bin/lib && /usr/bin/cmake -P CMakeFiles/falcon.dir/cmake_clean_target.cmake cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/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-arm-linux-gnueabihf' [ 51%] Built target falcon [ 55%] Linking C static library libDB.a cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/bin/lib && /usr/bin/cmake -P CMakeFiles/DB.dir/cmake_clean_target.cmake cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/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-arm-linux-gnueabihf' [ 55%] Built target DB [ 58%] Linking C static library libLA.a cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/bin/lib && /usr/bin/cmake -P CMakeFiles/LA.dir/cmake_clean_target.cmake cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/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-arm-linux-gnueabihf' [ 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-arm-linux-gnueabihf' cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf && /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-arm-linux-gnueabihf /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/bin/lib /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/bin/lib/CMakeFiles/LAInterface.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' 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-arm-linux-gnueabihf' [ 62%] Building CXX object bin/lib/CMakeFiles/LAInterface.dir/LAInterface.cpp.o cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/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 -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -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-arm-linux-gnueabihf/bin/lib && /usr/bin/cmake -P CMakeFiles/LAInterface.dir/cmake_clean_target.cmake cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/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-arm-linux-gnueabihf' [ 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[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf && /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-arm-linux-gnueabihf /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/bin/filter /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/bin/filter/CMakeFiles/Reads_filter.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf && /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-arm-linux-gnueabihf /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/bin/maximal /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/bin/maximal/CMakeFiles/get_maximal_reads.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf && /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-arm-linux-gnueabihf /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/bin/consensus /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/bin/consensus/CMakeFiles/draft_assembly.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf && /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-arm-linux-gnueabihf /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/bin/consensus /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/bin/consensus/CMakeFiles/consensus.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' 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-arm-linux-gnueabihf' make -f bin/filter/CMakeFiles/Reads_filter.dir/build.make bin/filter/CMakeFiles/Reads_filter.dir/build make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' make -f bin/consensus/CMakeFiles/draft_assembly.dir/build.make bin/consensus/CMakeFiles/draft_assembly.dir/build make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' make -f bin/consensus/CMakeFiles/consensus.dir/build.make bin/consensus/CMakeFiles/consensus.dir/build make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' make[3]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' [ 72%] Building CXX object bin/maximal/CMakeFiles/get_maximal_reads.dir/maximal.cpp.o [ 72%] Building CXX object bin/filter/CMakeFiles/Reads_filter.dir/filter.cpp.o [ 75%] Building CXX object bin/consensus/CMakeFiles/consensus.dir/consensus.cpp.o [ 79%] Building CXX object bin/consensus/CMakeFiles/draft_assembly.dir/draft.cpp.o cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/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 -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -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 cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/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 -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -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 cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/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 -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -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-arm-linux-gnueabihf/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 -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -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 /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 [ 82%] Linking CXX executable consensus cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/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 -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -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-arm-linux-gnueabihf' [ 82%] Built target consensus 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-arm-linux-gnueabihf' cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf && /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-arm-linux-gnueabihf /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/bin/layout /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/bin/layout/CMakeFiles/hinging.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' 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-arm-linux-gnueabihf' [ 86%] Building CXX object bin/layout/CMakeFiles/hinging.dir/hinging.cpp.o cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/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 -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -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 /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-arm-linux-gnueabihf/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 -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -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-arm-linux-gnueabihf' [ 89%] Built target get_maximal_reads [ 93%] Linking CXX executable Reads_filter cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/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 -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -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-arm-linux-gnueabihf' [ 93%] Built target Reads_filter [ 96%] Linking CXX executable draft_assembly cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/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 -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -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-arm-linux-gnueabihf' [ 96%] Built target draft_assembly [100%] Linking CXX executable hinging cd /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/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 -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -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/arm-linux-gnueabihf/libboost_graph.a ../lib/libLA.a ../lib/libDB.a ../lib/libPAF.a -lz /usr/lib/arm-linux-gnueabihf/libboost_regex.a -licudata -licui18n -licuuc make[3]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' [100%] Built target hinging make[2]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf/CMakeFiles 0 make[1]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/hinge/ cd obj-arm-linux-gnueabihf && make -j4 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-arm-linux-gnueabihf' /usr/bin/cmake -S/build/reproducible-path/hinge-0.5.0 -B/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/reproducible-path/hinge-0.5.0/obj-arm-linux-gnueabihf' 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/parse_read.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/pruning_and_clipping.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/connected.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/compute_n50_from_draft.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.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.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/draw_pileup_region.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/fasta_to_fastq.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/get_NCTC_json.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/draft_assembly_not_perfect.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/Visualise_graph.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/add_groundtruth_json.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/create_bandage_file.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/random_condensation.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/condense_graph_with_gt.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/get_draft_path.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/get_draft_path_norevcomp.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/run_parse_read.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/clip_ends.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/run_mapping3.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/draw_pileup_region_find_bridges.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/condense_graph_and_annotate.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/parse_qv.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/create_hgraph_nogt.py -- Installing: /build/reproducible-path/hinge-0.5.0/debian/hinge/usr/lib/hinge/run_mapping2.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/longest_path.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/pipeline_nctc.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/create_hgraph.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/draw2_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/correct_head.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/draft_assembly.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-arm-linux-gnueabihf' 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 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-armhf.so.3 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-armhf.so.3.usr-is-merged dpkg-shlibdeps: warning: debian/hinge/usr/lib/hinge/hinging contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/hinge/usr/lib/hinge/draft_assembly contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/hinge/usr/lib/hinge/Reads_filter contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/hinge/usr/lib/hinge/get_maximal_reads contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'hinge-dbgsym' in '../hinge-dbgsym_0.5.0-7_armhf.deb'. dpkg-deb: building package 'hinge' in '../hinge_0.5.0-7_armhf.deb'. dpkg-genbuildinfo --build=binary -O../hinge_0.5.0-7_armhf.buildinfo dpkg-genchanges --build=binary -O../hinge_0.5.0-7_armhf.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/944/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/944/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/944 and its subdirectories I: Current time: Sat Nov 23 20:28:55 +14 2024 I: pbuilder-time-stamp: 1732343335