Sat Jan 13 21:11:03 UTC 2024 I: starting to build minimap2/bullseye/i386 on jenkins on '2024-01-13 21:08' Sat Jan 13 21:11:03 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/i386_4/6781/console.log Sat Jan 13 21:11:03 UTC 2024 I: Downloading source for bullseye/minimap2=2.17+dfsg-12 --2024-01-13 21:11:03-- http://cdn-fastly.deb.debian.org/debian/pool/main/m/minimap2/minimap2_2.17%2bdfsg-12.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2268 (2.2K) [text/prs.lines.tag] Saving to: ‘minimap2_2.17+dfsg-12.dsc’ 0K .. 100% 2.03M=0.001s 2024-01-13 21:11:03 (2.03 MB/s) - ‘minimap2_2.17+dfsg-12.dsc’ saved [2268/2268] Sat Jan 13 21:11:03 UTC 2024 I: minimap2_2.17+dfsg-12.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: minimap2 Binary: minimap2, libminimap2-dev, python3-mappy Architecture: any Version: 2.17+dfsg-12 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://github.com/lh3/minimap2 Standards-Version: 4.5.0 Vcs-Browser: https://salsa.debian.org/med-team/minimap2 Vcs-Git: https://salsa.debian.org/med-team/minimap2.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), dh-python, cython3, python3-all-dev, d-shlibs, zlib1g-dev, texlive-latex-extra, texlive-science, texlive-font-utils, ghostscript, gnuplot, libsimde-dev Package-List: libminimap2-dev deb libdevel optional arch=any minimap2 deb science optional arch=any python3-mappy deb python optional arch=any Checksums-Sha1: ab726ee235c91a7f377a6e82f74264ba9a2ed83b 169968 minimap2_2.17+dfsg.orig.tar.xz f394b7717cfc7fe3181707c2b5b4d84a346e1d2a 10708 minimap2_2.17+dfsg-12.debian.tar.xz Checksums-Sha256: cf24d57c2823048caf910d6a4ca8243e26c7e48aaf91b2aee27033ffbb13d3ae 169968 minimap2_2.17+dfsg.orig.tar.xz 78218306d62db5036bf00f0b48f01bd07492920e1aa3b5e7558ea0274e2aa147 10708 minimap2_2.17+dfsg-12.debian.tar.xz Files: 99e9809bf6b7722fae69f6b5351b182a 169968 minimap2_2.17+dfsg.orig.tar.xz dc1b8a1ae2921c4ed1ad850e5723409f 10708 minimap2_2.17+dfsg-12.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAl9gghERHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtETyw/+JMx9+IbjCqBPhwS3+2pJPeBKjKQdegk1 uyTGdgrWzQ2AxGxsfVY19sz4ybi3Xtn2hD0iXjBeoG/ckN7688HeJlyUfea8djGw GjDpMhrXN4Vg+Gxw+axd4GEGrjHDY7I64wSGqLCl5Lc2WCvihUJm6sV5zkXVpmVt WOIJ7F2Zse9u4+OYq24D77oSC0PtP315diWwoK3WeGMuW5AdwFLVV6D3rveqnr8x Mwm/M2v5rBoH8oUJJjIM9MIsHYqUka0ERLfpMrejhudE2tRb/tXmucx0Sd1RPAy+ g9VkSKWqWNKiqMtuxx0S33WCN8AWj2LTqqwKWkWdle5XQ8WNWOJ691toBgEsBlP+ CK+VBmh/+pg1aW22rSeRjoHry4l26mFfp0siqdapKpqV7kCGVPImFM1xDiBre8vm bCDKWWLnDfAPQ8fHvrjxKlhGqh3OyZfAOQQ9LY6GnCMxqs4u79p1Wkh4sk76Q8tv BNUd/Oj1t/EJNq2hTxVqDptHhMUhxqjjokO9ucSmptdTctk3FU2c7QFVmhsIBXAw hWCLvQ9AV7giTAtNUnQchlNjx4qtrut098vp/jfWYwuLwTekcVZfMVDPyTU4KR05 WKPzHhJl0eu5YJAUV6P9YNWkqFzQLsnEKIJIMTajPw/YzexCt8QXNG/V3BlJ4uFD slubkJ1p9+w= =4ju5 -----END PGP SIGNATURE----- Sat Jan 13 21:11:03 UTC 2024 I: Checking whether the package is not for us Sat Jan 13 21:11:03 UTC 2024 I: Starting 1st build on remote node ionos16-i386.debian.net. Sat Jan 13 21:11:03 UTC 2024 I: Preparing to do remote build '1' on ionos16-i386.debian.net. Sat Jan 13 21:12:54 UTC 2024 I: Deleting $TMPDIR on ionos16-i386.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Fri Feb 14 15:34:02 -12 2025 I: pbuilder-time-stamp: 1739590442 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: using eatmydata during job I: Copying source file I: copying [minimap2_2.17+dfsg-12.dsc] I: copying [./minimap2_2.17+dfsg.orig.tar.xz] I: copying [./minimap2_2.17+dfsg-12.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.CQI_4aMe/trustedkeys.kbx': General error gpgv: Signature made Tue Sep 15 08:57:53 2020 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./minimap2_2.17+dfsg-12.dsc dpkg-source: info: extracting minimap2 in minimap2-2.17+dfsg dpkg-source: info: unpacking minimap2_2.17+dfsg.orig.tar.xz dpkg-source: info: unpacking minimap2_2.17+dfsg-12.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying hardening.patch dpkg-source: info: applying do_not_use_natbib.bst.patch dpkg-source: info: applying simde dpkg-source: info: applying ar.patch dpkg-source: info: applying link_mappy_to_libminimap.patch dpkg-source: info: applying python-sse4-arch.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/35922/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='i386' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=16 ' DISTRIBUTION='bullseye' HOME='/root' HOST_ARCH='i386' IFS=' ' INVOCATION_ID='5da6f3fccd5449c0af6db591d90b6b8d' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' LD_LIBRARY_PATH='/usr/lib/libeatmydata' LD_PRELOAD='libeatmydata.so' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='35922' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.POd6gH2a/pbuilderrc_jJkA --distribution bullseye --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.POd6gH2a/b1 --logfile b1/build.log minimap2_2.17+dfsg-12.dsc' SUDO_GID='112' SUDO_UID='107' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://85.184.249.68:3128' I: uname -a Linux ionos16-i386 6.1.0-17-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.69-1 (2023-12-30) x86_64 GNU/Linux I: ls -l /bin total 5776 -rwxr-xr-x 1 root root 1367848 Mar 27 2022 bash -rwxr-xr-x 3 root root 38280 Jul 20 2020 bunzip2 -rwxr-xr-x 3 root root 38280 Jul 20 2020 bzcat lrwxrwxrwx 1 root root 6 Jul 20 2020 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Jul 20 2020 bzdiff lrwxrwxrwx 1 root root 6 Jul 20 2020 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Sep 4 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 20 2020 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Jul 20 2020 bzgrep -rwxr-xr-x 3 root root 38280 Jul 20 2020 bzip2 -rwxr-xr-x 1 root root 17768 Jul 20 2020 bzip2recover lrwxrwxrwx 1 root root 6 Jul 20 2020 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 20 2020 bzmore -rwxr-xr-x 1 root root 38824 Sep 22 2020 cat -rwxr-xr-x 1 root root 71624 Sep 22 2020 chgrp -rwxr-xr-x 1 root root 67528 Sep 22 2020 chmod -rwxr-xr-x 1 root root 75752 Sep 22 2020 chown -rwxr-xr-x 1 root root 157960 Sep 22 2020 cp -rwxr-xr-x 1 root root 128724 Dec 10 2020 dash -rwxr-xr-x 1 root root 124904 Sep 22 2020 date -rwxr-xr-x 1 root root 92172 Sep 22 2020 dd -rwxr-xr-x 1 root root 100752 Sep 22 2020 df -rwxr-xr-x 1 root root 153964 Sep 22 2020 dir -rwxr-xr-x 1 root root 83644 Jan 20 2022 dmesg lrwxrwxrwx 1 root root 8 Nov 7 2019 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Nov 7 2019 domainname -> hostname -rwxr-xr-x 1 root root 34664 Sep 22 2020 echo -rwxr-xr-x 1 root root 28 Jan 25 2023 egrep -rwxr-xr-x 1 root root 34664 Sep 22 2020 false -rwxr-xr-x 1 root root 28 Jan 25 2023 fgrep -rwxr-xr-x 1 root root 71928 Jan 20 2022 findmnt -rwsr-xr-x 1 root root 30112 Feb 26 2021 fusermount -rwxr-xr-x 1 root root 210488 Jan 25 2023 grep -rwxr-xr-x 2 root root 2346 Apr 10 2022 gunzip -rwxr-xr-x 1 root root 6447 Apr 10 2022 gzexe -rwxr-xr-x 1 root root 100952 Apr 10 2022 gzip -rwxr-xr-x 1 root root 21916 Nov 7 2019 hostname -rwxr-xr-x 1 root root 83980 Sep 22 2020 ln -rwxr-xr-x 1 root root 55572 Feb 7 2020 login -rwxr-xr-x 1 root root 153964 Sep 22 2020 ls -rwxr-xr-x 1 root root 153124 Jan 20 2022 lsblk -rwxr-xr-x 1 root root 96328 Sep 22 2020 mkdir -rwxr-xr-x 1 root root 79912 Sep 22 2020 mknod -rwxr-xr-x 1 root root 47048 Sep 22 2020 mktemp -rwxr-xr-x 1 root root 58920 Jan 20 2022 more -rwsr-xr-x 1 root root 50720 Jan 20 2022 mount -rwxr-xr-x 1 root root 13856 Jan 20 2022 mountpoint -rwxr-xr-x 1 root root 157996 Sep 22 2020 mv lrwxrwxrwx 1 root root 8 Nov 7 2019 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Dec 16 2021 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 38824 Sep 22 2020 pwd lrwxrwxrwx 1 root root 4 Mar 27 2022 rbash -> bash -rwxr-xr-x 1 root root 46984 Sep 22 2020 readlink -rwxr-xr-x 1 root root 75720 Sep 22 2020 rm -rwxr-xr-x 1 root root 46984 Sep 22 2020 rmdir -rwxr-xr-x 1 root root 22292 Sep 27 2020 run-parts -rwxr-xr-x 1 root root 125036 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 Feb 8 15:47 sh -> dash -rwxr-xr-x 1 root root 34696 Sep 22 2020 sleep -rwxr-xr-x 1 root root 83880 Sep 22 2020 stty -rwsr-xr-x 1 root root 79396 Jan 20 2022 su -rwxr-xr-x 1 root root 34696 Sep 22 2020 sync -rwxr-xr-x 1 root root 602584 Feb 17 2021 tar -rwxr-xr-x 1 root root 13860 Sep 27 2020 tempfile -rwxr-xr-x 1 root root 108520 Sep 22 2020 touch -rwxr-xr-x 1 root root 34664 Sep 22 2020 true -rwxr-xr-x 1 root root 17768 Feb 26 2021 ulockmgr_server -rwsr-xr-x 1 root root 30236 Jan 20 2022 umount -rwxr-xr-x 1 root root 34664 Sep 22 2020 uname -rwxr-xr-x 2 root root 2346 Apr 10 2022 uncompress -rwxr-xr-x 1 root root 153964 Sep 22 2020 vdir -rwxr-xr-x 1 root root 63024 Jan 20 2022 wdctl lrwxrwxrwx 1 root root 8 Nov 7 2019 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Apr 10 2022 zcat -rwxr-xr-x 1 root root 1678 Apr 10 2022 zcmp -rwxr-xr-x 1 root root 5898 Apr 10 2022 zdiff -rwxr-xr-x 1 root root 29 Apr 10 2022 zegrep -rwxr-xr-x 1 root root 29 Apr 10 2022 zfgrep -rwxr-xr-x 1 root root 2081 Apr 10 2022 zforce -rwxr-xr-x 1 root root 8049 Apr 10 2022 zgrep -rwxr-xr-x 1 root root 2206 Apr 10 2022 zless -rwxr-xr-x 1 root root 1842 Apr 10 2022 zmore -rwxr-xr-x 1 root root 4577 Apr 10 2022 znew I: user script /srv/workspace/pbuilder/35922/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: i386 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), dh-python, cython3, python3-all-dev, d-shlibs, zlib1g-dev, texlive-latex-extra, texlive-science, texlive-font-utils, ghostscript, gnuplot, libsimde-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 17763 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-python; however: Package dh-python is not installed. pbuilder-satisfydepends-dummy depends on cython3; however: Package cython3 is not installed. pbuilder-satisfydepends-dummy depends on python3-all-dev; however: Package python3-all-dev is not installed. pbuilder-satisfydepends-dummy depends on d-shlibs; however: Package d-shlibs is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on texlive-latex-extra; however: Package texlive-latex-extra is not installed. pbuilder-satisfydepends-dummy depends on texlive-science; however: Package texlive-science is not installed. pbuilder-satisfydepends-dummy depends on texlive-font-utils; however: Package texlive-font-utils is not installed. pbuilder-satisfydepends-dummy depends on ghostscript; however: Package ghostscript is not installed. pbuilder-satisfydepends-dummy depends on gnuplot; however: Package gnuplot is not installed. pbuilder-satisfydepends-dummy depends on libsimde-dev; however: Package libsimde-dev is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: adwaita-icon-theme{a} aglfn{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} cython3{a} d-shlibs{a} dbus{a} dbus-user-session{a} dconf-gsettings-backend{a} dconf-service{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dmsetup{a} dwz{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-gfs-baskerville{a} fonts-gfs-porson{a} fonts-lmodern{a} fonts-urw-base35{a} gettext{a} gettext-base{a} ghostscript{a} glib-networking{a} glib-networking-common{a} glib-networking-services{a} gnuplot{a} gnuplot-data{a} gnuplot-qt{a} groff-base{a} gsettings-desktop-schemas{a} gtk-update-icon-cache{a} hicolor-icon-theme{a} intltool-debian{a} libapache-pom-java{a} libapparmor1{a} libarchive-zip-perl{a} libargon2-1{a} libatk-bridge2.0-0{a} libatk1.0-0{a} libatk1.0-data{a} libatspi2.0-0{a} libavahi-client3{a} libavahi-common-data{a} libavahi-common3{a} libbrotli1{a} libbsd0{a} libcairo-gobject2{a} libcairo2{a} libcap2{a} libcolord2{a} libcommons-logging-java{a} libcommons-parent-java{a} libcryptsetup12{a} libcups2{a} libdatrie1{a} libdbus-1-3{a} libdconf1{a} libdebhelper-perl{a} libdeflate0{a} libdevmapper1.02.1{a} libdouble-conversion3{a} libdrm-amdgpu1{a} libdrm-common{a} libdrm-intel1{a} libdrm-nouveau2{a} libdrm-radeon1{a} libdrm2{a} libedit2{a} libegl-mesa0{a} libegl1{a} libelf1{a} libepoxy0{a} libevdev2{a} libexpat1{a} libexpat1-dev{a} libfile-stripnondeterminism-perl{a} libfontbox-java{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgbm1{a} libgd3{a} libgdk-pixbuf-2.0-0{a} libgdk-pixbuf-xlib-2.0-0{a} libgdk-pixbuf2.0-0{a} libgdk-pixbuf2.0-common{a} libgl1{a} libgl1-mesa-dri{a} libglapi-mesa{a} libglib2.0-0{a} libglvnd0{a} libglx-mesa0{a} libglx0{a} libgraphite2-3{a} libgs9{a} libgs9-common{a} libgtk-3-0{a} libgtk-3-common{a} libgudev-1.0-0{a} libharfbuzz0b{a} libice6{a} libicu67{a} libidn11{a} libijs-0.35{a} libinput-bin{a} libinput10{a} libip4tc2{a} libjbig0{a} libjbig2dec0{a} libjpeg62-turbo{a} libjs-jquery{a} libjs-sphinxdoc{a} libjs-underscore{a} libjson-c5{a} libjson-glib-1.0-0{a} libjson-glib-1.0-common{a} libkmod2{a} libkpathsea6{a} liblcms2-2{a} libllvm11{a} liblua5.4-0{a} libmagic-mgc{a} libmagic1{a} libmd0{a} libmd4c0{a} libmpdec3{a} libmtdev1{a} libnotify4{a} libopenjp2-7{a} libpam-systemd{a} libpango-1.0-0{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libpaper-utils{a} libpaper1{a} libpciaccess0{a} libpcre2-16-0{a} libpdfbox-java{a} libpipeline1{a} libpixman-1-0{a} libpng16-16{a} libproxy1v5{a} libpsl5{a} libptexenc1{a} libpython3-all-dev{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.9{a} libpython3.9-dev{a} libpython3.9-minimal{a} libpython3.9-stdlib{a} libqt5core5a{a} libqt5dbus5{a} libqt5gui5{a} libqt5network5{a} libqt5printsupport5{a} libqt5svg5{a} libqt5widgets5{a} libreadline8{a} librest-0.7-0{a} libsensors-config{a} libsensors5{a} libsigsegv2{a} libsimde-dev{a} libsm6{a} libsoup-gnome2.4-1{a} libsoup2.4-1{a} libsub-override-perl{a} libsynctex2{a} libteckit0{a} libtexlua53{a} libtexluajit2{a} libthai-data{a} libthai0{a} libtiff5{a} libtool{a} libuchardet0{a} libvulkan1{a} libwacom-common{a} libwacom2{a} libwayland-client0{a} libwayland-cursor0{a} libwayland-egl1{a} libwayland-server0{a} libwebp6{a} libwxbase3.0-0v5{a} libwxgtk3.0-gtk3-0v5{a} libx11-6{a} libx11-data{a} libx11-xcb1{a} libxau6{a} libxaw7{a} libxcb-dri2-0{a} libxcb-dri3-0{a} libxcb-glx0{a} libxcb-icccm4{a} libxcb-image0{a} libxcb-keysyms1{a} libxcb-present0{a} libxcb-randr0{a} libxcb-render-util0{a} libxcb-render0{a} libxcb-shape0{a} libxcb-shm0{a} libxcb-sync1{a} libxcb-util1{a} libxcb-xfixes0{a} libxcb-xinerama0{a} libxcb-xinput0{a} libxcb-xkb1{a} libxcb1{a} libxcomposite1{a} libxcursor1{a} libxdamage1{a} libxdmcp6{a} libxext6{a} libxfixes3{a} libxi6{a} libxinerama1{a} libxkbcommon-x11-0{a} libxkbcommon0{a} libxml2{a} libxmu6{a} libxpm4{a} libxrandr2{a} libxrender1{a} libxshmfence1{a} libxt6{a} libxxf86vm1{a} libz3-4{a} libzzip-0-13{a} m4{a} man-db{a} media-types{a} po-debconf{a} poppler-data{a} preview-latex-style{a} python3{a} python3-all{a} python3-all-dev{a} python3-dev{a} python3-distutils{a} python3-lib2to3{a} python3-minimal{a} python3.9{a} python3.9-dev{a} python3.9-minimal{a} readline-common{a} sensible-utils{a} shared-mime-info{a} systemd{a} systemd-sysv{a} t1utils{a} tex-common{a} texlive-base{a} texlive-binaries{a} texlive-font-utils{a} texlive-fonts-recommended{a} texlive-lang-greek{a} texlive-latex-base{a} texlive-latex-extra{a} texlive-latex-recommended{a} texlive-pictures{a} texlive-science{a} tzdata{a} ucf{a} x11-common{a} xdg-utils{a} xkb-data{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: at-spi2-core awesome ca-certificates chrony cinnamon curl dunst dvisvgm fonts-droid-fallback gnome-flashback gnome-shell javascript-common libarchive-cpio-perl libfile-mimeinfo-perl libgdk-pixbuf2.0-bin libglib2.0-data libgtk-3-bin libltdl-dev libmail-sendmail-perl libnet-dbus-perl libnss-systemd librsvg2-common libwacom-bin libx11-protocol-perl lmodern lxqt-notificationd lynx mate-notification-daemon mesa-vulkan-drivers notification-daemon notify-osd ntp ntpsec openntpd phosh plasma-workspace ps2eps publicsuffix python3-jarabe qt5-gtk-platformtheme qttranslations5-l10n ruby systemd-timesyncd tex-gyre texlive-plain-generic tipa tk wget x11-utils x11-xserver-utils xdg-user-dirs xfce4-notifyd 0 packages upgraded, 278 newly installed, 0 to remove and 0 not upgraded. Need to get 314 MB of archives. After unpacking 947 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bullseye/main i386 libapparmor1 i386 2.13.6-10 [101 kB] Get: 2 http://deb.debian.org/debian bullseye/main i386 libcap2 i386 1:2.44-1 [24.5 kB] Get: 3 http://deb.debian.org/debian bullseye/main i386 libargon2-1 i386 0~20171227-0.2 [24.1 kB] Get: 4 http://deb.debian.org/debian bullseye/main i386 dmsetup i386 2:1.02.175-2.1 [87.8 kB] Get: 5 http://deb.debian.org/debian bullseye/main i386 libdevmapper1.02.1 i386 2:1.02.175-2.1 [141 kB] Get: 6 http://deb.debian.org/debian bullseye/main i386 libjson-c5 i386 0.15-2+deb11u1 [45.3 kB] Get: 7 http://deb.debian.org/debian bullseye/main i386 libcryptsetup12 i386 2:2.3.7-1+deb11u1 [273 kB] Get: 8 http://deb.debian.org/debian bullseye/main i386 libip4tc2 i386 1.8.7-1 [35.4 kB] Get: 9 http://deb.debian.org/debian bullseye/main i386 libkmod2 i386 28-1 [61.0 kB] Get: 10 http://deb.debian.org/debian bullseye/main i386 systemd i386 247.3-7+deb11u4 [4623 kB] Get: 11 http://deb.debian.org/debian bullseye/main i386 systemd-sysv i386 247.3-7+deb11u4 [114 kB] Get: 12 http://deb.debian.org/debian bullseye/main i386 libdbus-1-3 i386 1.12.28-0+deb11u1 [236 kB] Get: 13 http://deb.debian.org/debian bullseye/main i386 libexpat1 i386 2.2.10-2+deb11u5 [101 kB] Get: 14 http://deb.debian.org/debian bullseye/main i386 dbus i386 1.12.28-0+deb11u1 [255 kB] Get: 15 http://deb.debian.org/debian bullseye/main i386 bsdextrautils i386 2.36.1-8+deb11u1 [149 kB] Get: 16 http://deb.debian.org/debian bullseye/main i386 libuchardet0 i386 0.0.7-1 [67.9 kB] Get: 17 http://deb.debian.org/debian bullseye/main i386 groff-base i386 1.22.4-6 [952 kB] Get: 18 http://deb.debian.org/debian bullseye/main i386 libpipeline1 i386 1.5.3-1 [36.8 kB] Get: 19 http://deb.debian.org/debian bullseye/main i386 man-db i386 2.9.4-2 [1367 kB] Get: 20 http://deb.debian.org/debian bullseye/main i386 libglib2.0-0 i386 2.66.8-1 [1437 kB] Get: 21 http://deb.debian.org/debian bullseye/main i386 libicu67 i386 67.1-7 [8775 kB] Get: 22 http://deb.debian.org/debian bullseye/main i386 libxml2 i386 2.9.10+dfsg-6.7+deb11u4 [728 kB] Get: 23 http://deb.debian.org/debian bullseye/main i386 shared-mime-info i386 2.0-1 [703 kB] Get: 24 http://deb.debian.org/debian bullseye/main i386 libdouble-conversion3 i386 3.1.5-6.1 [44.8 kB] Get: 25 http://deb.debian.org/debian bullseye/main i386 libpcre2-16-0 i386 10.36-2+deb11u1 [232 kB] Get: 26 http://deb.debian.org/debian bullseye/main i386 libqt5core5a i386 5.15.2+dfsg-9 [2539 kB] Get: 27 http://deb.debian.org/debian bullseye/main i386 libbrotli1 i386 1.0.9-2+b2 [286 kB] Get: 28 http://deb.debian.org/debian bullseye/main i386 libpng16-16 i386 1.6.37-3 [303 kB] Get: 29 http://deb.debian.org/debian bullseye/main i386 libfreetype6 i386 2.10.4+dfsg-1+deb11u1 [430 kB] Get: 30 http://deb.debian.org/debian bullseye/main i386 sensible-utils all 0.0.14 [14.8 kB] Get: 31 http://deb.debian.org/debian bullseye/main i386 ucf all 3.0043 [74.0 kB] Get: 32 http://deb.debian.org/debian bullseye/main i386 fonts-dejavu-core all 2.37-2 [1069 kB] Get: 33 http://deb.debian.org/debian bullseye/main i386 fonts-urw-base35 all 20200910-1 [6367 kB] Get: 34 http://deb.debian.org/debian bullseye/main i386 fontconfig-config all 2.13.1-4.2 [281 kB] Get: 35 http://deb.debian.org/debian bullseye/main i386 libfontconfig1 i386 2.13.1-4.2 [358 kB] Get: 36 http://deb.debian.org/debian bullseye/main i386 fontconfig i386 2.13.1-4.2 [417 kB] Get: 37 http://deb.debian.org/debian bullseye/main i386 libdrm-common all 2.4.104-1 [14.9 kB] Get: 38 http://deb.debian.org/debian bullseye/main i386 libdrm2 i386 2.4.104-1 [44.3 kB] Get: 39 http://deb.debian.org/debian bullseye/main i386 libglvnd0 i386 1.3.2-1 [44.1 kB] Get: 40 http://deb.debian.org/debian bullseye/main i386 libwayland-server0 i386 1.18.0-2~exp1.1 [36.0 kB] Get: 41 http://deb.debian.org/debian bullseye/main i386 libgbm1 i386 20.3.5-1 [74.7 kB] Get: 42 http://deb.debian.org/debian bullseye/main i386 libglapi-mesa i386 20.3.5-1 [71.9 kB] Get: 43 http://deb.debian.org/debian bullseye/main i386 libwayland-client0 i386 1.18.0-2~exp1.1 [27.7 kB] Get: 44 http://deb.debian.org/debian bullseye/main i386 libxau6 i386 1:1.0.9-1 [20.0 kB] Get: 45 http://deb.debian.org/debian bullseye/main i386 libmd0 i386 1.0.3-3 [28.9 kB] Get: 46 http://deb.debian.org/debian bullseye/main i386 libbsd0 i386 0.11.3-1+deb11u1 [111 kB] Get: 47 http://deb.debian.org/debian bullseye/main i386 libxdmcp6 i386 1:1.1.2-3 [26.7 kB] Get: 48 http://deb.debian.org/debian bullseye/main i386 libxcb1 i386 1.14-3 [144 kB] Get: 49 http://deb.debian.org/debian bullseye/main i386 libx11-data all 2:1.7.2-1+deb11u1 [311 kB] Get: 50 http://deb.debian.org/debian bullseye/main i386 libx11-6 i386 2:1.7.2-1+deb11u1 [796 kB] Get: 51 http://deb.debian.org/debian bullseye/main i386 libx11-xcb1 i386 2:1.7.2-1+deb11u1 [203 kB] Get: 52 http://deb.debian.org/debian bullseye/main i386 libxcb-dri2-0 i386 1.14-3 [103 kB] Get: 53 http://deb.debian.org/debian bullseye/main i386 libxcb-dri3-0 i386 1.14-3 [103 kB] Get: 54 http://deb.debian.org/debian bullseye/main i386 libxcb-present0 i386 1.14-3 [101 kB] Get: 55 http://deb.debian.org/debian bullseye/main i386 libxcb-sync1 i386 1.14-3 [105 kB] Get: 56 http://deb.debian.org/debian bullseye/main i386 libxcb-xfixes0 i386 1.14-3 [105 kB] Get: 57 http://deb.debian.org/debian bullseye/main i386 libxshmfence1 i386 1.3-1 [8976 B] Get: 58 http://deb.debian.org/debian bullseye/main i386 libegl-mesa0 i386 20.3.5-1 [148 kB] Get: 59 http://deb.debian.org/debian bullseye/main i386 libegl1 i386 1.3.2-1 [36.7 kB] Get: 60 http://deb.debian.org/debian bullseye/main i386 libxcb-glx0 i386 1.14-3 [120 kB] Get: 61 http://deb.debian.org/debian bullseye/main i386 libxcb-shm0 i386 1.14-3 [102 kB] Get: 62 http://deb.debian.org/debian bullseye/main i386 libxdamage1 i386 1:1.1.5-2 [15.9 kB] Get: 63 http://deb.debian.org/debian bullseye/main i386 libxext6 i386 2:1.3.3-1.1 [55.2 kB] Get: 64 http://deb.debian.org/debian bullseye/main i386 libxfixes3 i386 1:5.0.3-2 [22.6 kB] Get: 65 http://deb.debian.org/debian bullseye/main i386 libxxf86vm1 i386 1:1.1.4-1+b2 [21.7 kB] Get: 66 http://deb.debian.org/debian bullseye/main i386 libdrm-amdgpu1 i386 2.4.104-1 [31.5 kB] Get: 67 http://deb.debian.org/debian bullseye/main i386 libpciaccess0 i386 0.16-1 [55.7 kB] Get: 68 http://deb.debian.org/debian bullseye/main i386 libdrm-intel1 i386 2.4.104-1 [74.5 kB] Get: 69 http://deb.debian.org/debian bullseye/main i386 libdrm-nouveau2 i386 2.4.104-1 [28.5 kB] Get: 70 http://deb.debian.org/debian bullseye/main i386 libdrm-radeon1 i386 2.4.104-1 [31.4 kB] Get: 71 http://deb.debian.org/debian bullseye/main i386 libelf1 i386 0.183-1 [171 kB] Get: 72 http://deb.debian.org/debian bullseye/main i386 libedit2 i386 3.1-20191231-2+b1 [101 kB] Get: 73 http://deb.debian.org/debian bullseye/main i386 libz3-4 i386 4.8.10-1 [7737 kB] Get: 74 http://deb.debian.org/debian bullseye/main i386 libllvm11 i386 1:11.0.1-2 [17.7 MB] Get: 75 http://deb.debian.org/debian bullseye/main i386 libsensors-config all 1:3.6.0-7 [32.3 kB] Get: 76 http://deb.debian.org/debian bullseye/main i386 libsensors5 i386 1:3.6.0-7 [53.2 kB] Get: 77 http://deb.debian.org/debian bullseye/main i386 libvulkan1 i386 1.2.162.0-1 [110 kB] Get: 78 http://deb.debian.org/debian bullseye/main i386 libgl1-mesa-dri i386 20.3.5-1 [9948 kB] Get: 79 http://deb.debian.org/debian bullseye/main i386 libglx-mesa0 i386 20.3.5-1 [195 kB] Get: 80 http://deb.debian.org/debian bullseye/main i386 libglx0 i386 1.3.2-1 [39.1 kB] Get: 81 http://deb.debian.org/debian bullseye/main i386 libgl1 i386 1.3.2-1 [83.6 kB] Get: 82 http://deb.debian.org/debian bullseye/main i386 libgraphite2-3 i386 1.3.14-1 [84.0 kB] Get: 83 http://deb.debian.org/debian bullseye/main i386 libharfbuzz0b i386 2.7.4-1 [1490 kB] Get: 84 http://deb.debian.org/debian bullseye/main i386 x11-common all 1:7.7+22 [252 kB] Get: 85 http://deb.debian.org/debian bullseye/main i386 libice6 i386 2:1.0.10-1 [60.8 kB] Get: 86 http://deb.debian.org/debian bullseye/main i386 libevdev2 i386 1.11.0+dfsg-1 [32.4 kB] Get: 87 http://deb.debian.org/debian bullseye/main i386 libmtdev1 i386 1.1.6-1 [23.5 kB] Get: 88 http://deb.debian.org/debian bullseye/main i386 libgudev-1.0-0 i386 234-1 [15.2 kB] Get: 89 http://deb.debian.org/debian bullseye/main i386 libwacom-common all 1.8-2 [49.7 kB] Get: 90 http://deb.debian.org/debian bullseye/main i386 libwacom2 i386 1.8-2 [23.0 kB] Get: 91 http://deb.debian.org/debian bullseye/main i386 libinput-bin i386 1.16.4-3 [23.6 kB] Get: 92 http://deb.debian.org/debian bullseye/main i386 libinput10 i386 1.16.4-3 [131 kB] Get: 93 http://deb.debian.org/debian bullseye/main i386 libjpeg62-turbo i386 1:2.0.6-4 [160 kB] Get: 94 http://deb.debian.org/debian bullseye/main i386 libmd4c0 i386 0.4.7-2 [44.3 kB] Get: 95 http://deb.debian.org/debian bullseye/main i386 libqt5dbus5 i386 5.15.2+dfsg-9 [254 kB] Get: 96 http://deb.debian.org/debian bullseye/main i386 libqt5network5 i386 5.15.2+dfsg-9 [746 kB] Get: 97 http://deb.debian.org/debian bullseye/main i386 libsm6 i386 2:1.2.3-1 [35.7 kB] Get: 98 http://deb.debian.org/debian bullseye/main i386 libxcb-icccm4 i386 0.4.1-1.1 [28.1 kB] Get: 99 http://deb.debian.org/debian bullseye/main i386 libxcb-util1 i386 0.4.0-1+b1 [23.6 kB] Get: 100 http://deb.debian.org/debian bullseye/main i386 libxcb-image0 i386 0.4.0-1+b3 [24.8 kB] Get: 101 http://deb.debian.org/debian bullseye/main i386 libxcb-keysyms1 i386 0.4.0-1+b2 [16.7 kB] Get: 102 http://deb.debian.org/debian bullseye/main i386 libxcb-randr0 i386 1.14-3 [114 kB] Get: 103 http://deb.debian.org/debian bullseye/main i386 libxcb-render0 i386 1.14-3 [112 kB] Get: 104 http://deb.debian.org/debian bullseye/main i386 libxcb-render-util0 i386 0.3.9-1+b1 [18.7 kB] Get: 105 http://deb.debian.org/debian bullseye/main i386 libxcb-shape0 i386 1.14-3 [102 kB] Get: 106 http://deb.debian.org/debian bullseye/main i386 libxcb-xinerama0 i386 1.14-3 [101 kB] Get: 107 http://deb.debian.org/debian bullseye/main i386 libxcb-xinput0 i386 1.14-3 [129 kB] Get: 108 http://deb.debian.org/debian bullseye/main i386 libxcb-xkb1 i386 1.14-3 [127 kB] Get: 109 http://deb.debian.org/debian bullseye/main i386 xkb-data all 2.29-2 [655 kB] Get: 110 http://deb.debian.org/debian bullseye/main i386 libxkbcommon0 i386 1.0.3-2 [107 kB] Get: 111 http://deb.debian.org/debian bullseye/main i386 libxkbcommon-x11-0 i386 1.0.3-2 [17.6 kB] Get: 112 http://deb.debian.org/debian bullseye/main i386 libxrender1 i386 1:0.9.10-1 [34.1 kB] Get: 113 http://deb.debian.org/debian bullseye/main i386 libqt5gui5 i386 5.15.2+dfsg-9 [5795 kB] Get: 114 http://deb.debian.org/debian bullseye/main i386 libqt5widgets5 i386 5.15.2+dfsg-9 [2628 kB] Get: 115 http://deb.debian.org/debian bullseye/main i386 libqt5svg5 i386 5.15.2-3 [148 kB] Get: 116 http://deb.debian.org/debian bullseye/main i386 poppler-data all 0.4.10-1 [1602 kB] Get: 117 http://deb.debian.org/debian bullseye/main i386 libpython3.9-minimal i386 3.9.2-1 [801 kB] Get: 118 http://deb.debian.org/debian bullseye/main i386 python3.9-minimal i386 3.9.2-1 [1956 kB] Get: 119 http://deb.debian.org/debian bullseye/main i386 python3-minimal i386 3.9.2-3 [38.2 kB] Get: 120 http://deb.debian.org/debian bullseye/main i386 media-types all 4.0.0 [30.3 kB] Get: 121 http://deb.debian.org/debian bullseye/main i386 tzdata all 2021a-1+deb11u10 [286 kB] Get: 122 http://deb.debian.org/debian bullseye/main i386 libmpdec3 i386 2.5.1-1 [91.9 kB] Get: 123 http://deb.debian.org/debian bullseye/main i386 readline-common all 8.1-1 [73.7 kB] Get: 124 http://deb.debian.org/debian bullseye/main i386 libreadline8 i386 8.1-1 [173 kB] Get: 125 http://deb.debian.org/debian bullseye/main i386 libpython3.9-stdlib i386 3.9.2-1 [1703 kB] Get: 126 http://deb.debian.org/debian bullseye/main i386 python3.9 i386 3.9.2-1 [466 kB] Get: 127 http://deb.debian.org/debian bullseye/main i386 libpython3-stdlib i386 3.9.2-3 [21.4 kB] Get: 128 http://deb.debian.org/debian bullseye/main i386 python3 i386 3.9.2-3 [37.9 kB] Get: 129 http://deb.debian.org/debian bullseye/main i386 tex-common all 6.16 [53.7 kB] Get: 130 http://deb.debian.org/debian bullseye/main i386 libmagic-mgc i386 1:5.39-3+deb11u1 [273 kB] Get: 131 http://deb.debian.org/debian bullseye/main i386 libmagic1 i386 1:5.39-3+deb11u1 [135 kB] Get: 132 http://deb.debian.org/debian bullseye/main i386 file i386 1:5.39-3+deb11u1 [69.2 kB] Get: 133 http://deb.debian.org/debian bullseye/main i386 gettext-base i386 0.21-4 [176 kB] Get: 134 http://deb.debian.org/debian bullseye/main i386 libpam-systemd i386 247.3-7+deb11u4 [291 kB] Get: 135 http://deb.debian.org/debian bullseye/main i386 hicolor-icon-theme all 0.17-2 [11.4 kB] Get: 136 http://deb.debian.org/debian bullseye/main i386 libgdk-pixbuf2.0-common all 2.42.2+dfsg-1+deb11u1 [320 kB] Get: 137 http://deb.debian.org/debian bullseye/main i386 libdeflate0 i386 1.7-1 [48.4 kB] Get: 138 http://deb.debian.org/debian bullseye/main i386 libjbig0 i386 2.1-3.1+b2 [31.5 kB] Get: 139 http://deb.debian.org/debian bullseye/main i386 libwebp6 i386 0.6.1-2.1+deb11u2 [269 kB] Get: 140 http://deb.debian.org/debian bullseye/main i386 libtiff5 i386 4.2.0-1+deb11u4 [305 kB] Get: 141 http://deb.debian.org/debian bullseye/main i386 libgdk-pixbuf-2.0-0 i386 2.42.2+dfsg-1+deb11u1 [156 kB] Get: 142 http://deb.debian.org/debian bullseye/main i386 gtk-update-icon-cache i386 3.24.24-4+deb11u3 [88.7 kB] Get: 143 http://deb.debian.org/debian bullseye/main i386 adwaita-icon-theme all 3.38.0-1 [10.9 MB] Get: 144 http://deb.debian.org/debian bullseye/main i386 aglfn all 1.7+git20191031.4036a9c-2 [30.5 kB] Get: 145 http://deb.debian.org/debian bullseye/main i386 libsigsegv2 i386 2.13-1 [35.1 kB] Get: 146 http://deb.debian.org/debian bullseye/main i386 m4 i386 1.4.18-5 [206 kB] Get: 147 http://deb.debian.org/debian bullseye/main i386 autoconf all 2.69-14 [313 kB] Get: 148 http://deb.debian.org/debian bullseye/main i386 autotools-dev all 20180224.1+nmu1 [77.1 kB] Get: 149 http://deb.debian.org/debian bullseye/main i386 automake all 1:1.16.3-2 [814 kB] Get: 150 http://deb.debian.org/debian bullseye/main i386 autopoint all 0.21-4 [510 kB] Get: 151 http://deb.debian.org/debian bullseye/main i386 cython3 i386 0.29.21-3+b1 [1303 kB] Get: 152 http://deb.debian.org/debian bullseye/main i386 d-shlibs all 0.98 [17.9 kB] Get: 153 http://deb.debian.org/debian bullseye/main i386 dbus-user-session i386 1.12.28-0+deb11u1 [100 kB] Get: 154 http://deb.debian.org/debian bullseye/main i386 libdconf1 i386 0.38.0-2 [45.2 kB] Get: 155 http://deb.debian.org/debian bullseye/main i386 dconf-service i386 0.38.0-2 [40.1 kB] Get: 156 http://deb.debian.org/debian bullseye/main i386 dconf-gsettings-backend i386 0.38.0-2 [32.5 kB] Get: 157 http://deb.debian.org/debian bullseye/main i386 libdebhelper-perl all 13.3.4 [189 kB] Get: 158 http://deb.debian.org/debian bullseye/main i386 libtool all 2.4.6-15 [513 kB] Get: 159 http://deb.debian.org/debian bullseye/main i386 dh-autoreconf all 20 [17.1 kB] Get: 160 http://deb.debian.org/debian bullseye/main i386 libarchive-zip-perl all 1.68-1 [104 kB] Get: 161 http://deb.debian.org/debian bullseye/main i386 libsub-override-perl all 0.09-2 [10.2 kB] Get: 162 http://deb.debian.org/debian bullseye/main i386 libfile-stripnondeterminism-perl all 1.12.0-1 [26.3 kB] Get: 163 http://deb.debian.org/debian bullseye/main i386 dh-strip-nondeterminism all 1.12.0-1 [15.4 kB] Get: 164 http://deb.debian.org/debian bullseye/main i386 dwz i386 0.13+20210201-1 [179 kB] Get: 165 http://deb.debian.org/debian bullseye/main i386 gettext i386 0.21-4 [1322 kB] Get: 166 http://deb.debian.org/debian bullseye/main i386 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 167 http://deb.debian.org/debian bullseye/main i386 po-debconf all 1.0.21+nmu1 [248 kB] Get: 168 http://deb.debian.org/debian bullseye/main i386 debhelper all 13.3.4 [1049 kB] Get: 169 http://deb.debian.org/debian bullseye/main i386 python3-lib2to3 all 3.9.2-1 [77.8 kB] Get: 170 http://deb.debian.org/debian bullseye/main i386 python3-distutils all 3.9.2-1 [143 kB] Get: 171 http://deb.debian.org/debian bullseye/main i386 dh-python all 4.20201102+nmu1 [99.4 kB] Get: 172 http://deb.debian.org/debian bullseye/main i386 fonts-gfs-baskerville all 1.1-6 [43.7 kB] Get: 173 http://deb.debian.org/debian bullseye/main i386 fonts-gfs-porson all 1.1-7 [33.8 kB] Get: 174 http://deb.debian.org/debian bullseye/main i386 fonts-lmodern all 2.004.5-6.1 [4540 kB] Get: 175 http://deb.debian.org/debian bullseye/main i386 libgs9-common all 9.53.3~dfsg-7+deb11u6 [735 kB] Get: 176 http://deb.debian.org/debian bullseye/main i386 libavahi-common-data i386 0.8-5+deb11u2 [124 kB] Get: 177 http://deb.debian.org/debian bullseye/main i386 libavahi-common3 i386 0.8-5+deb11u2 [60.4 kB] Get: 178 http://deb.debian.org/debian bullseye/main i386 libavahi-client3 i386 0.8-5+deb11u2 [64.6 kB] Get: 179 http://deb.debian.org/debian bullseye/main i386 libcups2 i386 2.3.3op2-3+deb11u6 [367 kB] Get: 180 http://deb.debian.org/debian bullseye/main i386 libidn11 i386 1.33-3 [117 kB] Get: 181 http://deb.debian.org/debian bullseye/main i386 libijs-0.35 i386 0.35-15 [16.9 kB] Get: 182 http://deb.debian.org/debian bullseye/main i386 libjbig2dec0 i386 0.19-2 [69.9 kB] Get: 183 http://deb.debian.org/debian bullseye/main i386 liblcms2-2 i386 2.12~rc1-2 [161 kB] Get: 184 http://deb.debian.org/debian bullseye/main i386 libopenjp2-7 i386 2.4.0-3 [179 kB] Get: 185 http://deb.debian.org/debian bullseye/main i386 libpaper1 i386 1.1.28+b1 [21.7 kB] Get: 186 http://deb.debian.org/debian bullseye/main i386 libgs9 i386 9.53.3~dfsg-7+deb11u6 [2365 kB] Get: 187 http://deb.debian.org/debian bullseye/main i386 ghostscript i386 9.53.3~dfsg-7+deb11u6 [98.4 kB] Get: 188 http://deb.debian.org/debian bullseye/main i386 libproxy1v5 i386 0.4.17-1 [64.0 kB] Get: 189 http://deb.debian.org/debian bullseye/main i386 glib-networking-common all 2.66.0-2 [68.1 kB] Get: 190 http://deb.debian.org/debian bullseye/main i386 glib-networking-services i386 2.66.0-2 [17.9 kB] Get: 191 http://deb.debian.org/debian bullseye/main i386 gsettings-desktop-schemas all 3.38.0-2 [588 kB] Get: 192 http://deb.debian.org/debian bullseye/main i386 glib-networking i386 2.66.0-2 [73.0 kB] Get: 193 http://deb.debian.org/debian bullseye/main i386 gnuplot-data all 5.4.1+dfsg1-1+deb11u1 [87.5 kB] Get: 194 http://deb.debian.org/debian bullseye/main i386 libpixman-1-0 i386 0.40.0-1.1~deb11u1 [545 kB] Get: 195 http://deb.debian.org/debian bullseye/main i386 libcairo2 i386 1.16.0-5 [746 kB] Get: 196 http://deb.debian.org/debian bullseye/main i386 libxpm4 i386 1:3.5.12-1.1~deb11u1 [51.2 kB] Get: 197 http://deb.debian.org/debian bullseye/main i386 libgd3 i386 2.3.0-2 [142 kB] Get: 198 http://deb.debian.org/debian bullseye/main i386 liblua5.4-0 i386 5.4.2-2 [158 kB] Get: 199 http://deb.debian.org/debian bullseye/main i386 libfribidi0 i386 1.0.8-2+deb11u1 [65.6 kB] Get: 200 http://deb.debian.org/debian bullseye/main i386 libthai-data all 0.1.28-3 [170 kB] Get: 201 http://deb.debian.org/debian bullseye/main i386 libdatrie1 i386 0.2.13-1 [44.5 kB] Get: 202 http://deb.debian.org/debian bullseye/main i386 libthai0 i386 0.1.28-3 [55.3 kB] Get: 203 http://deb.debian.org/debian bullseye/main i386 libpango-1.0-0 i386 1.46.2-3 [197 kB] Get: 204 http://deb.debian.org/debian bullseye/main i386 libpangoft2-1.0-0 i386 1.46.2-3 [65.1 kB] Get: 205 http://deb.debian.org/debian bullseye/main i386 libpangocairo-1.0-0 i386 1.46.2-3 [51.9 kB] Get: 206 http://deb.debian.org/debian bullseye/main i386 libqt5printsupport5 i386 5.15.2+dfsg-9 [239 kB] Get: 207 http://deb.debian.org/debian bullseye/main i386 libwxbase3.0-0v5 i386 3.0.5.1+dfsg-2 [1160 kB] Get: 208 http://deb.debian.org/debian bullseye/main i386 libgdk-pixbuf-xlib-2.0-0 i386 2.40.2-2 [48.0 kB] Get: 209 http://deb.debian.org/debian bullseye/main i386 libgdk-pixbuf2.0-0 i386 2.40.2-2 [14.1 kB] Get: 210 http://deb.debian.org/debian bullseye/main i386 libatk1.0-data all 2.36.0-2 [149 kB] Get: 211 http://deb.debian.org/debian bullseye/main i386 libatk1.0-0 i386 2.36.0-2 [51.9 kB] Get: 212 http://deb.debian.org/debian bullseye/main i386 libatspi2.0-0 i386 2.38.0-4+deb11u1 [75.6 kB] Get: 213 http://deb.debian.org/debian bullseye/main i386 libatk-bridge2.0-0 i386 2.38.0-1 [68.7 kB] Get: 214 http://deb.debian.org/debian bullseye/main i386 libcairo-gobject2 i386 1.16.0-5 [125 kB] Get: 215 http://deb.debian.org/debian bullseye/main i386 libcolord2 i386 1.4.5-3 [151 kB] Get: 216 http://deb.debian.org/debian bullseye/main i386 libepoxy0 i386 1.5.5-1 [196 kB] Get: 217 http://deb.debian.org/debian bullseye/main i386 libjson-glib-1.0-common all 1.6.2-1 [56.9 kB] Get: 218 http://deb.debian.org/debian bullseye/main i386 libjson-glib-1.0-0 i386 1.6.2-1 [69.3 kB] Get: 219 http://deb.debian.org/debian bullseye/main i386 libpsl5 i386 0.21.0-1.2 [57.9 kB] Get: 220 http://deb.debian.org/debian bullseye/main i386 libsoup2.4-1 i386 2.72.0-2 [297 kB] Get: 221 http://deb.debian.org/debian bullseye/main i386 libsoup-gnome2.4-1 i386 2.72.0-2 [22.3 kB] Get: 222 http://deb.debian.org/debian bullseye/main i386 librest-0.7-0 i386 0.8.1-1.1 [35.3 kB] Get: 223 http://deb.debian.org/debian bullseye/main i386 libwayland-cursor0 i386 1.18.0-2~exp1.1 [15.4 kB] Get: 224 http://deb.debian.org/debian bullseye/main i386 libwayland-egl1 i386 1.18.0-2~exp1.1 [8544 B] Get: 225 http://deb.debian.org/debian bullseye/main i386 libxcomposite1 i386 1:0.4.5-1 [16.9 kB] Get: 226 http://deb.debian.org/debian bullseye/main i386 libxcursor1 i386 1:1.2.0-2 [38.8 kB] Get: 227 http://deb.debian.org/debian bullseye/main i386 libxi6 i386 2:1.7.10-1 [85.1 kB] Get: 228 http://deb.debian.org/debian bullseye/main i386 libxinerama1 i386 2:1.1.4-2 [17.9 kB] Get: 229 http://deb.debian.org/debian bullseye/main i386 libxrandr2 i386 2:1.5.1-1 [39.3 kB] Get: 230 http://deb.debian.org/debian bullseye/main i386 libgtk-3-common all 3.24.24-4+deb11u3 [3757 kB] Get: 231 http://deb.debian.org/debian bullseye/main i386 libgtk-3-0 i386 3.24.24-4+deb11u3 [2882 kB] Get: 232 http://deb.debian.org/debian bullseye/main i386 libnotify4 i386 0.7.9-3 [24.3 kB] Get: 233 http://deb.debian.org/debian bullseye/main i386 libwxgtk3.0-gtk3-0v5 i386 3.0.5.1+dfsg-2 [4761 kB] Get: 234 http://deb.debian.org/debian bullseye/main i386 gnuplot-qt i386 5.4.1+dfsg1-1+deb11u1 [1094 kB] Get: 235 http://deb.debian.org/debian bullseye/main i386 gnuplot all 5.4.1+dfsg1-1+deb11u1 [21.2 kB] Get: 236 http://deb.debian.org/debian bullseye/main i386 libapache-pom-java all 18-1 [4676 B] Get: 237 http://deb.debian.org/debian bullseye/main i386 libcommons-parent-java all 43-1 [10.8 kB] Get: 238 http://deb.debian.org/debian bullseye/main i386 libcommons-logging-java all 1.2-2 [62.2 kB] Get: 239 http://deb.debian.org/debian bullseye/main i386 libexpat1-dev i386 2.2.10-2+deb11u5 [149 kB] Get: 240 http://deb.debian.org/debian bullseye/main i386 libfontbox-java all 1:1.8.16-2 [211 kB] Get: 241 http://deb.debian.org/debian bullseye/main i386 libjs-jquery all 3.5.1+dfsg+~3.5.5-7 [315 kB] Get: 242 http://deb.debian.org/debian bullseye/main i386 libjs-underscore all 1.9.1~dfsg-3 [100 kB] Get: 243 http://deb.debian.org/debian bullseye/main i386 libjs-sphinxdoc all 3.4.3-2 [127 kB] Get: 244 http://deb.debian.org/debian bullseye/main i386 libkpathsea6 i386 2020.20200327.54578-7+deb11u1 [176 kB] Get: 245 http://deb.debian.org/debian bullseye/main i386 libpaper-utils i386 1.1.28+b1 [18.6 kB] Get: 246 http://deb.debian.org/debian bullseye/main i386 libpdfbox-java all 1:1.8.16-2 [5205 kB] Get: 247 http://deb.debian.org/debian bullseye/main i386 libptexenc1 i386 2020.20200327.54578-7+deb11u1 [65.2 kB] Get: 248 http://deb.debian.org/debian bullseye/main i386 libpython3.9 i386 3.9.2-1 [1715 kB] Get: 249 http://deb.debian.org/debian bullseye/main i386 libpython3.9-dev i386 3.9.2-1 [3822 kB] Get: 250 http://deb.debian.org/debian bullseye/main i386 libpython3-dev i386 3.9.2-3 [21.7 kB] Get: 251 http://deb.debian.org/debian bullseye/main i386 libpython3-all-dev i386 3.9.2-3 [1068 B] Get: 252 http://deb.debian.org/debian bullseye/main i386 libsimde-dev all 0.7.2-4 [259 kB] Get: 253 http://deb.debian.org/debian bullseye/main i386 libsynctex2 i386 2020.20200327.54578-7+deb11u1 [86.1 kB] Get: 254 http://deb.debian.org/debian bullseye/main i386 libteckit0 i386 2.5.10+ds1-3 [277 kB] Get: 255 http://deb.debian.org/debian bullseye/main i386 libtexlua53 i386 2020.20200327.54578-7+deb11u1 [146 kB] Get: 256 http://deb.debian.org/debian bullseye/main i386 libtexluajit2 i386 2020.20200327.54578-7+deb11u1 [284 kB] Get: 257 http://deb.debian.org/debian bullseye/main i386 libxt6 i386 1:1.2.0-1 [195 kB] Get: 258 http://deb.debian.org/debian bullseye/main i386 libxmu6 i386 2:1.1.2-2+b3 [62.8 kB] Get: 259 http://deb.debian.org/debian bullseye/main i386 libxaw7 i386 2:1.0.13-1.1 [210 kB] Get: 260 http://deb.debian.org/debian bullseye/main i386 libzzip-0-13 i386 0.13.62-3.3+deb11u1 [57.7 kB] Get: 261 http://deb.debian.org/debian bullseye/main i386 preview-latex-style all 12.2-1 [201 kB] Get: 262 http://deb.debian.org/debian bullseye/main i386 python3-all i386 3.9.2-3 [1060 B] Get: 263 http://deb.debian.org/debian bullseye/main i386 zlib1g-dev i386 1:1.2.11.dfsg-2+deb11u2 [194 kB] Get: 264 http://deb.debian.org/debian bullseye/main i386 python3.9-dev i386 3.9.2-1 [515 kB] Get: 265 http://deb.debian.org/debian bullseye/main i386 python3-dev i386 3.9.2-3 [24.8 kB] Get: 266 http://deb.debian.org/debian bullseye/main i386 python3-all-dev i386 3.9.2-3 [1068 B] Get: 267 http://deb.debian.org/debian bullseye/main i386 t1utils i386 1.41-4 [62.3 kB] Get: 268 http://deb.debian.org/debian bullseye/main i386 texlive-binaries i386 2020.20200327.54578-7+deb11u1 [10.1 MB] Get: 269 http://deb.debian.org/debian bullseye/main i386 xdg-utils all 1.1.3-4.1 [75.5 kB] Get: 270 http://deb.debian.org/debian bullseye/main i386 texlive-base all 2020.20210202-3 [20.8 MB] Get: 271 http://deb.debian.org/debian bullseye/main i386 texlive-font-utils all 2020.20210202-3 [4672 kB] Get: 272 http://deb.debian.org/debian bullseye/main i386 texlive-fonts-recommended all 2020.20210202-3 [5002 kB] Get: 273 http://deb.debian.org/debian bullseye/main i386 texlive-lang-greek all 2020.20210202-2 [77.6 MB] Get: 274 http://deb.debian.org/debian bullseye/main i386 texlive-latex-base all 2020.20210202-3 [1120 kB] Get: 275 http://deb.debian.org/debian bullseye/main i386 texlive-latex-recommended all 2020.20210202-3 [14.5 MB] Get: 276 http://deb.debian.org/debian bullseye/main i386 texlive-pictures all 2020.20210202-3 [6743 kB] Get: 277 http://deb.debian.org/debian bullseye/main i386 texlive-latex-extra all 2020.20210202-3 [13.7 MB] Get: 278 http://deb.debian.org/debian bullseye/main i386 texlive-science all 2020.20210202-3 [3367 kB] Fetched 314 MB in 6s (53.5 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libapparmor1:i386. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 17763 files and directories currently installed.) Preparing to unpack .../0-libapparmor1_2.13.6-10_i386.deb ... Unpacking libapparmor1:i386 (2.13.6-10) ... Selecting previously unselected package libcap2:i386. Preparing to unpack .../1-libcap2_1%3a2.44-1_i386.deb ... Unpacking libcap2:i386 (1:2.44-1) ... Selecting previously unselected package libargon2-1:i386. Preparing to unpack .../2-libargon2-1_0~20171227-0.2_i386.deb ... Unpacking libargon2-1:i386 (0~20171227-0.2) ... Selecting previously unselected package dmsetup. Preparing to unpack .../3-dmsetup_2%3a1.02.175-2.1_i386.deb ... Unpacking dmsetup (2:1.02.175-2.1) ... Selecting previously unselected package libdevmapper1.02.1:i386. Preparing to unpack .../4-libdevmapper1.02.1_2%3a1.02.175-2.1_i386.deb ... Unpacking libdevmapper1.02.1:i386 (2:1.02.175-2.1) ... Selecting previously unselected package libjson-c5:i386. Preparing to unpack .../5-libjson-c5_0.15-2+deb11u1_i386.deb ... Unpacking libjson-c5:i386 (0.15-2+deb11u1) ... Selecting previously unselected package libcryptsetup12:i386. Preparing to unpack .../6-libcryptsetup12_2%3a2.3.7-1+deb11u1_i386.deb ... Unpacking libcryptsetup12:i386 (2:2.3.7-1+deb11u1) ... Selecting previously unselected package libip4tc2:i386. Preparing to unpack .../7-libip4tc2_1.8.7-1_i386.deb ... Unpacking libip4tc2:i386 (1.8.7-1) ... Selecting previously unselected package libkmod2:i386. Preparing to unpack .../8-libkmod2_28-1_i386.deb ... Unpacking libkmod2:i386 (28-1) ... Selecting previously unselected package systemd. Preparing to unpack .../9-systemd_247.3-7+deb11u4_i386.deb ... Unpacking systemd (247.3-7+deb11u4) ... Setting up libapparmor1:i386 (2.13.6-10) ... Setting up libcap2:i386 (1:2.44-1) ... Setting up libargon2-1:i386 (0~20171227-0.2) ... Setting up libjson-c5:i386 (0.15-2+deb11u1) ... Setting up libip4tc2:i386 (1.8.7-1) ... Setting up libkmod2:i386 (28-1) ... Setting up libdevmapper1.02.1:i386 (2:1.02.175-2.1) ... Setting up libcryptsetup12:i386 (2:2.3.7-1+deb11u1) ... Setting up systemd (247.3-7+deb11u4) ... Created symlink /etc/systemd/system/getty.target.wants/getty@tty1.service -> /lib/systemd/system/getty@.service. Created symlink /etc/systemd/system/multi-user.target.wants/remote-fs.target -> /lib/systemd/system/remote-fs.target. Created symlink /etc/systemd/system/sysinit.target.wants/systemd-pstore.service -> /lib/systemd/system/systemd-pstore.service. Initializing machine ID from random generator. ERROR: ld.so: object 'libeatmydata.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libeatmydata.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. Setting up dmsetup (2:1.02.175-2.1) ... Selecting previously unselected package systemd-sysv. (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 ... 18618 files and directories currently installed.) Preparing to unpack .../000-systemd-sysv_247.3-7+deb11u4_i386.deb ... Unpacking systemd-sysv (247.3-7+deb11u4) ... Selecting previously unselected package libdbus-1-3:i386. Preparing to unpack .../001-libdbus-1-3_1.12.28-0+deb11u1_i386.deb ... Unpacking libdbus-1-3:i386 (1.12.28-0+deb11u1) ... Selecting previously unselected package libexpat1:i386. Preparing to unpack .../002-libexpat1_2.2.10-2+deb11u5_i386.deb ... Unpacking libexpat1:i386 (2.2.10-2+deb11u5) ... Selecting previously unselected package dbus. Preparing to unpack .../003-dbus_1.12.28-0+deb11u1_i386.deb ... Unpacking dbus (1.12.28-0+deb11u1) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../004-bsdextrautils_2.36.1-8+deb11u1_i386.deb ... Unpacking bsdextrautils (2.36.1-8+deb11u1) ... Selecting previously unselected package libuchardet0:i386. Preparing to unpack .../005-libuchardet0_0.0.7-1_i386.deb ... Unpacking libuchardet0:i386 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../006-groff-base_1.22.4-6_i386.deb ... Unpacking groff-base (1.22.4-6) ... Selecting previously unselected package libpipeline1:i386. Preparing to unpack .../007-libpipeline1_1.5.3-1_i386.deb ... Unpacking libpipeline1:i386 (1.5.3-1) ... Selecting previously unselected package man-db. Preparing to unpack .../008-man-db_2.9.4-2_i386.deb ... Unpacking man-db (2.9.4-2) ... Selecting previously unselected package libglib2.0-0:i386. Preparing to unpack .../009-libglib2.0-0_2.66.8-1_i386.deb ... Unpacking libglib2.0-0:i386 (2.66.8-1) ... Selecting previously unselected package libicu67:i386. Preparing to unpack .../010-libicu67_67.1-7_i386.deb ... Unpacking libicu67:i386 (67.1-7) ... Selecting previously unselected package libxml2:i386. Preparing to unpack .../011-libxml2_2.9.10+dfsg-6.7+deb11u4_i386.deb ... Unpacking libxml2:i386 (2.9.10+dfsg-6.7+deb11u4) ... Selecting previously unselected package shared-mime-info. Preparing to unpack .../012-shared-mime-info_2.0-1_i386.deb ... Unpacking shared-mime-info (2.0-1) ... Selecting previously unselected package libdouble-conversion3:i386. Preparing to unpack .../013-libdouble-conversion3_3.1.5-6.1_i386.deb ... Unpacking libdouble-conversion3:i386 (3.1.5-6.1) ... Selecting previously unselected package libpcre2-16-0:i386. Preparing to unpack .../014-libpcre2-16-0_10.36-2+deb11u1_i386.deb ... Unpacking libpcre2-16-0:i386 (10.36-2+deb11u1) ... Selecting previously unselected package libqt5core5a:i386. Preparing to unpack .../015-libqt5core5a_5.15.2+dfsg-9_i386.deb ... Unpacking libqt5core5a:i386 (5.15.2+dfsg-9) ... Selecting previously unselected package libbrotli1:i386. Preparing to unpack .../016-libbrotli1_1.0.9-2+b2_i386.deb ... Unpacking libbrotli1:i386 (1.0.9-2+b2) ... Selecting previously unselected package libpng16-16:i386. Preparing to unpack .../017-libpng16-16_1.6.37-3_i386.deb ... Unpacking libpng16-16:i386 (1.6.37-3) ... Selecting previously unselected package libfreetype6:i386. Preparing to unpack .../018-libfreetype6_2.10.4+dfsg-1+deb11u1_i386.deb ... Unpacking libfreetype6:i386 (2.10.4+dfsg-1+deb11u1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../019-sensible-utils_0.0.14_all.deb ... Unpacking sensible-utils (0.0.14) ... Selecting previously unselected package ucf. Preparing to unpack .../020-ucf_3.0043_all.deb ... Moving old data out of the way Unpacking ucf (3.0043) ... Selecting previously unselected package fonts-dejavu-core. Preparing to unpack .../021-fonts-dejavu-core_2.37-2_all.deb ... Unpacking fonts-dejavu-core (2.37-2) ... Selecting previously unselected package fonts-urw-base35. Preparing to unpack .../022-fonts-urw-base35_20200910-1_all.deb ... Unpacking fonts-urw-base35 (20200910-1) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../023-fontconfig-config_2.13.1-4.2_all.deb ... Unpacking fontconfig-config (2.13.1-4.2) ... Selecting previously unselected package libfontconfig1:i386. Preparing to unpack .../024-libfontconfig1_2.13.1-4.2_i386.deb ... Unpacking libfontconfig1:i386 (2.13.1-4.2) ... Selecting previously unselected package fontconfig. Preparing to unpack .../025-fontconfig_2.13.1-4.2_i386.deb ... Unpacking fontconfig (2.13.1-4.2) ... Selecting previously unselected package libdrm-common. Preparing to unpack .../026-libdrm-common_2.4.104-1_all.deb ... Unpacking libdrm-common (2.4.104-1) ... Selecting previously unselected package libdrm2:i386. Preparing to unpack .../027-libdrm2_2.4.104-1_i386.deb ... Unpacking libdrm2:i386 (2.4.104-1) ... Selecting previously unselected package libglvnd0:i386. Preparing to unpack .../028-libglvnd0_1.3.2-1_i386.deb ... Unpacking libglvnd0:i386 (1.3.2-1) ... Selecting previously unselected package libwayland-server0:i386. Preparing to unpack .../029-libwayland-server0_1.18.0-2~exp1.1_i386.deb ... Unpacking libwayland-server0:i386 (1.18.0-2~exp1.1) ... Selecting previously unselected package libgbm1:i386. Preparing to unpack .../030-libgbm1_20.3.5-1_i386.deb ... Unpacking libgbm1:i386 (20.3.5-1) ... Selecting previously unselected package libglapi-mesa:i386. Preparing to unpack .../031-libglapi-mesa_20.3.5-1_i386.deb ... Unpacking libglapi-mesa:i386 (20.3.5-1) ... 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Setting up libpaper1:i386 (1.1.28+b1) ... Creating config file /etc/papersize with new version Setting up gtk-update-icon-cache (3.24.24-4+deb11u3) ... Setting up libx11-xcb1:i386 (2:1.7.2-1+deb11u1) ... Setting up libdrm-nouveau2:i386 (2.4.104-1) ... Setting up libxdamage1:i386 (1:1.1.5-2) ... Setting up libgdk-pixbuf-xlib-2.0-0:i386 (2.40.2-2) ... Setting up libxpm4:i386 (1:3.5.12-1.1~deb11u1) ... Setting up libxrender1:i386 (1:0.9.10-1) ... Setting up libgbm1:i386 (20.3.5-1) ... Setting up libdrm-radeon1:i386 (2.4.104-1) ... Setting up fontconfig-config (2.13.1-4.2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libdrm-intel1:i386 (2.4.104-1) ... Setting up libgl1-mesa-dri:i386 (20.3.5-1) ... Setting up libxext6:i386 (2:1.3.3-1.1) ... Setting up dconf-service (0.38.0-2) ... Setting up libpaper-utils (1.1.28+b1) ... Setting up libatspi2.0-0:i386 (2.38.0-4+deb11u1) ... Setting up man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. Created symlink /etc/systemd/system/timers.target.wants/man-db.timer -> /lib/systemd/system/man-db.timer. Setting up libqt5network5:i386 (5.15.2+dfsg-9) ... Setting up libxxf86vm1:i386 (1:1.1.4-1+b2) ... Setting up libinput-bin (1.16.4-3) ... Setting up dh-autoreconf (20) ... Setting up tex-common (6.16) ... update-language: texlive-base not installed and configured, doing nothing! Setting up libatk-bridge2.0-0:i386 (2.38.0-1) ... Setting up libegl-mesa0:i386 (20.3.5-1) ... Setting up libpython3.9:i386 (3.9.2-1) ... Setting up adwaita-icon-theme (3.38.0-1) ... update-alternatives: using /usr/share/icons/Adwaita/cursor.theme to provide /usr/share/icons/default/index.theme (x-cursor-theme) in auto mode Setting up libxfixes3:i386 (1:5.0.3-2) ... Setting up libnotify4:i386 (0.7.9-3) ... Setting up libgdk-pixbuf2.0-0:i386 (2.40.2-2) ... Setting up libxinerama1:i386 (2:1.1.4-2) ... Setting up libxrandr2:i386 (2:1.5.1-1) ... Setting up libxt6:i386 (1:1.2.0-1) ... 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Setting up libgd3:i386 (2.3.0-2) ... Setting up cython3 (0.29.21-3+b1) ... Setting up python3.9-dev (3.9.2-1) ... Setting up texlive-binaries (2020.20200327.54578-7+deb11u1) ... update-alternatives: using /usr/bin/xdvi-xaw to provide /usr/bin/xdvi.bin (xdvi.bin) in auto mode update-alternatives: using /usr/bin/bibtex.original to provide /usr/bin/bibtex (bibtex) in auto mode Setting up libcairo-gobject2:i386 (1.16.0-5) ... Setting up libpangoft2-1.0-0:i386 (1.46.2-3) ... Setting up python3-lib2to3 (3.9.2-1) ... Setting up texlive-base (2020.20210202-3) ... tl-paper: setting paper size for dvips to a4: /var/lib/texmf/dvips/config/config-paper.ps tl-paper: setting paper size for dvipdfmx to a4: /var/lib/texmf/dvipdfmx/dvipdfmx-paper.cfg tl-paper: setting paper size for xdvi to a4: /var/lib/texmf/xdvi/XDvi-paper tl-paper: setting paper size for pdftex to a4: /var/lib/texmf/tex/generic/tex-ini-files/pdftexconfig.tex Setting up libgtk-3-common (3.24.24-4+deb11u3) ... 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Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/minimap2-2.17+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../minimap2_2.17+dfsg-12_source.changes dpkg-buildpackage: info: source package minimap2 dpkg-buildpackage: info: source version 2.17+dfsg-12 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 debian/rules clean debian/rules:51: warning: overriding recipe for target 'override_dh_auto_clean' debian/rules:15: warning: ignoring old recipe for target 'override_dh_auto_clean' dh clean --with python3 debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/minimap2-2.17+dfsg' debian/rules:51: warning: overriding recipe for target 'override_dh_auto_clean' debian/rules:15: warning: ignoring old recipe for target 'override_dh_auto_clean' dh_auto_clean make -j16 clean make[2]: Entering directory '/build/reproducible-path/minimap2-2.17+dfsg' rm -fr gmon.out *.o a.out minimap2 sdust minimap2-lite *~ *.a *.dSYM build dist mappy*.so mappy.c python/mappy.c mappy.egg* make[2]: Leaving directory '/build/reproducible-path/minimap2-2.17+dfsg' rm -f MT-human.mmi rm -f tex/minimap2.aux tex/minimap2.bbl tex/minimap2.blg tex/minimap2.log tex/minimap2.out tex/minimap2.pdf rm -f libminimap2.a make[1]: Leaving directory '/build/reproducible-path/minimap2-2.17+dfsg' dh_clean debian/rules binary debian/rules:51: warning: overriding recipe for target 'override_dh_auto_clean' debian/rules:15: warning: ignoring old recipe for target 'override_dh_auto_clean' dh binary --with python3 dh_update_autotools_config dh_autoreconf dh_auto_configure debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/minimap2-2.17+dfsg' debian/rules:51: warning: overriding recipe for target 'override_dh_auto_clean' debian/rules:15: warning: ignoring old recipe for target 'override_dh_auto_clean' dh_auto_build -- make -j16 "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/reproducible-path/minimap2-2.17+dfsg' cc -c -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC main.c -o main.o cc -c -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC kthread.c -o kthread.o cc -c -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC kalloc.c -o kalloc.o cc -c -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC misc.c -o misc.o cc -c -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC bseq.c -o bseq.o cc -c -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC sketch.c -o sketch.o cc -c -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC sdust.c -o sdust.o cc -c -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC options.c -o options.o cc -c -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC index.c -o index.o cc -c -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC chain.c -o chain.o cc -c -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC align.c -o align.o cc -c -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC hit.c -o hit.o cc -c -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC map.c -o map.o cc -c -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC format.c -o format.o cc -c -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC pe.c -o pe.o cc -c -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC esterr.c -o esterr.o map.c: In function 'mm_map_frag': format.c: In function 'mm_write_sam3': format.c:391:36: warning: variable 'this_rev' set but not used [-Wunused-but-set-variable] 391 | int this_rid = -1, this_pos = -1, this_rev = 0; | ^~~~~~~~ map.c:380:39: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 380 | fprintf(stderr, "QM\t%s\t%d\tcap=%ld,nCore=%ld,largest=%ld\n", qname, qlen_sum, kmst.capacity, kmst.n_cores, kmst.largest); | ~~^ ~~~~~~~~~~~~~ | | | | long int size_t {aka unsigned int} | %d map.c:380:49: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 380 | fprintf(stderr, "QM\t%s\t%d\tcap=%ld,nCore=%ld,largest=%ld\n", qname, qlen_sum, kmst.capacity, kmst.n_cores, kmst.largest); | ~~^ ~~~~~~~~~~~~ | | | | long int size_t {aka unsigned int} | %d map.c:380:61: warning: format '%ld' expects argument of type 'long int', but argument 7 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 380 | fprintf(stderr, "QM\t%s\t%d\tcap=%ld,nCore=%ld,largest=%ld\n", qname, qlen_sum, kmst.capacity, kmst.n_cores, kmst.largest); | ~~^ ~~~~~~~~~~~~ | | | | long int size_t {aka unsigned int} | %d index.c: In function 'mm_idx_load': index.c:495:3: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 495 | fread(&l, 1, 1, fp); | ^~~~~~~~~~~~~~~~~~~ index.c:498:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 498 | fread(s->name, 1, l, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~ index.c:501:3: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 501 | fread(&s->len, 4, 1, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~ index.c:510:3: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 510 | fread(&b->n, 4, 1, fp); | ^~~~~~~~~~~~~~~~~~~~~~ index.c:512:3: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 512 | fread(b->p, 8, b->n, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~ index.c:513:3: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 513 | fread(&size, 4, 1, fp); | ^~~~~~~~~~~~~~~~~~~~~~ index.c:520:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 520 | fread(x, 8, 2, fp); | ^~~~~~~~~~~~~~~~~~ index.c:528:3: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 528 | fread(mi->S, 4, (sum_len + 7) / 8, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cc -c -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC splitidx.c -o splitidx.o cc -c -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC ksw2_ll_sse.c -o ksw2_ll_sse.o cc -c -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC ksw2_extz2_sse.c -o ksw2_extz2_sse.o cc -c -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC ksw2_extd2_sse.c -o ksw2_extd2_sse.o hit.c: In function 'mm_gen_regs': hit.c:74:18: warning: argument 1 range [2147483648, 4294967295] exceeds maximum object size 2147483647 [-Walloc-size-larger-than=] 74 | r = (mm_reg1_t*)calloc(n_u, sizeof(mm_reg1_t)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from hit.c:2: /usr/include/stdlib.h:542:14: note: in a call to allocation function 'calloc' declared here 542 | extern void *calloc (size_t __nmemb, size_t __size) | ^~~~~~ cc -c -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_KALLOC ksw2_exts2_sse.c -o ksw2_exts2_sse.o rm -f libminimap2.a ar csrD libminimap2.a kthread.o kalloc.o misc.o bseq.o sketch.o sdust.o options.o index.o chain.o align.o hit.o map.o format.o pe.o esterr.o splitidx.o ksw2_ll_sse.o ksw2_extz2_sse.o ksw2_extd2_sse.o ksw2_exts2_sse.o cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat main.o -o minimap2 -L. -lminimap2 -lm -lz -lpthread -Wl,-z,relro -Wl,-z,now make[2]: Leaving directory '/build/reproducible-path/minimap2-2.17+dfsg' cd tex && make make[2]: Entering directory 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This is BibTeX, Version 0.99d (TeX Live 2020/Debian) The top-level auxiliary file: minimap2.aux The style file: apalike.bst Database file #1: minimap2.bib This is pdfTeX, Version 3.14159265-2.6-1.40.21 (TeX Live 2020/Debian) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./minimap2.tex LaTeX2e <2020-10-01> patch level 4 L3 programming layer <2021-01-09> xparse <2020-03-03> (./bioinfo.cls Document Class: bioinfo 2003/02/08 0.1 (/usr/share/texlive/texmf-dist/tex/latex/base/inputenc.sty) (/usr/share/texlive/texmf-dist/tex/latex/crop/crop.sty (/usr/share/texlive/texmf-dist/tex/generic/iftex/ifluatex.sty (/usr/share/texlive/texmf-dist/tex/generic/iftex/iftex.sty)) (/usr/share/texlive/texmf-dist/tex/latex/graphics/color.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/color.cfg) (/usr/share/texlive/texmf-dist/tex/latex/graphics-def/pdftex.def)) (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphics.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/trig.sty) (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/graphics.cfg))) (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphicx.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/keyval.sty)) (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsmath.sty For additional information on amsmath, use the `?' option. 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Package natbib Warning: Citation `Dobin:2013kx' on page 4 undefined on input li ne 592. Underfull \hbox (badness 4634) in paragraph at lines 598--610 \OT1/ptm/m/n/9 Direct RNA-seq dataset ([]http://bit.ly/na12878ont[]). Minimap2 Overfull \hbox (261.0pt too wide) has occurred while \output is active [][] Overfull \vbox (1.0pt too high) has occurred while \output is active Overfull \hbox (261.0pt too wide) has occurred while \output is active [][] [4 <./roc-color.pdf>] Package natbib Warning: Citation `Langmead:2012fk' on page 5 undefined on input line 637. Package natbib Warning: Citation `Zaharia:2011aa' on page 5 undefined on input line 638. Package natbib Warning: Citation `Depristo:2011vn' on page 5 undefined on input line 649. Package natbib Warning: Citation `Li223297' on page 5 undefined on input line 6 53. Package natbib Warning: Citation `Marcais:2018aa' on page 5 undefined on input line 664. Underfull \hbox (badness 2027) in paragraph at lines 687--700 []\OT1/ptm/m/n/9 The capability of minimap2 comes from a fast base-level Underfull \hbox (badness 1226) in paragraph at lines 714--719 \OT1/ptm/m/n/9 releasing their masterpiece and insightful notes before formal Package hyperref Warning: Difference (3) between bookmark levels is greater (hyperref) than one, level fixed on input line 720. (./minimap2.bbl Underfull \hbox (badness 1642) in paragraph at lines 20--24 []\OT1/ptm/m/n/9 Berlin, K. et al. (2015). Assembling large genomes with Overfull \hbox (261.0pt too wide) has occurred while \output is active [][] Overfull \vbox (1.0pt too high) has occurred while \output is active [5] Underfull \hbox (badness 2635) in paragraph at lines 32--36 []\OT1/ptm/m/n/9 Chaisson, M. J. and Tesler, G. (2012). Mapping single Underfull \hbox (badness 10000) in paragraph at lines 55--59 \OT1/ptm/m/n/9 searches six times over other SIMD implementations. Underfull \hbox (badness 5578) in paragraph at lines 90--95 \OT1/ptm/m/n/9 of a human genome with ultra-long reads. \OT1/ptm/m/it/9 bioRxi v\OT1/ptm/m/n/9 . Underfull \vbox (badness 10000) has occurred while \output is active) Overfull \hbox (261.0pt too wide) has occurred while \output is active [][] Overfull \hbox (261.0pt too wide) has occurred while \output is active [][] [6] Package natbib Warning: There were undefined citations. (./minimap2.aux Package natbib Warning: Citation(s) may have changed. (natbib) Rerun to get citations correct. ) LaTeX Font Warning: Size substitutions with differences (Font) up to 0.5pt have occurred. ) (see the transcript file for additional information){/usr/share/texlive/texmf-d ist/fonts/enc/dvips/base/8r.enc} Output written on minimap2.pdf (6 pages, 249712 bytes). Transcript written on minimap2.log. This is pdfTeX, Version 3.14159265-2.6-1.40.21 (TeX Live 2020/Debian) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./minimap2.tex LaTeX2e <2020-10-01> patch level 4 L3 programming layer <2021-01-09> xparse <2020-03-03> (./bioinfo.cls Document Class: bioinfo 2003/02/08 0.1 (/usr/share/texlive/texmf-dist/tex/latex/base/inputenc.sty) (/usr/share/texlive/texmf-dist/tex/latex/crop/crop.sty (/usr/share/texlive/texmf-dist/tex/generic/iftex/ifluatex.sty (/usr/share/texlive/texmf-dist/tex/generic/iftex/iftex.sty)) (/usr/share/texlive/texmf-dist/tex/latex/graphics/color.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/color.cfg) (/usr/share/texlive/texmf-dist/tex/latex/graphics-def/pdftex.def)) (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphics.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/trig.sty) (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/graphics.cfg))) (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphicx.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/keyval.sty)) (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsmath.sty For additional information on amsmath, use the `?' option. (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amstext.sty (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsgen.sty)) (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsbsy.sty) (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsopn.sty)) (/usr/share/texlive/texmf-dist/tex/latex/tools/array.sty) (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/amssymb.sty (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/amsfonts.sty)) (/usr/share/texlive/texmf-dist/tex/latex/sttools/flushend.sty (/usr/share/texlive/texmf-dist/tex/latex/etoolbox/etoolbox.sty)) (/usr/share/texlive/texmf-dist/tex/latex/sttools/stfloats.sty) (/usr/share/texlive/texmf-dist/tex/latex/amscls/amsthm.sty) (/usr/share/texlive/texmf-dist/tex/latex/changepage/chngpage.sty) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/times.sty)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hyperref.sty (/usr/share/texlive/texmf-dist/tex/generic/ltxcmds/ltxcmds.sty) (/usr/share/texlive/texmf-dist/tex/generic/pdftexcmds/pdftexcmds.sty (/usr/share/texlive/texmf-dist/tex/generic/infwarerr/infwarerr.sty)) (/usr/share/texlive/texmf-dist/tex/generic/kvsetkeys/kvsetkeys.sty) (/usr/share/texlive/texmf-dist/tex/generic/kvdefinekeys/kvdefinekeys.sty) (/usr/share/texlive/texmf-dist/tex/generic/pdfescape/pdfescape.sty) (/usr/share/texlive/texmf-dist/tex/latex/hycolor/hycolor.sty) (/usr/share/texlive/texmf-dist/tex/latex/letltxmacro/letltxmacro.sty) (/usr/share/texlive/texmf-dist/tex/latex/auxhook/auxhook.sty) (/usr/share/texlive/texmf-dist/tex/latex/kvoptions/kvoptions.sty) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/pd1enc.def) (/usr/share/texlive/texmf-dist/tex/generic/intcalc/intcalc.sty) (/usr/share/texlive/texmf-dist/tex/generic/etexcmds/etexcmds.sty) (/usr/share/texlive/texmf-dist/tex/latex/url/url.sty) (/usr/share/texlive/texmf-dist/tex/generic/bitset/bitset.sty (/usr/share/texlive/texmf-dist/tex/generic/bigintcalc/bigintcalc.sty)) (/usr/share/texlive/texmf-dist/tex/latex/base/atbegshi-ltx.sty)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hpdftex.def (/usr/share/texlive/texmf-dist/tex/latex/base/atveryend-ltx.sty) (/usr/share/texlive/texmf-dist/tex/latex/rerunfilecheck/rerunfilecheck.sty (/usr/share/texlive/texmf-dist/tex/generic/uniquecounter/uniquecounter.sty))) (/usr/share/texlive/texmf-dist/tex/latex/algorithm2e/algorithm2e.sty (/usr/share/texlive/texmf-dist/tex/latex/base/ifthen.sty) (/usr/share/texlive/texmf-dist/tex/latex/ifoddpage/ifoddpage.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/xspace.sty) (/usr/share/texlive/texmf-dist/tex/latex/relsize/relsize.sty)) (/usr/share/texlive/texmf-dist/tex/latex/natbib/natbib.sty) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ot1ptm.fd) (/usr/share/texlive/texmf-dist/tex/latex/l3backend/l3backend-pdftex.def) (./minimap2.aux) (/usr/share/texlive/texmf-dist/tex/context/base/mkii/supp-pdf.mkii [Loading MPS to PDF converter (version 2006.09.02).] ) (/usr/share/texlive/texmf-dist/tex/latex/epstopdf-pkg/epstopdf-base.sty (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/epstopdf-sys.cfg)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/nameref.sty (/usr/share/texlive/texmf-dist/tex/latex/refcount/refcount.sty) (/usr/share/texlive/texmf-dist/tex/generic/gettitlestring/gettitlestring.sty)) (./minimap2.out) (./minimap2.out) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ot1phv.fd) Underfull \hbox (badness 10000) detected at line 27 [] (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsa.fd) (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsb.fd) Underfull \hbox (badness 1014) in paragraph at lines 36--47 \OT1/phv/b/n/8 Results: \OT1/phv/m/n/8 Minimap2 is a general-purpose alignment program to LaTeX Font Warning: Font shape `OT1/cmr/m/n' in size <6.5> not available (Font) size <6> substituted on input line 58. LaTeX Font Warning: Font shape `OML/cmm/m/it' in size <6.5> not available (Font) size <6> substituted on input line 58. LaTeX Font Warning: Font shape `OMS/cmsy/m/n' in size <6.5> not available (Font) size <6> substituted on input line 58. Underfull \hbox (badness 1478) in paragraph at lines 71--80 \OT1/ptm/m/n/9 minor modifications could enable the base algorithm to map Underfull \hbox (badness 1019) in paragraph at lines 71--80 \OT1/ptm/m/n/9 mRNAs as well. Minimap2 becomes a first RNA-seq aligner [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] Package hyperref Warning: Token not allowed in a PDF string (PDFDocEncoding): (hyperref) removing `math shift' on input line 204. Package hyperref Warning: Token not allowed in a PDF string (PDFDocEncoding): (hyperref) removing `math shift' on input line 204. Underfull \vbox (badness 10000) has occurred while \output is active Overfull \hbox (261.0pt too wide) has occurred while \output is active [][] Overfull \vbox (1.0pt too high) has occurred while \output is active Overfull \hbox (261.0pt too wide) has occurred while \output is active [][] [2] Underfull \hbox (badness 1769) in paragraph at lines 382--386 \OT1/ptm/m/n/8 performs local alignment between the two subsequences involved i n Overfull \hbox (261.0pt too wide) has occurred while \output is active [][] Overfull \vbox (1.0pt too high) has occurred while \output is active [3] LaTeX Font Warning: Font shape `OT1/cmtt/m/n' in size <6.5> not available (Font) size <6> substituted on input line 492. Overfull \hbox (9.0pt too wide) in paragraph at lines 496--515 [][] Underfull \hbox (badness 1248) in paragraph at lines 518--535 []\OT1/ptm/m/n/9 2016[]), Kart (v2.2.5; []Lin and Hsu[], []2017[]), minialign ( v0.5.3; Overfull \hbox (3.90332pt too wide) in paragraph at lines 518--535 []\OT1/ptm/m/n/9 https://github.com/ocxtal/minialign[]) and NGMLR (v0.2.5; []Se dlazeck Underfull \hbox (badness 2189) in paragraph at lines 590--597 \OT1/ptm/m/n/9 GMAP (v2017-06-20; []Wu and Watanabe[], []2005[]), minimap2, Underfull \hbox (badness 1424) in paragraph at lines 590--597 \OT1/ptm/m/n/9 et al.[], []2013[]). In general, minimap2 is more consistent wit h Overfull \hbox (261.0pt too wide) has occurred while \output is active [][] Overfull \vbox (1.0pt too high) has occurred while \output is active Overfull \hbox (261.0pt too wide) has occurred while \output is active [][] [4 <./roc-color.pdf>] Underfull \hbox (badness 4634) in paragraph at lines 598--610 \OT1/ptm/m/n/9 Direct RNA-seq dataset ([]http://bit.ly/na12878ont[]). Minimap2 Underfull \hbox (badness 2096) in paragraph at lines 647--659 \OT1/ptm/m/n/9 v3.5 ([]Depristo et al.[], []2011[]). This run was sequenced fro m Underfull \hbox (badness 1454) in paragraph at lines 662--671 \OT1/ptm/m/n/9 the paftools.js script from the minimap2 package, we called Underfull \hbox (badness 1137) in paragraph at lines 662--671 \OT1/ptm/m/n/9 regions. The transition-to-transversion ratio (ts/tv) is 2.01. I n Underfull \hbox (badness 2027) in paragraph at lines 687--700 []\OT1/ptm/m/n/9 The capability of minimap2 comes from a fast base-level Underfull \hbox (badness 1226) in paragraph at lines 714--719 \OT1/ptm/m/n/9 releasing their masterpiece and insightful notes before formal Package hyperref Warning: Difference (3) between bookmark levels is greater (hyperref) than one, level fixed on input line 720. (./minimap2.bbl Overfull \hbox (261.0pt too wide) has occurred while \output is active [][] Overfull \vbox (1.0pt too high) has occurred while \output is active [5] Underfull \hbox (badness 1642) in paragraph at lines 20--24 []\OT1/ptm/m/n/9 Berlin, K. et al. (2015). Assembling large genomes with Underfull \hbox (badness 2635) in paragraph at lines 32--36 []\OT1/ptm/m/n/9 Chaisson, M. J. and Tesler, G. (2012). Mapping single Underfull \hbox (badness 10000) in paragraph at lines 55--59 \OT1/ptm/m/n/9 searches six times over other SIMD implementations. Underfull \hbox (badness 5578) in paragraph at lines 90--95 \OT1/ptm/m/n/9 of a human genome with ultra-long reads. \OT1/ptm/m/it/9 bioRxi v\OT1/ptm/m/n/9 . Underfull \vbox (badness 10000) has occurred while \output is active) Overfull \hbox (261.0pt too wide) has occurred while \output is active [][] Overfull \hbox (261.0pt too wide) has occurred while \output is active [][] [6] (./minimap2.aux) LaTeX Font Warning: Size substitutions with differences (Font) up to 0.5pt have occurred. ) (see the transcript file for additional information){/usr/share/texlive/texmf-d ist/fonts/enc/dvips/base/8r.enc} Output written on minimap2.pdf (6 pages, 253336 bytes). Transcript written on minimap2.log. make[2]: Leaving directory '/build/reproducible-path/minimap2-2.17+dfsg/tex' dh_auto_build --buildsystem=pybuild I: pybuild base:232: /usr/bin/python3 setup.py build running build running build_ext cythoning python/mappy.pyx to python/mappy.c /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /build/reproducible-path/minimap2-2.17+dfsg/python/mappy.pyx tree = Parsing.p_module(s, pxd, full_module_name) building 'mappy' extension creating build creating build/temp.linux-i386-3.9 creating build/temp.linux-i386-3.9/python i686-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-hfHQKB/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c align.c -o build/temp.linux-i386-3.9/align.o -DHAVE_KALLOC -msse4.1 align.c: In function 'mm_get_hplen_back': align.c:346:29: warning: comparison of integer expressions of different signedness: 'uint32_t' {aka 'unsigned int'} and 'int' [-Wsign-compare] 346 | if (mm_seq4_get(mi->S, i) != c) break; | ^~ align.c: In function 'mm_seed_ext_score': align.c:533:49: warning: operand of '?:' changes signedness from 'int' to 'uint32_t' {aka 'unsigned int'} due to unsignedness of other operand [-Wsign-compare] 533 | re = re + ext_len < (int32_t)mi->seq[rid].len? re + ext_len : mi->seq[rid].len; | ^~~~~~~~~~~~ align.c: In function 'mm_align1': align.c:620:45: warning: operand of '?:' changes signedness from 'int32_t' {aka 'int'} to 'uint32_t' {aka 'unsigned int'} due to unsignedness of other operand [-Wsign-compare] 620 | re0 = re + l < (int32_t)mi->seq[rid].len? re + l : mi->seq[rid].len; | ^~~~~~ align.c:672:44: warning: operand of '?:' changes signedness from 'int32_t' {aka 'int'} to 'uint32_t' {aka 'unsigned int'} due to unsignedness of other operand [-Wsign-compare] 672 | l = l < (int32_t)mi->seq[rid].len - re? l : mi->seq[rid].len - re; | ^ i686-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-hfHQKB/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c bseq.c -o build/temp.linux-i386-3.9/bseq.o -DHAVE_KALLOC -msse4.1 i686-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-hfHQKB/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c chain.c -o build/temp.linux-i386-3.9/chain.o -DHAVE_KALLOC -msse4.1 i686-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-hfHQKB/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c esterr.c -o build/temp.linux-i386-3.9/esterr.o -DHAVE_KALLOC -msse4.1 i686-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-hfHQKB/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c format.c -o build/temp.linux-i386-3.9/format.o -DHAVE_KALLOC -msse4.1 format.c: In function 'mm_event_identity': format.c:268:16: warning: comparison of integer expressions of different signedness: 'int32_t' {aka 'int'} and 'uint32_t' {aka 'unsigned int'} [-Wsign-compare] 268 | for (i = 0; i < r->p->n_cigar; ++i) { | ^ format.c: In function 'mm_write_sam3': format.c:391:36: warning: variable 'this_rev' set but not used [-Wunused-but-set-variable] 391 | int this_rid = -1, this_pos = -1, this_rev = 0; | ^~~~~~~~ i686-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-hfHQKB/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c hit.c -o build/temp.linux-i386-3.9/hit.o -DHAVE_KALLOC -msse4.1 hit.c: In function 'mm_hit_sort': hit.c:171:48: warning: variable 'no_cigar' set but not used [-Wunused-but-set-variable] 171 | int32_t i, n_aux, n = *n_regs, has_cigar = 0, no_cigar = 0; | ^~~~~~~~ hit.c:171:33: warning: variable 'has_cigar' set but not used [-Wunused-but-set-variable] 171 | int32_t i, n_aux, n = *n_regs, has_cigar = 0, no_cigar = 0; | ^~~~~~~~~ hit.c: In function 'mm_join_long': hit.c:324:40: warning: operand of '?:' changes signedness from 'int' to 'uint64_t' {aka 'long long unsigned int'} due to unsignedness of other operand [-Wsign-compare] 324 | max_gap = a0e->x + max_gap > a1s->x? max_gap : a1s->x - a0e->x; | ^~~~~~~ hit.c:325:40: warning: operand of '?:' changes signedness from 'int' to 'uint64_t' {aka 'long long unsigned int'} due to unsignedness of other operand [-Wsign-compare] 325 | min_gap = a0e->x + min_gap < a1s->x? min_gap : a1s->x - a0e->x; | ^~~~~~~ hit.c: In function 'mm_gen_regs': hit.c:74:18: warning: argument 1 range [2147483648, 4294967295] exceeds maximum object size 2147483647 [-Walloc-size-larger-than=] 74 | r = (mm_reg1_t*)calloc(n_u, sizeof(mm_reg1_t)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from hit.c:2: /usr/include/stdlib.h:542:14: note: in a call to allocation function 'calloc' declared here 542 | extern void *calloc (size_t __nmemb, size_t __size) | ^~~~~~ i686-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-hfHQKB/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c index.c -o build/temp.linux-i386-3.9/index.o -DHAVE_KALLOC -msse4.1 index.c: In function 'mm_idx_name2id': index.c:149:25: warning: operand of '?:' changes signedness from 'int' to 'uint32_t' {aka 'unsigned int'} due to unsignedness of other operand [-Wsign-compare] 149 | return k == kh_end(h)? -1 : kh_val(h, k); | ^~ index.c: In function 'mm_idx_gen': index.c:358:63: warning: operand of '?:' changes signedness from 'int' to 'uint64_t' {aka 'long long unsigned int'} due to unsignedness of other operand [-Wsign-compare] 358 | pl.mini_batch_size = (uint64_t)mini_batch_size < batch_size? mini_batch_size : batch_size; | ^~~~~~~~~~~~~~~ index.c: In function 'mm_idx_dump': index.c:458:16: warning: comparison of integer expressions of different signedness: 'uint32_t' {aka 'unsigned int'} and 'int' [-Wsign-compare] 458 | for (i = 0; i < 1<b; ++i) { | ^ index.c: In function 'mm_idx_load': index.c:505:16: warning: comparison of integer expressions of different signedness: 'uint32_t' {aka 'unsigned int'} and 'int' [-Wsign-compare] 505 | for (i = 0; i < 1<b; ++i) { | ^ index.c: In function 'mm_idx_bed_read': index.c:698:16: warning: comparison of integer expressions of different signedness: 'int32_t' {aka 'int'} and 'uint32_t' {aka 'unsigned int'} [-Wsign-compare] 698 | for (i = 0; i < mi->n_seq; ++i) // TODO: eliminate redundant intervals | ^ index.c: In function 'mm_idx_bed_junc': index.c:708:35: warning: comparison of integer expressions of different signedness: 'int32_t' {aka 'int'} and 'uint32_t' {aka 'const unsigned int'} [-Wsign-compare] 708 | if (mi->I == 0 || ctg < 0 || ctg >= mi->n_seq) return -1; | ^~ i686-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-hfHQKB/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c kalloc.c -o build/temp.linux-i386-3.9/kalloc.o -DHAVE_KALLOC -msse4.1 i686-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-hfHQKB/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c ksw2_extd2_sse.c -o build/temp.linux-i386-3.9/ksw2_extd2_sse.o -DHAVE_KALLOC -msse4.1 i686-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-hfHQKB/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c ksw2_exts2_sse.c -o build/temp.linux-i386-3.9/ksw2_exts2_sse.o -DHAVE_KALLOC -msse4.1 i686-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-hfHQKB/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c ksw2_extz2_sse.c -o build/temp.linux-i386-3.9/ksw2_extz2_sse.o -DHAVE_KALLOC -msse4.1 i686-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-hfHQKB/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c ksw2_ll_sse.c -o build/temp.linux-i386-3.9/ksw2_ll_sse.o -DHAVE_KALLOC -msse4.1 i686-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-hfHQKB/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c kthread.c -o build/temp.linux-i386-3.9/kthread.o -DHAVE_KALLOC -msse4.1 i686-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-hfHQKB/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c map.c -o build/temp.linux-i386-3.9/map.o -DHAVE_KALLOC -msse4.1 map.c: In function 'mm_dust_minier': map.c:52:42: warning: operand of '?:' changes signedness from 'int32_t' {aka 'int'} to 'uint64_t' {aka 'const long long unsigned int'} due to unsignedness of other operand [-Wsign-compare] 52 | int ss = s > (int32_t)(dreg[v]>>32)? s : dreg[v]>>32; | ^ map.c:53:36: warning: operand of '?:' changes signedness from 'int32_t' {aka 'int'} to 'unsigned int' due to unsignedness of other operand [-Wsign-compare] 53 | int ee = e < (int32_t)dreg[v]? e : (uint32_t)dreg[v]; | ^ map.c: In function 'mm_map_frag': map.c:380:39: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 380 | fprintf(stderr, "QM\t%s\t%d\tcap=%ld,nCore=%ld,largest=%ld\n", qname, qlen_sum, kmst.capacity, kmst.n_cores, kmst.largest); | ~~^ ~~~~~~~~~~~~~ | | | | long int size_t {aka unsigned int} | %d map.c:380:49: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 380 | fprintf(stderr, "QM\t%s\t%d\tcap=%ld,nCore=%ld,largest=%ld\n", qname, qlen_sum, kmst.capacity, kmst.n_cores, kmst.largest); | ~~^ ~~~~~~~~~~~~ | | | | long int size_t {aka unsigned int} | %d map.c:380:61: warning: format '%ld' expects argument of type 'long int', but argument 7 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 380 | fprintf(stderr, "QM\t%s\t%d\tcap=%ld,nCore=%ld,largest=%ld\n", qname, qlen_sum, kmst.capacity, kmst.n_cores, kmst.largest); | ~~^ ~~~~~~~~~~~~ | | | | long int size_t {aka unsigned int} | %d i686-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-hfHQKB/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c misc.c -o build/temp.linux-i386-3.9/misc.o -DHAVE_KALLOC -msse4.1 i686-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-hfHQKB/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c options.c -o build/temp.linux-i386-3.9/options.o -DHAVE_KALLOC -msse4.1 i686-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-hfHQKB/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c pe.c -o build/temp.linux-i386-3.9/pe.o -DHAVE_KALLOC -msse4.1 i686-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-hfHQKB/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c python/mappy.c -o build/temp.linux-i386-3.9/python/mappy.o -DHAVE_KALLOC -msse4.1 i686-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-hfHQKB/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c sdust.c -o build/temp.linux-i386-3.9/sdust.o -DHAVE_KALLOC -msse4.1 i686-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-hfHQKB/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c sketch.c -o build/temp.linux-i386-3.9/sketch.o -DHAVE_KALLOC -msse4.1 i686-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-hfHQKB/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c splitidx.c -o build/temp.linux-i386-3.9/splitidx.o -DHAVE_KALLOC -msse4.1 i686-linux-gnu-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -fdebug-prefix-map=/build/reproducible-path/minimap2-2.17+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-i386-3.9/align.o build/temp.linux-i386-3.9/bseq.o build/temp.linux-i386-3.9/chain.o build/temp.linux-i386-3.9/esterr.o build/temp.linux-i386-3.9/format.o build/temp.linux-i386-3.9/hit.o build/temp.linux-i386-3.9/index.o build/temp.linux-i386-3.9/kalloc.o build/temp.linux-i386-3.9/ksw2_extd2_sse.o build/temp.linux-i386-3.9/ksw2_exts2_sse.o build/temp.linux-i386-3.9/ksw2_extz2_sse.o build/temp.linux-i386-3.9/ksw2_ll_sse.o build/temp.linux-i386-3.9/kthread.o build/temp.linux-i386-3.9/map.o build/temp.linux-i386-3.9/misc.o build/temp.linux-i386-3.9/options.o build/temp.linux-i386-3.9/pe.o build/temp.linux-i386-3.9/python/mappy.o build/temp.linux-i386-3.9/sdust.o build/temp.linux-i386-3.9/sketch.o build/temp.linux-i386-3.9/splitidx.o -lz -lm -lpthread -o /build/reproducible-path/minimap2-2.17+dfsg/.pybuild/cpython3_3.9/build/mappy.cpython-39-i386-linux-gnu.so running build_scripts creating build/scripts-3.9 copying and adjusting python/minimap2.py -> build/scripts-3.9 changing mode of build/scripts-3.9/minimap2.py from 644 to 755 make[1]: Leaving directory '/build/reproducible-path/minimap2-2.17+dfsg' debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/minimap2-2.17+dfsg' debian/rules:51: warning: overriding recipe for target 'override_dh_auto_clean' debian/rules:15: warning: ignoring old recipe for target 'override_dh_auto_clean' debian/test_script [M::mm_idx_gen::0.002*1.70] collected minimizers [M::mm_idx_gen::0.003*2.03] sorted minimizers [M::main::0.003*1.99] loaded/built the index for 1 target sequence(s) [M::mm_mapopt_update::0.003*1.90] mid_occ = 2 [M::mm_idx_stat] kmer size: 15; skip: 10; is_hpc: 0; #seq: 1 [M::mm_idx_stat::0.004*1.83] distinct minimizers: 3111 (100.00% are singletons); average occurrences: 1.000; average spacing: 5.326 [M::worker_pipeline::0.200*1.02] mapped 1 sequences [M::main] Version: 2.17-r941 [M::main] CMD: minimap2 -a test/MT-human.fa test/MT-orang.fa [M::main] Real time: 0.201 sec; CPU: 0.204 sec; Peak RSS: 0.005 GB [M::mm_idx_gen::0.002*1.71] collected minimizers [M::mm_idx_gen::0.003*2.06] sorted minimizers [M::main::0.005*1.60] loaded/built the index for 1 target sequence(s) [M::mm_idx_stat] kmer size: 15; skip: 10; is_hpc: 0; #seq: 1 [M::mm_idx_stat::0.005*1.57] distinct minimizers: 3111 (100.00% are singletons); average occurrences: 1.000; average spacing: 5.326 [M::main] Version: 2.17-r941 [M::main] CMD: minimap2 -d MT-human.mmi test/MT-human.fa [M::main] Real time: 0.006 sec; CPU: 0.009 sec; Peak RSS: 0.003 GB [M::main::0.003*1.33] loaded/built the index for 1 target sequence(s) [M::mm_mapopt_update::0.003*1.30] mid_occ = 2 [M::mm_idx_stat] kmer size: 15; skip: 10; is_hpc: 0; #seq: 1 [M::mm_idx_stat::0.003*1.27] distinct minimizers: 3111 (100.00% are singletons); average occurrences: 1.000; average spacing: 5.326 [M::worker_pipeline::0.200*1.01] mapped 1 sequences [M::main] Version: 2.17-r941 [M::main] CMD: minimap2 -a MT-human.mmi test/MT-orang.fa [M::main] Real time: 0.201 sec; CPU: 0.202 sec; Peak RSS: 0.006 GB rm test.sam make[1]: Leaving directory '/build/reproducible-path/minimap2-2.17+dfsg' create-stamp debian/debhelper-build-stamp dh_prep dh_installdirs debian/rules override_dh_auto_install make[1]: Entering directory '/build/reproducible-path/minimap2-2.17+dfsg' debian/rules:51: warning: overriding recipe for target 'override_dh_auto_clean' debian/rules:15: warning: ignoring old recipe for target 'override_dh_auto_clean' dh_auto_install dh_auto_install --buildsystem=pybuild I: pybuild base:232: /usr/bin/python3 setup.py install --root /build/reproducible-path/minimap2-2.17+dfsg/debian/tmp running install running build running build_ext skipping 'python/mappy.c' Cython extension (up-to-date) running build_scripts running install_lib creating /build/reproducible-path/minimap2-2.17+dfsg/debian/tmp/usr creating /build/reproducible-path/minimap2-2.17+dfsg/debian/tmp/usr/lib creating /build/reproducible-path/minimap2-2.17+dfsg/debian/tmp/usr/lib/python3.9 creating /build/reproducible-path/minimap2-2.17+dfsg/debian/tmp/usr/lib/python3.9/dist-packages copying /build/reproducible-path/minimap2-2.17+dfsg/.pybuild/cpython3_3.9/build/mappy.cpython-39-i386-linux-gnu.so -> /build/reproducible-path/minimap2-2.17+dfsg/debian/tmp/usr/lib/python3.9/dist-packages running install_scripts creating /build/reproducible-path/minimap2-2.17+dfsg/debian/tmp/usr/bin copying build/scripts-3.9/minimap2.py -> /build/reproducible-path/minimap2-2.17+dfsg/debian/tmp/usr/bin changing mode of /build/reproducible-path/minimap2-2.17+dfsg/debian/tmp/usr/bin/minimap2.py to 755 running install_egg_info Writing /build/reproducible-path/minimap2-2.17+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/mappy-2.17.egg-info make[1]: Leaving directory '/build/reproducible-path/minimap2-2.17+dfsg' dh_install dh_installdocs dh_installchangelogs debian/rules override_dh_installman make[1]: Entering directory '/build/reproducible-path/minimap2-2.17+dfsg' debian/rules:51: warning: overriding recipe for target 'override_dh_auto_clean' debian/rules:15: warning: ignoring old recipe for target 'override_dh_auto_clean' dh_installman --language=C make[1]: Leaving directory '/build/reproducible-path/minimap2-2.17+dfsg' dh_python3 dh_lintian dh_perl dh_link dh_strip_nondeterminism debian/rules override_dh_compress make[1]: Entering directory '/build/reproducible-path/minimap2-2.17+dfsg' debian/rules:51: warning: overriding recipe for target 'override_dh_auto_clean' debian/rules:15: warning: ignoring old recipe for target 'override_dh_auto_clean' dh_compress --exclude=.pdf make[1]: Leaving directory '/build/reproducible-path/minimap2-2.17+dfsg' dh_fixperms dh_missing dh_dwz -a debian/rules override_dh_strip make[1]: Entering directory '/build/reproducible-path/minimap2-2.17+dfsg' debian/rules:51: warning: overriding recipe for target 'override_dh_auto_clean' debian/rules:15: warning: ignoring old recipe for target 'override_dh_auto_clean' dh_strip ranlib /build/reproducible-path/minimap2-2.17+dfsg/debian/libminimap2-dev/usr/lib/libminimap2.a make[1]: Leaving directory '/build/reproducible-path/minimap2-2.17+dfsg' dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dpkg-gencontrol: warning: Depends field of package libminimap2-dev: substitution variable ${shlibs:Depends} used, but is not defined dpkg-gencontrol: warning: package python3-mappy: substitution variable ${python3:Provides} unused, but is defined dpkg-gencontrol: warning: package python3-mappy: substitution variable ${python3:Versions} unused, but is defined dpkg-gencontrol: warning: package python3-mappy: substitution variable ${python3:Provides} unused, but is defined dpkg-gencontrol: warning: package python3-mappy: substitution variable ${python3:Versions} unused, but is defined dh_md5sums dh_builddeb dpkg-deb: building package 'minimap2' in '../minimap2_2.17+dfsg-12_i386.deb'. dpkg-deb: building package 'minimap2-dbgsym' in '../minimap2-dbgsym_2.17+dfsg-12_i386.deb'. dpkg-deb: building package 'libminimap2-dev' in '../libminimap2-dev_2.17+dfsg-12_i386.deb'. dpkg-deb: building package 'python3-mappy' in '../python3-mappy_2.17+dfsg-12_i386.deb'. dpkg-deb: building package 'python3-mappy-dbgsym' in '../python3-mappy-dbgsym_2.17+dfsg-12_i386.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../minimap2_2.17+dfsg-12_i386.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: 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/35922 and its subdirectories I: Current time: Fri Feb 14 15:35:51 -12 2025 I: pbuilder-time-stamp: 1739590551 Sat Jan 13 21:12:55 UTC 2024 I: 1st build successful. Starting 2nd build on remote node ionos2-i386.debian.net. Sat Jan 13 21:12:55 UTC 2024 I: Preparing to do remote build '2' on ionos2-i386.debian.net. Sat Jan 13 21:22:10 UTC 2024 I: Deleting $TMPDIR on ionos2-i386.debian.net. Sat Jan 13 21:24:11 UTC 2024 I: minimap2_2.17+dfsg-12_i386.changes: Format: 1.8 Date: Tue, 15 Sep 2020 10:54:02 +0200 Source: minimap2 Binary: libminimap2-dev minimap2 minimap2-dbgsym python3-mappy python3-mappy-dbgsym Architecture: i386 Version: 2.17+dfsg-12 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: libminimap2-dev - development headers for libminimap minimap2 - versatile pairwise aligner for genomic and spliced nucleotide seq python3-mappy - Python3 interface minimap2 Closes: 969596 Changes: minimap2 (2.17+dfsg-12) unstable; urgency=medium . [ Michael Hudson-Doyle ] * d/patches/python-sse4-arch.patch: Only pass -msse4.1 to the compiler on amd64. Closes: #969596 Checksums-Sha1: c1fc95804ba3bcfce0d3b16df39b341f3519c9f3 135328 libminimap2-dev_2.17+dfsg-12_i386.deb eb90ae7f5688bf26a2b05a02ccba116e42268ce4 228660 minimap2-dbgsym_2.17+dfsg-12_i386.deb e08458790e0f22526d0c76e44972b3b04de49d7c 14496 minimap2_2.17+dfsg-12_i386.buildinfo 8404c141f6a08f3f516e33123566cd6b34031397 395044 minimap2_2.17+dfsg-12_i386.deb 9e83324bca6230789becc73a8c907a73375d22a7 420060 python3-mappy-dbgsym_2.17+dfsg-12_i386.deb 1ca85050e07ebf8929a6797878a1ef9a79b12b1c 142160 python3-mappy_2.17+dfsg-12_i386.deb Checksums-Sha256: 23dff74f5aa428e6eb3614085465f08dd5747f1b1b740815d757055e3f8f3132 135328 libminimap2-dev_2.17+dfsg-12_i386.deb 1fb1a3a0a166396172cba507b2173988e2e3c538b03966a1e344c00e7823f527 228660 minimap2-dbgsym_2.17+dfsg-12_i386.deb 8aecd5369750903f0cbcdb507e4bea914db1d7ae875cc59d645400fb91ae43bd 14496 minimap2_2.17+dfsg-12_i386.buildinfo 74aed8cf0e5d9799742ead690e620dd8d93156ec5ba4690a573ed054fcd659bf 395044 minimap2_2.17+dfsg-12_i386.deb b38cb999bf2aa4a60e6f6d78832125ade94da47621f2d56854cba79b7476d21b 420060 python3-mappy-dbgsym_2.17+dfsg-12_i386.deb 2d2939517bc5718fc21e397e24c5abcb36a1bcde9a13a9b45fb3d93b26706a86 142160 python3-mappy_2.17+dfsg-12_i386.deb Files: 085e1d4141b0e0e13e4daac1ebdbb962 135328 libdevel optional libminimap2-dev_2.17+dfsg-12_i386.deb 2304f776eef7df3525fc217983e604d9 228660 debug optional minimap2-dbgsym_2.17+dfsg-12_i386.deb 266de229413a0868fc8e75fdfb060171 14496 science optional minimap2_2.17+dfsg-12_i386.buildinfo 2efe3c3f8cef6296f95fcf8508ff0c07 395044 science optional minimap2_2.17+dfsg-12_i386.deb 12b6d9652452ae4ba0c7d07f6c263d73 420060 debug optional python3-mappy-dbgsym_2.17+dfsg-12_i386.deb 4a52a71917d255607aa03c44c8ed9c8f 142160 python optional python3-mappy_2.17+dfsg-12_i386.deb Sat Jan 13 21:24:11 UTC 2024 I: diffoscope 240 will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.POd6gH2a/minimap2_2.17+dfsg-12.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.POd6gH2a/minimap2_2.17+dfsg-12.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.POd6gH2a/minimap2_2.17+dfsg-12.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.POd6gH2a/b1/minimap2_2.17+dfsg-12_i386.changes /srv/reproducible-results/rbuild-debian/r-b-build.POd6gH2a/b2/minimap2_2.17+dfsg-12_i386.changes ## close_archive (total time: 0.000s) 0.000s 14 calls diffoscope.comparators.deb.DebContainer 0.000s 24 calls diffoscope.comparators.xz.XzContainer 0.000s 18 calls diffoscope.comparators.tar.TarContainer 0.000s 6 calls diffoscope.comparators.deb.DebTarContainer ## command (total time: 32.572s) 14.570s 109 calls diff 12.548s 904 calls readelf 5.026s 165 calls objdump 0.227s 2 calls objcopy 0.122s 24 calls xz 0.068s 22 calls strings 0.005s 3 calls cmp 0.005s 3 calls cmp (external) 0.001s 19 calls cmp (internal) ## compare_files (cumulative) (total time: 96.506s) 18.135s 1 call abc.DotChangesFile 18.113s 2 calls abc.DebFile 18.077s 4 calls abc.XzFile 17.933s 2 calls abc.DebDataTarFile 17.832s 2 calls abc.ElfFile 5.798s 10 calls diffoscope.comparators.elf.ElfCodeSection 0.423s 29 calls diffoscope.comparators.elf.ElfSection 0.094s 2 calls diffoscope.comparators.elf.ElfStringSection 0.063s 2 calls abc.TarFile 0.021s 2 calls abc.TextFile 0.009s 1 call diffoscope.comparators.elf.MonkeyPatchedElfSection 0.008s 2 calls abc.Md5sumsFile ## container_extract (total time: 0.169s) 0.122s 24 calls diffoscope.comparators.xz.XzContainer 0.022s 28 calls diffoscope.comparators.deb.DebContainer 0.014s 26 calls diffoscope.comparators.tar.TarContainer 0.011s 18 calls diffoscope.comparators.deb.DebTarContainer ## diff (total time: 2.225s) 2.225s 1362 calls linediff ## has_same_content_as (total time: 0.008s) 0.006s 5 calls abc.DebFile 0.001s 6 calls abc.TextFile 0.000s 4 calls abc.Md5sumsFile 0.000s 2 calls abc.TarFile 0.000s 4 calls abc.XzFile 0.000s 2 calls abc.DebDataTarFile 0.000s 29 calls diffoscope.comparators.elf.ElfSection 0.000s 1 call diffoscope.comparators.utils.libarchive.LibarchiveSymlink 0.000s 1 call abc.DotChangesFile 0.000s 2 calls abc.ElfFile 0.000s 10 calls diffoscope.comparators.elf.ElfCodeSection 0.000s 2 calls diffoscope.comparators.elf.ElfStringSection 0.000s 1 call diffoscope.comparators.elf.MonkeyPatchedElfSection ## main (total time: 40.578s) 40.578s 2 calls outputs 0.001s 1 call cleanup ## open_archive (total time: 0.000s) 0.000s 24 calls diffoscope.comparators.xz.XzContainer 0.000s 18 calls diffoscope.comparators.tar.TarContainer 0.000s 14 calls diffoscope.comparators.deb.DebContainer 0.000s 6 calls diffoscope.comparators.deb.DebTarContainer ## output (total time: 22.187s) 21.336s 1 call html 0.482s 1 call text 0.369s 1 call json ## recognizes (total time: 0.284s) 0.109s 2220 calls diffoscope.comparators.utils.libarchive.LibarchiveMember 0.077s 1122 calls diffoscope.comparators.utils.archive.ArchiveMember 0.041s 638 calls diffoscope.comparators.elf.ElfSection 0.025s 12 calls diffoscope.comparators.binary.FilesystemFile 0.015s 220 calls diffoscope.comparators.elf.ElfCodeSection 0.013s 540 calls diffoscope.comparators.debian.DebControlMember 0.003s 44 calls diffoscope.comparators.elf.ElfStringSection 0.001s 22 calls diffoscope.comparators.elf.MonkeyPatchedElfSection 0.000s 32 calls abc.Md5sumsFile 0.000s 10 calls abc.DotChangesFile 0.000s 4 calls diffoscope.comparators.utils.libarchive.LibarchiveSymlink ## specialize (total time: 0.124s) 0.124s 69 calls specialize Sat Jan 13 21:24:52 UTC 2024 E: minimap2 failed to build reproducibly in bullseye on i386. Sat Jan 13 21:24:52 UTC 2024 E: diffoscope 240 found issues, please check https://tests.reproducible-builds.org/debian/dbd/bullseye/i386/minimap2_2.17+dfsg-12.diffoscope.html Sat Jan 13 21:25:08 UTC 2024 I: Submitting .buildinfo files to external archives: Sat Jan 13 21:25:08 UTC 2024 I: Submitting 16K b1/minimap2_2.17+dfsg-12_i386.buildinfo.asc Sat Jan 13 21:25:08 UTC 2024 I: Submitting 16K b2/minimap2_2.17+dfsg-12_i386.buildinfo.asc Sat Jan 13 21:25:09 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sat Jan 13 21:25:09 UTC 2024 I: Done submitting .buildinfo files. Sat Jan 13 21:25:09 UTC 2024 I: Removing signed minimap2_2.17+dfsg-12_i386.buildinfo.asc files: removed './b1/minimap2_2.17+dfsg-12_i386.buildinfo.asc' removed './b2/minimap2_2.17+dfsg-12_i386.buildinfo.asc'