Sat Dec 21 07:26:27 UTC 2024 I: starting to build minimap2/trixie/armhf on jenkins on '2024-12-21 07:26' Sat Dec 21 07:26:27 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/armhf_18/9612/console.log Sat Dec 21 07:26:27 UTC 2024 I: Downloading source for trixie/minimap2=2.27+dfsg-1 --2024-12-21 07:26:27-- http://deb.debian.org/debian/pool/main/m/minimap2/minimap2_2.27%2bdfsg-1.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2315 (2.3K) [text/prs.lines.tag] Saving to: ‘minimap2_2.27+dfsg-1.dsc’ 0K .. 100% 332M=0s 2024-12-21 07:26:27 (332 MB/s) - ‘minimap2_2.27+dfsg-1.dsc’ saved [2315/2315] Sat Dec 21 07:26:27 UTC 2024 I: minimap2_2.27+dfsg-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: minimap2 Binary: minimap2, libminimap2-dev, python3-mappy Architecture: any Version: 2.27+dfsg-1 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://github.com/lh3/minimap2 Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/minimap2 Vcs-Git: https://salsa.debian.org/med-team/minimap2.git Testsuite: autopkgtest Testsuite-Triggers: python3-all Build-Depends: debhelper-compat (= 13), python3-setuptools, dh-sequence-python3, cython3, python3-all-dev, d-shlibs, zlib1g-dev, texlive-latex-extra, texlive-science, texlive-font-utils, ghostscript, gnuplot-nox | 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: 5b1fc195a089c03049c1da7e1130fbeea929c3b3 200448 minimap2_2.27+dfsg.orig.tar.xz a7aa130e9464843d8736dc295f5628441895c4e7 11544 minimap2_2.27+dfsg-1.debian.tar.xz Checksums-Sha256: 3ee11256b940a750072baa0f70e32187f61613f83d3936eb0a5eaedff1cf16df 200448 minimap2_2.27+dfsg.orig.tar.xz 45d509d32766d87c4ca3c8ed7310e2758794418e0c53918fda09f45f8cac5826 11544 minimap2_2.27+dfsg-1.debian.tar.xz Files: 2f98c85235a8086e03367622ae70aef0 200448 minimap2_2.27+dfsg.orig.tar.xz 2b0538bcbffb92d0d127c6a47728340b 11544 minimap2_2.27+dfsg-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEck1gkzcRPHEFUNdHPCZ2P2xn5uIFAmX4beEACgkQPCZ2P2xn 5uIp7g/+L/NnH0UhRPs5Y1qnjFBKgw65y0MB8QyW2WoSqf9qETpmdf83ZiFUfvFD rksJOsodwd4eOVLTInCh50i5bVO0uumldzPSpvM0hcw1eDYv/cjwMMxlZ8NGcWp7 X0PXQ3Xh6j+iwXf6WVOthAYc4ZPVXninEMyk+Lq031bq8fQ3gc3e9UlAgxPjobXu lH4yCYFiv4DNr9+eysuumVsuNWpN5JizJB1h1oE9f5RVtefMW1npnWsIIDs8JnXi ecN57AKNinVHB0OB3ECcyPODBK6Y9nvHVua05WjaD8PMXhjVHX0frINIVU/0x6z5 1N+3oj4hMjJLF3Q8lix+cWIymFBkAUJv6Q/mpp64U2PJopE5auVnvj//URNogy4i 9mwuktMMh7/atf75McmLZzf/lNz4x3B09EeGIucA6sMDU30fdaG8RSnigqpHgYBE S5fmEN98NoTXPY1rgZ3DyKM1wJvRZkk/ql5mRKSEECN9CkChnKPmKHqAIg5VkupX fG904wehRHFfUlZmvrAyc+6xoMzPFXyZVoGd4YrJifFFLmdD+Pc6xYhNoR/EU0r5 PNfV5Q2E1tEUJgVuk/2744D/8i1aSkhI6GmsCP+ir0dtxT8cxszrB4pecw6kxCT8 7RGdqGTqs9gENRB03xH3WzFPy4y4IAqR6cu0r0u+jqESlXNpGzA= =dJxC -----END PGP SIGNATURE----- Sat Dec 21 07:26:27 UTC 2024 I: Checking whether the package is not for us Sat Dec 21 07:26:27 UTC 2024 I: Starting 1st build on remote node ff64a-armhf-rb.debian.net. Sat Dec 21 07:26:27 UTC 2024 I: Preparing to do remote build '1' on ff64a-armhf-rb.debian.net. Sat Dec 21 08:21:31 UTC 2024 I: Deleting $TMPDIR on ff64a-armhf-rb.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Fri Dec 20 19:26:36 -12 2024 I: pbuilder-time-stamp: 1734765996 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [minimap2_2.27+dfsg-1.dsc] I: copying [./minimap2_2.27+dfsg.orig.tar.xz] I: copying [./minimap2_2.27+dfsg-1.debian.tar.xz] I: Extracting source gpgv: Signature made Mon Mar 18 16:37:53 2024 gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./minimap2_2.27+dfsg-1.dsc: no acceptable signature found dpkg-source: info: extracting minimap2 in minimap2-2.27+dfsg dpkg-source: info: unpacking minimap2_2.27+dfsg.orig.tar.xz dpkg-source: info: unpacking minimap2_2.27+dfsg-1.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 ar.patch dpkg-source: info: applying link_mappy_to_libminimap.patch dpkg-source: info: applying python-sse4-arch.patch dpkg-source: info: applying simde dpkg-source: info: applying reenable-simde.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1580/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='armhf' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=5 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='armhf' IFS=' ' INVOCATION_ID='b70c3a4b1fbb4a6eaee58a5f50648618' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='1580' 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.eVRMvXSa/pbuilderrc_2JLu --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.eVRMvXSa/b1 --logfile b1/build.log minimap2_2.27+dfsg-1.dsc' SUDO_GID='114' SUDO_UID='109' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://10.0.0.15:3142/' I: uname -a Linux ff64a 6.1.0-28-arm64 #1 SMP Debian 6.1.119-1 (2024-11-22) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin I: user script /srv/workspace/pbuilder/1580/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: armhf Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), python3-setuptools, dh-sequence-python3, cython3, python3-all-dev, d-shlibs, zlib1g-dev, texlive-latex-extra, texlive-science, texlive-font-utils, ghostscript, gnuplot-nox | 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 ... 19681 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 python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on dh-sequence-python3; however: Package dh-sequence-python3 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-nox | gnuplot; however: Package gnuplot-nox is not installed. 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: aglfn{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} cython3{a} d-shlibs{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} fonts-gfs-baskerville{a} fonts-gfs-porson{a} fonts-lmodern{a} fonts-urw-base35{a} gettext{a} gettext-base{a} ghostscript{a} gnuplot-data{a} gnuplot-nox{a} groff-base{a} intltool-debian{a} libabsl20230802{a} libaom3{a} libapache-pom-java{a} libarchive-zip-perl{a} libavahi-client3{a} libavahi-common-data{a} libavahi-common3{a} libavif16{a} libbrotli1{a} libcairo2{a} libcom-err2{a} libcommons-logging-java{a} libcommons-parent-java{a} libcups2t64{a} libdatrie1{a} libdav1d7{a} libdbus-1-3{a} libde265-0{a} libdebhelper-perl{a} libdeflate0{a} libedit2{a} libelf1t64{a} libexpat1{a} libexpat1-dev{a} libfile-stripnondeterminism-perl{a} libfontbox-java{a} libfontconfig1{a} libfontenc1{a} libfreetype6{a} libfribidi0{a} libgav1-1{a} libgd3{a} libglib2.0-0t64{a} libgraphite2-3{a} libgs-common{a} libgs10{a} libgs10-common{a} libgssapi-krb5-2{a} libharfbuzz0b{a} libheif-plugin-dav1d{a} libheif-plugin-libde265{a} libheif1{a} libice6{a} libicu72{a} libidn12{a} libijs-0.35{a} libimagequant0{a} libjbig0{a} libjbig2dec0{a} libjpeg62-turbo{a} libjs-jquery{a} libjs-sphinxdoc{a} libjs-underscore{a} libk5crypto3{a} libkeyutils1{a} libkpathsea6{a} libkrb5-3{a} libkrb5support0{a} liblcms2-2{a} liblerc4{a} liblua5.4-0{a} libmagic-mgc{a} libmagic1t64{a} libmpfi0{a} libnsl2{a} libopenjp2-7{a} libpango-1.0-0{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libpaper-utils{a} libpaper1{a} libpdfbox-java{a} libpipeline1{a} libpixman-1-0{a} libpng16-16t64{a} libpotrace0{a} libproc2-0{a} libptexenc1{a} libpython3-all-dev{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.12-dev{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libpython3.12t64{a} libraqm0{a} librav1e0.7{a} libreadline8t64{a} libsharpyuv0{a} libsimde-dev{a} libsm6{a} libsvtav1enc2{a} libsynctex2{a} libteckit0{a} libtexlua53-5{a} libthai-data{a} libthai0{a} libtiff6{a} libtirpc-common{a} libtirpc3t64{a} libtool{a} libuchardet0{a} libwebp7{a} libwebpmux3{a} libx11-6{a} libx11-data{a} libxau6{a} libxaw7{a} libxcb-render0{a} libxcb-shm0{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxi6{a} libxml2{a} libxmu6{a} libxpm4{a} libxrender1{a} libxt6t64{a} libyuv0{a} libzzip-0-13t64{a} m4{a} man-db{a} media-types{a} netbase{a} po-debconf{a} poppler-data{a} preview-latex-style{a} procps{a} python3{a} python3-all{a} python3-all-dev{a} python3-autocommand{a} python3-dev{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-minimal{a} python3-more-itertools{a} python3-pkg-resources{a} python3-setuptools{a} python3-typeguard{a} python3-typing-extensions{a} python3-zipp{a} python3.12{a} python3.12-dev{a} python3.12-minimal{a} readline-common{a} sensible-utils{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} xfonts-encodings{a} xfonts-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl dbus default-jre dvisvgm fonts-droid-fallback fonts-liberation groff javascript-common krb5-locales libarchive-cpio-perl libfile-mimeinfo-perl libglib2.0-data libheif-plugin-aomenc libheif-plugin-x265 libltdl-dev libmail-sendmail-perl libnet-dbus-perl libspreadsheet-parseexcel-perl libx11-protocol-perl linux-sysctl-defaults lmodern lynx ps2eps psmisc ruby shared-mime-info tex-gyre texlive-plain-generic tipa tk wget x11-utils x11-xserver-utils xdg-user-dirs 0 packages upgraded, 198 newly installed, 0 to remove and 0 not upgraded. Need to get 259 MB of archives. After unpacking 718 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main armhf poppler-data all 0.4.12-1 [1601 kB] Get: 2 http://deb.debian.org/debian trixie/main armhf libpython3.12-minimal armhf 3.12.8-3 [802 kB] Get: 3 http://deb.debian.org/debian trixie/main armhf libexpat1 armhf 2.6.4-1 [83.5 kB] Get: 4 http://deb.debian.org/debian trixie/main armhf python3.12-minimal armhf 3.12.8-3 [1794 kB] Get: 5 http://deb.debian.org/debian trixie/main armhf python3-minimal armhf 3.12.6-1 [26.7 kB] Get: 6 http://deb.debian.org/debian trixie/main armhf media-types all 10.1.0 [26.9 kB] Get: 7 http://deb.debian.org/debian trixie/main armhf netbase all 6.4 [12.8 kB] Get: 8 http://deb.debian.org/debian trixie/main armhf tzdata all 2024b-4 [256 kB] Get: 9 http://deb.debian.org/debian trixie/main armhf libkrb5support0 armhf 1.21.3-3 [30.0 kB] Get: 10 http://deb.debian.org/debian trixie/main armhf libcom-err2 armhf 1.47.2~rc1-2 [22.9 kB] Get: 11 http://deb.debian.org/debian trixie/main armhf libk5crypto3 armhf 1.21.3-3 [75.8 kB] Get: 12 http://deb.debian.org/debian trixie/main armhf libkeyutils1 armhf 1.6.3-4 [8096 B] Get: 13 http://deb.debian.org/debian trixie/main armhf libkrb5-3 armhf 1.21.3-3 [283 kB] Get: 14 http://deb.debian.org/debian trixie/main armhf libgssapi-krb5-2 armhf 1.21.3-3 [114 kB] Get: 15 http://deb.debian.org/debian trixie/main armhf libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get: 16 http://deb.debian.org/debian trixie/main armhf libtirpc3t64 armhf 1.3.4+ds-1.3+b1 [71.3 kB] Get: 17 http://deb.debian.org/debian trixie/main armhf libnsl2 armhf 1.3.0-3+b3 [35.0 kB] Get: 18 http://deb.debian.org/debian trixie/main armhf readline-common all 8.2-6 [69.4 kB] Get: 19 http://deb.debian.org/debian trixie/main armhf libreadline8t64 armhf 8.2-6 [146 kB] Get: 20 http://deb.debian.org/debian trixie/main armhf libpython3.12-stdlib armhf 3.12.8-3 [1824 kB] Get: 21 http://deb.debian.org/debian trixie/main armhf python3.12 armhf 3.12.8-3 [677 kB] Get: 22 http://deb.debian.org/debian trixie/main armhf libpython3-stdlib armhf 3.12.6-1 [9692 B] Get: 23 http://deb.debian.org/debian trixie/main armhf python3 armhf 3.12.6-1 [27.8 kB] Get: 24 http://deb.debian.org/debian trixie/main armhf libproc2-0 armhf 2:4.0.4-6 [56.0 kB] Get: 25 http://deb.debian.org/debian trixie/main armhf procps armhf 2:4.0.4-6 [864 kB] Get: 26 http://deb.debian.org/debian trixie/main armhf sensible-utils all 0.0.24 [24.8 kB] Get: 27 http://deb.debian.org/debian trixie/main armhf libmagic-mgc armhf 1:5.45-3+b1 [314 kB] Get: 28 http://deb.debian.org/debian trixie/main armhf libmagic1t64 armhf 1:5.45-3+b1 [98.5 kB] Get: 29 http://deb.debian.org/debian trixie/main armhf file armhf 1:5.45-3+b1 [42.3 kB] Get: 30 http://deb.debian.org/debian trixie/main armhf gettext-base armhf 0.22.5-3 [195 kB] Get: 31 http://deb.debian.org/debian trixie/main armhf libuchardet0 armhf 0.0.8-1+b2 [65.6 kB] Get: 32 http://deb.debian.org/debian trixie/main armhf groff-base armhf 1.23.0-6 [1091 kB] Get: 33 http://deb.debian.org/debian trixie/main armhf bsdextrautils armhf 2.40.2-12 [83.9 kB] Get: 34 http://deb.debian.org/debian trixie/main armhf libpipeline1 armhf 1.5.8-1 [35.0 kB] Get: 35 http://deb.debian.org/debian trixie/main armhf man-db armhf 2.13.0-1 [1382 kB] Get: 36 http://deb.debian.org/debian trixie/main armhf ucf all 3.0045 [45.2 kB] Get: 37 http://deb.debian.org/debian trixie/main armhf aglfn all 1.7+git20191031.4036a9c-2 [30.5 kB] Get: 38 http://deb.debian.org/debian trixie/main armhf m4 armhf 1.4.19-4 [264 kB] Get: 39 http://deb.debian.org/debian trixie/main armhf autoconf all 2.72-3 [493 kB] Get: 40 http://deb.debian.org/debian trixie/main armhf autotools-dev all 20220109.1 [51.6 kB] Get: 41 http://deb.debian.org/debian trixie/main armhf automake all 1:1.16.5-1.3 [823 kB] Get: 42 http://deb.debian.org/debian trixie/main armhf autopoint all 0.22.5-3 [723 kB] Get: 43 http://deb.debian.org/debian trixie/main armhf cython3 armhf 3.0.11+dfsg-1+b1 [2812 kB] Get: 44 http://deb.debian.org/debian trixie/main armhf d-shlibs all 0.108 [11.0 kB] Get: 45 http://deb.debian.org/debian trixie/main armhf libdebhelper-perl all 13.20 [89.7 kB] Get: 46 http://deb.debian.org/debian trixie/main armhf libtool all 2.4.7-8 [517 kB] Get: 47 http://deb.debian.org/debian trixie/main armhf dh-autoreconf all 20 [17.1 kB] Get: 48 http://deb.debian.org/debian trixie/main armhf libarchive-zip-perl all 1.68-1 [104 kB] Get: 49 http://deb.debian.org/debian trixie/main armhf libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 50 http://deb.debian.org/debian trixie/main armhf dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 51 http://deb.debian.org/debian trixie/main armhf libelf1t64 armhf 0.192-4 [184 kB] Get: 52 http://deb.debian.org/debian trixie/main armhf dwz armhf 0.15-1+b2 [106 kB] Get: 53 http://deb.debian.org/debian trixie/main armhf libicu72 armhf 72.1-5+b1 [9088 kB] Get: 54 http://deb.debian.org/debian trixie/main armhf libxml2 armhf 2.12.7+dfsg+really2.9.14-0.2+b1 [605 kB] Get: 55 http://deb.debian.org/debian trixie/main armhf gettext armhf 0.22.5-3 [1488 kB] Get: 56 http://deb.debian.org/debian trixie/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 57 http://deb.debian.org/debian trixie/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 58 http://deb.debian.org/debian trixie/main armhf debhelper all 13.20 [915 kB] Get: 59 http://deb.debian.org/debian trixie/main armhf python3-autocommand all 2.2.2-3 [13.6 kB] Get: 60 http://deb.debian.org/debian trixie/main armhf python3-more-itertools all 10.5.0-1 [63.8 kB] Get: 61 http://deb.debian.org/debian trixie/main armhf python3-typing-extensions all 4.12.2-2 [73.0 kB] Get: 62 http://deb.debian.org/debian trixie/main armhf python3-typeguard all 4.4.1-1 [37.0 kB] Get: 63 http://deb.debian.org/debian trixie/main armhf python3-inflect all 7.3.1-2 [32.4 kB] Get: 64 http://deb.debian.org/debian trixie/main armhf python3-jaraco.context all 6.0.0-1 [7984 B] Get: 65 http://deb.debian.org/debian trixie/main armhf python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 66 http://deb.debian.org/debian trixie/main armhf python3-pkg-resources all 75.2.0-1 [213 kB] Get: 67 http://deb.debian.org/debian trixie/main armhf python3-jaraco.text all 4.0.0-1 [11.4 kB] Get: 68 http://deb.debian.org/debian trixie/main armhf python3-zipp all 3.21.0-1 [10.6 kB] Get: 69 http://deb.debian.org/debian trixie/main armhf python3-setuptools all 75.2.0-1 [731 kB] Get: 70 http://deb.debian.org/debian trixie/main armhf dh-python all 6.20241217 [113 kB] Get: 71 http://deb.debian.org/debian trixie/main armhf libbrotli1 armhf 1.1.0-2+b6 [282 kB] Get: 72 http://deb.debian.org/debian trixie/main armhf libpng16-16t64 armhf 1.6.44-3 [263 kB] Get: 73 http://deb.debian.org/debian trixie/main armhf libfreetype6 armhf 2.13.3+dfsg-1 [385 kB] Get: 74 http://deb.debian.org/debian trixie/main armhf fonts-dejavu-mono all 2.37-8 [489 kB] Get: 75 http://deb.debian.org/debian trixie/main armhf fonts-dejavu-core all 2.37-8 [840 kB] Get: 76 http://deb.debian.org/debian trixie/main armhf libfontenc1 armhf 1:1.1.8-1+b1 [20.8 kB] Get: 77 http://deb.debian.org/debian trixie/main armhf x11-common all 1:7.7+23.1 [216 kB] Get: 78 http://deb.debian.org/debian trixie/main armhf xfonts-encodings all 1:1.0.4-2.2 [577 kB] Get: 79 http://deb.debian.org/debian trixie/main armhf xfonts-utils armhf 1:7.7+7 [84.2 kB] Get: 80 http://deb.debian.org/debian trixie/main armhf fonts-urw-base35 all 20200910-8 [10.8 MB] Get: 81 http://deb.debian.org/debian trixie/main armhf fontconfig-config armhf 2.15.0-1.1+b1 [318 kB] Get: 82 http://deb.debian.org/debian trixie/main armhf libfontconfig1 armhf 2.15.0-1.1+b1 [371 kB] Get: 83 http://deb.debian.org/debian trixie/main armhf fontconfig armhf 2.15.0-1.1+b1 [461 kB] Get: 84 http://deb.debian.org/debian trixie/main armhf fonts-gfs-baskerville all 1.1-6 [43.7 kB] Get: 85 http://deb.debian.org/debian trixie/main armhf fonts-gfs-porson all 1.1-7 [33.8 kB] Get: 86 http://deb.debian.org/debian trixie/main armhf fonts-lmodern all 2.005-1 [4540 kB] Get: 87 http://deb.debian.org/debian trixie/main armhf libgs-common all 10.04.0~dfsg-2 [148 kB] Get: 88 http://deb.debian.org/debian trixie/main armhf libgs10-common all 10.04.0~dfsg-2 [475 kB] Get: 89 http://deb.debian.org/debian trixie/main armhf libavahi-common-data armhf 0.8-15 [112 kB] Get: 90 http://deb.debian.org/debian trixie/main armhf libavahi-common3 armhf 0.8-15 [41.0 kB] Get: 91 http://deb.debian.org/debian trixie/main armhf libdbus-1-3 armhf 1.16.0-1 [154 kB] Get: 92 http://deb.debian.org/debian trixie/main armhf libavahi-client3 armhf 0.8-15 [44.4 kB] Get: 93 http://deb.debian.org/debian trixie/main armhf libcups2t64 armhf 2.4.10-2 [216 kB] Get: 94 http://deb.debian.org/debian trixie/main armhf libidn12 armhf 1.42-2+b1 [77.5 kB] Get: 95 http://deb.debian.org/debian trixie/main armhf libijs-0.35 armhf 0.35-15.1+b2 [13.4 kB] Get: 96 http://deb.debian.org/debian trixie/main armhf libjbig2dec0 armhf 0.20-1+b3 [56.3 kB] Get: 97 http://deb.debian.org/debian trixie/main armhf libjpeg62-turbo armhf 1:2.1.5-3+b1 [145 kB] Get: 98 http://deb.debian.org/debian trixie/main armhf liblcms2-2 armhf 2.16-2 [131 kB] Get: 99 http://deb.debian.org/debian trixie/main armhf libopenjp2-7 armhf 2.5.0-2+b4 [179 kB] Get: 100 http://deb.debian.org/debian trixie/main armhf libpaper1 armhf 1.1.29+b2 [12.2 kB] Get: 101 http://deb.debian.org/debian trixie/main armhf libdeflate0 armhf 1.22-1 [36.3 kB] Get: 102 http://deb.debian.org/debian trixie/main armhf libjbig0 armhf 2.1-6.1+b2 [27.3 kB] Get: 103 http://deb.debian.org/debian trixie/main armhf liblerc4 armhf 4.0.0+ds-5 [146 kB] Get: 104 http://deb.debian.org/debian trixie/main armhf libsharpyuv0 armhf 1.4.0-0.1+b1 [111 kB] Get: 105 http://deb.debian.org/debian trixie/main armhf libwebp7 armhf 1.4.0-0.1+b1 [266 kB] Get: 106 http://deb.debian.org/debian trixie/main armhf libtiff6 armhf 4.5.1+git230720-5 [302 kB] Get: 107 http://deb.debian.org/debian trixie/main armhf libxau6 armhf 1:1.0.11-1 [19.7 kB] Get: 108 http://deb.debian.org/debian trixie/main armhf libxdmcp6 armhf 1:1.1.5-1 [26.4 kB] Get: 109 http://deb.debian.org/debian trixie/main armhf libxcb1 armhf 1.17.0-2+b1 [140 kB] Get: 110 http://deb.debian.org/debian trixie/main armhf libx11-data all 2:1.8.10-2 [337 kB] Get: 111 http://deb.debian.org/debian trixie/main armhf libx11-6 armhf 2:1.8.10-2 [750 kB] Get: 112 http://deb.debian.org/debian trixie/main armhf libice6 armhf 2:1.1.1-1 [58.5 kB] Get: 113 http://deb.debian.org/debian trixie/main armhf libsm6 armhf 2:1.2.4-1 [33.5 kB] Get: 114 http://deb.debian.org/debian trixie/main armhf libxt6t64 armhf 1:1.2.1-1.2+b1 [160 kB] Get: 115 http://deb.debian.org/debian trixie/main armhf libgs10 armhf 10.04.0~dfsg-2 [2185 kB] Get: 116 http://deb.debian.org/debian trixie/main armhf ghostscript armhf 10.04.0~dfsg-2 [50.4 kB] Get: 117 http://deb.debian.org/debian trixie/main armhf gnuplot-data all 6.0.0+dfsg1-3 [72.3 kB] Get: 118 http://deb.debian.org/debian trixie/main armhf libpixman-1-0 armhf 0.44.0-3 [164 kB] Get: 119 http://deb.debian.org/debian trixie/main armhf libxcb-render0 armhf 1.17.0-2+b1 [114 kB] Get: 120 http://deb.debian.org/debian trixie/main armhf libxcb-shm0 armhf 1.17.0-2+b1 [105 kB] Get: 121 http://deb.debian.org/debian trixie/main armhf libxext6 armhf 2:1.3.4-1+b2 [45.2 kB] Get: 122 http://deb.debian.org/debian trixie/main armhf libxrender1 armhf 1:0.9.10-1.1+b3 [25.0 kB] Get: 123 http://deb.debian.org/debian trixie/main armhf libcairo2 armhf 1.18.2-2 [443 kB] Get: 124 http://deb.debian.org/debian trixie/main armhf libedit2 armhf 3.1-20240808-1 [77.9 kB] Get: 125 http://deb.debian.org/debian trixie/main armhf libaom3 armhf 3.11.0-1 [1599 kB] Get: 126 http://deb.debian.org/debian trixie/main armhf libdav1d7 armhf 1.5.0-1+b1 [250 kB] Get: 127 http://deb.debian.org/debian trixie/main armhf libabsl20230802 armhf 20230802.1-4 [432 kB] Get: 128 http://deb.debian.org/debian trixie/main armhf libgav1-1 armhf 0.19.0-2+b2 [298 kB] Get: 129 http://deb.debian.org/debian trixie/main armhf librav1e0.7 armhf 0.7.1-7+b3 [585 kB] Get: 130 http://deb.debian.org/debian trixie/main armhf libsvtav1enc2 armhf 2.3.0+dfsg-1 [970 kB] Get: 131 http://deb.debian.org/debian trixie/main armhf libyuv0 armhf 0.0.1898.20241125-1 [86.6 kB] Get: 132 http://deb.debian.org/debian trixie/main armhf libavif16 armhf 1.1.1-1 [103 kB] Get: 133 http://deb.debian.org/debian trixie/main armhf libheif-plugin-dav1d armhf 1.19.3-1 [10.8 kB] Get: 134 http://deb.debian.org/debian trixie/main armhf libde265-0 armhf 1.0.15-1+b2 [145 kB] Get: 135 http://deb.debian.org/debian trixie/main armhf libheif-plugin-libde265 armhf 1.19.3-1 [13.9 kB] Get: 136 http://deb.debian.org/debian trixie/main armhf libheif1 armhf 1.19.3-1 [410 kB] Get: 137 http://deb.debian.org/debian trixie/main armhf libimagequant0 armhf 2.18.0-1+b2 [30.5 kB] Get: 138 http://deb.debian.org/debian trixie/main armhf libfribidi0 armhf 1.0.16-1 [24.6 kB] Get: 139 http://deb.debian.org/debian trixie/main armhf libglib2.0-0t64 armhf 2.82.4-1 [1327 kB] Get: 140 http://deb.debian.org/debian trixie/main armhf libgraphite2-3 armhf 1.3.14-2+b1 [63.1 kB] Get: 141 http://deb.debian.org/debian trixie/main armhf libharfbuzz0b armhf 10.1.0-1 [418 kB] Get: 142 http://deb.debian.org/debian trixie/main armhf libraqm0 armhf 0.10.2-1 [11.6 kB] Get: 143 http://deb.debian.org/debian trixie/main armhf libxpm4 armhf 1:3.5.17-1+b2 [50.4 kB] Get: 144 http://deb.debian.org/debian trixie/main armhf libgd3 armhf 2.3.3-12+b1 [105 kB] Get: 145 http://deb.debian.org/debian trixie/main armhf liblua5.4-0 armhf 5.4.7-1+b1 [123 kB] Get: 146 http://deb.debian.org/debian trixie/main armhf libthai-data all 0.1.29-2 [168 kB] Get: 147 http://deb.debian.org/debian trixie/main armhf libdatrie1 armhf 0.2.13-3+b1 [34.7 kB] Get: 148 http://deb.debian.org/debian trixie/main armhf libthai0 armhf 0.1.29-2+b1 [46.0 kB] Get: 149 http://deb.debian.org/debian trixie/main armhf libpango-1.0-0 armhf 1.55.0+ds-3 [200 kB] Get: 150 http://deb.debian.org/debian trixie/main armhf libpangoft2-1.0-0 armhf 1.55.0+ds-3 [47.7 kB] Get: 151 http://deb.debian.org/debian trixie/main armhf libpangocairo-1.0-0 armhf 1.55.0+ds-3 [31.3 kB] Get: 152 http://deb.debian.org/debian trixie/main armhf libwebpmux3 armhf 1.4.0-0.1+b1 [120 kB] Get: 153 http://deb.debian.org/debian trixie/main armhf gnuplot-nox armhf 6.0.0+dfsg1-3 [838 kB] Get: 154 http://deb.debian.org/debian trixie/main armhf libapache-pom-java all 33-2 [5852 B] Get: 155 http://deb.debian.org/debian trixie/main armhf libcommons-parent-java all 56-1 [10.8 kB] Get: 156 http://deb.debian.org/debian trixie/main armhf libcommons-logging-java all 1.3.0-1 [68.6 kB] Get: 157 http://deb.debian.org/debian trixie/main armhf libexpat1-dev armhf 2.6.4-1 [140 kB] Get: 158 http://deb.debian.org/debian trixie/main armhf libfontbox-java all 1:1.8.16-5 [211 kB] Get: 159 http://deb.debian.org/debian trixie/main armhf libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 160 http://deb.debian.org/debian trixie/main armhf libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 161 http://deb.debian.org/debian trixie/main armhf libjs-sphinxdoc all 8.1.3-2 [30.3 kB] Get: 162 http://deb.debian.org/debian trixie/main armhf libkpathsea6 armhf 2024.20240313.70630+ds-5 [147 kB] Get: 163 http://deb.debian.org/debian trixie/main armhf libmpfi0 armhf 1.5.4+ds-4 [28.8 kB] Get: 164 http://deb.debian.org/debian trixie/main armhf libpaper-utils armhf 1.1.29+b2 [8700 B] Get: 165 http://deb.debian.org/debian trixie/main armhf libpdfbox-java all 1:1.8.16-5 [5527 kB] Get: 166 http://deb.debian.org/debian trixie/main armhf libpotrace0 armhf 1.16-2+b2 [22.7 kB] Get: 167 http://deb.debian.org/debian trixie/main armhf libptexenc1 armhf 2024.20240313.70630+ds-5 [44.4 kB] Get: 168 http://deb.debian.org/debian trixie/main armhf libpython3.12t64 armhf 3.12.8-3 [1849 kB] Get: 169 http://deb.debian.org/debian trixie/main armhf zlib1g-dev armhf 1:1.3.dfsg+really1.3.1-1+b1 [905 kB] Get: 170 http://deb.debian.org/debian trixie/main armhf libpython3.12-dev armhf 3.12.8-3 [3812 kB] Get: 171 http://deb.debian.org/debian trixie/main armhf libpython3-dev armhf 3.12.6-1 [9952 B] Get: 172 http://deb.debian.org/debian trixie/main armhf libpython3-all-dev armhf 3.12.6-1 [1064 B] Get: 173 http://deb.debian.org/debian trixie/main armhf libsimde-dev all 0.8.2-2 [467 kB] Get: 174 http://deb.debian.org/debian trixie/main armhf libsynctex2 armhf 2024.20240313.70630+ds-5 [49.2 kB] Get: 175 http://deb.debian.org/debian trixie/main armhf libteckit0 armhf 2.5.12+ds1-1+b1 [259 kB] Get: 176 http://deb.debian.org/debian trixie/main armhf libtexlua53-5 armhf 2024.20240313.70630+ds-5 [83.4 kB] Get: 177 http://deb.debian.org/debian trixie/main armhf libxmu6 armhf 2:1.1.3-3+b3 [51.2 kB] Get: 178 http://deb.debian.org/debian trixie/main armhf libxaw7 armhf 2:1.0.16-1 [177 kB] Get: 179 http://deb.debian.org/debian trixie/main armhf libxi6 armhf 2:1.8.2-1 [73.6 kB] Get: 180 http://deb.debian.org/debian trixie/main armhf libzzip-0-13t64 armhf 0.13.72+dfsg.1-1.2+b1 [53.0 kB] Get: 181 http://deb.debian.org/debian trixie/main armhf tex-common all 6.18 [32.5 kB] Get: 182 http://deb.debian.org/debian trixie/main armhf preview-latex-style all 13.2-1 [350 kB] Get: 183 http://deb.debian.org/debian trixie/main armhf python3-all armhf 3.12.6-1 [1040 B] Get: 184 http://deb.debian.org/debian trixie/main armhf python3.12-dev armhf 3.12.8-3 [506 kB] Get: 185 http://deb.debian.org/debian trixie/main armhf python3-dev armhf 3.12.6-1 [26.1 kB] Get: 186 http://deb.debian.org/debian trixie/main armhf python3-all-dev armhf 3.12.6-1 [1068 B] Get: 187 http://deb.debian.org/debian trixie/main armhf t1utils armhf 1.41-4 [54.7 kB] Get: 188 http://deb.debian.org/debian trixie/main armhf texlive-binaries armhf 2024.20240313.70630+ds-5 [6041 kB] Get: 189 http://deb.debian.org/debian trixie/main armhf xdg-utils all 1.2.1-2 [75.8 kB] Get: 190 http://deb.debian.org/debian trixie/main armhf texlive-base all 2024.20241115-1 [22.7 MB] Get: 191 http://deb.debian.org/debian trixie/main armhf texlive-font-utils all 2024.20241115-1 [6980 kB] Get: 192 http://deb.debian.org/debian trixie/main armhf texlive-fonts-recommended all 2024.20241115-1 [4991 kB] Get: 193 http://deb.debian.org/debian trixie/main armhf texlive-lang-greek all 2024.20241115-1 [79.2 MB] Get: 194 http://deb.debian.org/debian trixie/main armhf texlive-latex-base all 2024.20241115-1 [1278 kB] Get: 195 http://deb.debian.org/debian trixie/main armhf texlive-latex-recommended all 2024.20241115-1 [8757 kB] Get: 196 http://deb.debian.org/debian trixie/main armhf texlive-pictures all 2024.20241115-1 [17.0 MB] Get: 197 http://deb.debian.org/debian trixie/main armhf texlive-latex-extra all 2024.20241115-1 [24.6 MB] Get: 198 http://deb.debian.org/debian trixie/main armhf texlive-science all 2024.20241115-1 [3876 kB] Fetched 259 MB in 11s (23.2 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package poppler-data. (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 ... 19681 files and directories currently installed.) Preparing to unpack .../poppler-data_0.4.12-1_all.deb ... Unpacking poppler-data (0.4.12-1) ... Selecting previously unselected package libpython3.12-minimal:armhf. Preparing to unpack .../libpython3.12-minimal_3.12.8-3_armhf.deb ... Unpacking libpython3.12-minimal:armhf (3.12.8-3) ... Selecting previously unselected package libexpat1:armhf. Preparing to unpack .../libexpat1_2.6.4-1_armhf.deb ... Unpacking libexpat1:armhf (2.6.4-1) ... Selecting previously unselected package python3.12-minimal. Preparing to unpack .../python3.12-minimal_3.12.8-3_armhf.deb ... Unpacking python3.12-minimal (3.12.8-3) ... Setting up libpython3.12-minimal:armhf (3.12.8-3) ... Setting up libexpat1:armhf (2.6.4-1) ... Setting up python3.12-minimal (3.12.8-3) ... Selecting previously unselected package python3-minimal. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20535 files and directories currently installed.) Preparing to unpack .../00-python3-minimal_3.12.6-1_armhf.deb ... Unpacking python3-minimal (3.12.6-1) ... Selecting previously unselected package media-types. Preparing to unpack .../01-media-types_10.1.0_all.deb ... Unpacking media-types (10.1.0) ... Selecting previously unselected package netbase. Preparing to unpack .../02-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package tzdata. Preparing to unpack .../03-tzdata_2024b-4_all.deb ... Unpacking tzdata (2024b-4) ... Selecting previously unselected package libkrb5support0:armhf. Preparing to unpack .../04-libkrb5support0_1.21.3-3_armhf.deb ... Unpacking libkrb5support0:armhf (1.21.3-3) ... Selecting previously unselected package libcom-err2:armhf. Preparing to unpack .../05-libcom-err2_1.47.2~rc1-2_armhf.deb ... Unpacking libcom-err2:armhf (1.47.2~rc1-2) ... Selecting previously unselected package libk5crypto3:armhf. Preparing to unpack .../06-libk5crypto3_1.21.3-3_armhf.deb ... Unpacking libk5crypto3:armhf (1.21.3-3) ... Selecting previously unselected package libkeyutils1:armhf. Preparing to unpack .../07-libkeyutils1_1.6.3-4_armhf.deb ... Unpacking libkeyutils1:armhf (1.6.3-4) ... Selecting previously unselected package libkrb5-3:armhf. Preparing to unpack .../08-libkrb5-3_1.21.3-3_armhf.deb ... Unpacking libkrb5-3:armhf (1.21.3-3) ... Selecting previously unselected package libgssapi-krb5-2:armhf. Preparing to unpack .../09-libgssapi-krb5-2_1.21.3-3_armhf.deb ... Unpacking libgssapi-krb5-2:armhf (1.21.3-3) ... Selecting previously unselected package libtirpc-common. Preparing to unpack .../10-libtirpc-common_1.3.4+ds-1.3_all.deb ... Unpacking libtirpc-common (1.3.4+ds-1.3) ... Selecting previously unselected package libtirpc3t64:armhf. Preparing to unpack .../11-libtirpc3t64_1.3.4+ds-1.3+b1_armhf.deb ... Adding 'diversion of /lib/arm-linux-gnueabihf/libtirpc.so.3 to /lib/arm-linux-gnueabihf/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libtirpc.so.3.0.0 to /lib/arm-linux-gnueabihf/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:armhf (1.3.4+ds-1.3+b1) ... Selecting previously unselected package libnsl2:armhf. Preparing to unpack .../12-libnsl2_1.3.0-3+b3_armhf.deb ... Unpacking libnsl2:armhf (1.3.0-3+b3) ... Selecting previously unselected package readline-common. Preparing to unpack .../13-readline-common_8.2-6_all.deb ... Unpacking readline-common (8.2-6) ... Selecting previously unselected package libreadline8t64:armhf. Preparing to unpack .../14-libreadline8t64_8.2-6_armhf.deb ... Adding 'diversion of /lib/arm-linux-gnueabihf/libhistory.so.8 to /lib/arm-linux-gnueabihf/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libhistory.so.8.2 to /lib/arm-linux-gnueabihf/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libreadline.so.8 to /lib/arm-linux-gnueabihf/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libreadline.so.8.2 to /lib/arm-linux-gnueabihf/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:armhf (8.2-6) ... Selecting previously unselected package libpython3.12-stdlib:armhf. 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(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 ... 21598 files and directories currently installed.) Preparing to unpack .../000-python3_3.12.6-1_armhf.deb ... Unpacking python3 (3.12.6-1) ... Selecting previously unselected package libproc2-0:armhf. Preparing to unpack .../001-libproc2-0_2%3a4.0.4-6_armhf.deb ... Unpacking libproc2-0:armhf (2:4.0.4-6) ... Selecting previously unselected package procps. Preparing to unpack .../002-procps_2%3a4.0.4-6_armhf.deb ... Unpacking procps (2:4.0.4-6) ... 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Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up groff-base (1.23.0-6) ... Setting up libharfbuzz0b:armhf (10.1.0-1) ... Setting up libfontconfig1:armhf (2.15.0-1.1+b1) ... Setting up libsm6:armhf (2:1.2.4-1) ... Setting up libavahi-client3:armhf (0.8-15) ... Setting up libpaper1:armhf (1.1.29+b2) ... Creating config file /etc/papersize with new version Setting up fontconfig (2.15.0-1.1+b1) ... Regenerating fonts cache... done. Setting up libavif16:armhf (1.1.1-1) ... Setting up libxi6:armhf (2:1.8.2-1) ... Setting up libtirpc3t64:armhf (1.3.4+ds-1.3+b1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libpango-1.0-0:armhf (1.55.0+ds-3) ... Setting up libpaper-utils (1.1.29+b2) ... Setting up xfonts-utils (1:7.7+7) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libcairo2:armhf (1.18.2-2) ... Setting up tex-common (6.18) ... update-language: texlive-base not installed and configured, doing nothing! Setting up libraqm0:armhf (0.10.2-1) ... Setting up libxt6t64:armhf (1:1.2.1-1.2+b1) ... Setting up libnsl2:armhf (1.3.0-3+b3) ... Setting up libpangoft2-1.0-0:armhf (1.55.0+ds-3) ... Setting up libcups2t64:armhf (2.4.10-2) ... Setting up libpangocairo-1.0-0:armhf (1.55.0+ds-3) ... Setting up libxmu6:armhf (2:1.1.3-3+b3) ... Setting up libpython3.12-stdlib:armhf (3.12.8-3) ... Setting up preview-latex-style (13.2-1) ... Setting up python3.12 (3.12.8-3) ... Setting up debhelper (13.20) ... Setting up libxaw7:armhf (2:1.0.16-1) ... Setting up fonts-urw-base35 (20200910-8) ... Setting up libpython3.12t64:armhf (3.12.8-3) ... Setting up texlive-binaries (2024.20240313.70630+ds-5) ... 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 texlive-base (2024.20241115-1) ... 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 libpython3-stdlib:armhf (3.12.6-1) ... Setting up libgs10-common (10.04.0~dfsg-2) ... Setting up python3 (3.12.6-1) ... Setting up libpython3.12-dev:armhf (3.12.8-3) ... Setting up texlive-lang-greek (2024.20241115-1) ... Setting up texlive-font-utils (2024.20241115-1) ... Setting up python3-zipp (3.21.0-1) ... 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Setting up python3-jaraco.text (4.0.0-1) ... Setting up python3-dev (3.12.6-1) ... Setting up python3-pkg-resources (75.2.0-1) ... Setting up python3-all-dev (3.12.6-1) ... Setting up python3-setuptools (75.2.0-1) ... Setting up dh-python (6.20241217) ... Setting up libheif-plugin-dav1d:armhf (1.19.3-1) ... Setting up libheif-plugin-libde265:armhf (1.19.3-1) ... Setting up libheif1:armhf (1.19.3-1) ... Setting up libgd3:armhf (2.3.3-12+b1) ... Setting up gnuplot-nox (6.0.0+dfsg1-3) ... update-alternatives: using /usr/bin/gnuplot-nox to provide /usr/bin/gnuplot (gnuplot) in auto mode Processing triggers for libc-bin (2.40-4) ... Processing triggers for tex-common (6.18) ... Running updmap-sys. This may take some time... done. Running mktexlsr /var/lib/texmf ... done. Building format(s) --all. This may take some time... done. Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/minimap2-2.27+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_2.27+dfsg-1_source.changes dpkg-buildpackage: info: source package minimap2 dpkg-buildpackage: info: source version 2.27+dfsg-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Michael R. Crusoe dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf debian/rules clean dh clean debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/minimap2-2.27+dfsg' dh_auto_clean make -j5 clean make[2]: Entering directory '/build/reproducible-path/minimap2-2.27+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/minimap2-2.27+dfsg' dh_auto_clean --buildsystem=pybuild I: pybuild base:311: python3.12 setup.py clean /usr/lib/python3/dist-packages/setuptools/__init__.py:94: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. !! ******************************************************************************** Requirements should be satisfied by a PEP 517 installer. If you are using pip, you can try `pip install --use-pep517`. ******************************************************************************** !! dist.fetch_build_eggs(dist.setup_requires) running clean removing '/build/reproducible-path/minimap2-2.27+dfsg/.pybuild/cpython3_3.12/build' (and everything under it) 'build/bdist.linux-armv7l' does not exist -- can't clean it 'build/scripts-3.12' does not exist -- can't clean it cd tex && make clean make[2]: Entering directory '/build/reproducible-path/minimap2-2.27+dfsg/tex' rm -fr *.toc *.aux *.bbl *.blg *.idx *.log *.out *~ minimap2.pdf make[2]: Leaving directory '/build/reproducible-path/minimap2-2.27+dfsg/tex' make[1]: Leaving directory '/build/reproducible-path/minimap2-2.27+dfsg' dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/minimap2-2.27+dfsg' dh_auto_build -- -f Makefile.simde make -j5 "INSTALL=install --strip-program=true" -f Makefile.simde make[2]: Entering directory '/build/reproducible-path/minimap2-2.27+dfsg' cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 main.c -o main.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 kthread.c -o kthread.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 kalloc.c -o kalloc.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 misc.c -o misc.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 bseq.c -o bseq.o kalloc.c: In function 'km_stat_print': kalloc.c:222:42: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 222 | fprintf(stderr, "[km_stat] cap=%ld, avail=%ld, largest=%ld, n_core=%ld, n_block=%ld\n", | ~~^ | | | long int | %d 223 | st.capacity, st.available, st.largest, st.n_blocks, st.n_cores); | ~~~~~~~~~~~ | | | size_t {aka unsigned int} kalloc.c:222:53: warning: format '%ld' expects argument of type 'long int', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 222 | fprintf(stderr, "[km_stat] cap=%ld, avail=%ld, largest=%ld, n_core=%ld, n_block=%ld\n", | ~~^ | | | long int | %d 223 | st.capacity, st.available, st.largest, st.n_blocks, st.n_cores); | ~~~~~~~~~~~~ | | | size_t {aka unsigned int} kalloc.c:222:66: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 222 | fprintf(stderr, "[km_stat] cap=%ld, avail=%ld, largest=%ld, n_core=%ld, n_block=%ld\n", | ~~^ | | | long int | %d 223 | st.capacity, st.available, st.largest, st.n_blocks, st.n_cores); | ~~~~~~~~~~ | | | size_t {aka unsigned int} kalloc.c:222:78: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 222 | fprintf(stderr, "[km_stat] cap=%ld, avail=%ld, largest=%ld, n_core=%ld, n_block=%ld\n", | ~~^ | | | long int | %d 223 | st.capacity, st.available, st.largest, st.n_blocks, st.n_cores); | ~~~~~~~~~~~ | | | size_t {aka unsigned int} kalloc.c:222:91: warning: format '%ld' expects argument of type 'long int', but argument 7 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 222 | fprintf(stderr, "[km_stat] cap=%ld, avail=%ld, largest=%ld, n_core=%ld, n_block=%ld\n", | ~~^ | | | long int | %d 223 | st.capacity, st.available, st.largest, st.n_blocks, st.n_cores); | ~~~~~~~~~~ | | | size_t {aka unsigned int} cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 sketch.c -o sketch.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 sdust.c -o sdust.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 options.c -o options.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 index.c -o index.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 lchain.c -o lchain.o index.c: In function 'mm_idx_load': index.c:520:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 520 | fread(&l, 1, 1, fp); | ^~~~~~~~~~~~~~~~~~~ index.c:523:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 523 | fread(s->name, 1, l, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~ index.c:526:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 526 | fread(&s->len, 4, 1, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~ index.c:536:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 536 | fread(&b->n, 4, 1, fp); | ^~~~~~~~~~~~~~~~~~~~~~ index.c:538:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 538 | fread(b->p, 8, b->n, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~ index.c:539:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 539 | fread(&size, 4, 1, fp); | ^~~~~~~~~~~~~~~~~~~~~~ index.c:546:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 546 | fread(x, 8, 2, fp); | ^~~~~~~~~~~~~~~~~~ index.c:554:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 554 | fread(mi->S, 4, (sum_len + 7) / 8, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 align.c -o align.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 hit.c -o hit.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 seed.c -o seed.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 map.c -o map.o map.c: In function 'mm_map_frag': map.c:365:60: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 365 | 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:365:70: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 365 | 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:365:82: warning: format '%ld' expects argument of type 'long int', but argument 7 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 365 | 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 cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 format.c -o format.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 pe.c -o pe.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 esterr.c -o esterr.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 splitidx.c -o splitidx.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 ksw2_ll_sse.c -o ksw2_ll_sse.o cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DKSW_SSE2_ONLY -D__SSE2__ ksw2_extz2_sse.c -o ksw2_extz2.o ksw2_extz2_sse.c:5:9: warning: "SIMDE_ENABLE_NATIVE_ALIASES" redefined 5 | #define SIMDE_ENABLE_NATIVE_ALIASES | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ : note: this is the location of the previous definition cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DKSW_SSE2_ONLY -D__SSE2__ ksw2_extd2_sse.c -o ksw2_extd2.o ksw2_extd2_sse.c:6:9: warning: "SIMDE_ENABLE_NATIVE_ALIASES" redefined 6 | #define SIMDE_ENABLE_NATIVE_ALIASES | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ : note: this is the location of the previous definition cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DKSW_SSE2_ONLY -D__SSE2__ ksw2_exts2_sse.c -o ksw2_exts2.o ksw2_exts2_sse.c:6:9: warning: "SIMDE_ENABLE_NATIVE_ALIASES" redefined 6 | #define SIMDE_ENABLE_NATIVE_ALIASES | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ : note: this is the location of the previous definition rm -f libminimap2.a ar csrD libminimap2.a kthread.o kalloc.o misc.o bseq.o sketch.o sdust.o options.o index.o lchain.o align.o hit.o seed.o map.o format.o pe.o esterr.o splitidx.o ksw2_ll_sse.o ksw2_extz2.o ksw2_extd2.o ksw2_exts2.o cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES main.o -o minimap2 -L. -lminimap2 -lm -lz -lpthread -Wl,-z,relro -Wl,-z,now make[2]: Leaving directory '/build/reproducible-path/minimap2-2.27+dfsg' cd tex && make make[2]: Entering directory '/build/reproducible-path/minimap2-2.27+dfsg/tex' gnuplot roc.gp epstopdf --outfile roc-color.pdf roc-color.eps Fontconfig error: No writable cache directories Fontconfig error: No writable cache directories pdflatex minimap2; bibtex minimap2; pdflatex minimap2; pdflatex minimap2; This is pdfTeX, 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(./minimap2.aux) LaTeX Font Warning: Size substitutions with differences (Font) up to 0.5pt have occurred. LaTeX Warning: There were undefined references. LaTeX Warning: Label(s) may have changed. Rerun to get cross-references right. Package rerunfilecheck Warning: File `minimap2.out' has changed. (rerunfilecheck) Rerun to get outlines right (rerunfilecheck) or use package `bookmark'. ) (see the transcript file for additional information) Output written on minimap2.pdf (5 pages, 255395 bytes). Transcript written on minimap2.log. This is BibTeX, Version 0.99d (TeX Live 2025/dev/Debian) The top-level auxiliary file: minimap2.aux The style file: apalike.bst Database file #1: minimap2.bib This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2025/dev/Debian) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./minimap2.tex LaTeX2e <2024-11-01> L3 programming layer <2024-11-02> (./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/mathcolor.ltx)) (/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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[1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}{/usr/share/texlive/texmf- dist/fonts/enc/dvips/base/8r.enc}] Package hyperref Warning: Token not allowed in a PDF string (Unicode): (hyperref) removing `math shift' on input line 204. Package hyperref Warning: Token not allowed in a PDF string (Unicode): (hyperref) removing `math shift' on input line 204. Package natbib Warning: Citation `Berlin:2015xy' on page 2 undefined on input l ine 217. Package natbib Warning: Citation `Gotoh:1990aa' on page 2 undefined on input li ne 229. Package natbib Warning: Citation `Gotoh:1982aa' on page 2 undefined on input li ne 251. Package natbib Warning: Citation `Altschul:1986aa' on page 2 undefined on input line 251. Package natbib Warning: Citation `Farrar:2007hs' on page 2 undefined on input l ine 257. Package natbib Warning: Citation `Wu:1996aa' on page 2 undefined on input line 261. Package natbib Warning: Citation `Suzuki:2018aa' on page 2 undefined on input l ine 261. 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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 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 1953) in paragraph at lines 120--123 []\OT1/ptm/m/n/7 Li, H. et al. (2009). The Sequence Alignment/Map format and S AMtools. ) 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) Output written on minimap2.pdf (6 pages, 266716 bytes). Transcript written on minimap2.log. This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2025/dev/Debian) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./minimap2.tex LaTeX2e <2024-11-01> L3 programming layer <2024-11-02> (./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/mathcolor.ltx)) (/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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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}{/usr/share/texlive/texmf- dist/fonts/enc/dvips/base/8r.enc}] Package hyperref Warning: Token not allowed in a PDF string (Unicode): (hyperref) removing `math shift' on input line 204. Package hyperref Warning: Token not allowed in a PDF string (Unicode): (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 1953) in paragraph at lines 120--123 []\OT1/ptm/m/n/7 Li, H. et al. (2009). The Sequence Alignment/Map format and S AMtools. 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) Output written on minimap2.pdf (6 pages, 270232 bytes). Transcript written on minimap2.log. make[2]: Leaving directory '/build/reproducible-path/minimap2-2.27+dfsg/tex' dh_auto_build --buildsystem=pybuild I: pybuild base:311: /usr/bin/python3 setup.py build /usr/lib/python3/dist-packages/setuptools/__init__.py:94: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. !! ******************************************************************************** Requirements should be satisfied by a PEP 517 installer. If you are using pip, you can try `pip install --use-pep517`. ******************************************************************************** !! dist.fetch_build_eggs(dist.setup_requires) running build running build_ext /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/minimap2-2.27+dfsg/python/mappy.pyx tree = Parsing.p_module(s, pxd, full_module_name) Compiling python/mappy.pyx because it changed. [1/1] Cythonizing python/mappy.pyx building 'mappy' extension creating build/temp.linux-armv7l-cpython-312 creating build/temp.linux-armv7l-cpython-312/python arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.12 -c align.c -o build/temp.linux-armv7l-cpython-312/align.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP align.c: In function 'mm_get_hplen_back': align.c:365:43: warning: comparison of integer expressions of different signedness: 'uint32_t' {aka 'unsigned int'} and 'int' [-Wsign-compare] 365 | if (mm_seq4_get(mi->S, i) != c) break; | ^~ align.c: In function 'mm_seed_ext_score': align.c:552:56: warning: operand of '?:' changes signedness from 'int' to 'uint32_t' {aka 'unsigned int'} due to unsignedness of other operand [-Wsign-compare] 552 | 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:646:59: warning: operand of '?:' changes signedness from 'int32_t' {aka 'int'} to 'uint32_t' {aka 'unsigned int'} due to unsignedness of other operand [-Wsign-compare] 646 | re0 = re + l < (int32_t)mi->seq[rid].len? re + l : mi->seq[rid].len; | ^~~~~~ align.c:698:65: warning: operand of '?:' changes signedness from 'int32_t' {aka 'int'} to 'uint32_t' {aka 'unsigned int'} due to unsignedness of other operand [-Wsign-compare] 698 | l = l < (int32_t)mi->seq[rid].len - re? l : mi->seq[rid].len - re; | ^ arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.12 -c bseq.c -o build/temp.linux-armv7l-cpython-312/bseq.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.12 -c esterr.c -o build/temp.linux-armv7l-cpython-312/esterr.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.12 -c format.c -o build/temp.linux-armv7l-cpython-312/format.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.12 -c hit.c -o build/temp.linux-armv7l-cpython-312/hit.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP hit.c: In function 'mm_hit_sort': hit.c:190:55: warning: variable 'no_cigar' set but not used [-Wunused-but-set-variable] 190 | int32_t i, n_aux, n = *n_regs, has_cigar = 0, no_cigar = 0; | ^~~~~~~~ hit.c:190:40: warning: variable 'has_cigar' set but not used [-Wunused-but-set-variable] 190 | int32_t i, n_aux, n = *n_regs, has_cigar = 0, no_cigar = 0; | ^~~~~~~~~ arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.12 -c index.c -o build/temp.linux-armv7l-cpython-312/index.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP index.c: In function 'mm_idx_name2id': index.c:149:32: 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:382:70: warning: operand of '?:' changes signedness from 'int' to 'uint64_t' {aka 'long long unsigned int'} due to unsignedness of other operand [-Wsign-compare] 382 | 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:483:23: warning: comparison of integer expressions of different signedness: 'uint32_t' {aka 'unsigned int'} and 'int' [-Wsign-compare] 483 | for (i = 0; i < 1<b; ++i) { | ^ index.c: In function 'mm_idx_load': index.c:531:23: warning: comparison of integer expressions of different signedness: 'uint32_t' {aka 'unsigned int'} and 'int' [-Wsign-compare] 531 | for (i = 0; i < 1<b; ++i) { | ^ index.c: In function 'mm_idx_bed_read': index.c:748:23: warning: comparison of integer expressions of different signedness: 'int32_t' {aka 'int'} and 'uint32_t' {aka 'unsigned int'} [-Wsign-compare] 748 | for (i = 0; i < mi->n_seq; ++i) // TODO: eliminate redundant intervals | ^ index.c: In function 'mm_idx_bed_junc': index.c:758:42: warning: comparison of integer expressions of different signedness: 'int32_t' {aka 'int'} and 'uint32_t' {aka 'unsigned int'} [-Wsign-compare] 758 | if (mi->I == 0 || ctg < 0 || ctg >= mi->n_seq) return -1; | ^~ index.c: In function 'mm_idx_load': index.c:520:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 520 | fread(&l, 1, 1, fp); | ^~~~~~~~~~~~~~~~~~~ index.c:523:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 523 | fread(s->name, 1, l, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~ index.c:526:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 526 | fread(&s->len, 4, 1, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~ index.c:536:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 536 | fread(&b->n, 4, 1, fp); | ^~~~~~~~~~~~~~~~~~~~~~ index.c:538:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 538 | fread(b->p, 8, b->n, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~ index.c:539:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 539 | fread(&size, 4, 1, fp); | ^~~~~~~~~~~~~~~~~~~~~~ index.c:546:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 546 | fread(x, 8, 2, fp); | ^~~~~~~~~~~~~~~~~~ index.c:554:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 554 | fread(mi->S, 4, (sum_len + 7) / 8, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.12 -c kalloc.c -o build/temp.linux-armv7l-cpython-312/kalloc.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP kalloc.c: In function 'km_stat_print': kalloc.c:222:42: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 222 | fprintf(stderr, "[km_stat] cap=%ld, avail=%ld, largest=%ld, n_core=%ld, n_block=%ld\n", | ~~^ | | | long int | %d 223 | st.capacity, st.available, st.largest, st.n_blocks, st.n_cores); | ~~~~~~~~~~~ | | | size_t {aka unsigned int} kalloc.c:222:53: warning: format '%ld' expects argument of type 'long int', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 222 | fprintf(stderr, "[km_stat] cap=%ld, avail=%ld, largest=%ld, n_core=%ld, n_block=%ld\n", | ~~^ | | | long int | %d 223 | st.capacity, st.available, st.largest, st.n_blocks, st.n_cores); | ~~~~~~~~~~~~ | | | size_t {aka unsigned int} kalloc.c:222:66: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 222 | fprintf(stderr, "[km_stat] cap=%ld, avail=%ld, largest=%ld, n_core=%ld, n_block=%ld\n", | ~~^ | | | long int | %d 223 | st.capacity, st.available, st.largest, st.n_blocks, st.n_cores); | ~~~~~~~~~~ | | | size_t {aka unsigned int} kalloc.c:222:78: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 222 | fprintf(stderr, "[km_stat] cap=%ld, avail=%ld, largest=%ld, n_core=%ld, n_block=%ld\n", | ~~^ | | | long int | %d 223 | st.capacity, st.available, st.largest, st.n_blocks, st.n_cores); | ~~~~~~~~~~~ | | | size_t {aka unsigned int} kalloc.c:222:91: warning: format '%ld' expects argument of type 'long int', but argument 7 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 222 | fprintf(stderr, "[km_stat] cap=%ld, avail=%ld, largest=%ld, n_core=%ld, n_block=%ld\n", | ~~^ | | | long int | %d 223 | st.capacity, st.available, st.largest, st.n_blocks, st.n_cores); | ~~~~~~~~~~ | | | size_t {aka unsigned int} arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.12 -c ksw2_extd2_sse.c -o build/temp.linux-armv7l-cpython-312/ksw2_extd2_sse.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP ksw2_extd2_sse.c:6:9: warning: "SIMDE_ENABLE_NATIVE_ALIASES" redefined 6 | #define SIMDE_ENABLE_NATIVE_ALIASES | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.12 -c ksw2_exts2_sse.c -o build/temp.linux-armv7l-cpython-312/ksw2_exts2_sse.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP ksw2_exts2_sse.c:6:9: warning: "SIMDE_ENABLE_NATIVE_ALIASES" redefined 6 | #define SIMDE_ENABLE_NATIVE_ALIASES | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.12 -c ksw2_extz2_sse.c -o build/temp.linux-armv7l-cpython-312/ksw2_extz2_sse.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP ksw2_extz2_sse.c:5:9: warning: "SIMDE_ENABLE_NATIVE_ALIASES" redefined 5 | #define SIMDE_ENABLE_NATIVE_ALIASES | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.12 -c ksw2_ll_sse.c -o build/temp.linux-armv7l-cpython-312/ksw2_ll_sse.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.12 -c kthread.c -o build/temp.linux-armv7l-cpython-312/kthread.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.12 -c lchain.c -o build/temp.linux-armv7l-cpython-312/lchain.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP lchain.c: In function 'mg_chain_bk_end': lchain.c:18:37: warning: operand of '?:' changes signedness from 'int32_t' {aka 'int'} to 'uint64_t' {aka 'long long unsigned int'} due to unsignedness of other operand [-Wsign-compare] 18 | s = i < 0? z[k].x : (int32_t)z[k].x - f[i]; | ^~~~~~~~~~~~~~~~~~~~~~ lchain.c: In function 'mg_chain_backtrack': lchain.c:51:46: warning: operand of '?:' changes signedness from 'int32_t' {aka 'int'} to 'uint64_t' {aka 'long long unsigned int'} due to unsignedness of other operand [-Wsign-compare] 51 | sc = i < 0? z[k].x : (int32_t)z[k].x - f[i]; | ^~~~~~~~~~~~~~~~~~~~~~ lchain.c:66:46: warning: operand of '?:' changes signedness from 'int32_t' {aka 'int'} to 'uint64_t' {aka 'long long unsigned int'} due to unsignedness of other operand [-Wsign-compare] 66 | sc = i < 0? z[k].x : (int32_t)z[k].x - f[i]; | ^~~~~~~~~~~~~~~~~~~~~~ lchain.c: In function 'mg_lchain_dp': lchain.c:190:56: warning: comparison of integer expressions of different signedness: 'uint64_t' {aka 'long long unsigned int'} and 'long long int' [-Wsign-compare] 190 | if (max_ii < 0 || a[i].x - a[max_ii].x > (int64_t)max_dist_x) { | ^ lchain.c:204:57: warning: comparison of integer expressions of different signedness: 'uint64_t' {aka 'long long unsigned int'} and 'long long int' [-Wsign-compare] 204 | if (max_ii < 0 || (a[i].x - a[max_ii].x <= (int64_t)max_dist_x && f[max_ii] < f[i])) | ^~ lchain.c: In function 'mg_lchain_rmq': lchain.c:295:117: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare] 295 | while (st < i && (a[i].x>>32 != a[st].x>>32 || a[i].x > a[st].x + max_dist || krmq_size(head, root) > cap_rmq_size)) { | ^ lchain.c:304:155: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare] 304 | while (st_inner < i && (a[i].x>>32 != a[st_inner].x>>32 || a[i].x > a[st_inner].x + max_dist_inner || krmq_size(head, root_inner) > cap_rmq_size)) { | ^ lchain.c:356:34: warning: comparison of integer expressions of different signedness: 'int32_t' {aka 'int'} and 'unsigned int' [-Wsign-compare] 356 | if (max_rmq_size < krmq_size(head, root)) max_rmq_size = krmq_size(head, root); | ^ arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.12 -c map.c -o build/temp.linux-armv7l-cpython-312/map.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP map.c: In function 'mm_dust_minier': map.c:48:70: warning: operand of '?:' changes signedness from 'int32_t' {aka 'int'} to 'uint64_t' {aka 'long long unsigned int'} due to unsignedness of other operand [-Wsign-compare] 48 | int ss = s > (int32_t)(dreg[v]>>32)? s : dreg[v]>>32; | ^ map.c:49:64: warning: operand of '?:' changes signedness from 'int32_t' {aka 'int'} to 'unsigned int' due to unsignedness of other operand [-Wsign-compare] 49 | int ee = e < (int32_t)dreg[v]? e : (uint32_t)dreg[v]; | ^ map.c: In function 'mm_map_frag': map.c:365:60: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 365 | 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:365:70: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 365 | 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:365:82: warning: format '%ld' expects argument of type 'long int', but argument 7 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 365 | 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 arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.12 -c misc.c -o build/temp.linux-armv7l-cpython-312/misc.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.12 -c options.c -o build/temp.linux-armv7l-cpython-312/options.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.12 -c pe.c -o build/temp.linux-armv7l-cpython-312/pe.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.12 -c python/mappy.c -o build/temp.linux-armv7l-cpython-312/python/mappy.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP python/mappy.c: In function '__Pyx_PyInt_AndObjC': python/mappy.c:15269:36: warning: comparison of integer expressions of different signedness: 'long unsigned int' and 'long int' [-Wsign-compare] 15269 | if ((intval & PyLong_MASK) == intval) { | ^~ python/mappy.c:15271:71: warning: operand of '?:' changes signedness from 'long int' to 'long unsigned int' due to unsignedness of other operand [-Wsign-compare] 15271 | long result = intval & (likely(__Pyx_PyLong_IsPos(op1)) ? last_digit : (PyLong_MASK - last_digit + 1)); | ^~~~~~~~~~ arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.12 -c sdust.c -o build/temp.linux-armv7l-cpython-312/sdust.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.12 -c seed.c -o build/temp.linux-armv7l-cpython-312/seed.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP seed.c: In function 'mm_seed_mz_flt': seed.c:9:19: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'unsigned int'} and 'int32_t' {aka 'int'} [-Wsign-compare] 9 | if (mv->n <= q_occ_max || q_occ_frac <= 0.0f || q_occ_max <= 0) return; | ^~ seed.c: In function 'mm_seed_select': seed.c:65:28: warning: comparison of integer expressions of different signedness: 'uint32_t' {aka 'unsigned int'} and 'int' [-Wsign-compare] 65 | if (a[i].n > max_occ) ++m; | ^ seed.c:68:38: warning: comparison of integer expressions of different signedness: 'uint32_t' {aka 'unsigned int'} and 'int' [-Wsign-compare] 68 | if (i == n || a[i].n <= max_occ) { | ^~ seed.c:71:54: warning: operand of '?:' changes signedness from 'int' to 'unsigned int' due to unsignedness of other operand [-Wsign-compare] 71 | int32_t pe = i == n? len : (uint32_t)a[i].q_pos>>1; | ^~~ seed.c:81:60: warning: comparison of integer expressions of different signedness: 'uint32_t' {aka 'unsigned int'} and 'int' [-Wsign-compare] 81 | if (a[j].n < (int32_t)(b[0]>>32)) { // then update the heap | ^ seed.c:90:52: warning: comparison of integer expressions of different signedness: 'uint32_t' {aka 'unsigned int'} and 'int' [-Wsign-compare] 90 | if (a[j].n > max_max_occ) | ^ seed.c: In function 'mm_collect_matches': seed.c:109:31: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'unsigned int'} and 'int' [-Wsign-compare] 109 | for (i = 0; i < n_m0; ++i) | ^ seed.c:110:36: warning: comparison of integer expressions of different signedness: 'uint32_t' {aka 'unsigned int'} and 'int' [-Wsign-compare] 110 | if (m[i].n > max_occ) | ^ seed.c:113:56: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'unsigned int'} and 'int' [-Wsign-compare] 113 | for (i = 0, n_m = 0, *rep_len = 0, *n_a = 0; i < n_m0; ++i) { | ^ arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.12 -c sketch.c -o build/temp.linux-armv7l-cpython-312/sketch.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.12 -c splitidx.c -o build/temp.linux-armv7l-cpython-312/splitidx.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/minimap2-2.27+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-cpython-312/align.o build/temp.linux-armv7l-cpython-312/bseq.o build/temp.linux-armv7l-cpython-312/esterr.o build/temp.linux-armv7l-cpython-312/format.o build/temp.linux-armv7l-cpython-312/hit.o build/temp.linux-armv7l-cpython-312/index.o build/temp.linux-armv7l-cpython-312/kalloc.o build/temp.linux-armv7l-cpython-312/ksw2_extd2_sse.o build/temp.linux-armv7l-cpython-312/ksw2_exts2_sse.o build/temp.linux-armv7l-cpython-312/ksw2_extz2_sse.o build/temp.linux-armv7l-cpython-312/ksw2_ll_sse.o build/temp.linux-armv7l-cpython-312/kthread.o build/temp.linux-armv7l-cpython-312/lchain.o build/temp.linux-armv7l-cpython-312/map.o build/temp.linux-armv7l-cpython-312/misc.o build/temp.linux-armv7l-cpython-312/options.o build/temp.linux-armv7l-cpython-312/pe.o build/temp.linux-armv7l-cpython-312/python/mappy.o build/temp.linux-armv7l-cpython-312/sdust.o build/temp.linux-armv7l-cpython-312/seed.o build/temp.linux-armv7l-cpython-312/sketch.o build/temp.linux-armv7l-cpython-312/splitidx.o -L/usr/lib/arm-linux-gnueabihf -lz -lm -lpthread -o /build/reproducible-path/minimap2-2.27+dfsg/.pybuild/cpython3_3.12/build/mappy.cpython-312-arm-linux-gnueabihf.so running build_scripts creating build/scripts-3.12 copying and adjusting python/minimap2.py -> build/scripts-3.12 changing mode of build/scripts-3.12/minimap2.py from 644 to 755 make[1]: Leaving directory '/build/reproducible-path/minimap2-2.27+dfsg' debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/minimap2-2.27+dfsg' debian/test_script [M::mm_idx_gen::0.055*0.37] collected minimizers [M::mm_idx_gen::0.083*0.38] sorted minimizers [M::main::0.083*0.39] loaded/built the index for 1 target sequence(s) [M::mm_mapopt_update::0.084*0.39] mid_occ = 10 [M::mm_idx_stat] kmer size: 15; skip: 10; is_hpc: 0; #seq: 1 [M::mm_idx_stat::0.085*0.40] distinct minimizers: 3111 (100.00% are singletons); average occurrences: 1.000; average spacing: 5.326; total length: 16569 [M::worker_pipeline::1.835*0.56] mapped 1 sequences [M::main] Version: 2.27-r1193 [M::main] CMD: minimap2 -a test/MT-human.fa test/MT-orang.fa [M::main] Real time: 1.847 sec; CPU: 1.034 sec; Peak RSS: 0.003 GB [M::mm_idx_gen::0.046*0.38] collected minimizers [M::mm_idx_gen::0.066*0.52] sorted minimizers [M::main::0.084*0.53] 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::0.089*0.51] distinct minimizers: 3111 (100.00% are singletons); average occurrences: 1.000; average spacing: 5.326; total length: 16569 [M::main] Version: 2.27-r1193 [M::main] CMD: minimap2 -d MT-human.mmi test/MT-human.fa [M::main] Real time: 0.103 sec; CPU: 0.050 sec; Peak RSS: 0.002 GB [M::main::0.030*0.51] loaded/built the index for 1 target sequence(s) [M::mm_mapopt_update::0.038*0.44] mid_occ = 10 [M::mm_idx_stat] kmer size: 15; skip: 10; is_hpc: 0; #seq: 1 [M::mm_idx_stat::0.040*0.45] distinct minimizers: 3111 (100.00% are singletons); average occurrences: 1.000; average spacing: 5.326; total length: 16569 [M::worker_pipeline::1.571*0.60] mapped 1 sequences [M::main] Version: 2.27-r1193 [M::main] CMD: minimap2 -a MT-human.mmi test/MT-orang.fa [M::main] Real time: 1.585 sec; CPU: 0.960 sec; Peak RSS: 0.004 GB rm test.sam make[1]: Leaving directory '/build/reproducible-path/minimap2-2.27+dfsg' create-stamp debian/debhelper-build-stamp dh_prep dh_installdirs debian/rules override_dh_auto_install make[1]: Entering directory '/build/reproducible-path/minimap2-2.27+dfsg' dh_auto_install dh_auto_install --buildsystem=pybuild I: pybuild base:311: /usr/bin/python3 setup.py install --root /build/reproducible-path/minimap2-2.27+dfsg/debian/tmp /usr/lib/python3/dist-packages/setuptools/__init__.py:94: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. !! ******************************************************************************** Requirements should be satisfied by a PEP 517 installer. If you are using pip, you can try `pip install --use-pep517`. ******************************************************************************** !! dist.fetch_build_eggs(dist.setup_requires) running install /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. !! ******************************************************************************** Please avoid running ``setup.py`` directly. Instead, use pypa/build, pypa/installer or other standards-based tools. See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. ******************************************************************************** !! self.initialize_options() running build running build_ext running build_scripts running install_lib creating /build/reproducible-path/minimap2-2.27+dfsg/debian/tmp/usr/lib/python3.12/dist-packages copying /build/reproducible-path/minimap2-2.27+dfsg/.pybuild/cpython3_3.12/build/mappy.cpython-312-arm-linux-gnueabihf.so -> /build/reproducible-path/minimap2-2.27+dfsg/debian/tmp/usr/lib/python3.12/dist-packages running install_egg_info running egg_info creating mappy.egg-info writing mappy.egg-info/PKG-INFO writing dependency_links to mappy.egg-info/dependency_links.txt writing top-level names to mappy.egg-info/top_level.txt writing manifest file 'mappy.egg-info/SOURCES.txt' reading manifest file 'mappy.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching 'sse2neon/emmintrin.h' adding license file 'LICENSE.txt' writing manifest file 'mappy.egg-info/SOURCES.txt' Copying mappy.egg-info to /build/reproducible-path/minimap2-2.27+dfsg/debian/tmp/usr/lib/python3.12/dist-packages/mappy-2.27.egg-info Skipping SOURCES.txt running install_scripts creating /build/reproducible-path/minimap2-2.27+dfsg/debian/tmp/usr/bin copying build/scripts-3.12/minimap2.py -> /build/reproducible-path/minimap2-2.27+dfsg/debian/tmp/usr/bin changing mode of /build/reproducible-path/minimap2-2.27+dfsg/debian/tmp/usr/bin/minimap2.py to 755 make[1]: Leaving directory '/build/reproducible-path/minimap2-2.27+dfsg' dh_install dh_installdocs dh_installchangelogs debian/rules override_dh_installman make[1]: Entering directory '/build/reproducible-path/minimap2-2.27+dfsg' dh_installman --language=C make[1]: Leaving directory '/build/reproducible-path/minimap2-2.27+dfsg' dh_python3 dh_lintian dh_perl dh_link dh_strip_nondeterminism debian/rules override_dh_compress make[1]: Entering directory '/build/reproducible-path/minimap2-2.27+dfsg' dh_compress --exclude=.pdf make[1]: Leaving directory '/build/reproducible-path/minimap2-2.27+dfsg' dh_fixperms dh_missing dh_dwz -a debian/rules override_dh_strip make[1]: Entering directory '/build/reproducible-path/minimap2-2.27+dfsg' dh_strip ranlib /build/reproducible-path/minimap2-2.27+dfsg/debian/libminimap2-dev/usr/lib/libminimap2.a make[1]: Leaving directory '/build/reproducible-path/minimap2-2.27+dfsg' dh_makeshlibs -a dh_shlibdeps -a dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-armhf.so.3 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-armhf.so.3.usr-is-merged dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-armhf.so.3 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-armhf.so.3.usr-is-merged dh_installdeb dh_gencontrol dpkg-gencontrol: warning: Depends field of package libminimap2-dev: substitution variable ${shlibs:Depends} used, but is not defined dh_md5sums dh_builddeb dpkg-deb: building package 'minimap2-dbgsym' in '../minimap2-dbgsym_2.27+dfsg-1_armhf.deb'. dpkg-deb: building package 'python3-mappy-dbgsym' in '../python3-mappy-dbgsym_2.27+dfsg-1_armhf.deb'. dpkg-deb: building package 'libminimap2-dev' in '../libminimap2-dev_2.27+dfsg-1_armhf.deb'. dpkg-deb: building package 'minimap2' in '../minimap2_2.27+dfsg-1_armhf.deb'. dpkg-deb: building package 'python3-mappy' in '../python3-mappy_2.27+dfsg-1_armhf.deb'. dpkg-genbuildinfo --build=binary -O../minimap2_2.27+dfsg-1_armhf.buildinfo dpkg-genchanges --build=binary -O../minimap2_2.27+dfsg-1_armhf.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full 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/1580 and its subdirectories I: Current time: Fri Dec 20 20:21:22 -12 2024 I: pbuilder-time-stamp: 1734769282 Sat Dec 21 08:21:33 UTC 2024 I: 1st build successful. Starting 2nd build on remote node virt32a-armhf-rb.debian.net. Sat Dec 21 08:21:33 UTC 2024 I: Preparing to do remote build '2' on virt32a-armhf-rb.debian.net. Sat Dec 21 08:35:20 UTC 2024 I: Deleting $TMPDIR on virt32a-armhf-rb.debian.net. Sat Dec 21 08:35:22 UTC 2024 I: minimap2_2.27+dfsg-1_armhf.changes: Format: 1.8 Date: Mon, 18 Mar 2024 17:12:17 +0100 Source: minimap2 Binary: libminimap2-dev minimap2 minimap2-dbgsym python3-mappy python3-mappy-dbgsym Architecture: armhf Version: 2.27+dfsg-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Michael R. Crusoe Description: libminimap2-dev - development headers for libminimap minimap2 - versatile pairwise aligner for genomic and spliced nucleotide seq python3-mappy - Python3 interface minimap2 Closes: 1046060 Changes: minimap2 (2.27+dfsg-1) unstable; urgency=medium . * Team upload. * d/rules, d/clean: simply cleanup code. * d/rules: clean using pybuild. Closes: #1046060 Checksums-Sha1: 8f35065105d5936bbe25bb63218f8e51e529e2d5 129364 libminimap2-dev_2.27+dfsg-1_armhf.deb 12f12ca8d7c195f196b34bb0876171f74c37801e 283276 minimap2-dbgsym_2.27+dfsg-1_armhf.deb 58a41efff8b0dbcf45d60686def2bafee2934cc8 11679 minimap2_2.27+dfsg-1_armhf.buildinfo c65ed9db04a7b6eab97aee227529d26fe2374e79 398580 minimap2_2.27+dfsg-1_armhf.deb 149b9670db212ddacdb314ab8aa29c4900a0a3d9 570960 python3-mappy-dbgsym_2.27+dfsg-1_armhf.deb 18509ce0474bdfe0566cdcb2fd49d058b1eec822 155680 python3-mappy_2.27+dfsg-1_armhf.deb Checksums-Sha256: 0f1384568a03eda9a1ca7451449a5bf59d84c797e6a90c92ff530f6f5e12db89 129364 libminimap2-dev_2.27+dfsg-1_armhf.deb c948e139aa36403af08379efb24fc9913e92fc4829d3e72f828a6c2ba7507ed8 283276 minimap2-dbgsym_2.27+dfsg-1_armhf.deb f1e1dff28274100bdaec2421b25978fcc0545017816b402060dc87edc3831694 11679 minimap2_2.27+dfsg-1_armhf.buildinfo 8a2d4d29fbb0e0fc661fb727c59a6e41993e2ca082755cead49b235ab7f7faa5 398580 minimap2_2.27+dfsg-1_armhf.deb 1e19c26e0aa9d52890f8b9f1bbb0990da11f69d8655914695dbd6e0b3cbf07b9 570960 python3-mappy-dbgsym_2.27+dfsg-1_armhf.deb 8d6278271dcc6811fe2713477c13a8b729c3f0de48f7162107cdafdcff3d2b59 155680 python3-mappy_2.27+dfsg-1_armhf.deb Files: d7010999853634a11631da9105c3d09b 129364 libdevel optional libminimap2-dev_2.27+dfsg-1_armhf.deb 6d8d753b0a77265ef098973c8e713a9d 283276 debug optional minimap2-dbgsym_2.27+dfsg-1_armhf.deb 34cb043cdbf10420384ddf8e69ea46a0 11679 science optional minimap2_2.27+dfsg-1_armhf.buildinfo 46a7b3644bd0113ebc6e16a774b8ae7f 398580 science optional minimap2_2.27+dfsg-1_armhf.deb 7c7fbcc781060cb0926c01fd9ca200df 570960 debug optional python3-mappy-dbgsym_2.27+dfsg-1_armhf.deb 78b0d2f3c34da9d5bcc33ff7e2dc9b59 155680 python optional python3-mappy_2.27+dfsg-1_armhf.deb Sat Dec 21 08:35:23 UTC 2024 I: diffoscope 284 will be used to compare the two builds: Running as unit: rb-diffoscope-armhf_18-9612.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.eVRMvXSa/minimap2_2.27+dfsg-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.eVRMvXSa/minimap2_2.27+dfsg-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.eVRMvXSa/minimap2_2.27+dfsg-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.eVRMvXSa/b1/minimap2_2.27+dfsg-1_armhf.changes /srv/reproducible-results/rbuild-debian/r-b-build.eVRMvXSa/b2/minimap2_2.27+dfsg-1_armhf.changes ## close_archive (total time: 0.000s) 0.000s 6 calls diffoscope.comparators.xz.XzContainer 0.000s 4 calls diffoscope.comparators.tar.TarContainer 0.000s 2 calls diffoscope.comparators.deb.DebContainer 0.000s 2 calls diffoscope.comparators.deb.DebTarContainer ## command (total time: 0.915s) 0.369s 11 calls dumppdf 0.336s 7 calls diff 0.125s 11 calls pdftotext 0.058s 6 calls xz 0.013s 5 calls cmp 0.013s 5 calls cmp (external) 0.001s 12 calls cmp (internal) ## compare_files (cumulative) (total time: 9.115s) 1.904s 1 call abc.DotChangesFile 1.870s 1 call abc.DebFile 1.848s 2 calls abc.XzFile 1.762s 1 call abc.DebDataTarFile 1.698s 1 call abc.PdfFile 0.026s 1 call abc.TarFile 0.007s 1 call abc.Md5sumsFile ## container_extract (total time: 0.074s) 0.058s 6 calls diffoscope.comparators.xz.XzContainer 0.009s 28 calls diffoscope.comparators.deb.DebTarContainer 0.004s 8 calls diffoscope.comparators.deb.DebContainer 0.003s 6 calls diffoscope.comparators.tar.TarContainer ## diff (total time: 0.519s) 0.519s 14 calls linediff ## has_same_content_as (total time: 0.015s) 0.012s 5 calls abc.DebFile 0.003s 1 call abc.DebDataTarFile 0.000s 2 calls abc.TextFile 0.000s 2 calls abc.Md5sumsFile 0.000s 2 calls abc.XzFile 0.000s 1 call abc.DotChangesFile 0.000s 1 call abc.TarFile 0.000s 1 call abc.PdfFile ## main (total time: 3.239s) 3.239s 2 calls outputs 0.000s 1 call cleanup ## open_archive (total time: 0.000s) 0.000s 6 calls diffoscope.comparators.xz.XzContainer 0.000s 4 calls diffoscope.comparators.tar.TarContainer 0.000s 2 calls diffoscope.comparators.deb.DebTarContainer 0.000s 2 calls diffoscope.comparators.deb.DebContainer ## output (total time: 0.966s) 0.964s 1 call html 0.001s 1 call text 0.001s 1 call json ## recognizes (total time: 0.086s) 0.031s 602 calls diffoscope.comparators.utils.libarchive.LibarchiveMember 0.030s 12 calls diffoscope.comparators.binary.FilesystemFile 0.016s 260 calls diffoscope.comparators.utils.archive.ArchiveMember 0.009s 270 calls diffoscope.comparators.debian.DebControlMember ## specialize (total time: 0.044s) 0.044s 15 calls specialize Finished with result: success Main processes terminated with: code=exited/status=1 Service runtime: 3.549s CPU time consumed: 3.648s Sat Dec 21 08:35:27 UTC 2024 W: Diffoscope claims the build is reproducible, but there is a diffoscope file. Please investigate. Sat Dec 21 08:35:27 UTC 2024 E: minimap2 failed to build reproducibly in trixie on armhf. Sat Dec 21 08:35:28 UTC 2024 I: Submitting .buildinfo files to external archives: Sat Dec 21 08:35:28 UTC 2024 I: Submitting 16K b1/minimap2_2.27+dfsg-1_armhf.buildinfo.asc Sat Dec 21 08:35:29 UTC 2024 I: Submitting 16K b2/minimap2_2.27+dfsg-1_armhf.buildinfo.asc Sat Dec 21 08:35:30 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sat Dec 21 08:35:30 UTC 2024 I: Done submitting .buildinfo files. Sat Dec 21 08:35:30 UTC 2024 I: Removing signed minimap2_2.27+dfsg-1_armhf.buildinfo.asc files: removed './b1/minimap2_2.27+dfsg-1_armhf.buildinfo.asc' removed './b2/minimap2_2.27+dfsg-1_armhf.buildinfo.asc'