Tue Mar 26 12:47:09 UTC 2024 I: starting to build nanosv/trixie/armhf on jenkins on '2024-03-26 12:47' Tue Mar 26 12:47:09 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/armhf_28/2068/console.log Tue Mar 26 12:47:10 UTC 2024 I: Downloading source for trixie/nanosv=1.2.4+git20190409.c1ae30c-6 --2024-03-26 12:47:10-- http://deb.debian.org/debian/pool/main/n/nanosv/nanosv_1.2.4%2bgit20190409.c1ae30c-6.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2202 (2.2K) [text/prs.lines.tag] Saving to: ‘nanosv_1.2.4+git20190409.c1ae30c-6.dsc’ 0K .. 100% 206M=0s 2024-03-26 12:47:10 (206 MB/s) - ‘nanosv_1.2.4+git20190409.c1ae30c-6.dsc’ saved [2202/2202] Tue Mar 26 12:47:10 UTC 2024 I: nanosv_1.2.4+git20190409.c1ae30c-6.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: nanosv Binary: nanosv Architecture: all Version: 1.2.4+git20190409.c1ae30c-6 Maintainer: Debian Med Packaging Team Uploaders: Steffen Moeller Homepage: https://github.com/mroosmalen/nanosv Standards-Version: 4.6.0 Vcs-Browser: https://salsa.debian.org/med-team/nanosv Vcs-Git: https://salsa.debian.org/med-team/nanosv.git Testsuite: autopkgtest Testsuite-Triggers: bedtools, sambamba, samtools Build-Depends: debhelper-compat (= 13), dh-python, python3-setuptools, python3-all, help2man, python3-vcf Package-List: nanosv deb science optional arch=all Checksums-Sha1: f333586be6145b26fd2394061b081a9b11e2feba 2895140 nanosv_1.2.4+git20190409.c1ae30c.orig.tar.xz 0b0fc8c87675b14eaa1301ab2c62fba279382ad0 4472 nanosv_1.2.4+git20190409.c1ae30c-6.debian.tar.xz Checksums-Sha256: e79073d4a3d6f6f1d1c87f462b2289cb7b19b3affd1c3eedcdc443658e76adbe 2895140 nanosv_1.2.4+git20190409.c1ae30c.orig.tar.xz 0a83ba13717cddd37586cc3479a1ab8760afc492abcad472e5eb62a75ca52031 4472 nanosv_1.2.4+git20190409.c1ae30c-6.debian.tar.xz Files: 977ab7bb8626de0f467c564b4e4e4d4a 2895140 nanosv_1.2.4+git20190409.c1ae30c.orig.tar.xz 8a258472127df77b24ae6dbed805a9e0 4472 nanosv_1.2.4+git20190409.c1ae30c-6.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJGBAEBCgAwFiEEPpmlJvXcwMu/HO6mALrnSzQzafEFAmF12YUSHG5pbGVzaEBk ZWJpYW4ub3JnAAoJEAC650s0M2nxGF8P/ijRH3Jy+XlsU8T4Rhe0sIN/SiznqrIK QGLwqkHlvjFdXRVED9RcAlC3Bz/ZwTuEQlSYcfUCMWH2mANy/4vx2YYLdEeCDA/1 /HPXoPHWWyMeoCLlmYOOyNsbvRptcmY712H5MGG8joW5ph2uiKEfJG3ychcuk4v5 WSibTO2K8AtYIMRcC1R1MpCeqjJ/ts6NvUh4hGFFOPFYKisKyRX4SaW9eGVO8nra bYDYkPoOaZWLoCQzY6n8kc69V1xG+aRf6PuBcKviBJx4+HsD9gnbbi6ymO7okeHZ OLb516UQN1V+gUMjJloQc57aaTOujYX9jgWkQITt8ViGrbEASgbde3Kgu9Dc+JkU 1mdeticx2OyMyrBXK/S7WS8kctXjVT5DVTa+XxqLvNRt1VBIJ0spG9/4f/EBl2y4 6Q/OP/GwsdR7eRXs3WEsEaWnd+HQs2NcZx9talBwpPKPvFld6Bx+kuJK8zse7VSB Kv/MYDqzf5Vu/1JATz+StJrrM9bYeOUGbR+6FuAzgEPs5wNzZa47knC12l4fss4j pC+bGEFm1Wa8dXEmNZujVI7oSBCcY3yktdTPNIk6gXH1rsyhN4p9N4YsCJKrJSSY OYaWWY+v/KzdIZvMHqkw7fyN/WJKNIgvGsULfQHd0v1rdweuvT+hRFVtArXSyCL3 fGCFeMM1kF5X =QZ2M -----END PGP SIGNATURE----- Tue Mar 26 12:47:10 UTC 2024 I: Checking whether the package is not for us Tue Mar 26 12:47:10 UTC 2024 I: Starting 1st build on remote node virt64a-armhf-rb.debian.net. Tue Mar 26 12:47:10 UTC 2024 I: Preparing to do remote build '1' on virt64a-armhf-rb.debian.net. Tue Mar 26 12:54:15 UTC 2024 I: Deleting $TMPDIR on virt64a-armhf-rb.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Tue Mar 26 00:47:18 -12 2024 I: pbuilder-time-stamp: 1711457238 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 [nanosv_1.2.4+git20190409.c1ae30c-6.dsc] I: copying [./nanosv_1.2.4+git20190409.c1ae30c.orig.tar.xz] I: copying [./nanosv_1.2.4+git20190409.c1ae30c-6.debian.tar.xz] I: Extracting source gpgv: Signature made Sun Oct 24 22:09:09 2021 gpgv: using RSA key 3E99A526F5DCC0CBBF1CEEA600BAE74B343369F1 gpgv: issuer "nilesh@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./nanosv_1.2.4+git20190409.c1ae30c-6.dsc: no acceptable signature found dpkg-source: info: extracting nanosv in nanosv-1.2.4+git20190409.c1ae30c dpkg-source: info: unpacking nanosv_1.2.4+git20190409.c1ae30c.orig.tar.xz dpkg-source: info: unpacking nanosv_1.2.4+git20190409.c1ae30c-6.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying fix_setup.patch dpkg-source: info: applying python3_has_buildin_configparser.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/14209/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=3 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='armhf' IFS=' ' INVOCATION_ID='d6256a4fd15045ae8c67a5ef3204685c' 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='14209' 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.HucDkkgj/pbuilderrc_TX7X --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.HucDkkgj/b1 --logfile b1/build.log nanosv_1.2.4+git20190409.c1ae30c-6.dsc' SUDO_GID='114' SUDO_UID='108' 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 virt64a 6.1.0-18-arm64 #1 SMP Debian 6.1.76-1 (2024-02-01) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Mar 26 11:25 /bin -> usr/bin I: user script /srv/workspace/pbuilder/14209/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), dh-python, python3-setuptools, python3-all, help2man, python3-vcf dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19577 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-python; however: Package dh-python is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on python3-all; however: Package python3-all is not installed. pbuilder-satisfydepends-dummy depends on help2man; however: Package help2man is not installed. pbuilder-satisfydepends-dummy depends on python3-vcf; however: Package python3-vcf is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} help2man{a} intltool-debian{a} libarchive-zip-perl{a} libbrotli1{a} libcurl3-gnutls{a} libdebhelper-perl{a} libdeflate0{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libhts3{a} libhtscodecs2{a} libicu72{a} libldap-2.5-0{a} liblocale-gettext-perl{a} libmagic-mgc{a} libmagic1{a} libnghttp2-14{a} libpipeline1{a} libpsl5{a} libpython3-stdlib{a} libpython3.11-minimal{a} libpython3.11-stdlib{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libreadline8{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} media-types{a} netbase{a} po-debconf{a} python3{a} python3-all{a} python3-distutils{a} python3-lib2to3{a} python3-minimal{a} python3-pkg-resources{a} python3-pysam{a} python3-setuptools{a} python3-vcf{a} python3.11{a} python3.11-minimal{a} python3.12{a} python3.12-minimal{a} readline-common{a} sensible-utils{a} tzdata{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx publicsuffix wget 0 packages upgraded, 69 newly installed, 0 to remove and 0 not upgraded. Need to get 35.7 MB of archives. After unpacking 149 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main armhf liblocale-gettext-perl armhf 1.07-6+b1 [14.6 kB] Get: 2 http://deb.debian.org/debian trixie/main armhf libpython3.11-minimal armhf 3.11.8-1 [802 kB] Get: 3 http://deb.debian.org/debian trixie/main armhf libexpat1 armhf 2.5.0-2+b2 [80.2 kB] Get: 4 http://deb.debian.org/debian trixie/main armhf python3.11-minimal armhf 3.11.8-1 [1707 kB] Get: 5 http://deb.debian.org/debian trixie/main armhf python3-minimal armhf 3.11.6-1 [26.2 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 2024a-1 [255 kB] Get: 9 http://deb.debian.org/debian trixie/main armhf readline-common all 8.2-3 [69.1 kB] Get: 10 http://deb.debian.org/debian trixie/main armhf libreadline8 armhf 8.2-3+b1 [144 kB] Get: 11 http://deb.debian.org/debian trixie/main armhf libpython3.11-stdlib armhf 3.11.8-1 [1709 kB] Get: 12 http://deb.debian.org/debian trixie/main armhf python3.11 armhf 3.11.8-1 [597 kB] Get: 13 http://deb.debian.org/debian trixie/main armhf libpython3-stdlib armhf 3.11.6-1 [9224 B] Get: 14 http://deb.debian.org/debian trixie/main armhf python3 armhf 3.11.6-1 [26.2 kB] Get: 15 http://deb.debian.org/debian trixie/main armhf libpython3.12-minimal armhf 3.12.2-1 [793 kB] Get: 16 http://deb.debian.org/debian trixie/main armhf python3.12-minimal armhf 3.12.2-1 [1845 kB] Get: 17 http://deb.debian.org/debian trixie/main armhf sensible-utils all 0.0.22 [22.4 kB] Get: 18 http://deb.debian.org/debian trixie/main armhf libmagic-mgc armhf 1:5.45-2+b1 [314 kB] Get: 19 http://deb.debian.org/debian trixie/main armhf libmagic1 armhf 1:5.45-2+b1 [97.9 kB] Get: 20 http://deb.debian.org/debian trixie/main armhf file armhf 1:5.45-2+b1 [42.2 kB] Get: 21 http://deb.debian.org/debian trixie/main armhf gettext-base armhf 0.21-14+b1 [157 kB] Get: 22 http://deb.debian.org/debian trixie/main armhf libuchardet0 armhf 0.0.8-1+b1 [65.7 kB] Get: 23 http://deb.debian.org/debian trixie/main armhf groff-base armhf 1.23.0-3 [1088 kB] Get: 24 http://deb.debian.org/debian trixie/main armhf bsdextrautils armhf 2.39.3-6 [81.2 kB] Get: 25 http://deb.debian.org/debian trixie/main armhf libpipeline1 armhf 1.5.7-1+b2 [33.4 kB] Get: 26 http://deb.debian.org/debian trixie/main armhf man-db armhf 2.12.0-3 [1367 kB] Get: 27 http://deb.debian.org/debian trixie/main armhf m4 armhf 1.4.19-4 [264 kB] Get: 28 http://deb.debian.org/debian trixie/main armhf autoconf all 2.71-3 [332 kB] Get: 29 http://deb.debian.org/debian trixie/main armhf autotools-dev all 20220109.1 [51.6 kB] Get: 30 http://deb.debian.org/debian trixie/main armhf automake all 1:1.16.5-1.3 [823 kB] Get: 31 http://deb.debian.org/debian trixie/main armhf autopoint all 0.21-14 [496 kB] Get: 32 http://deb.debian.org/debian trixie/main armhf libdebhelper-perl all 13.14.1 [85.6 kB] Get: 33 http://deb.debian.org/debian trixie/main armhf libtool all 2.4.7-7 [517 kB] Get: 34 http://deb.debian.org/debian trixie/main armhf dh-autoreconf all 20 [17.1 kB] Get: 35 http://deb.debian.org/debian trixie/main armhf libarchive-zip-perl all 1.68-1 [104 kB] Get: 36 http://deb.debian.org/debian trixie/main armhf libsub-override-perl all 0.10-1 [10.6 kB] Get: 37 http://deb.debian.org/debian trixie/main armhf libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 38 http://deb.debian.org/debian trixie/main armhf dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 39 http://deb.debian.org/debian trixie/main armhf libelf1 armhf 0.190-1+b1 [171 kB] Get: 40 http://deb.debian.org/debian trixie/main armhf dwz armhf 0.15-1 [101 kB] Get: 41 http://deb.debian.org/debian trixie/main armhf libicu72 armhf 72.1-4+b1 [9070 kB] Get: 42 http://deb.debian.org/debian trixie/main armhf libxml2 armhf 2.9.14+dfsg-1.3+b2 [599 kB] Get: 43 http://deb.debian.org/debian trixie/main armhf gettext armhf 0.21-14+b1 [1230 kB] Get: 44 http://deb.debian.org/debian trixie/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 45 http://deb.debian.org/debian trixie/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 46 http://deb.debian.org/debian trixie/main armhf debhelper all 13.14.1 [890 kB] Get: 47 http://deb.debian.org/debian trixie/main armhf python3-lib2to3 all 3.11.5-1 [77.5 kB] Get: 48 http://deb.debian.org/debian trixie/main armhf python3-distutils all 3.11.5-1 [131 kB] Get: 49 http://deb.debian.org/debian trixie/main armhf python3-pkg-resources all 68.1.2-2 [241 kB] Get: 50 http://deb.debian.org/debian trixie/main armhf python3-setuptools all 68.1.2-2 [468 kB] Get: 51 http://deb.debian.org/debian trixie/main armhf dh-python all 6.20240310 [106 kB] Get: 52 http://deb.debian.org/debian trixie/main armhf help2man armhf 1.49.3 [198 kB] Get: 53 http://deb.debian.org/debian trixie/main armhf libbrotli1 armhf 1.1.0-2+b3 [284 kB] Get: 54 http://deb.debian.org/debian trixie/main armhf libsasl2-modules-db armhf 2.1.28+dfsg1-4+b1 [18.2 kB] Get: 55 http://deb.debian.org/debian trixie/main armhf libsasl2-2 armhf 2.1.28+dfsg1-4+b1 [50.1 kB] Get: 56 http://deb.debian.org/debian trixie/main armhf libldap-2.5-0 armhf 2.5.13+dfsg-5+b3 [158 kB] Get: 57 http://deb.debian.org/debian trixie/main armhf libnghttp2-14 armhf 1.59.0-1 [62.0 kB] Get: 58 http://deb.debian.org/debian trixie/main armhf libpsl5 armhf 0.21.2-1+b1 [57.8 kB] Get: 59 http://deb.debian.org/debian trixie/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b2 [55.2 kB] Get: 60 http://deb.debian.org/debian trixie/main armhf libssh2-1 armhf 1.11.0-4 [197 kB] Get: 61 http://deb.debian.org/debian trixie/main armhf libcurl3-gnutls armhf 8.5.0-2 [378 kB] Get: 62 http://deb.debian.org/debian trixie/main armhf libdeflate0 armhf 1.20-1 [35.9 kB] Get: 63 http://deb.debian.org/debian trixie/main armhf libhtscodecs2 armhf 1.6.0-1+b1 [61.3 kB] Get: 64 http://deb.debian.org/debian trixie/main armhf libhts3 armhf 1.19+ds-1 [394 kB] Get: 65 http://deb.debian.org/debian trixie/main armhf libpython3.12-stdlib armhf 3.12.2-1 [1800 kB] Get: 66 http://deb.debian.org/debian trixie/main armhf python3.12 armhf 3.12.2-1 [653 kB] Get: 67 http://deb.debian.org/debian trixie/main armhf python3-all armhf 3.11.6-1 [1060 B] Get: 68 http://deb.debian.org/debian trixie/main armhf python3-pysam armhf 0.22.0+ds-1+b1 [3781 kB] Get: 69 http://deb.debian.org/debian trixie/main armhf python3-vcf armhf 0.6.8+git20170215.476169c-10 [52.4 kB] Fetched 35.7 MB in 2s (14.7 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package liblocale-gettext-perl. (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 ... 19577 files and directories currently installed.) Preparing to unpack .../liblocale-gettext-perl_1.07-6+b1_armhf.deb ... Unpacking liblocale-gettext-perl (1.07-6+b1) ... Selecting previously unselected package libpython3.11-minimal:armhf. Preparing to unpack .../libpython3.11-minimal_3.11.8-1_armhf.deb ... Unpacking libpython3.11-minimal:armhf (3.11.8-1) ... Selecting previously unselected package libexpat1:armhf. Preparing to unpack .../libexpat1_2.5.0-2+b2_armhf.deb ... Unpacking libexpat1:armhf (2.5.0-2+b2) ... Selecting previously unselected package python3.11-minimal. Preparing to unpack .../python3.11-minimal_3.11.8-1_armhf.deb ... Unpacking python3.11-minimal (3.11.8-1) ... Setting up libpython3.11-minimal:armhf (3.11.8-1) ... Setting up libexpat1:armhf (2.5.0-2+b2) ... Setting up python3.11-minimal (3.11.8-1) ... Selecting previously unselected package python3-minimal. (Reading database ... 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Setting up python3-minimal (3.11.6-1) ... Selecting previously unselected package python3. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20897 files and directories currently installed.) Preparing to unpack .../00-python3_3.11.6-1_armhf.deb ... Unpacking python3 (3.11.6-1) ... Selecting previously unselected package libpython3.12-minimal:armhf. Preparing to unpack .../01-libpython3.12-minimal_3.12.2-1_armhf.deb ... Unpacking libpython3.12-minimal:armhf (3.12.2-1) ... 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Unpacking python3-vcf (0.6.8+git20170215.476169c-10) ... Setting up libhtscodecs2:armhf (1.6.0-1+b1) ... Setting up media-types (10.1.0) ... Setting up libpipeline1:armhf (1.5.7-1+b2) ... Setting up libpsl5:armhf (0.21.2-1+b1) ... Setting up libicu72:armhf (72.1-4+b1) ... Setting up bsdextrautils (2.39.3-6) ... Setting up libmagic-mgc (1:5.45-2+b1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.14.1) ... Setting up libbrotli1:armhf (1.1.0-2+b3) ... Setting up libpython3.12-minimal:armhf (3.12.2-1) ... Setting up libnghttp2-14:armhf (1.59.0-1) ... Setting up libmagic1:armhf (1:5.45-2+b1) ... Setting up libdeflate0:armhf (1.20-1) ... Setting up gettext-base (0.21-14+b1) ... Setting up m4 (1.4.19-4) ... Setting up file (1:5.45-2+b1) ... Setting up libsasl2-modules-db:armhf (2.1.28+dfsg1-4+b1) ... Setting up tzdata (2024a-1) ... Current default time zone: 'Etc/UTC' Local time is now: Tue Mar 26 12:49:20 UTC 2024. Universal Time is now: Tue Mar 26 12:49:20 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20220109.1) ... Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up autopoint (0.21-14) ... Setting up libsasl2-2:armhf (2.1.28+dfsg1-4+b1) ... Setting up autoconf (2.71-3) ... Setting up sensible-utils (0.0.22) ... Setting up libuchardet0:armhf (0.0.8-1+b1) ... Setting up libsub-override-perl (0.10-1) ... Setting up libssh2-1:armhf (1.11.0-4) ... Setting up netbase (6.4) ... Setting up libelf1:armhf (0.190-1+b1) ... Setting up readline-common (8.2-3) ... Setting up libxml2:armhf (2.9.14+dfsg-1.3+b2) ... Setting up liblocale-gettext-perl (1.07-6+b1) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up python3.12-minimal (3.12.2-1) ... Setting up gettext (0.21-14+b1) ... Setting up libtool (2.4.7-7) ... Setting up libreadline8:armhf (8.2-3+b1) ... Setting up libldap-2.5-0:armhf (2.5.13+dfsg-5+b3) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up help2man (1.49.3) ... Setting up dh-autoreconf (20) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up dwz (0.15-1) ... Setting up groff-base (1.23.0-3) ... Setting up libpython3.12-stdlib:armhf (3.12.2-1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libpython3.11-stdlib:armhf (3.11.8-1) ... Setting up python3.12 (3.12.2-1) ... Setting up libcurl3-gnutls:armhf (8.5.0-2) ... Setting up man-db (2.12.0-3) ... Not building database; man-db/auto-update is not 'true'. Setting up libpython3-stdlib:armhf (3.11.6-1) ... Setting up python3.11 (3.11.8-1) ... Setting up libhts3:armhf (1.19+ds-1) ... Setting up debhelper (13.14.1) ... Setting up python3 (3.11.6-1) ... Setting up python3-lib2to3 (3.11.5-1) ... Setting up python3-pkg-resources (68.1.2-2) ... Setting up python3-distutils (3.11.5-1) ... python3.12: can't get files for byte-compilation Setting up python3-pysam (0.22.0+ds-1+b1) ... Setting up python3-setuptools (68.1.2-2) ... Setting up python3-all (3.11.6-1) ... Setting up python3-vcf (0.6.8+git20170215.476169c-10) ... /usr/lib/python3/dist-packages/vcf/parser.py:278: SyntaxWarning: invalid escape sequence '\[' self._alt_pattern = re.compile('[\[\]]') /usr/lib/python3/dist-packages/vcf/parser.py:536: SyntaxWarning: invalid escape sequence '\[' remoteOrientation = (re.search('\[', str) is not None) Setting up dh-python (6.20240310) ... Processing triggers for libc-bin (2.37-15) ... 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/nanosv-1.2.4+git20190409.c1ae30c/ && 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 > ../nanosv_1.2.4+git20190409.c1ae30c-6_source.changes dpkg-buildpackage: info: source package nanosv dpkg-buildpackage: info: source version 1.2.4+git20190409.c1ae30c-6 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Nilesh Patra dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf dpkg-source: info: using options from nanosv-1.2.4+git20190409.c1ae30c/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/ debian/rules clean dh clean --with python3 --buildsystem=pybuild debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c' dh_auto_clean pybuild --clean -i python{version} -p "3.12 3.11" I: pybuild base:305: python3.12 setup.py clean /usr/lib/python3/dist-packages/setuptools/dist.py:744: SetuptoolsDeprecationWarning: Invalid dash-separated options !! ******************************************************************************** Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead. This deprecation is overdue, please update your project and remove deprecated calls to avoid build errors in the future. See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. ******************************************************************************** !! opt = self.warn_dash_deprecation(opt, section) /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:265: UserWarning: Unknown distribution option: 'including_package_data' warnings.warn(msg) running clean removing '/build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/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 I: pybuild base:305: python3.11 setup.py clean /usr/lib/python3/dist-packages/setuptools/dist.py:744: SetuptoolsDeprecationWarning: Invalid dash-separated options !! ******************************************************************************** Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead. This deprecation is overdue, please update your project and remove deprecated calls to avoid build errors in the future. See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. ******************************************************************************** !! opt = self.warn_dash_deprecation(opt, section) /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:265: UserWarning: Unknown distribution option: 'including_package_data' warnings.warn(msg) running clean removing '/build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build' (and everything under it) 'build/bdist.linux-armv7l' does not exist -- can't clean it 'build/scripts-3.11' does not exist -- can't clean it rm -rf .pybuild/ find . -name \*.pyc -exec rm {} \; rm -rf /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/python3-nanosv* rm -f /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/NanoSV.1 make[1]: Leaving directory '/build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c' dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild rm -f debian/debhelper-build-stamp rm -rf debian/.debhelper/ rm -f -- debian/nanosv.substvars debian/files rm -fr -- debian/nanosv/ debian/tmp/ find . \( \( \ \( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS -o -path .\*/.pc -o -path .\*/_darcs \) -prune -o -type f -a \ \( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \ -o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \ -o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \ -o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \ \) -exec rm -f {} + \) -o \ \( -type d -a \( -name autom4te.cache -o -name __pycache__ \) -prune -exec rm -rf {} + \) \) debian/rules binary dh binary --with python3 --buildsystem=pybuild dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild pybuild --configure -i python{version} -p "3.12 3.11" I: pybuild base:305: python3.12 setup.py config /usr/lib/python3/dist-packages/setuptools/dist.py:744: SetuptoolsDeprecationWarning: Invalid dash-separated options !! ******************************************************************************** Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead. This deprecation is overdue, please update your project and remove deprecated calls to avoid build errors in the future. See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. ******************************************************************************** !! opt = self.warn_dash_deprecation(opt, section) /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:265: UserWarning: Unknown distribution option: 'including_package_data' warnings.warn(msg) running config I: pybuild base:305: python3.11 setup.py config /usr/lib/python3/dist-packages/setuptools/dist.py:744: SetuptoolsDeprecationWarning: Invalid dash-separated options !! ******************************************************************************** Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead. This deprecation is overdue, please update your project and remove deprecated calls to avoid build errors in the future. See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. ******************************************************************************** !! opt = self.warn_dash_deprecation(opt, section) /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:265: UserWarning: Unknown distribution option: 'including_package_data' warnings.warn(msg) running config dh_auto_build -O--buildsystem=pybuild pybuild --build -i python{version} -p "3.12 3.11" I: pybuild base:305: /usr/bin/python3.12 setup.py build /usr/lib/python3/dist-packages/setuptools/dist.py:744: SetuptoolsDeprecationWarning: Invalid dash-separated options !! ******************************************************************************** Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead. This deprecation is overdue, please update your project and remove deprecated calls to avoid build errors in the future. See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. ******************************************************************************** !! opt = self.warn_dash_deprecation(opt, section) /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:265: UserWarning: Unknown distribution option: 'including_package_data' warnings.warn(msg) running build running build_py creating /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv copying nanosv/version.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv copying nanosv/NanoSV.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv copying nanosv/__init__.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv creating /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/utils copying nanosv/utils/create_vcf.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/utils copying nanosv/utils/parse_svs.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/utils copying nanosv/utils/parse_breakpoints.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/utils copying nanosv/utils/parse_reads.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/utils copying nanosv/utils/__init__.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/utils copying nanosv/utils/coverage.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/utils copying nanosv/utils/parse_bam.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/utils copying nanosv/utils/phasing.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/utils creating /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/classes copying nanosv/classes/sv.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/classes copying nanosv/classes/read.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/classes copying nanosv/classes/breakpoint.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/classes copying nanosv/classes/__init__.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/classes copying nanosv/classes/segment.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/classes copying nanosv/classes/variant.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/classes copying nanosv/config.ini -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv creating /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/bedfiles copying nanosv/bedfiles/human_hg19.bed -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/bedfiles I: pybuild base:305: /usr/bin/python3 setup.py build /usr/lib/python3/dist-packages/setuptools/dist.py:744: SetuptoolsDeprecationWarning: Invalid dash-separated options !! ******************************************************************************** Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead. This deprecation is overdue, please update your project and remove deprecated calls to avoid build errors in the future. See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. ******************************************************************************** !! opt = self.warn_dash_deprecation(opt, section) /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:265: UserWarning: Unknown distribution option: 'including_package_data' warnings.warn(msg) running build running build_py creating /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv copying nanosv/version.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv copying nanosv/NanoSV.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv copying nanosv/__init__.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv creating /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/utils copying nanosv/utils/create_vcf.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/utils copying nanosv/utils/parse_svs.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/utils copying nanosv/utils/parse_breakpoints.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/utils copying nanosv/utils/parse_reads.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/utils copying nanosv/utils/__init__.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/utils copying nanosv/utils/coverage.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/utils copying nanosv/utils/parse_bam.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/utils copying nanosv/utils/phasing.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/utils creating /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/classes copying nanosv/classes/sv.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/classes copying nanosv/classes/read.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/classes copying nanosv/classes/breakpoint.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/classes copying nanosv/classes/__init__.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/classes copying nanosv/classes/segment.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/classes copying nanosv/classes/variant.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/classes copying nanosv/config.ini -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv creating /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/bedfiles copying nanosv/bedfiles/human_hg19.bed -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/bedfiles debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c' echo "I: Do nothing" I: Do nothing make[1]: Leaving directory '/build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild rm -f -- debian/nanosv.substvars rm -fr -- debian/.debhelper/generated/nanosv/ debian/nanosv/ debian/tmp/ debian/rules override_dh_auto_install make[1]: Entering directory '/build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c' dh_auto_install install -m0755 -d /build/reproducible-path/nanosv-1.2.4\+git20190409.c1ae30c/debian/nanosv pybuild --install -i python{version} -p "3.12 3.11" --dest-dir /build/reproducible-path/nanosv-1.2.4\+git20190409.c1ae30c/debian/nanosv I: pybuild base:305: /usr/bin/python3.12 setup.py install --root /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv /usr/lib/python3/dist-packages/setuptools/dist.py:744: SetuptoolsDeprecationWarning: Invalid dash-separated options !! ******************************************************************************** Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead. This deprecation is overdue, please update your project and remove deprecated calls to avoid build errors in the future. See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. ******************************************************************************** !! opt = self.warn_dash_deprecation(opt, section) /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:265: UserWarning: Unknown distribution option: 'including_package_data' warnings.warn(msg) 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_py running install_lib creating /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr creating /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib creating /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12 creating /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages creating /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/config.ini -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/version.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv creating /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv/utils copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/utils/create_vcf.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv/utils copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/utils/parse_svs.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv/utils copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/utils/parse_breakpoints.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv/utils copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/utils/parse_reads.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv/utils copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/utils/__init__.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv/utils copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/utils/coverage.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv/utils copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/utils/parse_bam.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv/utils copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/utils/phasing.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv/utils copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/NanoSV.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/__init__.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv creating /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv/bedfiles copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/bedfiles/human_hg19.bed -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv/bedfiles creating /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv/classes copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/classes/sv.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv/classes copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/classes/read.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv/classes copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/classes/breakpoint.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv/classes copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/classes/__init__.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv/classes copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/classes/segment.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv/classes copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.12_nanosv/build/nanosv/classes/variant.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv/classes byte-compiling /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv/version.py to version.cpython-312.pyc byte-compiling /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv/utils/create_vcf.py to create_vcf.cpython-312.pyc byte-compiling /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv/utils/parse_svs.py to parse_svs.cpython-312.pyc byte-compiling /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv/utils/parse_breakpoints.py to parse_breakpoints.cpython-312.pyc byte-compiling /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv/utils/parse_reads.py to parse_reads.cpython-312.pyc byte-compiling /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv/utils/__init__.py to __init__.cpython-312.pyc byte-compiling /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv/utils/coverage.py to coverage.cpython-312.pyc byte-compiling /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv/utils/parse_bam.py to parse_bam.cpython-312.pyc /usr/lib/python3.12/dist-packages/nanosv/utils/parse_bam.py:43: SyntaxWarning: invalid escape sequence '\.' /usr/lib/python3.12/dist-packages/nanosv/utils/parse_bam.py:206: SyntaxWarning: invalid escape sequence '\d' /usr/lib/python3.12/dist-packages/nanosv/utils/parse_bam.py:210: SyntaxWarning: invalid escape sequence '\d' /usr/lib/python3.12/dist-packages/nanosv/utils/parse_bam.py:392: SyntaxWarning: invalid escape sequence '\^' /usr/lib/python3.12/dist-packages/nanosv/utils/parse_bam.py:416: SyntaxWarning: invalid escape sequence '\D' /usr/lib/python3.12/dist-packages/nanosv/utils/parse_bam.py:418: SyntaxWarning: invalid escape sequence '\D' byte-compiling /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv/utils/phasing.py to phasing.cpython-312.pyc byte-compiling /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv/NanoSV.py to NanoSV.cpython-312.pyc byte-compiling /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv/__init__.py to __init__.cpython-312.pyc byte-compiling /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv/classes/sv.py to sv.cpython-312.pyc byte-compiling /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv/classes/read.py to read.cpython-312.pyc byte-compiling /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv/classes/breakpoint.py to breakpoint.cpython-312.pyc byte-compiling /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv/classes/__init__.py to __init__.cpython-312.pyc byte-compiling /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv/classes/segment.py to segment.cpython-312.pyc byte-compiling /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/nanosv/classes/variant.py to variant.cpython-312.pyc running install_egg_info running egg_info creating NanoSV.egg-info writing NanoSV.egg-info/PKG-INFO writing dependency_links to NanoSV.egg-info/dependency_links.txt writing entry points to NanoSV.egg-info/entry_points.txt writing requirements to NanoSV.egg-info/requires.txt writing top-level names to NanoSV.egg-info/top_level.txt writing manifest file 'NanoSV.egg-info/SOURCES.txt' reading manifest file 'NanoSV.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching 'README.rst' adding license file 'LICENSE' writing manifest file 'NanoSV.egg-info/SOURCES.txt' Copying NanoSV.egg-info to /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.12/dist-packages/NanoSV-1.2.4.egg-info Skipping SOURCES.txt running install_scripts Installing NanoSV script to /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/bin I: pybuild base:305: /usr/bin/python3 setup.py install --root /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv /usr/lib/python3/dist-packages/setuptools/dist.py:744: SetuptoolsDeprecationWarning: Invalid dash-separated options !! ******************************************************************************** Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead. This deprecation is overdue, please update your project and remove deprecated calls to avoid build errors in the future. See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. ******************************************************************************** !! opt = self.warn_dash_deprecation(opt, section) /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:265: UserWarning: Unknown distribution option: 'including_package_data' warnings.warn(msg) 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_py running install_lib creating /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11 creating /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages creating /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/config.ini -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/version.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv creating /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv/utils copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/utils/create_vcf.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv/utils copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/utils/parse_svs.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv/utils copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/utils/parse_breakpoints.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv/utils copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/utils/parse_reads.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv/utils copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/utils/__init__.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv/utils copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/utils/coverage.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv/utils copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/utils/parse_bam.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv/utils copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/utils/phasing.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv/utils copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/NanoSV.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/__init__.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv creating /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv/bedfiles copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/bedfiles/human_hg19.bed -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv/bedfiles creating /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv/classes copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/classes/sv.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv/classes copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/classes/read.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv/classes copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/classes/breakpoint.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv/classes copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/classes/__init__.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv/classes copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/classes/segment.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv/classes copying /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/.pybuild/cpython3_3.11_nanosv/build/nanosv/classes/variant.py -> /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv/classes byte-compiling /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv/version.py to version.cpython-311.pyc byte-compiling /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv/utils/create_vcf.py to create_vcf.cpython-311.pyc byte-compiling /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv/utils/parse_svs.py to parse_svs.cpython-311.pyc byte-compiling /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv/utils/parse_breakpoints.py to parse_breakpoints.cpython-311.pyc byte-compiling /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv/utils/parse_reads.py to parse_reads.cpython-311.pyc byte-compiling /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv/utils/__init__.py to __init__.cpython-311.pyc byte-compiling /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv/utils/coverage.py to coverage.cpython-311.pyc byte-compiling /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv/utils/parse_bam.py to parse_bam.cpython-311.pyc byte-compiling /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv/utils/phasing.py to phasing.cpython-311.pyc byte-compiling /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv/NanoSV.py to NanoSV.cpython-311.pyc byte-compiling /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv/__init__.py to __init__.cpython-311.pyc byte-compiling /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv/classes/sv.py to sv.cpython-311.pyc byte-compiling /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv/classes/read.py to read.cpython-311.pyc byte-compiling /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv/classes/breakpoint.py to breakpoint.cpython-311.pyc byte-compiling /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv/classes/__init__.py to __init__.cpython-311.pyc byte-compiling /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv/classes/segment.py to segment.cpython-311.pyc byte-compiling /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/nanosv/classes/variant.py to variant.cpython-311.pyc running install_egg_info running egg_info writing NanoSV.egg-info/PKG-INFO writing dependency_links to NanoSV.egg-info/dependency_links.txt writing entry points to NanoSV.egg-info/entry_points.txt writing requirements to NanoSV.egg-info/requires.txt writing top-level names to NanoSV.egg-info/top_level.txt reading manifest file 'NanoSV.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching 'README.rst' adding license file 'LICENSE' writing manifest file 'NanoSV.egg-info/SOURCES.txt' Copying NanoSV.egg-info to /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/lib/python3.11/dist-packages/NanoSV-1.2.4.egg-info Skipping SOURCES.txt running install_scripts Installing NanoSV script to /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/nanosv/usr/bin find /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian -name "*.bed" -o -name "*.ini" | xargs -r chmod -x PYTHONPATH=./debian/nanosv/usr/lib/python3.11/dist-packages/ help2man --include=debian/NanoSV.h2m ./debian/nanosv/usr/bin/NanoSV > /build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c/debian/NanoSV.1 make[1]: Leaving directory '/build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c' dh_installdocs -O--buildsystem=pybuild install -m0755 -d debian/nanosv/usr/share/doc/nanosv install -m0755 -d debian/nanosv/usr/share/doc/nanosv cp --reflink=auto -a ./README.md debian/nanosv/usr/share/doc/nanosv cp --reflink=auto -a ./debian/README.test debian/nanosv/usr/share/doc/nanosv cp --reflink=auto -a ./debian/tests/run-unit-test debian/nanosv/usr/share/doc/nanosv chmod -R u\+rw,go=rX debian/nanosv/usr/share/doc install -p -m0644 debian/copyright debian/nanosv/usr/share/doc/nanosv/copyright dh_installchangelogs -O--buildsystem=pybuild install -m0755 -d debian/nanosv/usr/share/doc/nanosv install -p -m0644 debian/.debhelper/generated/nanosv/dh_installchangelogs.dch.trimmed debian/nanosv/usr/share/doc/nanosv/changelog.Debian dh_installman -O--buildsystem=pybuild install -m0755 -d debian/nanosv/usr/share/man/man1/ install -p -m0644 ./debian/NanoSV.1 debian/nanosv/usr/share/man/man1/NanoSV.1 man-recode --to-code UTF-8 --suffix .dh-new debian/nanosv/usr/share/man/man1/NanoSV.1 mv debian/nanosv/usr/share/man/man1/NanoSV.1.dh-new debian/nanosv/usr/share/man/man1/NanoSV.1 chmod 0644 -- debian/nanosv/usr/share/man/man1/NanoSV.1 dh_python3 -O--buildsystem=pybuild D: dh_python3 dh_python3:179: version: 6.20240310 D: dh_python3 dh_python3:180: argv: ['/usr/bin/dh_python3', '-O--buildsystem=pybuild'] D: dh_python3 dh_python3:181: options: Namespace(guess_deps=True, skip_private=False, verbose=True, arch=None, package=None, no_package=None, remaining_packages=False, compile_all=False, vrange=None, regexpr=None, accept_upstream_versions=False, depends=None, depends_section=None, recommends=None, recommends_section=None, suggests=None, suggests_section=None, requires=None, shebang=None, ignore_shebangs=False, clean_dbg_pkg=True, no_ext_rename=False, no_shebang_rewrite=False, private_dir=None, O=['--buildsystem=pybuild']) D: dh_python3 dh_python3:182: supported Python versions: 3.11,3.12 (default=3.11) D: dh_python3 debhelper:174: source=nanosv, binary packages=['nanosv'] D: dh_python3 dh_python3:204: processing package nanosv... D: dh_python3 fs:50: moving files from debian/nanosv/usr/lib/python3.11/dist-packages to debian/nanosv/usr/lib/python3/dist-packages/ D: dh_python3 fs:50: moving files from debian/nanosv/usr/lib/python3.12/dist-packages to debian/nanosv/usr/lib/python3/dist-packages/ D: dh_python3 fs:335: package nanosv details = {'requires.txt': {'debian/nanosv/usr/lib/python3/dist-packages/NanoSV-1.2.4.egg-info/requires.txt'}, 'egg-info': {'debian/nanosv/usr/lib/python3/dist-packages/NanoSV-1.2.4.egg-info/PKG-INFO'}, 'dist-info': set(), 'nsp.txt': set(), 'shebangs': {/usr/bin/python3}, 'public_vers': {Version('3')}, 'private_dirs': {}, 'compile': True, 'ext_vers': set(), 'ext_no_version': set()} D: dh_python3 depends:103: generating dependencies for package nanosv D: dh_python3 pydist:173: trying to find dependency for pysam>=0.11 (python=None) D: dh_python3 pydist:207: dependency: module seems to be installed D: dh_python3 pydist:270: dependency: included in build-deps D: dh_python3 pydist:173: trying to find dependency for pyvcf (python=None) D: dh_python3 pydist:207: dependency: module seems to be installed D: dh_python3 pydist:270: dependency: included in build-deps D: dh_python3 depends:253: D={'python3-vcf', 'python3:any', 'python3-pysam'}; R=[]; S=[]; E=[], B=[]; RT=[] dh_installsystemduser -O--buildsystem=pybuild dh_perl -O--buildsystem=pybuild dh_link -O--buildsystem=pybuild dh_strip_nondeterminism -O--buildsystem=pybuild dh_compress -O--buildsystem=pybuild cd debian/nanosv chmod a-x usr/share/doc/nanosv/README.md usr/share/doc/nanosv/changelog.Debian usr/share/man/man1/NanoSV.1 gzip -9nf usr/share/doc/nanosv/README.md usr/share/doc/nanosv/changelog.Debian usr/share/man/man1/NanoSV.1 cd '/build/reproducible-path/nanosv-1.2.4+git20190409.c1ae30c' dh_fixperms -O--buildsystem=pybuild find debian/nanosv ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/nanosv/usr/share/doc -type f -a -true -a ! -regex 'debian/nanosv/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/nanosv/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/nanosv/usr/share/man -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/nanosv -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/nanosv/usr/bin -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x find debian/nanosv/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w dh_missing -O--buildsystem=pybuild dh_installdeb -O--buildsystem=pybuild install -m0755 -d debian/nanosv/DEBIAN printf '#!/bin/sh\nset -e\n' > debian/nanosv/DEBIAN/postinst cat debian/nanosv.postinst.debhelper >> debian/nanosv/DEBIAN/postinst chmod 0755 -- debian/nanosv/DEBIAN/postinst printf '#!/bin/sh\nset -e\n' > debian/nanosv/DEBIAN/prerm cat debian/nanosv.prerm.debhelper >> debian/nanosv/DEBIAN/prerm chmod 0755 -- debian/nanosv/DEBIAN/prerm dh_gencontrol -O--buildsystem=pybuild install -m0755 -d debian/nanosv/DEBIAN echo misc:Depends= >> debian/nanosv.substvars echo misc:Pre-Depends= >> debian/nanosv.substvars dpkg-gencontrol -pnanosv -ldebian/changelog -Tdebian/nanosv.substvars -Pdebian/nanosv chmod 0644 -- debian/nanosv/DEBIAN/control dh_md5sums -O--buildsystem=pybuild install -m0755 -d debian/nanosv/DEBIAN cd debian/nanosv >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/nanosv/DEBIAN/md5sums dh_builddeb -O--buildsystem=pybuild dpkg-deb --root-owner-group --build debian/nanosv .. dpkg-deb: building package 'nanosv' in '../nanosv_1.2.4+git20190409.c1ae30c-6_all.deb'. dpkg-genbuildinfo --build=binary -O../nanosv_1.2.4+git20190409.c1ae30c-6_armhf.buildinfo dpkg-genchanges --build=binary -O../nanosv_1.2.4+git20190409.c1ae30c-6_armhf.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-source: info: using options from nanosv-1.2.4+git20190409.c1ae30c/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/14209 and its subdirectories I: Current time: Tue Mar 26 00:54:05 -12 2024 I: pbuilder-time-stamp: 1711457645 Tue Mar 26 12:54:18 UTC 2024 I: 1st build successful. Starting 2nd build on remote node cbxi4pro0-armhf-rb.debian.net. Tue Mar 26 12:54:18 UTC 2024 I: Preparing to do remote build '2' on cbxi4pro0-armhf-rb.debian.net. Tue Mar 26 13:02:48 UTC 2024 I: Deleting $TMPDIR on cbxi4pro0-armhf-rb.debian.net. Tue Mar 26 13:02:51 UTC 2024 I: nanosv_1.2.4+git20190409.c1ae30c-6_armhf.changes: Format: 1.8 Date: Mon, 25 Oct 2021 03:29:04 +0530 Source: nanosv Binary: nanosv Architecture: all Version: 1.2.4+git20190409.c1ae30c-6 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Nilesh Patra Description: nanosv - structural variant caller for nanopore data Changes: nanosv (1.2.4+git20190409.c1ae30c-6) unstable; urgency=medium . * Team Upload. * Remove references to nose, there are no tests in this package Checksums-Sha1: c2c1ba445b128b083520ad33b71bd36f9ffbe7e5 2966796 nanosv_1.2.4+git20190409.c1ae30c-6_all.deb 072b46b5ce43d3e44aada34953f2229a6977095d 6530 nanosv_1.2.4+git20190409.c1ae30c-6_armhf.buildinfo Checksums-Sha256: 171a8e0f526dac4385a0cefc43d91979f678e95292ba351d3fcb3f3dd277942f 2966796 nanosv_1.2.4+git20190409.c1ae30c-6_all.deb be8d371f45745ad2f2d21d787b1c38bc3a02d8cc6e605acbdd4c8491ecd2c018 6530 nanosv_1.2.4+git20190409.c1ae30c-6_armhf.buildinfo Files: 3abbb54da91ae5e33b8374c22d2a056d 2966796 science optional nanosv_1.2.4+git20190409.c1ae30c-6_all.deb 9b35a24b107a462cb337164b1824fe40 6530 science optional nanosv_1.2.4+git20190409.c1ae30c-6_armhf.buildinfo Tue Mar 26 13:02:52 UTC 2024 I: diffoscope 261 will be used to compare the two builds: Running as unit: rb-diffoscope-armhf_28-2068.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.HucDkkgj/nanosv_1.2.4+git20190409.c1ae30c-6.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.HucDkkgj/nanosv_1.2.4+git20190409.c1ae30c-6.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.HucDkkgj/nanosv_1.2.4+git20190409.c1ae30c-6.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.HucDkkgj/b1/nanosv_1.2.4+git20190409.c1ae30c-6_armhf.changes /srv/reproducible-results/rbuild-debian/r-b-build.HucDkkgj/b2/nanosv_1.2.4+git20190409.c1ae30c-6_armhf.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.369s) 0.369s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.046s) 0.046s 12 calls diffoscope.comparators.binary.FilesystemFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 696ms CPU time consumed: 696ms Tue Mar 26 13:02:53 UTC 2024 I: diffoscope 261 found no differences in the changes files, and a .buildinfo file also exists. Tue Mar 26 13:02:53 UTC 2024 I: nanosv from trixie built successfully and reproducibly on armhf. Tue Mar 26 13:02:55 UTC 2024 I: Submitting .buildinfo files to external archives: Tue Mar 26 13:02:55 UTC 2024 I: Submitting 8.0K b1/nanosv_1.2.4+git20190409.c1ae30c-6_armhf.buildinfo.asc Tue Mar 26 13:02:56 UTC 2024 I: Submitting 8.0K b2/nanosv_1.2.4+git20190409.c1ae30c-6_armhf.buildinfo.asc Tue Mar 26 13:02:56 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Tue Mar 26 13:02:56 UTC 2024 I: Done submitting .buildinfo files. Tue Mar 26 13:02:56 UTC 2024 I: Removing signed nanosv_1.2.4+git20190409.c1ae30c-6_armhf.buildinfo.asc files: removed './b1/nanosv_1.2.4+git20190409.c1ae30c-6_armhf.buildinfo.asc' removed './b2/nanosv_1.2.4+git20190409.c1ae30c-6_armhf.buildinfo.asc'