I: pbuilder: network access will be disabled during build I: Current time: Mon Oct 21 08:13:40 -12 2024 I: pbuilder-time-stamp: 1729541620 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 [cyvcf2_0.31.1-2.dsc] I: copying [./cyvcf2_0.31.1.orig.tar.gz] I: copying [./cyvcf2_0.31.1-2.debian.tar.xz] I: Extracting source gpgv: Signature made Wed Jul 31 09:42:06 2024 gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./cyvcf2_0.31.1-2.dsc: no acceptable signature found dpkg-source: info: extracting cyvcf2 in cyvcf2-0.31.1 dpkg-source: info: unpacking cyvcf2_0.31.1.orig.tar.gz dpkg-source: info: unpacking cyvcf2_0.31.1-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying i386.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/959798/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='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='2dd91ba3b8b449ccba2c79cb779e3932' 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='959798' 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.ghzqWUq4/pbuilderrc_dqHl --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.ghzqWUq4/b1 --logfile b1/build.log cyvcf2_0.31.1-2.dsc' SUDO_GID='109' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.4:3128' I: uname -a Linux codethink04-arm64 6.1.0-26-cloud-arm64 #1 SMP Debian 6.1.112-1 (2024-09-30) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 4 21:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/959798/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: arm64 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-sequence-python3, zlib1g-dev, cython3, python3-setuptools, python3-all-dev, python3-numpy, python3-coloredlogs, python3-click, python3-pytest, libssl-dev, libcurl4-gnutls-dev | libcurl4-openssl-dev, libhts-dev, libbz2-dev, help2man dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19909 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-sequence-python3; however: Package dh-sequence-python3 is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on cython3; however: Package cython3 is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on python3-all-dev; however: Package python3-all-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-numpy; however: Package python3-numpy is not installed. pbuilder-satisfydepends-dummy depends on python3-coloredlogs; however: Package python3-coloredlogs is not installed. pbuilder-satisfydepends-dummy depends on python3-click; however: Package python3-click is not installed. pbuilder-satisfydepends-dummy depends on python3-pytest; however: Package python3-pytest is not installed. pbuilder-satisfydepends-dummy depends on libssl-dev; however: Package libssl-dev is not installed. pbuilder-satisfydepends-dummy depends on libcurl4-gnutls-dev | libcurl4-openssl-dev; however: Package libcurl4-gnutls-dev is not installed. Package libcurl4-openssl-dev is not installed. pbuilder-satisfydepends-dummy depends on libhts-dev; however: Package libhts-dev is not installed. pbuilder-satisfydepends-dummy depends on libbz2-dev; however: Package libbz2-dev is not installed. pbuilder-satisfydepends-dummy depends on help2man; however: Package help2man 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} cython3{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} libblas3{a} libbrotli-dev{a} libbrotli1{a} libbz2-dev{a} libcom-err2{a} libcurl3t64-gnutls{a} libcurl4-gnutls-dev{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libelf1t64{a} libevent-2.1-7t64{a} libexpat1{a} libexpat1-dev{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgssapi-krb5-2{a} libhts-dev{a} libhts3t64{a} libhtscodecs2{a} libicu72{a} libidn2-dev{a} libjs-jquery{a} libjs-sphinxdoc{a} libjs-underscore{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblapack3{a} libldap-2.5-0{a} liblocale-gettext-perl{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnghttp2-dev{a} libnghttp3-9{a} libnghttp3-dev{a} libngtcp2-16{a} libngtcp2-crypto-gnutls-dev{a} libngtcp2-crypto-gnutls8{a} libngtcp2-dev{a} libnsl2{a} libp11-kit-dev{a} libpipeline1{a} libpkgconf3{a} libpsl-dev{a} libpsl5t64{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} libreadline8t64{a} librtmp-dev{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{a} libtasn1-6-dev{a} libtirpc-common{a} libtirpc3t64{a} libtool{a} libuchardet0{a} libunbound8{a} libxml2{a} libzstd-dev{a} m4{a} man-db{a} media-types{a} netbase{a} nettle-dev{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} python3{a} python3-all{a} python3-all-dev{a} python3-autocommand{a} python3-click{a} python3-colorama{a} python3-coloredlogs{a} python3-dev{a} python3-humanfriendly{a} python3-inflect{a} python3-iniconfig{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-minimal{a} python3-more-itertools{a} python3-numpy{a} python3-packaging{a} python3-pkg-resources{a} python3-pluggy{a} python3-pytest{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} tzdata{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: bzip2-doc ca-certificates curl javascript-common krb5-locales libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules libtasn1-doc lynx publicsuffix python3-pygments wget 0 packages upgraded, 134 newly installed, 0 to remove and 0 not upgraded. Need to get 59.9 MB of archives. After unpacking 251 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main arm64 liblocale-gettext-perl arm64 1.07-7 [14.8 kB] Get: 2 http://deb.debian.org/debian trixie/main arm64 libpython3.12-minimal arm64 3.12.6-1 [806 kB] Get: 3 http://deb.debian.org/debian trixie/main arm64 libexpat1 arm64 2.6.3-1 [90.2 kB] Get: 4 http://deb.debian.org/debian trixie/main arm64 python3.12-minimal arm64 3.12.6-1 [1935 kB] Get: 5 http://deb.debian.org/debian trixie/main arm64 python3-minimal arm64 3.12.6-1 [26.7 kB] Get: 6 http://deb.debian.org/debian trixie/main arm64 media-types all 10.1.0 [26.9 kB] Get: 7 http://deb.debian.org/debian trixie/main arm64 netbase all 6.4 [12.8 kB] Get: 8 http://deb.debian.org/debian trixie/main arm64 tzdata all 2024a-4 [255 kB] Get: 9 http://deb.debian.org/debian trixie/main arm64 libkrb5support0 arm64 1.21.3-3 [32.1 kB] Get: 10 http://deb.debian.org/debian trixie/main arm64 libcom-err2 arm64 1.47.1-1 [22.8 kB] Get: 11 http://deb.debian.org/debian trixie/main arm64 libk5crypto3 arm64 1.21.3-3 [80.8 kB] Get: 12 http://deb.debian.org/debian trixie/main arm64 libkeyutils1 arm64 1.6.3-3 [9112 B] Get: 13 http://deb.debian.org/debian trixie/main arm64 libkrb5-3 arm64 1.21.3-3 [310 kB] Get: 14 http://deb.debian.org/debian trixie/main arm64 libgssapi-krb5-2 arm64 1.21.3-3 [126 kB] Get: 15 http://deb.debian.org/debian trixie/main arm64 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get: 16 http://deb.debian.org/debian trixie/main arm64 libtirpc3t64 arm64 1.3.4+ds-1.3 [78.4 kB] Get: 17 http://deb.debian.org/debian trixie/main arm64 libnsl2 arm64 1.3.0-3+b2 [37.7 kB] Get: 18 http://deb.debian.org/debian trixie/main arm64 readline-common all 8.2-5 [69.3 kB] Get: 19 http://deb.debian.org/debian trixie/main arm64 libreadline8t64 arm64 8.2-5 [159 kB] Get: 20 http://deb.debian.org/debian trixie/main arm64 libpython3.12-stdlib arm64 3.12.6-1 [1898 kB] Get: 21 http://deb.debian.org/debian trixie/main arm64 python3.12 arm64 3.12.6-1 [669 kB] Get: 22 http://deb.debian.org/debian trixie/main arm64 libpython3-stdlib arm64 3.12.6-1 [9692 B] Get: 23 http://deb.debian.org/debian trixie/main arm64 python3 arm64 3.12.6-1 [27.8 kB] Get: 24 http://deb.debian.org/debian trixie/main arm64 sensible-utils all 0.0.24 [24.8 kB] Get: 25 http://deb.debian.org/debian trixie/main arm64 libmagic-mgc arm64 1:5.45-3 [314 kB] Get: 26 http://deb.debian.org/debian trixie/main arm64 libmagic1t64 arm64 1:5.45-3 [100 kB] Get: 27 http://deb.debian.org/debian trixie/main arm64 file arm64 1:5.45-3 [43.0 kB] Get: 28 http://deb.debian.org/debian trixie/main arm64 gettext-base arm64 0.22.5-2 [198 kB] Get: 29 http://deb.debian.org/debian trixie/main arm64 libuchardet0 arm64 0.0.8-1+b1 [69.0 kB] Get: 30 http://deb.debian.org/debian trixie/main arm64 groff-base arm64 1.23.0-5 [1129 kB] Get: 31 http://deb.debian.org/debian trixie/main arm64 bsdextrautils arm64 2.40.2-9 [96.6 kB] Get: 32 http://deb.debian.org/debian trixie/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 33 http://deb.debian.org/debian trixie/main arm64 man-db arm64 2.13.0-1 [1404 kB] Get: 34 http://deb.debian.org/debian trixie/main arm64 m4 arm64 1.4.19-4 [277 kB] Get: 35 http://deb.debian.org/debian trixie/main arm64 autoconf all 2.72-3 [493 kB] Get: 36 http://deb.debian.org/debian trixie/main arm64 autotools-dev all 20220109.1 [51.6 kB] Get: 37 http://deb.debian.org/debian trixie/main arm64 automake all 1:1.16.5-1.3 [823 kB] Get: 38 http://deb.debian.org/debian trixie/main arm64 autopoint all 0.22.5-2 [723 kB] Get: 39 http://deb.debian.org/debian trixie/main arm64 cython3 arm64 3.0.11+dfsg-1 [2192 kB] Get: 40 http://deb.debian.org/debian trixie/main arm64 libdebhelper-perl all 13.20 [89.7 kB] Get: 41 http://deb.debian.org/debian trixie/main arm64 libtool all 2.4.7-7 [517 kB] Get: 42 http://deb.debian.org/debian trixie/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 43 http://deb.debian.org/debian trixie/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 44 http://deb.debian.org/debian trixie/main arm64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 45 http://deb.debian.org/debian trixie/main arm64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 46 http://deb.debian.org/debian trixie/main arm64 libelf1t64 arm64 0.191-2 [188 kB] Get: 47 http://deb.debian.org/debian trixie/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 48 http://deb.debian.org/debian trixie/main arm64 libicu72 arm64 72.1-5 [9224 kB] Get: 49 http://deb.debian.org/debian trixie/main arm64 libxml2 arm64 2.12.7+dfsg+really2.9.14-0.1 [630 kB] Get: 50 http://deb.debian.org/debian trixie/main arm64 gettext arm64 0.22.5-2 [1532 kB] Get: 51 http://deb.debian.org/debian trixie/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 52 http://deb.debian.org/debian trixie/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 53 http://deb.debian.org/debian trixie/main arm64 debhelper all 13.20 [915 kB] Get: 54 http://deb.debian.org/debian trixie/main arm64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 55 http://deb.debian.org/debian trixie/main arm64 python3-more-itertools all 10.5.0-1 [63.8 kB] Get: 56 http://deb.debian.org/debian trixie/main arm64 python3-typing-extensions all 4.12.2-2 [73.0 kB] Get: 57 http://deb.debian.org/debian trixie/main arm64 python3-typeguard all 4.3.0-1 [36.5 kB] Get: 58 http://deb.debian.org/debian trixie/main arm64 python3-inflect all 7.3.1-2 [32.4 kB] Get: 59 http://deb.debian.org/debian trixie/main arm64 python3-jaraco.context all 6.0.0-1 [7984 B] Get: 60 http://deb.debian.org/debian trixie/main arm64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 61 http://deb.debian.org/debian trixie/main arm64 python3-pkg-resources all 74.1.2-2 [213 kB] Get: 62 http://deb.debian.org/debian trixie/main arm64 python3-zipp all 3.20.2-1 [10.3 kB] Get: 63 http://deb.debian.org/debian trixie/main arm64 python3-setuptools all 74.1.2-2 [736 kB] Get: 64 http://deb.debian.org/debian trixie/main arm64 dh-python all 6.20240824 [109 kB] Get: 65 http://deb.debian.org/debian trixie/main arm64 help2man arm64 1.49.3 [198 kB] Get: 66 http://deb.debian.org/debian trixie/main arm64 libblas3 arm64 3.12.0-3 [91.7 kB] Get: 67 http://deb.debian.org/debian trixie/main arm64 libbrotli1 arm64 1.1.0-2+b4 [292 kB] Get: 68 http://deb.debian.org/debian trixie/main arm64 libbrotli-dev arm64 1.1.0-2+b4 [308 kB] Get: 69 http://deb.debian.org/debian trixie/main arm64 libbz2-dev arm64 1.0.8-6 [31.9 kB] Get: 70 http://deb.debian.org/debian trixie/main arm64 libsasl2-modules-db arm64 2.1.28+dfsg1-8 [20.0 kB] Get: 71 http://deb.debian.org/debian trixie/main arm64 libsasl2-2 arm64 2.1.28+dfsg1-8 [55.4 kB] Get: 72 http://deb.debian.org/debian trixie/main arm64 libldap-2.5-0 arm64 2.5.18+dfsg-3 [174 kB] Get: 73 http://deb.debian.org/debian trixie/main arm64 libnghttp2-14 arm64 1.63.0-1 [71.2 kB] Get: 74 http://deb.debian.org/debian trixie/main arm64 libnghttp3-9 arm64 1.4.0-1 [59.5 kB] Get: 75 http://deb.debian.org/debian trixie/main arm64 libngtcp2-16 arm64 1.6.0-1 [112 kB] Get: 76 http://deb.debian.org/debian trixie/main arm64 libngtcp2-crypto-gnutls8 arm64 1.6.0-1 [18.5 kB] Get: 77 http://deb.debian.org/debian trixie/main arm64 libpsl5t64 arm64 0.21.2-1.1 [56.8 kB] Get: 78 http://deb.debian.org/debian trixie/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-2+b4 [56.7 kB] Get: 79 http://deb.debian.org/debian trixie/main arm64 libssh2-1t64 arm64 1.11.1-1 [235 kB] Get: 80 http://deb.debian.org/debian trixie/main arm64 libcurl3t64-gnutls arm64 8.10.1-2 [328 kB] Get: 81 http://deb.debian.org/debian trixie/main arm64 libevent-2.1-7t64 arm64 2.1.12-stable-10 [169 kB] Get: 82 http://deb.debian.org/debian trixie/main arm64 libunbound8 arm64 1.22.0-1 [553 kB] Get: 83 http://deb.debian.org/debian trixie/main arm64 libgnutls-dane0t64 arm64 3.8.6-2 [436 kB] Get: 84 http://deb.debian.org/debian trixie/main arm64 libgnutls-openssl27t64 arm64 3.8.6-2 [436 kB] Get: 85 http://deb.debian.org/debian trixie/main arm64 libidn2-dev arm64 2.3.7-2 [122 kB] Get: 86 http://deb.debian.org/debian trixie/main arm64 libp11-kit-dev arm64 0.25.5-2 [208 kB] Get: 87 http://deb.debian.org/debian trixie/main arm64 libtasn1-6-dev arm64 4.19.0-3+b2 [96.2 kB] Get: 88 http://deb.debian.org/debian trixie/main arm64 libgmpxx4ldbl arm64 2:6.3.0+dfsg-2+b1 [329 kB] Get: 89 http://deb.debian.org/debian trixie/main arm64 libgmp-dev arm64 2:6.3.0+dfsg-2+b1 [619 kB] Get: 90 http://deb.debian.org/debian trixie/main arm64 nettle-dev arm64 3.10-1 [1323 kB] Get: 91 http://deb.debian.org/debian trixie/main arm64 libgnutls28-dev arm64 3.8.6-2 [1394 kB] Get: 92 http://deb.debian.org/debian trixie/main arm64 libpkgconf3 arm64 1.8.1-3 [35.3 kB] Get: 93 http://deb.debian.org/debian trixie/main arm64 pkgconf-bin arm64 1.8.1-3 [29.4 kB] Get: 94 http://deb.debian.org/debian trixie/main arm64 pkgconf arm64 1.8.1-3 [26.0 kB] Get: 95 http://deb.debian.org/debian trixie/main arm64 libnghttp2-dev arm64 1.63.0-1 [112 kB] Get: 96 http://deb.debian.org/debian trixie/main arm64 libnghttp3-dev arm64 1.4.0-1 [85.3 kB] Get: 97 http://deb.debian.org/debian trixie/main arm64 libngtcp2-crypto-gnutls-dev arm64 1.6.0-1 [23.7 kB] Get: 98 http://deb.debian.org/debian trixie/main arm64 libngtcp2-dev arm64 1.6.0-1 [165 kB] Get: 99 http://deb.debian.org/debian trixie/main arm64 libpsl-dev arm64 0.21.2-1.1 [77.7 kB] Get: 100 http://deb.debian.org/debian trixie/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1 [916 kB] Get: 101 http://deb.debian.org/debian trixie/main arm64 librtmp-dev arm64 2.4+20151223.gitfa8646d.1-2+b4 [67.3 kB] Get: 102 http://deb.debian.org/debian trixie/main arm64 libssl-dev arm64 3.3.2-1 [3185 kB] Get: 103 http://deb.debian.org/debian trixie/main arm64 libssh2-1-dev arm64 1.11.1-1 [388 kB] Get: 104 http://deb.debian.org/debian trixie/main arm64 libzstd-dev arm64 1.5.6+dfsg-1 [330 kB] Get: 105 http://deb.debian.org/debian trixie/main arm64 libcurl4-gnutls-dev arm64 8.10.1-2 [456 kB] Get: 106 http://deb.debian.org/debian trixie/main arm64 libdeflate0 arm64 1.22-1 [42.2 kB] Get: 107 http://deb.debian.org/debian trixie/main arm64 libdeflate-dev arm64 1.22-1 [51.2 kB] Get: 108 http://deb.debian.org/debian trixie/main arm64 libexpat1-dev arm64 2.6.3-1 [142 kB] Get: 109 http://deb.debian.org/debian trixie/main arm64 libgfortran5 arm64 14.2.0-6 [361 kB] Get: 110 http://deb.debian.org/debian trixie/main arm64 libhtscodecs2 arm64 1.6.1-1 [74.6 kB] Get: 111 http://deb.debian.org/debian trixie/main arm64 libhts3t64 arm64 1.20+ds-1 [416 kB] Get: 112 http://deb.debian.org/debian trixie/main arm64 liblzma-dev arm64 5.6.2-2 [296 kB] Get: 113 http://deb.debian.org/debian trixie/main arm64 libhts-dev arm64 1.20+ds-1 [1613 kB] Get: 114 http://deb.debian.org/debian trixie/main arm64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 115 http://deb.debian.org/debian trixie/main arm64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 116 http://deb.debian.org/debian trixie/main arm64 libjs-sphinxdoc all 7.4.7-3 [158 kB] Get: 117 http://deb.debian.org/debian trixie/main arm64 liblapack3 arm64 3.12.0-3 [1757 kB] Get: 118 http://deb.debian.org/debian trixie/main arm64 libpython3.12t64 arm64 3.12.6-1 [1981 kB] Get: 119 http://deb.debian.org/debian trixie/main arm64 libpython3.12-dev arm64 3.12.6-1 [4782 kB] Get: 120 http://deb.debian.org/debian trixie/main arm64 libpython3-dev arm64 3.12.6-1 [9952 B] Get: 121 http://deb.debian.org/debian trixie/main arm64 libpython3-all-dev arm64 3.12.6-1 [1064 B] Get: 122 http://deb.debian.org/debian trixie/main arm64 python3-all arm64 3.12.6-1 [1040 B] Get: 123 http://deb.debian.org/debian trixie/main arm64 python3.12-dev arm64 3.12.6-1 [506 kB] Get: 124 http://deb.debian.org/debian trixie/main arm64 python3-dev arm64 3.12.6-1 [26.1 kB] Get: 125 http://deb.debian.org/debian trixie/main arm64 python3-all-dev arm64 3.12.6-1 [1068 B] Get: 126 http://deb.debian.org/debian trixie/main arm64 python3-colorama all 0.4.6-4 [36.2 kB] Get: 127 http://deb.debian.org/debian trixie/main arm64 python3-click all 8.1.7-2 [94.3 kB] Get: 128 http://deb.debian.org/debian trixie/main arm64 python3-humanfriendly all 10.0-6 [85.6 kB] Get: 129 http://deb.debian.org/debian trixie/main arm64 python3-coloredlogs all 15.0.1-1 [47.4 kB] Get: 130 http://deb.debian.org/debian trixie/main arm64 python3-iniconfig all 1.1.1-2 [6396 B] Get: 131 http://deb.debian.org/debian trixie/main arm64 python3-numpy arm64 1:1.26.4+ds-11 [3351 kB] Get: 132 http://deb.debian.org/debian trixie/main arm64 python3-packaging all 24.1-1 [45.8 kB] Get: 133 http://deb.debian.org/debian trixie/main arm64 python3-pluggy all 1.5.0-1 [26.9 kB] Get: 134 http://deb.debian.org/debian trixie/main arm64 python3-pytest all 8.3.3-1 [249 kB] Fetched 59.9 MB in 0s (174 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 ... 19909 files and directories currently installed.) Preparing to unpack .../liblocale-gettext-perl_1.07-7_arm64.deb ... Unpacking liblocale-gettext-perl (1.07-7) ... Selecting previously unselected package libpython3.12-minimal:arm64. Preparing to unpack .../libpython3.12-minimal_3.12.6-1_arm64.deb ... Unpacking libpython3.12-minimal:arm64 (3.12.6-1) ... Selecting previously unselected package libexpat1:arm64. 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Selecting previously unselected package readline-common. Preparing to unpack .../13-readline-common_8.2-5_all.deb ... Unpacking readline-common (8.2-5) ... Selecting previously unselected package libreadline8t64:arm64. Preparing to unpack .../14-libreadline8t64_8.2-5_arm64.deb ... Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8 to /lib/aarch64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8.2 to /lib/aarch64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8 to /lib/aarch64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8.2 to /lib/aarch64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:arm64 (8.2-5) ... Selecting previously unselected package libpython3.12-stdlib:arm64. Preparing to unpack .../15-libpython3.12-stdlib_3.12.6-1_arm64.deb ... Unpacking libpython3.12-stdlib:arm64 (3.12.6-1) ... Selecting previously unselected package python3.12. Preparing to unpack .../16-python3.12_3.12.6-1_arm64.deb ... Unpacking python3.12 (3.12.6-1) ... Selecting previously unselected package libpython3-stdlib:arm64. Preparing to unpack .../17-libpython3-stdlib_3.12.6-1_arm64.deb ... Unpacking libpython3-stdlib:arm64 (3.12.6-1) ... Setting up python3-minimal (3.12.6-1) ... Selecting previously unselected package python3. (Reading database ... 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Unpacking librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2+b4) ... Selecting previously unselected package libssh2-1t64:arm64. Preparing to unpack .../056-libssh2-1t64_1.11.1-1_arm64.deb ... Unpacking libssh2-1t64:arm64 (1.11.1-1) ... Selecting previously unselected package libcurl3t64-gnutls:arm64. Preparing to unpack .../057-libcurl3t64-gnutls_8.10.1-2_arm64.deb ... Unpacking libcurl3t64-gnutls:arm64 (8.10.1-2) ... Selecting previously unselected package libevent-2.1-7t64:arm64. Preparing to unpack .../058-libevent-2.1-7t64_2.1.12-stable-10_arm64.deb ... Unpacking libevent-2.1-7t64:arm64 (2.1.12-stable-10) ... Selecting previously unselected package libunbound8:arm64. Preparing to unpack .../059-libunbound8_1.22.0-1_arm64.deb ... Unpacking libunbound8:arm64 (1.22.0-1) ... Selecting previously unselected package libgnutls-dane0t64:arm64. Preparing to unpack .../060-libgnutls-dane0t64_3.8.6-2_arm64.deb ... Unpacking libgnutls-dane0t64:arm64 (3.8.6-2) ... 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Setting up libhtscodecs2:arm64 (1.6.1-1) ... Setting up media-types (10.1.0) ... Setting up libpipeline1:arm64 (1.5.8-1) ... Setting up libgnutls-openssl27t64:arm64 (3.8.6-2) ... Setting up libkeyutils1:arm64 (1.6.3-3) ... Setting up libicu72:arm64 (72.1-5) ... Setting up libzstd-dev:arm64 (1.5.6+dfsg-1) ... Setting up bsdextrautils (2.40.2-9) ... Setting up libmagic-mgc (1:5.45-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libtirpc-common (1.3.4+ds-1.3) ... Setting up libdebhelper-perl (13.20) ... Setting up libbrotli1:arm64 (1.1.0-2+b4) ... Setting up libmagic1t64:arm64 (1:5.45-3) ... Setting up libpsl5t64:arm64 (0.21.2-1.1) ... Setting up libnghttp2-14:arm64 (1.63.0-1) ... Setting up libdeflate0:arm64 (1.22-1) ... Setting up gettext-base (0.22.5-2) ... Setting up m4 (1.4.19-4) ... Setting up libevent-2.1-7t64:arm64 (2.1.12-stable-10) ... Setting up libcom-err2:arm64 (1.47.1-1) ... Setting up file (1:5.45-3) ... Setting up libelf1t64:arm64 (0.191-2) ... Setting up libpsl-dev:arm64 (0.21.2-1.1) ... Setting up libkrb5support0:arm64 (1.21.3-3) ... Setting up libsasl2-modules-db:arm64 (2.1.28+dfsg1-8) ... Setting up tzdata (2024a-4) ... Current default time zone: 'Etc/UTC' Local time is now: Mon Oct 21 20:14:02 UTC 2024. Universal Time is now: Mon Oct 21 20:14:02 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20220109.1) ... Setting up libblas3:arm64 (3.12.0-3) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/aarch64-linux-gnu/libblas.so.3 (libblas.so.3-aarch64-linux-gnu) in auto mode Setting up libunbound8:arm64 (1.22.0-1) ... Setting up libpkgconf3:arm64 (1.8.1-3) ... Setting up libgmpxx4ldbl:arm64 (2:6.3.0+dfsg-2+b1) ... Setting up libexpat1-dev:arm64 (2.6.3-1) ... Setting up libgnutls-dane0t64:arm64 (3.8.6-2) ... Setting up librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2+b4) ... Setting up libssl-dev:arm64 (3.3.2-1) ... 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Setting up libpython3.12-stdlib:arm64 (3.12.6-1) ... Setting up python3.12 (3.12.6-1) ... Setting up debhelper (13.20) ... Setting up libcurl4-gnutls-dev:arm64 (8.10.1-2) ... Setting up libpython3.12t64:arm64 (3.12.6-1) ... Setting up libpython3-stdlib:arm64 (3.12.6-1) ... Setting up libhts-dev:arm64 (1.20+ds-1) ... Setting up python3 (3.12.6-1) ... Setting up libpython3.12-dev:arm64 (3.12.6-1) ... Setting up python3-zipp (3.20.2-1) ... Setting up python3-autocommand (2.2.2-3) ... Setting up python3-packaging (24.1-1) ... Setting up python3-humanfriendly (10.0-6) ... Setting up python3.12-dev (3.12.6-1) ... Setting up cython3 (3.0.11+dfsg-1) ... Setting up python3-typing-extensions (4.12.2-2) ... Setting up python3-pluggy (1.5.0-1) ... Setting up python3-coloredlogs (15.0.1-1) ... Setting up python3-more-itertools (10.5.0-1) ... Setting up python3-iniconfig (1.1.1-2) ... Setting up libpython3-dev:arm64 (3.12.6-1) ... Setting up python3-jaraco.functools (4.1.0-1) ... 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Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/cyvcf2-0.31.1/ && 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 > ../cyvcf2_0.31.1-2_source.changes dpkg-buildpackage: info: source package cyvcf2 dpkg-buildpackage: info: source version 0.31.1-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Michael R. Crusoe dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 dpkg-source: info: using options from cyvcf2-0.31.1/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/ debian/rules clean dh clean --buildsystem=pybuild dh_auto_clean -O--buildsystem=pybuild pybuild --clean -i python{version} -p 3.12 I: pybuild base:311: python3.12 setup.py clean warning: cyvcf2/cyvcf2.pyx:1377:36: Assigning to 'char *' from 'const char *' discards const qualifier warning: cyvcf2/cyvcf2.pyx:2079:17: Assigning to 'bcf_hdr_t *' from 'const bcf_hdr_t *' discards const qualifier warning: cyvcf2/cyvcf2.pyx:2278:29: Assigning to 'char *' from 'const char *' discards const qualifier warning: cyvcf2/cyvcf2.pyx:2350:15: Assigning to 'bcf_hdr_t *' from 'const bcf_hdr_t *' discards const qualifier Compiling cyvcf2/cyvcf2.pyx because it changed. [1/1] Cythonizing cyvcf2/cyvcf2.pyx running clean removing '/build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build' (and everything under it) 'build/bdist.linux-aarch64' does not exist -- can't clean it 'build/scripts-3.12' does not exist -- can't clean it rm -rf .pybuild/ find . -name \*.pyc -exec rm {} \; dh_autoreconf_clean -O--buildsystem=pybuild debian/rules override_dh_clean make[1]: Entering directory '/build/reproducible-path/cyvcf2-0.31.1' dh_clean rm -f debian/debhelper-build-stamp rm -rf debian/.debhelper/ rm -f -- debian/python3-cyvcf2.substvars debian/files rm -fr -- debian/python3-cyvcf2/ 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 {} + \) \) rm -rf cyvcf2.egg-info cyvcf2/cyvcf2.c __o.vcf find . -name "*.so" -delete make[1]: Leaving directory '/build/reproducible-path/cyvcf2-0.31.1' debian/rules binary dh binary --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 I: pybuild base:311: python3.12 setup.py config warning: cyvcf2/cyvcf2.pyx:1377:36: Assigning to 'char *' from 'const char *' discards const qualifier warning: cyvcf2/cyvcf2.pyx:2079:17: Assigning to 'bcf_hdr_t *' from 'const bcf_hdr_t *' discards const qualifier warning: cyvcf2/cyvcf2.pyx:2278:29: Assigning to 'char *' from 'const char *' discards const qualifier warning: cyvcf2/cyvcf2.pyx:2350:15: Assigning to 'bcf_hdr_t *' from 'const bcf_hdr_t *' discards const qualifier Compiling cyvcf2/cyvcf2.pyx because it changed. [1/1] Cythonizing cyvcf2/cyvcf2.pyx running config dh_auto_build -O--buildsystem=pybuild pybuild --build -i python{version} -p 3.12 I: pybuild base:311: /usr/bin/python3 setup.py build running build running build_py creating /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2 copying cyvcf2/cli.py -> /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2 copying cyvcf2/__main__.py -> /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2 copying cyvcf2/__init__.py -> /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2 running egg_info creating cyvcf2.egg-info writing cyvcf2.egg-info/PKG-INFO writing dependency_links to cyvcf2.egg-info/dependency_links.txt writing entry points to cyvcf2.egg-info/entry_points.txt writing requirements to cyvcf2.egg-info/requires.txt writing top-level names to cyvcf2.egg-info/top_level.txt writing manifest file 'cyvcf2.egg-info/SOURCES.txt' dependency /usr/lib/python3/dist-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/python3/dist-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/python3/dist-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative reading manifest file 'cyvcf2.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' no previously-included directories found matching 'cyvcf2/tests' warning: no files found matching 'htslib/LICENSE' warning: no files found matching 'htslib/README' warning: no files found matching '*.[ch]' under directory 'htslib' warning: no previously-included files found matching 'htslib/*config*.h' warning: no files found matching 'htslib/configure.ac' warning: no files found matching 'htslib/m4/*.m4' warning: no files found matching 'htslib/*.in' warning: no files found matching 'htslib/configure' warning: no files found matching 'htslib/version.sh' warning: no files found matching 'htslib/Makefile' warning: no files found matching 'htslib/*.mk' warning: no previously-included files found matching 'htslib/config.mk' warning: no previously-included files found matching 'htslib/htscodecs.mk' adding license file 'LICENSE' writing manifest file 'cyvcf2.egg-info/SOURCES.txt' copying cyvcf2/cyvcf2.c -> /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2 copying cyvcf2/cyvcf2.pxd -> /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2 copying cyvcf2/cyvcf2.pyx -> /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2 copying cyvcf2/helpers.c -> /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2 copying cyvcf2/helpers.h -> /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2 copying cyvcf2/relatedness.h -> /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2 running build_ext # cyvcf2: htslib mode is EXTERNAL building 'cyvcf2.cyvcf2' extension creating build creating build/temp.linux-aarch64-cpython-312 creating build/temp.linux-aarch64-cpython-312/cyvcf2 aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cyvcf2-0.31.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icyvcf2 -I/usr/lib/python3/dist-packages/numpy/core/include -Ihtslib -Ihtslib/htslib -I/usr/include/python3.12 -c cyvcf2/cyvcf2.c -o build/temp.linux-aarch64-cpython-312/cyvcf2/cyvcf2.o -Wno-sign-compare -Wno-unused-function -Wno-strict-prototypes -Wno-unused-result -Wno-discarded-qualifiers In file included from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1929, from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, from /usr/lib/python3/dist-packages/numpy/core/include/numpy/arrayobject.h:5, from cyvcf2/cyvcf2.c:1266: /usr/lib/python3/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 17 | #warning "Using deprecated NumPy API, disable it with " \ | ^~~~~~~ aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cyvcf2-0.31.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icyvcf2 -I/usr/lib/python3/dist-packages/numpy/core/include -Ihtslib -Ihtslib/htslib -I/usr/include/python3.12 -c cyvcf2/helpers.c -o build/temp.linux-aarch64-cpython-312/cyvcf2/helpers.o -Wno-sign-compare -Wno-unused-function -Wno-strict-prototypes -Wno-unused-result -Wno-discarded-qualifiers aarch64-linux-gnu-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/cyvcf2-0.31.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-312/cyvcf2/cyvcf2.o build/temp.linux-aarch64-cpython-312/cyvcf2/helpers.o -L/usr/lib/aarch64-linux-gnu -lhts -o /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/cyvcf2.cpython-312-aarch64-linux-gnu.so debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/cyvcf2-0.31.1' echo "cp -a cyvcf2/tests {build_dir}/cyvcf2; seems to be ignored - copying tests dir manually" cp -a cyvcf2/tests {build_dir}/cyvcf2; seems to be ignored - copying tests dir manually for tdir in .pybuild/cpython3_* ; do \ cp -a cyvcf2/tests ${tdir}/build/cyvcf2 ; \ done dh_auto_test pybuild --test --test-pytest -i python{version} -p 3.12 I: pybuild base:311: cd /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build; python3.12 -m pytest ============================= test session starts ============================== platform linux -- Python 3.12.6, pytest-8.3.3, pluggy-1.5.0 rootdir: /build/reproducible-path/cyvcf2-0.31.1 configfile: setup.cfg plugins: typeguard-4.3.0 collected 112 items cyvcf2/tests/test_cli.py . [ 0%] cyvcf2/tests/test_hemi.py . [ 1%] cyvcf2/tests/test_reader.py ............................................ [ 41%] ....................................................... [ 90%] cyvcf2/tests/test_writer.py ........... [100%] ============================= 112 passed in 1.17s ============================== rm -fr -- /tmp/dh-xdg-rundir-0RU77rOc # clean up after testing find . -name out.vcf -delete make[1]: Leaving directory '/build/reproducible-path/cyvcf2-0.31.1' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild rm -f -- debian/python3-cyvcf2.substvars rm -fr -- debian/.debhelper/generated/python3-cyvcf2/ debian/python3-cyvcf2/ debian/tmp/ dh_auto_install --destdir=debian/python3-cyvcf2/ -O--buildsystem=pybuild install -m0755 -d /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2 pybuild --install -i python{version} -p 3.12 --dest-dir /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2 I: pybuild base:311: /usr/bin/python3 setup.py install --root /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2 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 egg_info writing cyvcf2.egg-info/PKG-INFO writing dependency_links to cyvcf2.egg-info/dependency_links.txt writing entry points to cyvcf2.egg-info/entry_points.txt writing requirements to cyvcf2.egg-info/requires.txt writing top-level names to cyvcf2.egg-info/top_level.txt dependency /usr/lib/python3/dist-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/python3/dist-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative dependency /usr/lib/python3/dist-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative reading manifest file 'cyvcf2.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' no previously-included directories found matching 'cyvcf2/tests' warning: no files found matching 'htslib/LICENSE' warning: no files found matching 'htslib/README' warning: no files found matching '*.[ch]' under directory 'htslib' warning: no previously-included files found matching 'htslib/*config*.h' warning: no files found matching 'htslib/configure.ac' warning: no files found matching 'htslib/m4/*.m4' warning: no files found matching 'htslib/*.in' warning: no files found matching 'htslib/configure' warning: no files found matching 'htslib/version.sh' warning: no files found matching 'htslib/Makefile' warning: no files found matching 'htslib/*.mk' warning: no previously-included files found matching 'htslib/config.mk' warning: no previously-included files found matching 'htslib/htscodecs.mk' adding license file 'LICENSE' writing manifest file 'cyvcf2.egg-info/SOURCES.txt' copying cyvcf2/cyvcf2.c -> /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2 running build_ext # cyvcf2: htslib mode is EXTERNAL running install_lib creating /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr creating /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib creating /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12 creating /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages creating /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2 copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/cyvcf2.c -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2 creating /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/__pycache__ copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/__pycache__/cli.cpython-312.pyc -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/__pycache__ copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/__pycache__/__init__.cpython-312.pyc -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/__pycache__ creating /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests creating /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests/__pycache__ copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/__pycache__/test_writer.cpython-312-pytest-8.3.3.pyc -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests/__pycache__ copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/__pycache__/test_reader.cpython-312-pytest-8.3.3.pyc -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests/__pycache__ copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/__pycache__/test_hemi.cpython-312-pytest-8.3.3.pyc -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests/__pycache__ copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/__pycache__/test_cli.cpython-312-pytest-8.3.3.pyc -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests/__pycache__ copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/__pycache__/__init__.cpython-312.pyc -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests/__pycache__ copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/test_reader.py -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/test_writer.py -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/test_hemi.py -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/test_gt_bases.vcf.gz -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/test_gt_alt_freqs.vcf -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/test_cli.py -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/test.vcf.gz.tbi -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/test.vcf.gz -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/test.snpeff.vcf -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/test.snpeff.bcf.csi -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/test.snpeff.bcf -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/test.mnp.vcf -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/test.isa.vcf -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/test.comp_het.3.vcf -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/test.bug.117.vcf -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/test-strict-gt-option-flag.vcf.gz.tbi -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/test-strict-gt-option-flag.vcf.gz -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/test-no-genotypes.vcf -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/test-multiallelic-homozygous-alt.vcf.gz.tbi -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/test-multiallelic-homozygous-alt.vcf.gz -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/test-invalid-header.vcf -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/test-hemi.vcf -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/test-haploidX.vcf -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/test-genotypes.vcf -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/test-format-string.vcf -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/test-diff.csi -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/test-alt-repr.vcf -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/seg.vcf.gz -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/o.vcf.gz -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/no-seq-names.vcf -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/no-seq-len.vcf -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/multi-contig.vcf.gz.tbi -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/multi-contig.vcf.gz.csi -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/multi-contig.vcf.gz -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/multi-contig.bcf.csi -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/multi-contig.bcf -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/issue_44.vcf -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/issue_198.vcf -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/empty.vcf -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/decomposed.vcf -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/bug.vcf.gz -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/tests/__init__.py -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/cyvcf2.cpython-312-aarch64-linux-gnu.so -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2 copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/relatedness.h -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2 copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/helpers.h -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2 copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/helpers.c -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2 copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/cyvcf2.pyx -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2 copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/cyvcf2.pxd -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2 copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/__init__.py -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2 copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/__main__.py -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2 copying /build/reproducible-path/cyvcf2-0.31.1/.pybuild/cpython3_3.12_cyvcf2/build/cyvcf2/cli.py -> /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2 byte-compiling /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests/test_reader.py to test_reader.cpython-312.pyc byte-compiling /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests/test_writer.py to test_writer.cpython-312.pyc byte-compiling /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests/test_hemi.py to test_hemi.cpython-312.pyc byte-compiling /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests/test_cli.py to test_cli.cpython-312.pyc byte-compiling /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/tests/__init__.py to __init__.cpython-312.pyc byte-compiling /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/__init__.py to __init__.cpython-312.pyc byte-compiling /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/__main__.py to __main__.cpython-312.pyc byte-compiling /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2/cli.py to cli.cpython-312.pyc running install_egg_info Copying cyvcf2.egg-info to /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/cyvcf2-0.31.1.egg-info Skipping SOURCES.txt running install_scripts Installing cyvcf2 script to /build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/bin rm -f debian/python3-cyvcf2.debhelper.log debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/cyvcf2-0.31.1' dh_numpy3 mv debian/python3-cyvcf2.substvars.new debian/python3-cyvcf2.substvars dh_install make[1]: Leaving directory '/build/reproducible-path/cyvcf2-0.31.1' dh_installdocs -O--buildsystem=pybuild install -m0755 -d debian/python3-cyvcf2/usr/share/doc/python3-cyvcf2 install -p -m0644 debian/copyright debian/python3-cyvcf2/usr/share/doc/python3-cyvcf2/copyright dh_installchangelogs -O--buildsystem=pybuild install -m0755 -d debian/python3-cyvcf2/usr/share/doc/python3-cyvcf2 install -p -m0644 debian/.debhelper/generated/python3-cyvcf2/dh_installchangelogs.dch.trimmed debian/python3-cyvcf2/usr/share/doc/python3-cyvcf2/changelog.Debian install -p -m0644 ./CHANGES.md debian/python3-cyvcf2/usr/share/doc/python3-cyvcf2/changelog rm -f debian/python3-cyvcf2.debhelper.log debian/rules override_dh_installman make[1]: Entering directory '/build/reproducible-path/cyvcf2-0.31.1' PATH=$PATH:/build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/bin \ PYTHONPATH=/build/reproducible-path/cyvcf2-0.31.1/debian/python3-cyvcf2/usr/lib/python3.12/dist-packages/ \ help2man --no-info \ --name="fast parsing of VCF and BCF including region-queries" \ --version-string=0.31.1 cyvcf2 > debian/cyvcf2.1 dh_installman install -m0755 -d debian/python3-cyvcf2/usr/share/man/man1/ install -p -m0644 ./debian/cyvcf2.1 debian/python3-cyvcf2/usr/share/man/man1/cyvcf2.1 man-recode --to-code UTF-8 --suffix .dh-new debian/python3-cyvcf2/usr/share/man/man1/cyvcf2.1 mv debian/python3-cyvcf2/usr/share/man/man1/cyvcf2.1.dh-new debian/python3-cyvcf2/usr/share/man/man1/cyvcf2.1 chmod 0644 -- debian/python3-cyvcf2/usr/share/man/man1/cyvcf2.1 make[1]: Leaving directory '/build/reproducible-path/cyvcf2-0.31.1' dh_python3 -O--buildsystem=pybuild D: dh_python3 dh_python3:180: version: 6.20240824 D: dh_python3 dh_python3:181: argv: ['/usr/bin/dh_python3', '-O--buildsystem=pybuild'] D: dh_python3 dh_python3:182: 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_python3:183: supported Python versions: 3.12 (default=3.12) D: dh_python3 debhelper:174: source=cyvcf2, binary packages=['python3-cyvcf2'] D: dh_python3 dh_python3:205: processing package python3-cyvcf2... D: dh_python3 fs:50: moving files from debian/python3-cyvcf2/usr/lib/python3.12/dist-packages to debian/python3-cyvcf2/usr/lib/python3/dist-packages/ D: dh_python3 fs:335: package python3-cyvcf2 details = {'requires.txt': {'debian/python3-cyvcf2/usr/lib/python3/dist-packages/cyvcf2-0.31.1.egg-info/requires.txt'}, 'egg-info': {'debian/python3-cyvcf2/usr/lib/python3/dist-packages/cyvcf2-0.31.1.egg-info/PKG-INFO'}, 'dist-info': set(), 'nsp.txt': set(), 'shebangs': {/usr/bin/python3}, 'public_vers': {Version('3')}, 'private_dirs': {}, 'compile': True, 'ext_vers': {Version('3.12')}, 'ext_no_version': set()} D: dh_python3 depends:103: generating dependencies for package python3-cyvcf2 D: dh_python3 pydist:173: trying to find dependency for click (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 coloredlogs (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 numpy>=1.16.0 (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-click', 'python3 (>= 3.12~)', 'python3:any', 'python3 (<< 3.13)', 'python3-coloredlogs', 'python3-numpy'}; 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/python3-cyvcf2 chmod a-x usr/share/doc/python3-cyvcf2/changelog usr/share/doc/python3-cyvcf2/changelog.Debian usr/share/man/man1/cyvcf2.1 gzip -9nf usr/share/doc/python3-cyvcf2/changelog usr/share/doc/python3-cyvcf2/changelog.Debian usr/share/man/man1/cyvcf2.1 cd '/build/reproducible-path/cyvcf2-0.31.1' dh_fixperms -O--buildsystem=pybuild find debian/python3-cyvcf2 ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/python3-cyvcf2/usr/share/doc -type f -a -true -a ! -regex 'debian/python3-cyvcf2/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python3-cyvcf2/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/python3-cyvcf2/usr/share/man -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python3-cyvcf2 -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/python3-cyvcf2/usr/bin -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x find debian/python3-cyvcf2/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_dwz -a -O--buildsystem=pybuild dwz -- debian/python3-cyvcf2/usr/lib/python3/dist-packages/cyvcf2/cyvcf2.cpython-312-aarch64-linux-gnu.so dh_strip -a -O--buildsystem=pybuild install -m0755 -d debian/.debhelper/python3-cyvcf2/dbgsym-root/usr/lib/debug/.build-id/4e objcopy --only-keep-debug --compress-debug-sections debian/python3-cyvcf2/usr/lib/python3/dist-packages/cyvcf2/cyvcf2.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cyvcf2/dbgsym-root/usr/lib/debug/.build-id/4e/af8dbcb9e471cb43679c6a7f481a41c7513fbf.debug chmod 0644 -- debian/.debhelper/python3-cyvcf2/dbgsym-root/usr/lib/debug/.build-id/4e/af8dbcb9e471cb43679c6a7f481a41c7513fbf.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cyvcf2/usr/lib/python3/dist-packages/cyvcf2/cyvcf2.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cyvcf2/dbgsym-root/usr/lib/debug/.build-id/4e/af8dbcb9e471cb43679c6a7f481a41c7513fbf.debug debian/python3-cyvcf2/usr/lib/python3/dist-packages/cyvcf2/cyvcf2.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cyvcf2/dbgsym-root/usr/share/doc ln -s python3-cyvcf2 debian/.debhelper/python3-cyvcf2/dbgsym-root/usr/share/doc/python3-cyvcf2-dbgsym install -m0755 -d debian/.debhelper/python3-cyvcf2 dh_makeshlibs -a -O--buildsystem=pybuild rm -f debian/python3-cyvcf2/DEBIAN/shlibs dh_shlibdeps -a -O--buildsystem=pybuild install -m0755 -d debian/python3-cyvcf2/DEBIAN dpkg-shlibdeps -Tdebian/python3-cyvcf2.substvars debian/python3-cyvcf2/usr/lib/python3/dist-packages/cyvcf2/cyvcf2.cpython-312-aarch64-linux-gnu.so dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged dh_installdeb -O--buildsystem=pybuild install -m0755 -d debian/python3-cyvcf2/DEBIAN printf '#!/bin/sh\nset -e\n' > debian/python3-cyvcf2/DEBIAN/postinst cat debian/python3-cyvcf2.postinst.debhelper >> debian/python3-cyvcf2/DEBIAN/postinst chmod 0755 -- debian/python3-cyvcf2/DEBIAN/postinst printf '#!/bin/sh\nset -e\n' > debian/python3-cyvcf2/DEBIAN/prerm cat debian/python3-cyvcf2.prerm.debhelper >> debian/python3-cyvcf2/DEBIAN/prerm chmod 0755 -- debian/python3-cyvcf2/DEBIAN/prerm dh_gencontrol -O--buildsystem=pybuild install -m0755 -d debian/python3-cyvcf2/DEBIAN echo misc:Depends= >> debian/python3-cyvcf2.substvars echo misc:Pre-Depends= >> debian/python3-cyvcf2.substvars install -m0755 -d debian/.debhelper/python3-cyvcf2/dbgsym-root/DEBIAN dpkg-gencontrol -ppython3-cyvcf2 -ldebian/changelog -Tdebian/python3-cyvcf2.substvars -cdebian/control -Pdebian/.debhelper/python3-cyvcf2/dbgsym-root -UPre-Depends -URecommends -USuggests -UEnhances -UProvides -UEssential -UConflicts -DPriority=optional -UHomepage -UImportant -DAuto-Built-Package=debug-symbols -UProtected -UBuilt-Using -UStatic-Built-Using -DPackage=python3-cyvcf2-dbgsym "-DDepends=python3-cyvcf2 (= \${binary:Version})" "-DDescription=debug symbols for python3-cyvcf2" -DBuild-Ids=4eaf8dbcb9e471cb43679c6a7f481a41c7513fbf -DSection=debug -UMulti-Arch -UReplaces -UBreaks chmod 0644 -- debian/.debhelper/python3-cyvcf2/dbgsym-root/DEBIAN/control dpkg-gencontrol -ppython3-cyvcf2 -ldebian/changelog -Tdebian/python3-cyvcf2.substvars -cdebian/control -Pdebian/python3-cyvcf2 chmod 0644 -- debian/python3-cyvcf2/DEBIAN/control dh_md5sums -O--buildsystem=pybuild install -m0755 -d debian/python3-cyvcf2/DEBIAN cd debian/python3-cyvcf2 >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/python3-cyvcf2/DEBIAN/md5sums install -m0755 -d debian/.debhelper/python3-cyvcf2/dbgsym-root/DEBIAN cd debian/.debhelper/python3-cyvcf2/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/.debhelper/python3-cyvcf2/dbgsym-root/DEBIAN/md5sums dh_builddeb -O--buildsystem=pybuild dpkg-deb --root-owner-group --build debian/python3-cyvcf2 .. dpkg-deb --root-owner-group --build debian/.debhelper/python3-cyvcf2/dbgsym-root .. dpkg-deb: building package 'python3-cyvcf2' in '../python3-cyvcf2_0.31.1-2_arm64.deb'. dpkg-deb: building package 'python3-cyvcf2-dbgsym' in '../python3-cyvcf2-dbgsym_0.31.1-2_arm64.deb'. dpkg-genbuildinfo --build=binary -O../cyvcf2_0.31.1-2_arm64.buildinfo dpkg-genchanges --build=binary -O../cyvcf2_0.31.1-2_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-source: info: using options from cyvcf2-0.31.1/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/959798 and its subdirectories I: Current time: Mon Oct 21 08:15:29 -12 2024 I: pbuilder-time-stamp: 1729541729