https://launchpad.net/ubuntu/+source/python-pairix/0.3.7-6/+build/24888002 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux bos02-s390x-007 5.4.0-132-generic #148-Ubuntu SMP Mon Oct 17 16:01:44 UTC 2022 s390x Buildd toolchain package versions: launchpad-buildd_223~593~ubuntu20.04.1 python3-lpbuildd_223~593~ubuntu20.04.1 sbuild_0.79.0-1ubuntu1 git-build-recipe_0.3.6 git_1:2.25.1-1ubuntu3.6 dpkg-dev_1.19.7ubuntu3.2 python3-debian_0.1.36ubuntu1. Syncing the system clock with the buildd NTP service... 1 Dec 15:09:15 ntpdate[1897]: adjust time server 10.211.37.1 offset 0.009795 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=lunar --arch=s390x PACKAGEBUILD-24888002 --image-type chroot /home/buildd/filecache-default/d69c6a9a1a76dcbacf33b6b89949d8be19eeaabf Creating target for build PACKAGEBUILD-24888002 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=lunar --arch=s390x PACKAGEBUILD-24888002 Starting target for build PACKAGEBUILD-24888002 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=lunar --arch=s390x PACKAGEBUILD-24888002 'deb http://ftpmaster.internal/ubuntu lunar main universe' 'deb http://ftpmaster.internal/ubuntu lunar-security main universe' 'deb http://ftpmaster.internal/ubuntu lunar-updates main universe' 'deb http://ftpmaster.internal/ubuntu lunar-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-24888002 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=lunar --arch=s390x PACKAGEBUILD-24888002 Updating target for build PACKAGEBUILD-24888002 Get:1 http://ftpmaster.internal/ubuntu lunar InRelease [267 kB] Get:2 http://ftpmaster.internal/ubuntu lunar-security InRelease [90.7 kB] Get:3 http://ftpmaster.internal/ubuntu lunar-updates InRelease [90.7 kB] Get:4 http://ftpmaster.internal/ubuntu lunar-proposed InRelease [118 kB] Get:5 http://ftpmaster.internal/ubuntu lunar/main s390x Packages [1318 kB] Get:6 http://ftpmaster.internal/ubuntu lunar/main Translation-en [511 kB] Get:7 http://ftpmaster.internal/ubuntu lunar/universe s390x Packages [13.9 MB] Get:8 http://ftpmaster.internal/ubuntu lunar/universe Translation-en [5843 kB] Get:9 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x Packages [272 kB] Get:10 http://ftpmaster.internal/ubuntu lunar-proposed/main Translation-en [112 kB] Get:11 http://ftpmaster.internal/ubuntu lunar-proposed/universe s390x Packages [1365 kB] Get:12 http://ftpmaster.internal/ubuntu lunar-proposed/universe Translation-en [603 kB] Fetched 24.5 MB in 53s (462 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: libperl5.34 perl-modules-5.34 Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: libperl5.36 perl-modules-5.36 The following packages will be upgraded: adduser advancecomp apt binutils binutils-common binutils-s390x-linux-gnu bsdutils debconf debianutils e2fsprogs fakeroot gpg gpg-agent gpgconf gpgv grep init init-system-helpers libapparmor1 libapt-pkg6.0 libassuan0 libaudit-common libaudit1 libbinutils libblkid1 libcap-ng0 libcom-err2 libcrypt-dev libcrypt1 libcryptsetup12 libctf-nobfd0 libctf0 libext2fs2 libfakeroot libfdisk1 libffi8 libgpg-error0 libgssapi-krb5-2 libip4tc2 libjson-c5 libk5crypto3 libkrb5-3 libkrb5support0 liblz4-1 liblzma5 libmount1 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpng16-16 libreadline8 libseccomp2 libselinux1 libsmartcols1 libsqlite3-0 libss2 libssl3 libuuid1 linux-libc-dev login logsave mount openssl passwd perl perl-base pinentry-curses readline-common tar tzdata usrmerge util-linux util-linux-extra xz-utils zlib1g 76 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. Need to get 28.2 MB of archives. After this operation, 45.7 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x bsdutils s390x 1:2.38.1-4ubuntu1 [82.1 kB] Get:2 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x debianutils s390x 5.7-0.4 [103 kB] Get:3 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x grep s390x 3.8-3 [159 kB] Get:4 http://ftpmaster.internal/ubuntu lunar/main s390x login s390x 1:4.13+dfsg1-1ubuntu1 [198 kB] Get:5 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x perl-modules-5.36 all 5.36.0-4ubuntu2 [2984 kB] Get:6 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libperl5.36 s390x 5.36.0-4ubuntu2 [4738 kB] Get:7 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x perl s390x 5.36.0-4ubuntu2 [235 kB] Get:8 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x perl-base s390x 5.36.0-4ubuntu2 [1713 kB] Get:9 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libcrypt-dev s390x 1:4.4.33-1 [113 kB] Get:10 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libcrypt1 s390x 1:4.4.33-1 [82.2 kB] Get:11 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x zlib1g s390x 1:1.2.13.dfsg-1ubuntu2 [64.6 kB] Get:12 http://ftpmaster.internal/ubuntu lunar/main s390x tar s390x 1.34+dfsg-1.1 [289 kB] Get:13 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libaudit-common all 1:3.0.7-1ubuntu2 [5018 B] Get:14 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libcap-ng0 s390x 0.8.3-1build1 [15.0 kB] Get:15 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libaudit1 s390x 1:3.0.7-1ubuntu2 [45.4 kB] Get:16 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libsmartcols1 s390x 2.38.1-4ubuntu1 [51.1 kB] Get:17 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x util-linux-extra s390x 2.38.1-4ubuntu1 [80.3 kB] Get:18 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x util-linux s390x 2.38.1-4ubuntu1 [1066 kB] Get:19 http://ftpmaster.internal/ubuntu lunar/main s390x usrmerge all 33ubuntu1 [57.0 kB] Get:20 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x init-system-helpers all 1.65.2 [38.1 kB] Get:21 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x liblz4-1 s390x 1.9.4-1 [59.9 kB] Get:22 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x liblzma5 s390x 5.2.8-0.0 [103 kB] Get:23 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libapt-pkg6.0 s390x 2.5.4 [867 kB] Get:24 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x debconf all 1.5.80 [125 kB] Get:25 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libpam0g s390x 1.5.2-5ubuntu1 [59.1 kB] Get:26 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libselinux1 s390x 3.4-1build1 [76.9 kB] Get:27 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libpam-modules-bin s390x 1.5.2-5ubuntu1 [46.8 kB] Get:28 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libpam-modules s390x 1.5.2-5ubuntu1 [278 kB] Get:29 http://ftpmaster.internal/ubuntu lunar/main s390x passwd s390x 1:4.13+dfsg1-1ubuntu1 [836 kB] Get:30 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x adduser all 3.129ubuntu1 [59.0 kB] Get:31 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libgpg-error0 s390x 1.46-1 [68.2 kB] Get:32 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x gpgv s390x 2.2.40-1ubuntu1 [134 kB] Get:33 http://ftpmaster.internal/ubuntu lunar/main s390x libseccomp2 s390x 2.5.4-1ubuntu2 [46.3 kB] Get:34 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x apt s390x 2.5.4 [1351 kB] Get:35 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x logsave s390x 1.46.6~rc1-1ubuntu1 [10.4 kB] Get:36 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libext2fs2 s390x 1.46.6~rc1-1ubuntu1 [207 kB] Get:37 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x e2fsprogs s390x 1.46.6~rc1-1ubuntu1 [580 kB] Get:38 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x mount s390x 2.38.1-4ubuntu1 [112 kB] Get:39 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x init s390x 1.65.2 [4810 B] Get:40 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libblkid1 s390x 2.38.1-4ubuntu1 [99.2 kB] Get:41 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libmount1 s390x 2.38.1-4ubuntu1 [118 kB] Get:42 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libpam-runtime all 1.5.2-5ubuntu1 [40.0 kB] Get:43 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libuuid1 s390x 2.38.1-4ubuntu1 [24.3 kB] Get:44 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libffi8 s390x 3.4.4-1 [21.0 kB] Get:45 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libcom-err2 s390x 1.46.6~rc1-1ubuntu1 [9606 B] Get:46 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libss2 s390x 1.46.6~rc1-1ubuntu1 [12.0 kB] Get:47 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libapparmor1 s390x 3.0.7-1ubuntu4 [36.7 kB] Get:48 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libjson-c5 s390x 0.16-2 [32.4 kB] Get:49 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libssl3 s390x 3.0.5-2ubuntu2 [1565 kB] Get:50 http://ftpmaster.internal/ubuntu lunar/main s390x libcryptsetup12 s390x 2:2.5.0-6ubuntu1 [209 kB] Get:51 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libfdisk1 s390x 2.38.1-4ubuntu1 [141 kB] Get:52 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libgssapi-krb5-2 s390x 1.20.1-1 [136 kB] Get:53 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libkrb5-3 s390x 1.20.1-1 [339 kB] Get:54 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libkrb5support0 s390x 1.20.1-1 [31.5 kB] Get:55 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libk5crypto3 s390x 1.20.1-1 [82.6 kB] Get:56 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libip4tc2 s390x 1.8.7-1ubuntu7 [19.2 kB] Get:57 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x readline-common all 8.2-1.2 [55.2 kB] Get:58 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libreadline8 s390x 8.2-1.2 [151 kB] Get:59 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libsqlite3-0 s390x 3.40.0-1 [642 kB] Get:60 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x openssl s390x 3.0.5-2ubuntu2 [1164 kB] Get:61 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x tzdata all 2022g-0ubuntu2 [401 kB] Get:62 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libpng16-16 s390x 1.6.39-1 [183 kB] Get:63 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x xz-utils s390x 5.2.8-0.0 [142 kB] Get:64 http://ftpmaster.internal/ubuntu lunar/main s390x advancecomp s390x 2.4-1 [173 kB] Get:65 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libctf-nobfd0 s390x 2.39-8ubuntu2 [94.4 kB] Get:66 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libctf0 s390x 2.39-8ubuntu2 [94.0 kB] Get:67 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x binutils-s390x-linux-gnu s390x 2.39-8ubuntu2 [2047 kB] Get:68 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libbinutils s390x 2.39-8ubuntu2 [419 kB] Get:69 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x binutils s390x 2.39-8ubuntu2 [3102 B] Get:70 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x binutils-common s390x 2.39-8ubuntu2 [223 kB] Get:71 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libfakeroot s390x 1.30.1-1ubuntu1 [30.0 kB] Get:72 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x fakeroot s390x 1.30.1-1ubuntu1 [59.6 kB] Get:73 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libassuan0 s390x 2.5.5-5 [35.0 kB] Get:74 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x pinentry-curses s390x 1.2.1-1ubuntu1 [34.8 kB] Get:75 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x gpg s390x 2.2.40-1ubuntu1 [508 kB] Get:76 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x gpgconf s390x 2.2.40-1ubuntu1 [94.9 kB] Get:77 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x gpg-agent s390x 2.2.40-1ubuntu1 [213 kB] Get:78 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x linux-libc-dev s390x 5.19.0-23.24 [1339 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 28.2 MB in 21s (1357 kB/s) (Reading database ... 13338 files and directories currently installed.) Preparing to unpack .../bsdutils_1%3a2.38.1-4ubuntu1_s390x.deb ... Unpacking bsdutils (1:2.38.1-4ubuntu1) over (1:2.38-4ubuntu1) ... Setting up bsdutils (1:2.38.1-4ubuntu1) ... (Reading database ... 13338 files and directories currently installed.) Preparing to unpack .../debianutils_5.7-0.4_s390x.deb ... Unpacking debianutils (5.7-0.4) over (5.7-0.3) ... Setting up debianutils (5.7-0.4) ... (Reading database ... 13338 files and directories currently installed.) Preparing to unpack .../archives/grep_3.8-3_s390x.deb ... Unpacking grep (3.8-3) over (3.7-1build1) ... Setting up grep (3.8-3) ... (Reading database ... 13338 files and directories currently installed.) Preparing to unpack .../login_1%3a4.13+dfsg1-1ubuntu1_s390x.deb ... Unpacking login (1:4.13+dfsg1-1ubuntu1) over (1:4.11.1+dfsg1-2ubuntu1) ... Setting up login (1:4.13+dfsg1-1ubuntu1) ... (Reading database ... 13346 files and directories currently installed.) Preparing to unpack .../perl_5.36.0-4ubuntu2_s390x.deb ... 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Setting up gpg (2.2.40-1ubuntu1) ... Setting up gpg-agent (2.2.40-1ubuntu1) ... Processing triggers for libc-bin (2.36-0ubuntu4) ... RUN: /usr/share/launchpad-buildd/bin/sbuild-package PACKAGEBUILD-24888002 s390x lunar-proposed -c chroot:build-PACKAGEBUILD-24888002 --arch=s390x --dist=lunar-proposed --nolog python-pairix_0.3.7-6.dsc Initiating build PACKAGEBUILD-24888002 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 5.4.0-132-generic #148-Ubuntu SMP Mon Oct 17 16:01:44 UTC 2022 s390x sbuild (Debian sbuild) 0.79.0 (05 February 2020) on bos02-s390x-007.buildd +==============================================================================+ | python-pairix 0.3.7-6 (s390x) Thu, 01 Dec 2022 15:10:40 +0000 | +==============================================================================+ Package: python-pairix Version: 0.3.7-6 Source Version: 0.3.7-6 Distribution: lunar-proposed Machine Architecture: s390x Host Architecture: s390x Build Architecture: s390x Build Type: any I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-24888002/chroot-autobuild' with '<>' I: NOTICE: Log filtering will replace 'build/python-pairix-C1rJ2I/resolver-Nc9jVK' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- python-pairix_0.3.7-6.dsc exists in .; copying to chroot I: NOTICE: Log filtering will replace 'build/python-pairix-C1rJ2I/python-pairix-0.3.7' with '<>' I: NOTICE: Log filtering will replace 'build/python-pairix-C1rJ2I' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), dh-python, python3-all-dev, python3-setuptools, zlib1g-dev, python3-pytest, build-essential, fakeroot Filtered Build-Depends: debhelper-compat (= 13), dh-python, python3-all-dev, python3-setuptools, zlib1g-dev, python3-pytest, build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<>/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [957 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [413 B] Get:5 copy:/<>/apt_archive ./ Packages [491 B] Fetched 1861 B in 0s (0 B/s) Reading package lists... Reading package lists... Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: libperl5.34 perl-modules-5.34 Use 'apt autoremove' to remove them. The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils debhelper debugedit dh-autoreconf dh-python dh-strip-nondeterminism dwz file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libdebhelper-perl libdw1 libelf1 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl libicu71 libjs-jquery libjs-sphinxdoc libjs-underscore libmagic-mgc libmagic1 libmpdec3 libpipeline1 libpython3-all-dev libpython3-dev libpython3-stdlib libpython3.10 libpython3.10-dev libpython3.10-minimal libpython3.10-stdlib libpython3.11 libpython3.11-dev libpython3.11-minimal libpython3.11-stdlib libsub-override-perl libtool libuchardet0 libxml2 m4 man-db media-types po-debconf python3 python3-all python3-all-dev python3-attr python3-dev python3-distutils python3-iniconfig python3-lib2to3 python3-minimal python3-more-itertools python3-packaging python3-pkg-resources python3-pluggy python3-py python3-pyparsing python3-pytest python3-setuptools python3-tomli python3.10 python3.10-dev python3.10-minimal python3.11 python3.11-dev python3.11-minimal zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc dh-make flit python3-build python3-installer gettext-doc libasprintf-dev libgettextpo-dev groff libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser libmail-box-perl python3-doc python3-tk python3-venv python-attr-doc subversion python-pyparsing-doc python-setuptools-doc python3.10-venv python3.10-doc binfmt-support python3.11-venv python3.11-doc Recommended packages: curl | wget | lynx libarchive-cpio-perl javascript-common libltdl-dev libmail-sendmail-perl python3-pygments The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils debhelper debugedit dh-autoreconf dh-python dh-strip-nondeterminism dwz file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libdebhelper-perl libdw1 libelf1 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl libicu71 libjs-jquery libjs-sphinxdoc libjs-underscore libmagic-mgc libmagic1 libmpdec3 libpipeline1 libpython3-all-dev libpython3-dev libpython3-stdlib libpython3.10 libpython3.10-dev libpython3.10-minimal libpython3.10-stdlib libpython3.11 libpython3.11-dev libpython3.11-minimal libpython3.11-stdlib libsub-override-perl libtool libuchardet0 libxml2 m4 man-db media-types po-debconf python3 python3-all python3-all-dev python3-attr python3-dev python3-distutils python3-iniconfig python3-lib2to3 python3-minimal python3-more-itertools python3-packaging python3-pkg-resources python3-pluggy python3-py python3-pyparsing python3-pytest python3-setuptools python3-tomli python3.10 python3.10-dev python3.10-minimal python3.11 python3.11-dev python3.11-minimal sbuild-build-depends-main-dummy zlib1g-dev 0 upgraded, 76 newly installed, 0 to remove and 0 not upgraded. Need to get 46.4 MB of archives. After this operation, 181 MB of additional disk space will be used. 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http://ftpmaster.internal/ubuntu lunar/main s390x dwz s390x 0.14+20220924-2 [108 kB] Get:42 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x gettext s390x 0.21-10 [851 kB] Get:43 http://ftpmaster.internal/ubuntu lunar/main s390x intltool-debian all 0.35.0+20060710.6 [23.2 kB] Get:44 http://ftpmaster.internal/ubuntu lunar/main s390x po-debconf all 1.0.21+nmu1 [233 kB] Get:45 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x debhelper all 13.10.1ubuntu1 [924 kB] Get:46 http://ftpmaster.internal/ubuntu lunar/main s390x python3-lib2to3 all 3.10.8-1 [77.5 kB] Get:47 http://ftpmaster.internal/ubuntu lunar/main s390x python3-distutils all 3.10.8-1 [139 kB] Get:48 http://ftpmaster.internal/ubuntu lunar/universe s390x dh-python all 5.20221122 [106 kB] Get:49 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libexpat1-dev s390x 2.5.0-1 [134 kB] Get:50 http://ftpmaster.internal/ubuntu lunar/main s390x libjs-jquery all 3.6.0+dfsg+~3.5.13-1 [321 kB] Get:51 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libjs-underscore all 1.13.4~dfsg+~1.11.4-2 [118 kB] Get:52 http://ftpmaster.internal/ubuntu lunar/main s390x libjs-sphinxdoc all 4.5.0-4 [142 kB] Get:53 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libpython3.10 s390x 3.10.8-3 [1863 kB] Get:54 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x zlib1g-dev s390x 1:1.2.13.dfsg-1ubuntu2 [894 kB] Get:55 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libpython3.10-dev s390x 3.10.8-3 [4331 kB] Get:56 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libpython3-dev s390x 3.10.6-1ubuntu1 [7126 B] Get:57 http://ftpmaster.internal/ubuntu lunar/main s390x libpython3.11-stdlib s390x 3.11.0-3 [1784 kB] Get:58 http://ftpmaster.internal/ubuntu lunar/main s390x libpython3.11 s390x 3.11.0-3 [2167 kB] Get:59 http://ftpmaster.internal/ubuntu lunar/main s390x libpython3.11-dev s390x 3.11.0-3 [5071 kB] Get:60 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x libpython3-all-dev s390x 3.10.6-1ubuntu1 [924 B] Get:61 http://ftpmaster.internal/ubuntu lunar/main s390x python3.11 s390x 3.11.0-3 [553 kB] Get:62 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x python3-all s390x 3.10.6-1ubuntu1 [914 B] Get:63 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x python3.10-dev s390x 3.10.8-3 [507 kB] Get:64 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x python3-dev s390x 3.10.6-1ubuntu1 [26.0 kB] Get:65 http://ftpmaster.internal/ubuntu lunar/main s390x python3.11-dev s390x 3.11.0-3 [613 kB] Get:66 http://ftpmaster.internal/ubuntu lunar-proposed/main s390x python3-all-dev s390x 3.10.6-1ubuntu1 [922 B] Get:67 http://ftpmaster.internal/ubuntu lunar/main s390x python3-attr all 22.1.0-1 [48.5 kB] Get:68 http://ftpmaster.internal/ubuntu lunar/universe s390x python3-iniconfig all 1.1.1-2 [6024 B] Get:69 http://ftpmaster.internal/ubuntu lunar/main s390x python3-more-itertools all 8.10.0-2 [47.9 kB] Get:70 http://ftpmaster.internal/ubuntu lunar/main s390x python3-pyparsing all 3.0.7-3 [82.1 kB] Get:71 http://ftpmaster.internal/ubuntu lunar/main s390x python3-packaging all 21.3-1.1 [30.6 kB] Get:72 http://ftpmaster.internal/ubuntu lunar/universe s390x python3-pluggy all 1.0.0+repack-1 [15.1 kB] Get:73 http://ftpmaster.internal/ubuntu lunar/universe s390x python3-py all 1.11.0-1 [73.2 kB] Get:74 http://ftpmaster.internal/ubuntu lunar/universe s390x python3-tomli all 2.0.1-1 [16.6 kB] Get:75 http://ftpmaster.internal/ubuntu lunar/universe s390x python3-pytest all 7.1.2-2ubuntu1 [219 kB] Get:76 http://ftpmaster.internal/ubuntu lunar/main s390x python3-setuptools all 59.6.0-1.2 [339 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 46.4 MB in 25s (1848 kB/s) Selecting previously unselected package libpython3.10-minimal:s390x. (Reading database ... 15299 files and directories currently installed.) Preparing to unpack .../libpython3.10-minimal_3.10.8-3_s390x.deb ... Unpacking libpython3.10-minimal:s390x (3.10.8-3) ... Selecting previously unselected package libexpat1:s390x. Preparing to unpack .../libexpat1_2.5.0-1_s390x.deb ... Unpacking libexpat1:s390x (2.5.0-1) ... Selecting previously unselected package python3.10-minimal. Preparing to unpack .../python3.10-minimal_3.10.8-3_s390x.deb ... Unpacking python3.10-minimal (3.10.8-3) ... Setting up libpython3.10-minimal:s390x (3.10.8-3) ... Setting up libexpat1:s390x (2.5.0-1) ... Setting up python3.10-minimal (3.10.8-3) ... Selecting previously unselected package python3-minimal. (Reading database ... 15602 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.10.6-1ubuntu1_s390x.deb ... Unpacking python3-minimal (3.10.6-1ubuntu1) ... Selecting previously unselected package media-types. 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Setting up python3.10-dev (3.10.8-3) ... Setting up python3-lib2to3 (3.10.8-1) ... Setting up python3-pkg-resources (59.6.0-1.2) ... Setting up python3-distutils (3.10.8-1) ... Setting up dh-python (5.20221122) ... Setting up python3-more-itertools (8.10.0-2) ... Setting up python3-iniconfig (1.1.1-2) ... Setting up python3-attr (22.1.0-1) ... Setting up libpython3-dev:s390x (3.10.6-1ubuntu1) ... Setting up python3-setuptools (59.6.0-1.2) ... Setting up python3-tomli (2.0.1-1) ... Setting up python3-py (1.11.0-1) ... Setting up python3.11-dev (3.11.0-3) ... Setting up python3-all (3.10.6-1ubuntu1) ... Setting up debhelper (13.10.1ubuntu1) ... Setting up python3-packaging (21.3-1.1) ... Setting up libpython3-all-dev:s390x (3.10.6-1ubuntu1) ... Setting up python3-dev (3.10.6-1ubuntu1) ... Setting up python3-all-dev (3.10.6-1ubuntu1) ... Setting up python3-pytest (7.1.2-2ubuntu1) ... Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... Processing triggers for systemd (251.4-1ubuntu7) ... Processing triggers for libc-bin (2.36-0ubuntu4) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (s390x included in any all) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 5.4.0-132-generic #148-Ubuntu SMP Mon Oct 17 16:01:44 UTC 2022 s390x (s390x) Toolchain package versions: binutils_2.39-8ubuntu2 dpkg-dev_1.21.9ubuntu1 g++-12_12.2.0-9ubuntu1 gcc-12_12.2.0-9ubuntu1 libc6-dev_2.36-0ubuntu4 libstdc++-12-dev_12.2.0-9ubuntu1 libstdc++6_12.2.0-9ubuntu1 linux-libc-dev_5.19.0-23.24 Package versions: adduser_3.129ubuntu1 advancecomp_2.4-1 apt_2.5.4 autoconf_2.71-2 automake_1:1.16.5-1.3 autopoint_0.21-10 autotools-dev_20220109.1 base-files_12.3ubuntu1 base-passwd_3.6.1 bash_5.2-1ubuntu2 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perl-modules-5.36_5.36.0-4ubuntu2 pinentry-curses_1.2.1-1ubuntu1 pkgbinarymangler_149 po-debconf_1.0.21+nmu1 policyrcd-script-zg2_0.1-3.1 procps_2:3.3.17-7ubuntu1 python3_3.10.6-1ubuntu1 python3-all_3.10.6-1ubuntu1 python3-all-dev_3.10.6-1ubuntu1 python3-attr_22.1.0-1 python3-dev_3.10.6-1ubuntu1 python3-distutils_3.10.8-1 python3-iniconfig_1.1.1-2 python3-lib2to3_3.10.8-1 python3-minimal_3.10.6-1ubuntu1 python3-more-itertools_8.10.0-2 python3-packaging_21.3-1.1 python3-pkg-resources_59.6.0-1.2 python3-pluggy_1.0.0+repack-1 python3-py_1.11.0-1 python3-pyparsing_3.0.7-3 python3-pytest_7.1.2-2ubuntu1 python3-setuptools_59.6.0-1.2 python3-tomli_2.0.1-1 python3.10_3.10.8-3 python3.10-dev_3.10.8-3 python3.10-minimal_3.10.8-3 python3.11_3.11.0-3 python3.11-dev_3.11.0-3 python3.11-minimal_3.11.0-3 readline-common_8.2-1.2 rpcsvc-proto_1.4.2-0ubuntu6 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.8-1ubuntu2 sensible-utils_0.0.17 systemd_251.4-1ubuntu7 systemd-sysv_251.4-1ubuntu7 sysvinit-utils_3.04-1ubuntu1 tar_1.34+dfsg-1.1 tzdata_2022g-0ubuntu2 ubuntu-keyring_2021.03.26 usrmerge_33ubuntu1 util-linux_2.38.1-4ubuntu1 util-linux-extra_2.38.1-4ubuntu1 xz-utils_5.2.8-0.0 zlib1g_1:1.2.13.dfsg-1ubuntu2 zlib1g-dev_1:1.2.13.dfsg-1ubuntu2 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: python-pairix Binary: python3-pairix, python-pairix-examples Architecture: any all Version: 0.3.7-6 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://github.com/4dn-dcic/pairix Standards-Version: 4.6.1 Vcs-Browser: https://salsa.debian.org/med-team/python-pairix Vcs-Git: https://salsa.debian.org/med-team/python-pairix.git Testsuite: autopkgtest Testsuite-Triggers: python3-pytest Build-Depends: debhelper-compat (= 13), dh-python, python3-all-dev, python3-setuptools, zlib1g-dev, python3-pytest Package-List: python-pairix-examples deb science optional arch=all python3-pairix deb python optional arch=any Checksums-Sha1: eb863fe1eeedbfdf4fc98a93b264c158c6870694 175413839 python-pairix_0.3.7.orig.tar.gz 72974c50b5214c2d7357001fb379462361b811cc 4828 python-pairix_0.3.7-6.debian.tar.xz Checksums-Sha256: c0de5fb5baea2bf90a6179f9c81c911e2fb951b716b38574f73ac5b23ac84969 175413839 python-pairix_0.3.7.orig.tar.gz 5680a5d9f1396b5a57d3047c72b15cad88df104de5b34d28fe99018cd7cc5d34 4828 python-pairix_0.3.7-6.debian.tar.xz Files: a1f9b3c7b13d904dfe736cf5e66c2385 175413839 python-pairix_0.3.7.orig.tar.gz e7444b9b8a43853393517927bc019e18 4828 python-pairix_0.3.7-6.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmOHya8RHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtHP2w//WFUcOuDbog9ArbR+i0JWNo7mX5tX+HJ+ 5p+fG5dIeI3gzEwEdiMD4rtlmoi1kDVlBO8ZNtqhozvlzUVabPyGZLefS4wP51z2 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python-pairix_0.3.7.orig.tar.gz dpkg-source: info: unpacking python-pairix_0.3.7-6.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying python3.10 Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=parallel=4 HOME=/sbuild-nonexistent LANG=C.UTF-8 LC_ALL=C.UTF-8 LOGNAME=buildd PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=build-PACKAGEBUILD-24888002 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-24888002 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-24888002 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- Command: dpkg-buildpackage -us -uc -mLaunchpad Build Daemon -B -rfakeroot dpkg-buildpackage: info: source package python-pairix dpkg-buildpackage: info: source version 0.3.7-6 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build . dpkg-buildpackage: info: host architecture s390x debian/rules clean dh clean --with python3 --buildsystem=pybuild dh_auto_clean -O--buildsystem=pybuild I: pybuild base:240: python3.11 setup.py clean /usr/lib/python3/dist-packages/setuptools/dist.py:723: UserWarning: Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead warnings.warn( running clean removing '/<>/.pybuild/cpython3_3.11_pairix/build' (and everything under it) 'build/bdist.linux-s390x' does not exist -- can't clean it 'build/scripts-3.11' does not exist -- can't clean it I: pybuild base:240: python3.10 setup.py clean /usr/lib/python3/dist-packages/setuptools/dist.py:723: UserWarning: Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead warnings.warn( running clean removing '/<>/.pybuild/cpython3_3.10_pairix/build' (and everything under it) 'build/bdist.linux-s390x' does not exist -- can't clean it 'build/scripts-3.10' does not exist -- can't clean it dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary-arch dh binary-arch --with python3 --buildsystem=pybuild dh_update_autotools_config -a -O--buildsystem=pybuild dh_autoreconf -a -O--buildsystem=pybuild dh_auto_configure -a -O--buildsystem=pybuild I: pybuild base:240: python3.11 setup.py config /usr/lib/python3/dist-packages/setuptools/dist.py:723: UserWarning: Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead warnings.warn( running config I: pybuild base:240: python3.10 setup.py config /usr/lib/python3/dist-packages/setuptools/dist.py:723: UserWarning: Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead warnings.warn( running config dh_auto_build -a -O--buildsystem=pybuild I: pybuild base:240: /usr/bin/python3.11 setup.py build /usr/lib/python3/dist-packages/setuptools/dist.py:723: UserWarning: Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead warnings.warn( running build running build_ext building 'pypairix' extension creating build creating build/temp.linux-s390x-3.11 creating build/temp.linux-s390x-3.11/src s390x-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_FILE_OFFSET_BITS=64 -D_USE_KNETFILE=1 -Isrc -I/usr/include/python3.11 -c src/bgzf.c -o build/temp.linux-s390x-3.11/src/bgzf.o src/bgzf.c: In function ‘bgzf_block_length’: src/bgzf.c:331:34: warning: unused variable ‘remaining’ [-Wunused-variable] 331 | int count, block_length, remaining; | ^~~~~~~~~ src/bgzf.c:330:47: warning: unused variable ‘compressed_block’ [-Wunused-variable] 330 | uint8_t header[BLOCK_HEADER_LENGTH], *compressed_block; | ^~~~~~~~~~~~~~~~ src/bgzf.c: In function ‘bgzf_flush’: src/bgzf.c:419:75: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 419 | if (fwrite(fp->compressed_block, 1, block_length, fp->fp) != block_length) { | ^~ src/bgzf.c: In function ‘bgzf_close’: src/bgzf.c:456:18: warning: variable ‘count’ set but not used [-Wunused-but-set-variable] 456 | int ret, count, block_length; | ^~~~~ s390x-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_FILE_OFFSET_BITS=64 -D_USE_KNETFILE=1 -Isrc -I/usr/include/python3.11 -c src/bgzip.c -o build/temp.linux-s390x-3.11/src/bgzip.o src/bgzip.c: In function ‘main’: src/bgzip.c:198:25: warning: ignoring return value of ‘write’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 198 | write(f_dst, buffer, c); | ^~~~~~~~~~~~~~~~~~~~~~~ src/bgzip.c: In function ‘write_open’: src/bgzip.c:57:25: warning: ignoring return value of ‘scanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 57 | scanf("%c", &c); | ^~~~~~~~~~~~~~~ s390x-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_FILE_OFFSET_BITS=64 -D_USE_KNETFILE=1 -Isrc -I/usr/include/python3.11 -c src/index.c -o build/temp.linux-s390x-3.11/src/index.o src/index.c: In function ‘merge_chunks’: src/index.c:354:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 354 | for (l = 1; l < p->n; ++l) { | ^ src/index.c: In function ‘ti_index_core’: src/index.c:393:42: warning: overflow in conversion from ‘uint32_t’ {aka ‘unsigned int’} to ‘int32_t’ {aka ‘int’} changes value from ‘last_bin = 4294967295’ to ‘-1’ [-Woverflow] 393 | save_bin = save_tid = last_tid = last_bin = 0xffffffffu; | ^~~~~~~~ src/index.c:399:28: warning: comparison of integer expressions of different signedness: ‘uint64_t’ {aka ‘long unsigned int’} and ‘int32_t’ {aka ‘int’} [-Wsign-compare] 399 | if (lineno <= idx->conf.line_skip || str->s[0] == idx->conf.meta_char) { | ^~ src/index.c:423:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 423 | if (intv.bin != last_bin) { // then possibly write the binning index | ^~ src/index.c:431:35: warning: comparison of integer expressions of different signedness: ‘int64_t’ {aka ‘long int’} and ‘uint64_t’ {aka ‘long unsigned int’} [-Wsign-compare] 431 | if (bgzf_tell(fp) <= last_off) { | ^~ src/index.c: In function ‘ti_index_save’: src/index.c:510:31: warning: comparison of integer expressions of different signedness: ‘int32_t’ {aka ‘int’} and ‘khint_t’ {aka ‘unsigned int’} [-Wsign-compare] 510 | for (i = 0; i < kh_size(idx->tname); ++i) | ^ src/index.c:514:31: warning: comparison of integer expressions of different signedness: ‘int32_t’ {aka ‘int’} and ‘khint_t’ {aka ‘unsigned int’} [-Wsign-compare] 514 | for (i = 0; i < kh_size(idx->tname); ++i) | ^ src/index.c:534:60: warning: comparison of integer expressions of different signedness: ‘int’ and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 534 | for (x = 0; (int)x < p->n; ++x) { | ^ src/index.c:539:60: warning: comparison of integer expressions of different signedness: ‘int’ and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 539 | for (x = 0; (int)x < p->n; ++x) { | ^ src/index.c: In function ‘ti_index_load_core’: src/index.c:659:47: warning: comparison of integer expressions of different signedness: ‘int’ and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 659 | for (x = 0; x < p->n; ++x) { | ^ src/index.c: In function ‘ti_parse_region2d’: src/index.c:864:69: warning: passing argument 1 of ‘ti_get_region_split_character’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 864 | char region_split_character = ti_get_region_split_character(idx); | ^~~ In file included from src/index.c:11: src/pairix.h:218:56: note: expected ‘ti_index_t *’ {aka ‘struct __ti_index_t *’} but argument is of type ‘const ti_index_t *’ {aka ‘const struct __ti_index_t *’} 218 | char ti_get_region_split_character(ti_index_t *idx); | ~~~~~~~~~~~~^~~ src/index.c:878:30: warning: passing argument 1 of ‘ti_get_sc2’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 878 | int dim = ti_get_sc2(idx)+1==0?1:2; | ^~~ src/pairix.h:209:36: note: expected ‘ti_index_t *’ {aka ‘struct __ti_index_t *’} but argument is of type ‘const ti_index_t *’ {aka ‘const struct __ti_index_t *’} 209 | int ti_get_sc2(ti_index_t *idx); | ~~~~~~~~~~~~^~~ src/index.c: In function ‘reg2bins’: src/index.c:974:56: warning: comparison of integer expressions of different signedness: ‘int’ and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 974 | for (k = 1 + (beg>>TAD_LIDX_SHIFT_PL12); k <= 1 + (end>>TAD_LIDX_SHIFT_PL12); ++k) list[i++] = k; | ^~ src/index.c:975:55: warning: comparison of integer expressions of different signedness: ‘int’ and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 975 | for (k = 9 + (beg>>TAD_LIDX_SHIFT_PL9); k <= 9 + (end>>TAD_LIDX_SHIFT_PL9); ++k) list[i++] = k; | ^~ src/index.c:976:55: warning: comparison of integer expressions of different signedness: ‘int’ and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 976 | for (k = 73 + (beg>>TAD_LIDX_SHIFT_PL6); k <= 73 + (end>>TAD_LIDX_SHIFT_PL6); ++k) list[i++] = k; | ^~ src/index.c:977:55: warning: comparison of integer expressions of different signedness: ‘int’ and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 977 | for (k = 585 + (beg>>TAD_LIDX_SHIFT_PL3); k <= 585 + (end>>TAD_LIDX_SHIFT_PL3); ++k) list[i++] = k; | ^~ src/index.c:978:51: warning: comparison of integer expressions of different signedness: ‘int’ and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 978 | for (k = 4681 + (beg>>TAD_LIDX_SHIFT); k <= 4681 + (end>>TAD_LIDX_SHIFT); ++k) list[i++] = k; | ^~ src/index.c: In function ‘ti_iter_query’: src/index.c:1038:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 1038 | for (j = 0; j < p->n; ++j) | ^ src/index.c: In function ‘ti_querys_2d_general’: src/index.c:1219:31: warning: initialization of ‘char **’ from incompatible pointer type ‘const char **’ [-Wincompatible-pointer-types] 1219 | char **chrpairlist = ti_seqname(t->idx, &n_seqpair_list); | ^~~~~~~~~~ src/index.c:1236:59: warning: passing argument 2 of ‘ti_querys_2d_multi’ from incompatible pointer type [-Wincompatible-pointer-types] 1236 | sequential_iter_t *siter = ti_querys_2d_multi(t, regions, n_sub_list); | ^~~~~~~ | | | char ** src/pairix.h:131:73: note: expected ‘const char **’ but argument is of type ‘char **’ 131 | sequential_iter_t *ti_querys_2d_multi(pairix_t *t, const char **regs, int nRegs); | ~~~~~~~~~~~~~^~~~ src/index.c:1242:30: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 1242 | *sp=0; char *chr1 = reg; | ^~~ src/index.c:1246:31: warning: initialization of ‘char **’ from incompatible pointer type ‘const char **’ [-Wincompatible-pointer-types] 1246 | char **chrpairlist = ti_seqname(t->idx, &n_seqpair_list); | ^~~~~~~~~~ src/index.c:1263:59: warning: passing argument 2 of ‘ti_querys_2d_multi’ from incompatible pointer type [-Wincompatible-pointer-types] 1263 | sequential_iter_t *siter = ti_querys_2d_multi(t, regions, n_sub_list); | ^~~~~~~ | | | char ** src/pairix.h:131:73: note: expected ‘const char **’ but argument is of type ‘char **’ 131 | sequential_iter_t *ti_querys_2d_multi(pairix_t *t, const char **regs, int nRegs); | ~~~~~~~~~~~~~^~~~ src/index.c: In function ‘ti_query_2d_tid’: src/index.c:1417:31: warning: returning ‘ti_iter_t’ {aka ‘struct __ti_iter_t *’} from a function with return type ‘int’ makes integer from pointer without a cast [-Wint-conversion] 1417 | if (name == 0) return ti_iter_first(); | ^~~~~~~~~~~~~~~ src/index.c: In function ‘create_merged_iter’: src/index.c:1469:10: warning: suggest parentheses around assignment used as truth value [-Wparentheses] 1469 | if( miter->iu = calloc(n,sizeof(iter_unit*))) { | ^~~~~ src/index.c: In function ‘merged_ti_read’: src/index.c:1537:19: warning: assignment discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 1537 | miu[i]->s = ti_iter_read(miu[i]->t->fp, miu[i]->iter, miu[i]->len, seqonly); | ^ src/index.c:1543:17: warning: assignment discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 1543 | miu[0]->s = ti_iter_read(miu[0]->t->fp, miu[0]->iter, miu[0]->len, seqonly); // get next entry for the flushed iter | ^ src/index.c: In function ‘sequential_ti_read’: src/index.c:1573:15: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 1573 | char *s = ti_iter_read(siter->t->fp,siter->iter[siter->curr], len, 0); | ^~~~~~~~~~~~ src/index.c:1576:9: warning: assignment discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 1576 | s = ti_iter_read(siter->t->fp,siter->iter[siter->curr], len, 0); | ^ src/index.c: In function ‘get_unique_merged_seqname’: src/index.c:1643:22: warning: assignment to ‘char **’ from incompatible pointer type ‘const char **’ [-Wincompatible-pointer-types] 1643 | seqnames = ti_seqname(tbs[i]->idx,&len); | ^ src/index.c: In function ‘flip_region’: src/index.c:1744:19: warning: variable ‘split_pos’ set but not used [-Wunused-but-set-variable] 1744 | int l, i, l2, split_pos; | ^~~~~~~~~ src/index.c: In function ‘querys_2D_wrapper’: src/index.c:1911:34: warning: passing argument 1 of ‘flip_region’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 1911 | char *reg2 = flip_region(reg, get_region_split_character(tb)); | ^~~ src/index.c:1743:27: note: expected ‘char *’ but argument is of type ‘const char *’ 1743 | char *flip_region ( char* s, char region_split_character) { | ~~~~~~^ src/index.c: In function ‘check_triangle’: src/index.c:1971:23: warning: initialization of ‘char **’ from incompatible pointer type ‘const char **’ [-Wincompatible-pointer-types] 1971 | char **seqnames = ti_seqname(idx,&len); | ^~~~~~~~~~ src/index.c:1977:64: warning: passing argument 1 of ‘free’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 1977 | if(ti_get_tid(idx, reg2)!=-1) { free(seqnames); free(reg2); return(0); } // not a triangle | ^~~~ In file included from src/khash.h:94, from src/index.c:4: /usr/include/stdlib.h:568:25: note: expected ‘void *’ but argument is of type ‘const char *’ 568 | extern void free (void *__ptr) __THROW; | ~~~~~~^~~~~ src/index.c:1978:14: warning: passing argument 1 of ‘free’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 1978 | free(reg2); | ^~~~ /usr/include/stdlib.h:568:25: note: expected ‘void *’ but argument is of type ‘const char *’ 568 | extern void free (void *__ptr) __THROW; | ~~~~~~^~~~~ In file included from /usr/include/string.h:535, from src/khash.h:95: In function ‘memcpy’, inlined from ‘ti_index_save’ at src/index.c:500:3: /usr/include/s390x-linux-gnu/bits/string_fortified.h:29:10: warning: ‘__builtin___memcpy_chk’ forming offset [24, 39] is out of the bounds [0, 24] of object ‘x’ with type ‘uint32_t[6]’ {aka ‘unsigned int[6]’} [-Warray-bounds] 29 | return __builtin___memcpy_chk (__dest, __src, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 30 | __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ src/index.c: In function ‘ti_index_save’: src/index.c:499:26: note: ‘x’ declared here 499 | uint32_t x[6]; | ^ s390x-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_FILE_OFFSET_BITS=64 -D_USE_KNETFILE=1 -Isrc -I/usr/include/python3.11 -c src/knetfile.c -o build/temp.linux-s390x-3.11/src/knetfile.o In file included from src/knetfile.c:49: src/knetfile.c: In function ‘kftp_send_cmd’: src/knetfile.h:9:32: warning: ignoring return value of ‘write’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 9 | #define netwrite(fd, ptr, len) write(fd, ptr, len) | ^~~~~~~~~~~~~~~~~~~ src/knetfile.c:239:9: note: in expansion of macro ‘netwrite’ 239 | netwrite(ftp->ctrl_fd, cmd, strlen(cmd)); | ^~~~~~~~ src/knetfile.c: In function ‘khttp_connect_file’: src/knetfile.h:9:32: warning: ignoring return value of ‘write’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 9 | #define netwrite(fd, ptr, len) write(fd, ptr, len) | ^~~~~~~~~~~~~~~~~~~ src/knetfile.c:418:9: note: in expansion of macro ‘netwrite’ 418 | netwrite(fp->fd, buf, l); | ^~~~~~~~ s390x-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_FILE_OFFSET_BITS=64 -D_USE_KNETFILE=1 -Isrc -I/usr/include/python3.11 -c src/kstring.c -o build/temp.linux-s390x-3.11/src/kstring.o src/kstring.c: In function ‘ksprintf’: src/kstring.c:15:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 15 | if (l + 1 > s->m - s->l) { | ^ s390x-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_FILE_OFFSET_BITS=64 -D_USE_KNETFILE=1 -Isrc -I/usr/include/python3.11 -c src/pairixmodule.c -o build/temp.linux-s390x-3.11/src/pairixmodule.o src/pairixmodule.c: In function ‘pairix_new’: src/pairixmodule.c:367:9: warning: unused variable ‘i’ [-Wunused-variable] 367 | int i; | ^ src/pairixmodule.c: In function ‘pairix_querys_2D’: src/pairixmodule.c:559:28: warning: passing argument 1 of ‘flip_region’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 559 | reg2 = flip_region(reg, get_region_split_character(self->tb)); | ^~~ In file included from src/pairixmodule.c:34: src/pairix.h:223:33: note: expected ‘char *’ but argument is of type ‘const char *’ 223 | char* flip_region(char *s, char region_split_character); | ~~~~~~^ src/pairixmodule.c: In function ‘pairix_get_blocknames’: src/pairixmodule.c:603:23: warning: initialization of ‘char **’ from incompatible pointer type ‘const char **’ [-Wincompatible-pointer-types] 603 | char **blocknames = ti_seqname(self->tb->idx, &n); | ^~~~~~~~~~ src/pairixmodule.c: In function ‘pairix_get_header’: src/pairixmodule.c:693:15: warning: assignment discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 693 | while ((s = sequential_ti_read(siter, &len)) != 0) { | ^ src/pairixmodule.c:704:15: warning: assignment discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 704 | while ((s = sequential_ti_read(siter, &len)) != 0) { | ^ src/pairixmodule.c: In function ‘pairix_get_chromsize’: src/pairixmodule.c:726:15: warning: assignment discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 726 | while ((s = sequential_ti_read(siter, &len)) != 0) { | ^ src/pairixmodule.c:738:15: warning: assignment discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 738 | while ((s = sequential_ti_read(siter, &len)) != 0) { | ^ s390x-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-s390x-3.11/src/bgzf.o build/temp.linux-s390x-3.11/src/bgzip.o build/temp.linux-s390x-3.11/src/index.o build/temp.linux-s390x-3.11/src/knetfile.o build/temp.linux-s390x-3.11/src/kstring.o build/temp.linux-s390x-3.11/src/pairixmodule.o -lz -o /<>/.pybuild/cpython3_3.11_pairix/build/pypairix.cpython-311-s390x-linux-gnu.so I: pybuild base:240: /usr/bin/python3 setup.py build /usr/lib/python3/dist-packages/setuptools/dist.py:723: UserWarning: Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead warnings.warn( running build running build_ext building 'pypairix' extension creating build/temp.linux-s390x-3.10 creating build/temp.linux-s390x-3.10/src s390x-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_FILE_OFFSET_BITS=64 -D_USE_KNETFILE=1 -Isrc -I/usr/include/python3.10 -c src/bgzf.c -o build/temp.linux-s390x-3.10/src/bgzf.o src/bgzf.c: In function ‘bgzf_block_length’: src/bgzf.c:331:34: warning: unused variable ‘remaining’ [-Wunused-variable] 331 | int count, block_length, remaining; | ^~~~~~~~~ src/bgzf.c:330:47: warning: unused variable ‘compressed_block’ [-Wunused-variable] 330 | uint8_t header[BLOCK_HEADER_LENGTH], *compressed_block; | ^~~~~~~~~~~~~~~~ src/bgzf.c: In function ‘bgzf_flush’: src/bgzf.c:419:75: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 419 | if (fwrite(fp->compressed_block, 1, block_length, fp->fp) != block_length) { | ^~ src/bgzf.c: In function ‘bgzf_close’: src/bgzf.c:456:18: warning: variable ‘count’ set but not used [-Wunused-but-set-variable] 456 | int ret, count, block_length; | ^~~~~ s390x-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_FILE_OFFSET_BITS=64 -D_USE_KNETFILE=1 -Isrc -I/usr/include/python3.10 -c src/bgzip.c -o build/temp.linux-s390x-3.10/src/bgzip.o s390x-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_FILE_OFFSET_BITS=64 -D_USE_KNETFILE=1 -Isrc -I/usr/include/python3.10 -c src/index.c -o build/temp.linux-s390x-3.10/src/index.o src/index.c: In function ‘merge_chunks’: src/index.c:354:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 354 | for (l = 1; l < p->n; ++l) { | ^ src/index.c: In function ‘ti_index_core’: src/index.c:393:42: warning: overflow in conversion from ‘uint32_t’ {aka ‘unsigned int’} to ‘int32_t’ {aka ‘int’} changes value from ‘last_bin = 4294967295’ to ‘-1’ [-Woverflow] 393 | save_bin = save_tid = last_tid = last_bin = 0xffffffffu; | ^~~~~~~~ src/index.c:399:28: warning: comparison of integer expressions of different signedness: ‘uint64_t’ {aka ‘long unsigned int’} and ‘int32_t’ {aka ‘int’} [-Wsign-compare] 399 | if (lineno <= idx->conf.line_skip || str->s[0] == idx->conf.meta_char) { | ^~ src/index.c:423:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 423 | if (intv.bin != last_bin) { // then possibly write the binning index | ^~ src/index.c:431:35: warning: comparison of integer expressions of different signedness: ‘int64_t’ {aka ‘long int’} and ‘uint64_t’ {aka ‘long unsigned int’} [-Wsign-compare] 431 | if (bgzf_tell(fp) <= last_off) { | ^~ src/index.c: In function ‘ti_index_save’: src/index.c:510:31: warning: comparison of integer expressions of different signedness: ‘int32_t’ {aka ‘int’} and ‘khint_t’ {aka ‘unsigned int’} [-Wsign-compare] 510 | for (i = 0; i < kh_size(idx->tname); ++i) | ^ src/index.c:514:31: warning: comparison of integer expressions of different signedness: ‘int32_t’ {aka ‘int’} and ‘khint_t’ {aka ‘unsigned int’} [-Wsign-compare] 514 | for (i = 0; i < kh_size(idx->tname); ++i) | ^ src/index.c:534:60: warning: comparison of integer expressions of different signedness: ‘int’ and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 534 | for (x = 0; (int)x < p->n; ++x) { | ^ src/index.c:539:60: warning: comparison of integer expressions of different signedness: ‘int’ and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 539 | for (x = 0; (int)x < p->n; ++x) { | ^ src/index.c: In function ‘ti_index_load_core’: src/index.c:659:47: warning: comparison of integer expressions of different signedness: ‘int’ and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 659 | for (x = 0; x < p->n; ++x) { | ^ src/index.c: In function ‘ti_parse_region2d’: src/index.c:864:69: warning: passing argument 1 of ‘ti_get_region_split_character’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 864 | char region_split_character = ti_get_region_split_character(idx); | ^~~ In file included from src/index.c:11: src/pairix.h:218:56: note: expected ‘ti_index_t *’ {aka ‘struct __ti_index_t *’} but argument is of type ‘const ti_index_t *’ {aka ‘const struct __ti_index_t *’} 218 | char ti_get_region_split_character(ti_index_t *idx); | ~~~~~~~~~~~~^~~ src/index.c:878:30: warning: passing argument 1 of ‘ti_get_sc2’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 878 | int dim = ti_get_sc2(idx)+1==0?1:2; | ^~~ src/pairix.h:209:36: note: expected ‘ti_index_t *’ {aka ‘struct __ti_index_t *’} but argument is of type ‘const ti_index_t *’ {aka ‘const struct __ti_index_t *’} 209 | int ti_get_sc2(ti_index_t *idx); | ~~~~~~~~~~~~^~~ src/index.c: In function ‘reg2bins’: src/index.c:974:56: warning: comparison of integer expressions of different signedness: ‘int’ and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 974 | for (k = 1 + (beg>>TAD_LIDX_SHIFT_PL12); k <= 1 + (end>>TAD_LIDX_SHIFT_PL12); ++k) list[i++] = k; | ^~ src/index.c:975:55: warning: comparison of integer expressions of different signedness: ‘int’ and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 975 | for (k = 9 + (beg>>TAD_LIDX_SHIFT_PL9); k <= 9 + (end>>TAD_LIDX_SHIFT_PL9); ++k) list[i++] = k; | ^~ src/index.c:976:55: warning: comparison of integer expressions of different signedness: ‘int’ and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 976 | for (k = 73 + (beg>>TAD_LIDX_SHIFT_PL6); k <= 73 + (end>>TAD_LIDX_SHIFT_PL6); ++k) list[i++] = k; | ^~ src/index.c:977:55: warning: comparison of integer expressions of different signedness: ‘int’ and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 977 | for (k = 585 + (beg>>TAD_LIDX_SHIFT_PL3); k <= 585 + (end>>TAD_LIDX_SHIFT_PL3); ++k) list[i++] = k; | ^~ src/index.c:978:51: warning: comparison of integer expressions of different signedness: ‘int’ and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 978 | for (k = 4681 + (beg>>TAD_LIDX_SHIFT); k <= 4681 + (end>>TAD_LIDX_SHIFT); ++k) list[i++] = k; | ^~ src/index.c: In function ‘ti_iter_query’: src/index.c:1038:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 1038 | for (j = 0; j < p->n; ++j) | ^ src/index.c: In function ‘ti_querys_2d_general’: src/index.c:1219:31: warning: initialization of ‘char **’ from incompatible pointer type ‘const char **’ [-Wincompatible-pointer-types] 1219 | char **chrpairlist = ti_seqname(t->idx, &n_seqpair_list); | ^~~~~~~~~~ src/index.c:1236:59: warning: passing argument 2 of ‘ti_querys_2d_multi’ from incompatible pointer type [-Wincompatible-pointer-types] 1236 | sequential_iter_t *siter = ti_querys_2d_multi(t, regions, n_sub_list); | ^~~~~~~ | | | char ** src/pairix.h:131:73: note: expected ‘const char **’ but argument is of type ‘char **’ 131 | sequential_iter_t *ti_querys_2d_multi(pairix_t *t, const char **regs, int nRegs); | ~~~~~~~~~~~~~^~~~ src/index.c:1242:30: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 1242 | *sp=0; char *chr1 = reg; | ^~~ src/index.c:1246:31: warning: initialization of ‘char **’ from incompatible pointer type ‘const char **’ [-Wincompatible-pointer-types] 1246 | char **chrpairlist = ti_seqname(t->idx, &n_seqpair_list); | ^~~~~~~~~~ src/index.c:1263:59: warning: passing argument 2 of ‘ti_querys_2d_multi’ from incompatible pointer type [-Wincompatible-pointer-types] 1263 | sequential_iter_t *siter = ti_querys_2d_multi(t, regions, n_sub_list); | ^~~~~~~ | | | char ** src/pairix.h:131:73: note: expected ‘const char **’ but argument is of type ‘char **’ 131 | sequential_iter_t *ti_querys_2d_multi(pairix_t *t, const char **regs, int nRegs); | ~~~~~~~~~~~~~^~~~ src/index.c: In function ‘ti_query_2d_tid’: src/index.c:1417:31: warning: returning ‘ti_iter_t’ {aka ‘struct __ti_iter_t *’} from a function with return type ‘int’ makes integer from pointer without a cast [-Wint-conversion] 1417 | if (name == 0) return ti_iter_first(); | ^~~~~~~~~~~~~~~ src/index.c: In function ‘create_merged_iter’: src/index.c:1469:10: warning: suggest parentheses around assignment used as truth value [-Wparentheses] 1469 | if( miter->iu = calloc(n,sizeof(iter_unit*))) { | ^~~~~ src/index.c: In function ‘merged_ti_read’: src/index.c:1537:19: warning: assignment discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 1537 | miu[i]->s = ti_iter_read(miu[i]->t->fp, miu[i]->iter, miu[i]->len, seqonly); | ^ src/index.c:1543:17: warning: assignment discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 1543 | miu[0]->s = ti_iter_read(miu[0]->t->fp, miu[0]->iter, miu[0]->len, seqonly); // get next entry for the flushed iter | ^ src/index.c: In function ‘sequential_ti_read’: src/index.c:1573:15: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 1573 | char *s = ti_iter_read(siter->t->fp,siter->iter[siter->curr], len, 0); | ^~~~~~~~~~~~ src/index.c:1576:9: warning: assignment discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 1576 | s = ti_iter_read(siter->t->fp,siter->iter[siter->curr], len, 0); | ^ src/index.c: In function ‘get_unique_merged_seqname’: src/index.c:1643:22: warning: assignment to ‘char **’ from incompatible pointer type ‘const char **’ [-Wincompatible-pointer-types] 1643 | seqnames = ti_seqname(tbs[i]->idx,&len); | ^ src/index.c: In function ‘flip_region’: src/index.c:1744:19: warning: variable ‘split_pos’ set but not used [-Wunused-but-set-variable] 1744 | int l, i, l2, split_pos; | ^~~~~~~~~ src/index.c: In function ‘querys_2D_wrapper’: src/index.c:1911:34: warning: passing argument 1 of ‘flip_region’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 1911 | char *reg2 = flip_region(reg, get_region_split_character(tb)); | ^~~ src/index.c:1743:27: note: expected ‘char *’ but argument is of type ‘const char *’ 1743 | char *flip_region ( char* s, char region_split_character) { | ~~~~~~^ src/index.c: In function ‘check_triangle’: src/index.c:1971:23: warning: initialization of ‘char **’ from incompatible pointer type ‘const char **’ [-Wincompatible-pointer-types] 1971 | char **seqnames = ti_seqname(idx,&len); | ^~~~~~~~~~ src/index.c:1977:64: warning: passing argument 1 of ‘free’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 1977 | if(ti_get_tid(idx, reg2)!=-1) { free(seqnames); free(reg2); return(0); } // not a triangle | ^~~~ In file included from src/khash.h:94, from src/index.c:4: /usr/include/stdlib.h:568:25: note: expected ‘void *’ but argument is of type ‘const char *’ 568 | extern void free (void *__ptr) __THROW; | ~~~~~~^~~~~ src/index.c:1978:14: warning: passing argument 1 of ‘free’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 1978 | free(reg2); | ^~~~ /usr/include/stdlib.h:568:25: note: expected ‘void *’ but argument is of type ‘const char *’ 568 | extern void free (void *__ptr) __THROW; | ~~~~~~^~~~~ In file included from /usr/include/string.h:535, from src/khash.h:95: In function ‘memcpy’, inlined from ‘ti_index_save’ at src/index.c:500:3: /usr/include/s390x-linux-gnu/bits/string_fortified.h:29:10: warning: ‘__builtin___memcpy_chk’ forming offset [24, 39] is out of the bounds [0, 24] of object ‘x’ with type ‘uint32_t[6]’ {aka ‘unsigned int[6]’} [-Warray-bounds] 29 | return __builtin___memcpy_chk (__dest, __src, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 30 | __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ src/index.c: In function ‘ti_index_save’: src/index.c:499:26: note: ‘x’ declared here 499 | uint32_t x[6]; | ^ s390x-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_FILE_OFFSET_BITS=64 -D_USE_KNETFILE=1 -Isrc -I/usr/include/python3.10 -c src/knetfile.c -o build/temp.linux-s390x-3.10/src/knetfile.o s390x-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_FILE_OFFSET_BITS=64 -D_USE_KNETFILE=1 -Isrc -I/usr/include/python3.10 -c src/kstring.c -o build/temp.linux-s390x-3.10/src/kstring.o src/kstring.c: In function ‘ksprintf’: src/kstring.c:15:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 15 | if (l + 1 > s->m - s->l) { | ^ s390x-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_FILE_OFFSET_BITS=64 -D_USE_KNETFILE=1 -Isrc -I/usr/include/python3.10 -c src/pairixmodule.c -o build/temp.linux-s390x-3.10/src/pairixmodule.o src/pairixmodule.c: In function ‘pairix_new’: src/pairixmodule.c:367:9: warning: unused variable ‘i’ [-Wunused-variable] 367 | int i; | ^ src/pairixmodule.c: In function ‘pairix_querys_2D’: src/pairixmodule.c:559:28: warning: passing argument 1 of ‘flip_region’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 559 | reg2 = flip_region(reg, get_region_split_character(self->tb)); | ^~~ In file included from src/pairixmodule.c:34: src/pairix.h:223:33: note: expected ‘char *’ but argument is of type ‘const char *’ 223 | char* flip_region(char *s, char region_split_character); | ~~~~~~^ src/pairixmodule.c: In function ‘pairix_get_blocknames’: src/pairixmodule.c:603:23: warning: initialization of ‘char **’ from incompatible pointer type ‘const char **’ [-Wincompatible-pointer-types] 603 | char **blocknames = ti_seqname(self->tb->idx, &n); | ^~~~~~~~~~ src/pairixmodule.c: In function ‘pairix_get_header’: src/pairixmodule.c:693:15: warning: assignment discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 693 | while ((s = sequential_ti_read(siter, &len)) != 0) { | ^ src/pairixmodule.c:704:15: warning: assignment discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 704 | while ((s = sequential_ti_read(siter, &len)) != 0) { | ^ src/pairixmodule.c: In function ‘pairix_get_chromsize’: src/pairixmodule.c:726:15: warning: assignment discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 726 | while ((s = sequential_ti_read(siter, &len)) != 0) { | ^ src/pairixmodule.c:738:15: warning: assignment discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 738 | while ((s = sequential_ti_read(siter, &len)) != 0) { | ^ s390x-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-s390x-3.10/src/bgzf.o build/temp.linux-s390x-3.10/src/bgzip.o build/temp.linux-s390x-3.10/src/index.o build/temp.linux-s390x-3.10/src/knetfile.o build/temp.linux-s390x-3.10/src/kstring.o build/temp.linux-s390x-3.10/src/pairixmodule.o -lz -o /<>/.pybuild/cpython3_3.10_pairix/build/pypairix.cpython-310-s390x-linux-gnu.so dh_auto_test -a -O--buildsystem=pybuild I: pybuild pybuild:300: cp -a /<>/samples /<>/.pybuild/cpython3_3.11_pairix/build; cp -a /<>/VERSION.txt /<>/.pybuild/cpython3_3.11_pairix/build; I: pybuild base:240: cd /<>/.pybuild/cpython3_3.11_pairix/build; python3.11 -m pytest test ============================= test session starts ============================== platform linux -- Python 3.11.0+, pytest-7.1.2, pluggy-1.0.0+repack rootdir: /<> collected 48 items test/test_oldindex.py FFFatal Python error: Aborted Current thread 0x000003ffb0378720 (most recent call first): File "/<>/.pybuild/cpython3_3.11_pairix/build/test/test_oldindex.py", line 218 in test_querys File "/usr/lib/python3.11/unittest/case.py", line 579 in _callTestMethod File "/usr/lib/python3.11/unittest/case.py", line 623 in run File "/usr/lib/python3.11/unittest/case.py", line 678 in __call__ File "/usr/lib/python3/dist-packages/_pytest/unittest.py", line 327 in runtest File "/usr/lib/python3/dist-packages/_pytest/runner.py", line 166 in pytest_runtest_call File "/usr/lib/python3/dist-packages/pluggy/_callers.py", line 39 in _multicall File "/usr/lib/python3/dist-packages/pluggy/_manager.py", line 80 in _hookexec File "/usr/lib/python3/dist-packages/pluggy/_hooks.py", line 265 in __call__ File "/usr/lib/python3/dist-packages/_pytest/runner.py", line 259 in File "/usr/lib/python3/dist-packages/_pytest/runner.py", line 338 in from_call File "/usr/lib/python3/dist-packages/_pytest/runner.py", line 258 in call_runtest_hook File "/usr/lib/python3/dist-packages/_pytest/runner.py", line 219 in call_and_report File "/usr/lib/python3/dist-packages/_pytest/runner.py", line 130 in runtestprotocol File "/usr/lib/python3/dist-packages/_pytest/runner.py", line 111 in pytest_runtest_protocol File "/usr/lib/python3/dist-packages/pluggy/_callers.py", line 39 in _multicall File "/usr/lib/python3/dist-packages/pluggy/_manager.py", line 80 in _hookexec File "/usr/lib/python3/dist-packages/pluggy/_hooks.py", line 265 in __call__ File "/usr/lib/python3/dist-packages/_pytest/main.py", line 347 in pytest_runtestloop File "/usr/lib/python3/dist-packages/pluggy/_callers.py", line 39 in _multicall File "/usr/lib/python3/dist-packages/pluggy/_manager.py", line 80 in _hookexec File "/usr/lib/python3/dist-packages/pluggy/_hooks.py", line 265 in __call__ File "/usr/lib/python3/dist-packages/_pytest/main.py", line 322 in _main File "/usr/lib/python3/dist-packages/_pytest/main.py", line 268 in wrap_session File "/usr/lib/python3/dist-packages/_pytest/main.py", line 315 in pytest_cmdline_main File "/usr/lib/python3/dist-packages/pluggy/_callers.py", line 39 in _multicall File "/usr/lib/python3/dist-packages/pluggy/_manager.py", line 80 in _hookexec File "/usr/lib/python3/dist-packages/pluggy/_hooks.py", line 265 in __call__ File "/usr/lib/python3/dist-packages/_pytest/config/__init__.py", line 164 in main File "/usr/lib/python3/dist-packages/_pytest/config/__init__.py", line 187 in console_main File "/usr/lib/python3/dist-packages/pytest/__main__.py", line 5 in File "", line 88 in _run_code File "", line 198 in _run_module_as_main Extension modules: pypairix (total: 1) Aborted (core dumped) E: pybuild pybuild:379: test: plugin distutils failed with: exit code=134: cd /<>/.pybuild/cpython3_3.11_pairix/build; python3.11 -m pytest test I: pybuild pybuild:300: cp -a /<>/samples /<>/.pybuild/cpython3_3.10_pairix/build; cp -a /<>/VERSION.txt /<>/.pybuild/cpython3_3.10_pairix/build; I: pybuild base:240: cd /<>/.pybuild/cpython3_3.10_pairix/build; python3.10 -m pytest test ============================= test session starts ============================== platform linux -- Python 3.10.8, pytest-7.1.2, pluggy-1.0.0+repack rootdir: /<> collected 48 items test/test_oldindex.py FFFatal Python error: Aborted Current thread 0x000003ff8b378720 (most recent call first): File "/<>/.pybuild/cpython3_3.10_pairix/build/test/test_oldindex.py", line 218 in test_querys File "/usr/lib/python3.10/unittest/case.py", line 549 in _callTestMethod File "/usr/lib/python3.10/unittest/case.py", line 591 in run File "/usr/lib/python3.10/unittest/case.py", line 650 in __call__ File "/usr/lib/python3/dist-packages/_pytest/unittest.py", line 327 in runtest File "/usr/lib/python3/dist-packages/_pytest/runner.py", line 166 in pytest_runtest_call File "/usr/lib/python3/dist-packages/pluggy/_callers.py", line 39 in _multicall File "/usr/lib/python3/dist-packages/pluggy/_manager.py", line 80 in _hookexec File "/usr/lib/python3/dist-packages/pluggy/_hooks.py", line 265 in __call__ File "/usr/lib/python3/dist-packages/_pytest/runner.py", line 259 in File "/usr/lib/python3/dist-packages/_pytest/runner.py", line 338 in from_call File "/usr/lib/python3/dist-packages/_pytest/runner.py", line 258 in call_runtest_hook File "/usr/lib/python3/dist-packages/_pytest/runner.py", line 219 in call_and_report File "/usr/lib/python3/dist-packages/_pytest/runner.py", line 130 in runtestprotocol File "/usr/lib/python3/dist-packages/_pytest/runner.py", line 111 in pytest_runtest_protocol File "/usr/lib/python3/dist-packages/pluggy/_callers.py", line 39 in _multicall File "/usr/lib/python3/dist-packages/pluggy/_manager.py", line 80 in _hookexec File "/usr/lib/python3/dist-packages/pluggy/_hooks.py", line 265 in __call__ File "/usr/lib/python3/dist-packages/_pytest/main.py", line 347 in pytest_runtestloop File "/usr/lib/python3/dist-packages/pluggy/_callers.py", line 39 in _multicall File "/usr/lib/python3/dist-packages/pluggy/_manager.py", line 80 in _hookexec File "/usr/lib/python3/dist-packages/pluggy/_hooks.py", line 265 in __call__ File "/usr/lib/python3/dist-packages/_pytest/main.py", line 322 in _main File "/usr/lib/python3/dist-packages/_pytest/main.py", line 268 in wrap_session File "/usr/lib/python3/dist-packages/_pytest/main.py", line 315 in pytest_cmdline_main File "/usr/lib/python3/dist-packages/pluggy/_callers.py", line 39 in _multicall File "/usr/lib/python3/dist-packages/pluggy/_manager.py", line 80 in _hookexec File "/usr/lib/python3/dist-packages/pluggy/_hooks.py", line 265 in __call__ File "/usr/lib/python3/dist-packages/_pytest/config/__init__.py", line 164 in main File "/usr/lib/python3/dist-packages/_pytest/config/__init__.py", line 187 in console_main File "/usr/lib/python3/dist-packages/pytest/__main__.py", line 5 in File "/usr/lib/python3.10/runpy.py", line 86 in _run_code File "/usr/lib/python3.10/runpy.py", line 196 in _run_module_as_main Extension modules: pypairix (total: 1) Aborted (core dumped) E: pybuild pybuild:379: test: plugin distutils failed with: exit code=134: cd /<>/.pybuild/cpython3_3.10_pairix/build; python3.10 -m pytest test dh_auto_test: error: pybuild --test --test-pytest -i python{version} -p "3.11 3.10" returned exit code 13 make: *** [debian/rules:10: binary-arch] Error 25 dpkg-buildpackage: error: debian/rules binary-arch subprocess returned exit status 2 -------------------------------------------------------------------------------- Build finished at 2022-12-01T15:11:43Z Finished -------- +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested E: Build failure (dpkg-buildpackage died) +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: s390x Build Type: any Build-Space: 538768 Build-Time: 23 Distribution: lunar-proposed Fail-Stage: build Host Architecture: s390x Install-Time: 37 Job: python-pairix_0.3.7-6.dsc Machine Architecture: s390x Package: python-pairix Package-Time: 63 Source-Version: 0.3.7-6 Space: 538768 Status: attempted Version: 0.3.7-6 -------------------------------------------------------------------------------- Finished at 2022-12-01T15:11:43Z Build needed 00:01:03, 538768k disk space E: Build failure (dpkg-buildpackage died) Adding user buildd to group lxd RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=lunar --arch=s390x PACKAGEBUILD-24888002 Scanning for processes to kill in build PACKAGEBUILD-24888002