https://launchpad.net/ubuntu/+source/fast5/0.6.5-2/+build/15627318 RUN: /usr/share/launchpad-buildd/slavebin/slave-prep Forking launchpad-buildd slave process... Kernel version: Linux bos02-s390x-005 4.4.0-138-generic #164-Ubuntu SMP Tue Oct 2 17:15:07 UTC 2018 s390x Buildd toolchain package versions: launchpad-buildd_165 python-lpbuildd_165 sbuild_0.67.0-2ubuntu7.1 bzr-builder_0.7.3+bzr174~ppa13~ubuntu14.10.1 bzr_2.7.0-2ubuntu3.1 git-build-recipe_0.3.4~git201611291343.dcee459~ubuntu16.04.1 git_1:2.7.4-0ubuntu1.5 dpkg-dev_1.18.4ubuntu1.5 python-debian_0.1.27ubuntu2. Syncing the system clock with the buildd NTP service... 9 Nov 09:14:15 ntpdate[1752]: adjust time server 10.211.37.1 offset 0.064205 sec RUN: /usr/share/launchpad-buildd/slavebin/in-target unpack-chroot --backend=chroot --series=disco --arch=s390x PACKAGEBUILD-15627318 /home/buildd/filecache-default/b787115693f003366e910ff6bedae3977a7b9dc5 Creating target for build PACKAGEBUILD-15627318 RUN: /usr/share/launchpad-buildd/slavebin/in-target mount-chroot --backend=chroot --series=disco --arch=s390x PACKAGEBUILD-15627318 Starting target for build PACKAGEBUILD-15627318 RUN: /usr/share/launchpad-buildd/slavebin/in-target override-sources-list --backend=chroot --series=disco --arch=s390x PACKAGEBUILD-15627318 'deb http://ftpmaster.internal/ubuntu disco main universe' 'deb http://ftpmaster.internal/ubuntu disco-security main universe' 'deb http://ftpmaster.internal/ubuntu disco-updates main universe' 'deb http://ftpmaster.internal/ubuntu disco-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-15627318 RUN: /usr/share/launchpad-buildd/slavebin/in-target update-debian-chroot --backend=chroot --series=disco --arch=s390x PACKAGEBUILD-15627318 Updating target for build PACKAGEBUILD-15627318 Get:1 http://ftpmaster.internal/ubuntu disco InRelease [243 kB] Get:2 http://ftpmaster.internal/ubuntu disco-security InRelease [65.4 kB] Get:3 http://ftpmaster.internal/ubuntu disco-updates InRelease [65.4 kB] Get:4 http://ftpmaster.internal/ubuntu disco-proposed InRelease [93.2 kB] Get:5 http://ftpmaster.internal/ubuntu disco/main s390x Packages [951 kB] Get:6 http://ftpmaster.internal/ubuntu disco/main Translation-en [513 kB] Get:7 http://ftpmaster.internal/ubuntu disco/universe s390x Packages [8349 kB] Get:8 http://ftpmaster.internal/ubuntu disco/universe Translation-en [5038 kB] Get:9 http://ftpmaster.internal/ubuntu disco-proposed/main s390x Packages [149 kB] Get:10 http://ftpmaster.internal/ubuntu disco-proposed/main Translation-en [89.8 kB] Get:11 http://ftpmaster.internal/ubuntu disco-proposed/universe s390x Packages [279 kB] Get:12 http://ftpmaster.internal/ubuntu disco-proposed/universe Translation-en [202 kB] Fetched 16.0 MB in 5s (3550 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: libgdbm5 libperl5.26 perl-modules-5.26 Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: libgdbm6 libperl5.28 perl-modules-5.28 The following packages will be upgraded: base-files binutils binutils-common binutils-s390x-linux-gnu cpp cpp-8 dash dmsetup findutils g++ g++-8 gcc gcc-8 gcc-8-base hostname init init-system-helpers libapparmor1 libasan5 libatomic1 libaudit-common libaudit1 libbinutils libcap-ng0 libcc1-0 libdb5.3 libdevmapper1.02.1 libgcc-8-dev libgcc1 libgdbm-compat4 libgomp1 libgpg-error0 libitm1 libkmod2 libseccomp2 libselinux1 libsemanage-common libsemanage1 libsqlite3-0 libstdc++-8-dev libstdc++6 libsystemd0 libubsan1 libudev1 linux-libc-dev lockfile-progs perl perl-base sed systemd systemd-sysv tzdata 52 upgraded, 3 newly installed, 0 to remove and 0 not upgraded. Need to get 38.1 MB of archives. After this operation, 48.3 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu disco/main s390x base-files s390x 10.1ubuntu8 [60.0 kB] Get:2 http://ftpmaster.internal/ubuntu disco-proposed/main s390x dash s390x 0.5.10.2-1 [86.9 kB] Get:3 http://ftpmaster.internal/ubuntu disco-proposed/main s390x findutils s390x 4.6.0+git+20181018-1 [288 kB] Get:4 http://ftpmaster.internal/ubuntu disco-proposed/main s390x hostname s390x 3.21 [10.9 kB] Get:5 http://ftpmaster.internal/ubuntu disco/main s390x perl-modules-5.28 all 5.28.0-3 [2818 kB] Get:6 http://ftpmaster.internal/ubuntu disco/main s390x libgdbm6 s390x 1.18.1-1 [27.1 kB] Get:7 http://ftpmaster.internal/ubuntu disco/main s390x libgdbm-compat4 s390x 1.18.1-1 [6256 B] Get:8 http://ftpmaster.internal/ubuntu disco/main s390x libperl5.28 s390x 5.28.0-3 [3655 kB] Get:9 http://ftpmaster.internal/ubuntu disco/main s390x perl s390x 5.28.0-3 [204 kB] Get:10 http://ftpmaster.internal/ubuntu disco/main s390x perl-base s390x 5.28.0-3 [1418 kB] Get:11 http://ftpmaster.internal/ubuntu disco-proposed/main s390x libdb5.3 s390x 5.3.28+dfsg1-0.2 [607 kB] Get:12 http://ftpmaster.internal/ubuntu disco-proposed/main s390x sed s390x 4.5-2 [183 kB] Get:13 http://ftpmaster.internal/ubuntu disco-proposed/main s390x init-system-helpers all 1.55 [38.5 kB] Get:14 http://ftpmaster.internal/ubuntu disco-proposed/main s390x systemd-sysv s390x 239-7ubuntu10.1 [9404 B] Get:15 http://ftpmaster.internal/ubuntu disco/main s390x libapparmor1 s390x 2.12-4ubuntu10 [28.6 kB] Get:16 http://ftpmaster.internal/ubuntu disco/main s390x libaudit-common all 1:2.8.3-1ubuntu3 [4068 B] Get:17 http://ftpmaster.internal/ubuntu disco/main s390x libcap-ng0 s390x 0.7.9-1build1 [10.6 kB] Get:18 http://ftpmaster.internal/ubuntu disco/main s390x libaudit1 s390x 1:2.8.3-1ubuntu3 [37.0 kB] Get:19 http://ftpmaster.internal/ubuntu disco-proposed/main s390x libgpg-error0 s390x 1.32-3 [52.3 kB] Get:20 http://ftpmaster.internal/ubuntu disco-proposed/main s390x libkmod2 s390x 25-1ubuntu1.1 [37.9 kB] Get:21 http://ftpmaster.internal/ubuntu disco-proposed/main s390x systemd s390x 239-7ubuntu10.1 [2666 kB] Get:22 http://ftpmaster.internal/ubuntu disco-proposed/main s390x libsystemd0 s390x 239-7ubuntu10.1 [191 kB] Get:23 http://ftpmaster.internal/ubuntu disco-proposed/main s390x init s390x 1.55 [6480 B] Get:24 http://ftpmaster.internal/ubuntu disco/main s390x libcc1-0 s390x 8.2.0-9ubuntu1 [37.1 kB] Get:25 http://ftpmaster.internal/ubuntu disco/main s390x libgomp1 s390x 8.2.0-9ubuntu1 [69.9 kB] Get:26 http://ftpmaster.internal/ubuntu disco/main s390x libitm1 s390x 8.2.0-9ubuntu1 [26.9 kB] Get:27 http://ftpmaster.internal/ubuntu disco/main s390x libatomic1 s390x 8.2.0-9ubuntu1 [8428 B] Get:28 http://ftpmaster.internal/ubuntu disco/main s390x libasan5 s390x 8.2.0-9ubuntu1 [326 kB] Get:29 http://ftpmaster.internal/ubuntu disco/main s390x libubsan1 s390x 8.2.0-9ubuntu1 [115 kB] Get:30 http://ftpmaster.internal/ubuntu disco/main s390x gcc-8-base s390x 8.2.0-9ubuntu1 [18.6 kB] Get:31 http://ftpmaster.internal/ubuntu disco/main s390x libstdc++6 s390x 8.2.0-9ubuntu1 [398 kB] Get:32 http://ftpmaster.internal/ubuntu disco/main s390x g++-8 s390x 8.2.0-9ubuntu1 [6359 kB] Get:33 http://ftpmaster.internal/ubuntu disco/main s390x libstdc++-8-dev s390x 8.2.0-9ubuntu1 [1503 kB] Get:34 http://ftpmaster.internal/ubuntu disco/main s390x libgcc-8-dev s390x 8.2.0-9ubuntu1 [650 kB] Get:35 http://ftpmaster.internal/ubuntu disco/main s390x gcc-8 s390x 8.2.0-9ubuntu1 [6264 kB] Get:36 http://ftpmaster.internal/ubuntu disco/main s390x cpp-8 s390x 8.2.0-9ubuntu1 [5503 kB] Get:37 http://ftpmaster.internal/ubuntu disco/main s390x libgcc1 s390x 1:8.2.0-9ubuntu1 [25.1 kB] Get:38 http://ftpmaster.internal/ubuntu disco/main s390x libbinutils s390x 2.31.1-7ubuntu1 [304 kB] Get:39 http://ftpmaster.internal/ubuntu disco/main s390x binutils-common s390x 2.31.1-7ubuntu1 [194 kB] Get:40 http://ftpmaster.internal/ubuntu disco/main s390x binutils s390x 2.31.1-7ubuntu1 [3328 B] Get:41 http://ftpmaster.internal/ubuntu disco/main s390x binutils-s390x-linux-gnu s390x 2.31.1-7ubuntu1 [1678 kB] Get:42 http://ftpmaster.internal/ubuntu disco/main s390x libselinux1 s390x 2.8-1build2 [63.8 kB] Get:43 http://ftpmaster.internal/ubuntu disco/main s390x libsemanage-common all 2.8-1build2 [6892 B] Get:44 http://ftpmaster.internal/ubuntu disco/main s390x libsemanage1 s390x 2.8-1build2 [78.6 kB] Get:45 http://ftpmaster.internal/ubuntu disco-proposed/main s390x libudev1 s390x 239-7ubuntu10.1 [49.7 kB] Get:46 http://ftpmaster.internal/ubuntu disco-proposed/main s390x libseccomp2 s390x 2.3.3-3ubuntu2 [40.3 kB] Get:47 http://ftpmaster.internal/ubuntu disco-proposed/main s390x libdevmapper1.02.1 s390x 2:1.02.145-4.1ubuntu4 [122 kB] Get:48 http://ftpmaster.internal/ubuntu disco-proposed/main s390x dmsetup s390x 2:1.02.145-4.1ubuntu4 [73.0 kB] Get:49 http://ftpmaster.internal/ubuntu disco-proposed/main s390x libsqlite3-0 s390x 3.25.3-1 [491 kB] Get:50 http://ftpmaster.internal/ubuntu disco/main s390x tzdata all 2018g-1 [188 kB] Get:51 http://ftpmaster.internal/ubuntu disco/main s390x g++ s390x 4:8.2.0-2ubuntu2 [1604 B] Get:52 http://ftpmaster.internal/ubuntu disco/main s390x gcc s390x 4:8.2.0-2ubuntu2 [5208 B] Get:53 http://ftpmaster.internal/ubuntu disco/main s390x cpp s390x 4:8.2.0-2ubuntu2 [27.6 kB] Get:54 http://ftpmaster.internal/ubuntu disco-proposed/main s390x linux-libc-dev s390x 4.18.0-11.12 [1037 kB] Get:55 http://ftpmaster.internal/ubuntu disco-proposed/main s390x lockfile-progs s390x 0.1.18 [9564 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 38.1 MB in 2s (24.7 MB/s) (Reading database ... 12423 files and directories currently installed.) Preparing to unpack .../base-files_10.1ubuntu8_s390x.deb ... Unpacking base-files (10.1ubuntu8) over (10.1ubuntu7) ... Setting up base-files (10.1ubuntu8) ... Installing new version of config file /etc/issue ... Installing new version of config file /etc/issue.net ... Installing new version of config file /etc/lsb-release ... (Reading database ... 12423 files and directories currently installed.) Preparing to unpack .../dash_0.5.10.2-1_s390x.deb ... Removing 'diversion of /bin/sh to /bin/sh.distrib by dash' Adding 'diversion of /bin/sh to /bin/sh.distrib by bash' Removing 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash' Adding 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by bash' Unpacking dash (0.5.10.2-1) over (0.5.8-2.10) ... Setting up dash (0.5.10.2-1) ... Removing 'diversion of /bin/sh to /bin/sh.distrib by bash' Adding 'diversion of /bin/sh to /bin/sh.distrib by dash' Removing 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by bash' Adding 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash' (Reading database ... 12423 files and directories currently installed.) Preparing to unpack .../findutils_4.6.0+git+20181018-1_s390x.deb ... Unpacking findutils (4.6.0+git+20181018-1) over (4.6.0+git+20180808-2) ... Setting up findutils (4.6.0+git+20181018-1) ... (Reading database ... 12423 files and directories currently installed.) Preparing to unpack .../hostname_3.21_s390x.deb ... Unpacking hostname (3.21) over (3.20) ... Setting up hostname (3.21) ... (Reading database ... 12423 files and directories currently installed.) Preparing to unpack .../0-perl_5.28.0-3_s390x.deb ... Unpacking perl (5.28.0-3) over (5.26.2-7) ... 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Preparing to unpack .../8-lockfile-progs_0.1.18_s390x.deb ... Unpacking lockfile-progs (0.1.18) over (0.1.17build1) ... Setting up cpp-8 (8.2.0-9ubuntu1) ... Setting up libgomp1:s390x (8.2.0-9ubuntu1) ... Setting up libatomic1:s390x (8.2.0-9ubuntu1) ... Setting up cpp (4:8.2.0-2ubuntu2) ... Setting up libcc1-0:s390x (8.2.0-9ubuntu1) ... Setting up tzdata (2018g-1) ... Current default time zone: 'Etc/UTC' Local time is now: Fri Nov 9 09:14:31 UTC 2018. Universal Time is now: Fri Nov 9 09:14:31 UTC 2018. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up init (1.55) ... Setting up linux-libc-dev:s390x (4.18.0-11.12) ... Setting up libdevmapper1.02.1:s390x (2:1.02.145-4.1ubuntu4) ... Setting up libgdbm6:s390x (1.18.1-1) ... Setting up binutils-common:s390x (2.31.1-7ubuntu1) ... Setting up perl-modules-5.28 (5.28.0-3) ... Processing triggers for libc-bin (2.28-0ubuntu1) ... Setting up libsqlite3-0:s390x (3.25.3-1) ... Setting up dmsetup (2:1.02.145-4.1ubuntu4) ... 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RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package PACKAGEBUILD-15627318 s390x disco-proposed -c chroot:build-PACKAGEBUILD-15627318 --arch=s390x --dist=disco-proposed --nolog fast5_0.6.5-2.dsc Initiating build PACKAGEBUILD-15627318 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.4.0-138-generic #164-Ubuntu SMP Tue Oct 2 17:15:07 UTC 2018 s390x sbuild (Debian sbuild) 0.67.0 (26 Dec 2015) on bos02-s390x-005.buildd +==============================================================================+ | fast5 0.6.5-2 (s390x) 09 Nov 2018 09:14 | +==============================================================================+ Package: fast5 Version: 0.6.5-2 Source Version: 0.6.5-2 Distribution: disco-proposed Machine Architecture: s390x Host Architecture: s390x Build Architecture: s390x I: NOTICE: Log filtering will replace 'build/fast5-Bt1Q0L/fast5-0.6.5' with '<>' I: NOTICE: Log filtering will replace 'build/fast5-Bt1Q0L' with '<>' I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-15627318/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- fast5_0.6.5-2.dsc exists in .; copying to chroot Check architectures ------------------- Check dependencies ------------------ Merged Build-Depends: build-essential, fakeroot Filtered Build-Depends: build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<>/resolver-8tlRbT/apt_archive/sbuild-build-depends-core-dummy.deb'. Ign:1 copy:/<>/resolver-8tlRbT/apt_archive ./ InRelease Get:2 copy:/<>/resolver-8tlRbT/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-8tlRbT/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-8tlRbT/apt_archive ./ Sources [214 B] Get:5 copy:/<>/resolver-8tlRbT/apt_archive ./ Packages [526 B] Fetched 2859 B in 0s (0 B/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install core 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: libgdbm5 libperl5.26 perl-modules-5.26 Use 'apt autoremove' to remove them. The following NEW packages will be installed: sbuild-build-depends-core-dummy 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 852 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-8tlRbT/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [852 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 852 B in 0s (0 B/s) Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 14310 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_s390x.deb ... Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... Merged Build-Depends: debhelper (>= 11), dh-python, libhdf5-dev, libboost-python-dev, python-all-dev, python-setuptools, python3-all-dev, python3-setuptools, cython, cython3 Filtered Build-Depends: debhelper (>= 11), dh-python, libhdf5-dev, libboost-python-dev, python-all-dev, python-setuptools, python3-all-dev, python3-setuptools, cython, cython3 dpkg-deb: building package 'sbuild-build-depends-fast5-dummy' in '/<>/resolver-0DPL8I/apt_archive/sbuild-build-depends-fast5-dummy.deb'. Ign:1 copy:/<>/resolver-0DPL8I/apt_archive ./ InRelease Get:2 copy:/<>/resolver-0DPL8I/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-0DPL8I/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-0DPL8I/apt_archive ./ Sources [259 B] Get:5 copy:/<>/resolver-0DPL8I/apt_archive ./ Packages [579 B] Fetched 2957 B in 0s (0 B/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install fast5 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: libgdbm5 libperl5.26 perl-modules-5.26 Use 'apt autoremove' to remove them. The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils cython cython3 debhelper dh-autoreconf dh-python dh-strip-nondeterminism dwz file gettext gettext-base groff-base hdf5-helpers intltool-debian libaec-dev libaec0 libarchive-zip-perl libboost-python-dev libboost-python1.67-dev libboost-python1.67.0 libboost1.67-dev libbsd0 libcroco3 libelf1 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl libgfortran5 libglib2.0-0 libhdf5-100 libhdf5-cpp-100 libhdf5-dev libicu60 libjpeg-dev libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8 libjpeg8-dev libmagic-mgc libmagic1 libmpdec2 libpipeline1 libpython-all-dev libpython-dev libpython-stdlib libpython2-dev libpython2-stdlib libpython2.7 libpython2.7-dev libpython2.7-minimal libpython2.7-stdlib libpython3-all-dev libpython3-dev libpython3-stdlib libpython3.7 libpython3.7-dev libpython3.7-minimal libpython3.7-stdlib libsigsegv2 libsz2 libtool libxml2 m4 man-db mime-support po-debconf python python-all python-all-dev python-dev python-minimal python-pkg-resources python-setuptools python2 python2-dev python2-minimal python2.7 python2.7-dev python2.7-minimal python3 python3-all python3-all-dev python3-dev python3-distutils python3-lib2to3 python3-minimal python3-pkg-resources python3-setuptools python3.7 python3.7-dev python3.7-minimal zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois vacation cython-doc dh-make gettext-doc libasprintf-dev libgettextpo-dev groff libboost1.67-doc gccxml libboost-atomic1.67-dev libboost-chrono1.67-dev libboost-container1.67-dev libboost-date-time1.67-dev libboost-exception1.67-dev libboost-filesystem1.67-dev libboost-graph1.67-dev libboost-graph-parallel1.67-dev libboost-iostreams1.67-dev libboost-locale1.67-dev libboost-log1.67-dev libboost-math1.67-dev libboost-mpi1.67-dev libboost-mpi-python1.67-dev libboost-numpy1.67-dev libboost-program-options1.67-dev libboost-random1.67-dev libboost-regex1.67-dev libboost-serialization1.67-dev libboost-signals1.67-dev libboost-stacktrace1.67-dev libboost-system1.67-dev libboost-test1.67-dev libboost-thread1.67-dev libboost-timer1.67-dev libboost-type-erasure1.67-dev libboost-wave1.67-dev libboost1.67-tools-dev libmpfrc++-dev libntl-dev libhdf5-doc libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser libmail-box-perl python-doc python-tk python-setuptools-doc python2-doc python2.7-doc binfmt-support python3-doc python3-tk python3-venv python3.7-venv python3.7-doc Recommended packages: curl | wget | lynx libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs libltdl-dev libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils cython cython3 debhelper dh-autoreconf dh-python dh-strip-nondeterminism dwz file gettext gettext-base groff-base hdf5-helpers intltool-debian libaec-dev libaec0 libarchive-zip-perl libboost-python-dev libboost-python1.67-dev libboost-python1.67.0 libboost1.67-dev libbsd0 libcroco3 libelf1 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl libgfortran5 libglib2.0-0 libhdf5-100 libhdf5-cpp-100 libhdf5-dev libicu60 libjpeg-dev libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8 libjpeg8-dev libmagic-mgc libmagic1 libmpdec2 libpipeline1 libpython-all-dev libpython-dev libpython-stdlib libpython2-dev libpython2-stdlib libpython2.7 libpython2.7-dev libpython2.7-minimal libpython2.7-stdlib libpython3-all-dev libpython3-dev libpython3-stdlib libpython3.7 libpython3.7-dev libpython3.7-minimal libpython3.7-stdlib libsigsegv2 libsz2 libtool libxml2 m4 man-db mime-support po-debconf python python-all python-all-dev python-dev python-minimal python-pkg-resources python-setuptools python2 python2-dev python2-minimal python2.7 python2.7-dev python2.7-minimal python3 python3-all python3-all-dev python3-dev python3-distutils python3-lib2to3 python3-minimal python3-pkg-resources python3-setuptools python3.7 python3.7-dev python3.7-minimal sbuild-build-depends-fast5-dummy zlib1g-dev 0 upgraded, 97 newly installed, 0 to remove and 0 not upgraded. Need to get 125 MB of archives. After this operation, 435 MB of additional disk space will be used. Get:1 copy:/<>/resolver-0DPL8I/apt_archive ./ sbuild-build-depends-fast5-dummy 0.invalid.0 [904 B] Get:2 http://ftpmaster.internal/ubuntu disco/main s390x libpython3.7-minimal s390x 3.7.1-1 [542 kB] Get:3 http://ftpmaster.internal/ubuntu disco/main s390x libexpat1 s390x 2.2.6-1 [82.9 kB] Get:4 http://ftpmaster.internal/ubuntu disco/main s390x python3.7-minimal s390x 3.7.1-1 [1551 kB] Get:5 http://ftpmaster.internal/ubuntu disco/main s390x python3-minimal s390x 3.7.1-1ubuntu1 [23.6 kB] Get:6 http://ftpmaster.internal/ubuntu disco/main s390x mime-support all 3.60ubuntu1 [30.1 kB] Get:7 http://ftpmaster.internal/ubuntu disco/main s390x libmpdec2 s390x 2.4.2-2 [80.6 kB] Get:8 http://ftpmaster.internal/ubuntu disco/main s390x libpython3.7-stdlib s390x 3.7.1-1 [1686 kB] Get:9 http://ftpmaster.internal/ubuntu disco/main s390x python3.7 s390x 3.7.1-1 [272 kB] Get:10 http://ftpmaster.internal/ubuntu disco/main s390x libpython3-stdlib s390x 3.7.1-1ubuntu1 [7128 B] Get:11 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2.7.15-4ubuntu4 [965 kB] Get:62 http://ftpmaster.internal/ubuntu disco/main s390x libexpat1-dev s390x 2.2.6-1 [127 kB] Get:63 http://ftpmaster.internal/ubuntu disco/main s390x libpython2.7-dev s390x 2.7.15-4ubuntu4 [31.3 MB] Get:64 http://ftpmaster.internal/ubuntu disco/main s390x libpython2-dev s390x 2.7.15-3 [7784 B] Get:65 http://ftpmaster.internal/ubuntu disco/main s390x libpython-dev s390x 2.7.15-3 [5884 B] Get:66 http://ftpmaster.internal/ubuntu disco/main s390x python2.7-dev s390x 2.7.15-4ubuntu4 [280 kB] Get:67 http://ftpmaster.internal/ubuntu disco/main s390x python2-dev s390x 2.7.15-3 [1240 B] Get:68 http://ftpmaster.internal/ubuntu disco/main s390x python-dev s390x 2.7.15-3 [1220 B] Get:69 http://ftpmaster.internal/ubuntu disco/main s390x libpython3.7 s390x 3.7.1-1 [1367 kB] Get:70 http://ftpmaster.internal/ubuntu disco/main s390x libpython3.7-dev s390x 3.7.1-1 [47.7 MB] Get:71 http://ftpmaster.internal/ubuntu disco/main s390x libpython3-dev s390x 3.7.1-1ubuntu1 [7224 B] Get:72 http://ftpmaster.internal/ubuntu disco/main s390x python3.7-dev s390x 3.7.1-1 [520 kB] Get:73 http://ftpmaster.internal/ubuntu disco/main s390x python3-dev s390x 3.7.1-1ubuntu1 [1308 B] Get:74 http://ftpmaster.internal/ubuntu disco-proposed/universe s390x libboost-python1.67-dev s390x 1.67.0-9 [294 kB] Get:75 http://ftpmaster.internal/ubuntu disco/universe s390x libboost-python-dev s390x 1.67.0.0ubuntu1 [3228 B] Get:76 http://ftpmaster.internal/ubuntu disco/main s390x libgfortran5 s390x 8.2.0-9ubuntu1 [300 kB] Get:77 http://ftpmaster.internal/ubuntu disco/universe s390x libsz2 s390x 1.0.2-1 [5084 B] Get:78 http://ftpmaster.internal/ubuntu disco/universe s390x libhdf5-100 s390x 1.10.0-patch1+docs-4build2 [1070 kB] Get:79 http://ftpmaster.internal/ubuntu disco/universe s390x libhdf5-cpp-100 s390x 1.10.0-patch1+docs-4build2 [96.5 kB] Get:80 http://ftpmaster.internal/ubuntu disco/main s390x zlib1g-dev s390x 1:1.2.11.dfsg-0ubuntu2 [173 kB] Get:81 http://ftpmaster.internal/ubuntu disco/main s390x libjpeg-turbo8 s390x 2.0.0-0ubuntu2 [102 kB] Get:82 http://ftpmaster.internal/ubuntu disco/main s390x libjpeg-turbo8-dev s390x 2.0.0-0ubuntu2 [214 kB] Get:83 http://ftpmaster.internal/ubuntu disco/main s390x libjpeg8 s390x 8c-2ubuntu8 [2142 B] Get:84 http://ftpmaster.internal/ubuntu disco/main s390x libjpeg8-dev s390x 8c-2ubuntu8 [1612 B] Get:85 http://ftpmaster.internal/ubuntu disco/main s390x libjpeg-dev s390x 8c-2ubuntu8 [1612 B] Get:86 http://ftpmaster.internal/ubuntu disco/universe s390x libaec-dev s390x 1.0.2-1 [39.2 kB] Get:87 http://ftpmaster.internal/ubuntu disco/universe s390x libhdf5-dev s390x 1.10.0-patch1+docs-4build2 [2284 kB] Get:88 http://ftpmaster.internal/ubuntu disco/main s390x libpython-all-dev s390x 2.7.15-3 [1092 B] Get:89 http://ftpmaster.internal/ubuntu disco/main s390x libpython3-all-dev s390x 3.7.1-1ubuntu1 [1112 B] Get:90 http://ftpmaster.internal/ubuntu disco/main s390x python-all s390x 2.7.15-3 [1072 B] Get:91 http://ftpmaster.internal/ubuntu disco/main s390x python-all-dev s390x 2.7.15-3 [1096 B] Get:92 http://ftpmaster.internal/ubuntu disco/main s390x python-pkg-resources all 40.5.0-1 [129 kB] Get:93 http://ftpmaster.internal/ubuntu disco/main s390x python-setuptools all 40.5.0-1 [324 kB] Get:94 http://ftpmaster.internal/ubuntu disco/main s390x python3-all s390x 3.7.1-1ubuntu1 [1108 B] Get:95 http://ftpmaster.internal/ubuntu disco/main s390x python3-all-dev s390x 3.7.1-1ubuntu1 [1112 B] Get:96 http://ftpmaster.internal/ubuntu disco/main s390x python3-pkg-resources all 40.5.0-1 [99.6 kB] Get:97 http://ftpmaster.internal/ubuntu disco/main s390x python3-setuptools all 40.5.0-1 [249 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 125 MB in 5s (27.7 MB/s) Selecting previously unselected package libpython3.7-minimal:s390x. 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Setting up libbsd0:s390x (0.9.1-1) ... Setting up libxml2:s390x (2.9.4+dfsg1-7ubuntu2) ... Setting up libmagic-mgc (1:5.34-2) ... Setting up libmagic1:s390x (1:5.34-2) ... Setting up libcroco3:s390x (0.6.12-2) ... Setting up libboost-python1.67.0 (1.67.0-9) ... Setting up libjpeg-turbo8-dev:s390x (2.0.0-0ubuntu2) ... Processing triggers for libc-bin (2.28-0ubuntu1) ... Setting up dwz (0.12-2) ... Setting up autotools-dev (20180224.1) ... Setting up libboost1.67-dev:s390x (1.67.0-9) ... Setting up libexpat1-dev:s390x (2.2.6-1) ... Setting up bsdmainutils (11.1.2ubuntu2) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up libgfortran5:s390x (8.2.0-9ubuntu1) ... Setting up hdf5-helpers (1.10.0-patch1+docs-4build2) ... Setting up libpython2.7-stdlib:s390x (2.7.15-4ubuntu4) ... Setting up autopoint (0.19.8.1-8) ... Setting up libmpdec2:s390x (2.4.2-2) ... Setting up libsz2:s390x (1.0.2-1) ... Setting up zlib1g-dev:s390x (1:1.2.11.dfsg-0ubuntu2) ... Setting up libfile-stripnondeterminism-perl (0.044-1) ... Setting up libjpeg8:s390x (8c-2ubuntu8) ... Setting up libpython3.7-stdlib:s390x (3.7.1-1) ... Setting up libhdf5-100:s390x (1.10.0-patch1+docs-4build2) ... Setting up gettext (0.19.8.1-8) ... Setting up libaec-dev:s390x (1.0.2-1) ... Setting up python2.7 (2.7.15-4ubuntu4) ... Setting up python3.7 (3.7.1-1) ... Setting up autoconf (2.69-11) ... Setting up file (1:5.34-2) ... Setting up intltool-debian (0.35.0+20060710.4) ... Setting up libjpeg8-dev:s390x (8c-2ubuntu8) ... Setting up libjpeg-dev:s390x (8c-2ubuntu8) ... Setting up libpython3.7:s390x (3.7.1-1) ... Setting up libpython2.7:s390x (2.7.15-4ubuntu4) ... Setting up automake (1:1.16.1-4) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libpython3.7-dev:s390x (3.7.1-1) ... Setting up man-db (2.8.4-3) ... Not building database; man-db/auto-update is not 'true'. Setting up libpython2-stdlib:s390x (2.7.15-3) ... Setting up libpython2.7-dev:s390x (2.7.15-4ubuntu4) ... Setting up python2.7-dev (2.7.15-4ubuntu4) ... Setting up libpython3-dev:s390x (3.7.1-1ubuntu1) ... Setting up libtool (2.4.6-6) ... Setting up libpython3-stdlib:s390x (3.7.1-1ubuntu1) ... Setting up libhdf5-cpp-100:s390x (1.10.0-patch1+docs-4build2) ... Setting up po-debconf (1.0.20) ... Setting up python3 (3.7.1-1ubuntu1) ... Setting up libhdf5-dev (1.10.0-patch1+docs-4build2) ... update-alternatives: using /usr/lib/s390x-linux-gnu/pkgconfig/hdf5-serial.pc to provide /usr/lib/s390x-linux-gnu/pkgconfig/hdf5.pc (hdf5.pc) in auto mode Setting up python3-pkg-resources (40.5.0-1) ... Setting up python3.7-dev (3.7.1-1) ... Setting up python2 (2.7.15-3) ... Setting up libpython2-dev:s390x (2.7.15-3) ... Setting up libpython-stdlib:s390x (2.7.15-3) ... Setting up libpython3-all-dev:s390x (3.7.1-1ubuntu1) ... Setting up python2-dev (2.7.15-3) ... Setting up cython3 (0.28.4-1build1) ... Setting up python3-lib2to3 (3.7.1-1ubuntu3) ... Setting up python3-distutils (3.7.1-1ubuntu3) ... Setting up python (2.7.15-3) ... Setting up libpython-dev:s390x (2.7.15-3) ... Setting up python-dev (2.7.15-3) ... Setting up libpython-all-dev:s390x (2.7.15-3) ... Setting up python-pkg-resources (40.5.0-1) ... Setting up cython (0.28.4-1build1) ... Setting up python3-setuptools (40.5.0-1) ... Setting up dh-python (3.20180927ubuntu2) ... Setting up python-all (2.7.15-3) ... Setting up python-setuptools (40.5.0-1) ... Setting up python3-dev (3.7.1-1ubuntu1) ... Setting up python-all-dev (2.7.15-3) ... Setting up python3-all (3.7.1-1ubuntu1) ... Setting up libboost-python1.67-dev (1.67.0-9) ... Setting up python3-all-dev (3.7.1-1ubuntu1) ... Setting up libboost-python-dev (1.67.0.0ubuntu1) ... Setting up dh-autoreconf (19) ... Setting up debhelper (11.3.2ubuntu1) ... Setting up sbuild-build-depends-fast5-dummy (0.invalid.0) ... Setting up dh-strip-nondeterminism (0.044-1) ... Processing triggers for libc-bin (2.28-0ubuntu1) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.4.0-138-generic s390x (s390x) Toolchain package versions: binutils_2.31.1-7ubuntu1 dpkg-dev_1.19.0.5ubuntu5 g++-8_8.2.0-9ubuntu1 gcc-8_8.2.0-9ubuntu1 libc6-dev_2.28-0ubuntu1 libstdc++-8-dev_8.2.0-9ubuntu1 libstdc++6_8.2.0-9ubuntu1 linux-libc-dev_4.18.0-11.12 Package versions: adduser_3.117ubuntu1 advancecomp_2.1-1 apt_1.7.0 autoconf_2.69-11 automake_1:1.16.1-4 autopoint_0.19.8.1-8 autotools-dev_20180224.1 base-files_10.1ubuntu8 base-passwd_3.5.45 bash_4.4.18-2ubuntu3 binutils_2.31.1-7ubuntu1 binutils-common_2.31.1-7ubuntu1 binutils-s390x-linux-gnu_2.31.1-7ubuntu1 bsdmainutils_11.1.2ubuntu2 bsdutils_1:2.32-0.1ubuntu2 build-essential_12.5ubuntu2 bzip2_1.0.6-9 ca-certificates_20180409 coreutils_8.28-1ubuntu2 cpp_4:8.2.0-2ubuntu2 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libncurses6_6.1+20180210-4ubuntu1 libncursesw6_6.1+20180210-4ubuntu1 libnettle6_3.4-1 libnpth0_1.6-1 libp11-kit0_0.23.14-2 libpam-modules_1.1.8-3.6ubuntu2 libpam-modules-bin_1.1.8-3.6ubuntu2 libpam-runtime_1.1.8-3.6ubuntu2 libpam0g_1.1.8-3.6ubuntu2 libpcre3_2:8.39-11 libperl5.26_5.26.2-7 libperl5.28_5.28.0-3 libpipeline1_1.5.0-2 libpng16-16_1.6.34-2 libprocps7_2:3.3.15-2ubuntu1 libpython-all-dev_2.7.15-3 libpython-dev_2.7.15-3 libpython-stdlib_2.7.15-3 libpython2-dev_2.7.15-3 libpython2-stdlib_2.7.15-3 libpython2.7_2.7.15-4ubuntu4 libpython2.7-dev_2.7.15-4ubuntu4 libpython2.7-minimal_2.7.15-4ubuntu4 libpython2.7-stdlib_2.7.15-4ubuntu4 libpython3-all-dev_3.7.1-1ubuntu1 libpython3-dev_3.7.1-1ubuntu1 libpython3-stdlib_3.7.1-1ubuntu1 libpython3.7_3.7.1-1 libpython3.7-dev_3.7.1-1 libpython3.7-minimal_3.7.1-1 libpython3.7-stdlib_3.7.1-1 libreadline7_7.0-5 libseccomp2_2.3.3-3ubuntu2 libselinux1_2.8-1build2 libsemanage-common_2.8-1build2 libsemanage1_2.8-1build2 libsepol1_2.8-1 libsigsegv2_2.12-2 libslang2_2.3.2-1ubuntu1 libsmartcols1_2.32-0.1ubuntu2 libsqlite3-0_3.25.3-1 libss2_1.44.4-2 libssl1.1_1.1.1-1ubuntu2 libstdc++-8-dev_8.2.0-9ubuntu1 libstdc++6_8.2.0-9ubuntu1 libsystemd0_239-7ubuntu10.1 libsz2_1.0.2-1 libtasn1-6_4.13-3 libtinfo6_6.1+20180210-4ubuntu1 libtool_2.4.6-6 libubsan1_8.2.0-9ubuntu1 libudev1_239-7ubuntu10.1 libunistring2_0.9.10-1ubuntu1 libusb-0.1-4_2:0.1.12-32 libustr-1.0-1_1.0.4-6 libuuid1_2.32-0.1ubuntu2 libxml2_2.9.4+dfsg1-7ubuntu2 libzstd1_1.3.5+dfsg-1ubuntu1 linux-libc-dev_4.18.0-11.12 lockfile-progs_0.1.18 login_1:4.5-1ubuntu1 lsb-base_9.20170808ubuntu1 m4_1.4.18-1ubuntu1 make_4.2.1-1.2 man-db_2.8.4-3 mawk_1.3.3-17ubuntu3 mime-support_3.60ubuntu1 mount_2.32-0.1ubuntu2 multiarch-support_2.28-0ubuntu1 ncurses-base_6.1+20180210-4ubuntu1 ncurses-bin_6.1+20180210-4ubuntu1 openssl_1.1.1-1ubuntu2 optipng_0.7.6-1.1 passwd_1:4.5-1ubuntu1 patch_2.7.6-3 perl_5.28.0-3 perl-base_5.28.0-3 perl-modules-5.26_5.26.2-7 perl-modules-5.28_5.28.0-3 pinentry-curses_1.1.0-1build2 pkgbinarymangler_143 po-debconf_1.0.20 policyrcd-script-zg2_0.1-3 procps_2:3.3.15-2ubuntu1 python_2.7.15-3 python-all_2.7.15-3 python-all-dev_2.7.15-3 python-dev_2.7.15-3 python-minimal_2.7.15-3 python-pkg-resources_40.5.0-1 python-setuptools_40.5.0-1 python2_2.7.15-3 python2-dev_2.7.15-3 python2-minimal_2.7.15-3 python2.7_2.7.15-4ubuntu4 python2.7-dev_2.7.15-4ubuntu4 python2.7-minimal_2.7.15-4ubuntu4 python3_3.7.1-1ubuntu1 python3-all_3.7.1-1ubuntu1 python3-all-dev_3.7.1-1ubuntu1 python3-dev_3.7.1-1ubuntu1 python3-distutils_3.7.1-1ubuntu3 python3-lib2to3_3.7.1-1ubuntu3 python3-minimal_3.7.1-1ubuntu1 python3-pkg-resources_40.5.0-1 python3-setuptools_40.5.0-1 python3.7_3.7.1-1 python3.7-dev_3.7.1-1 python3.7-minimal_3.7.1-1 readline-common_7.0-5 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-fast5-dummy_0.invalid.0 sed_4.5-2 sensible-utils_0.0.12 systemd_239-7ubuntu10.1 systemd-sysv_239-7ubuntu10.1 sysv-rc_2.88dsf-59.3ubuntu2 sysvinit-utils_2.88dsf-59.10ubuntu2 tar_1.30+dfsg-2 tzdata_2018g-1 ubuntu-keyring_2018.09.18.1 util-linux_2.32-0.1ubuntu2 xz-utils_5.2.2-1.3 zlib1g_1:1.2.11.dfsg-0ubuntu2 zlib1g-dev_1:1.2.11.dfsg-0ubuntu2 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: Signature made Tue Oct 9 12:45:51 2018 UTC gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./fast5_0.6.5-2.dsc dpkg-source: info: extracting fast5 in fast5-0.6.5 dpkg-source: info: unpacking fast5_0.6.5.orig.tar.gz dpkg-source: info: unpacking fast5_0.6.5-2.debian.tar.xz dpkg-source: info: applying rpath.patch Check disc 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-15627318 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-15627318 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-15627318 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package fast5 dpkg-buildpackage: info: source version 0.6.5-2 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build fast5-0.6.5 dpkg-buildpackage: info: host architecture s390x dpkg-source: info: using options from fast5-0.6.5/debian/source/options: --extend-diff-ignore=^[^/]+\.egg-info/|python/fast5/fast5.cpp fakeroot debian/rules clean dh clean --with python2,python3 --buildsystem=pybuild \ --sourcedirectory=python debian/rules override_dh_auto_clean make[1]: Entering directory '/<>' cd src && /usr/bin/make clean make[2]: Entering directory '/<>/src' rm -rf f5ls f5ls-full hdf5-mod f5-mod f5dump f5pack make[2]: Leaving directory '/<>/src' dh_auto_clean I: pybuild base:217: python2.7 setup.py clean Compiling fast5/fast5.pyx because it changed. [1/1] Cythonizing fast5/fast5.pyx running clean removing '/<>/.pybuild/cpython2_2.7_fast5/build' (and everything under it) 'build/bdist.linux-s390x' does not exist -- can't clean it 'build/scripts-2.7' does not exist -- can't clean it I: pybuild base:217: python3.7 setup.py clean running clean removing '/<>/.pybuild/cpython3_3.7_fast5/build' (and everything under it) 'build/bdist.linux-s390x' does not exist -- can't clean it 'build/scripts-3.7' does not exist -- can't clean it rm -rf python/fast5/fast5.cpp make[1]: Leaving directory '/<>' dh_clean -O--buildsystem=pybuild -O--sourcedirectory=python debian/rules build-arch dh build-arch --with python2,python3 --buildsystem=pybuild \ --sourcedirectory=python dh_update_autotools_config -a -O--buildsystem=pybuild -O--sourcedirectory=python dh_autoreconf -a -O--buildsystem=pybuild -O--sourcedirectory=python dh_auto_configure -a -O--buildsystem=pybuild -O--sourcedirectory=python I: pybuild base:217: python2.7 setup.py config Compiling fast5/fast5.pyx because it changed. [1/1] Cythonizing fast5/fast5.pyx running config I: pybuild base:217: python3.7 setup.py config running config dh_auto_build -a -O--buildsystem=pybuild -O--sourcedirectory=python I: pybuild base:217: /usr/bin/python setup.py build running build running build_ext building 'fast5' extension creating build creating build/temp.linux-s390x-2.7 creating build/temp.linux-s390x-2.7/fast5 s390x-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I../include -I../src -I/usr/include/python2.7 -c fast5/fast5.cpp -o build/temp.linux-s390x-2.7/fast5/fast5.o -std=c++11 -Wall -Wextra -Wpedantic -isystem /usr/include/hdf5/serial cc1plus: warning: command line option ‘-Wstrict-prototypes’ is valid for C/ObjC but not for C++ fast5/fast5.cpp:1609:114: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] static PyMethodDef __pyx_mdef_5fast5_6Logger_1set_levels_from_options = {"set_levels_from_options", (PyCFunction)__pyx_pw_5fast5_6Logger_1set_levels_from_options, METH_VARARGS|METH_KEYWORDS, 0}; ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:2769:93: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] static PyMethodDef __pyx_mdef_5fast5_4File_15is_valid_file = {"is_valid_file", (PyCFunction)__pyx_pw_5fast5_4File_15is_valid_file, METH_VARARGS|METH_KEYWORDS, 0}; ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:9957:102: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] static PyMethodDef __pyx_mdef_5fast5_1__pyx_unpickle_Logger = {"__pyx_unpickle_Logger", (PyCFunction)__pyx_pw_5fast5_1__pyx_unpickle_Logger, METH_VARARGS|METH_KEYWORDS, 0}; ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11560:44: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"set_levels_from_options", (PyCFunction)__pyx_pw_5fast5_6Logger_1set_levels_from_options, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11653:25: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"open", (PyCFunction)__pyx_pw_5fast5_4File_9open, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11654:27: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"create", (PyCFunction)__pyx_pw_5fast5_4File_11create, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11656:34: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"is_valid_file", (PyCFunction)__pyx_pw_5fast5_4File_15is_valid_file, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11665:37: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_raw_samples", (PyCFunction)__pyx_pw_5fast5_4File_33have_raw_samples, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11668:43: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_raw_samples_params", (PyCFunction)__pyx_pw_5fast5_4File_39get_raw_samples_params, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11669:40: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_raw_int_samples", (PyCFunction)__pyx_pw_5fast5_4File_41get_raw_int_samples, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11670:36: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_raw_samples", (PyCFunction)__pyx_pw_5fast5_4File_43get_raw_samples, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11672:46: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_eventdetection_group", (PyCFunction)__pyx_pw_5fast5_4File_47have_eventdetection_group, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11673:46: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_eventdetection_params", (PyCFunction)__pyx_pw_5fast5_4File_49get_eventdetection_params, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11674:54: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_eventdetection_read_name_list", (PyCFunction)__pyx_pw_5fast5_4File_51get_eventdetection_read_name_list, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11675:47: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_eventdetection_events", (PyCFunction)__pyx_pw_5fast5_4File_53have_eventdetection_events, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11676:54: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_eventdetection_events_unpack", (PyCFunction)__pyx_pw_5fast5_4File_55have_eventdetection_events_unpack, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11677:52: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_eventdetection_events_pack", (PyCFunction)__pyx_pw_5fast5_4File_57have_eventdetection_events_pack, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11678:53: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_eventdetection_events_params", (PyCFunction)__pyx_pw_5fast5_4File_59get_eventdetection_events_params, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11679:46: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_eventdetection_events", (PyCFunction)__pyx_pw_5fast5_4File_61get_eventdetection_events, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11682:40: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_group", (PyCFunction)__pyx_pw_5fast5_4File_67have_basecall_group, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11683:47: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_strand_group", (PyCFunction)__pyx_pw_5fast5_4File_69have_basecall_strand_group, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11691:40: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_fastq", (PyCFunction)__pyx_pw_5fast5_4File_85have_basecall_fastq, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11692:47: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_fastq_unpack", (PyCFunction)__pyx_pw_5fast5_4File_87have_basecall_fastq_unpack, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11693:45: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_fastq_pack", (PyCFunction)__pyx_pw_5fast5_4File_89have_basecall_fastq_pack, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11694:39: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_basecall_fastq", (PyCFunction)__pyx_pw_5fast5_4File_91get_basecall_fastq, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11695:38: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_seq", (PyCFunction)__pyx_pw_5fast5_4File_93have_basecall_seq, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11696:37: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_basecall_seq", (PyCFunction)__pyx_pw_5fast5_4File_95get_basecall_seq, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11697:40: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_model", (PyCFunction)__pyx_pw_5fast5_4File_97have_basecall_model, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11698:44: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_basecall_model_file", (PyCFunction)__pyx_pw_5fast5_4File_99get_basecall_model_file, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11699:46: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_basecall_model_params", (PyCFunction)__pyx_pw_5fast5_4File_101get_basecall_model_params, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11700:39: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_basecall_model", (PyCFunction)__pyx_pw_5fast5_4File_103get_basecall_model, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11701:41: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_events", (PyCFunction)__pyx_pw_5fast5_4File_105have_basecall_events, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11702:48: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_events_unpack", (PyCFunction)__pyx_pw_5fast5_4File_107have_basecall_events_unpack, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11703:46: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_events_pack", (PyCFunction)__pyx_pw_5fast5_4File_109have_basecall_events_pack, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11704:47: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_basecall_events_params", (PyCFunction)__pyx_pw_5fast5_4File_111get_basecall_events_params, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11705:40: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_basecall_events", (PyCFunction)__pyx_pw_5fast5_4File_113get_basecall_events, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11706:44: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_alignment", (PyCFunction)__pyx_pw_5fast5_4File_115have_basecall_alignment, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11709:43: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_basecall_alignment", (PyCFunction)__pyx_pw_5fast5_4File_121get_basecall_alignment, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11803:24: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"run", (PyCFunction)__pyx_pw_5fast5_11File_Packer_11run, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ s390x-linux-gnu-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -Wdate-time -D_FORTIFY_SOURCE=2 -g -fdebug-prefix-map=/build/python2.7-J9SnyM/python2.7-2.7.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-s390x-2.7/fast5/fast5.o -L/usr/lib/s390x-linux-gnu/hdf5/serial -lhdf5 -o /<>/.pybuild/cpython2_2.7_fast5/build/fast5.so running build_scripts creating build/scripts-2.7 copying and adjusting bin/f5ls -> build/scripts-2.7 copying and adjusting bin/f5pack -> build/scripts-2.7 changing mode of build/scripts-2.7/f5ls from 664 to 775 changing mode of build/scripts-2.7/f5pack from 664 to 775 I: pybuild base:217: /usr/bin/python3 setup.py build running build running build_ext building 'fast5' extension creating build/temp.linux-s390x-3.7 creating build/temp.linux-s390x-3.7/fast5 s390x-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I../include -I../src -I/usr/include/python3.7m -c fast5/fast5.cpp -o build/temp.linux-s390x-3.7/fast5/fast5.o -std=c++11 -Wall -Wextra -Wpedantic -isystem /usr/include/hdf5/serial fast5/fast5.cpp:1609:114: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] static PyMethodDef __pyx_mdef_5fast5_6Logger_1set_levels_from_options = {"set_levels_from_options", (PyCFunction)__pyx_pw_5fast5_6Logger_1set_levels_from_options, METH_VARARGS|METH_KEYWORDS, 0}; ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:2769:93: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] static PyMethodDef __pyx_mdef_5fast5_4File_15is_valid_file = {"is_valid_file", (PyCFunction)__pyx_pw_5fast5_4File_15is_valid_file, METH_VARARGS|METH_KEYWORDS, 0}; ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:9957:102: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] static PyMethodDef __pyx_mdef_5fast5_1__pyx_unpickle_Logger = {"__pyx_unpickle_Logger", (PyCFunction)__pyx_pw_5fast5_1__pyx_unpickle_Logger, METH_VARARGS|METH_KEYWORDS, 0}; ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11560:44: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"set_levels_from_options", (PyCFunction)__pyx_pw_5fast5_6Logger_1set_levels_from_options, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11653:25: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"open", (PyCFunction)__pyx_pw_5fast5_4File_9open, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11654:27: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"create", (PyCFunction)__pyx_pw_5fast5_4File_11create, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11656:34: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"is_valid_file", (PyCFunction)__pyx_pw_5fast5_4File_15is_valid_file, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11665:37: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_raw_samples", (PyCFunction)__pyx_pw_5fast5_4File_33have_raw_samples, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11668:43: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_raw_samples_params", (PyCFunction)__pyx_pw_5fast5_4File_39get_raw_samples_params, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11669:40: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_raw_int_samples", (PyCFunction)__pyx_pw_5fast5_4File_41get_raw_int_samples, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11670:36: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_raw_samples", (PyCFunction)__pyx_pw_5fast5_4File_43get_raw_samples, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11672:46: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_eventdetection_group", (PyCFunction)__pyx_pw_5fast5_4File_47have_eventdetection_group, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11673:46: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_eventdetection_params", (PyCFunction)__pyx_pw_5fast5_4File_49get_eventdetection_params, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11674:54: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_eventdetection_read_name_list", (PyCFunction)__pyx_pw_5fast5_4File_51get_eventdetection_read_name_list, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11675:47: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_eventdetection_events", (PyCFunction)__pyx_pw_5fast5_4File_53have_eventdetection_events, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11676:54: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_eventdetection_events_unpack", (PyCFunction)__pyx_pw_5fast5_4File_55have_eventdetection_events_unpack, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11677:52: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_eventdetection_events_pack", (PyCFunction)__pyx_pw_5fast5_4File_57have_eventdetection_events_pack, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11678:53: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_eventdetection_events_params", (PyCFunction)__pyx_pw_5fast5_4File_59get_eventdetection_events_params, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11679:46: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_eventdetection_events", (PyCFunction)__pyx_pw_5fast5_4File_61get_eventdetection_events, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11682:40: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_group", (PyCFunction)__pyx_pw_5fast5_4File_67have_basecall_group, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11683:47: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_strand_group", (PyCFunction)__pyx_pw_5fast5_4File_69have_basecall_strand_group, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11691:40: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_fastq", (PyCFunction)__pyx_pw_5fast5_4File_85have_basecall_fastq, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11692:47: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_fastq_unpack", (PyCFunction)__pyx_pw_5fast5_4File_87have_basecall_fastq_unpack, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11693:45: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_fastq_pack", (PyCFunction)__pyx_pw_5fast5_4File_89have_basecall_fastq_pack, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11694:39: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_basecall_fastq", (PyCFunction)__pyx_pw_5fast5_4File_91get_basecall_fastq, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11695:38: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_seq", (PyCFunction)__pyx_pw_5fast5_4File_93have_basecall_seq, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11696:37: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_basecall_seq", (PyCFunction)__pyx_pw_5fast5_4File_95get_basecall_seq, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11697:40: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_model", (PyCFunction)__pyx_pw_5fast5_4File_97have_basecall_model, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11698:44: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_basecall_model_file", (PyCFunction)__pyx_pw_5fast5_4File_99get_basecall_model_file, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11699:46: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_basecall_model_params", (PyCFunction)__pyx_pw_5fast5_4File_101get_basecall_model_params, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11700:39: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_basecall_model", (PyCFunction)__pyx_pw_5fast5_4File_103get_basecall_model, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11701:41: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_events", (PyCFunction)__pyx_pw_5fast5_4File_105have_basecall_events, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11702:48: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_events_unpack", (PyCFunction)__pyx_pw_5fast5_4File_107have_basecall_events_unpack, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11703:46: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_events_pack", (PyCFunction)__pyx_pw_5fast5_4File_109have_basecall_events_pack, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11704:47: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_basecall_events_params", (PyCFunction)__pyx_pw_5fast5_4File_111get_basecall_events_params, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11705:40: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_basecall_events", (PyCFunction)__pyx_pw_5fast5_4File_113get_basecall_events, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11706:44: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_alignment", (PyCFunction)__pyx_pw_5fast5_4File_115have_basecall_alignment, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11709:43: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_basecall_alignment", (PyCFunction)__pyx_pw_5fast5_4File_121get_basecall_alignment, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11803:24: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"run", (PyCFunction)__pyx_pw_5fast5_11File_Packer_11run, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp: In function ‘PyObject* __Pyx_PyCFunction_FastCall(PyObject*, PyObject**, Py_ssize_t)’: fast5/fast5.cpp:13068:54: warning: cast between incompatible function types from ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} to ‘_PyCFunctionFastWithKeywords’ {aka ‘_object* (*)(_object*, _object* const*, long int, _object*)’} [-Wcast-function-type] return (*((__Pyx_PyCFunctionFastWithKeywords)meth)) (self, args, nargs, NULL); ^~~~ fast5/fast5.cpp:13070:42: warning: cast between incompatible function types from ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} to ‘_PyCFunctionFast’ {aka ‘_object* (*)(_object*, _object* const*, long int)’} [-Wcast-function-type] return (*((__Pyx_PyCFunctionFast)meth)) (self, args, nargs); ^~~~ s390x-linux-gnu-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-s390x-3.7/fast5/fast5.o -L/usr/lib/s390x-linux-gnu/hdf5/serial -lhdf5 -o /<>/.pybuild/cpython3_3.7_fast5/build/fast5.cpython-37m-s390x-linux-gnu.so running build_scripts creating build/scripts-3.7 copying and adjusting bin/f5ls -> build/scripts-3.7 copying and adjusting bin/f5pack -> build/scripts-3.7 changing mode of build/scripts-3.7/f5ls from 664 to 775 changing mode of build/scripts-3.7/f5pack from 664 to 775 debian/rules override_dh_auto_test make[1]: Entering directory '/<>' cd src && /usr/bin/make make[2]: Entering directory '/<>/src' g++ -std=c++11 -O0 -g3 -ggdb -fno-eliminate-unused-debug-types -Wall -Wextra -Wpedantic -isystem /usr/include/hdf5/serial -I /<>/src/../include -o f5ls f5ls.cpp -L/usr/lib/s390x-linux-gnu/hdf5/serial -Wl,--rpath=/usr/lib/s390x-linux-gnu/hdf5/serial -lhdf5 -lpthread -lz -ldl g++ -std=c++11 -O0 -g3 -ggdb -fno-eliminate-unused-debug-types -Wall -Wextra -Wpedantic -isystem /usr/include/hdf5/serial -I /<>/src/../include -o f5ls-full f5ls-full.cpp -L/usr/lib/s390x-linux-gnu/hdf5/serial -Wl,--rpath=/usr/lib/s390x-linux-gnu/hdf5/serial -lhdf5 -lpthread -lz -ldl g++ -std=c++11 -O0 -g3 -ggdb -fno-eliminate-unused-debug-types -Wall -Wextra -Wpedantic -isystem /usr/include/hdf5/serial -I /<>/src/../include -o hdf5-mod hdf5-mod.cpp -L/usr/lib/s390x-linux-gnu/hdf5/serial -Wl,--rpath=/usr/lib/s390x-linux-gnu/hdf5/serial -lhdf5 -lpthread -lz -ldl g++ -std=c++11 -O0 -g3 -ggdb -fno-eliminate-unused-debug-types -Wall -Wextra -Wpedantic -isystem /usr/include/hdf5/serial -I /<>/src/../include -o f5-mod f5-mod.cpp -L/usr/lib/s390x-linux-gnu/hdf5/serial -Wl,--rpath=/usr/lib/s390x-linux-gnu/hdf5/serial -lhdf5 -lpthread -lz -ldl make[2]: Leaving directory '/<>/src' make[1]: Leaving directory '/<>' create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary-arch dh binary-arch --with python2,python3 --buildsystem=pybuild \ --sourcedirectory=python dh_testroot -a -O--buildsystem=pybuild -O--sourcedirectory=python dh_prep -a -O--buildsystem=pybuild -O--sourcedirectory=python dh_auto_install -a -O--buildsystem=pybuild -O--sourcedirectory=python I: pybuild base:217: /usr/bin/python setup.py install --root /<>/debian/python-fast5 running install running build running build_ext running build_scripts running install_lib creating /<>/debian/python-fast5/usr creating /<>/debian/python-fast5/usr/lib creating /<>/debian/python-fast5/usr/lib/python2.7 creating /<>/debian/python-fast5/usr/lib/python2.7/dist-packages copying /<>/.pybuild/cpython2_2.7_fast5/build/fast5.so -> /<>/debian/python-fast5/usr/lib/python2.7/dist-packages running install_egg_info running egg_info creating fast5.egg-info writing fast5.egg-info/PKG-INFO writing top-level names to fast5.egg-info/top_level.txt writing dependency_links to fast5.egg-info/dependency_links.txt writing manifest file 'fast5.egg-info/SOURCES.txt' reading manifest file 'fast5.egg-info/SOURCES.txt' writing manifest file 'fast5.egg-info/SOURCES.txt' Copying fast5.egg-info to /<>/debian/python-fast5/usr/lib/python2.7/dist-packages/fast5-0.6.2.egg-info Skipping SOURCES.txt running install_scripts creating /<>/debian/python-fast5/usr/bin copying build/scripts-2.7/f5pack -> /<>/debian/python-fast5/usr/bin copying build/scripts-2.7/f5ls -> /<>/debian/python-fast5/usr/bin changing mode of /<>/debian/python-fast5/usr/bin/f5pack to 775 changing mode of /<>/debian/python-fast5/usr/bin/f5ls to 775 I: pybuild base:217: /usr/bin/python3 setup.py install --root /<>/debian/python3-fast5 running install running build running build_ext running build_scripts running install_lib creating /<>/debian/python3-fast5/usr creating /<>/debian/python3-fast5/usr/lib creating /<>/debian/python3-fast5/usr/lib/python3.7 creating /<>/debian/python3-fast5/usr/lib/python3.7/dist-packages copying /<>/.pybuild/cpython3_3.7_fast5/build/fast5.cpython-37m-s390x-linux-gnu.so -> /<>/debian/python3-fast5/usr/lib/python3.7/dist-packages running install_egg_info running egg_info writing fast5.egg-info/PKG-INFO writing dependency_links to fast5.egg-info/dependency_links.txt writing top-level names to fast5.egg-info/top_level.txt reading manifest file 'fast5.egg-info/SOURCES.txt' writing manifest file 'fast5.egg-info/SOURCES.txt' Copying fast5.egg-info to /<>/debian/python3-fast5/usr/lib/python3.7/dist-packages/fast5-0.6.2.egg-info Skipping SOURCES.txt running install_scripts creating /<>/debian/python3-fast5/usr/bin copying build/scripts-3.7/f5pack -> /<>/debian/python3-fast5/usr/bin copying build/scripts-3.7/f5ls -> /<>/debian/python3-fast5/usr/bin changing mode of /<>/debian/python3-fast5/usr/bin/f5pack to 775 changing mode of /<>/debian/python3-fast5/usr/bin/f5ls to 775 debian/rules override_dh_install make[1]: Entering directory '/<>' dh_install mkdir -p debian/fast5/usr/bin/ mv debian/python3-fast5/usr/bin/* debian/fast5/usr/bin/ rm -rf debian/python-fast5/usr/bin/ debian/python3-fast5/usr/bin/ make[1]: Leaving directory '/<>' dh_installdocs -a -O--buildsystem=pybuild -O--sourcedirectory=python dh_installchangelogs -a -O--buildsystem=pybuild -O--sourcedirectory=python dh_installexamples -a -O--buildsystem=pybuild -O--sourcedirectory=python dh_python2 -a -O--buildsystem=pybuild -O--sourcedirectory=python I: dh_python2 fs:329: renaming fast5.so to fast5.s390x-linux-gnu.so dh_python3 -a -O--buildsystem=pybuild -O--sourcedirectory=python dh_perl -a -O--buildsystem=pybuild -O--sourcedirectory=python dh_link -a -O--buildsystem=pybuild -O--sourcedirectory=python dh_strip_nondeterminism -a -O--buildsystem=pybuild -O--sourcedirectory=python debian/rules override_dh_compress make[1]: Entering directory '/<>' cd src && /usr/bin/make clean make[2]: Entering directory '/<>/src' rm -rf f5ls f5ls-full hdf5-mod f5-mod f5dump f5pack make[2]: Leaving directory '/<>/src' dh_compress -X .cpp -X .hpp make[1]: Leaving directory '/<>' dh_fixperms -a -O--buildsystem=pybuild -O--sourcedirectory=python dh_missing -a -O--buildsystem=pybuild -O--sourcedirectory=python dh_strip -a -O--buildsystem=pybuild -O--sourcedirectory=python dh_makeshlibs -a -O--buildsystem=pybuild -O--sourcedirectory=python dh_shlibdeps -a -O--buildsystem=pybuild -O--sourcedirectory=python dh_installdeb -a -O--buildsystem=pybuild -O--sourcedirectory=python dh_gencontrol -a -O--buildsystem=pybuild -O--sourcedirectory=python dpkg-gencontrol: warning: package python-fast5: unused substitution variable ${python:Provides} dpkg-gencontrol: warning: package python-fast5: unused substitution variable ${python:Versions} dpkg-gencontrol: warning: package python3-fast5: unused substitution variable ${python3:Provides} dpkg-gencontrol: warning: package python3-fast5: unused substitution variable ${python3:Versions} dpkg-gencontrol: warning: package python-fast5: unused substitution variable ${python:Provides} dpkg-gencontrol: warning: package python-fast5: unused substitution variable ${python:Versions} dpkg-gencontrol: warning: package python3-fast5: unused substitution variable ${python3:Provides} dpkg-gencontrol: warning: package python3-fast5: unused substitution variable ${python3:Versions} dh_md5sums -a -O--buildsystem=pybuild -O--sourcedirectory=python dh_builddeb -a -O--buildsystem=pybuild -O--sourcedirectory=python INFO: pkgstriptranslations version 143 INFO: pkgstriptranslations version 143 INFO: pkgstriptranslations version 143 INFO: pkgstriptranslations version 143 pkgstriptranslations: processing python-fast5-dbgsym (in debian/.debhelper/python-fast5/dbgsym-root); do_strip: , oemstrip: pkgstriptranslations: processing python-fast5 (in debian/python-fast5); do_strip: , oemstrip: pkgstriptranslations: processing python3-fast5 (in debian/python3-fast5); do_strip: , oemstrip: pkgstriptranslations: processing python3-fast5-dbgsym (in debian/.debhelper/python3-fast5/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/.debhelper/python-fast5/dbgsym-root/DEBIAN/control, package python-fast5-dbgsym, directory debian/.debhelper/python-fast5/dbgsym-root dpkg-deb: building package 'python-fast5-dbgsym' in 'debian/.debhelper/scratch-space/build-python-fast5/python-fast5-dbgsym_0.6.5-2_s390x.deb'. pkgstripfiles: processing control file: debian/python-fast5/DEBIAN/control, package python-fast5, directory debian/python-fast5 pkgstripfiles: processing control file: debian/python3-fast5/DEBIAN/control, package python3-fast5, directory debian/python3-fast5 INFO: pkgstripfiles: waiting for lock (python3-fast5) ... pkgstripfiles: Truncating usr/share/doc/python-fast5/changelog.Debian.gz to topmost ten records pkgstripfiles: Running PNG optimization (using 4 cpus) for package python-fast5 ... pkgstripfiles: No PNG files. dpkg-deb: building package 'python-fast5' in '../python-fast5_0.6.5-2_s390x.deb'. Renaming python-fast5-dbgsym_0.6.5-2_s390x.deb to python-fast5-dbgsym_0.6.5-2_s390x.ddeb pkgstripfiles: Truncating usr/share/doc/python3-fast5/changelog.Debian.gz to topmost ten records pkgstripfiles: Running PNG optimization (using 4 cpus) for package python3-fast5 ... pkgstripfiles: No PNG files. dpkg-deb: building package 'python3-fast5' in '../python3-fast5_0.6.5-2_s390x.deb'. pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/.debhelper/python3-fast5/dbgsym-root/DEBIAN/control, package python3-fast5-dbgsym, directory debian/.debhelper/python3-fast5/dbgsym-root dpkg-deb: building package 'python3-fast5-dbgsym' in 'debian/.debhelper/scratch-space/build-python3-fast5/python3-fast5-dbgsym_0.6.5-2_s390x.deb'. Renaming python3-fast5-dbgsym_0.6.5-2_s390x.deb to python3-fast5-dbgsym_0.6.5-2_s390x.ddeb dpkg-genbuildinfo --build=any dpkg-genchanges --build=any -mLaunchpad Build Daemon >../fast5_0.6.5-2_s390x.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build fast5-0.6.5 dpkg-source: info: using options from fast5-0.6.5/debian/source/options: --extend-diff-ignore=^[^/]+\.egg-info/|python/fast5/fast5.cpp dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 20181109-0916 Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ fast5_0.6.5-2_s390x.changes: ---------------------------- Format: 1.8 Date: Tue, 09 Oct 2018 14:34:41 +0200 Source: fast5 Binary: fast5 libfast5-dev python-fast5 python3-fast5 Architecture: s390x Version: 0.6.5-2 Distribution: disco-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Andreas Tille Description: fast5 - utilities for manipulating Oxford Nanopore Fast5 files libfast5-dev - library for reading Oxford Nanopore Fast5 files -- headers python-fast5 - library for reading Oxford Nanopore Fast5 files -- Python 2 python3-fast5 - library for reading Oxford Nanopore Fast5 files -- Python 3 Closes: 910655 Changes: fast5 (0.6.5-2) unstable; urgency=medium . * Team upload. * Point Vcs fields to salsa.debian.org * Standards-Version: 4.2.1 * Do not install example binaries to enable reproducible builds (thanks for the patch to Chris Lamb ) Closes: #910655 * Respect DEB_BUILD_OPTIONS in override_dh_auto_test Checksums-Sha1: befc13be26d863dd6cf9a01ab9dc741ccece4db2 7636 fast5_0.6.5-2_s390x.buildinfo 29c216e7386cb51f39c981fb1ffd89b2c08967e2 2589808 python-fast5-dbgsym_0.6.5-2_s390x.ddeb 1fd3fea627159eb15133ad94451bf747d628b91a 187472 python-fast5_0.6.5-2_s390x.deb fb6b394583bfa6f89782683cc9d746b8996a1b5e 2614016 python3-fast5-dbgsym_0.6.5-2_s390x.ddeb 854ba7c1f759a5561ff0d0209ab09ea769a16a69 188192 python3-fast5_0.6.5-2_s390x.deb Checksums-Sha256: 5754ea38b1f7b19efda6d87014aee23077685a3603280700b1f10e349fda0c32 7636 fast5_0.6.5-2_s390x.buildinfo 6261b38161bfbf66ac479b9696d88fe10535a8e5f1241687aafb5e1fb66b793c 2589808 python-fast5-dbgsym_0.6.5-2_s390x.ddeb 96e71fc5bf43f6bafc67b6ef4d0536a9e2551b2c4d8abca2aa8998572562da94 187472 python-fast5_0.6.5-2_s390x.deb dabf36f8d0c181aa481d9a87cb3c897164cf862d861d7d380f1da8c8bc9a38e8 2614016 python3-fast5-dbgsym_0.6.5-2_s390x.ddeb 80e6634e361bcea28ea4c4d5d310773db46e6104e5dd4f5e2d816ff35f6f0f71 188192 python3-fast5_0.6.5-2_s390x.deb Files: 717575d17e64427b35aab97188a5e337 7636 science optional fast5_0.6.5-2_s390x.buildinfo d6db8bfec6b5d732d0f14626b44c715f 2589808 debug optional python-fast5-dbgsym_0.6.5-2_s390x.ddeb cba1d5e54bfae208d6034bbe2a92ad8e 187472 python optional python-fast5_0.6.5-2_s390x.deb 2847d245bc23c8180dd9c8da54baa123 2614016 debug optional python3-fast5-dbgsym_0.6.5-2_s390x.ddeb d3ded7f06e04c8e832b98eb762f76309 188192 python optional python3-fast5_0.6.5-2_s390x.deb +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ python-fast5_0.6.5-2_s390x.deb ------------------------------ new debian package, version 2.0. size 187472 bytes: control archive=924 bytes. 704 bytes, 16 lines control 548 bytes, 6 lines md5sums Package: python-fast5 Source: fast5 Version: 0.6.5-2 Architecture: s390x Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 736 Depends: libc6 (>= 2.4), libgcc1 (>= 1:3.0), libhdf5-100, libstdc++6 (>= 5.2), python (<< 2.8), python (>= 2.7~), python:any (<< 2.8), python:any (>= 2.7~) Section: python Priority: optional Homepage: https://github.com/mateidavid/fast5 Description: library for reading Oxford Nanopore Fast5 files -- Python 2 A lightweight C++11 library to read raw signal data from Oxford Nanopore's FAST5 files. . This package provides the Python 2 library drwxr-xr-x root/root 0 2018-10-09 12:34 ./ drwxr-xr-x root/root 0 2018-10-09 12:34 ./usr/ drwxr-xr-x root/root 0 2018-10-09 12:34 ./usr/lib/ drwxr-xr-x root/root 0 2018-10-09 12:34 ./usr/lib/python2.7/ drwxr-xr-x root/root 0 2018-10-09 12:34 ./usr/lib/python2.7/dist-packages/ drwxr-xr-x root/root 0 2018-10-09 12:34 ./usr/lib/python2.7/dist-packages/fast5-0.6.2.egg-info/ -rw-r--r-- root/root 278 2018-10-09 12:34 ./usr/lib/python2.7/dist-packages/fast5-0.6.2.egg-info/PKG-INFO -rw-r--r-- root/root 1 2018-10-09 12:34 ./usr/lib/python2.7/dist-packages/fast5-0.6.2.egg-info/dependency_links.txt -rw-r--r-- root/root 6 2018-10-09 12:34 ./usr/lib/python2.7/dist-packages/fast5-0.6.2.egg-info/top_level.txt -rw-r--r-- root/root 736080 2018-10-09 12:34 ./usr/lib/python2.7/dist-packages/fast5.s390x-linux-gnu.so drwxr-xr-x root/root 0 2018-10-09 12:34 ./usr/share/ drwxr-xr-x root/root 0 2018-10-09 12:34 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-10-09 12:34 ./usr/share/doc/python-fast5/ -rw-r--r-- root/root 1011 2018-10-09 12:34 ./usr/share/doc/python-fast5/changelog.Debian.gz -rw-r--r-- root/root 1441 2018-10-09 12:34 ./usr/share/doc/python-fast5/copyright python3-fast5_0.6.5-2_s390x.deb ------------------------------- new debian package, version 2.0. size 188192 bytes: control archive=924 bytes. 664 bytes, 16 lines control 554 bytes, 6 lines md5sums Package: python3-fast5 Source: fast5 Version: 0.6.5-2 Architecture: s390x Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 740 Depends: libc6 (>= 2.4), libgcc1 (>= 1:3.0), libhdf5-100, libstdc++6 (>= 5.2), python3 (<< 3.8), python3 (>= 3.7~) Section: python Priority: optional Homepage: https://github.com/mateidavid/fast5 Description: library for reading Oxford Nanopore Fast5 files -- Python 3 A lightweight C++11 library to read raw signal data from Oxford Nanopore's FAST5 files. . This package provides the Python 3 library drwxr-xr-x root/root 0 2018-10-09 12:34 ./ drwxr-xr-x root/root 0 2018-10-09 12:34 ./usr/ drwxr-xr-x root/root 0 2018-10-09 12:34 ./usr/lib/ drwxr-xr-x root/root 0 2018-10-09 12:34 ./usr/lib/python3/ drwxr-xr-x root/root 0 2018-10-09 12:34 ./usr/lib/python3/dist-packages/ drwxr-xr-x root/root 0 2018-10-09 12:34 ./usr/lib/python3/dist-packages/fast5-0.6.2.egg-info/ -rw-r--r-- root/root 278 2018-10-09 12:34 ./usr/lib/python3/dist-packages/fast5-0.6.2.egg-info/PKG-INFO -rw-r--r-- root/root 1 2018-10-09 12:34 ./usr/lib/python3/dist-packages/fast5-0.6.2.egg-info/dependency_links.txt -rw-r--r-- root/root 6 2018-10-09 12:34 ./usr/lib/python3/dist-packages/fast5-0.6.2.egg-info/top_level.txt -rw-r--r-- root/root 740304 2018-10-09 12:34 ./usr/lib/python3/dist-packages/fast5.cpython-37m-s390x-linux-gnu.so drwxr-xr-x root/root 0 2018-10-09 12:34 ./usr/share/ drwxr-xr-x root/root 0 2018-10-09 12:34 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-10-09 12:34 ./usr/share/doc/python3-fast5/ -rw-r--r-- root/root 1010 2018-10-09 12:34 ./usr/share/doc/python3-fast5/changelog.Debian.gz -rw-r--r-- root/root 1441 2018-10-09 12:34 ./usr/share/doc/python3-fast5/copyright +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: s390x Build-Space: 91204 Build-Time: 89 Distribution: disco-proposed Host Architecture: s390x Install-Time: 25 Job: fast5_0.6.5-2.dsc Machine Architecture: s390x Package: fast5 Package-Time: 114 Source-Version: 0.6.5-2 Space: 91204 Status: successful Version: 0.6.5-2 -------------------------------------------------------------------------------- Finished at 20181109-0916 Build needed 00:01:54, 91204k disc space RUN: /usr/share/launchpad-buildd/slavebin/in-target scan-for-processes --backend=chroot --series=disco --arch=s390x PACKAGEBUILD-15627318 Scanning for processes to kill in build PACKAGEBUILD-15627318