Thu Jun 8 14:13:04 UTC 2023 I: starting to build libslow5lib/bookworm/arm64 on jenkins on '2023-06-08 14:12' Thu Jun 8 14:13:04 UTC 2023 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_15/593/console.log Thu Jun 8 14:13:04 UTC 2023 I: Downloading source for bookworm/libslow5lib=0.7.0+dfsg-2 --2023-06-08 14:13:04-- http://cdn-fastly.deb.debian.org/debian/pool/main/libs/libslow5lib/libslow5lib_0.7.0%2bdfsg-2.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 1748 (1.7K) [text/prs.lines.tag] Saving to: ‘libslow5lib_0.7.0+dfsg-2.dsc’ 0K . 100% 2.35M=0.001s 2023-06-08 14:13:04 (2.35 MB/s) - ‘libslow5lib_0.7.0+dfsg-2.dsc’ saved [1748/1748] Thu Jun 8 14:13:05 UTC 2023 I: libslow5lib_0.7.0+dfsg-2.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: libslow5lib Binary: libslow5-0, libslow5-dev, python3-slow5 Architecture: any Version: 0.7.0+dfsg-2 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://github.com/hasindu2008/slow5lib Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/libslow5lib Vcs-Git: https://salsa.debian.org/med-team/libslow5lib.git Testsuite: autopkgtest Testsuite-Triggers: build-essential, libstreamvbyte-dev, python3-all, zlib1g-dev Build-Depends: debhelper-compat (= 13), cmake, d-shlibs, dh-python, python3-all-dev, libstreamvbyte-dev, libzstd-dev, zlib1g-dev, cython3, python3-setuptools, python3-numpy, python3-wheel Package-List: libslow5-0 deb libs optional arch=any libslow5-dev deb libdevel optional arch=any python3-slow5 deb python optional arch=any Checksums-Sha1: cbad8da474b7d88ed5f766eaa2d9db2c85e1f3a3 2014308 libslow5lib_0.7.0+dfsg.orig.tar.xz 4a1324c036049f7ec0ab2319e7a41f8f4af7a4be 7972 libslow5lib_0.7.0+dfsg-2.debian.tar.xz Checksums-Sha256: 8a60fc89a8a641bb49c6ad3c308371d7152c61756aa67c1946b3d87f49364d3d 2014308 libslow5lib_0.7.0+dfsg.orig.tar.xz 86263b7d02a720ab8fdf1bd43b5bf54aed00fda30de5184a845de8005b7ddb04 7972 libslow5lib_0.7.0+dfsg-2.debian.tar.xz Files: 9bfd15ff3ab3938925d84fea770a8848 2014308 libslow5lib_0.7.0+dfsg.orig.tar.xz 5bea57b0d116f2e2a83e0d2140d18c40 7972 libslow5lib_0.7.0+dfsg-2.debian.tar.xz -----BEGIN PGP SIGNATURE----- iHUEARYIAB0WIQSglbZu4JAkvuai8HIqJ5BL1yQ+2gUCY8MtggAKCRAqJ5BL1yQ+ 2o/OAP9/UGseM16fUa/FRUL5uHeqS/4/pxIYyU9uUk4cHV2vEAD9G5C+d5fdYYpF rHDaWVjLwTozxtIaqc8Djo1QDbPCnQ0= =JOjI -----END PGP SIGNATURE----- Thu Jun 8 14:13:05 UTC 2023 I: Checking whether the package is not for us Thu Jun 8 14:13:05 UTC 2023 I: Starting 1st build on remote node codethink12-arm64.debian.net. Thu Jun 8 14:13:05 UTC 2023 I: Preparing to do remote build '1' on codethink12-arm64.debian.net. Thu Jun 8 14:17:43 UTC 2023 I: Deleting $TMPDIR on codethink12-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Thu Jun 8 02:13:08 -12 2023 I: pbuilder-time-stamp: 1686233588 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bookworm-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [libslow5lib_0.7.0+dfsg-2.dsc] I: copying [./libslow5lib_0.7.0+dfsg.orig.tar.xz] I: copying [./libslow5lib_0.7.0+dfsg-2.debian.tar.xz] I: Extracting source gpgv: Signature made Sat Jan 14 10:32:34 2023 -12 gpgv: using EDDSA key A095B66EE09024BEE6A2F0722A27904BD7243EDA gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./libslow5lib_0.7.0+dfsg-2.dsc: no acceptable signature found dpkg-source: info: extracting libslow5lib in libslow5lib-0.7.0+dfsg dpkg-source: info: unpacking libslow5lib_0.7.0+dfsg.orig.tar.xz dpkg-source: info: unpacking libslow5lib_0.7.0+dfsg-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying use_debian_packaged_streamvbyte.patch dpkg-source: info: applying enable_shared_and_static.patch dpkg-source: info: applying fix-baseline.patch dpkg-source: info: applying hardening.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/18195/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=8 ' DISTRIBUTION='bookworm' HOME='/var/lib/jenkins' HOST_ARCH='arm64' IFS=' ' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='18195' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.6riG9nqr/pbuilderrc_W0oi --distribution bookworm --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.6riG9nqr/b1 --logfile b1/build.log libslow5lib_0.7.0+dfsg-2.dsc' SUDO_GID='117' SUDO_UID='110' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' USERNAME='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.16:3128' I: uname -a Linux codethink12-arm64 4.15.0-212-generic #223-Ubuntu SMP Tue May 23 13:09:17 UTC 2023 aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Jun 5 22:26 /bin -> usr/bin I: user script /srv/workspace/pbuilder/18195/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), cmake, d-shlibs, dh-python, python3-all-dev, libstreamvbyte-dev, libzstd-dev, zlib1g-dev, cython3, python3-setuptools, python3-numpy, python3-wheel dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19611 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on d-shlibs; however: Package d-shlibs is not installed. pbuilder-satisfydepends-dummy depends on dh-python; however: Package dh-python is not installed. pbuilder-satisfydepends-dummy depends on python3-all-dev; however: Package python3-all-dev is not installed. pbuilder-satisfydepends-dummy depends on libstreamvbyte-dev; however: Package libstreamvbyte-dev is not installed. pbuilder-satisfydepends-dummy depends on libzstd-dev; however: Package libzstd-dev is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on cython3; however: Package cython3 is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on python3-numpy; however: Package python3-numpy is not installed. pbuilder-satisfydepends-dummy depends on python3-wheel; however: Package python3-wheel is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} cmake{a} cmake-data{a} cython3{a} d-shlibs{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libarchive13{a} libblas3{a} libbrotli1{a} libcurl4{a} libdebhelper-perl{a} libelf1{a} libexpat1{a} libexpat1-dev{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libicu72{a} libjs-jquery{a} libjs-sphinxdoc{a} libjs-underscore{a} libjsoncpp25{a} liblapack3{a} libldap-2.5-0{a} libmagic-mgc{a} libmagic1{a} libnghttp2-14{a} libpipeline1{a} libproc2-0{a} libpsl5{a} libpython3-all-dev{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.11{a} libpython3.11-dev{a} libpython3.11-minimal{a} libpython3.11-stdlib{a} libreadline8{a} librhash0{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1{a} libstreamvbyte-dev{a} libstreamvbyte0{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libuv1{a} libxml2{a} libzstd-dev{a} m4{a} man-db{a} media-types{a} po-debconf{a} procps{a} python3{a} python3-all{a} python3-all-dev{a} python3-dev{a} python3-distutils{a} python3-lib2to3{a} python3-minimal{a} python3-numpy{a} python3-pkg-resources{a} python3-setuptools{a} python3-wheel{a} python3.11{a} python3.11-dev{a} python3.11-minimal{a} readline-common{a} sensible-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl javascript-common libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx psmisc publicsuffix wget 0 packages upgraded, 86 newly installed, 0 to remove and 0 not upgraded. Need to get 53.3 MB of archives. After unpacking 227 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bookworm/main arm64 libpython3.11-minimal arm64 3.11.2-6 [806 kB] Get: 2 http://deb.debian.org/debian bookworm/main arm64 libexpat1 arm64 2.5.0-1 [84.8 kB] Get: 3 http://deb.debian.org/debian bookworm/main arm64 python3.11-minimal arm64 3.11.2-6 [1858 kB] Get: 4 http://deb.debian.org/debian bookworm/main arm64 python3-minimal arm64 3.11.2-1+b1 [26.3 kB] Get: 5 http://deb.debian.org/debian bookworm/main arm64 media-types all 10.0.0 [26.1 kB] Get: 6 http://deb.debian.org/debian bookworm/main arm64 readline-common all 8.2-1.3 [69.0 kB] Get: 7 http://deb.debian.org/debian bookworm/main arm64 libreadline8 arm64 8.2-1.3 [155 kB] Get: 8 http://deb.debian.org/debian bookworm/main arm64 libpython3.11-stdlib arm64 3.11.2-6 [1747 kB] Get: 9 http://deb.debian.org/debian bookworm/main arm64 python3.11 arm64 3.11.2-6 [572 kB] Get: 10 http://deb.debian.org/debian bookworm/main arm64 libpython3-stdlib arm64 3.11.2-1+b1 [9296 B] Get: 11 http://deb.debian.org/debian bookworm/main arm64 python3 arm64 3.11.2-1+b1 [26.3 kB] Get: 12 http://deb.debian.org/debian bookworm/main arm64 libproc2-0 arm64 2:4.0.2-3 [60.1 kB] Get: 13 http://deb.debian.org/debian bookworm/main arm64 procps arm64 2:4.0.2-3 [698 kB] Get: 14 http://deb.debian.org/debian bookworm/main arm64 sensible-utils all 0.0.17+nmu1 [19.0 kB] Get: 15 http://deb.debian.org/debian bookworm/main arm64 libmagic-mgc arm64 1:5.44-3 [305 kB] Get: 16 http://deb.debian.org/debian bookworm/main arm64 libmagic1 arm64 1:5.44-3 [98.5 kB] Get: 17 http://deb.debian.org/debian bookworm/main arm64 file arm64 1:5.44-3 [42.5 kB] Get: 18 http://deb.debian.org/debian bookworm/main arm64 gettext-base arm64 0.21-12 [159 kB] Get: 19 http://deb.debian.org/debian bookworm/main arm64 libuchardet0 arm64 0.0.7-1 [67.9 kB] Get: 20 http://deb.debian.org/debian bookworm/main arm64 groff-base arm64 1.22.4-10 [861 kB] Get: 21 http://deb.debian.org/debian bookworm/main arm64 bsdextrautils arm64 2.38.1-5+b1 [86.9 kB] Get: 22 http://deb.debian.org/debian bookworm/main arm64 libpipeline1 arm64 1.5.7-1 [36.4 kB] Get: 23 http://deb.debian.org/debian bookworm/main arm64 man-db arm64 2.11.2-2 [1369 kB] Get: 24 http://deb.debian.org/debian bookworm/main arm64 m4 arm64 1.4.19-3 [276 kB] Get: 25 http://deb.debian.org/debian bookworm/main arm64 autoconf all 2.71-3 [332 kB] Get: 26 http://deb.debian.org/debian bookworm/main arm64 autotools-dev all 20220109.1 [51.6 kB] Get: 27 http://deb.debian.org/debian bookworm/main arm64 automake all 1:1.16.5-1.3 [823 kB] Get: 28 http://deb.debian.org/debian bookworm/main arm64 autopoint all 0.21-12 [495 kB] Get: 29 http://deb.debian.org/debian bookworm/main arm64 libicu72 arm64 72.1-3 [9204 kB] Get: 30 http://deb.debian.org/debian bookworm/main arm64 libxml2 arm64 2.9.14+dfsg-1.2 [620 kB] Get: 31 http://deb.debian.org/debian bookworm/main arm64 libarchive13 arm64 3.6.2-1 [316 kB] Get: 32 http://deb.debian.org/debian bookworm/main arm64 libbrotli1 arm64 1.0.9-2+b6 [269 kB] Get: 33 http://deb.debian.org/debian bookworm/main arm64 libsasl2-modules-db arm64 2.1.28+dfsg-10 [20.8 kB] Get: 34 http://deb.debian.org/debian bookworm/main arm64 libsasl2-2 arm64 2.1.28+dfsg-10 [58.0 kB] Get: 35 http://deb.debian.org/debian bookworm/main arm64 libldap-2.5-0 arm64 2.5.13+dfsg-5 [171 kB] Get: 36 http://deb.debian.org/debian bookworm/main arm64 libnghttp2-14 arm64 1.52.0-1 [67.9 kB] Get: 37 http://deb.debian.org/debian bookworm/main arm64 libpsl5 arm64 0.21.2-1 [58.6 kB] Get: 38 http://deb.debian.org/debian bookworm/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-2+b2 [59.4 kB] Get: 39 http://deb.debian.org/debian bookworm/main arm64 libssh2-1 arm64 1.10.0-3+b1 [172 kB] Get: 40 http://deb.debian.org/debian bookworm/main arm64 libcurl4 arm64 7.88.1-10 [362 kB] Get: 41 http://deb.debian.org/debian bookworm/main arm64 libjsoncpp25 arm64 1.9.5-4 [72.3 kB] Get: 42 http://deb.debian.org/debian bookworm/main arm64 librhash0 arm64 1.4.3-3 [131 kB] Get: 43 http://deb.debian.org/debian bookworm/main arm64 libuv1 arm64 1.44.2-1 [133 kB] Get: 44 http://deb.debian.org/debian bookworm/main arm64 cmake-data all 3.25.1-1 [2026 kB] Get: 45 http://deb.debian.org/debian bookworm/main arm64 cmake arm64 3.25.1-1 [6806 kB] Get: 46 http://deb.debian.org/debian bookworm/main arm64 cython3 arm64 0.29.32-2+b1 [1223 kB] Get: 47 http://deb.debian.org/debian bookworm/main arm64 d-shlibs all 0.104 [18.6 kB] Get: 48 http://deb.debian.org/debian bookworm/main arm64 libdebhelper-perl all 13.11.4 [81.2 kB] Get: 49 http://deb.debian.org/debian bookworm/main arm64 libtool all 2.4.7-5 [517 kB] Get: 50 http://deb.debian.org/debian bookworm/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 51 http://deb.debian.org/debian bookworm/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 52 http://deb.debian.org/debian bookworm/main arm64 libsub-override-perl all 0.09-4 [9304 B] Get: 53 http://deb.debian.org/debian bookworm/main arm64 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 54 http://deb.debian.org/debian bookworm/main arm64 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 55 http://deb.debian.org/debian bookworm/main arm64 libelf1 arm64 0.188-2.1 [173 kB] Get: 56 http://deb.debian.org/debian bookworm/main arm64 dwz arm64 0.15-1 [101 kB] Get: 57 http://deb.debian.org/debian bookworm/main arm64 gettext arm64 0.21-12 [1248 kB] Get: 58 http://deb.debian.org/debian bookworm/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 59 http://deb.debian.org/debian bookworm/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 60 http://deb.debian.org/debian bookworm/main arm64 debhelper all 13.11.4 [942 kB] Get: 61 http://deb.debian.org/debian bookworm/main arm64 python3-lib2to3 all 3.11.2-3 [76.3 kB] Get: 62 http://deb.debian.org/debian bookworm/main arm64 python3-distutils all 3.11.2-3 [131 kB] Get: 63 http://deb.debian.org/debian bookworm/main arm64 dh-python all 5.20230130 [104 kB] Get: 64 http://deb.debian.org/debian bookworm/main arm64 libblas3 arm64 3.11.0-2 [91.4 kB] Get: 65 http://deb.debian.org/debian bookworm/main arm64 libexpat1-dev arm64 2.5.0-1 [135 kB] Get: 66 http://deb.debian.org/debian bookworm/main arm64 libgfortran5 arm64 12.2.0-14 [340 kB] Get: 67 http://deb.debian.org/debian bookworm/main arm64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 68 http://deb.debian.org/debian bookworm/main arm64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 69 http://deb.debian.org/debian bookworm/main arm64 libjs-sphinxdoc all 5.3.0-4 [130 kB] Get: 70 http://deb.debian.org/debian bookworm/main arm64 liblapack3 arm64 3.11.0-2 [1664 kB] Get: 71 http://deb.debian.org/debian bookworm/main arm64 libpython3.11 arm64 3.11.2-6 [1841 kB] Get: 72 http://deb.debian.org/debian bookworm/main arm64 zlib1g-dev arm64 1:1.2.13.dfsg-1 [913 kB] Get: 73 http://deb.debian.org/debian bookworm/main arm64 libpython3.11-dev arm64 3.11.2-6 [4395 kB] Get: 74 http://deb.debian.org/debian bookworm/main arm64 libpython3-dev arm64 3.11.2-1+b1 [9564 B] Get: 75 http://deb.debian.org/debian bookworm/main arm64 libpython3-all-dev arm64 3.11.2-1+b1 [1068 B] Get: 76 http://deb.debian.org/debian bookworm/main arm64 libstreamvbyte0 arm64 0.4.1-4 [5604 B] Get: 77 http://deb.debian.org/debian bookworm/main arm64 libstreamvbyte-dev arm64 0.4.1-4 [6460 B] Get: 78 http://deb.debian.org/debian bookworm/main arm64 libzstd-dev arm64 1.5.4+dfsg2-5 [317 kB] Get: 79 http://deb.debian.org/debian bookworm/main arm64 python3-all arm64 3.11.2-1+b1 [1064 B] Get: 80 http://deb.debian.org/debian bookworm/main arm64 python3.11-dev arm64 3.11.2-6 [617 kB] Get: 81 http://deb.debian.org/debian bookworm/main arm64 python3-dev arm64 3.11.2-1+b1 [26.2 kB] Get: 82 http://deb.debian.org/debian bookworm/main arm64 python3-all-dev arm64 3.11.2-1+b1 [1076 B] Get: 83 http://deb.debian.org/debian bookworm/main arm64 python3-pkg-resources all 66.1.1-1 [296 kB] Get: 84 http://deb.debian.org/debian bookworm/main arm64 python3-numpy arm64 1:1.24.2-1 [4751 kB] Get: 85 http://deb.debian.org/debian bookworm/main arm64 python3-setuptools all 66.1.1-1 [521 kB] Get: 86 http://deb.debian.org/debian bookworm/main arm64 python3-wheel all 0.38.4-2 [30.8 kB] Fetched 53.3 MB in 1s (38.6 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.11-minimal:arm64. 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Setting up autotools-dev (20220109.1) ... Setting up libblas3:arm64 (3.11.0-2) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/aarch64-linux-gnu/libblas.so.3 (libblas.so.3-aarch64-linux-gnu) in auto mode Setting up libuv1:arm64 (1.44.2-1) ... Setting up libexpat1-dev:arm64 (2.5.0-1) ... Setting up librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libstreamvbyte-dev:arm64 (0.4.1-4) ... Setting up libproc2-0:arm64 (2:4.0.2-3) ... Setting up autopoint (0.21-12) ... Setting up libjsoncpp25:arm64 (1.9.5-4) ... Setting up d-shlibs (0.104) ... Setting up libsasl2-2:arm64 (2.1.28+dfsg-10) ... Setting up libgfortran5:arm64 (12.2.0-14) ... Setting up autoconf (2.71-3) ... Setting up zlib1g-dev:arm64 (1:1.2.13.dfsg-1) ... Setting up sensible-utils (0.0.17+nmu1) ... Setting up librhash0:arm64 (1.4.3-3) ... Setting up libuchardet0:arm64 (0.0.7-1) ... Setting up procps (2:4.0.2-3) ... Setting up libsub-override-perl (0.09-4) ... Setting up libssh2-1:arm64 (1.10.0-3+b1) ... Setting up cmake-data (3.25.1-1) ... Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Setting up libelf1:arm64 (0.188-2.1) ... Setting up readline-common (8.2-1.3) ... Setting up libxml2:arm64 (2.9.14+dfsg-1.2) ... Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up liblapack3:arm64 (3.11.0-2) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode Setting up gettext (0.21-12) ... Setting up libtool (2.4.7-5) ... Setting up libarchive13:arm64 (3.6.2-1) ... Setting up libreadline8:arm64 (8.2-1.3) ... Setting up libldap-2.5-0:arm64 (2.5.13+dfsg-5) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libjs-sphinxdoc (5.3.0-4) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up dwz (0.15-1) ... Setting up groff-base (1.22.4-10) ... Setting up libcurl4:arm64 (7.88.1-10) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libpython3.11-stdlib:arm64 (3.11.2-6) ... Setting up man-db (2.11.2-2) ... Not building database; man-db/auto-update is not 'true'. Setting up cmake (3.25.1-1) ... Setting up libpython3-stdlib:arm64 (3.11.2-1+b1) ... Setting up python3.11 (3.11.2-6) ... Setting up libpython3.11:arm64 (3.11.2-6) ... Setting up debhelper (13.11.4) ... Setting up python3 (3.11.2-1+b1) ... Setting up libpython3.11-dev:arm64 (3.11.2-6) ... Setting up cython3 (0.29.32-2+b1) ... Setting up python3-lib2to3 (3.11.2-3) ... Setting up python3-pkg-resources (66.1.1-1) ... Setting up python3-distutils (3.11.2-3) ... Setting up dh-python (5.20230130) ... Setting up libpython3-dev:arm64 (3.11.2-1+b1) ... Setting up python3-setuptools (66.1.1-1) ... Setting up python3.11-dev (3.11.2-6) ... Setting up python3-all (3.11.2-1+b1) ... Setting up python3-wheel (0.38.4-2) ... Setting up libpython3-all-dev:arm64 (3.11.2-1+b1) ... Setting up python3-dev (3.11.2-1+b1) ... Setting up python3-numpy (1:1.24.2-1) ... Setting up python3-all-dev (3.11.2-1+b1) ... Processing triggers for libc-bin (2.36-9) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/libslow5lib-0.7.0+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../libslow5lib_0.7.0+dfsg-2_source.changes dpkg-buildpackage: info: source package libslow5lib dpkg-buildpackage: info: source version 0.7.0+dfsg-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Nilesh Patra dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean --with python3 --buildsystem=cmake dh_auto_clean -O--buildsystem=cmake dh_autoreconf_clean -O--buildsystem=cmake dh_clean -O--buildsystem=cmake debian/rules binary dh binary --with python3 --buildsystem=cmake dh_update_autotools_config -O--buildsystem=cmake dh_autoreconf -O--buildsystem=cmake debian/rules override_dh_auto_configure make[1]: Entering directory '/build/libslow5lib-0.7.0+dfsg' dh_auto_configure -- \ -DSLOW5_USE_ZSTD="ON" cd obj-aarch64-linux-gnu && cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/aarch64-linux-gnu -DSLOW5_USE_ZSTD=ON .. -- The C compiler identification is GNU 12.2.0 -- The CXX compiler identification is GNU 12.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_FIND_USE_PACKAGE_REGISTRY CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /build/libslow5lib-0.7.0+dfsg/obj-aarch64-linux-gnu dh_auto_configure --buildsystem=pybuild I: pybuild base:240: dh_auto_configure --buildsystem=cmake --builddirectory=/build/libslow5lib-0.7.0+dfsg/.pybuild/cpython3_3.11_slow5/build -- -DPYTHON_EXECUTABLE:FILEPATH=/usr/bin/python3.11 -DPYTHON_LIBRARY:FILEPATH=/usr/lib/python3.11/config-3.11-aarch64-linux-gnu/libpython3.11.so -DPYTHON_INCLUDE_DIR:PATH=/usr/include/python3.11 -DPython_EXECUTABLE=/usr/bin/python3.11 -DPython_LIBRARY=/usr/lib/python3.11/config-3.11-aarch64-linux-gnu/libpython3.11.so -DPython_INCLUDE_DIR=/usr/include/python3.11 -DPython3_EXECUTABLE=/usr/bin/python3.11 -DPython3_LIBRARY=/usr/lib/python3.11/config-3.11-aarch64-linux-gnu/libpython3.11.so -DPython3_INCLUDE_DIR=/usr/include/python3.11 cd .pybuild/cpython3_3.11_slow5/build && cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/aarch64-linux-gnu -DPYTHON_EXECUTABLE:FILEPATH=/usr/bin/python3.11 -DPYTHON_LIBRARY:FILEPATH=/usr/lib/python3.11/config-3.11-aarch64-linux-gnu/libpython3.11.so -DPYTHON_INCLUDE_DIR:PATH=/usr/include/python3.11 -DPython_EXECUTABLE=/usr/bin/python3.11 -DPython_LIBRARY=/usr/lib/python3.11/config-3.11-aarch64-linux-gnu/libpython3.11.so -DPython_INCLUDE_DIR=/usr/include/python3.11 -DPython3_EXECUTABLE=/usr/bin/python3.11 -DPython3_LIBRARY=/usr/lib/python3.11/config-3.11-aarch64-linux-gnu/libpython3.11.so -DPython3_INCLUDE_DIR=/usr/include/python3.11 ../../.. -- The C compiler identification is GNU 12.2.0 -- The CXX compiler identification is GNU 12.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_FIND_USE_PACKAGE_REGISTRY CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR FETCHCONTENT_FULLY_DISCONNECTED PYTHON_EXECUTABLE PYTHON_INCLUDE_DIR PYTHON_LIBRARY Python3_EXECUTABLE Python3_INCLUDE_DIR Python3_LIBRARY Python_EXECUTABLE Python_INCLUDE_DIR Python_LIBRARY -- Build files have been written to: /build/libslow5lib-0.7.0+dfsg/.pybuild/cpython3_3.11_slow5/build make[1]: Leaving directory '/build/libslow5lib-0.7.0+dfsg' debian/rules override_dh_auto_build make[1]: Entering directory '/build/libslow5lib-0.7.0+dfsg' dh_auto_build cd obj-aarch64-linux-gnu && make -j8 "INSTALL=install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/libslow5lib-0.7.0+dfsg/obj-aarch64-linux-gnu' /usr/bin/cmake -S/build/libslow5lib-0.7.0+dfsg -B/build/libslow5lib-0.7.0+dfsg/obj-aarch64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/libslow5lib-0.7.0+dfsg/obj-aarch64-linux-gnu/CMakeFiles /build/libslow5lib-0.7.0+dfsg/obj-aarch64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/libslow5lib-0.7.0+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/slow5_static.dir/build.make CMakeFiles/slow5_static.dir/depend make[4]: Entering directory '/build/libslow5lib-0.7.0+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/slow5.dir/build.make CMakeFiles/slow5.dir/depend cd /build/libslow5lib-0.7.0+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libslow5lib-0.7.0+dfsg /build/libslow5lib-0.7.0+dfsg /build/libslow5lib-0.7.0+dfsg/obj-aarch64-linux-gnu /build/libslow5lib-0.7.0+dfsg/obj-aarch64-linux-gnu /build/libslow5lib-0.7.0+dfsg/obj-aarch64-linux-gnu/CMakeFiles/slow5_static.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/libslow5lib-0.7.0+dfsg/obj-aarch64-linux-gnu' cd /build/libslow5lib-0.7.0+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libslow5lib-0.7.0+dfsg /build/libslow5lib-0.7.0+dfsg /build/libslow5lib-0.7.0+dfsg/obj-aarch64-linux-gnu /build/libslow5lib-0.7.0+dfsg/obj-aarch64-linux-gnu /build/libslow5lib-0.7.0+dfsg/obj-aarch64-linux-gnu/CMakeFiles/slow5.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/libslow5lib-0.7.0+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/slow5_static.dir/build.make CMakeFiles/slow5_static.dir/build make[4]: Entering directory '/build/libslow5lib-0.7.0+dfsg/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/libslow5lib-0.7.0+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/slow5.dir/build.make CMakeFiles/slow5.dir/build make[4]: Entering directory '/build/libslow5lib-0.7.0+dfsg/obj-aarch64-linux-gnu' [ 10%] Building C object CMakeFiles/slow5_static.dir/src/slow5_misc.c.o [ 20%] Building C object CMakeFiles/slow5_static.dir/src/slow5.c.o [ 30%] Building C object CMakeFiles/slow5_static.dir/src/slow5_idx.c.o /usr/bin/cc -D_GLIBCXX_DEBUG -I/build/libslow5lib-0.7.0+dfsg/include -g -O2 -ffile-prefix-map=/build/libslow5lib-0.7.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wall -O2 -std=c99 -DSLOW5_USE_ZSTD -MD -MT CMakeFiles/slow5_static.dir/src/slow5_misc.c.o -MF CMakeFiles/slow5_static.dir/src/slow5_misc.c.o.d -o CMakeFiles/slow5_static.dir/src/slow5_misc.c.o -c /build/libslow5lib-0.7.0+dfsg/src/slow5_misc.c /usr/bin/cc -D_GLIBCXX_DEBUG -I/build/libslow5lib-0.7.0+dfsg/include -g -O2 -ffile-prefix-map=/build/libslow5lib-0.7.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wall -O2 -std=c99 -DSLOW5_USE_ZSTD -MD -MT CMakeFiles/slow5_static.dir/src/slow5.c.o -MF CMakeFiles/slow5_static.dir/src/slow5.c.o.d -o CMakeFiles/slow5_static.dir/src/slow5.c.o -c /build/libslow5lib-0.7.0+dfsg/src/slow5.c [ 40%] Building C object CMakeFiles/slow5.dir/src/slow5_idx.c.o /usr/bin/cc -D_GLIBCXX_DEBUG -Dslow5_EXPORTS -I/build/libslow5lib-0.7.0+dfsg/include -g -O2 -ffile-prefix-map=/build/libslow5lib-0.7.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wall -O2 -std=c99 -fPIC -DSLOW5_USE_ZSTD -MD -MT CMakeFiles/slow5.dir/src/slow5_idx.c.o -MF CMakeFiles/slow5.dir/src/slow5_idx.c.o.d -o CMakeFiles/slow5.dir/src/slow5_idx.c.o -c /build/libslow5lib-0.7.0+dfsg/src/slow5_idx.c /usr/bin/cc -D_GLIBCXX_DEBUG -I/build/libslow5lib-0.7.0+dfsg/include -g -O2 -ffile-prefix-map=/build/libslow5lib-0.7.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wall -O2 -std=c99 -DSLOW5_USE_ZSTD -MD -MT CMakeFiles/slow5_static.dir/src/slow5_idx.c.o -MF CMakeFiles/slow5_static.dir/src/slow5_idx.c.o.d -o CMakeFiles/slow5_static.dir/src/slow5_idx.c.o -c /build/libslow5lib-0.7.0+dfsg/src/slow5_idx.c [ 50%] Building C object CMakeFiles/slow5.dir/src/slow5.c.o [ 60%] Building C object CMakeFiles/slow5_static.dir/src/slow5_press.c.o /usr/bin/cc -D_GLIBCXX_DEBUG -Dslow5_EXPORTS -I/build/libslow5lib-0.7.0+dfsg/include -g -O2 -ffile-prefix-map=/build/libslow5lib-0.7.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wall -O2 -std=c99 -fPIC -DSLOW5_USE_ZSTD -MD -MT CMakeFiles/slow5.dir/src/slow5.c.o -MF CMakeFiles/slow5.dir/src/slow5.c.o.d -o CMakeFiles/slow5.dir/src/slow5.c.o -c /build/libslow5lib-0.7.0+dfsg/src/slow5.c /usr/bin/cc -D_GLIBCXX_DEBUG -I/build/libslow5lib-0.7.0+dfsg/include -g -O2 -ffile-prefix-map=/build/libslow5lib-0.7.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wall -O2 -std=c99 -DSLOW5_USE_ZSTD -MD -MT CMakeFiles/slow5_static.dir/src/slow5_press.c.o -MF CMakeFiles/slow5_static.dir/src/slow5_press.c.o.d -o CMakeFiles/slow5_static.dir/src/slow5_press.c.o -c /build/libslow5lib-0.7.0+dfsg/src/slow5_press.c [ 70%] Building C object CMakeFiles/slow5.dir/src/slow5_press.c.o [ 80%] Building C object CMakeFiles/slow5.dir/src/slow5_misc.c.o /usr/bin/cc -D_GLIBCXX_DEBUG -Dslow5_EXPORTS -I/build/libslow5lib-0.7.0+dfsg/include -g -O2 -ffile-prefix-map=/build/libslow5lib-0.7.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wall -O2 -std=c99 -fPIC -DSLOW5_USE_ZSTD -MD -MT CMakeFiles/slow5.dir/src/slow5_press.c.o -MF CMakeFiles/slow5.dir/src/slow5_press.c.o.d -o CMakeFiles/slow5.dir/src/slow5_press.c.o -c /build/libslow5lib-0.7.0+dfsg/src/slow5_press.c /usr/bin/cc -D_GLIBCXX_DEBUG -Dslow5_EXPORTS -I/build/libslow5lib-0.7.0+dfsg/include -g -O2 -ffile-prefix-map=/build/libslow5lib-0.7.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wall -O2 -std=c99 -fPIC -DSLOW5_USE_ZSTD -MD -MT CMakeFiles/slow5.dir/src/slow5_misc.c.o -MF CMakeFiles/slow5.dir/src/slow5_misc.c.o.d -o CMakeFiles/slow5.dir/src/slow5_misc.c.o -c /build/libslow5lib-0.7.0+dfsg/src/slow5_misc.c /build/libslow5lib-0.7.0+dfsg/src/slow5_press.c: In function ‘ptr_depress_svb_zd’: /build/libslow5lib-0.7.0+dfsg/src/slow5_press.c:1125:31: warning: passing argument 2 of ‘zigzag_delta_decode’ from incompatible pointer type [-Wincompatible-pointer-types] 1125 | zigzag_delta_decode(diff, orig, length, 0); | ^~~~ | | | int16_t * {aka short int *} In file included from /build/libslow5lib-0.7.0+dfsg/src/slow5_press.c:12: /usr/include/streamvbyte_zigzag.h:36:57: note: expected ‘int32_t *’ {aka ‘int *’} but argument is of type ‘int16_t *’ {aka ‘short int *’} 36 | void zigzag_delta_decode(const uint32_t * in, int32_t * out, size_t N, int32_t prev); | ~~~~~~~~~~^~~ /build/libslow5lib-0.7.0+dfsg/src/slow5_press.c: In function ‘ptr_depress_svb_zd’: /build/libslow5lib-0.7.0+dfsg/src/slow5_press.c:1125:31: warning: passing argument 2 of ‘zigzag_delta_decode’ from incompatible pointer type [-Wincompatible-pointer-types] 1125 | zigzag_delta_decode(diff, orig, length, 0); | ^~~~ | | | int16_t * {aka short int *} In file included from /build/libslow5lib-0.7.0+dfsg/src/slow5_press.c:12: /usr/include/streamvbyte_zigzag.h:36:57: note: expected ‘int32_t *’ {aka ‘int *’} but argument is of type ‘int16_t *’ {aka ‘short int *’} 36 | void zigzag_delta_decode(const uint32_t * in, int32_t * out, size_t N, int32_t prev); | ~~~~~~~~~~^~~ [ 90%] Linking C static library libslow5_static.a /usr/bin/cmake -P CMakeFiles/slow5_static.dir/cmake_clean_target.cmake /usr/bin/cmake -E cmake_link_script CMakeFiles/slow5_static.dir/link.txt --verbose=1 /usr/bin/ar qc libslow5_static.a CMakeFiles/slow5_static.dir/src/slow5.c.o CMakeFiles/slow5_static.dir/src/slow5_idx.c.o CMakeFiles/slow5_static.dir/src/slow5_misc.c.o CMakeFiles/slow5_static.dir/src/slow5_press.c.o /usr/bin/ranlib libslow5_static.a [100%] Linking C shared library libslow5.so make[4]: Leaving directory '/build/libslow5lib-0.7.0+dfsg/obj-aarch64-linux-gnu' /usr/bin/cmake -E cmake_link_script CMakeFiles/slow5.dir/link.txt --verbose=1 /usr/bin/cc -fPIC -g -O2 -ffile-prefix-map=/build/libslow5lib-0.7.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wall -O2 -std=c99 -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libslow5.so.0 -o libslow5.so.0 CMakeFiles/slow5.dir/src/slow5.c.o CMakeFiles/slow5.dir/src/slow5_idx.c.o CMakeFiles/slow5.dir/src/slow5_misc.c.o CMakeFiles/slow5.dir/src/slow5_press.c.o -lzstd [100%] Built target slow5_static /usr/bin/cmake -E cmake_symlink_library libslow5.so.0 libslow5.so.0 libslow5.so make[4]: Leaving directory '/build/libslow5lib-0.7.0+dfsg/obj-aarch64-linux-gnu' [100%] Built target slow5 make[3]: Leaving directory '/build/libslow5lib-0.7.0+dfsg/obj-aarch64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/libslow5lib-0.7.0+dfsg/obj-aarch64-linux-gnu/CMakeFiles 0 make[2]: Leaving directory '/build/libslow5lib-0.7.0+dfsg/obj-aarch64-linux-gnu' for py in `py3versions -s`; do \ $py setup.py build; \ done running build running build_ext cythoning python/pyslow5.pyx to python/pyslow5.c building 'pyslow5' extension creating build creating build/temp.linux-aarch64-cpython-311 creating build/temp.linux-aarch64-cpython-311/python creating build/temp.linux-aarch64-cpython-311/src aarch64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/libslow5lib-0.7.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Iinclude/ -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.11 -c python/pyslow5.c -o build/temp.linux-aarch64-cpython-311/python/pyslow5.o -g -Wall -O2 -std=c99 In file included from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1940, from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, from /usr/lib/python3/dist-packages/numpy/core/include/numpy/arrayobject.h:5, from python/pyslow5.c:750: /usr/lib/python3/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 17 | #warning "Using deprecated NumPy API, disable it with " \ | ^~~~~~~ python/pyslow5.c: In function ‘__pyx_pf_7pyslow5_4Open_60write_record’: python/pyslow5.c:37207:38: warning: ‘__pyx_v_ret’ may be used uninitialized [-Wmaybe-uninitialized] 37207 | __pyx_t_8 = ((__pyx_v_ret < 0) != 0); | ~~~~~~~~~~~~~~~~~~~^~~~~ python/pyslow5.c:35084:8: note: ‘__pyx_v_ret’ was declared here 35084 | long __pyx_v_ret; | ^~~~~~~~~~~ python/pyslow5.c: In function ‘__pyx_pf_7pyslow5_4Open_62write_record_batch’: python/pyslow5.c:41059:42: warning: ‘__pyx_v_ret’ may be used uninitialized [-Wmaybe-uninitialized] 41059 | __pyx_t_4 = ((__pyx_v_ret < 0) != 0); | ~~~~~~~~~~~~~~~~~~~^~~~~ python/pyslow5.c:37750:8: note: ‘__pyx_v_ret’ was declared here 37750 | long __pyx_v_ret; | ^~~~~~~~~~~ aarch64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/libslow5lib-0.7.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Iinclude/ -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.11 -c python/slow5threads.c -o build/temp.linux-aarch64-cpython-311/python/slow5threads.o -g -Wall -O2 -std=c99 aarch64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/libslow5lib-0.7.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Iinclude/ -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.11 -c src/slow5.c -o build/temp.linux-aarch64-cpython-311/src/slow5.o -g -Wall -O2 -std=c99 src/slow5.c: In function ‘slow5_init’: src/slow5.c:191:51: warning: comparison of integer expressions of different signedness: ‘uint64_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 191 | if ((s5p->meta.start_rec_offset = ftello(fp)) == -1) { | ^~ src/slow5.c: In function ‘slow5_init_empty’: src/slow5.c:265:51: warning: comparison of integer expressions of different signedness: ‘uint64_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 265 | if ((s5p->meta.start_rec_offset = ftello(fp)) == -1) { | ^~ src/slow5.c: In function ‘slow5_get_mem’: src/slow5.c:2460:49: warning: comparison of integer expressions of different signedness: ‘ssize_t’ {aka ‘long int’} and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 2460 | if (pread(s5p->meta.fd, mem, bytes, offset) != bytes) { | ^~ aarch64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/libslow5lib-0.7.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Iinclude/ -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.11 -c src/slow5_idx.c -o build/temp.linux-aarch64-cpython-311/src/slow5_idx.o -g -Wall -O2 -std=c99 aarch64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/libslow5lib-0.7.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Iinclude/ -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.11 -c src/slow5_misc.c -o build/temp.linux-aarch64-cpython-311/src/slow5_misc.o -g -Wall -O2 -std=c99 aarch64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/libslow5lib-0.7.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Iinclude/ -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.11 -c src/slow5_press.c -o build/temp.linux-aarch64-cpython-311/src/slow5_press.o -g -Wall -O2 -std=c99 src/slow5_press.c: In function ‘slow5_fwrite_compress’: src/slow5_press.c:558:27: warning: comparison of integer expressions of different signedness: ‘ssize_t’ {aka ‘long int’} and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 558 | if (bytes != size * nmemb || ferror(fp)) { | ^~ src/slow5_press.c:559:31: warning: comparison of integer expressions of different signedness: ‘ssize_t’ {aka ‘long int’} and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 559 | if (bytes != size * nmemb) { | ^~ src/slow5_press.c: In function ‘slow5_pread_depress_solo’: src/slow5_press.c:686:47: warning: comparison of integer expressions of different signedness: ‘ssize_t’ {aka ‘long int’} and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 686 | if ((ret = pread(fd, raw, count, offset)) != count) { | ^~ src/slow5_press.c: In function ‘ptr_depress_svb_zd’: src/slow5_press.c:1125:31: warning: passing argument 2 of ‘zigzag_delta_decode’ from incompatible pointer type [-Wincompatible-pointer-types] 1125 | zigzag_delta_decode(diff, orig, length, 0); | ^~~~ | | | int16_t * {aka short int *} In file included from src/slow5_press.c:12: /usr/include/streamvbyte_zigzag.h:36:57: note: expected ‘int32_t *’ {aka ‘int *’} but argument is of type ‘int16_t *’ {aka ‘short int *’} 36 | void zigzag_delta_decode(const uint32_t * in, int32_t * out, size_t N, int32_t prev); | ~~~~~~~~~~^~~ creating build/lib.linux-aarch64-cpython-311 aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/libslow5lib-0.7.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-311/python/pyslow5.o build/temp.linux-aarch64-cpython-311/python/slow5threads.o build/temp.linux-aarch64-cpython-311/src/slow5.o build/temp.linux-aarch64-cpython-311/src/slow5_idx.o build/temp.linux-aarch64-cpython-311/src/slow5_misc.o build/temp.linux-aarch64-cpython-311/src/slow5_press.o -L. -L/usr/lib/aarch64-linux-gnu -lm -lz -lstreamvbyte -o build/lib.linux-aarch64-cpython-311/pyslow5.cpython-311-aarch64-linux-gnu.so make[1]: Leaving directory '/build/libslow5lib-0.7.0+dfsg' debian/rules override_dh_auto_test make[1]: Entering directory '/build/libslow5lib-0.7.0+dfsg' mkdir -p lib cp -a obj-aarch64-linux-gnu/libslow5_static.a lib/libslow5.a /usr/bin/make -C test zstd=1 make[2]: Entering directory '/build/libslow5lib-0.7.0+dfsg/test' mkdir bin cc -g -O2 -ffile-prefix-map=/build/libslow5lib-0.7.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Werror -std=gnu99 -DSLOW5_USE_ZSTD -Wdate-time -D_FORTIFY_SOURCE=2 -I ../include/ -I ../src/ endian_test.c -o bin/endian_test -Wl,-z,relro -Wl,-z,now ../lib/libslow5.a -lm -lz -lstreamvbyte -lzstd cc -g -O2 -ffile-prefix-map=/build/libslow5lib-0.7.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Werror -std=gnu99 -DSLOW5_USE_ZSTD -Wdate-time -D_FORTIFY_SOURCE=2 -I ../include/ -I ../src/ unit_test_helpers.c -o bin/unit_test_helpers -Wl,-z,relro -Wl,-z,now ../lib/libslow5.a -lm -lz -lstreamvbyte -lzstd cc -g -O2 -ffile-prefix-map=/build/libslow5lib-0.7.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Werror -std=gnu99 -DSLOW5_USE_ZSTD -Wdate-time -D_FORTIFY_SOURCE=2 -I ../include/ -I ../src/ unit_test_press.c -o bin/unit_test_press -Wl,-z,relro -Wl,-z,now ../lib/libslow5.a -lm -lz -lstreamvbyte -lzstd cc -g -O2 -ffile-prefix-map=/build/libslow5lib-0.7.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Werror -std=gnu99 -DSLOW5_USE_ZSTD -Wdate-time -D_FORTIFY_SOURCE=2 -I ../include/ -I ../src/ unit_test_ascii.c -o bin/unit_test_ascii -Wl,-z,relro -Wl,-z,now ../lib/libslow5.a -lm -lz -lstreamvbyte -lzstd cc -g -O2 -ffile-prefix-map=/build/libslow5lib-0.7.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Werror -std=gnu99 -DSLOW5_USE_ZSTD -Wdate-time -D_FORTIFY_SOURCE=2 -I ../include/ -I ../src/ unit_test_binary.c -o bin/unit_test_binary -Wl,-z,relro -Wl,-z,now ../lib/libslow5.a -lm -lz -lstreamvbyte -lzstd cc -g -O2 -ffile-prefix-map=/build/libslow5lib-0.7.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Werror -std=gnu99 -DSLOW5_USE_ZSTD -Wdate-time -D_FORTIFY_SOURCE=2 -I ../include/ -I ../src/ convert_slow5_test.c -o bin/convert_slow5_test -Wl,-z,relro -Wl,-z,now ../lib/libslow5.a -lm -lz -lstreamvbyte -lzstd cc -g -O2 -ffile-prefix-map=/build/libslow5lib-0.7.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Werror -std=gnu99 -DSLOW5_USE_ZSTD -Wdate-time -D_FORTIFY_SOURCE=2 -I ../include/ -I ../src/ unit_test_two_rg.c -o bin/unit_test_two_rg -Wl,-z,relro -Wl,-z,now ../lib/libslow5.a -lm -lz -lstreamvbyte -lzstd cc -g -O2 -ffile-prefix-map=/build/libslow5lib-0.7.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Werror -std=gnu99 -DSLOW5_USE_ZSTD -Wdate-time -D_FORTIFY_SOURCE=2 -I ../include/ -I ../src/ unit_test_lossless.c -o bin/unit_test_lossless -Wl,-z,relro -Wl,-z,now ../lib/libslow5.a -lm -lz -lstreamvbyte -lzstd cc -g -O2 -ffile-prefix-map=/build/libslow5lib-0.7.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Werror -std=gnu99 -DSLOW5_USE_ZSTD -Wdate-time -D_FORTIFY_SOURCE=2 -I ../include/ -I ../src/ unit_test_empty.c -o bin/unit_test_empty -Wl,-z,relro -Wl,-z,now ../lib/libslow5.a -lm -lz -lstreamvbyte -lzstd cc -g -O2 -ffile-prefix-map=/build/libslow5lib-0.7.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Werror -std=gnu99 -DSLOW5_USE_ZSTD -Wdate-time -D_FORTIFY_SOURCE=2 -I ../include/ -I ../src/ unit_test_enum.c -o bin/unit_test_enum -Wl,-z,relro -Wl,-z,now ../lib/libslow5.a -lm -lz -lstreamvbyte -lzstd make[2]: Leaving directory '/build/libslow5lib-0.7.0+dfsg/test' for pys in `py3versions -s`; do \ echo $pys; \ pydir=`$pys debian/get-pyver-dir.py`; \ echo $pydir; X=0; \ PYTHONPATH=`pwd`/build/$pydir $pys -m unittest -v python/test.py || X=$?; \ if [ "" != 0 ]; then exit $X; fi; \ done python3.11 lib.linux-aarch64-cpython-311 test_nonExistant_aux (python.test.TestAUX.test_nonExistant_aux) ... [slow5_idx_init::INFO] Index file not found. Creating an index at 'examples/example2.slow5.idx'. 08-Jun-23 02:17:13 - [WARNING]: get_read unknown aux name: noExistTest ok test_read_id (python.test.TestAUX.test_read_id) ... 08-Jun-23 02:17:13 - [WARNING]: get_read unknown aux name: noExistTest ok test_read_number (python.test.TestAUX.test_read_number) ... 08-Jun-23 02:17:13 - [WARNING]: get_read unknown aux name: noExistTest ok test_start_mux (python.test.TestAUX.test_start_mux) ... 08-Jun-23 02:17:14 - [WARNING]: get_read unknown aux name: noExistTest ok test_get_aux_names (python.test.TestAuxAll.test_get_aux_names) ... ok test_get_aux_types (python.test.TestAuxAll.test_get_aux_types) ... ok test_get_read_all_aux (python.test.TestAuxAll.test_get_read_all_aux) ... ok test_seq_reads_pA_aux_all (python.test.TestAuxAll.test_seq_reads_pA_aux_all) ... ok test_class_methods (python.test.TestBase.test_class_methods) ... [slow5_idx_init::INFO] Index file not found. Creating an index at 'examples/example.slow5.idx'. ok test_digitisation (python.test.TestBase.test_digitisation) ... ok test_len_raw_signal (python.test.TestBase.test_len_raw_signal) ... ok test_offset (python.test.TestBase.test_offset) ... ok test_pylen_signal (python.test.TestBase.test_pylen_signal) ... ok test_range (python.test.TestBase.test_range) ... ok test_read_group (python.test.TestBase.test_read_group) ... ok test_read_id (python.test.TestBase.test_read_id) ... ok test_read_type (python.test.TestBase.test_read_type) ... ok test_sampling_rate (python.test.TestBase.test_sampling_rate) ... ok test_signal (python.test.TestBase.test_signal) ... ok test_get_all_headers (python.test.TestHeaders.test_get_all_headers) ... ok test_get_header_names (python.test.TestHeaders.test_get_header_names) ... ok test_digitisation (python.test.TestRandomAccess.test_digitisation) ... ok test_len_raw_signal (python.test.TestRandomAccess.test_len_raw_signal) ... ok test_offset (python.test.TestRandomAccess.test_offset) ... ok test_pylen_signal (python.test.TestRandomAccess.test_pylen_signal) ... ok test_range (python.test.TestRandomAccess.test_range) ... ok test_read_group (python.test.TestRandomAccess.test_read_group) ... ok test_read_id (python.test.TestRandomAccess.test_read_id) ... ok test_sampling_rate (python.test.TestRandomAccess.test_sampling_rate) ... ok test_signal (python.test.TestRandomAccess.test_signal) ... ok test_seq_reads (python.test.TestSequentialRead.test_seq_reads) ... ok test_get_empty_header (python.test.TestWrite.test_get_empty_header) ... ok test_get_empty_record (python.test.TestWrite.test_get_empty_record) ... ok test_write_header (python.test.TestWrite.test_write_header) ... ok test_write_records (python.test.TestWrite.test_write_records) ... ok test_get_empty_aux (python.test.TestWriteAux.test_get_empty_aux) ... ok test_write_records_aux (python.test.TestWriteAux.test_write_records_aux) ... ok test_write_matches_read (python.test.TestWriteData.test_write_matches_read) ... [slow5_idx_init::INFO] Index file not found. Creating an index at 'examples/example_write.slow5.idx'. ok test_base_reads (python.test.TestYieldRead.test_base_reads) ... ok test_reads_with_no_exist (python.test.TestYieldRead.test_reads_with_no_exist) ... [slow5_idx_get::ERROR] Read ID 'null_read' was not found. At src/slow5_idx.c:441 ok test_seq_reads_multi (python.test.testMultiThreading.test_seq_reads_multi) ... ok test_get_reads_multi (python.test.testMultiThreadingRandom.test_get_reads_multi) ... ok ---------------------------------------------------------------------- Ran 42 tests in 1.031s OK r0 r1 r2 r3 r4 r5 0a238451-b9ed-446d-a152-badd074006c4 0d624d4b-671f-40b8-9798-84f2ccc4d7fc r0 r1 r2 r3 r4 r5 0a238451-b9ed-446d-a152-badd074006c4 0d624d4b-671f-40b8-9798-84f2ccc4d7fc make[1]: Leaving directory '/build/libslow5lib-0.7.0+dfsg' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=cmake dh_prep -O--buildsystem=cmake dh_auto_install -O--buildsystem=cmake cd obj-aarch64-linux-gnu && make -j8 install DESTDIR=/build/libslow5lib-0.7.0\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/libslow5lib-0.7.0+dfsg/obj-aarch64-linux-gnu' /usr/bin/cmake -S/build/libslow5lib-0.7.0+dfsg -B/build/libslow5lib-0.7.0+dfsg/obj-aarch64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/libslow5lib-0.7.0+dfsg/obj-aarch64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/libslow5lib-0.7.0+dfsg/obj-aarch64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/libslow5lib-0.7.0+dfsg/debian/tmp/usr/lib/aarch64-linux-gnu/libslow5.so.0 -- Installing: /build/libslow5lib-0.7.0+dfsg/debian/tmp/usr/lib/aarch64-linux-gnu/libslow5.so -- Up-to-date: /build/libslow5lib-0.7.0+dfsg/debian/tmp/usr/lib/aarch64-linux-gnu/libslow5.so.0 -- Up-to-date: /build/libslow5lib-0.7.0+dfsg/debian/tmp/usr/lib/aarch64-linux-gnu/libslow5.so -- Installing: /build/libslow5lib-0.7.0+dfsg/debian/tmp/usr/lib/aarch64-linux-gnu/libslow5_static.a make[1]: Leaving directory '/build/libslow5lib-0.7.0+dfsg/obj-aarch64-linux-gnu' debian/rules override_dh_install make[1]: Entering directory '/build/libslow5lib-0.7.0+dfsg' mv debian/tmp/usr/lib/aarch64-linux-gnu/libslow5_static.a debian/tmp/usr/lib/aarch64-linux-gnu/libslow5.a d-shlibmove --commit \ --multiarch \ --devunversioned \ --exclude-la \ --movedev include usr \ debian/tmp/usr/lib/aarch64-linux-gnu/libslow5.so Library package automatic movement utility --> libzstd-dev package exists. set -e install -d -m 755 debian/libslow5-dev/usr/lib/aarch64-linux-gnu install -d -m 755 debian/libslow5-0/usr/lib/aarch64-linux-gnu mv debian/tmp/usr/lib/aarch64-linux-gnu/libslow5.a debian/libslow5-dev/usr/lib/aarch64-linux-gnu mv debian/tmp/usr/lib/aarch64-linux-gnu/libslow5.so debian/libslow5-dev/usr/lib/aarch64-linux-gnu mv /build/libslow5lib-0.7.0+dfsg/debian/tmp/usr/lib/aarch64-linux-gnu/libslow5.so.0 debian/libslow5-0/usr/lib/aarch64-linux-gnu PKGDEV=libslow5-dev PKGSHL=libslow5-0 install -d -m 755 debian/libslow5-dev/usr mv include debian/libslow5-dev/usr dh_install dh_install -plibslow5-dev src/*.h usr/include/slow5/ dh_install -ppython3-slow5 build/lib.*-*/* usr/lib/python3/dist-packages/ make[1]: Leaving directory '/build/libslow5lib-0.7.0+dfsg' debian/rules execute_after_dh_install make[1]: Entering directory '/build/libslow5lib-0.7.0+dfsg' dh_numpy3 make[1]: Leaving directory '/build/libslow5lib-0.7.0+dfsg' dh_installdocs -O--buildsystem=cmake dh_installchangelogs -O--buildsystem=cmake debian/rules override_dh_installexamples make[1]: Entering directory '/build/libslow5lib-0.7.0+dfsg' dh_installexamples dh_installexamples -ppython3-slow5 python/example.py dh_installexamples -ppython3-slow5 examples/*.slow5 make[1]: Leaving directory '/build/libslow5lib-0.7.0+dfsg' dh_python3 -O--buildsystem=cmake dh_installsystemduser -O--buildsystem=cmake dh_perl -O--buildsystem=cmake dh_link -O--buildsystem=cmake dh_strip_nondeterminism -O--buildsystem=cmake dh_compress -O--buildsystem=cmake dh_fixperms -O--buildsystem=cmake dh_missing -O--buildsystem=cmake dh_dwz -a -O--buildsystem=cmake dh_strip -a -O--buildsystem=cmake dh_makeshlibs -a -O--buildsystem=cmake dh_shlibdeps -a -O--buildsystem=cmake dpkg-shlibdeps: warning: symbol inflateReset used by debian/libslow5-0/usr/lib/aarch64-linux-gnu/libslow5.so.0 found in none of the libraries dpkg-shlibdeps: warning: symbol deflateEnd used by debian/libslow5-0/usr/lib/aarch64-linux-gnu/libslow5.so.0 found in none of the libraries dpkg-shlibdeps: warning: symbol streamvbyte_encode used by debian/libslow5-0/usr/lib/aarch64-linux-gnu/libslow5.so.0 found in none of the libraries dpkg-shlibdeps: warning: symbol streamvbyte_decode used by debian/libslow5-0/usr/lib/aarch64-linux-gnu/libslow5.so.0 found in none of the libraries dpkg-shlibdeps: warning: symbol deflateInit2_ used by debian/libslow5-0/usr/lib/aarch64-linux-gnu/libslow5.so.0 found in none of the libraries dpkg-shlibdeps: warning: symbol zigzag_delta_encode used by debian/libslow5-0/usr/lib/aarch64-linux-gnu/libslow5.so.0 found in none of the libraries dpkg-shlibdeps: warning: symbol inflate used by debian/libslow5-0/usr/lib/aarch64-linux-gnu/libslow5.so.0 found in none of the libraries dpkg-shlibdeps: warning: symbol deflate used by debian/libslow5-0/usr/lib/aarch64-linux-gnu/libslow5.so.0 found in none of the libraries dpkg-shlibdeps: warning: symbol inflateEnd used by debian/libslow5-0/usr/lib/aarch64-linux-gnu/libslow5.so.0 found in none of the libraries dpkg-shlibdeps: warning: symbol deflateReset used by debian/libslow5-0/usr/lib/aarch64-linux-gnu/libslow5.so.0 found in none of the libraries dpkg-shlibdeps: warning: 2 other similar warnings have been skipped (use -v to see them all) dh_installdeb -O--buildsystem=cmake dh_gencontrol -O--buildsystem=cmake dpkg-gencontrol: warning: Depends field of package libslow5-dev: substitution variable ${shlibs:Depends} used, but is not defined dpkg-gencontrol: warning: package libslow5-dev: substitution variable ${devlibs:Depends} unused, but is defined dpkg-gencontrol: warning: package libslow5-dev: substitution variable ${python3:Depends} unused, but is defined dpkg-gencontrol: warning: package libslow5-0: substitution variable ${python3:Depends} unused, but is defined dpkg-gencontrol: warning: package libslow5-0: substitution variable ${python3:Depends} unused, but is defined dh_md5sums -O--buildsystem=cmake dh_builddeb -O--buildsystem=cmake dpkg-deb: building package 'libslow5-dev' in '../libslow5-dev_0.7.0+dfsg-2_arm64.deb'. dpkg-deb: building package 'libslow5-0-dbgsym' in '../libslow5-0-dbgsym_0.7.0+dfsg-2_arm64.deb'. dpkg-deb: building package 'libslow5-0' in '../libslow5-0_0.7.0+dfsg-2_arm64.deb'. dpkg-deb: building package 'python3-slow5-dbgsym' in '../python3-slow5-dbgsym_0.7.0+dfsg-2_arm64.deb'. dpkg-deb: building package 'python3-slow5' in '../python3-slow5_0.7.0+dfsg-2_arm64.deb'. dpkg-genbuildinfo --build=binary -O../libslow5lib_0.7.0+dfsg-2_arm64.buildinfo dpkg-genchanges --build=binary -O../libslow5lib_0.7.0+dfsg-2_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/18195 and its subdirectories I: Current time: Thu Jun 8 02:17:41 -12 2023 I: pbuilder-time-stamp: 1686233861 Thu Jun 8 14:17:44 UTC 2023 I: 1st build successful. Starting 2nd build on remote node codethink13-arm64.debian.net. Thu Jun 8 14:17:44 UTC 2023 I: Preparing to do remote build '2' on codethink13-arm64.debian.net. Thu Jun 8 14:22:05 UTC 2023 I: Deleting $TMPDIR on codethink13-arm64.debian.net. Thu Jun 8 14:22:06 UTC 2023 I: libslow5lib_0.7.0+dfsg-2_arm64.changes: Format: 1.8 Date: Sun, 15 Jan 2023 03:28:31 +0530 Source: libslow5lib Binary: libslow5-0 libslow5-0-dbgsym libslow5-dev python3-slow5 python3-slow5-dbgsym Architecture: arm64 Version: 0.7.0+dfsg-2 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Nilesh Patra Description: libslow5-0 - library for reading & writing SLOW5 files libslow5-dev - header and static library for reading & writing SLOW5 files python3-slow5 - Python3 modul for reading & writing SLOW5 files Closes: 1028666 Changes: libslow5lib (0.7.0+dfsg-2) unstable; urgency=medium . * Team Upload. * Drop B-D on python3-all. It should not B-D both on -all and -all-dev * Add a tiny script to print correct pyversion directory wherein so lib is present during build * Bump Standards-Version to 4.6.2 (no changes needed) * d/rules: + Remove un-needed nocheck override from test + Hard-fail if a test fails + Run build time test for all supported python version ensuring directory with solib corresponding to python interpreter version is selected (Closes: #1028666) Checksums-Sha1: 94ec9ec2b8224b7a0063b196b736a39f923cb599 177940 libslow5-0-dbgsym_0.7.0+dfsg-2_arm64.deb 59dc208435c210f887cb7635d4f4d9379b97f446 53836 libslow5-0_0.7.0+dfsg-2_arm64.deb 9d8cd8222e8fe3886f609cd382d02133d4f82e7c 80448 libslow5-dev_0.7.0+dfsg-2_arm64.deb 4408d75aaae4b2f38b99a093eedc7758a101e047 8249 libslow5lib_0.7.0+dfsg-2_arm64.buildinfo 54acd91a398eae3d7fc241fc4370fb0089107eb9 1241704 python3-slow5-dbgsym_0.7.0+dfsg-2_arm64.deb e85c2c3448104dff3bce00207639dad1a136622d 383232 python3-slow5_0.7.0+dfsg-2_arm64.deb Checksums-Sha256: 8e6eaf2199707e6dba2b8e79ea3f95f6cc495bf7ff32910de1a1ca6dd9ebef72 177940 libslow5-0-dbgsym_0.7.0+dfsg-2_arm64.deb a54e68fbef5e7977e62ecfab51124ccb603b7219304474bc9c15f32007234763 53836 libslow5-0_0.7.0+dfsg-2_arm64.deb e02fb4766f77515b083c8eebf3274e80338255ca87f079cc51d9e641541964f5 80448 libslow5-dev_0.7.0+dfsg-2_arm64.deb a874ba24a6073937fa329ea1d1592b5c2689f9740b83fbd80e6e66b49b96a064 8249 libslow5lib_0.7.0+dfsg-2_arm64.buildinfo 06fda384076390e928b9eaa6ed817a6da283ca9cd92ea4ee06dc127524e745c0 1241704 python3-slow5-dbgsym_0.7.0+dfsg-2_arm64.deb 299c26c833fae3941fc0ce328f6365e52a368d2b7fb1b7d159cec113a7f0fc44 383232 python3-slow5_0.7.0+dfsg-2_arm64.deb Files: 1b563163a87a3ec76ec4c3fdf4256410 177940 debug optional libslow5-0-dbgsym_0.7.0+dfsg-2_arm64.deb f19140fa389b68adaf3d49594b0dddd7 53836 libs optional libslow5-0_0.7.0+dfsg-2_arm64.deb afcd328d176cb3b2e0a13fb8cc02cdad 80448 libdevel optional libslow5-dev_0.7.0+dfsg-2_arm64.deb 672da84e7e740aa7cd7b6eed4d0d66bd 8249 science optional libslow5lib_0.7.0+dfsg-2_arm64.buildinfo ab8f5987e0c2b77af02c0ef9573f3cee 1241704 debug optional python3-slow5-dbgsym_0.7.0+dfsg-2_arm64.deb 38e69e1997b47d98175e129a30dfdc1d 383232 python optional python3-slow5_0.7.0+dfsg-2_arm64.deb Thu Jun 8 14:22:07 UTC 2023 I: diffoscope 242 will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.6riG9nqr/libslow5lib_0.7.0+dfsg-2.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.6riG9nqr/libslow5lib_0.7.0+dfsg-2.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.6riG9nqr/libslow5lib_0.7.0+dfsg-2.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.6riG9nqr/b1/libslow5lib_0.7.0+dfsg-2_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.6riG9nqr/b2/libslow5lib_0.7.0+dfsg-2_arm64.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.414s) 0.414s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.042s) 0.042s 12 calls diffoscope.comparators.binary.FilesystemFile 0.000s 10 calls abc.DotChangesFile ## specialize (total time: 0.002s) 0.002s 1 call specialize Thu Jun 8 14:22:11 UTC 2023 I: diffoscope 242 found no differences in the changes files, and a .buildinfo file also exists. Thu Jun 8 14:22:11 UTC 2023 I: libslow5lib from bookworm built successfully and reproducibly on arm64. Thu Jun 8 14:22:12 UTC 2023 I: Submitting .buildinfo files to external archives: Thu Jun 8 14:22:12 UTC 2023 I: Submitting 12K b1/libslow5lib_0.7.0+dfsg-2_arm64.buildinfo.asc Thu Jun 8 14:22:13 UTC 2023 I: Submitting 12K b2/libslow5lib_0.7.0+dfsg-2_arm64.buildinfo.asc Thu Jun 8 14:22:15 UTC 2023 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Thu Jun 8 14:22:15 UTC 2023 I: Done submitting .buildinfo files. Thu Jun 8 14:22:15 UTC 2023 I: Removing signed libslow5lib_0.7.0+dfsg-2_arm64.buildinfo.asc files: removed './b1/libslow5lib_0.7.0+dfsg-2_arm64.buildinfo.asc' removed './b2/libslow5lib_0.7.0+dfsg-2_arm64.buildinfo.asc'