Mon Nov 11 11:22:09 UTC 2024 I: starting to build fast5/trixie/amd64 on jenkins on '2024-11-11 11:21' Mon Nov 11 11:22:09 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_15/37495/console.log Mon Nov 11 11:22:09 UTC 2024 I: Downloading source for trixie/fast5=0.6.5-8 --2024-11-11 11:22:09-- http://deb.debian.org/debian/pool/main/f/fast5/fast5_0.6.5-8.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2339 (2.3K) [text/prs.lines.tag] Saving to: ‘fast5_0.6.5-8.dsc’ 0K .. 100% 260M=0s 2024-11-11 11:22:09 (260 MB/s) - ‘fast5_0.6.5-8.dsc’ saved [2339/2339] Mon Nov 11 11:22:09 UTC 2024 I: fast5_0.6.5-8.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: fast5 Binary: fast5, libfast5-dev, python3-fast5 Architecture: any all Version: 0.6.5-8 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille , Étienne Mollier Homepage: https://github.com/mateidavid/fast5 Standards-Version: 4.7.0 Vcs-Browser: https://salsa.debian.org/med-team/fast5 Vcs-Git: https://salsa.debian.org/med-team/fast5.git Testsuite: autopkgtest Testsuite-Triggers: build-essential Build-Depends: debhelper-compat (= 13), dh-python, libhdf5-dev, libboost-python-dev, python3-all-dev, python3-setuptools, cython3, debhelper Package-List: fast5 deb science optional arch=all libfast5-dev deb libdevel optional arch=all python3-fast5 deb python optional arch=any Checksums-Sha1: 21d1ddf5cb3cd0d426dab82480bfc0ef6a52d21e 93639 fast5_0.6.5.orig.tar.gz bab61696c515aa9c303f5bad0fbdcaecc10b1b5c 5668 fast5_0.6.5-8.debian.tar.xz Checksums-Sha256: f8b1ce2c07adb56b4f13337ef008e124255f86cdb7e74e4233afa8dca878ee1a 93639 fast5_0.6.5.orig.tar.gz bede0b27461880d04054de4a97a13b4cbac01ed5025b21f6c75e015111ceffb2 5668 fast5_0.6.5-8.debian.tar.xz Files: 8fa84e045b0b775239413248f7bf5e83 93639 fast5_0.6.5.orig.tar.gz b419b94230561db3b6afff9d5b10e02b 5668 fast5_0.6.5-8.debian.tar.xz Dgit: e4e301368217ac4495c595eb025838aebe652a92 debian archive/debian/0.6.5-8 https://git.dgit.debian.org/fast5 -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmbGA2cUHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdpUkA//QjwoJUPyCEDI05ZlVEMjRVliSC4y /q4gkA9Sje/+3SqQc3xtuaoroQFdkkQQrbYFZZR58I/sBOztlvB0EvCsEXuH8eNf ojwXxSoPr5lejuFFdf3BW09pQ0LaqibeGwVNaS9W2L4QxaNQ/F5iuhjwrzANDUrl sd5Bq02kvylOM98jyya0GAxE5fGQkZ8zv68JlBLZYgeVAHeSVSAUEZzdRa5Qo8XX EZKoPa9SAQEW0He9wXf+K7ig6N3BnRtwxLLEkCCtWbOjDQqnGM7vwFBTnmMEfGVj uSuiOX8vT2cWoTcgYiIHkkjqKfTR228K3a1JZXn3ZhT08OUp1rhaLEKp+6Qb9dCC 7mFLddrlz78BzHjepAl04BVexHkQPW5qrpa7E7PZ3aQPl/Ky8QYl7mXaEkUXjXrd butll8vZbt2XJOgsrvr1MO5+fM4FI8CS4IKb2dEhM8dyV9v52GevMugHrxDcsirU Si/GePmOMuZGSp7WZ3Aii55n2U9lbI8G6k1Sxot8n/nfPHfrjjfYEJ7W9gVLkSWR 7nqnM3lMJwc56MRifrJ+elc4yvQH6STPIxj3lsOWwXbcYLsRzhVddksflDS3bnLr 6hoExiacAhDufinPZt7nJ1fQMXah7GvJKBfmegckFM92my5S2AVYQ32MVXyGt9Ir YSjGmDKSjbEffps= =PoNG -----END PGP SIGNATURE----- Mon Nov 11 11:22:09 UTC 2024 I: Checking whether the package is not for us Mon Nov 11 11:22:09 UTC 2024 I: Starting 1st build on remote node ionos11-amd64.debian.net. Mon Nov 11 11:22:09 UTC 2024 I: Preparing to do remote build '1' on ionos11-amd64.debian.net. Mon Nov 11 11:32:33 UTC 2024 I: Deleting $TMPDIR on ionos11-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sun Nov 10 23:22:11 -12 2024 I: pbuilder-time-stamp: 1731324131 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [fast5_0.6.5-8.dsc] I: copying [./fast5_0.6.5.orig.tar.gz] I: copying [./fast5_0.6.5-8.debian.tar.xz] I: Extracting source gpgv: Signature made Wed Aug 21 15:10:31 2024 gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA gpgv: issuer "emollier@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./fast5_0.6.5-8.dsc: no acceptable signature found 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_0.6.5-8.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying rpath.patch dpkg-source: info: applying gcc-12.patch dpkg-source: info: applying build-flags.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/4062850/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=20 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='5487519b93e045cd90b6b4bf7bab604d' 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='4062850' 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.gKKrhKVz/pbuilderrc_o43K --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.gKKrhKVz/b1 --logfile b1/build.log fast5_0.6.5-8.dsc' SUDO_GID='111' SUDO_UID='106' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://46.16.76.132:3128' I: uname -a Linux ionos11-amd64 6.1.0-27-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.115-1 (2024-11-01) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 4 21:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/4062850/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: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), dh-python, libhdf5-dev, libboost-python-dev, python3-all-dev, python3-setuptools, cython3, debhelper dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19971 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-python; however: Package dh-python is not installed. pbuilder-satisfydepends-dummy depends on libhdf5-dev; however: Package libhdf5-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-python-dev; however: Package libboost-python-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-all-dev; however: Package python3-all-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on cython3; however: Package cython3 is not installed. pbuilder-satisfydepends-dummy depends on debhelper; however: Package debhelper is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} cython3{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} hdf5-helpers{a} intltool-debian{a} libaec-dev{a} libaec0{a} libarchive-zip-perl{a} libboost-python-dev{a} libboost-python1.83-dev{a} libboost-python1.83.0{a} libboost1.83-dev{a} libbrotli-dev{a} libbrotli1{a} libcom-err2{a} libcurl4-openssl-dev{a} libcurl4t64{a} libdebhelper-perl{a} libelf1t64{a} libevent-2.1-7t64{a} libexpat1{a} libexpat1-dev{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgssapi-krb5-2{a} libhdf5-103-1t64{a} libhdf5-cpp-103-1t64{a} libhdf5-dev{a} libhdf5-fortran-102t64{a} libhdf5-hl-100t64{a} libhdf5-hl-cpp-100t64{a} libhdf5-hl-fortran-100t64{a} libicu72{a} libidn2-dev{a} libjpeg-dev{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} libjs-jquery{a} libjs-sphinxdoc{a} libjs-underscore{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap-2.5-0{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnghttp2-dev{a} libnsl2{a} libp11-kit-dev{a} libpipeline1{a} libpkgconf3{a} libpsl-dev{a} libpsl5t64{a} libpython3-all-dev{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.12-dev{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libpython3.12t64{a} libreadline8t64{a} librtmp-dev{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{a} libsz2{a} libtasn1-6-dev{a} libtirpc-common{a} libtirpc3t64{a} libtool{a} libuchardet0{a} libunbound8{a} libxml2{a} libzstd-dev{a} m4{a} man-db{a} media-types{a} netbase{a} nettle-dev{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} python3{a} python3-all{a} python3-all-dev{a} python3-autocommand{a} python3-dev{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-minimal{a} python3-more-itertools{a} python3-pkg-resources{a} python3-setuptools{a} python3-typeguard{a} python3-typing-extensions{a} python3-zipp{a} python3.12{a} python3.12-dev{a} python3.12-minimal{a} readline-common{a} sensible-utils{a} tzdata{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl javascript-common krb5-locales libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules libtasn1-doc lynx publicsuffix wget 0 packages upgraded, 126 newly installed, 0 to remove and 0 not upgraded. Need to get 68.8 MB of archives. After unpacking 396 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main amd64 libpython3.12-minimal amd64 3.12.7-3 [815 kB] Get: 2 http://deb.debian.org/debian trixie/main amd64 libexpat1 amd64 2.6.3-2 [105 kB] Get: 3 http://deb.debian.org/debian trixie/main amd64 python3.12-minimal amd64 3.12.7-3 [2162 kB] Get: 4 http://deb.debian.org/debian trixie/main amd64 python3-minimal amd64 3.12.6-1 [26.7 kB] Get: 5 http://deb.debian.org/debian trixie/main amd64 media-types all 10.1.0 [26.9 kB] Get: 6 http://deb.debian.org/debian trixie/main amd64 netbase all 6.4 [12.8 kB] Get: 7 http://deb.debian.org/debian trixie/main amd64 tzdata all 2024b-3 [255 kB] Get: 8 http://deb.debian.org/debian trixie/main amd64 libkrb5support0 amd64 1.21.3-3 [32.5 kB] Get: 9 http://deb.debian.org/debian trixie/main amd64 libcom-err2 amd64 1.47.1-1+b1 [23.2 kB] Get: 10 http://deb.debian.org/debian trixie/main amd64 libk5crypto3 amd64 1.21.3-3 [79.9 kB] Get: 11 http://deb.debian.org/debian trixie/main amd64 libkeyutils1 amd64 1.6.3-4 [9092 B] Get: 12 http://deb.debian.org/debian trixie/main amd64 libkrb5-3 amd64 1.21.3-3 [324 kB] Get: 13 http://deb.debian.org/debian trixie/main amd64 libgssapi-krb5-2 amd64 1.21.3-3 [136 kB] Get: 14 http://deb.debian.org/debian trixie/main amd64 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get: 15 http://deb.debian.org/debian trixie/main amd64 libtirpc3t64 amd64 1.3.4+ds-1.3+b1 [83.1 kB] Get: 16 http://deb.debian.org/debian trixie/main amd64 libnsl2 amd64 1.3.0-3+b3 [40.6 kB] Get: 17 http://deb.debian.org/debian trixie/main amd64 readline-common all 8.2-5 [69.3 kB] Get: 18 http://deb.debian.org/debian trixie/main amd64 libreadline8t64 amd64 8.2-5 [169 kB] Get: 19 http://deb.debian.org/debian trixie/main amd64 libpython3.12-stdlib amd64 3.12.7-3 [1966 kB] Get: 20 http://deb.debian.org/debian trixie/main amd64 python3.12 amd64 3.12.7-3 [671 kB] Get: 21 http://deb.debian.org/debian trixie/main amd64 libpython3-stdlib amd64 3.12.6-1 [9692 B] Get: 22 http://deb.debian.org/debian trixie/main amd64 python3 amd64 3.12.6-1 [27.8 kB] Get: 23 http://deb.debian.org/debian trixie/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get: 24 http://deb.debian.org/debian trixie/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB] Get: 25 http://deb.debian.org/debian trixie/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB] Get: 26 http://deb.debian.org/debian trixie/main amd64 file amd64 1:5.45-3+b1 [43.3 kB] Get: 27 http://deb.debian.org/debian trixie/main amd64 gettext-base amd64 0.22.5-2 [200 kB] Get: 28 http://deb.debian.org/debian trixie/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 29 http://deb.debian.org/debian trixie/main amd64 groff-base amd64 1.23.0-5 [1181 kB] Get: 30 http://deb.debian.org/debian trixie/main amd64 bsdextrautils amd64 2.40.2-9 [97.2 kB] Get: 31 http://deb.debian.org/debian trixie/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 32 http://deb.debian.org/debian trixie/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get: 33 http://deb.debian.org/debian trixie/main amd64 m4 amd64 1.4.19-4 [287 kB] Get: 34 http://deb.debian.org/debian trixie/main amd64 autoconf all 2.72-3 [493 kB] Get: 35 http://deb.debian.org/debian trixie/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 36 http://deb.debian.org/debian trixie/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 37 http://deb.debian.org/debian trixie/main amd64 autopoint all 0.22.5-2 [723 kB] Get: 38 http://deb.debian.org/debian trixie/main amd64 cython3 amd64 3.0.11+dfsg-1 [2449 kB] Get: 39 http://deb.debian.org/debian trixie/main amd64 libdebhelper-perl all 13.20 [89.7 kB] Get: 40 http://deb.debian.org/debian trixie/main amd64 libtool all 2.4.7-8 [517 kB] Get: 41 http://deb.debian.org/debian trixie/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 42 http://deb.debian.org/debian trixie/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 43 http://deb.debian.org/debian trixie/main amd64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 44 http://deb.debian.org/debian trixie/main amd64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 45 http://deb.debian.org/debian trixie/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 46 http://deb.debian.org/debian trixie/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 47 http://deb.debian.org/debian trixie/main amd64 libicu72 amd64 72.1-5+b1 [9423 kB] Get: 48 http://deb.debian.org/debian trixie/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.1 [699 kB] Get: 49 http://deb.debian.org/debian trixie/main amd64 gettext amd64 0.22.5-2 [1601 kB] Get: 50 http://deb.debian.org/debian trixie/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 51 http://deb.debian.org/debian trixie/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 52 http://deb.debian.org/debian trixie/main amd64 debhelper all 13.20 [915 kB] Get: 53 http://deb.debian.org/debian trixie/main amd64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 54 http://deb.debian.org/debian trixie/main amd64 python3-more-itertools all 10.5.0-1 [63.8 kB] Get: 55 http://deb.debian.org/debian trixie/main amd64 python3-typing-extensions all 4.12.2-2 [73.0 kB] Get: 56 http://deb.debian.org/debian trixie/main amd64 python3-typeguard all 4.4.1-1 [37.0 kB] Get: 57 http://deb.debian.org/debian trixie/main amd64 python3-inflect all 7.3.1-2 [32.4 kB] Get: 58 http://deb.debian.org/debian trixie/main amd64 python3-jaraco.context all 6.0.0-1 [7984 B] Get: 59 http://deb.debian.org/debian trixie/main amd64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 60 http://deb.debian.org/debian trixie/main amd64 python3-pkg-resources all 74.1.2-2 [213 kB] Get: 61 http://deb.debian.org/debian trixie/main amd64 python3-zipp all 3.20.2-1 [10.3 kB] Get: 62 http://deb.debian.org/debian trixie/main amd64 python3-setuptools all 74.1.2-2 [736 kB] Get: 63 http://deb.debian.org/debian trixie/main amd64 dh-python all 6.20241024 [109 kB] Get: 64 http://deb.debian.org/debian trixie/main amd64 hdf5-helpers amd64 1.10.10+repack-4 [23.5 kB] Get: 65 http://deb.debian.org/debian trixie/main amd64 libaec0 amd64 1.1.3-1+b1 [23.8 kB] Get: 66 http://deb.debian.org/debian trixie/main amd64 libsz2 amd64 1.1.3-1+b1 [8080 B] Get: 67 http://deb.debian.org/debian trixie/main amd64 libaec-dev amd64 1.1.3-1+b1 [21.5 kB] Get: 68 http://deb.debian.org/debian trixie/main amd64 libboost1.83-dev amd64 1.83.0-3.2 [10.6 MB] Get: 69 http://deb.debian.org/debian trixie/main amd64 libboost-python1.83.0 amd64 1.83.0-3.2 [306 kB] Get: 70 http://deb.debian.org/debian trixie/main amd64 libpython3.12t64 amd64 3.12.7-3 [2153 kB] Get: 71 http://deb.debian.org/debian trixie/main amd64 libexpat1-dev amd64 2.6.3-2 [157 kB] Get: 72 http://deb.debian.org/debian trixie/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] Get: 73 http://deb.debian.org/debian trixie/main amd64 libpython3.12-dev amd64 3.12.7-3 [5124 kB] Get: 74 http://deb.debian.org/debian trixie/main amd64 libpython3-dev amd64 3.12.6-1 [9952 B] Get: 75 http://deb.debian.org/debian trixie/main amd64 python3.12-dev amd64 3.12.7-3 [505 kB] Get: 76 http://deb.debian.org/debian trixie/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 77 http://deb.debian.org/debian trixie/main amd64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 78 http://deb.debian.org/debian trixie/main amd64 libjs-sphinxdoc all 7.4.7-4 [158 kB] Get: 79 http://deb.debian.org/debian trixie/main amd64 python3-dev amd64 3.12.6-1 [26.1 kB] Get: 80 http://deb.debian.org/debian trixie/main amd64 libboost-python1.83-dev amd64 1.83.0-3.2 [327 kB] Get: 81 http://deb.debian.org/debian trixie/main amd64 libboost-python-dev amd64 1.83.0.2+b2 [3892 B] Get: 82 http://deb.debian.org/debian trixie/main amd64 libbrotli1 amd64 1.1.0-2+b5 [307 kB] Get: 83 http://deb.debian.org/debian trixie/main amd64 libbrotli-dev amd64 1.1.0-2+b5 [316 kB] Get: 84 http://deb.debian.org/debian trixie/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-8 [19.6 kB] Get: 85 http://deb.debian.org/debian trixie/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-8 [57.3 kB] Get: 86 http://deb.debian.org/debian trixie/main amd64 libldap-2.5-0 amd64 2.5.18+dfsg-3+b1 [188 kB] Get: 87 http://deb.debian.org/debian trixie/main amd64 libnghttp2-14 amd64 1.64.0-1 [75.5 kB] Get: 88 http://deb.debian.org/debian trixie/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get: 89 http://deb.debian.org/debian trixie/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b5 [58.8 kB] Get: 90 http://deb.debian.org/debian trixie/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get: 91 http://deb.debian.org/debian trixie/main amd64 libcurl4t64 amd64 8.10.1-2 [352 kB] Get: 92 http://deb.debian.org/debian trixie/main amd64 libidn2-dev amd64 2.3.7-2+b1 [123 kB] Get: 93 http://deb.debian.org/debian trixie/main amd64 libpkgconf3 amd64 1.8.1-4 [36.4 kB] Get: 94 http://deb.debian.org/debian trixie/main amd64 pkgconf-bin amd64 1.8.1-4 [30.2 kB] Get: 95 http://deb.debian.org/debian trixie/main amd64 pkgconf amd64 1.8.1-4 [26.2 kB] Get: 96 http://deb.debian.org/debian trixie/main amd64 libnghttp2-dev amd64 1.64.0-1 [115 kB] Get: 97 http://deb.debian.org/debian trixie/main amd64 libpsl-dev amd64 0.21.2-1.1+b1 [77.6 kB] Get: 98 http://deb.debian.org/debian trixie/main amd64 libgmpxx4ldbl amd64 2:6.3.0+dfsg-2+b2 [329 kB] Get: 99 http://deb.debian.org/debian trixie/main amd64 libgmp-dev amd64 2:6.3.0+dfsg-2+b2 [642 kB] Get: 100 http://deb.debian.org/debian trixie/main amd64 libevent-2.1-7t64 amd64 2.1.12-stable-10+b1 [182 kB] Get: 101 http://deb.debian.org/debian trixie/main amd64 libunbound8 amd64 1.22.0-1 [598 kB] Get: 102 http://deb.debian.org/debian trixie/main amd64 libgnutls-dane0t64 amd64 3.8.6-2+b1 [439 kB] Get: 103 http://deb.debian.org/debian trixie/main amd64 libgnutls-openssl27t64 amd64 3.8.6-2+b1 [439 kB] Get: 104 http://deb.debian.org/debian trixie/main amd64 libp11-kit-dev amd64 0.25.5-2+b1 [208 kB] Get: 105 http://deb.debian.org/debian trixie/main amd64 libtasn1-6-dev amd64 4.19.0-3+b3 [98.9 kB] Get: 106 http://deb.debian.org/debian trixie/main amd64 nettle-dev amd64 3.10-1+b1 [1317 kB] Get: 107 http://deb.debian.org/debian trixie/main amd64 libgnutls28-dev amd64 3.8.6-2+b1 [1385 kB] Get: 108 http://deb.debian.org/debian trixie/main amd64 librtmp-dev amd64 2.4+20151223.gitfa8646d.1-2+b5 [68.0 kB] Get: 109 http://deb.debian.org/debian trixie/main amd64 libssl-dev amd64 3.3.2-2 [2742 kB] Get: 110 http://deb.debian.org/debian trixie/main amd64 libssh2-1-dev amd64 1.11.1-1 [393 kB] Get: 111 http://deb.debian.org/debian trixie/main amd64 libzstd-dev amd64 1.5.6+dfsg-1+b1 [365 kB] Get: 112 http://deb.debian.org/debian trixie/main amd64 libcurl4-openssl-dev amd64 8.10.1-2 [462 kB] Get: 113 http://deb.debian.org/debian trixie/main amd64 libgfortran5 amd64 14.2.0-8 [836 kB] Get: 114 http://deb.debian.org/debian trixie/main amd64 libhdf5-103-1t64 amd64 1.10.10+repack-4 [1253 kB] Get: 115 http://deb.debian.org/debian trixie/main amd64 libhdf5-cpp-103-1t64 amd64 1.10.10+repack-4 [130 kB] Get: 116 http://deb.debian.org/debian trixie/main amd64 libhdf5-fortran-102t64 amd64 1.10.10+repack-4 [89.5 kB] Get: 117 http://deb.debian.org/debian trixie/main amd64 libhdf5-hl-100t64 amd64 1.10.10+repack-4 [63.9 kB] Get: 118 http://deb.debian.org/debian trixie/main amd64 libhdf5-hl-fortran-100t64 amd64 1.10.10+repack-4 [40.5 kB] Get: 119 http://deb.debian.org/debian trixie/main amd64 libhdf5-hl-cpp-100t64 amd64 1.10.10+repack-4 [21.4 kB] Get: 120 http://deb.debian.org/debian trixie/main amd64 libjpeg62-turbo amd64 1:2.1.5-3+b1 [168 kB] Get: 121 http://deb.debian.org/debian trixie/main amd64 libjpeg62-turbo-dev amd64 1:2.1.5-3+b1 [292 kB] Get: 122 http://deb.debian.org/debian trixie/main amd64 libjpeg-dev amd64 1:2.1.5-3+b1 [72.2 kB] Get: 123 http://deb.debian.org/debian trixie/main amd64 libhdf5-dev amd64 1.10.10+repack-4 [2652 kB] Get: 124 http://deb.debian.org/debian trixie/main amd64 libpython3-all-dev amd64 3.12.6-1 [1064 B] Get: 125 http://deb.debian.org/debian trixie/main amd64 python3-all amd64 3.12.6-1 [1040 B] Get: 126 http://deb.debian.org/debian trixie/main amd64 python3-all-dev amd64 3.12.6-1 [1068 B] Fetched 68.8 MB in 3s (23.1 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.12-minimal:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19971 files and directories currently installed.) Preparing to unpack .../libpython3.12-minimal_3.12.7-3_amd64.deb ... Unpacking libpython3.12-minimal:amd64 (3.12.7-3) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../libexpat1_2.6.3-2_amd64.deb ... Unpacking libexpat1:amd64 (2.6.3-2) ... Selecting previously unselected package python3.12-minimal. Preparing to unpack .../python3.12-minimal_3.12.7-3_amd64.deb ... Unpacking python3.12-minimal (3.12.7-3) ... Setting up libpython3.12-minimal:amd64 (3.12.7-3) ... Setting up libexpat1:amd64 (2.6.3-2) ... Setting up python3.12-minimal (3.12.7-3) ... Selecting previously unselected package python3-minimal. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20291 files and directories currently installed.) Preparing to unpack .../00-python3-minimal_3.12.6-1_amd64.deb ... Unpacking python3-minimal (3.12.6-1) ... Selecting previously unselected package media-types. Preparing to unpack .../01-media-types_10.1.0_all.deb ... Unpacking media-types (10.1.0) ... Selecting previously unselected package netbase. Preparing to unpack .../02-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package tzdata. Preparing to unpack .../03-tzdata_2024b-3_all.deb ... Unpacking tzdata (2024b-3) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../04-libkrb5support0_1.21.3-3_amd64.deb ... Unpacking libkrb5support0:amd64 (1.21.3-3) ... Selecting previously unselected package libcom-err2:amd64. Preparing to unpack .../05-libcom-err2_1.47.1-1+b1_amd64.deb ... Unpacking libcom-err2:amd64 (1.47.1-1+b1) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../06-libk5crypto3_1.21.3-3_amd64.deb ... Unpacking libk5crypto3:amd64 (1.21.3-3) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../07-libkeyutils1_1.6.3-4_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-4) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../08-libkrb5-3_1.21.3-3_amd64.deb ... Unpacking libkrb5-3:amd64 (1.21.3-3) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../09-libgssapi-krb5-2_1.21.3-3_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.21.3-3) ... Selecting previously unselected package libtirpc-common. Preparing to unpack .../10-libtirpc-common_1.3.4+ds-1.3_all.deb ... Unpacking libtirpc-common (1.3.4+ds-1.3) ... Selecting previously unselected package libtirpc3t64:amd64. Preparing to unpack .../11-libtirpc3t64_1.3.4+ds-1.3+b1_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3 to /lib/x86_64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3.0.0 to /lib/x86_64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:amd64 (1.3.4+ds-1.3+b1) ... Selecting previously unselected package libnsl2:amd64. Preparing to unpack .../12-libnsl2_1.3.0-3+b3_amd64.deb ... Unpacking libnsl2:amd64 (1.3.0-3+b3) ... Selecting previously unselected package readline-common. Preparing to unpack .../13-readline-common_8.2-5_all.deb ... Unpacking readline-common (8.2-5) ... Selecting previously unselected package libreadline8t64:amd64. Preparing to unpack .../14-libreadline8t64_8.2-5_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:amd64 (8.2-5) ... Selecting previously unselected package libpython3.12-stdlib:amd64. Preparing to unpack .../15-libpython3.12-stdlib_3.12.7-3_amd64.deb ... Unpacking libpython3.12-stdlib:amd64 (3.12.7-3) ... Selecting previously unselected package python3.12. Preparing to unpack .../16-python3.12_3.12.7-3_amd64.deb ... Unpacking python3.12 (3.12.7-3) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../17-libpython3-stdlib_3.12.6-1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.12.6-1) ... Setting up python3-minimal (3.12.6-1) ... Selecting previously unselected package python3. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 21353 files and directories currently installed.) Preparing to unpack .../000-python3_3.12.6-1_amd64.deb ... Unpacking python3 (3.12.6-1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../001-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../002-libmagic-mgc_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../003-libmagic1t64_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../004-file_1%3a5.45-3+b1_amd64.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../005-gettext-base_0.22.5-2_amd64.deb ... Unpacking gettext-base (0.22.5-2) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../006-libuchardet0_0.0.8-1+b2_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. 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Selecting previously unselected package libxml2:amd64. Preparing to unpack .../026-libxml2_2.12.7+dfsg+really2.9.14-0.1_amd64.deb ... Unpacking libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.1) ... Selecting previously unselected package gettext. Preparing to unpack .../027-gettext_0.22.5-2_amd64.deb ... Unpacking gettext (0.22.5-2) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../028-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../029-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../030-debhelper_13.20_all.deb ... Unpacking debhelper (13.20) ... Selecting previously unselected package python3-autocommand. Preparing to unpack .../031-python3-autocommand_2.2.2-3_all.deb ... Unpacking python3-autocommand (2.2.2-3) ... Selecting previously unselected package python3-more-itertools. Preparing to unpack .../032-python3-more-itertools_10.5.0-1_all.deb ... Unpacking python3-more-itertools (10.5.0-1) ... Selecting previously unselected package python3-typing-extensions. Preparing to unpack .../033-python3-typing-extensions_4.12.2-2_all.deb ... Unpacking python3-typing-extensions (4.12.2-2) ... Selecting previously unselected package python3-typeguard. Preparing to unpack .../034-python3-typeguard_4.4.1-1_all.deb ... Unpacking python3-typeguard (4.4.1-1) ... Selecting previously unselected package python3-inflect. Preparing to unpack .../035-python3-inflect_7.3.1-2_all.deb ... Unpacking python3-inflect (7.3.1-2) ... Selecting previously unselected package python3-jaraco.context. Preparing to unpack .../036-python3-jaraco.context_6.0.0-1_all.deb ... Unpacking python3-jaraco.context (6.0.0-1) ... Selecting previously unselected package python3-jaraco.functools. 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Setting up libpython3-dev:amd64 (3.12.6-1) ... Setting up python3-jaraco.functools (4.1.0-1) ... Setting up python3-jaraco.context (6.0.0-1) ... Setting up python3-typeguard (4.4.1-1) ... Setting up python3-all (3.12.6-1) ... Setting up python3-inflect (7.3.1-2) ... Setting up libpython3-all-dev:amd64 (3.12.6-1) ... Setting up python3-dev (3.12.6-1) ... Setting up libboost-python1.83-dev (1.83.0-3.2) ... Setting up python3-pkg-resources (74.1.2-2) ... Setting up python3-all-dev (3.12.6-1) ... Setting up python3-setuptools (74.1.2-2) ... Setting up libboost-python-dev (1.83.0.2+b2) ... Setting up dh-python (6.20241024) ... Processing triggers for libc-bin (2.40-3) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/fast5-0.6.5/ && 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 > ../fast5_0.6.5-8_source.changes dpkg-buildpackage: info: source package fast5 dpkg-buildpackage: info: source version 0.6.5-8 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 dpkg-source: info: using options from fast5-0.6.5/debian/source/options: --extend-diff-ignore=^[^/]+\.egg-info/|python/fast5/fast5.cpp debian/rules clean dh clean --with python3 --buildsystem=pybuild \ --sourcedirectory=python debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/fast5-0.6.5' cd src && /usr/bin/make clean make[2]: Entering directory '/build/reproducible-path/fast5-0.6.5/src' rm -rf f5ls f5ls-full hdf5-mod f5-mod f5dump f5pack make[2]: Leaving directory '/build/reproducible-path/fast5-0.6.5/src' dh_auto_clean I: pybuild base:311: python3.12 setup.py clean /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/fast5-0.6.5/python/fast5/fast5.pyx tree = Parsing.p_module(s, pxd, full_module_name) Compiling fast5/fast5.pyx because it changed. [1/1] Cythonizing fast5/fast5.pyx running clean removing '/build/reproducible-path/fast5-0.6.5/.pybuild/cpython3_3.12_fast5/build' (and everything under it) 'build/bdist.linux-x86_64' does not exist -- can't clean it 'build/scripts-3.12' does not exist -- can't clean it rm -rf python/fast5/fast5.cpp make[1]: Leaving directory '/build/reproducible-path/fast5-0.6.5' dh_autoreconf_clean -O--buildsystem=pybuild -O--sourcedirectory=python dh_clean -O--buildsystem=pybuild -O--sourcedirectory=python debian/rules binary dh binary --with python3 --buildsystem=pybuild \ --sourcedirectory=python dh_update_autotools_config -O--buildsystem=pybuild -O--sourcedirectory=python dh_autoreconf -O--buildsystem=pybuild -O--sourcedirectory=python dh_auto_configure -O--buildsystem=pybuild -O--sourcedirectory=python I: pybuild base:311: python3.12 setup.py config /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/fast5-0.6.5/python/fast5/fast5.pyx tree = Parsing.p_module(s, pxd, full_module_name) Compiling fast5/fast5.pyx because it changed. [1/1] Cythonizing fast5/fast5.pyx running config dh_auto_build -O--buildsystem=pybuild -O--sourcedirectory=python I: pybuild base:311: /usr/bin/python3 setup.py build running build running build_ext building 'fast5' extension creating build creating build/temp.linux-x86_64-cpython-312 creating build/temp.linux-x86_64-cpython-312/fast5 x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/fast5-0.6.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -fPIC -I../include -I../src -I/usr/include/python3.12 -c fast5/fast5.cpp -o build/temp.linux-x86_64-cpython-312/fast5/fast5.o -std=c++11 -Wall -Wextra -Wpedantic -isystem /usr/include/hdf5/serial x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/fast5-0.6.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/fast5-0.6.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API build/temp.linux-x86_64-cpython-312/fast5/fast5.o -L/usr/lib/x86_64-linux-gnu/hdf5/serial -L/usr/lib/x86_64-linux-gnu -lhdf5 -o /build/reproducible-path/fast5-0.6.5/.pybuild/cpython3_3.12_fast5/build/fast5.cpython-312-x86_64-linux-gnu.so running build_scripts creating build/scripts-3.12 copying and adjusting bin/f5ls -> build/scripts-3.12 copying and adjusting bin/f5pack -> build/scripts-3.12 changing mode of build/scripts-3.12/f5ls from 644 to 755 changing mode of build/scripts-3.12/f5pack from 644 to 755 debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/fast5-0.6.5' cd src && /usr/bin/make make[2]: Entering directory '/build/reproducible-path/fast5-0.6.5/src' g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/fast5-0.6.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=c++11 -O0 -g3 -ggdb -fno-eliminate-unused-debug-types -Wall -Wextra -Wpedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -isystem /usr/include/hdf5/serial -I /build/reproducible-path/fast5-0.6.5/src/../include -o f5ls f5ls.cpp -Wl,-z,relro -Wl,-z,now -L/usr/lib/x86_64-linux-gnu/hdf5/serial -Wl,--rpath=/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -lpthread -lz -ldl g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/fast5-0.6.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=c++11 -O0 -g3 -ggdb -fno-eliminate-unused-debug-types -Wall -Wextra -Wpedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -isystem /usr/include/hdf5/serial -I /build/reproducible-path/fast5-0.6.5/src/../include -o f5ls-full f5ls-full.cpp -Wl,-z,relro -Wl,-z,now -L/usr/lib/x86_64-linux-gnu/hdf5/serial -Wl,--rpath=/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -lpthread -lz -ldl g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/fast5-0.6.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=c++11 -O0 -g3 -ggdb -fno-eliminate-unused-debug-types -Wall -Wextra -Wpedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -isystem /usr/include/hdf5/serial -I /build/reproducible-path/fast5-0.6.5/src/../include -o hdf5-mod hdf5-mod.cpp -Wl,-z,relro -Wl,-z,now -L/usr/lib/x86_64-linux-gnu/hdf5/serial -Wl,--rpath=/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -lpthread -lz -ldl g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/fast5-0.6.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=c++11 -O0 -g3 -ggdb -fno-eliminate-unused-debug-types -Wall -Wextra -Wpedantic -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -isystem /usr/include/hdf5/serial -I /build/reproducible-path/fast5-0.6.5/src/../include -o f5-mod f5-mod.cpp -Wl,-z,relro -Wl,-z,now -L/usr/lib/x86_64-linux-gnu/hdf5/serial -Wl,--rpath=/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -lpthread -lz -ldl make[2]: Leaving directory '/build/reproducible-path/fast5-0.6.5/src' make[1]: Leaving directory '/build/reproducible-path/fast5-0.6.5' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild -O--sourcedirectory=python dh_prep -O--buildsystem=pybuild -O--sourcedirectory=python dh_auto_install -O--buildsystem=pybuild -O--sourcedirectory=python I: pybuild base:311: /usr/bin/python3 setup.py install --root /build/reproducible-path/fast5-0.6.5/debian/python3-fast5 running install /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. !! ******************************************************************************** Please avoid running ``setup.py`` directly. Instead, use pypa/build, pypa/installer or other standards-based tools. See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. ******************************************************************************** !! self.initialize_options() running build running build_ext running build_scripts running install_lib creating /build/reproducible-path/fast5-0.6.5/debian/python3-fast5 creating /build/reproducible-path/fast5-0.6.5/debian/python3-fast5/usr creating /build/reproducible-path/fast5-0.6.5/debian/python3-fast5/usr/lib creating /build/reproducible-path/fast5-0.6.5/debian/python3-fast5/usr/lib/python3.12 creating /build/reproducible-path/fast5-0.6.5/debian/python3-fast5/usr/lib/python3.12/dist-packages copying /build/reproducible-path/fast5-0.6.5/.pybuild/cpython3_3.12_fast5/build/fast5.cpython-312-x86_64-linux-gnu.so -> /build/reproducible-path/fast5-0.6.5/debian/python3-fast5/usr/lib/python3.12/dist-packages running install_egg_info running egg_info creating fast5.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 writing manifest file 'fast5.egg-info/SOURCES.txt' dependency ../include/fast5.hpp won't be automatically included in the manifest: the path can't have `..` segments dependency ../src/File_Packer.hpp won't be automatically included in the manifest: the path can't have `..` segments reading manifest file 'fast5.egg-info/SOURCES.txt' writing manifest file 'fast5.egg-info/SOURCES.txt' Copying fast5.egg-info to /build/reproducible-path/fast5-0.6.5/debian/python3-fast5/usr/lib/python3.12/dist-packages/fast5-0.6.2.egg-info Skipping SOURCES.txt running install_scripts creating /build/reproducible-path/fast5-0.6.5/debian/python3-fast5/usr/bin copying build/scripts-3.12/f5pack -> /build/reproducible-path/fast5-0.6.5/debian/python3-fast5/usr/bin copying build/scripts-3.12/f5ls -> /build/reproducible-path/fast5-0.6.5/debian/python3-fast5/usr/bin changing mode of /build/reproducible-path/fast5-0.6.5/debian/python3-fast5/usr/bin/f5pack to 755 changing mode of /build/reproducible-path/fast5-0.6.5/debian/python3-fast5/usr/bin/f5ls to 755 debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/fast5-0.6.5' dh_install mkdir -p debian/fast5/usr/bin/ mv debian/python3-fast5/usr/bin/* debian/fast5/usr/bin/ make[1]: Leaving directory '/build/reproducible-path/fast5-0.6.5' dh_installdocs -O--buildsystem=pybuild -O--sourcedirectory=python dh_installchangelogs -O--buildsystem=pybuild -O--sourcedirectory=python dh_installexamples -O--buildsystem=pybuild -O--sourcedirectory=python dh_python3 -O--buildsystem=pybuild -O--sourcedirectory=python dh_installsystemduser -O--buildsystem=pybuild -O--sourcedirectory=python dh_perl -O--buildsystem=pybuild -O--sourcedirectory=python dh_link -O--buildsystem=pybuild -O--sourcedirectory=python dh_strip_nondeterminism -O--buildsystem=pybuild -O--sourcedirectory=python debian/rules override_dh_compress make[1]: Entering directory '/build/reproducible-path/fast5-0.6.5' cd src && /usr/bin/make clean make[2]: Entering directory '/build/reproducible-path/fast5-0.6.5/src' rm -rf f5ls f5ls-full hdf5-mod f5-mod f5dump f5pack make[2]: Leaving directory '/build/reproducible-path/fast5-0.6.5/src' dh_compress -X .cpp -X .hpp make[1]: Leaving directory '/build/reproducible-path/fast5-0.6.5' dh_fixperms -O--buildsystem=pybuild -O--sourcedirectory=python dh_missing -O--buildsystem=pybuild -O--sourcedirectory=python dh_dwz -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 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib64/ld-linux-x86-64.so.2 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib64/ld-linux-x86-64.so.2.usr-is-merged dh_installdeb -O--buildsystem=pybuild -O--sourcedirectory=python dh_gencontrol -O--buildsystem=pybuild -O--sourcedirectory=python dh_md5sums -O--buildsystem=pybuild -O--sourcedirectory=python dh_builddeb -O--buildsystem=pybuild -O--sourcedirectory=python dpkg-deb: building package 'libfast5-dev' in '../libfast5-dev_0.6.5-8_all.deb'. dpkg-deb: building package 'fast5' in '../fast5_0.6.5-8_all.deb'. dpkg-deb: building package 'python3-fast5-dbgsym' in '../python3-fast5-dbgsym_0.6.5-8_amd64.deb'. dpkg-deb: building package 'python3-fast5' in '../python3-fast5_0.6.5-8_amd64.deb'. dpkg-genbuildinfo --build=binary -O../fast5_0.6.5-8_amd64.buildinfo dpkg-genchanges --build=binary -O../fast5_0.6.5-8_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . 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) 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/4062850 and its subdirectories I: Current time: Sun Nov 10 23:32:32 -12 2024 I: pbuilder-time-stamp: 1731324752 Mon Nov 11 11:32:34 UTC 2024 I: 1st build successful. Starting 2nd build on remote node ionos15-amd64.debian.net. Mon Nov 11 11:32:34 UTC 2024 I: Preparing to do remote build '2' on ionos15-amd64.debian.net. Mon Nov 11 11:34:47 UTC 2024 I: Deleting $TMPDIR on ionos15-amd64.debian.net. Mon Nov 11 11:34:48 UTC 2024 I: fast5_0.6.5-8_amd64.changes: Format: 1.8 Date: Wed, 21 Aug 2024 16:53:26 +0200 Source: fast5 Binary: fast5 libfast5-dev python3-fast5 python3-fast5-dbgsym Architecture: all amd64 Version: 0.6.5-8 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Étienne Mollier Description: fast5 - utilities for manipulating Oxford Nanopore Fast5 files libfast5-dev - library for reading Oxford Nanopore Fast5 files -- headers python3-fast5 - library for reading Oxford Nanopore Fast5 files -- Python 3 Closes: 1078976 Changes: fast5 (0.6.5-8) unstable; urgency=medium . * d/control: set CPPFLAGS to add -DH5_USE_110_API. This fixes build failure with hdfs5 1.14. Thanks to Gilles Filippini (Closes: #1078976) * d/control: declare compliance to standards version 4.7.0. Checksums-Sha1: 6cbc2c994bb0aaf7d880799b87a0c0a8e3a89997 7172 fast5_0.6.5-8_all.deb ced6a50452ee9d3dfc0f979a4b8b9151e9cfcd0d 8905 fast5_0.6.5-8_amd64.buildinfo 674878e9bbcef94a99236b66deee64f10cd83a33 49008 libfast5-dev_0.6.5-8_all.deb d8a57fb2a5ebcb224d4b4d9db2373b9bd7ee9b66 2719580 python3-fast5-dbgsym_0.6.5-8_amd64.deb 0bb5fa71019f979f8fb5b889f610e4e2d17aafe2 254868 python3-fast5_0.6.5-8_amd64.deb Checksums-Sha256: 9c35b495f4eb6638e686134c1c47aeb00b27d7d7e3387e122ee5f09b191795e7 7172 fast5_0.6.5-8_all.deb 1bff7c531605f6d98a2ff5f0c35f5718301ed6f8b129e2e731ab4ba3e6d506c0 8905 fast5_0.6.5-8_amd64.buildinfo 58ffc26c4efe078386a4b01a3c0e0fb389e12f700234ae94380ee1cf8fe091fb 49008 libfast5-dev_0.6.5-8_all.deb 10c1698de23b41400fff39f4ce1758481b2e01aa5a5e77aa9efd894871d00c77 2719580 python3-fast5-dbgsym_0.6.5-8_amd64.deb df74ba56c768683fe2cf84aa9ce46226c936ac4f76ee58aa636f081cba9aa9f8 254868 python3-fast5_0.6.5-8_amd64.deb Files: 4c8d506555ab9635ef2cb835bc476684 7172 science optional fast5_0.6.5-8_all.deb fc3e5b6a0fc1bf7bf0379fc07456e26f 8905 science optional fast5_0.6.5-8_amd64.buildinfo 45092099054b7d963c2dfc1e45857307 49008 libdevel optional libfast5-dev_0.6.5-8_all.deb 134555d3f68b7ac4dcf4202aaaa9b03d 2719580 debug optional python3-fast5-dbgsym_0.6.5-8_amd64.deb 598d0016501da481894e84444b6455b1 254868 python optional python3-fast5_0.6.5-8_amd64.deb Mon Nov 11 11:34:49 UTC 2024 I: diffoscope 283 will be used to compare the two builds: Running as unit: rb-diffoscope-amd64_15-37495.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.gKKrhKVz/fast5_0.6.5-8.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.gKKrhKVz/fast5_0.6.5-8.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.gKKrhKVz/fast5_0.6.5-8.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.gKKrhKVz/b1/fast5_0.6.5-8_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.gKKrhKVz/b2/fast5_0.6.5-8_amd64.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: 0.437s) 0.437s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.054s) 0.054s 12 calls diffoscope.comparators.binary.FilesystemFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 811ms CPU time consumed: 809ms Mon Nov 11 11:34:50 UTC 2024 I: diffoscope 283 found no differences in the changes files, and a .buildinfo file also exists. Mon Nov 11 11:34:50 UTC 2024 I: fast5 from trixie built successfully and reproducibly on amd64. Mon Nov 11 11:34:52 UTC 2024 I: Submitting .buildinfo files to external archives: Mon Nov 11 11:34:52 UTC 2024 I: Submitting 12K b1/fast5_0.6.5-8_amd64.buildinfo.asc Mon Nov 11 11:34:52 UTC 2024 I: Submitting 12K b2/fast5_0.6.5-8_amd64.buildinfo.asc Mon Nov 11 11:34:53 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Mon Nov 11 11:34:53 UTC 2024 I: Done submitting .buildinfo files. Mon Nov 11 11:34:53 UTC 2024 I: Removing signed fast5_0.6.5-8_amd64.buildinfo.asc files: removed './b1/fast5_0.6.5-8_amd64.buildinfo.asc' removed './b2/fast5_0.6.5-8_amd64.buildinfo.asc'