Sat Oct 12 18:18:25 UTC 2024 I: starting to build flye/unstable/armhf on jenkins on '2024-10-12 18:18' Sat Oct 12 18:18:25 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/armhf_19/3880/console.log Sat Oct 12 18:18:25 UTC 2024 I: Downloading source for unstable/flye=2.9.5+dfsg-1 --2024-10-12 18:18:25-- http://deb.debian.org/debian/pool/main/f/flye/flye_2.9.5%2bdfsg-1.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2222 (2.2K) [text/prs.lines.tag] Saving to: ‘flye_2.9.5+dfsg-1.dsc’ 0K .. 100% 330M=0s 2024-10-12 18:18:25 (330 MB/s) - ‘flye_2.9.5+dfsg-1.dsc’ saved [2222/2222] Sat Oct 12 18:18:26 UTC 2024 I: flye_2.9.5+dfsg-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: flye Binary: flye Architecture: any Version: 2.9.5+dfsg-1 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille , Étienne Mollier Homepage: https://github.com/fenderglass/Flye Standards-Version: 4.7.0 Vcs-Browser: https://salsa.debian.org/med-team/flye Vcs-Git: https://salsa.debian.org/med-team/flye.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), dh-sequence-python3, python3, python3-setuptools, liblemon-dev, libminimap2-dev, samtools, zlib1g-dev Package-List: flye deb science optional arch=any Checksums-Sha1: c9a5034bbf5e504e50a40c9139d23aa76ec3bbb7 22759420 flye_2.9.5+dfsg.orig.tar.xz d94fb8fcb52a32541a60cde2076f2deb9e0858c0 14236 flye_2.9.5+dfsg-1.debian.tar.xz Checksums-Sha256: a638e8cbd6d8d99c852b864208fb5421afb5f07746687e587244d0207ee91807 22759420 flye_2.9.5+dfsg.orig.tar.xz b7a0ebdf9ba5080d6ed30f1a8641196901c48b1d51864881901fc6f84d5c9e24 14236 flye_2.9.5+dfsg-1.debian.tar.xz Files: 182d6fef605b75820374bd6692a17e4c 22759420 flye_2.9.5+dfsg.orig.tar.xz 8a472dabdba3eb2c15bec391be4f57e8 14236 flye_2.9.5+dfsg-1.debian.tar.xz Dgit: 5906302ad1a018c50896e22e61fb882544ca0a08 debian archive/debian/2.9.5+dfsg-1 https://git.dgit.debian.org/flye -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmbS+lYUHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdohgg//YMVgi4cHgf6TKM4mIlg8dLf2LmzU pH1TsQEk5aCw8mF2fmkyiHIEPuVGxiMPD24i3BYNCB22icMjiWXGZLQ3Bq/XbX20 t7Zaz7WkW7zaR+TgUE++hg6y8vA8YHR/Y7Kc+fdstiU4i9otDTC2y11DHQel2o2Y CgUg3F4MTRCBy0kcsVbwcEFEXKPg2UI5usZvxDG5fYD/vQK7p6fKz2SxY4c9VwTW CRbICdYqs8tPj/m62qNta+y5xChYvBBmoIrylw+LGr/b5R93R6jGpzo4H5oAd2lf oIY5fIQkp8ZlQNrxFOXgOl9VL7CY3yNWruiXHshKJIqfBFxkdQwO54askci562HJ ZXsZGVDS3KOvjmDnJyOIOT4kSkJdeUNy0KyLZfu5zcLpjYErqZVK9efYi+q2kunT a8XCd14Ln8+zauvqEJBsm48ZCTk+OlVZ1w8g2qMjxLGN791LUn/VHC5hrGkdLdp/ dBH02WnfIVr+lGLCcwWraSCkQY0a9mZjaEQoxNsItwm1NZFZitoTVQdUYatQiPnB WJ2TrzctPavSKTNjQIs4HSEeOqzx8aim3bs2iTn4JZ7VOOfidnBxh+w/CayND3H0 jkyyHHAP6bpx1X3GCnJu5fY2t2k7l8F69DyyMfishJTmhdr4mWCbilmwtmOusVIX /fNTgOSpF2RdAX4= =dqzQ -----END PGP SIGNATURE----- Sat Oct 12 18:18:26 UTC 2024 I: Checking whether the package is not for us Sat Oct 12 18:18:26 UTC 2024 I: Starting 1st build on remote node virt64c-armhf-rb.debian.net. Sat Oct 12 18:18:26 UTC 2024 I: Preparing to do remote build '1' on virt64c-armhf-rb.debian.net. Sat Oct 12 18:22:57 UTC 2024 I: Deleting $TMPDIR on virt64c-armhf-rb.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sat Oct 12 06:18:45 -12 2024 I: pbuilder-time-stamp: 1728757125 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-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 [flye_2.9.5+dfsg-1.dsc] I: copying [./flye_2.9.5+dfsg.orig.tar.xz] I: copying [./flye_2.9.5+dfsg-1.debian.tar.xz] I: Extracting source gpgv: Signature made Sat Aug 31 11:11:18 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 ./flye_2.9.5+dfsg-1.dsc: no acceptable signature found dpkg-source: info: extracting flye in flye-2.9.5+dfsg dpkg-source: info: unpacking flye_2.9.5+dfsg.orig.tar.xz dpkg-source: info: unpacking flye_2.9.5+dfsg-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying use_debian_packaged_libs.patch dpkg-source: info: applying cppflags.patch dpkg-source: info: applying python3.12.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/9387/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='armhf' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=3 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='armhf' IFS=' ' INVOCATION_ID='7a2c9ac449ff43699f2fcbdde9a562b1' 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='9387' 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.0pWls2MQ/pbuilderrc_UHG7 --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.0pWls2MQ/b1 --logfile b1/build.log flye_2.9.5+dfsg-1.dsc' SUDO_GID='113' SUDO_UID='107' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://10.0.0.15:3142/' I: uname -a Linux virt64c 6.1.0-26-arm64 #1 SMP Debian 6.1.112-1 (2024-09-30) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Jun 5 22:35 /bin -> usr/bin I: user script /srv/workspace/pbuilder/9387/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: armhf Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), dh-sequence-python3, python3, python3-setuptools, liblemon-dev, libminimap2-dev, samtools, zlib1g-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 20542 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-sequence-python3; however: Package dh-sequence-python3 is not installed. pbuilder-satisfydepends-dummy depends on python3; however: Package python3 is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on liblemon-dev; however: Package liblemon-dev is not installed. pbuilder-satisfydepends-dummy depends on libminimap2-dev; however: Package libminimap2-dev is not installed. pbuilder-satisfydepends-dummy depends on samtools; however: Package samtools is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev 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} 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} libamd3{a} libarchive-zip-perl{a} libbrotli1{a} libcolamd3{a} libcom-err2{a} libcurl3t64-gnutls{a} libdebhelper-perl{a} libdeflate0{a} libelf1t64{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libglpk40{a} libgssapi-krb5-2{a} libhts3t64{a} libhtscodecs2{a} libicu72{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap-2.5-0{a} liblemon-dev{a} liblemon1.3.1{a} libltdl7{a} libmagic-mgc{a} libmagic1t64{a} libminimap2-dev{a} libncurses6{a} libnghttp2-14{a} libnghttp3-9{a} libngtcp2-16{a} libngtcp2-crypto-gnutls8{a} libnsl2{a} libpipeline1{a} libpsl5t64{a} libpython3-stdlib{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libreadline8t64{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1t64{a} libsuitesparseconfig7{a} libtirpc-common{a} libtirpc3t64{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} media-types{a} netbase{a} po-debconf{a} python3{a} python3-autocommand{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-minimal{a} readline-common{a} samtools{a} sensible-utils{a} tzdata{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl krb5-locales libarchive-cpio-perl libgpm2 libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx publicsuffix wget 0 packages upgraded, 88 newly installed, 0 to remove and 0 not upgraded. Need to get 31.6 MB of archives. After unpacking 112 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main armhf libpython3.12-minimal armhf 3.12.7-1 [800 kB] Get: 2 http://deb.debian.org/debian unstable/main armhf libexpat1 armhf 2.6.3-1 [83.2 kB] Get: 3 http://deb.debian.org/debian unstable/main armhf python3.12-minimal armhf 3.12.7-1 [1809 kB] Get: 4 http://deb.debian.org/debian unstable/main armhf python3-minimal armhf 3.12.6-1 [26.7 kB] Get: 5 http://deb.debian.org/debian unstable/main armhf media-types all 10.1.0 [26.9 kB] Get: 6 http://deb.debian.org/debian unstable/main armhf netbase all 6.4 [12.8 kB] Get: 7 http://deb.debian.org/debian unstable/main armhf tzdata all 2024b-3 [255 kB] Get: 8 http://deb.debian.org/debian unstable/main armhf libkrb5support0 armhf 1.21.3-3 [30.0 kB] Get: 9 http://deb.debian.org/debian unstable/main armhf libcom-err2 armhf 1.47.1-1 [22.1 kB] Get: 10 http://deb.debian.org/debian unstable/main armhf libk5crypto3 armhf 1.21.3-3 [75.8 kB] Get: 11 http://deb.debian.org/debian unstable/main armhf libkeyutils1 armhf 1.6.3-3 [7908 B] Get: 12 http://deb.debian.org/debian unstable/main armhf libkrb5-3 armhf 1.21.3-3 [283 kB] Get: 13 http://deb.debian.org/debian unstable/main armhf libgssapi-krb5-2 armhf 1.21.3-3 [114 kB] Get: 14 http://deb.debian.org/debian unstable/main armhf libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get: 15 http://deb.debian.org/debian unstable/main armhf libtirpc3t64 armhf 1.3.4+ds-1.3 [71.1 kB] Get: 16 http://deb.debian.org/debian unstable/main armhf libnsl2 armhf 1.3.0-3+b2 [34.9 kB] Get: 17 http://deb.debian.org/debian unstable/main armhf readline-common all 8.2-5 [69.3 kB] Get: 18 http://deb.debian.org/debian unstable/main armhf libreadline8t64 armhf 8.2-5 [146 kB] Get: 19 http://deb.debian.org/debian unstable/main armhf libpython3.12-stdlib armhf 3.12.7-1 [1820 kB] Get: 20 http://deb.debian.org/debian unstable/main armhf python3.12 armhf 3.12.7-1 [671 kB] Get: 21 http://deb.debian.org/debian unstable/main armhf libpython3-stdlib armhf 3.12.6-1 [9692 B] Get: 22 http://deb.debian.org/debian unstable/main armhf python3 armhf 3.12.6-1 [27.8 kB] Get: 23 http://deb.debian.org/debian unstable/main armhf sensible-utils all 0.0.24 [24.8 kB] Get: 24 http://deb.debian.org/debian unstable/main armhf libmagic-mgc armhf 1:5.45-3 [314 kB] Get: 25 http://deb.debian.org/debian unstable/main armhf libmagic1t64 armhf 1:5.45-3 [98.1 kB] Get: 26 http://deb.debian.org/debian unstable/main armhf file armhf 1:5.45-3 [42.0 kB] Get: 27 http://deb.debian.org/debian unstable/main armhf gettext-base armhf 0.22.5-2 [195 kB] Get: 28 http://deb.debian.org/debian unstable/main armhf libuchardet0 armhf 0.0.8-1+b1 [65.7 kB] Get: 29 http://deb.debian.org/debian unstable/main armhf groff-base armhf 1.23.0-5 [1091 kB] Get: 30 http://deb.debian.org/debian unstable/main armhf bsdextrautils armhf 2.40.2-9 [88.8 kB] Get: 31 http://deb.debian.org/debian unstable/main armhf libpipeline1 armhf 1.5.8-1 [35.0 kB] Get: 32 http://deb.debian.org/debian unstable/main armhf man-db armhf 2.13.0-1 [1382 kB] Get: 33 http://deb.debian.org/debian unstable/main armhf m4 armhf 1.4.19-4 [264 kB] Get: 34 http://deb.debian.org/debian unstable/main armhf autoconf all 2.72-3 [493 kB] Get: 35 http://deb.debian.org/debian unstable/main armhf autotools-dev all 20220109.1 [51.6 kB] Get: 36 http://deb.debian.org/debian unstable/main armhf automake all 1:1.16.5-1.3 [823 kB] Get: 37 http://deb.debian.org/debian unstable/main armhf autopoint all 0.22.5-2 [723 kB] Get: 38 http://deb.debian.org/debian unstable/main armhf libdebhelper-perl all 13.20 [89.7 kB] Get: 39 http://deb.debian.org/debian unstable/main armhf libtool all 2.4.7-7 [517 kB] Get: 40 http://deb.debian.org/debian unstable/main armhf dh-autoreconf all 20 [17.1 kB] Get: 41 http://deb.debian.org/debian unstable/main armhf libarchive-zip-perl all 1.68-1 [104 kB] Get: 42 http://deb.debian.org/debian unstable/main armhf libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 43 http://deb.debian.org/debian unstable/main armhf dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 44 http://deb.debian.org/debian unstable/main armhf libelf1t64 armhf 0.191-2 [183 kB] Get: 45 http://deb.debian.org/debian unstable/main armhf dwz armhf 0.15-1+b2 [106 kB] Get: 46 http://deb.debian.org/debian unstable/main armhf libicu72 armhf 72.1-5 [9075 kB] Get: 47 http://deb.debian.org/debian unstable/main armhf libxml2 armhf 2.12.7+dfsg+really2.9.14-0.1 [604 kB] Get: 48 http://deb.debian.org/debian unstable/main armhf gettext armhf 0.22.5-2 [1485 kB] Get: 49 http://deb.debian.org/debian unstable/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 50 http://deb.debian.org/debian unstable/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 51 http://deb.debian.org/debian unstable/main armhf debhelper all 13.20 [915 kB] Get: 52 http://deb.debian.org/debian unstable/main armhf python3-autocommand all 2.2.2-3 [13.6 kB] Get: 53 http://deb.debian.org/debian unstable/main armhf python3-more-itertools all 10.5.0-1 [63.8 kB] Get: 54 http://deb.debian.org/debian unstable/main armhf python3-typing-extensions all 4.12.2-2 [73.0 kB] Get: 55 http://deb.debian.org/debian unstable/main armhf python3-typeguard all 4.3.0-1 [36.5 kB] Get: 56 http://deb.debian.org/debian unstable/main armhf python3-inflect all 7.3.1-2 [32.4 kB] Get: 57 http://deb.debian.org/debian unstable/main armhf python3-jaraco.context all 6.0.0-1 [7984 B] Get: 58 http://deb.debian.org/debian unstable/main armhf python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 59 http://deb.debian.org/debian unstable/main armhf python3-pkg-resources all 74.1.2-2 [213 kB] Get: 60 http://deb.debian.org/debian unstable/main armhf python3-zipp all 3.20.2-1 [10.3 kB] Get: 61 http://deb.debian.org/debian unstable/main armhf python3-setuptools all 74.1.2-2 [736 kB] Get: 62 http://deb.debian.org/debian unstable/main armhf dh-python all 6.20240824 [109 kB] Get: 63 http://deb.debian.org/debian unstable/main armhf libsuitesparseconfig7 armhf 1:7.8.2+dfsg-2 [22.7 kB] Get: 64 http://deb.debian.org/debian unstable/main armhf libamd3 armhf 1:7.8.2+dfsg-2 [41.5 kB] Get: 65 http://deb.debian.org/debian unstable/main armhf libbrotli1 armhf 1.1.0-2+b4 [293 kB] Get: 66 http://deb.debian.org/debian unstable/main armhf libcolamd3 armhf 1:7.8.2+dfsg-2 [32.9 kB] Get: 67 http://deb.debian.org/debian unstable/main armhf libsasl2-modules-db armhf 2.1.28+dfsg1-8 [18.2 kB] Get: 68 http://deb.debian.org/debian unstable/main armhf libsasl2-2 armhf 2.1.28+dfsg1-8 [50.2 kB] Get: 69 http://deb.debian.org/debian unstable/main armhf libldap-2.5-0 armhf 2.5.18+dfsg-3 [163 kB] Get: 70 http://deb.debian.org/debian unstable/main armhf libnghttp2-14 armhf 1.63.0-1 [62.9 kB] Get: 71 http://deb.debian.org/debian unstable/main armhf libnghttp3-9 armhf 1.4.0-1 [55.1 kB] Get: 72 http://deb.debian.org/debian unstable/main armhf libngtcp2-16 armhf 1.6.0-1 [118 kB] Get: 73 http://deb.debian.org/debian unstable/main armhf libngtcp2-crypto-gnutls8 armhf 1.6.0-1 [17.1 kB] Get: 74 http://deb.debian.org/debian unstable/main armhf libpsl5t64 armhf 0.21.2-1.1 [55.6 kB] Get: 75 http://deb.debian.org/debian unstable/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b4 [53.2 kB] Get: 76 http://deb.debian.org/debian unstable/main armhf libssh2-1t64 armhf 1.11.0-7 [199 kB] Get: 77 http://deb.debian.org/debian unstable/main armhf libcurl3t64-gnutls armhf 8.10.1-2 [308 kB] Get: 78 http://deb.debian.org/debian unstable/main armhf libdeflate0 armhf 1.22-1 [36.3 kB] Get: 79 http://deb.debian.org/debian unstable/main armhf libltdl7 armhf 2.4.7-7+b1 [390 kB] Get: 80 http://deb.debian.org/debian unstable/main armhf libglpk40 armhf 5.0-1+b1 [330 kB] Get: 81 http://deb.debian.org/debian unstable/main armhf libhtscodecs2 armhf 1.6.1-1 [63.1 kB] Get: 82 http://deb.debian.org/debian unstable/main armhf libhts3t64 armhf 1.20+ds-1 [399 kB] Get: 83 http://deb.debian.org/debian unstable/main armhf liblemon1.3.1 armhf 1.3.1+dfsg-6+b1 [48.5 kB] Get: 84 http://deb.debian.org/debian unstable/main armhf liblemon-dev armhf 1.3.1+dfsg-6+b1 [322 kB] Get: 85 http://deb.debian.org/debian unstable/main armhf zlib1g-dev armhf 1:1.3.dfsg+really1.3.1-1 [904 kB] Get: 86 http://deb.debian.org/debian unstable/main armhf libminimap2-dev armhf 2.27+dfsg-1+b1 [131 kB] Get: 87 http://deb.debian.org/debian unstable/main armhf libncurses6 armhf 6.5-2 [81.8 kB] Get: 88 http://deb.debian.org/debian unstable/main armhf samtools armhf 1.20-3 [620 kB] Fetched 31.6 MB in 3s (9676 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.12-minimal:armhf. (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 ... 20542 files and directories currently installed.) Preparing to unpack .../libpython3.12-minimal_3.12.7-1_armhf.deb ... Unpacking libpython3.12-minimal:armhf (3.12.7-1) ... Selecting previously unselected package libexpat1:armhf. Preparing to unpack .../libexpat1_2.6.3-1_armhf.deb ... Unpacking libexpat1:armhf (2.6.3-1) ... Selecting previously unselected package python3.12-minimal. Preparing to unpack .../python3.12-minimal_3.12.7-1_armhf.deb ... Unpacking python3.12-minimal (3.12.7-1) ... Setting up libpython3.12-minimal:armhf (3.12.7-1) ... Setting up libexpat1:armhf (2.6.3-1) ... Setting up python3.12-minimal (3.12.7-1) ... 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 ... 20862 files and directories currently installed.) Preparing to unpack .../00-python3-minimal_3.12.6-1_armhf.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:armhf. Preparing to unpack .../04-libkrb5support0_1.21.3-3_armhf.deb ... Unpacking libkrb5support0:armhf (1.21.3-3) ... Selecting previously unselected package libcom-err2:armhf. Preparing to unpack .../05-libcom-err2_1.47.1-1_armhf.deb ... Unpacking libcom-err2:armhf (1.47.1-1) ... Selecting previously unselected package libk5crypto3:armhf. Preparing to unpack .../06-libk5crypto3_1.21.3-3_armhf.deb ... Unpacking libk5crypto3:armhf (1.21.3-3) ... Selecting previously unselected package libkeyutils1:armhf. Preparing to unpack .../07-libkeyutils1_1.6.3-3_armhf.deb ... Unpacking libkeyutils1:armhf (1.6.3-3) ... Selecting previously unselected package libkrb5-3:armhf. Preparing to unpack .../08-libkrb5-3_1.21.3-3_armhf.deb ... Unpacking libkrb5-3:armhf (1.21.3-3) ... Selecting previously unselected package libgssapi-krb5-2:armhf. Preparing to unpack .../09-libgssapi-krb5-2_1.21.3-3_armhf.deb ... Unpacking libgssapi-krb5-2:armhf (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:armhf. Preparing to unpack .../11-libtirpc3t64_1.3.4+ds-1.3_armhf.deb ... Adding 'diversion of /lib/arm-linux-gnueabihf/libtirpc.so.3 to /lib/arm-linux-gnueabihf/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libtirpc.so.3.0.0 to /lib/arm-linux-gnueabihf/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:armhf (1.3.4+ds-1.3) ... Selecting previously unselected package libnsl2:armhf. Preparing to unpack .../12-libnsl2_1.3.0-3+b2_armhf.deb ... Unpacking libnsl2:armhf (1.3.0-3+b2) ... 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:armhf. Preparing to unpack .../14-libreadline8t64_8.2-5_armhf.deb ... Adding 'diversion of /lib/arm-linux-gnueabihf/libhistory.so.8 to /lib/arm-linux-gnueabihf/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libhistory.so.8.2 to /lib/arm-linux-gnueabihf/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libreadline.so.8 to /lib/arm-linux-gnueabihf/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libreadline.so.8.2 to /lib/arm-linux-gnueabihf/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:armhf (8.2-5) ... Selecting previously unselected package libpython3.12-stdlib:armhf. Preparing to unpack .../15-libpython3.12-stdlib_3.12.7-1_armhf.deb ... Unpacking libpython3.12-stdlib:armhf (3.12.7-1) ... Selecting previously unselected package python3.12. Preparing to unpack .../16-python3.12_3.12.7-1_armhf.deb ... Unpacking python3.12 (3.12.7-1) ... Selecting previously unselected package libpython3-stdlib:armhf. Preparing to unpack .../17-libpython3-stdlib_3.12.6-1_armhf.deb ... Unpacking libpython3-stdlib:armhf (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 ... 21922 files and directories currently installed.) Preparing to unpack .../00-python3_3.12.6-1_armhf.deb ... Unpacking python3 (3.12.6-1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../01-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../02-libmagic-mgc_1%3a5.45-3_armhf.deb ... Unpacking libmagic-mgc (1:5.45-3) ... Selecting previously unselected package libmagic1t64:armhf. Preparing to unpack .../03-libmagic1t64_1%3a5.45-3_armhf.deb ... Unpacking libmagic1t64:armhf (1:5.45-3) ... Selecting previously unselected package file. Preparing to unpack .../04-file_1%3a5.45-3_armhf.deb ... Unpacking file (1:5.45-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../05-gettext-base_0.22.5-2_armhf.deb ... Unpacking gettext-base (0.22.5-2) ... Selecting previously unselected package libuchardet0:armhf. Preparing to unpack .../06-libuchardet0_0.0.8-1+b1_armhf.deb ... Unpacking libuchardet0:armhf (0.0.8-1+b1) ... Selecting previously unselected package groff-base. 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Selecting previously unselected package gettext. Preparing to unpack .../26-gettext_0.22.5-2_armhf.deb ... Unpacking gettext (0.22.5-2) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../27-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 .../28-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../29-debhelper_13.20_all.deb ... Unpacking debhelper (13.20) ... Selecting previously unselected package python3-autocommand. Preparing to unpack .../30-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 .../31-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 .../32-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 .../33-python3-typeguard_4.3.0-1_all.deb ... Unpacking python3-typeguard (4.3.0-1) ... Selecting previously unselected package python3-inflect. Preparing to unpack .../34-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 .../35-python3-jaraco.context_6.0.0-1_all.deb ... Unpacking python3-jaraco.context (6.0.0-1) ... Selecting previously unselected package python3-jaraco.functools. Preparing to unpack .../36-python3-jaraco.functools_4.1.0-1_all.deb ... Unpacking python3-jaraco.functools (4.1.0-1) ... Selecting previously unselected package python3-pkg-resources. 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Selecting previously unselected package libbrotli1:armhf. Preparing to unpack .../43-libbrotli1_1.1.0-2+b4_armhf.deb ... Unpacking libbrotli1:armhf (1.1.0-2+b4) ... Selecting previously unselected package libcolamd3:armhf. Preparing to unpack .../44-libcolamd3_1%3a7.8.2+dfsg-2_armhf.deb ... Unpacking libcolamd3:armhf (1:7.8.2+dfsg-2) ... Selecting previously unselected package libsasl2-modules-db:armhf. Preparing to unpack .../45-libsasl2-modules-db_2.1.28+dfsg1-8_armhf.deb ... Unpacking libsasl2-modules-db:armhf (2.1.28+dfsg1-8) ... Selecting previously unselected package libsasl2-2:armhf. Preparing to unpack .../46-libsasl2-2_2.1.28+dfsg1-8_armhf.deb ... Unpacking libsasl2-2:armhf (2.1.28+dfsg1-8) ... Selecting previously unselected package libldap-2.5-0:armhf. Preparing to unpack .../47-libldap-2.5-0_2.5.18+dfsg-3_armhf.deb ... Unpacking libldap-2.5-0:armhf (2.5.18+dfsg-3) ... Selecting previously unselected package libnghttp2-14:armhf. Preparing to unpack .../48-libnghttp2-14_1.63.0-1_armhf.deb ... Unpacking libnghttp2-14:armhf (1.63.0-1) ... Selecting previously unselected package libnghttp3-9:armhf. Preparing to unpack .../49-libnghttp3-9_1.4.0-1_armhf.deb ... Unpacking libnghttp3-9:armhf (1.4.0-1) ... Selecting previously unselected package libngtcp2-16:armhf. Preparing to unpack .../50-libngtcp2-16_1.6.0-1_armhf.deb ... Unpacking libngtcp2-16:armhf (1.6.0-1) ... Selecting previously unselected package libngtcp2-crypto-gnutls8:armhf. Preparing to unpack .../51-libngtcp2-crypto-gnutls8_1.6.0-1_armhf.deb ... Unpacking libngtcp2-crypto-gnutls8:armhf (1.6.0-1) ... Selecting previously unselected package libpsl5t64:armhf. Preparing to unpack .../52-libpsl5t64_0.21.2-1.1_armhf.deb ... Unpacking libpsl5t64:armhf (0.21.2-1.1) ... Selecting previously unselected package librtmp1:armhf. Preparing to unpack .../53-librtmp1_2.4+20151223.gitfa8646d.1-2+b4_armhf.deb ... Unpacking librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b4) ... Selecting previously unselected package libssh2-1t64:armhf. Preparing to unpack .../54-libssh2-1t64_1.11.0-7_armhf.deb ... Unpacking libssh2-1t64:armhf (1.11.0-7) ... Selecting previously unselected package libcurl3t64-gnutls:armhf. Preparing to unpack .../55-libcurl3t64-gnutls_8.10.1-2_armhf.deb ... Unpacking libcurl3t64-gnutls:armhf (8.10.1-2) ... Selecting previously unselected package libdeflate0:armhf. Preparing to unpack .../56-libdeflate0_1.22-1_armhf.deb ... Unpacking libdeflate0:armhf (1.22-1) ... Selecting previously unselected package libltdl7:armhf. Preparing to unpack .../57-libltdl7_2.4.7-7+b1_armhf.deb ... Unpacking libltdl7:armhf (2.4.7-7+b1) ... Selecting previously unselected package libglpk40:armhf. Preparing to unpack .../58-libglpk40_5.0-1+b1_armhf.deb ... Unpacking libglpk40:armhf (5.0-1+b1) ... Selecting previously unselected package libhtscodecs2:armhf. 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Selecting previously unselected package libncurses6:armhf. Preparing to unpack .../65-libncurses6_6.5-2_armhf.deb ... Unpacking libncurses6:armhf (6.5-2) ... Selecting previously unselected package samtools. Preparing to unpack .../66-samtools_1.20-3_armhf.deb ... Unpacking samtools (1.20-3) ... Setting up libhtscodecs2:armhf (1.6.1-1) ... Setting up media-types (10.1.0) ... Setting up libpipeline1:armhf (1.5.8-1) ... Setting up libkeyutils1:armhf (1.6.3-3) ... Setting up libicu72:armhf (72.1-5) ... Setting up bsdextrautils (2.40.2-9) ... Setting up libmagic-mgc (1:5.45-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libtirpc-common (1.3.4+ds-1.3) ... Setting up libdebhelper-perl (13.20) ... Setting up libbrotli1:armhf (1.1.0-2+b4) ... Setting up libmagic1t64:armhf (1:5.45-3) ... Setting up libpsl5t64:armhf (0.21.2-1.1) ... Setting up libnghttp2-14:armhf (1.63.0-1) ... Setting up libdeflate0:armhf (1.22-1) ... Setting up gettext-base (0.22.5-2) ... Setting up m4 (1.4.19-4) ... Setting up libcom-err2:armhf (1.47.1-1) ... Setting up file (1:5.45-3) ... Setting up libelf1t64:armhf (0.191-2) ... Setting up libkrb5support0:armhf (1.21.3-3) ... Setting up libsasl2-modules-db:armhf (2.1.28+dfsg1-8) ... Setting up tzdata (2024b-3) ... Current default time zone: 'Etc/UTC' Local time is now: Sat Oct 12 18:20:59 UTC 2024. Universal Time is now: Sat Oct 12 18:20:59 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20220109.1) ... Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b4) ... Setting up libncurses6:armhf (6.5-2) ... Setting up autopoint (0.22.5-2) ... Setting up libk5crypto3:armhf (1.21.3-3) ... Setting up libltdl7:armhf (2.4.7-7+b1) ... Setting up libsasl2-2:armhf (2.1.28+dfsg1-8) ... Setting up autoconf (2.72-3) ... Setting up libnghttp3-9:armhf (1.4.0-1) ... Setting up zlib1g-dev:armhf (1:1.3.dfsg+really1.3.1-1) ... Setting up dwz (0.15-1+b2) ... Setting up sensible-utils (0.0.24) ... Setting up libuchardet0:armhf (0.0.8-1+b1) ... Setting up libsuitesparseconfig7:armhf (1:7.8.2+dfsg-2) ... Setting up netbase (6.4) ... Setting up libngtcp2-16:armhf (1.6.0-1) ... Setting up libkrb5-3:armhf (1.21.3-3) ... Setting up libssh2-1t64:armhf (1.11.0-7) ... Setting up readline-common (8.2-5) ... Setting up libxml2:armhf (2.12.7+dfsg+really2.9.14-0.1) ... Setting up libngtcp2-crypto-gnutls8:armhf (1.6.0-1) ... 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 (1.14.0-1) ... Setting up gettext (0.22.5-2) ... Setting up libamd3:armhf (1:7.8.2+dfsg-2) ... Setting up libtool (2.4.7-7) ... Setting up libcolamd3:armhf (1:7.8.2+dfsg-2) ... Setting up libldap-2.5-0:armhf (2.5.18+dfsg-3) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libglpk40:armhf (5.0-1+b1) ... Setting up libminimap2-dev (2.27+dfsg-1+b1) ... Setting up libgssapi-krb5-2:armhf (1.21.3-3) ... Setting up liblemon1.3.1:armhf (1.3.1+dfsg-6+b1) ... Setting up libreadline8t64:armhf (8.2-5) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up groff-base (1.23.0-5) ... Setting up libtirpc3t64:armhf (1.3.4+ds-1.3) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libcurl3t64-gnutls:armhf (8.10.1-2) ... Setting up liblemon-dev (1.3.1+dfsg-6+b1) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libnsl2:armhf (1.3.0-3+b2) ... Setting up libhts3t64:armhf (1.20+ds-1) ... Setting up libpython3.12-stdlib:armhf (3.12.7-1) ... Setting up python3.12 (3.12.7-1) ... Setting up debhelper (13.20) ... Setting up samtools (1.20-3) ... Setting up libpython3-stdlib:armhf (3.12.6-1) ... Setting up python3 (3.12.6-1) ... Setting up python3-zipp (3.20.2-1) ... Setting up python3-autocommand (2.2.2-3) ... Setting up python3-typing-extensions (4.12.2-2) ... Setting up python3-more-itertools (10.5.0-1) ... Setting up python3-jaraco.functools (4.1.0-1) ... Setting up python3-jaraco.context (6.0.0-1) ... Setting up python3-typeguard (4.3.0-1) ... Setting up python3-inflect (7.3.1-2) ... Setting up python3-pkg-resources (74.1.2-2) ... Setting up python3-setuptools (74.1.2-2) ... Setting up dh-python (6.20240824) ... 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/flye-2.9.5+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 > ../flye_2.9.5+dfsg-1_source.changes dpkg-buildpackage: info: source package flye dpkg-buildpackage: info: source version 2.9.5+dfsg-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf debian/rules clean dh clean --buildsystem=pybuild debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/flye-2.9.5+dfsg' dh_auto_clean I: pybuild base:311: python3.12 setup.py clean running clean removing '/build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build' (and everything under it) 'build/bdist.linux-armv7l' does not exist -- can't clean it 'build/scripts-3.12' does not exist -- can't clean it find src -name "*.o" -delete rm -f bin/flye-modules rm -rf flye.egg-info/ make[1]: Leaving directory '/build/reproducible-path/flye-2.9.5+dfsg' dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary dh binary --buildsystem=pybuild dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild I: pybuild base:311: python3.12 setup.py config running config dh_auto_build -O--buildsystem=pybuild I: pybuild base:311: /usr/bin/python3 setup.py build running build running build_py creating /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye copying flye/main.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye copying flye/__version__.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye copying flye/__build__.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye copying flye/__init__.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye creating /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/assembly copying flye/assembly/scaffolder.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/assembly copying flye/assembly/assemble.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/assembly copying flye/assembly/__init__.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/assembly copying flye/assembly/repeat_graph.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/assembly creating /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/config copying flye/config/py_cfg.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/config copying flye/config/configurator.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/config copying flye/config/__init__.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/config creating /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/polishing copying flye/polishing/bubbles.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/polishing copying flye/polishing/alignment.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/polishing copying flye/polishing/consensus.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/polishing copying flye/polishing/__init__.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/polishing copying flye/polishing/polish.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/polishing creating /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/utils copying flye/utils/sam_parser.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/utils copying flye/utils/bytes2human.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/utils copying flye/utils/fasta_parser.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/utils copying flye/utils/__init__.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/utils copying flye/utils/utils.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/utils creating /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/repeat_graph copying flye/repeat_graph/__init__.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/repeat_graph copying flye/repeat_graph/graph_alignment.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/repeat_graph copying flye/repeat_graph/repeat_graph.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/repeat_graph creating /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/short_plasmids copying flye/short_plasmids/unmapped_reads.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/short_plasmids copying flye/short_plasmids/circular_sequences.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/short_plasmids copying flye/short_plasmids/plasmids.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/short_plasmids copying flye/short_plasmids/__init__.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/short_plasmids copying flye/short_plasmids/utils.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/short_plasmids creating /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/trestle copying flye/trestle/trestle.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/trestle copying flye/trestle/graph_resolver.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/trestle copying flye/trestle/trestle_config.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/trestle copying flye/trestle/__init__.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/trestle copying flye/trestle/divergence.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/trestle creating /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/tests copying flye/tests/test_toy.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/tests copying flye/tests/__init__.py -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/tests creating /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/config/bin_cfg copying flye/config/bin_cfg/asm_nano_hq.cfg -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/config/bin_cfg copying flye/config/bin_cfg/asm_hifi.cfg -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/config/bin_cfg copying flye/config/bin_cfg/nano_r94_g36_homopolymers.mat -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/config/bin_cfg copying flye/config/bin_cfg/pacbio_substitutions.mat -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/config/bin_cfg copying flye/config/bin_cfg/asm_subasm.cfg -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/config/bin_cfg copying flye/config/bin_cfg/nano_r94_substitutions.mat -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/config/bin_cfg copying flye/config/bin_cfg/asm_defaults.cfg -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/config/bin_cfg copying flye/config/bin_cfg/nano_r94_g36_substitutions.mat -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/config/bin_cfg copying flye/config/bin_cfg/asm_corrected_reads.cfg -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/config/bin_cfg copying flye/config/bin_cfg/asm_raw_reads.cfg -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/config/bin_cfg copying flye/config/bin_cfg/pacbio_chm13_substitutions.mat -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/config/bin_cfg copying flye/config/bin_cfg/nano_r94_homopolymers.mat -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/config/bin_cfg copying flye/config/bin_cfg/pacbio_chm13_homopolymers.mat -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/config/bin_cfg copying flye/config/bin_cfg/pacbio_homopolymers.mat -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/config/bin_cfg creating /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/tests/data copying flye/tests/data/ecoli_500kb_reads_hifi.fastq.gz -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/tests/data copying flye/tests/data/ecoli_500kb_reads.fastq.gz -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/tests/data copying flye/tests/data/ecoli_500kb.fasta -> /build/reproducible-path/flye-2.9.5+dfsg/.pybuild/cpython3_3.12/build/flye/tests/data /build/reproducible-path/flye-2.9.5+dfsg/setup.py:35: DeprecationWarning: Use shutil.which instead of find_executable if not find_executable("make"): make[1]: Entering directory '/build/reproducible-path/flye-2.9.5+dfsg' make release -C src -j 4 make[2]: Entering directory '/build/reproducible-path/flye-2.9.5+dfsg/src' g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -g -O2 -ffile-prefix-map=/build/reproducible-path/flye-2.9.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/build/reproducible-path/flye-2.9.5+dfsg/lib/libcuckoo -I/build/reproducible-path/flye-2.9.5+dfsg/lib/interval_tree -I/build/reproducible-path/flye-2.9.5+dfsg/lib/lemon -Wall -Wextra -pthread -std=c++11 -g -Wno-missing-field-initializers -O3 -DNDEBUG assemble/chimera.cpp -o assemble/chimera.o g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -g -O2 -ffile-prefix-map=/build/reproducible-path/flye-2.9.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/build/reproducible-path/flye-2.9.5+dfsg/lib/libcuckoo -I/build/reproducible-path/flye-2.9.5+dfsg/lib/interval_tree -I/build/reproducible-path/flye-2.9.5+dfsg/lib/lemon -Wall -Wextra -pthread -std=c++11 -g -Wno-missing-field-initializers -O3 -DNDEBUG assemble/extender.cpp -o assemble/extender.o g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -g -O2 -ffile-prefix-map=/build/reproducible-path/flye-2.9.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/build/reproducible-path/flye-2.9.5+dfsg/lib/libcuckoo -I/build/reproducible-path/flye-2.9.5+dfsg/lib/interval_tree -I/build/reproducible-path/flye-2.9.5+dfsg/lib/lemon -Wall -Wextra -pthread -std=c++11 -g -Wno-missing-field-initializers -O3 -DNDEBUG assemble/main_assemble.cpp -o assemble/main_assemble.o g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -g -O2 -ffile-prefix-map=/build/reproducible-path/flye-2.9.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I/build/reproducible-path/flye-2.9.5+dfsg/lib/libcuckoo -I/build/reproducible-path/flye-2.9.5+dfsg/lib/interval_tree -I/build/reproducible-path/flye-2.9.5+dfsg/lib/lemon -Wall -Wextra -pthread -std=c++11 -g -Wno-missing-field-initializers -O3 -DNDEBUG assemble/parameters_estimator.cpp -o assemble/parameters_estimator.o assemble/main_assemble.cpp:214:52: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 214 | Logger::get().debug() << "Build date: " << __DATE__ << " " << __TIME__; | ^~~~~~~~ assemble/main_assemble.cpp:214:71: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 214 | Logger::get().debug() << "Build date: " << __DATE__ << " " << __TIME__; | ^~~~~~~~ In file included from assemble/extender.h:9, from assemble/extender.cpp:14: assemble/../sequence/sequence_container.h:271:42: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘1099511627776’ to ‘0’ [-Woverflow] 271 | const size_t MAX_SEQUENCE = 1ULL << (8 * 5); | ~~~~~^~~~~~~~~~ In file included from assemble/../sequence/kmer.h:11, from assemble/../sequence/vertex_index.h:17, from assemble/parameters_estimator.h:5, from assemble/parameters_estimator.cpp:5: assemble/../sequence/sequence_container.h:271:42: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘1099511627776’ to ‘0’ [-Woverflow] 271 | const size_t MAX_SEQUENCE = 1ULL << (8 * 5); | ~~~~~^~~~~~~~~~ In file included from assemble/../sequence/overlap.h:12, from assemble/chimera.h:7, from assemble/chimera.cpp:14: /build/reproducible-path/flye-2.9.5+dfsg/lib/interval_tree/IntervalTree.h:59:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 59 | IntervalTree(void) | ^ In file included from assemble/../sequence/kmer.h:11, from assemble/../sequence/vertex_index.h:17, from assemble/main_assemble.cpp:12: assemble/../sequence/sequence_container.h:271:42: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘1099511627776’ to ‘0’ [-Woverflow] 271 | const size_t MAX_SEQUENCE = 1ULL << (8 * 5); | ~~~~~^~~~~~~~~~ /build/reproducible-path/flye-2.9.5+dfsg/lib/interval_tree/IntervalTree.h:59:22: note: remove the ‘< >’ /build/reproducible-path/flye-2.9.5+dfsg/lib/interval_tree/IntervalTree.h:71:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 71 | IntervalTree(const intervalTree& other) | ^ /build/reproducible-path/flye-2.9.5+dfsg/lib/interval_tree/IntervalTree.h:71:22: note: remove the ‘< >’ /build/reproducible-path/flye-2.9.5+dfsg/lib/interval_tree/IntervalTree.h:91:13: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 91 | intervalVector& ivals, | ^~~~~~~~~~~~~~ /build/reproducible-path/flye-2.9.5+dfsg/lib/interval_tree/IntervalTree.h:91:13: note: remove the ‘< >’ In file included from assemble/../sequence/overlap.h:12, from assemble/extender.h:10: /build/reproducible-path/flye-2.9.5+dfsg/lib/interval_tree/IntervalTree.h:59:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 59 | IntervalTree(void) | ^ /build/reproducible-path/flye-2.9.5+dfsg/lib/interval_tree/IntervalTree.h:59:22: note: remove the ‘< >’ /build/reproducible-path/flye-2.9.5+dfsg/lib/interval_tree/IntervalTree.h:71:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 71 | IntervalTree(const intervalTree& other) | ^ /build/reproducible-path/flye-2.9.5+dfsg/lib/interval_tree/IntervalTree.h:71:22: note: remove the ‘< >’ /build/reproducible-path/flye-2.9.5+dfsg/lib/interval_tree/IntervalTree.h:91:13: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 91 | intervalVector& ivals, | ^~~~~~~~~~~~~~ /build/reproducible-path/flye-2.9.5+dfsg/lib/interval_tree/IntervalTree.h:91:13: note: remove the ‘< >’ assemble/../sequence/kmer.h:14:30: error: static assertion failed: 32-bit architectures are not supported 14 | static_assert(sizeof(size_t) == 8, "32-bit architectures are not supported"); | ~~~~~~~~~~~~~~~^~~~ assemble/../sequence/kmer.h:14:30: note: the comparison reduces to ‘(4 == 8)’ In file included from assemble/../sequence/vertex_index.h:17, from assemble/../sequence/overlap.h:14: assemble/../sequence/kmer.h:14:30: error: static assertion failed: 32-bit architectures are not supported 14 | static_assert(sizeof(size_t) == 8, "32-bit architectures are not supported"); | ~~~~~~~~~~~~~~~^~~~ assemble/../sequence/kmer.h:14:30: note: the comparison reduces to ‘(4 == 8)’ assemble/../sequence/vertex_index.h: In member function ‘size_t VertexIndex::IndexChunk::get() const’: assemble/../sequence/vertex_index.h:102:44: warning: left shift count >= width of type [-Wshift-count-overflow] 102 | return ((size_t)hi << 32) + (size_t)low; | ~~~~~~~~~~~^~~~~ assemble/../sequence/vertex_index.h: In member function ‘void VertexIndex::IndexChunk::set(size_t)’: assemble/../sequence/vertex_index.h:107:34: warning: right shift count >= width of type [-Wshift-count-overflow] 107 | hi = val >> 32; | ~~~~^~~~~ assemble/../sequence/kmer.h:14:30: error: static assertion failed: 32-bit architectures are not supported 14 | static_assert(sizeof(size_t) == 8, "32-bit architectures are not supported"); | ~~~~~~~~~~~~~~~^~~~ assemble/../sequence/kmer.h:14:30: note: the comparison reduces to ‘(4 == 8)’ In file included from assemble/../sequence/kmer.h:11, from assemble/../sequence/vertex_index.h:17, from assemble/../sequence/overlap.h:14: assemble/../sequence/sequence_container.h:271:42: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘1099511627776’ to ‘0’ [-Woverflow] 271 | const size_t MAX_SEQUENCE = 1ULL << (8 * 5); | ~~~~~^~~~~~~~~~ assemble/../sequence/kmer.h:14:30: error: static assertion failed: 32-bit architectures are not supported 14 | static_assert(sizeof(size_t) == 8, "32-bit architectures are not supported"); | ~~~~~~~~~~~~~~~^~~~ assemble/../sequence/kmer.h:14:30: note: the comparison reduces to ‘(4 == 8)’ assemble/../sequence/vertex_index.h: In member function ‘size_t VertexIndex::IndexChunk::get() const’: assemble/../sequence/vertex_index.h:102:44: warning: left shift count >= width of type [-Wshift-count-overflow] 102 | return ((size_t)hi << 32) + (size_t)low; | ~~~~~~~~~~~^~~~~ assemble/../sequence/vertex_index.h: In member function ‘void VertexIndex::IndexChunk::set(size_t)’: assemble/../sequence/vertex_index.h:107:34: warning: right shift count >= width of type [-Wshift-count-overflow] 107 | hi = val >> 32; | ~~~~^~~~~ assemble/../sequence/vertex_index.h: In member function ‘size_t VertexIndex::IndexChunk::get() const’: assemble/../sequence/vertex_index.h:102:44: warning: left shift count >= width of type [-Wshift-count-overflow] 102 | return ((size_t)hi << 32) + (size_t)low; | ~~~~~~~~~~~^~~~~ assemble/../sequence/vertex_index.h: In member function ‘void VertexIndex::IndexChunk::set(size_t)’: assemble/../sequence/vertex_index.h:107:34: warning: right shift count >= width of type [-Wshift-count-overflow] 107 | hi = val >> 32; | ~~~~^~~~~ In file included from assemble/../sequence/overlap.h:12, from assemble/main_assemble.cpp:14: /build/reproducible-path/flye-2.9.5+dfsg/lib/interval_tree/IntervalTree.h: At global scope: /build/reproducible-path/flye-2.9.5+dfsg/lib/interval_tree/IntervalTree.h:59:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 59 | IntervalTree(void) | ^ /build/reproducible-path/flye-2.9.5+dfsg/lib/interval_tree/IntervalTree.h:59:22: note: remove the ‘< >’ /build/reproducible-path/flye-2.9.5+dfsg/lib/interval_tree/IntervalTree.h:71:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 71 | IntervalTree(const intervalTree& other) | ^ /build/reproducible-path/flye-2.9.5+dfsg/lib/interval_tree/IntervalTree.h:71:22: note: remove the ‘< >’ /build/reproducible-path/flye-2.9.5+dfsg/lib/interval_tree/IntervalTree.h:91:13: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 91 | intervalVector& ivals, | ^~~~~~~~~~~~~~ /build/reproducible-path/flye-2.9.5+dfsg/lib/interval_tree/IntervalTree.h:91:13: note: remove the ‘< >’ assemble/../sequence/vertex_index.h: In member function ‘size_t VertexIndex::IndexChunk::get() const’: assemble/../sequence/vertex_index.h:102:44: warning: left shift count >= width of type [-Wshift-count-overflow] 102 | return ((size_t)hi << 32) + (size_t)low; | ~~~~~~~~~~~^~~~~ assemble/../sequence/vertex_index.h: In member function ‘void VertexIndex::IndexChunk::set(size_t)’: assemble/../sequence/vertex_index.h:107:34: warning: right shift count >= width of type [-Wshift-count-overflow] 107 | hi = val >> 32; | ~~~~^~~~~ make[2]: *** [Makefile:34: assemble/parameters_estimator.o] Error 1 make[2]: *** Waiting for unfinished jobs.... make[2]: *** [Makefile:34: assemble/main_assemble.o] Error 1 make[2]: *** [Makefile:34: assemble/chimera.o] Error 1 make[2]: *** [Makefile:34: assemble/extender.o] Error 1 make[2]: Leaving directory '/build/reproducible-path/flye-2.9.5+dfsg/src' make[1]: *** [Makefile:38: all] Error 2 make[1]: Leaving directory '/build/reproducible-path/flye-2.9.5+dfsg' Traceback (most recent call last): File "/build/reproducible-path/flye-2.9.5+dfsg/setup.py", line 38, in run subprocess.check_call(["make"]) File "/usr/lib/python3.12/subprocess.py", line 413, in check_call raise CalledProcessError(retcode, cmd) subprocess.CalledProcessError: Command '['make']' returned non-zero exit status 2. During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/build/reproducible-path/flye-2.9.5+dfsg/setup.py", line 69, in setup(name='flye', File "/usr/lib/python3/dist-packages/setuptools/__init__.py", line 117, in setup return distutils.core.setup(**attrs) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/usr/lib/python3/dist-packages/setuptools/_distutils/core.py", line 184, in setup return run_commands(dist) ^^^^^^^^^^^^^^^^^^ File "/usr/lib/python3/dist-packages/setuptools/_distutils/core.py", line 200, in run_commands dist.run_commands() File "/usr/lib/python3/dist-packages/setuptools/_distutils/dist.py", line 954, in run_commands self.run_command(cmd) File "/usr/lib/python3/dist-packages/setuptools/dist.py", line 950, in run_command super().run_command(command) File "/usr/lib/python3/dist-packages/setuptools/_distutils/dist.py", line 973, in run_command cmd_obj.run() File "/build/reproducible-path/flye-2.9.5+dfsg/setup.py", line 40, in run sys.exit("Compilation error: ", e) TypeError: exit expected at most 1 argument, got 2 E: pybuild pybuild:389: build: plugin distutils failed with: exit code=1: /usr/bin/python3 setup.py build dh_auto_build: error: pybuild --build -i python{version} -p 3.12 returned exit code 13 make: *** [debian/rules:11: binary] Error 25 dpkg-buildpackage: error: debian/rules binary subprocess returned exit status 2 I: copying local configuration E: Failed autobuilding of package 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/9387 and its subdirectories Sat Oct 12 18:23:00 UTC 2024 W: No second build log, what happened?