Running as unit: rb-build-arm64_5-92338.service ==================================================================================== Fri Apr 25 04:40:50 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job reproducible_builder_arm64_5) on jenkins, called using "codethink03-arm64 codethink04-arm64" as arguments. Fri Apr 25 04:40:50 UTC 2025 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-NWaKs5xh" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Fri Apr 25 04:40:50 UTC 2025 - checking /var/lib/jenkins/offline_nodes if codethink03-arm64.debian.net is marked as down. Fri Apr 25 04:40:50 UTC 2025 - checking via ssh if codethink03-arm64.debian.net is up. removed '/tmp/read-only-fs-test-yXkdCF' Fri Apr 25 04:40:51 UTC 2025 - checking /var/lib/jenkins/offline_nodes if codethink04-arm64.debian.net is marked as down. Fri Apr 25 04:40:51 UTC 2025 - checking via ssh if codethink04-arm64.debian.net is up. removed '/tmp/read-only-fs-test-1QK0b1' ok, let's check if python-pymbar is building anywhere yet… ok, python-pymbar is not building anywhere… UPDATE 1 ============================================================================= Initialising reproducibly build of python-pymbar in trixie on arm64 on jenkins now. 1st build will be done on codethink03-arm64.debian.net. 2nd build will be done on codethink04-arm64.debian.net. ============================================================================= Fri Apr 25 04:41:08 UTC 2025 I: starting to build python-pymbar/trixie/arm64 on jenkins on '2025-04-25 04:40' Fri Apr 25 04:41:08 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_5/92338/console.log 1745556068 arm64 trixie python-pymbar Fri Apr 25 04:41:08 UTC 2025 I: Downloading source for trixie/python-pymbar=4.0.3-2 --2025-04-25 04:41:09-- http://deb.debian.org/debian/pool/main/p/python-pymbar/python-pymbar_4.0.3-2.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2234 (2.2K) [text/prs.lines.tag] Saving to: ‘python-pymbar_4.0.3-2.dsc’ 0K .. 100% 345M=0s 2025-04-25 04:41:09 (345 MB/s) - ‘python-pymbar_4.0.3-2.dsc’ saved [2234/2234] --2025-04-25 04:41:09-- http://deb.debian.org/debian/pool/main/p/python-pymbar/python-pymbar_4.0.3-2.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2234 (2.2K) [text/prs.lines.tag] Saving to: ‘python-pymbar_4.0.3-2.dsc’ 0K .. 100% 345M=0s 2025-04-25 04:41:09 (345 MB/s) - ‘python-pymbar_4.0.3-2.dsc’ saved [2234/2234] Fri Apr 25 04:41:09 UTC 2025 I: python-pymbar_4.0.3-2.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: python-pymbar Binary: python3-pymbar Architecture: all Version: 4.0.3-2 Maintainer: Debian Science Maintainers Uploaders: Andrius Merkys , Homepage: https://simtk.org/home/pymbar Standards-Version: 4.7.0 Vcs-Browser: https://salsa.debian.org/science-team/python-pymbar Vcs-Git: https://salsa.debian.org/science-team/python-pymbar.git Testsuite: autopkgtest, autopkgtest-pkg-python Testsuite-Triggers: python3-pytest Build-Depends: debhelper-compat (= 13), dh-sequence-python3, python3-all, python3-numexpr, python3-numpy, python3-pytest , python3-scipy , python3-setuptools Package-List: python3-pymbar deb science optional arch=all Checksums-Sha1: 8729f3b202d5d64df1600ad480ea15a4e4a2ae12 17168882 python-pymbar_4.0.3.orig.tar.gz 267995a5847a801a605d3d70710c780cf3819a6a 3444 python-pymbar_4.0.3-2.debian.tar.xz Checksums-Sha256: 810566a5b973284b5beb2d9dfece0ca321b4ceb91180c124aac8fd883ed5ee68 17168882 python-pymbar_4.0.3.orig.tar.gz 9fafa671b1afa9cf28b123ef53bb928bbde7b61f33f72326aacafedec9db12bf 3444 python-pymbar_4.0.3-2.debian.tar.xz Files: 5041c9ba6e2be7f78faf6098e1cd246e 17168882 python-pymbar_4.0.3.orig.tar.gz 07bef8c4377b22c54dae188edb7a53a9 3444 python-pymbar_4.0.3-2.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEEj23hBDd/OxHnQXSHMfMURUShdBoFAmaAQmoRHHRjaGV0QGRl Ymlhbi5vcmcACgkQMfMURUShdBrGChAAoMbA/hTkzDPc8VE68sSYObhFpiceZ1o1 m/FQ9jPRugvUu+gg6hEYGKQiR/qjR6Ta4QIV4IskmfujbqKAoM+3H+sNDD8AQgel a/kFqKg3HVYo0CerDWmMCSpix9SQWp+nv/03Rr4Qt6je21HWbtokOnZmUZF+lgnL LAhQMSb8fbJRzpzZy2wAgmEiI2DDQHdE6QVwapCt7MGA4Tt7l9DKglYgsQZXvDAw I7XZ3lglz79ktfot2zdYJVX1HnLL9yh141k5QbPdLBC9XuE20Xc6+b7kjKjnbykP vMlxneyQSZTNiCtVqD3Sl18KmfXEKqhmiHA6u/+jPReJ7yqpjst5SSI97Qe3bkNb g4ledBVLQbBHXzusSTNR9mZPzKOcSFjj687ofV89f5WxElSqXL6wlG1oXU/UgNyL UNPovYpK5Qm/6BI5Mo0IVvfPjN748o2hY6MxaBzj/kMtZFGdQE3FwYvUrbu8F9Vk tN7XYBp0gQk76kd00Mlz+aNKt6vSPSSd36Cbiq9Yx2XNowjNyKDlGWORR1nULYgB ZOufBV1ELEmmEcPremyeFd9utKNDGaSG5RVaySDsLKzCg0rrKZTr0rsvO8W/p0JX yqYpEvoBUHONvJlEVmx49zS1Ye1ADhOQgzYEjM2zQZppmOwEIXagFGcV+aXYT7IK vm7FxL22H4Q= =SVEh -----END PGP SIGNATURE----- Fri Apr 25 04:41:09 UTC 2025 I: Checking whether the package is not for us Fri Apr 25 04:41:09 UTC 2025 I: Starting 1st build on remote node codethink03-arm64.debian.net. Fri Apr 25 04:41:09 UTC 2025 I: Preparing to do remote build '1' on codethink03-arm64.debian.net. Fri Apr 25 04:41:09 UTC 2025 - checking /var/lib/jenkins/offline_nodes if codethink03-arm64.debian.net is marked as down. Fri Apr 25 04:41:09 UTC 2025 - checking via ssh if codethink03-arm64.debian.net is up. removed '/tmp/read-only-fs-test-Jd0iiD' ==================================================================================== Thu May 28 11:04:10 UTC 2026 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on codethink03-arm64, called using "1 python-pymbar trixie /srv/reproducible-results/rbuild-debian/r-b-build.bmfBSyNg 4.0.3-2" as arguments. Thu May 28 11:04:10 UTC 2026 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-skECBm89" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Thu May 28 11:04:10 UTC 2026 I: Downloading source for trixie/python-pymbar=4.0.3-2 Reading package lists... NOTICE: 'python-pymbar' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/science-team/python-pymbar.git Please use: git clone https://salsa.debian.org/science-team/python-pymbar.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 17.2 MB of source archives. Get:1 http://deb.debian.org/debian trixie/main python-pymbar 4.0.3-2 (dsc) [2234 B] Get:2 http://deb.debian.org/debian trixie/main python-pymbar 4.0.3-2 (tar) [17.2 MB] Get:3 http://deb.debian.org/debian trixie/main python-pymbar 4.0.3-2 (diff) [3444 B] Fetched 17.2 MB in 0s (48.6 MB/s) Download complete and in download only mode Reading package lists... NOTICE: 'python-pymbar' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/science-team/python-pymbar.git Please use: git clone https://salsa.debian.org/science-team/python-pymbar.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 17.2 MB of source archives. Get:1 http://deb.debian.org/debian trixie/main python-pymbar 4.0.3-2 (dsc) [2234 B] Get:2 http://deb.debian.org/debian trixie/main python-pymbar 4.0.3-2 (tar) [17.2 MB] Get:3 http://deb.debian.org/debian trixie/main python-pymbar 4.0.3-2 (diff) [3444 B] Fetched 17.2 MB in 0s (48.6 MB/s) Download complete and in download only mode ============================================================================= Building python-pymbar in trixie on arm64 on codethink03-arm64 now. Date: Thu May 28 12:04:10 BST 2026 Date UTC: Thu May 28 11:04:10 UTC 2026 ============================================================================= W: /root/.pbuilderrc does not exist I: Logging to b1/build.log I: pbuilder: network access will be disabled during build I: Current time: Wed May 27 23:04:11 -12 2026 I: pbuilder-time-stamp: 1779966251 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 [python-pymbar_4.0.3-2.dsc] I: copying [./python-pymbar_4.0.3.orig.tar.gz] I: copying [./python-pymbar_4.0.3-2.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./python-pymbar_4.0.3-2.dsc: unsupported subcommand dpkg-source: info: extracting python-pymbar in python-pymbar-4.0.3 dpkg-source: info: unpacking python-pymbar_4.0.3.orig.tar.gz dpkg-source: info: unpacking python-pymbar_4.0.3-2.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/961214/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='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='a42affb7e8704916897df6c9ab3e44e8' 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='961214' 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.bmfBSyNg/pbuilderrc_gsAQ --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.bmfBSyNg/b1 --logfile b1/build.log python-pymbar_4.0.3-2.dsc' SUDO_GID='109' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.4:3128' I: uname -a Linux codethink03-arm64 6.1.0-33-cloud-arm64 #1 SMP Debian 6.1.133-1 (2025-04-10) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Mar 4 2025 /bin -> usr/bin I: user script /srv/workspace/pbuilder/961214/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), dh-sequence-python3, python3-all, python3-numexpr, python3-numpy, python3-pytest, python3-scipy, python3-setuptools dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19954 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-all; however: Package python3-all is not installed. pbuilder-satisfydepends-dummy depends on python3-numexpr; however: Package python3-numexpr is not installed. pbuilder-satisfydepends-dummy depends on python3-numpy; however: Package python3-numpy is not installed. pbuilder-satisfydepends-dummy depends on python3-pytest; however: Package python3-pytest is not installed. pbuilder-satisfydepends-dummy depends on python3-scipy; however: Package python3-scipy is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools 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} libarchive-zip-perl{a} libblas3{a} libdebhelper-perl{a} libelf1t64{a} libexpat1{a} libffi8{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} liblapack3{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libpython3-stdlib{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libreadline8t64{a} libtool{a} libuchardet0{a} libunistring5{a} libxml2{a} m4{a} man-db{a} media-types{a} netbase{a} po-debconf{a} python3{a} python3-all{a} python3-autocommand{a} python3-decorator{a} python3-inflect{a} python3-iniconfig{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-minimal{a} python3-more-itertools{a} python3-numexpr{a} python3-numpy{a} python3-numpy-dev{a} python3-packaging{a} python3-pkg-resources{a} python3-pluggy{a} python3-pytest{a} python3-scipy{a} python3-setuptools{a} python3-typeguard{a} python3-typing-extensions{a} python3-zipp{a} python3.13{a} python3.13-minimal{a} readline-common{a} sensible-utils{a} tzdata{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx python3-pil python3-pooch python3-pygments python3-yaml wget 0 packages upgraded, 68 newly installed, 0 to remove and 0 not upgraded. Need to get 39.8 MB of archives. After unpacking 183 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main arm64 libpython3.13-minimal arm64 3.13.3-2 [855 kB] Get: 2 http://deb.debian.org/debian trixie/main arm64 libexpat1 arm64 2.7.1-1 [93.3 kB] Get: 3 http://deb.debian.org/debian trixie/main arm64 python3.13-minimal arm64 3.13.3-2 [1998 kB] Get: 4 http://deb.debian.org/debian trixie/main arm64 python3-minimal arm64 3.13.2-2 [27.1 kB] Get: 5 http://deb.debian.org/debian trixie/main arm64 media-types all 13.0.0 [29.3 kB] Get: 6 http://deb.debian.org/debian trixie/main arm64 netbase all 6.5 [12.4 kB] Get: 7 http://deb.debian.org/debian trixie/main arm64 tzdata all 2025b-2 [260 kB] Get: 8 http://deb.debian.org/debian trixie/main arm64 libffi8 arm64 3.4.7-1 [21.2 kB] Get: 9 http://deb.debian.org/debian trixie/main arm64 readline-common all 8.2-6 [69.4 kB] Get: 10 http://deb.debian.org/debian trixie/main arm64 libreadline8t64 arm64 8.2-6 [159 kB] Get: 11 http://deb.debian.org/debian trixie/main arm64 libpython3.13-stdlib arm64 3.13.3-2 [1890 kB] Get: 12 http://deb.debian.org/debian trixie/main arm64 python3.13 arm64 3.13.3-2 [751 kB] Get: 13 http://deb.debian.org/debian trixie/main arm64 libpython3-stdlib arm64 3.13.2-2 [10.1 kB] Get: 14 http://deb.debian.org/debian trixie/main arm64 python3 arm64 3.13.2-2 [28.1 kB] Get: 15 http://deb.debian.org/debian trixie/main arm64 python3-numpy-dev arm64 1:2.2.4+ds-1 [136 kB] Get: 16 http://deb.debian.org/debian trixie/main arm64 libblas3 arm64 3.12.1-2 [104 kB] Get: 17 http://deb.debian.org/debian trixie/main arm64 libgfortran5 arm64 14.2.0-19 [361 kB] Get: 18 http://deb.debian.org/debian trixie/main arm64 liblapack3 arm64 3.12.1-2 [1819 kB] Get: 19 http://deb.debian.org/debian trixie/main arm64 python3-numpy arm64 1:2.2.4+ds-1 [3604 kB] Get: 20 http://deb.debian.org/debian trixie/main arm64 sensible-utils all 0.0.24 [24.8 kB] Get: 21 http://deb.debian.org/debian trixie/main arm64 libmagic-mgc arm64 1:5.46-5 [338 kB] Get: 22 http://deb.debian.org/debian trixie/main arm64 libmagic1t64 arm64 1:5.46-5 [103 kB] Get: 23 http://deb.debian.org/debian trixie/main arm64 file arm64 1:5.46-5 [43.7 kB] Get: 24 http://deb.debian.org/debian trixie/main arm64 gettext-base arm64 0.23.1-1 [241 kB] Get: 25 http://deb.debian.org/debian trixie/main arm64 libuchardet0 arm64 0.0.8-1+b2 [69.2 kB] Get: 26 http://deb.debian.org/debian trixie/main arm64 groff-base arm64 1.23.0-7 [1129 kB] Get: 27 http://deb.debian.org/debian trixie/main arm64 bsdextrautils arm64 2.41-4 [93.9 kB] Get: 28 http://deb.debian.org/debian trixie/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 29 http://deb.debian.org/debian trixie/main arm64 man-db arm64 2.13.0-1 [1404 kB] Get: 30 http://deb.debian.org/debian trixie/main arm64 m4 arm64 1.4.19-7 [285 kB] Get: 31 http://deb.debian.org/debian trixie/main arm64 autoconf all 2.72-3.1 [494 kB] Get: 32 http://deb.debian.org/debian trixie/main arm64 autotools-dev all 20240727.1 [60.2 kB] Get: 33 http://deb.debian.org/debian trixie/main arm64 automake all 1:1.17-4 [862 kB] Get: 34 http://deb.debian.org/debian trixie/main arm64 autopoint all 0.23.1-1 [770 kB] Get: 35 http://deb.debian.org/debian trixie/main arm64 libdebhelper-perl all 13.24.2 [90.9 kB] Get: 36 http://deb.debian.org/debian trixie/main arm64 libtool all 2.5.4-4 [539 kB] Get: 37 http://deb.debian.org/debian trixie/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 38 http://deb.debian.org/debian trixie/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 39 http://deb.debian.org/debian trixie/main arm64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 40 http://deb.debian.org/debian trixie/main arm64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 41 http://deb.debian.org/debian trixie/main arm64 libelf1t64 arm64 0.192-4 [189 kB] Get: 42 http://deb.debian.org/debian trixie/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 43 http://deb.debian.org/debian trixie/main arm64 libunistring5 arm64 1.3-2 [453 kB] Get: 44 http://deb.debian.org/debian trixie/main arm64 libxml2 arm64 2.12.7+dfsg+really2.9.14-0.4 [629 kB] Get: 45 http://deb.debian.org/debian trixie/main arm64 gettext arm64 0.23.1-1 [1610 kB] Get: 46 http://deb.debian.org/debian trixie/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 47 http://deb.debian.org/debian trixie/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 48 http://deb.debian.org/debian trixie/main arm64 debhelper all 13.24.2 [919 kB] Get: 49 http://deb.debian.org/debian trixie/main arm64 dh-python all 6.20250414 [116 kB] Get: 50 http://deb.debian.org/debian trixie/main arm64 python3-all arm64 3.13.2-2 [1044 B] Get: 51 http://deb.debian.org/debian trixie/main arm64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 52 http://deb.debian.org/debian trixie/main arm64 python3-decorator all 5.1.1-5 [15.1 kB] Get: 53 http://deb.debian.org/debian trixie/main arm64 python3-more-itertools all 10.6.0-1 [65.3 kB] Get: 54 http://deb.debian.org/debian trixie/main arm64 python3-typing-extensions all 4.13.2-1 [90.5 kB] Get: 55 http://deb.debian.org/debian trixie/main arm64 python3-typeguard all 4.4.2-1 [37.3 kB] Get: 56 http://deb.debian.org/debian trixie/main arm64 python3-inflect all 7.3.1-2 [32.4 kB] Get: 57 http://deb.debian.org/debian trixie/main arm64 python3-iniconfig all 1.1.1-2 [6396 B] Get: 58 http://deb.debian.org/debian trixie/main arm64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 59 http://deb.debian.org/debian trixie/main arm64 python3-pkg-resources all 75.8.0-1 [222 kB] Get: 60 http://deb.debian.org/debian trixie/main arm64 python3-jaraco.text all 4.0.0-1 [11.4 kB] Get: 61 http://deb.debian.org/debian trixie/main arm64 python3-zipp all 3.21.0-1 [10.6 kB] Get: 62 http://deb.debian.org/debian trixie/main arm64 python3-setuptools all 75.8.0-1 [724 kB] Get: 63 http://deb.debian.org/debian trixie/main arm64 python3-jaraco.context all 6.0.1-1 [8276 B] Get: 64 http://deb.debian.org/debian trixie/main arm64 python3-packaging all 24.2-3 [55.7 kB] Get: 65 http://deb.debian.org/debian trixie/main arm64 python3-numexpr arm64 2.10.2-1+b2 [124 kB] Get: 66 http://deb.debian.org/debian trixie/main arm64 python3-pluggy all 1.5.0-1 [26.9 kB] Get: 67 http://deb.debian.org/debian trixie/main arm64 python3-pytest all 8.3.5-2 [250 kB] Get: 68 http://deb.debian.org/debian trixie/main arm64 python3-scipy arm64 1.15.2-7 [14.8 MB] Fetched 39.8 MB in 0s (115 MB/s) Preconfiguring packages ... Selecting previously unselected package libpython3.13-minimal:arm64. (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 ... 19954 files and directories currently installed.) Preparing to unpack .../libpython3.13-minimal_3.13.3-2_arm64.deb ... Unpacking libpython3.13-minimal:arm64 (3.13.3-2) ... Selecting previously unselected package libexpat1:arm64. Preparing to unpack .../libexpat1_2.7.1-1_arm64.deb ... Unpacking libexpat1:arm64 (2.7.1-1) ... 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Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8 to /lib/aarch64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8.2 to /lib/aarch64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8 to /lib/aarch64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8.2 to /lib/aarch64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:arm64 (8.2-6) ... Selecting previously unselected package libpython3.13-stdlib:arm64. Preparing to unpack .../7-libpython3.13-stdlib_3.13.3-2_arm64.deb ... Unpacking libpython3.13-stdlib:arm64 (3.13.3-2) ... Selecting previously unselected package python3.13. Preparing to unpack .../8-python3.13_3.13.3-2_arm64.deb ... Unpacking python3.13 (3.13.3-2) ... 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Setting up autopoint (0.23.1-1) ... Setting up libgfortran5:arm64 (14.2.0-19) ... Setting up autoconf (2.72-3.1) ... Setting up libffi8:arm64 (3.4.7-1) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... Setting up libuchardet0:arm64 (0.0.8-1+b2) ... Setting up netbase (6.5) ... Setting up readline-common (8.2-6) ... Setting up libxml2:arm64 (2.12.7+dfsg+really2.9.14-0.4) ... Setting up automake (1:1.17-4) ... update-alternatives: using /usr/bin/automake-1.17 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.1-2) ... Setting up liblapack3:arm64 (3.12.1-2) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode Setting up gettext (0.23.1-1) ... Setting up libtool (2.5.4-4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libreadline8t64:arm64 (8.2-6) ... Setting up dh-strip-nondeterminism (1.14.1-2) ... Setting up groff-base (1.23.0-7) ... Setting up libpython3.13-stdlib:arm64 (3.13.3-2) ... Setting up libpython3-stdlib:arm64 (3.13.2-2) ... Setting up python3.13 (3.13.3-2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up python3 (3.13.2-2) ... Setting up python3-zipp (3.21.0-1) ... Setting up python3-autocommand (2.2.2-3) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up python3-decorator (5.1.1-5) ... Setting up python3-packaging (24.2-3) ... Setting up python3-typing-extensions (4.13.2-1) ... Setting up python3-numpy (1:2.2.4+ds-1) ... Setting up python3-pluggy (1.5.0-1) ... Setting up dh-python (6.20250414) ... Setting up python3-more-itertools (10.6.0-1) ... Setting up python3-iniconfig (1.1.1-2) ... Setting up python3-scipy (1.15.2-7) ... Setting up python3-jaraco.functools (4.1.0-1) ... 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Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/python-pymbar-4.0.3/ && 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 > ../python-pymbar_4.0.3-2_source.changes dpkg-buildpackage: info: source package python-pymbar dpkg-buildpackage: info: source version 4.0.3-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Alexandre Detiste dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 dpkg-source: info: using options from python-pymbar-4.0.3/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/ debian/rules clean dh clean --buildsystem pybuild debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/python-pymbar-4.0.3' dh_auto_clean I: pybuild base:311: python3.13 setup.py clean /usr/lib/python3/dist-packages/setuptools/dist.py:493: SetuptoolsDeprecationWarning: Invalid dash-separated options !! ******************************************************************************** Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead. This deprecation is overdue, please update your project and remove deprecated calls to avoid build errors in the future. See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. ******************************************************************************** !! opt = self.warn_dash_deprecation(opt, section) running clean removing '/build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build' (and everything under it) 'build/bdist.linux-aarch64' does not exist -- can't clean it 'build/scripts-3.13' does not exist -- can't clean it rm -rf pymbar.egg-info make[1]: Leaving directory '/build/reproducible-path/python-pymbar-4.0.3' 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: python3.13 setup.py config /usr/lib/python3/dist-packages/setuptools/dist.py:493: SetuptoolsDeprecationWarning: Invalid dash-separated options !! ******************************************************************************** Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead. This deprecation is overdue, please update your project and remove deprecated calls to avoid build errors in the future. See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. ******************************************************************************** !! opt = self.warn_dash_deprecation(opt, section) running config dh_auto_build -O--buildsystem=pybuild I: pybuild base:311: /usr/bin/python3 setup.py build /usr/lib/python3/dist-packages/setuptools/dist.py:493: SetuptoolsDeprecationWarning: Invalid dash-separated options !! ******************************************************************************** Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead. This deprecation is overdue, please update your project and remove deprecated calls to avoid build errors in the future. See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. ******************************************************************************** !! opt = self.warn_dash_deprecation(opt, section) running build running build_py creating /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar copying pymbar/utils_for_testing.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar copying pymbar/utils.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar copying pymbar/timeseries.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar copying pymbar/other_estimators.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar copying pymbar/mbar_solvers.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar copying pymbar/mbar.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar copying pymbar/fes.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar copying pymbar/confidenceintervals.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar copying pymbar/_version.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar copying pymbar/__init__.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar creating /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems copying pymbar/testsystems/timeseries.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems copying pymbar/testsystems/harmonic_oscillators.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems copying pymbar/testsystems/gaussian_work.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems copying pymbar/testsystems/exponential_distributions.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems copying pymbar/testsystems/__init__.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems creating /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests copying pymbar/tests/test_utils.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests copying pymbar/tests/test_timeseries.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests copying pymbar/tests/test_mbar_solvers.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests copying pymbar/tests/test_mbar.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests copying pymbar/tests/test_fes.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests copying pymbar/tests/test_exp.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests copying pymbar/tests/test_covariance.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests copying pymbar/tests/test_bar.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests copying pymbar/tests/__init__.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests UPDATING /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/_version.py set /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/_version.py to '4.0.3' dh_auto_test -O--buildsystem=pybuild I: pybuild base:311: cd /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build; python3.13 -m pytest ============================= test session starts ============================== platform linux -- Python 3.13.3, pytest-8.3.5, pluggy-1.5.0 rootdir: /build/reproducible-path/python-pymbar-4.0.3 configfile: setup.cfg plugins: typeguard-4.4.2 collected 150 items pymbar/tests/test_bar.py ..... [ 3%] pymbar/tests/test_exp.py .... [ 6%] pymbar/tests/test_fes.py ..xxsssssssss.....xxssssssss [ 24%] pymbar/tests/test_mbar.py ...x..........x...............x..........xxxx. [ 55%] ..x..................x [ 70%] pymbar/tests/test_mbar_solvers.py ................ [ 80%] pymbar/tests/test_timeseries.py ..ss.ss.. [ 86%] pymbar/tests/test_utils.py ....xx..xx..xx..xx.. [100%] =============================== warnings summary =============================== pymbar/tests/test_mbar_solvers.py:24 /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_mbar_solvers.py:24: PytestUnknownMarkWarning: Unknown pytest.mark.flaky - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html @pytest.mark.flaky(max_runs=2) # Uses flaky plugin for pytest pymbar/tests/test_mbar_solvers.py:67 /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_mbar_solvers.py:67: PytestUnknownMarkWarning: Unknown pytest.mark.flaky - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html pytest.param("TNC", marks=pytest.mark.flaky(max_runs=2)), # This one is flaky .pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_fes.py: 264 warnings /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/fes.py:2246: DeprecationWarning: Conversion of an array with ndim > 0 to a scalar is deprecated, and will error in future. Ensure you extract a single element from your array before performing this operation. (Deprecated NumPy 1.25.) g[i - 1] = N * np.dot(w_n, db_c[i](x_n)) .pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_fes.py::test_1d_fes_spline_bootstraped /usr/lib/python3/dist-packages/scipy/optimize/_optimize.py:2137: OptimizeWarning: Warning: Desired error not necessarily achieved due to precision loss. return terminate(2, msg) -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html ========== 108 passed, 21 skipped, 21 xfailed, 267 warnings in 29.13s ========== create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_auto_install --destdir=debian/python3-pymbar/ -O--buildsystem=pybuild I: pybuild base:311: /usr/bin/python3 setup.py install --root /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar /usr/lib/python3/dist-packages/setuptools/dist.py:493: SetuptoolsDeprecationWarning: Invalid dash-separated options !! ******************************************************************************** Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead. This deprecation is overdue, please update your project and remove deprecated calls to avoid build errors in the future. See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. ******************************************************************************** !! opt = self.warn_dash_deprecation(opt, section) running install /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:79: 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_py UPDATING /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/_version.py set /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/_version.py to '4.0.3' running install_lib creating /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages creating /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar creating /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/__pycache__/utils_for_testing.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/__pycache__/_version.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/__pycache__/fes.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/__pycache__/other_estimators.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/__pycache__/mbar_solvers.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/__pycache__/mbar.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/__pycache__/confidenceintervals.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/__pycache__/utils.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/__pycache__/timeseries.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/__pycache__/__init__.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__pycache__ creating /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests creating /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/__pycache__/test_utils.cpython-313-pytest-8.3.5.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/__pycache__/test_timeseries.cpython-313-pytest-8.3.5.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/__pycache__/test_mbar_solvers.cpython-313-pytest-8.3.5.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/__pycache__/test_mbar.cpython-313-pytest-8.3.5.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/__pycache__/test_fes.cpython-313-pytest-8.3.5.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/__pycache__/test_exp.cpython-313-pytest-8.3.5.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/__pycache__/test_covariance.cpython-313-pytest-8.3.5.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/__pycache__/test_bar.cpython-313-pytest-8.3.5.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/__pycache__/__init__.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/__init__.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_bar.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_covariance.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_exp.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_fes.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_mbar.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_mbar_solvers.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_timeseries.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_utils.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests creating /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems creating /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems/__pycache__/gaussian_work.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems/__pycache__/timeseries.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems/__pycache__/exponential_distributions.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems/__pycache__/harmonic_oscillators.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems/__pycache__/__init__.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems/__init__.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems/exponential_distributions.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems/gaussian_work.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems/harmonic_oscillators.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems/timeseries.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/__init__.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/_version.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/confidenceintervals.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/fes.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/mbar.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/mbar_solvers.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/other_estimators.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/timeseries.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/utils.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/utils_for_testing.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/__init__.py to __init__.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/test_bar.py to test_bar.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/test_covariance.py to test_covariance.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/test_exp.py to test_exp.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/test_fes.py to test_fes.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/test_mbar.py to test_mbar.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/test_mbar_solvers.py to test_mbar_solvers.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/test_timeseries.py to test_timeseries.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/test_utils.py to test_utils.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems/__init__.py to __init__.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems/exponential_distributions.py to exponential_distributions.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems/gaussian_work.py to gaussian_work.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems/harmonic_oscillators.py to harmonic_oscillators.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems/timeseries.py to timeseries.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__init__.py to __init__.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/_version.py to _version.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/confidenceintervals.py to confidenceintervals.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/fes.py to fes.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/mbar.py to mbar.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/mbar_solvers.py to mbar_solvers.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/other_estimators.py to other_estimators.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/timeseries.py to timeseries.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/utils.py to utils.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/utils_for_testing.py to utils_for_testing.cpython-313.pyc running install_egg_info running egg_info creating pymbar.egg-info writing pymbar.egg-info/PKG-INFO writing dependency_links to pymbar.egg-info/dependency_links.txt writing requirements to pymbar.egg-info/requires.txt writing top-level names to pymbar.egg-info/top_level.txt writing manifest file 'pymbar.egg-info/SOURCES.txt' reading manifest file 'pymbar.egg-info/SOURCES.txt' adding license file 'LICENSE' writing manifest file 'pymbar.egg-info/SOURCES.txt' Copying pymbar.egg-info to /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar-4.0.3.egg-info Skipping SOURCES.txt running install_scripts dh_installdocs -O--buildsystem=pybuild dh_installchangelogs -O--buildsystem=pybuild dh_python3 -O--buildsystem=pybuild dh_installsystemduser -O--buildsystem=pybuild dh_perl -O--buildsystem=pybuild dh_link -O--buildsystem=pybuild dh_strip_nondeterminism -O--buildsystem=pybuild dh_compress -O--buildsystem=pybuild dh_fixperms -O--buildsystem=pybuild dh_missing -O--buildsystem=pybuild dh_installdeb -O--buildsystem=pybuild dh_gencontrol -O--buildsystem=pybuild dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild dpkg-deb: building package 'python3-pymbar' in '../python3-pymbar_4.0.3-2_all.deb'. dpkg-genbuildinfo --build=binary -O../python-pymbar_4.0.3-2_arm64.buildinfo dpkg-genchanges --build=binary -O../python-pymbar_4.0.3-2_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-source: info: using options from python-pymbar-4.0.3/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/ 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/961214 and its subdirectories I: Current time: Wed May 27 23:05:23 -12 2026 I: pbuilder-time-stamp: 1779966323 Thu May 28 11:05:23 UTC 2026 I: Signing ./b1/python-pymbar_4.0.3-2_arm64.buildinfo as python-pymbar_4.0.3-2_arm64.buildinfo.asc Thu May 28 11:05:23 UTC 2026 I: Signed ./b1/python-pymbar_4.0.3-2_arm64.buildinfo as ./b1/python-pymbar_4.0.3-2_arm64.buildinfo.asc Thu May 28 11:05:23 UTC 2026 - build #1 for python-pymbar/trixie/arm64 on codethink03-arm64 done. Starting cleanup. All cleanup done. Thu May 28 11:05:23 UTC 2026 - reproducible_build.sh stopped running as /tmp/jenkins-script-skECBm89, removing. /srv/reproducible-results/rbuild-debian/r-b-build.bmfBSyNg: total 16 drwxr-xr-x 2 jenkins jenkins 4096 Apr 25 04:42 b1 drwxr-xr-x 2 jenkins jenkins 4096 Apr 25 04:41 b2 -rw-r--r-- 1 jenkins jenkins 2234 Jun 29 2024 python-pymbar_4.0.3-2.dsc -rw------- 1 jenkins jenkins 3381 Apr 25 04:41 rbuildlog.DANI8zN /srv/reproducible-results/rbuild-debian/r-b-build.bmfBSyNg/b1: total 176 -rw-r--r-- 1 jenkins jenkins 62704 Apr 25 04:42 build.log -rw-r--r-- 1 jenkins jenkins 3444 Apr 25 04:42 python-pymbar_4.0.3-2.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2234 Apr 25 04:42 python-pymbar_4.0.3-2.dsc -rw-r--r-- 1 jenkins jenkins 5808 Apr 25 04:42 python-pymbar_4.0.3-2_arm64.buildinfo -rw-r--r-- 1 jenkins jenkins 6690 Apr 25 04:42 python-pymbar_4.0.3-2_arm64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1121 Apr 25 04:42 python-pymbar_4.0.3-2_arm64.changes -rw-r--r-- 1 jenkins jenkins 1269 Apr 25 04:42 python-pymbar_4.0.3-2_source.changes -rw-r--r-- 1 jenkins jenkins 79544 Apr 25 04:42 python3-pymbar_4.0.3-2_all.deb /srv/reproducible-results/rbuild-debian/r-b-build.bmfBSyNg/b2: total 0 Fri Apr 25 04:42:25 UTC 2025 I: Deleting $TMPDIR on codethink03-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Wed May 27 23:04:11 -12 2026 I: pbuilder-time-stamp: 1779966251 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 [python-pymbar_4.0.3-2.dsc] I: copying [./python-pymbar_4.0.3.orig.tar.gz] I: copying [./python-pymbar_4.0.3-2.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./python-pymbar_4.0.3-2.dsc: unsupported subcommand dpkg-source: info: extracting python-pymbar in python-pymbar-4.0.3 dpkg-source: info: unpacking python-pymbar_4.0.3.orig.tar.gz dpkg-source: info: unpacking python-pymbar_4.0.3-2.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/961214/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='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='a42affb7e8704916897df6c9ab3e44e8' 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='961214' 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.bmfBSyNg/pbuilderrc_gsAQ --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.bmfBSyNg/b1 --logfile b1/build.log python-pymbar_4.0.3-2.dsc' SUDO_GID='109' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.4:3128' I: uname -a Linux codethink03-arm64 6.1.0-33-cloud-arm64 #1 SMP Debian 6.1.133-1 (2025-04-10) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Mar 4 2025 /bin -> usr/bin I: user script /srv/workspace/pbuilder/961214/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), dh-sequence-python3, python3-all, python3-numexpr, python3-numpy, python3-pytest, python3-scipy, python3-setuptools dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19954 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-all; however: Package python3-all is not installed. pbuilder-satisfydepends-dummy depends on python3-numexpr; however: Package python3-numexpr is not installed. pbuilder-satisfydepends-dummy depends on python3-numpy; however: Package python3-numpy is not installed. pbuilder-satisfydepends-dummy depends on python3-pytest; however: Package python3-pytest is not installed. pbuilder-satisfydepends-dummy depends on python3-scipy; however: Package python3-scipy is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools 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} libarchive-zip-perl{a} libblas3{a} libdebhelper-perl{a} libelf1t64{a} libexpat1{a} libffi8{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} liblapack3{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libpython3-stdlib{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libreadline8t64{a} libtool{a} libuchardet0{a} libunistring5{a} libxml2{a} m4{a} man-db{a} media-types{a} netbase{a} po-debconf{a} python3{a} python3-all{a} python3-autocommand{a} python3-decorator{a} python3-inflect{a} python3-iniconfig{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-minimal{a} python3-more-itertools{a} python3-numexpr{a} python3-numpy{a} python3-numpy-dev{a} python3-packaging{a} python3-pkg-resources{a} python3-pluggy{a} python3-pytest{a} python3-scipy{a} python3-setuptools{a} python3-typeguard{a} python3-typing-extensions{a} python3-zipp{a} python3.13{a} python3.13-minimal{a} readline-common{a} sensible-utils{a} tzdata{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx python3-pil python3-pooch python3-pygments python3-yaml wget 0 packages upgraded, 68 newly installed, 0 to remove and 0 not upgraded. Need to get 39.8 MB of archives. After unpacking 183 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main arm64 libpython3.13-minimal arm64 3.13.3-2 [855 kB] Get: 2 http://deb.debian.org/debian trixie/main arm64 libexpat1 arm64 2.7.1-1 [93.3 kB] Get: 3 http://deb.debian.org/debian trixie/main arm64 python3.13-minimal arm64 3.13.3-2 [1998 kB] Get: 4 http://deb.debian.org/debian trixie/main arm64 python3-minimal arm64 3.13.2-2 [27.1 kB] Get: 5 http://deb.debian.org/debian trixie/main arm64 media-types all 13.0.0 [29.3 kB] Get: 6 http://deb.debian.org/debian trixie/main arm64 netbase all 6.5 [12.4 kB] Get: 7 http://deb.debian.org/debian trixie/main arm64 tzdata all 2025b-2 [260 kB] Get: 8 http://deb.debian.org/debian trixie/main arm64 libffi8 arm64 3.4.7-1 [21.2 kB] Get: 9 http://deb.debian.org/debian trixie/main arm64 readline-common all 8.2-6 [69.4 kB] Get: 10 http://deb.debian.org/debian trixie/main arm64 libreadline8t64 arm64 8.2-6 [159 kB] Get: 11 http://deb.debian.org/debian trixie/main arm64 libpython3.13-stdlib arm64 3.13.3-2 [1890 kB] Get: 12 http://deb.debian.org/debian trixie/main arm64 python3.13 arm64 3.13.3-2 [751 kB] Get: 13 http://deb.debian.org/debian trixie/main arm64 libpython3-stdlib arm64 3.13.2-2 [10.1 kB] Get: 14 http://deb.debian.org/debian trixie/main arm64 python3 arm64 3.13.2-2 [28.1 kB] Get: 15 http://deb.debian.org/debian trixie/main arm64 python3-numpy-dev arm64 1:2.2.4+ds-1 [136 kB] Get: 16 http://deb.debian.org/debian trixie/main arm64 libblas3 arm64 3.12.1-2 [104 kB] Get: 17 http://deb.debian.org/debian trixie/main arm64 libgfortran5 arm64 14.2.0-19 [361 kB] Get: 18 http://deb.debian.org/debian trixie/main arm64 liblapack3 arm64 3.12.1-2 [1819 kB] Get: 19 http://deb.debian.org/debian trixie/main arm64 python3-numpy arm64 1:2.2.4+ds-1 [3604 kB] Get: 20 http://deb.debian.org/debian trixie/main arm64 sensible-utils all 0.0.24 [24.8 kB] Get: 21 http://deb.debian.org/debian trixie/main arm64 libmagic-mgc arm64 1:5.46-5 [338 kB] Get: 22 http://deb.debian.org/debian trixie/main arm64 libmagic1t64 arm64 1:5.46-5 [103 kB] Get: 23 http://deb.debian.org/debian trixie/main arm64 file arm64 1:5.46-5 [43.7 kB] Get: 24 http://deb.debian.org/debian trixie/main arm64 gettext-base arm64 0.23.1-1 [241 kB] Get: 25 http://deb.debian.org/debian trixie/main arm64 libuchardet0 arm64 0.0.8-1+b2 [69.2 kB] Get: 26 http://deb.debian.org/debian trixie/main arm64 groff-base arm64 1.23.0-7 [1129 kB] Get: 27 http://deb.debian.org/debian trixie/main arm64 bsdextrautils arm64 2.41-4 [93.9 kB] Get: 28 http://deb.debian.org/debian trixie/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 29 http://deb.debian.org/debian trixie/main arm64 man-db arm64 2.13.0-1 [1404 kB] Get: 30 http://deb.debian.org/debian trixie/main arm64 m4 arm64 1.4.19-7 [285 kB] Get: 31 http://deb.debian.org/debian trixie/main arm64 autoconf all 2.72-3.1 [494 kB] Get: 32 http://deb.debian.org/debian trixie/main arm64 autotools-dev all 20240727.1 [60.2 kB] Get: 33 http://deb.debian.org/debian trixie/main arm64 automake all 1:1.17-4 [862 kB] Get: 34 http://deb.debian.org/debian trixie/main arm64 autopoint all 0.23.1-1 [770 kB] Get: 35 http://deb.debian.org/debian trixie/main arm64 libdebhelper-perl all 13.24.2 [90.9 kB] Get: 36 http://deb.debian.org/debian trixie/main arm64 libtool all 2.5.4-4 [539 kB] Get: 37 http://deb.debian.org/debian trixie/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 38 http://deb.debian.org/debian trixie/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 39 http://deb.debian.org/debian trixie/main arm64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 40 http://deb.debian.org/debian trixie/main arm64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 41 http://deb.debian.org/debian trixie/main arm64 libelf1t64 arm64 0.192-4 [189 kB] Get: 42 http://deb.debian.org/debian trixie/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 43 http://deb.debian.org/debian trixie/main arm64 libunistring5 arm64 1.3-2 [453 kB] Get: 44 http://deb.debian.org/debian trixie/main arm64 libxml2 arm64 2.12.7+dfsg+really2.9.14-0.4 [629 kB] Get: 45 http://deb.debian.org/debian trixie/main arm64 gettext arm64 0.23.1-1 [1610 kB] Get: 46 http://deb.debian.org/debian trixie/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 47 http://deb.debian.org/debian trixie/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 48 http://deb.debian.org/debian trixie/main arm64 debhelper all 13.24.2 [919 kB] Get: 49 http://deb.debian.org/debian trixie/main arm64 dh-python all 6.20250414 [116 kB] Get: 50 http://deb.debian.org/debian trixie/main arm64 python3-all arm64 3.13.2-2 [1044 B] Get: 51 http://deb.debian.org/debian trixie/main arm64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 52 http://deb.debian.org/debian trixie/main arm64 python3-decorator all 5.1.1-5 [15.1 kB] Get: 53 http://deb.debian.org/debian trixie/main arm64 python3-more-itertools all 10.6.0-1 [65.3 kB] Get: 54 http://deb.debian.org/debian trixie/main arm64 python3-typing-extensions all 4.13.2-1 [90.5 kB] Get: 55 http://deb.debian.org/debian trixie/main arm64 python3-typeguard all 4.4.2-1 [37.3 kB] Get: 56 http://deb.debian.org/debian trixie/main arm64 python3-inflect all 7.3.1-2 [32.4 kB] Get: 57 http://deb.debian.org/debian trixie/main arm64 python3-iniconfig all 1.1.1-2 [6396 B] Get: 58 http://deb.debian.org/debian trixie/main arm64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 59 http://deb.debian.org/debian trixie/main arm64 python3-pkg-resources all 75.8.0-1 [222 kB] Get: 60 http://deb.debian.org/debian trixie/main arm64 python3-jaraco.text all 4.0.0-1 [11.4 kB] Get: 61 http://deb.debian.org/debian trixie/main arm64 python3-zipp all 3.21.0-1 [10.6 kB] Get: 62 http://deb.debian.org/debian trixie/main arm64 python3-setuptools all 75.8.0-1 [724 kB] Get: 63 http://deb.debian.org/debian trixie/main arm64 python3-jaraco.context all 6.0.1-1 [8276 B] Get: 64 http://deb.debian.org/debian trixie/main arm64 python3-packaging all 24.2-3 [55.7 kB] Get: 65 http://deb.debian.org/debian trixie/main arm64 python3-numexpr arm64 2.10.2-1+b2 [124 kB] Get: 66 http://deb.debian.org/debian trixie/main arm64 python3-pluggy all 1.5.0-1 [26.9 kB] Get: 67 http://deb.debian.org/debian trixie/main arm64 python3-pytest all 8.3.5-2 [250 kB] Get: 68 http://deb.debian.org/debian trixie/main arm64 python3-scipy arm64 1.15.2-7 [14.8 MB] Fetched 39.8 MB in 0s (115 MB/s) Preconfiguring packages ... Selecting previously unselected package libpython3.13-minimal:arm64. (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 ... 19954 files and directories currently installed.) Preparing to unpack .../libpython3.13-minimal_3.13.3-2_arm64.deb ... Unpacking libpython3.13-minimal:arm64 (3.13.3-2) ... Selecting previously unselected package libexpat1:arm64. Preparing to unpack .../libexpat1_2.7.1-1_arm64.deb ... Unpacking libexpat1:arm64 (2.7.1-1) ... Selecting previously unselected package python3.13-minimal. Preparing to unpack .../python3.13-minimal_3.13.3-2_arm64.deb ... Unpacking python3.13-minimal (3.13.3-2) ... Setting up libpython3.13-minimal:arm64 (3.13.3-2) ... Setting up libexpat1:arm64 (2.7.1-1) ... Setting up python3.13-minimal (3.13.3-2) ... 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 ... 20288 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.13.2-2_arm64.deb ... Unpacking python3-minimal (3.13.2-2) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_13.0.0_all.deb ... Unpacking media-types (13.0.0) ... Selecting previously unselected package netbase. Preparing to unpack .../2-netbase_6.5_all.deb ... Unpacking netbase (6.5) ... Selecting previously unselected package tzdata. Preparing to unpack .../3-tzdata_2025b-2_all.deb ... Unpacking tzdata (2025b-2) ... Selecting previously unselected package libffi8:arm64. Preparing to unpack .../4-libffi8_3.4.7-1_arm64.deb ... Unpacking libffi8:arm64 (3.4.7-1) ... Selecting previously unselected package readline-common. Preparing to unpack .../5-readline-common_8.2-6_all.deb ... Unpacking readline-common (8.2-6) ... Selecting previously unselected package libreadline8t64:arm64. Preparing to unpack .../6-libreadline8t64_8.2-6_arm64.deb ... Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8 to /lib/aarch64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8.2 to /lib/aarch64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8 to /lib/aarch64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8.2 to /lib/aarch64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:arm64 (8.2-6) ... Selecting previously unselected package libpython3.13-stdlib:arm64. Preparing to unpack .../7-libpython3.13-stdlib_3.13.3-2_arm64.deb ... Unpacking libpython3.13-stdlib:arm64 (3.13.3-2) ... Selecting previously unselected package python3.13. Preparing to unpack .../8-python3.13_3.13.3-2_arm64.deb ... Unpacking python3.13 (3.13.3-2) ... Selecting previously unselected package libpython3-stdlib:arm64. Preparing to unpack .../9-libpython3-stdlib_3.13.2-2_arm64.deb ... Unpacking libpython3-stdlib:arm64 (3.13.2-2) ... Setting up python3-minimal (3.13.2-2) ... 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 ... 21300 files and directories currently installed.) Preparing to unpack .../00-python3_3.13.2-2_arm64.deb ... Unpacking python3 (3.13.2-2) ... Selecting previously unselected package python3-numpy-dev:arm64. Preparing to unpack .../01-python3-numpy-dev_1%3a2.2.4+ds-1_arm64.deb ... Unpacking python3-numpy-dev:arm64 (1:2.2.4+ds-1) ... Selecting previously unselected package libblas3:arm64. Preparing to unpack .../02-libblas3_3.12.1-2_arm64.deb ... Unpacking libblas3:arm64 (3.12.1-2) ... Selecting previously unselected package libgfortran5:arm64. Preparing to unpack .../03-libgfortran5_14.2.0-19_arm64.deb ... Unpacking libgfortran5:arm64 (14.2.0-19) ... Selecting previously unselected package liblapack3:arm64. Preparing to unpack .../04-liblapack3_3.12.1-2_arm64.deb ... Unpacking liblapack3:arm64 (3.12.1-2) ... Selecting previously unselected package python3-numpy. Preparing to unpack .../05-python3-numpy_1%3a2.2.4+ds-1_arm64.deb ... Unpacking python3-numpy (1:2.2.4+ds-1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../06-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... 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Unpacking python3-iniconfig (1.1.1-2) ... Selecting previously unselected package python3-jaraco.functools. Preparing to unpack .../44-python3-jaraco.functools_4.1.0-1_all.deb ... Unpacking python3-jaraco.functools (4.1.0-1) ... Selecting previously unselected package python3-pkg-resources. Preparing to unpack .../45-python3-pkg-resources_75.8.0-1_all.deb ... Unpacking python3-pkg-resources (75.8.0-1) ... Selecting previously unselected package python3-jaraco.text. Preparing to unpack .../46-python3-jaraco.text_4.0.0-1_all.deb ... Unpacking python3-jaraco.text (4.0.0-1) ... Selecting previously unselected package python3-zipp. Preparing to unpack .../47-python3-zipp_3.21.0-1_all.deb ... Unpacking python3-zipp (3.21.0-1) ... Selecting previously unselected package python3-setuptools. Preparing to unpack .../48-python3-setuptools_75.8.0-1_all.deb ... Unpacking python3-setuptools (75.8.0-1) ... Selecting previously unselected package python3-jaraco.context. 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Setting up libpipeline1:arm64 (1.5.8-1) ... Setting up bsdextrautils (2.41-4) ... Setting up libmagic-mgc (1:5.46-5) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.24.2) ... Setting up libmagic1t64:arm64 (1:5.46-5) ... Setting up gettext-base (0.23.1-1) ... Setting up m4 (1.4.19-7) ... Setting up file (1:5.46-5) ... Setting up libelf1t64:arm64 (0.192-4) ... Setting up tzdata (2025b-2) ... Current default time zone: 'Etc/UTC' Local time is now: Thu May 28 11:04:29 UTC 2026. Universal Time is now: Thu May 28 11:04:29 UTC 2026. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20240727.1) ... Setting up libblas3:arm64 (3.12.1-2) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/aarch64-linux-gnu/libblas.so.3 (libblas.so.3-aarch64-linux-gnu) in auto mode Setting up libunistring5:arm64 (1.3-2) ... Setting up python3-numpy-dev:arm64 (1:2.2.4+ds-1) ... Setting up autopoint (0.23.1-1) ... Setting up libgfortran5:arm64 (14.2.0-19) ... Setting up autoconf (2.72-3.1) ... Setting up libffi8:arm64 (3.4.7-1) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... Setting up libuchardet0:arm64 (0.0.8-1+b2) ... Setting up netbase (6.5) ... Setting up readline-common (8.2-6) ... Setting up libxml2:arm64 (2.12.7+dfsg+really2.9.14-0.4) ... Setting up automake (1:1.17-4) ... update-alternatives: using /usr/bin/automake-1.17 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.1-2) ... Setting up liblapack3:arm64 (3.12.1-2) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode Setting up gettext (0.23.1-1) ... Setting up libtool (2.5.4-4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libreadline8t64:arm64 (8.2-6) ... Setting up dh-strip-nondeterminism (1.14.1-2) ... Setting up groff-base (1.23.0-7) ... Setting up libpython3.13-stdlib:arm64 (3.13.3-2) ... Setting up libpython3-stdlib:arm64 (3.13.2-2) ... Setting up python3.13 (3.13.3-2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up python3 (3.13.2-2) ... Setting up python3-zipp (3.21.0-1) ... Setting up python3-autocommand (2.2.2-3) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up python3-decorator (5.1.1-5) ... Setting up python3-packaging (24.2-3) ... Setting up python3-typing-extensions (4.13.2-1) ... Setting up python3-numpy (1:2.2.4+ds-1) ... Setting up python3-pluggy (1.5.0-1) ... Setting up dh-python (6.20250414) ... Setting up python3-more-itertools (10.6.0-1) ... Setting up python3-iniconfig (1.1.1-2) ... Setting up python3-scipy (1.15.2-7) ... Setting up python3-jaraco.functools (4.1.0-1) ... Setting up python3-jaraco.context (6.0.1-1) ... Setting up python3-pytest (8.3.5-2) ... Setting up python3-typeguard (4.4.2-1) ... Setting up python3-all (3.13.2-2) ... Setting up debhelper (13.24.2) ... Setting up python3-inflect (7.3.1-2) ... Setting up python3-jaraco.text (4.0.0-1) ... Setting up python3-numexpr (2.10.2-1+b2) ... Setting up python3-pkg-resources (75.8.0-1) ... Setting up python3-setuptools (75.8.0-1) ... Processing triggers for libc-bin (2.41-7) ... 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/python-pymbar-4.0.3/ && 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 > ../python-pymbar_4.0.3-2_source.changes dpkg-buildpackage: info: source package python-pymbar dpkg-buildpackage: info: source version 4.0.3-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Alexandre Detiste dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 dpkg-source: info: using options from python-pymbar-4.0.3/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/ debian/rules clean dh clean --buildsystem pybuild debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/python-pymbar-4.0.3' dh_auto_clean I: pybuild base:311: python3.13 setup.py clean /usr/lib/python3/dist-packages/setuptools/dist.py:493: SetuptoolsDeprecationWarning: Invalid dash-separated options !! ******************************************************************************** Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead. This deprecation is overdue, please update your project and remove deprecated calls to avoid build errors in the future. See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. ******************************************************************************** !! opt = self.warn_dash_deprecation(opt, section) running clean removing '/build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build' (and everything under it) 'build/bdist.linux-aarch64' does not exist -- can't clean it 'build/scripts-3.13' does not exist -- can't clean it rm -rf pymbar.egg-info make[1]: Leaving directory '/build/reproducible-path/python-pymbar-4.0.3' 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: python3.13 setup.py config /usr/lib/python3/dist-packages/setuptools/dist.py:493: SetuptoolsDeprecationWarning: Invalid dash-separated options !! ******************************************************************************** Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead. This deprecation is overdue, please update your project and remove deprecated calls to avoid build errors in the future. See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. ******************************************************************************** !! opt = self.warn_dash_deprecation(opt, section) running config dh_auto_build -O--buildsystem=pybuild I: pybuild base:311: /usr/bin/python3 setup.py build /usr/lib/python3/dist-packages/setuptools/dist.py:493: SetuptoolsDeprecationWarning: Invalid dash-separated options !! ******************************************************************************** Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead. This deprecation is overdue, please update your project and remove deprecated calls to avoid build errors in the future. See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. ******************************************************************************** !! opt = self.warn_dash_deprecation(opt, section) running build running build_py creating /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar copying pymbar/utils_for_testing.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar copying pymbar/utils.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar copying pymbar/timeseries.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar copying pymbar/other_estimators.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar copying pymbar/mbar_solvers.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar copying pymbar/mbar.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar copying pymbar/fes.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar copying pymbar/confidenceintervals.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar copying pymbar/_version.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar copying pymbar/__init__.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar creating /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems copying pymbar/testsystems/timeseries.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems copying pymbar/testsystems/harmonic_oscillators.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems copying pymbar/testsystems/gaussian_work.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems copying pymbar/testsystems/exponential_distributions.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems copying pymbar/testsystems/__init__.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems creating /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests copying pymbar/tests/test_utils.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests copying pymbar/tests/test_timeseries.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests copying pymbar/tests/test_mbar_solvers.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests copying pymbar/tests/test_mbar.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests copying pymbar/tests/test_fes.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests copying pymbar/tests/test_exp.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests copying pymbar/tests/test_covariance.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests copying pymbar/tests/test_bar.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests copying pymbar/tests/__init__.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests UPDATING /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/_version.py set /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/_version.py to '4.0.3' dh_auto_test -O--buildsystem=pybuild I: pybuild base:311: cd /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build; python3.13 -m pytest ============================= test session starts ============================== platform linux -- Python 3.13.3, pytest-8.3.5, pluggy-1.5.0 rootdir: /build/reproducible-path/python-pymbar-4.0.3 configfile: setup.cfg plugins: typeguard-4.4.2 collected 150 items pymbar/tests/test_bar.py ..... [ 3%] pymbar/tests/test_exp.py .... [ 6%] pymbar/tests/test_fes.py ..xxsssssssss.....xxssssssss [ 24%] pymbar/tests/test_mbar.py ...x..........x...............x..........xxxx. [ 55%] ..x..................x [ 70%] pymbar/tests/test_mbar_solvers.py ................ [ 80%] pymbar/tests/test_timeseries.py ..ss.ss.. [ 86%] pymbar/tests/test_utils.py ....xx..xx..xx..xx.. [100%] =============================== warnings summary =============================== pymbar/tests/test_mbar_solvers.py:24 /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_mbar_solvers.py:24: PytestUnknownMarkWarning: Unknown pytest.mark.flaky - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html @pytest.mark.flaky(max_runs=2) # Uses flaky plugin for pytest pymbar/tests/test_mbar_solvers.py:67 /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_mbar_solvers.py:67: PytestUnknownMarkWarning: Unknown pytest.mark.flaky - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html pytest.param("TNC", marks=pytest.mark.flaky(max_runs=2)), # This one is flaky .pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_fes.py: 264 warnings /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/fes.py:2246: DeprecationWarning: Conversion of an array with ndim > 0 to a scalar is deprecated, and will error in future. Ensure you extract a single element from your array before performing this operation. (Deprecated NumPy 1.25.) g[i - 1] = N * np.dot(w_n, db_c[i](x_n)) .pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_fes.py::test_1d_fes_spline_bootstraped /usr/lib/python3/dist-packages/scipy/optimize/_optimize.py:2137: OptimizeWarning: Warning: Desired error not necessarily achieved due to precision loss. return terminate(2, msg) -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html ========== 108 passed, 21 skipped, 21 xfailed, 267 warnings in 29.13s ========== create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_auto_install --destdir=debian/python3-pymbar/ -O--buildsystem=pybuild I: pybuild base:311: /usr/bin/python3 setup.py install --root /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar /usr/lib/python3/dist-packages/setuptools/dist.py:493: SetuptoolsDeprecationWarning: Invalid dash-separated options !! ******************************************************************************** Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead. This deprecation is overdue, please update your project and remove deprecated calls to avoid build errors in the future. See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. ******************************************************************************** !! opt = self.warn_dash_deprecation(opt, section) running install /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:79: 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_py UPDATING /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/_version.py set /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/_version.py to '4.0.3' running install_lib creating /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages creating /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar creating /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/__pycache__/utils_for_testing.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/__pycache__/_version.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/__pycache__/fes.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/__pycache__/other_estimators.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/__pycache__/mbar_solvers.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/__pycache__/mbar.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/__pycache__/confidenceintervals.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/__pycache__/utils.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/__pycache__/timeseries.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/__pycache__/__init__.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__pycache__ creating /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests creating /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/__pycache__/test_utils.cpython-313-pytest-8.3.5.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/__pycache__/test_timeseries.cpython-313-pytest-8.3.5.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/__pycache__/test_mbar_solvers.cpython-313-pytest-8.3.5.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/__pycache__/test_mbar.cpython-313-pytest-8.3.5.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/__pycache__/test_fes.cpython-313-pytest-8.3.5.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/__pycache__/test_exp.cpython-313-pytest-8.3.5.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/__pycache__/test_covariance.cpython-313-pytest-8.3.5.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/__pycache__/test_bar.cpython-313-pytest-8.3.5.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/__pycache__/__init__.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/__init__.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_bar.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_covariance.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_exp.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_fes.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_mbar.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_mbar_solvers.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_timeseries.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_utils.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests creating /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems creating /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems/__pycache__/gaussian_work.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems/__pycache__/timeseries.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems/__pycache__/exponential_distributions.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems/__pycache__/harmonic_oscillators.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems/__pycache__/__init__.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems/__init__.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems/exponential_distributions.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems/gaussian_work.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems/harmonic_oscillators.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems/timeseries.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/__init__.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/_version.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/confidenceintervals.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/fes.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/mbar.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/mbar_solvers.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/other_estimators.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/timeseries.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/utils.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/utils_for_testing.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/__init__.py to __init__.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/test_bar.py to test_bar.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/test_covariance.py to test_covariance.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/test_exp.py to test_exp.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/test_fes.py to test_fes.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/test_mbar.py to test_mbar.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/test_mbar_solvers.py to test_mbar_solvers.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/test_timeseries.py to test_timeseries.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/test_utils.py to test_utils.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems/__init__.py to __init__.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems/exponential_distributions.py to exponential_distributions.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems/gaussian_work.py to gaussian_work.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems/harmonic_oscillators.py to harmonic_oscillators.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems/timeseries.py to timeseries.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__init__.py to __init__.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/_version.py to _version.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/confidenceintervals.py to confidenceintervals.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/fes.py to fes.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/mbar.py to mbar.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/mbar_solvers.py to mbar_solvers.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/other_estimators.py to other_estimators.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/timeseries.py to timeseries.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/utils.py to utils.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/utils_for_testing.py to utils_for_testing.cpython-313.pyc running install_egg_info running egg_info creating pymbar.egg-info writing pymbar.egg-info/PKG-INFO writing dependency_links to pymbar.egg-info/dependency_links.txt writing requirements to pymbar.egg-info/requires.txt writing top-level names to pymbar.egg-info/top_level.txt writing manifest file 'pymbar.egg-info/SOURCES.txt' reading manifest file 'pymbar.egg-info/SOURCES.txt' adding license file 'LICENSE' writing manifest file 'pymbar.egg-info/SOURCES.txt' Copying pymbar.egg-info to /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar-4.0.3.egg-info Skipping SOURCES.txt running install_scripts dh_installdocs -O--buildsystem=pybuild dh_installchangelogs -O--buildsystem=pybuild dh_python3 -O--buildsystem=pybuild dh_installsystemduser -O--buildsystem=pybuild dh_perl -O--buildsystem=pybuild dh_link -O--buildsystem=pybuild dh_strip_nondeterminism -O--buildsystem=pybuild dh_compress -O--buildsystem=pybuild dh_fixperms -O--buildsystem=pybuild dh_missing -O--buildsystem=pybuild dh_installdeb -O--buildsystem=pybuild dh_gencontrol -O--buildsystem=pybuild dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild dpkg-deb: building package 'python3-pymbar' in '../python3-pymbar_4.0.3-2_all.deb'. dpkg-genbuildinfo --build=binary -O../python-pymbar_4.0.3-2_arm64.buildinfo dpkg-genchanges --build=binary -O../python-pymbar_4.0.3-2_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-source: info: using options from python-pymbar-4.0.3/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/ 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/961214 and its subdirectories I: Current time: Wed May 27 23:05:23 -12 2026 I: pbuilder-time-stamp: 1779966323 Fri Apr 25 04:42:25 UTC 2025 I: 1st build successful. Starting 2nd build on remote node codethink04-arm64.debian.net. Fri Apr 25 04:42:25 UTC 2025 I: Preparing to do remote build '2' on codethink04-arm64.debian.net. Fri Apr 25 04:42:25 UTC 2025 - checking /var/lib/jenkins/offline_nodes if codethink04-arm64.debian.net is marked as down. Fri Apr 25 04:42:25 UTC 2025 - checking via ssh if codethink04-arm64.debian.net is up. removed '/tmp/read-only-fs-test-9dTB1e' ==================================================================================== Fri Apr 25 04:42:27 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on codethink04-arm64, called using "2 python-pymbar trixie /srv/reproducible-results/rbuild-debian/r-b-build.bmfBSyNg 4.0.3-2" as arguments. Fri Apr 25 04:42:27 UTC 2025 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-nZS6aD99" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Fri Apr 25 04:42:27 UTC 2025 I: Downloading source for trixie/python-pymbar=4.0.3-2 Reading package lists... NOTICE: 'python-pymbar' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/science-team/python-pymbar.git Please use: git clone https://salsa.debian.org/science-team/python-pymbar.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 17.2 MB of source archives. Get:1 http://deb.debian.org/debian trixie/main python-pymbar 4.0.3-2 (dsc) [2234 B] Get:2 http://deb.debian.org/debian trixie/main python-pymbar 4.0.3-2 (tar) [17.2 MB] Get:3 http://deb.debian.org/debian trixie/main python-pymbar 4.0.3-2 (diff) [3444 B] Fetched 17.2 MB in 0s (123 MB/s) Download complete and in download only mode Reading package lists... NOTICE: 'python-pymbar' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/science-team/python-pymbar.git Please use: git clone https://salsa.debian.org/science-team/python-pymbar.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 17.2 MB of source archives. Get:1 http://deb.debian.org/debian trixie/main python-pymbar 4.0.3-2 (dsc) [2234 B] Get:2 http://deb.debian.org/debian trixie/main python-pymbar 4.0.3-2 (tar) [17.2 MB] Get:3 http://deb.debian.org/debian trixie/main python-pymbar 4.0.3-2 (diff) [3444 B] Fetched 17.2 MB in 0s (123 MB/s) Download complete and in download only mode ============================================================================= Re-Building python-pymbar in trixie on arm64 on codethink04-arm64 now. Date: Fri Apr 25 05:42:27 BST 2025 Date UTC: Fri Apr 25 04:42:27 UTC 2025 ============================================================================= ++ mktemp -t pbuilderrc_XXXX --tmpdir=/srv/reproducible-results/rbuild-debian/r-b-build.bmfBSyNg + local TMPCFG=/srv/reproducible-results/rbuild-debian/r-b-build.bmfBSyNg/pbuilderrc_1kwA + case ${ARCH} in + case $ARCH in + locale=nl_BE + language=nl + case "${SUITE}" in + reproducible_buildflags=+all + extra_deb_build_options= + case "${SRCPACKAGE}" in + cat + echo BUILDDIR=/build/reproducible-path + '[' python-pymbar = debian-installer -o python-pymbar = debian-installer-netboot-images ']' + pbuilder_options=() + local pbuilder_options + DEBBUILDOPTS=-b + BINARYTARGET= + '[' python-pymbar = u-boot ']' + case "${SRCPACKAGE}" in + PBUILDERTIMEOUT=24 + local PRESULT=0 + sudo timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.bmfBSyNg/pbuilderrc_1kwA --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.bmfBSyNg/b2 --logfile b2/build.log python-pymbar_4.0.3-2.dsc W: /root/.pbuilderrc does not exist I: Logging to b2/build.log I: pbuilder: network access will be disabled during build I: Current time: Fri Apr 25 18:42:28 +14 2025 I: pbuilder-time-stamp: 1745556148 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 [python-pymbar_4.0.3-2.dsc] I: copying [./python-pymbar_4.0.3.orig.tar.gz] I: copying [./python-pymbar_4.0.3-2.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./python-pymbar_4.0.3-2.dsc: unsupported subcommand dpkg-source: info: extracting python-pymbar in python-pymbar-4.0.3 dpkg-source: info: unpacking python-pymbar_4.0.3.orig.tar.gz dpkg-source: info: unpacking python-pymbar_4.0.3-2.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/404979/tmp/hooks/D01_modify_environment starting debug: Running on codethink04-arm64. I: Changing host+domainname to test build reproducibility I: Adding a custom variable just for the fun of it... I: Changing /bin/sh to bash '/bin/sh' -> '/bin/bash' lrwxrwxrwx 1 root root 9 Apr 25 04:42 /bin/sh -> /bin/bash I: Setting pbuilder2's login shell to /bin/bash I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other I: user script /srv/workspace/pbuilder/404979/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/404979/tmp/hooks/D02_print_environment starting I: set BASH=/bin/sh BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath BASH_ALIASES=() BASH_ARGC=() BASH_ARGV=() BASH_CMDS=() BASH_LINENO=([0]="12" [1]="0") BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") BASH_VERSINFO=([0]="5" [1]="2" [2]="37" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") BASH_VERSION='5.2.37(1)-release' BUILDDIR=/build/reproducible-path BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=arm64 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DIRSTACK=() DISTRIBUTION=trixie EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=aarch64 HOST_ARCH=arm64 IFS=' ' INVOCATION_ID=4f8b45a1ef2841b697977e74a2373162 LANG=C LANGUAGE=nl_BE:nl LC_ALL=C MACHTYPE=aarch64-unknown-linux-gnu MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnu PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path PBCURRENTCOMMANDLINEOPERATION=build PBUILDER_OPERATION=build PBUILDER_PKGDATADIR=/usr/share/pbuilder PBUILDER_PKGLIBDIR=/usr/lib/pbuilder PBUILDER_SYSCONFDIR=/etc PIPESTATUS=([0]="0") POSIXLY_CORRECT=y PPID=404979 PS4='+ ' PWD=/ SHELL=/bin/bash SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix SHLVL=3 SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.bmfBSyNg/pbuilderrc_1kwA --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.bmfBSyNg/b2 --logfile b2/build.log python-pymbar_4.0.3-2.dsc' SUDO_GID=109 SUDO_UID=104 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://192.168.101.4:3128 I: uname -a Linux i-capture-the-hostname 6.1.0-33-cloud-arm64 #1 SMP Debian 6.1.133-1 (2025-04-10) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Mar 4 11:20 /bin -> usr/bin I: user script /srv/workspace/pbuilder/404979/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), dh-sequence-python3, python3-all, python3-numexpr, python3-numpy, python3-pytest, python3-scipy, python3-setuptools dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19954 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-all; however: Package python3-all is not installed. pbuilder-satisfydepends-dummy depends on python3-numexpr; however: Package python3-numexpr is not installed. pbuilder-satisfydepends-dummy depends on python3-numpy; however: Package python3-numpy is not installed. pbuilder-satisfydepends-dummy depends on python3-pytest; however: Package python3-pytest is not installed. pbuilder-satisfydepends-dummy depends on python3-scipy; however: Package python3-scipy is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools 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} libarchive-zip-perl{a} libblas3{a} libdebhelper-perl{a} libelf1t64{a} libexpat1{a} libffi8{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} liblapack3{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libpython3-stdlib{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libreadline8t64{a} libtool{a} libuchardet0{a} libunistring5{a} libxml2{a} m4{a} man-db{a} media-types{a} netbase{a} po-debconf{a} python3{a} python3-all{a} python3-autocommand{a} python3-decorator{a} python3-inflect{a} python3-iniconfig{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-minimal{a} python3-more-itertools{a} python3-numexpr{a} python3-numpy{a} python3-numpy-dev{a} python3-packaging{a} python3-pkg-resources{a} python3-pluggy{a} python3-pytest{a} python3-scipy{a} python3-setuptools{a} python3-typeguard{a} python3-typing-extensions{a} python3-zipp{a} python3.13{a} python3.13-minimal{a} readline-common{a} sensible-utils{a} tzdata{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx python3-pil python3-pooch python3-pygments python3-yaml wget 0 packages upgraded, 68 newly installed, 0 to remove and 0 not upgraded. Need to get 39.8 MB of archives. After unpacking 183 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main arm64 libpython3.13-minimal arm64 3.13.3-2 [855 kB] Get: 2 http://deb.debian.org/debian trixie/main arm64 libexpat1 arm64 2.7.1-1 [93.3 kB] Get: 3 http://deb.debian.org/debian trixie/main arm64 python3.13-minimal arm64 3.13.3-2 [1998 kB] Get: 4 http://deb.debian.org/debian trixie/main arm64 python3-minimal arm64 3.13.2-2 [27.1 kB] Get: 5 http://deb.debian.org/debian trixie/main arm64 media-types all 13.0.0 [29.3 kB] Get: 6 http://deb.debian.org/debian trixie/main arm64 netbase all 6.5 [12.4 kB] Get: 7 http://deb.debian.org/debian trixie/main arm64 tzdata all 2025b-2 [260 kB] Get: 8 http://deb.debian.org/debian trixie/main arm64 libffi8 arm64 3.4.7-1 [21.2 kB] Get: 9 http://deb.debian.org/debian trixie/main arm64 readline-common all 8.2-6 [69.4 kB] Get: 10 http://deb.debian.org/debian trixie/main arm64 libreadline8t64 arm64 8.2-6 [159 kB] Get: 11 http://deb.debian.org/debian trixie/main arm64 libpython3.13-stdlib arm64 3.13.3-2 [1890 kB] Get: 12 http://deb.debian.org/debian trixie/main arm64 python3.13 arm64 3.13.3-2 [751 kB] Get: 13 http://deb.debian.org/debian trixie/main arm64 libpython3-stdlib arm64 3.13.2-2 [10.1 kB] Get: 14 http://deb.debian.org/debian trixie/main arm64 python3 arm64 3.13.2-2 [28.1 kB] Get: 15 http://deb.debian.org/debian trixie/main arm64 python3-numpy-dev arm64 1:2.2.4+ds-1 [136 kB] Get: 16 http://deb.debian.org/debian trixie/main arm64 libblas3 arm64 3.12.1-2 [104 kB] Get: 17 http://deb.debian.org/debian trixie/main arm64 libgfortran5 arm64 14.2.0-19 [361 kB] Get: 18 http://deb.debian.org/debian trixie/main arm64 liblapack3 arm64 3.12.1-2 [1819 kB] Get: 19 http://deb.debian.org/debian trixie/main arm64 python3-numpy arm64 1:2.2.4+ds-1 [3604 kB] Get: 20 http://deb.debian.org/debian trixie/main arm64 sensible-utils all 0.0.24 [24.8 kB] Get: 21 http://deb.debian.org/debian trixie/main arm64 libmagic-mgc arm64 1:5.46-5 [338 kB] Get: 22 http://deb.debian.org/debian trixie/main arm64 libmagic1t64 arm64 1:5.46-5 [103 kB] Get: 23 http://deb.debian.org/debian trixie/main arm64 file arm64 1:5.46-5 [43.7 kB] Get: 24 http://deb.debian.org/debian trixie/main arm64 gettext-base arm64 0.23.1-1 [241 kB] Get: 25 http://deb.debian.org/debian trixie/main arm64 libuchardet0 arm64 0.0.8-1+b2 [69.2 kB] Get: 26 http://deb.debian.org/debian trixie/main arm64 groff-base arm64 1.23.0-7 [1129 kB] Get: 27 http://deb.debian.org/debian trixie/main arm64 bsdextrautils arm64 2.41-4 [93.9 kB] Get: 28 http://deb.debian.org/debian trixie/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 29 http://deb.debian.org/debian trixie/main arm64 man-db arm64 2.13.0-1 [1404 kB] Get: 30 http://deb.debian.org/debian trixie/main arm64 m4 arm64 1.4.19-7 [285 kB] Get: 31 http://deb.debian.org/debian trixie/main arm64 autoconf all 2.72-3.1 [494 kB] Get: 32 http://deb.debian.org/debian trixie/main arm64 autotools-dev all 20240727.1 [60.2 kB] Get: 33 http://deb.debian.org/debian trixie/main arm64 automake all 1:1.17-4 [862 kB] Get: 34 http://deb.debian.org/debian trixie/main arm64 autopoint all 0.23.1-1 [770 kB] Get: 35 http://deb.debian.org/debian trixie/main arm64 libdebhelper-perl all 13.24.2 [90.9 kB] Get: 36 http://deb.debian.org/debian trixie/main arm64 libtool all 2.5.4-4 [539 kB] Get: 37 http://deb.debian.org/debian trixie/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 38 http://deb.debian.org/debian trixie/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 39 http://deb.debian.org/debian trixie/main arm64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 40 http://deb.debian.org/debian trixie/main arm64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 41 http://deb.debian.org/debian trixie/main arm64 libelf1t64 arm64 0.192-4 [189 kB] Get: 42 http://deb.debian.org/debian trixie/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 43 http://deb.debian.org/debian trixie/main arm64 libunistring5 arm64 1.3-2 [453 kB] Get: 44 http://deb.debian.org/debian trixie/main arm64 libxml2 arm64 2.12.7+dfsg+really2.9.14-0.4 [629 kB] Get: 45 http://deb.debian.org/debian trixie/main arm64 gettext arm64 0.23.1-1 [1610 kB] Get: 46 http://deb.debian.org/debian trixie/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 47 http://deb.debian.org/debian trixie/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 48 http://deb.debian.org/debian trixie/main arm64 debhelper all 13.24.2 [919 kB] Get: 49 http://deb.debian.org/debian trixie/main arm64 dh-python all 6.20250414 [116 kB] Get: 50 http://deb.debian.org/debian trixie/main arm64 python3-all arm64 3.13.2-2 [1044 B] Get: 51 http://deb.debian.org/debian trixie/main arm64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 52 http://deb.debian.org/debian trixie/main arm64 python3-decorator all 5.1.1-5 [15.1 kB] Get: 53 http://deb.debian.org/debian trixie/main arm64 python3-more-itertools all 10.6.0-1 [65.3 kB] Get: 54 http://deb.debian.org/debian trixie/main arm64 python3-typing-extensions all 4.13.2-1 [90.5 kB] Get: 55 http://deb.debian.org/debian trixie/main arm64 python3-typeguard all 4.4.2-1 [37.3 kB] Get: 56 http://deb.debian.org/debian trixie/main arm64 python3-inflect all 7.3.1-2 [32.4 kB] Get: 57 http://deb.debian.org/debian trixie/main arm64 python3-iniconfig all 1.1.1-2 [6396 B] Get: 58 http://deb.debian.org/debian trixie/main arm64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 59 http://deb.debian.org/debian trixie/main arm64 python3-pkg-resources all 75.8.0-1 [222 kB] Get: 60 http://deb.debian.org/debian trixie/main arm64 python3-jaraco.text all 4.0.0-1 [11.4 kB] Get: 61 http://deb.debian.org/debian trixie/main arm64 python3-zipp all 3.21.0-1 [10.6 kB] Get: 62 http://deb.debian.org/debian trixie/main arm64 python3-setuptools all 75.8.0-1 [724 kB] Get: 63 http://deb.debian.org/debian trixie/main arm64 python3-jaraco.context all 6.0.1-1 [8276 B] Get: 64 http://deb.debian.org/debian trixie/main arm64 python3-packaging all 24.2-3 [55.7 kB] Get: 65 http://deb.debian.org/debian trixie/main arm64 python3-numexpr arm64 2.10.2-1+b2 [124 kB] Get: 66 http://deb.debian.org/debian trixie/main arm64 python3-pluggy all 1.5.0-1 [26.9 kB] Get: 67 http://deb.debian.org/debian trixie/main arm64 python3-pytest all 8.3.5-2 [250 kB] Get: 68 http://deb.debian.org/debian trixie/main arm64 python3-scipy arm64 1.15.2-7 [14.8 MB] Fetched 39.8 MB in 0s (142 MB/s) Preconfiguring packages ... Selecting previously unselected package libpython3.13-minimal:arm64. (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 ... 19954 files and directories currently installed.) Preparing to unpack .../libpython3.13-minimal_3.13.3-2_arm64.deb ... Unpacking libpython3.13-minimal:arm64 (3.13.3-2) ... Selecting previously unselected package libexpat1:arm64. Preparing to unpack .../libexpat1_2.7.1-1_arm64.deb ... Unpacking libexpat1:arm64 (2.7.1-1) ... Selecting previously unselected package python3.13-minimal. Preparing to unpack .../python3.13-minimal_3.13.3-2_arm64.deb ... Unpacking python3.13-minimal (3.13.3-2) ... Setting up libpython3.13-minimal:arm64 (3.13.3-2) ... Setting up libexpat1:arm64 (2.7.1-1) ... Setting up python3.13-minimal (3.13.3-2) ... 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 ... 20288 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.13.2-2_arm64.deb ... Unpacking python3-minimal (3.13.2-2) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_13.0.0_all.deb ... Unpacking media-types (13.0.0) ... Selecting previously unselected package netbase. Preparing to unpack .../2-netbase_6.5_all.deb ... Unpacking netbase (6.5) ... Selecting previously unselected package tzdata. Preparing to unpack .../3-tzdata_2025b-2_all.deb ... Unpacking tzdata (2025b-2) ... Selecting previously unselected package libffi8:arm64. Preparing to unpack .../4-libffi8_3.4.7-1_arm64.deb ... Unpacking libffi8:arm64 (3.4.7-1) ... Selecting previously unselected package readline-common. Preparing to unpack .../5-readline-common_8.2-6_all.deb ... Unpacking readline-common (8.2-6) ... Selecting previously unselected package libreadline8t64:arm64. Preparing to unpack .../6-libreadline8t64_8.2-6_arm64.deb ... Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8 to /lib/aarch64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8.2 to /lib/aarch64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8 to /lib/aarch64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8.2 to /lib/aarch64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:arm64 (8.2-6) ... Selecting previously unselected package libpython3.13-stdlib:arm64. Preparing to unpack .../7-libpython3.13-stdlib_3.13.3-2_arm64.deb ... Unpacking libpython3.13-stdlib:arm64 (3.13.3-2) ... Selecting previously unselected package python3.13. Preparing to unpack .../8-python3.13_3.13.3-2_arm64.deb ... Unpacking python3.13 (3.13.3-2) ... Selecting previously unselected package libpython3-stdlib:arm64. Preparing to unpack .../9-libpython3-stdlib_3.13.2-2_arm64.deb ... Unpacking libpython3-stdlib:arm64 (3.13.2-2) ... Setting up python3-minimal (3.13.2-2) ... 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 ... 21300 files and directories currently installed.) Preparing to unpack .../00-python3_3.13.2-2_arm64.deb ... Unpacking python3 (3.13.2-2) ... 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Setting up libpipeline1:arm64 (1.5.8-1) ... Setting up bsdextrautils (2.41-4) ... Setting up libmagic-mgc (1:5.46-5) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.24.2) ... Setting up libmagic1t64:arm64 (1:5.46-5) ... Setting up gettext-base (0.23.1-1) ... Setting up m4 (1.4.19-7) ... Setting up file (1:5.46-5) ... Setting up libelf1t64:arm64 (0.192-4) ... Setting up tzdata (2025b-2) ... Current default time zone: 'Etc/UTC' Local time is now: Fri Apr 25 04:42:48 UTC 2025. Universal Time is now: Fri Apr 25 04:42:48 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20240727.1) ... Setting up libblas3:arm64 (3.12.1-2) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/aarch64-linux-gnu/libblas.so.3 (libblas.so.3-aarch64-linux-gnu) in auto mode Setting up libunistring5:arm64 (1.3-2) ... Setting up python3-numpy-dev:arm64 (1:2.2.4+ds-1) ... Setting up autopoint (0.23.1-1) ... Setting up libgfortran5:arm64 (14.2.0-19) ... Setting up autoconf (2.72-3.1) ... Setting up libffi8:arm64 (3.4.7-1) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... Setting up libuchardet0:arm64 (0.0.8-1+b2) ... Setting up netbase (6.5) ... Setting up readline-common (8.2-6) ... Setting up libxml2:arm64 (2.12.7+dfsg+really2.9.14-0.4) ... Setting up automake (1:1.17-4) ... update-alternatives: using /usr/bin/automake-1.17 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.1-2) ... Setting up liblapack3:arm64 (3.12.1-2) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode Setting up gettext (0.23.1-1) ... Setting up libtool (2.5.4-4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... 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Setting up python3-jaraco.context (6.0.1-1) ... Setting up python3-pytest (8.3.5-2) ... Setting up python3-typeguard (4.4.2-1) ... Setting up python3-all (3.13.2-2) ... Setting up debhelper (13.24.2) ... Setting up python3-inflect (7.3.1-2) ... Setting up python3-jaraco.text (4.0.0-1) ... Setting up python3-numexpr (2.10.2-1+b2) ... Setting up python3-pkg-resources (75.8.0-1) ... Setting up python3-setuptools (75.8.0-1) ... Processing triggers for libc-bin (2.41-7) ... 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: user script /srv/workspace/pbuilder/404979/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for trixie I: user script /srv/workspace/pbuilder/404979/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/python-pymbar-4.0.3/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../python-pymbar_4.0.3-2_source.changes dpkg-buildpackage: info: source package python-pymbar dpkg-buildpackage: info: source version 4.0.3-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Alexandre Detiste dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 dpkg-source: info: using options from python-pymbar-4.0.3/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/ debian/rules clean dh clean --buildsystem pybuild debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/python-pymbar-4.0.3' dh_auto_clean I: pybuild base:311: python3.13 setup.py clean /usr/lib/python3/dist-packages/setuptools/dist.py:493: SetuptoolsDeprecationWarning: Invalid dash-separated options !! ******************************************************************************** Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead. This deprecation is overdue, please update your project and remove deprecated calls to avoid build errors in the future. See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. ******************************************************************************** !! opt = self.warn_dash_deprecation(opt, section) running clean removing '/build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build' (and everything under it) 'build/bdist.linux-aarch64' does not exist -- can't clean it 'build/scripts-3.13' does not exist -- can't clean it rm -rf pymbar.egg-info make[1]: Leaving directory '/build/reproducible-path/python-pymbar-4.0.3' 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: python3.13 setup.py config /usr/lib/python3/dist-packages/setuptools/dist.py:493: SetuptoolsDeprecationWarning: Invalid dash-separated options !! ******************************************************************************** Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead. This deprecation is overdue, please update your project and remove deprecated calls to avoid build errors in the future. See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. ******************************************************************************** !! opt = self.warn_dash_deprecation(opt, section) running config dh_auto_build -O--buildsystem=pybuild I: pybuild base:311: /usr/bin/python3 setup.py build /usr/lib/python3/dist-packages/setuptools/dist.py:493: SetuptoolsDeprecationWarning: Invalid dash-separated options !! ******************************************************************************** Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead. This deprecation is overdue, please update your project and remove deprecated calls to avoid build errors in the future. See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. ******************************************************************************** !! opt = self.warn_dash_deprecation(opt, section) running build running build_py creating /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar copying pymbar/utils_for_testing.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar copying pymbar/utils.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar copying pymbar/timeseries.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar copying pymbar/other_estimators.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar copying pymbar/mbar_solvers.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar copying pymbar/mbar.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar copying pymbar/fes.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar copying pymbar/confidenceintervals.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar copying pymbar/_version.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar copying pymbar/__init__.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar creating /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems copying pymbar/testsystems/timeseries.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems copying pymbar/testsystems/harmonic_oscillators.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems copying pymbar/testsystems/gaussian_work.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems copying pymbar/testsystems/exponential_distributions.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems copying pymbar/testsystems/__init__.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems creating /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests copying pymbar/tests/test_utils.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests copying pymbar/tests/test_timeseries.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests copying pymbar/tests/test_mbar_solvers.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests copying pymbar/tests/test_mbar.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests copying pymbar/tests/test_fes.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests copying pymbar/tests/test_exp.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests copying pymbar/tests/test_covariance.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests copying pymbar/tests/test_bar.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests copying pymbar/tests/__init__.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests UPDATING /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/_version.py set /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/_version.py to '4.0.3' dh_auto_test -O--buildsystem=pybuild I: pybuild base:311: cd /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build; python3.13 -m pytest ============================= test session starts ============================== platform linux -- Python 3.13.3, pytest-8.3.5, pluggy-1.5.0 rootdir: /build/reproducible-path/python-pymbar-4.0.3 configfile: setup.cfg plugins: typeguard-4.4.2 collected 150 items pymbar/tests/test_bar.py ..... [ 3%] pymbar/tests/test_exp.py .... [ 6%] pymbar/tests/test_fes.py ..xxsssssssss.....xxssssssss [ 24%] pymbar/tests/test_mbar.py ...x..........x...............x..........xxxx. [ 55%] ..x..................x [ 70%] pymbar/tests/test_mbar_solvers.py ................ [ 80%] pymbar/tests/test_timeseries.py ..ss.ss.. [ 86%] pymbar/tests/test_utils.py ....xx..xx..xx..xx.. [100%] =============================== warnings summary =============================== pymbar/tests/test_mbar_solvers.py:24 /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_mbar_solvers.py:24: PytestUnknownMarkWarning: Unknown pytest.mark.flaky - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html @pytest.mark.flaky(max_runs=2) # Uses flaky plugin for pytest pymbar/tests/test_mbar_solvers.py:67 /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_mbar_solvers.py:67: PytestUnknownMarkWarning: Unknown pytest.mark.flaky - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html pytest.param("TNC", marks=pytest.mark.flaky(max_runs=2)), # This one is flaky .pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_fes.py: 174 warnings /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/fes.py:2246: DeprecationWarning: Conversion of an array with ndim > 0 to a scalar is deprecated, and will error in future. Ensure you extract a single element from your array before performing this operation. (Deprecated NumPy 1.25.) g[i - 1] = N * np.dot(w_n, db_c[i](x_n)) .pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_mbar_solvers.py::test_protocols[trust-krylov] /usr/lib/python3/dist-packages/scipy/optimize/_trustregion.py:225: RuntimeWarning: invalid value encountered in multiply -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html ==== 108 passed, 21 skipped, 21 xfailed, 177 warnings in 159.15s (0:02:39) ===== create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_auto_install --destdir=debian/python3-pymbar/ -O--buildsystem=pybuild I: pybuild base:311: /usr/bin/python3 setup.py install --root /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar /usr/lib/python3/dist-packages/setuptools/dist.py:493: SetuptoolsDeprecationWarning: Invalid dash-separated options !! ******************************************************************************** Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead. This deprecation is overdue, please update your project and remove deprecated calls to avoid build errors in the future. See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. ******************************************************************************** !! opt = self.warn_dash_deprecation(opt, section) running install /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:79: 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_py UPDATING /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/_version.py set /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/_version.py to '4.0.3' running install_lib creating /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages creating /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar creating /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/__pycache__/utils_for_testing.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/__pycache__/_version.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/__pycache__/fes.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/__pycache__/other_estimators.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/__pycache__/mbar_solvers.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/__pycache__/mbar.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/__pycache__/confidenceintervals.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/__pycache__/utils.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/__pycache__/timeseries.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/__pycache__/__init__.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__pycache__ creating /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests creating /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/__pycache__/test_utils.cpython-313-pytest-8.3.5.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/__pycache__/test_timeseries.cpython-313-pytest-8.3.5.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/__pycache__/test_mbar_solvers.cpython-313-pytest-8.3.5.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/__pycache__/test_mbar.cpython-313-pytest-8.3.5.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/__pycache__/test_fes.cpython-313-pytest-8.3.5.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/__pycache__/test_exp.cpython-313-pytest-8.3.5.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/__pycache__/test_covariance.cpython-313-pytest-8.3.5.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/__pycache__/test_bar.cpython-313-pytest-8.3.5.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/__pycache__/__init__.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/__init__.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_bar.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_covariance.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_exp.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_fes.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_mbar.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_mbar_solvers.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_timeseries.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_utils.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests creating /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems creating /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems/__pycache__/gaussian_work.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems/__pycache__/timeseries.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems/__pycache__/exponential_distributions.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems/__pycache__/harmonic_oscillators.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems/__pycache__/__init__.cpython-313.pyc -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems/__pycache__ copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems/__init__.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems/exponential_distributions.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems/gaussian_work.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems/harmonic_oscillators.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems/timeseries.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/__init__.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/_version.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/confidenceintervals.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/fes.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/mbar.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/mbar_solvers.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/other_estimators.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/timeseries.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/utils.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar copying /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/utils_for_testing.py -> /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/__init__.py to __init__.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/test_bar.py to test_bar.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/test_covariance.py to test_covariance.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/test_exp.py to test_exp.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/test_fes.py to test_fes.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/test_mbar.py to test_mbar.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/test_mbar_solvers.py to test_mbar_solvers.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/test_timeseries.py to test_timeseries.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/tests/test_utils.py to test_utils.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems/__init__.py to __init__.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems/exponential_distributions.py to exponential_distributions.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems/gaussian_work.py to gaussian_work.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems/harmonic_oscillators.py to harmonic_oscillators.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/testsystems/timeseries.py to timeseries.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/__init__.py to __init__.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/_version.py to _version.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/confidenceintervals.py to confidenceintervals.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/fes.py to fes.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/mbar.py to mbar.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/mbar_solvers.py to mbar_solvers.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/other_estimators.py to other_estimators.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/timeseries.py to timeseries.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/utils.py to utils.cpython-313.pyc byte-compiling /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar/utils_for_testing.py to utils_for_testing.cpython-313.pyc running install_egg_info running egg_info creating pymbar.egg-info writing pymbar.egg-info/PKG-INFO writing dependency_links to pymbar.egg-info/dependency_links.txt writing requirements to pymbar.egg-info/requires.txt writing top-level names to pymbar.egg-info/top_level.txt writing manifest file 'pymbar.egg-info/SOURCES.txt' reading manifest file 'pymbar.egg-info/SOURCES.txt' adding license file 'LICENSE' writing manifest file 'pymbar.egg-info/SOURCES.txt' Copying pymbar.egg-info to /build/reproducible-path/python-pymbar-4.0.3/debian/python3-pymbar/usr/lib/python3.13/dist-packages/pymbar-4.0.3.egg-info Skipping SOURCES.txt running install_scripts dh_installdocs -O--buildsystem=pybuild dh_installchangelogs -O--buildsystem=pybuild dh_python3 -O--buildsystem=pybuild dh_installsystemduser -O--buildsystem=pybuild dh_perl -O--buildsystem=pybuild dh_link -O--buildsystem=pybuild dh_strip_nondeterminism -O--buildsystem=pybuild dh_compress -O--buildsystem=pybuild dh_fixperms -O--buildsystem=pybuild dh_missing -O--buildsystem=pybuild dh_installdeb -O--buildsystem=pybuild dh_gencontrol -O--buildsystem=pybuild dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild dpkg-deb: building package 'python3-pymbar' in '../python3-pymbar_4.0.3-2_all.deb'. dpkg-genbuildinfo --build=binary -O../python-pymbar_4.0.3-2_arm64.buildinfo dpkg-genchanges --build=binary -O../python-pymbar_4.0.3-2_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-source: info: using options from python-pymbar-4.0.3/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: user script /srv/workspace/pbuilder/404979/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/404979/tmp/hooks/B01_cleanup finished 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/404979 and its subdirectories I: Current time: Fri Apr 25 18:45:55 +14 2025 I: pbuilder-time-stamp: 1745556355 + false + set +x Fri Apr 25 04:45:55 UTC 2025 I: Signing ./b2/python-pymbar_4.0.3-2_arm64.buildinfo as python-pymbar_4.0.3-2_arm64.buildinfo.asc Fri Apr 25 04:45:55 UTC 2025 I: Signed ./b2/python-pymbar_4.0.3-2_arm64.buildinfo as ./b2/python-pymbar_4.0.3-2_arm64.buildinfo.asc Fri Apr 25 04:45:55 UTC 2025 - build #2 for python-pymbar/trixie/arm64 on codethink04-arm64 done. Starting cleanup. All cleanup done. Fri Apr 25 04:45:55 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-nZS6aD99, removing. /srv/reproducible-results/rbuild-debian/r-b-build.bmfBSyNg: total 84 drwxr-xr-x 2 jenkins jenkins 4096 Apr 25 04:42 b1 drwxr-xr-x 2 jenkins jenkins 4096 Apr 25 04:45 b2 -rw-r--r-- 1 jenkins jenkins 2234 Jun 29 2024 python-pymbar_4.0.3-2.dsc -rw------- 1 jenkins jenkins 66386 Apr 25 04:42 rbuildlog.DANI8zN /srv/reproducible-results/rbuild-debian/r-b-build.bmfBSyNg/b1: total 184 -rw-r--r-- 1 jenkins jenkins 62704 Apr 25 04:42 build.log -rw-r--r-- 1 jenkins jenkins 3444 Apr 25 04:42 python-pymbar_4.0.3-2.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2234 Apr 25 04:42 python-pymbar_4.0.3-2.dsc -rw-r--r-- 1 jenkins jenkins 5808 Apr 25 04:42 python-pymbar_4.0.3-2_arm64.buildinfo -rw-r--r-- 1 jenkins jenkins 6690 Apr 25 04:42 python-pymbar_4.0.3-2_arm64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1121 Apr 25 04:42 python-pymbar_4.0.3-2_arm64.changes -rw-r--r-- 1 jenkins jenkins 1269 Apr 25 04:42 python-pymbar_4.0.3-2_source.changes -rw-r--r-- 1 jenkins jenkins 79544 Apr 25 04:42 python3-pymbar_4.0.3-2_all.deb /srv/reproducible-results/rbuild-debian/r-b-build.bmfBSyNg/b2: total 176 -rw-r--r-- 1 jenkins jenkins 64587 Apr 25 04:45 build.log -rw-r--r-- 1 jenkins jenkins 3444 Apr 25 04:45 python-pymbar_4.0.3-2.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2234 Apr 25 04:45 python-pymbar_4.0.3-2.dsc -rw-r--r-- 1 jenkins jenkins 5808 Apr 25 04:45 python-pymbar_4.0.3-2_arm64.buildinfo -rw-r--r-- 1 jenkins jenkins 6690 Apr 25 04:45 python-pymbar_4.0.3-2_arm64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1121 Apr 25 04:45 python-pymbar_4.0.3-2_arm64.changes -rw-r--r-- 1 jenkins jenkins 1269 Apr 25 04:45 python-pymbar_4.0.3-2_source.changes -rw-r--r-- 1 jenkins jenkins 79544 Apr 25 04:45 python3-pymbar_4.0.3-2_all.deb Fri Apr 25 04:45:56 UTC 2025 I: Deleting $TMPDIR on codethink04-arm64.debian.net. Fri Apr 25 04:45:56 UTC 2025 I: python-pymbar_4.0.3-2_arm64.changes: Format: 1.8 Date: Sat, 29 Jun 2024 19:19:06 +0200 Source: python-pymbar Binary: python3-pymbar Architecture: all Version: 4.0.3-2 Distribution: unstable Urgency: medium Maintainer: Debian Science Maintainers Changed-By: Alexandre Detiste Description: python3-pymbar - Python implementation of the multistate Bennett acceptance ratio Changes: python-pymbar (4.0.3-2) unstable; urgency=medium . * Team upload. * Simplify build to avoid FTBFS. Checksums-Sha1: e52dcd448089b6b2686077d8a96b4b0330c2fb2b 5808 python-pymbar_4.0.3-2_arm64.buildinfo dbffe75c423cd38ca5cf8c6aee29158358edd49b 79544 python3-pymbar_4.0.3-2_all.deb Checksums-Sha256: 34d9eb7acbcb355a8f594bdfbf06cccb6d0fd15620a58117393a1d37e9c7e80d 5808 python-pymbar_4.0.3-2_arm64.buildinfo c42a64aa951f8992bc1ed57e73ecfbc8a4e3a4b6a16912a9c69ae1414b0bc44f 79544 python3-pymbar_4.0.3-2_all.deb Files: 348d0f22ebba527160ed39abecc1e906 5808 science optional python-pymbar_4.0.3-2_arm64.buildinfo d258e383bf693831240b878ecc55b8b5 79544 science optional python3-pymbar_4.0.3-2_all.deb removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/trixie/arm64/python-pymbar_4.0.3-2.rbuild.log' removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/trixie/arm64/python-pymbar_4.0.3-2.rbuild.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/trixie/arm64/python-pymbar_4.0.3-2.build1.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/trixie/arm64/python-pymbar_4.0.3-2.build2.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/buildinfo/trixie/arm64/python-pymbar_4.0.3-2_arm64.buildinfo' removed '/var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/arm64/python-pymbar_4.0.3-2.diff.gz' Diff of the two buildlogs: -- --- b1/build.log 2025-04-25 04:42:25.002727118 +0000 +++ b2/build.log 2025-04-25 04:45:56.138232658 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Wed May 27 23:04:11 -12 2026 -I: pbuilder-time-stamp: 1779966251 +I: Current time: Fri Apr 25 18:42:28 +14 2025 +I: pbuilder-time-stamp: 1745556148 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration @@ -22,52 +22,84 @@ dpkg-source: info: unpacking python-pymbar_4.0.3-2.debian.tar.xz I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/961214/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/404979/tmp/hooks/D01_modify_environment starting +debug: Running on codethink04-arm64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Apr 25 04:42 /bin/sh -> /bin/bash +I: Setting pbuilder2's login shell to /bin/bash +I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other +I: user script /srv/workspace/pbuilder/404979/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/404979/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='arm64' - DEBIAN_FRONTEND='noninteractive' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="37" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") + BASH_VERSION='5.2.37(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=arm64 + DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' - DISTRIBUTION='trixie' - HOME='/root' - HOST_ARCH='arm64' + DIRSTACK=() + DISTRIBUTION=trixie + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=aarch64 + HOST_ARCH=arm64 IFS=' ' - INVOCATION_ID='a42affb7e8704916897df6c9ab3e44e8' - 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='961214' - PS1='# ' - PS2='> ' + INVOCATION_ID=4f8b45a1ef2841b697977e74a2373162 + LANG=C + LANGUAGE=nl_BE:nl + LC_ALL=C + MACHTYPE=aarch64-unknown-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=404979 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.bmfBSyNg/pbuilderrc_gsAQ --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.bmfBSyNg/b1 --logfile b1/build.log python-pymbar_4.0.3-2.dsc' - SUDO_GID='109' - SUDO_UID='104' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://192.168.101.4:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.bmfBSyNg/pbuilderrc_1kwA --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.bmfBSyNg/b2 --logfile b2/build.log python-pymbar_4.0.3-2.dsc' + SUDO_GID=109 + SUDO_UID=104 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://192.168.101.4:3128 I: uname -a - Linux codethink03-arm64 6.1.0-33-cloud-arm64 #1 SMP Debian 6.1.133-1 (2025-04-10) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-33-cloud-arm64 #1 SMP Debian 6.1.133-1 (2025-04-10) aarch64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Mar 4 2025 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/961214/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Mar 4 11:20 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/404979/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -185,7 +217,7 @@ Get: 66 http://deb.debian.org/debian trixie/main arm64 python3-pluggy all 1.5.0-1 [26.9 kB] Get: 67 http://deb.debian.org/debian trixie/main arm64 python3-pytest all 8.3.5-2 [250 kB] Get: 68 http://deb.debian.org/debian trixie/main arm64 python3-scipy arm64 1.15.2-7 [14.8 MB] -Fetched 39.8 MB in 0s (115 MB/s) +Fetched 39.8 MB in 0s (142 MB/s) Preconfiguring packages ... Selecting previously unselected package libpython3.13-minimal:arm64. (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 ... 19954 files and directories currently installed.) @@ -416,8 +448,8 @@ Setting up tzdata (2025b-2) ... Current default time zone: 'Etc/UTC' -Local time is now: Thu May 28 11:04:29 UTC 2026. -Universal Time is now: Thu May 28 11:04:29 UTC 2026. +Local time is now: Fri Apr 25 04:42:48 UTC 2025. +Universal Time is now: Fri Apr 25 04:42:48 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20240727.1) ... @@ -486,7 +518,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/python-pymbar-4.0.3/ && 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 > ../python-pymbar_4.0.3-2_source.changes +I: user script /srv/workspace/pbuilder/404979/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/404979/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/python-pymbar-4.0.3/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../python-pymbar_4.0.3-2_source.changes dpkg-buildpackage: info: source package python-pymbar dpkg-buildpackage: info: source version 4.0.3-2 dpkg-buildpackage: info: source distribution unstable @@ -620,16 +656,15 @@ /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_mbar_solvers.py:67: PytestUnknownMarkWarning: Unknown pytest.mark.flaky - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html pytest.param("TNC", marks=pytest.mark.flaky(max_runs=2)), # This one is flaky -.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_fes.py: 264 warnings +.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_fes.py: 174 warnings /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/fes.py:2246: DeprecationWarning: Conversion of an array with ndim > 0 to a scalar is deprecated, and will error in future. Ensure you extract a single element from your array before performing this operation. (Deprecated NumPy 1.25.) g[i - 1] = N * np.dot(w_n, db_c[i](x_n)) -.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_fes.py::test_1d_fes_spline_bootstraped - /usr/lib/python3/dist-packages/scipy/optimize/_optimize.py:2137: OptimizeWarning: Warning: Desired error not necessarily achieved due to precision loss. - return terminate(2, msg) +.pybuild/cpython3_3.13_pymbar/build/pymbar/tests/test_mbar_solvers.py::test_protocols[trust-krylov] + /usr/lib/python3/dist-packages/scipy/optimize/_trustregion.py:225: RuntimeWarning: invalid value encountered in multiply -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html -========== 108 passed, 21 skipped, 21 xfailed, 267 warnings in 29.13s ========== +==== 108 passed, 21 skipped, 21 xfailed, 177 warnings in 159.15s (0:02:39) ===== create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild @@ -785,12 +820,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/404979/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/404979/tmp/hooks/B01_cleanup finished 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/961214 and its subdirectories -I: Current time: Wed May 27 23:05:23 -12 2026 -I: pbuilder-time-stamp: 1779966323 +I: removing directory /srv/workspace/pbuilder/404979 and its subdirectories +I: Current time: Fri Apr 25 18:45:55 +14 2025 +I: pbuilder-time-stamp: 1745556355 Compressing the 2nd log... /var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/arm64/python-pymbar_4.0.3-2.diff: 65.6% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/arm64/python-pymbar_4.0.3-2.diff.gz b2/build.log: 84.6% -- replaced with stdout Compressing the 1st log... b1/build.log: 85.1% -- replaced with stdout Fri Apr 25 04:45:58 UTC 2025 I: diffoscope 294 will be used to compare the two builds: ++ date -u +%s + DIFFOSCOPE_STAMP=/var/log/reproducible-builds/diffoscope_stamp_python-pymbar_trixie_arm64_1745556358 + touch /var/log/reproducible-builds/diffoscope_stamp_python-pymbar_trixie_arm64_1745556358 + RESULT=0 + systemd-run '--description=diffoscope on python-pymbar/4.0.3-2 in trixie/arm64' --slice=rb-build-diffoscope.slice -u rb-diffoscope-arm64_5-92338 '--property=SuccessExitStatus=1 124' --user --send-sighup --pipe --wait -E TMPDIR timeout 155m nice schroot --directory /srv/reproducible-results/rbuild-debian/r-b-build.bmfBSyNg --run-session -c jenkins-reproducible-trixie-diffoscope-5b08e158-e2c0-485f-ad80-c39c89e4b9ef -- sh -c 'export TMPDIR=/srv/reproducible-results/rbuild-debian/r-b-build.bmfBSyNg/dbd-tmp-9Z194qw ; timeout 150m diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.bmfBSyNg/python-pymbar_4.0.3-2.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.bmfBSyNg/python-pymbar_4.0.3-2.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.bmfBSyNg/python-pymbar_4.0.3-2.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.bmfBSyNg/b1/python-pymbar_4.0.3-2_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.bmfBSyNg/b2/python-pymbar_4.0.3-2_arm64.changes' + false + set +x Running as unit: rb-diffoscope-arm64_5-92338.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.bmfBSyNg/python-pymbar_4.0.3-2.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.bmfBSyNg/python-pymbar_4.0.3-2.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.bmfBSyNg/python-pymbar_4.0.3-2.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.bmfBSyNg/b1/python-pymbar_4.0.3-2_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.bmfBSyNg/b2/python-pymbar_4.0.3-2_arm64.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call diffoscope.comparators.binary.FilesystemFile ## main (total time: 0.004s) 0.004s 2 calls outputs 0.000s 1 call cleanup Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 289ms CPU time consumed: 290ms _ _ _ _ __ _ _| |_| |__ ___ _ __ _ __ _ _ _ __ ___ | |__ __ _ | '_ \| | | | __| '_ \ / _ \| '_ \ _____| '_ \| | | | '_ ` _ \| '_ \ / _` | | |_) | |_| | |_| | | | (_) | | | |_____| |_) | |_| | | | | | | |_) | (_| | | .__/ \__, |\__|_| |_|\___/|_| |_| | .__/ \__, |_| |_| |_|_.__/ \__,_| |_| |___/ |_| |___/ _ __ | '__| | | |_| Fri Apr 25 04:46:22 UTC 2025 I: diffoscope 294 found no differences in the changes files, and a .buildinfo file also exists. Fri Apr 25 04:46:22 UTC 2025 I: python-pymbar from trixie built successfully and reproducibly on arm64. INSERT 0 1 INSERT 0 1 DELETE 1 [2025-04-25 04:46:23] INFO: Starting at 2025-04-25 04:46:23.346882 [2025-04-25 04:46:23] INFO: Generating the pages of 1 package(s) [2025-04-25 04:46:23] CRITICAL: https://tests.reproducible-builds.org/debian/trixie/arm64/python-pymbar didn't produce a buildlog, even though it has been built. [2025-04-25 04:46:23] INFO: Finished at 2025-04-25 04:46:23.856245, took: 0:00:00.509370 Fri Apr 25 04:46:23 UTC 2025 - successfully updated the database and updated https://tests.reproducible-builds.org/debian/rb-pkg/trixie/arm64/python-pymbar.html Fri Apr 25 04:46:23 UTC 2025 I: Submitting .buildinfo files to external archives: Fri Apr 25 04:46:23 UTC 2025 I: Submitting 8.0K b1/python-pymbar_4.0.3-2_arm64.buildinfo.asc https://buildinfo.debian.net/e52dcd448089b6b2686077d8a96b4b0330c2fb2b/python-pymbar_4.0.3-2_all Fri Apr 25 04:46:46 UTC 2025 I: Submitting 8.0K b2/python-pymbar_4.0.3-2_arm64.buildinfo.asc https://buildinfo.debian.net/744a2c3efa08553fd2f2ff1275700e1a6421ceba/python-pymbar_4.0.3-2_all Fri Apr 25 04:47:06 UTC 2025 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Fri Apr 25 04:47:06 UTC 2025 I: Done submitting .buildinfo files. Fri Apr 25 04:47:06 UTC 2025 I: Removing signed python-pymbar_4.0.3-2_arm64.buildinfo.asc files: removed './b1/python-pymbar_4.0.3-2_arm64.buildinfo.asc' removed './b2/python-pymbar_4.0.3-2_arm64.buildinfo.asc' 1745556426 arm64 trixie python-pymbar Starting cleanup. /var/lib/jenkins/userContent/reproducible/debian/rbuild/trixie/arm64/python-pymbar_4.0.3-2.rbuild.log: 82.6% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/rbuild/trixie/arm64/python-pymbar_4.0.3-2.rbuild.log.gz [2025-04-25 04:47:06] INFO: Starting at 2025-04-25 04:47:06.656839 [2025-04-25 04:47:06] INFO: Generating the pages of 1 package(s) [2025-04-25 04:47:06] INFO: Finished at 2025-04-25 04:47:06.961332, took: 0:00:00.304502 All cleanup done. Fri Apr 25 04:47:07 UTC 2025 - total duration: 0h 5m 32s. Fri Apr 25 04:47:07 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-NWaKs5xh, removing. Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 6min 16.518s CPU time consumed: 7.471s