Mon Sep 1 23:33:22 UTC 2025 I: starting to build python-pymbar/forky/amd64 on jenkins on '2025-09-01 23:33' Mon Sep 1 23:33:22 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_5/54957/console.log Mon Sep 1 23:33:22 UTC 2025 I: Downloading source for forky/python-pymbar=4.0.3-2 --2025-09-01 23:33:22-- 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% 274M=0s 2025-09-01 23:33:22 (274 MB/s) - ‘python-pymbar_4.0.3-2.dsc’ saved [2234/2234] Mon Sep 1 23:33:22 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----- Mon Sep 1 23:33:22 UTC 2025 I: Checking whether the package is not for us Mon Sep 1 23:33:22 UTC 2025 I: Starting 1st build on remote node ionos11-amd64.debian.net. Mon Sep 1 23:33:22 UTC 2025 I: Preparing to do remote build '1' on ionos11-amd64.debian.net. Mon Sep 1 23:36:26 UTC 2025 I: Deleting $TMPDIR on ionos11-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Mon Sep 1 11:33:23 -12 2025 I: pbuilder-time-stamp: 1756769603 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/forky-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: no acceptable signature found 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/2395591/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=40 ' DISTRIBUTION='forky' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='b0ca80efa07f440185991f0512f23b71' 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='2395591' 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.nJbiCLP4/pbuilderrc_MfPt --distribution forky --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.nJbiCLP4/b1 --logfile b1/build.log python-pymbar_4.0.3-2.dsc' SUDO_GID='111' SUDO_HOME='/var/lib/jenkins' SUDO_UID='106' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://46.16.76.132:3128' I: uname -a Linux ionos11-amd64 6.12.41+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.41-1 (2025-08-12) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/2395591/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), dh-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 ... 19897 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} libxml2-16{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 44.6 MB of archives. After unpacking 194 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian forky/main amd64 libexpat1 amd64 2.7.1-2 [108 kB] Get: 2 http://deb.debian.org/debian forky/main amd64 libpython3.13-minimal amd64 3.13.7-1 [864 kB] Get: 3 http://deb.debian.org/debian forky/main amd64 python3.13-minimal amd64 3.13.7-1 [2216 kB] Get: 4 http://deb.debian.org/debian forky/main amd64 python3-minimal amd64 3.13.5-1 [27.2 kB] Get: 5 http://deb.debian.org/debian forky/main amd64 media-types all 13.0.0 [29.3 kB] Get: 6 http://deb.debian.org/debian forky/main amd64 netbase all 6.5 [12.4 kB] Get: 7 http://deb.debian.org/debian forky/main amd64 tzdata all 2025b-5 [260 kB] Get: 8 http://deb.debian.org/debian forky/main amd64 libffi8 amd64 3.4.8-2 [24.1 kB] Get: 9 http://deb.debian.org/debian forky/main amd64 readline-common all 8.2-6 [69.4 kB] Get: 10 http://deb.debian.org/debian forky/main amd64 libreadline8t64 amd64 8.2-6 [169 kB] Get: 11 http://deb.debian.org/debian forky/main amd64 libpython3.13-stdlib amd64 3.13.7-1 [1960 kB] Get: 12 http://deb.debian.org/debian forky/main amd64 python3.13 amd64 3.13.7-1 [761 kB] Get: 13 http://deb.debian.org/debian forky/main amd64 libpython3-stdlib amd64 3.13.5-1 [10.2 kB] Get: 14 http://deb.debian.org/debian forky/main amd64 python3 amd64 3.13.5-1 [28.2 kB] Get: 15 http://deb.debian.org/debian forky/main amd64 python3-numpy-dev amd64 1:2.2.4+ds-1 [139 kB] Get: 16 http://deb.debian.org/debian forky/main amd64 libblas3 amd64 3.12.1-6 [160 kB] Get: 17 http://deb.debian.org/debian forky/main amd64 libgfortran5 amd64 15.2.0-1 [862 kB] Get: 18 http://deb.debian.org/debian forky/main amd64 liblapack3 amd64 3.12.1-6 [2447 kB] Get: 19 http://deb.debian.org/debian forky/main amd64 python3-numpy amd64 1:2.2.4+ds-1 [5096 kB] Get: 20 http://deb.debian.org/debian forky/main amd64 sensible-utils all 0.0.26 [27.0 kB] Get: 21 http://deb.debian.org/debian forky/main amd64 libmagic-mgc amd64 1:5.46-5 [338 kB] Get: 22 http://deb.debian.org/debian forky/main amd64 libmagic1t64 amd64 1:5.46-5 [109 kB] Get: 23 http://deb.debian.org/debian forky/main amd64 file amd64 1:5.46-5 [43.6 kB] Get: 24 http://deb.debian.org/debian forky/main amd64 gettext-base amd64 0.23.1-2+b1 [244 kB] Get: 25 http://deb.debian.org/debian forky/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 26 http://deb.debian.org/debian forky/main amd64 groff-base amd64 1.23.0-9 [1187 kB] Get: 27 http://deb.debian.org/debian forky/main amd64 bsdextrautils amd64 2.41.1-1 [94.7 kB] Get: 28 http://deb.debian.org/debian forky/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 29 http://deb.debian.org/debian forky/main amd64 man-db amd64 2.13.1-1 [1469 kB] Get: 30 http://deb.debian.org/debian forky/main amd64 m4 amd64 1.4.19-8 [294 kB] Get: 31 http://deb.debian.org/debian forky/main amd64 autoconf all 2.72-3.1 [494 kB] Get: 32 http://deb.debian.org/debian forky/main amd64 autotools-dev all 20240727.1 [60.2 kB] Get: 33 http://deb.debian.org/debian forky/main amd64 automake all 1:1.17-4 [862 kB] Get: 34 http://deb.debian.org/debian forky/main amd64 autopoint all 0.23.1-2 [770 kB] Get: 35 http://deb.debian.org/debian forky/main amd64 libdebhelper-perl all 13.26 [91.8 kB] Get: 36 http://deb.debian.org/debian forky/main amd64 libtool all 2.5.4-4 [539 kB] Get: 37 http://deb.debian.org/debian forky/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 38 http://deb.debian.org/debian forky/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 39 http://deb.debian.org/debian forky/main amd64 libfile-stripnondeterminism-perl all 1.14.2-1 [19.8 kB] Get: 40 http://deb.debian.org/debian forky/main amd64 dh-strip-nondeterminism all 1.14.2-1 [8768 B] Get: 41 http://deb.debian.org/debian forky/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 42 http://deb.debian.org/debian forky/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 43 http://deb.debian.org/debian forky/main amd64 libunistring5 amd64 1.3-2 [477 kB] Get: 44 http://deb.debian.org/debian forky/main amd64 libxml2-16 amd64 2.14.5+dfsg-0.2 [638 kB] Get: 45 http://deb.debian.org/debian forky/main amd64 gettext amd64 0.23.1-2+b1 [1680 kB] Get: 46 http://deb.debian.org/debian forky/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 47 http://deb.debian.org/debian forky/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 48 http://deb.debian.org/debian forky/main amd64 debhelper all 13.26 [939 kB] Get: 49 http://deb.debian.org/debian forky/main amd64 dh-python all 6.20250414 [116 kB] Get: 50 http://deb.debian.org/debian forky/main amd64 python3-all amd64 3.13.5-1 [1048 B] Get: 51 http://deb.debian.org/debian forky/main amd64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 52 http://deb.debian.org/debian forky/main amd64 python3-decorator all 5.2.1-2 [33.0 kB] Get: 53 http://deb.debian.org/debian forky/main amd64 python3-more-itertools all 10.7.0-1 [67.4 kB] Get: 54 http://deb.debian.org/debian forky/main amd64 python3-typing-extensions all 4.14.1-1 [91.3 kB] Get: 55 http://deb.debian.org/debian forky/main amd64 python3-typeguard all 4.4.4-1 [37.1 kB] Get: 56 http://deb.debian.org/debian forky/main amd64 python3-inflect all 7.3.1-2 [32.4 kB] Get: 57 http://deb.debian.org/debian forky/main amd64 python3-iniconfig all 1.1.1-2 [6396 B] Get: 58 http://deb.debian.org/debian forky/main amd64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 59 http://deb.debian.org/debian forky/main amd64 python3-pkg-resources all 78.1.1-0.1 [224 kB] Get: 60 http://deb.debian.org/debian forky/main amd64 python3-jaraco.text all 4.0.0-1 [11.4 kB] Get: 61 http://deb.debian.org/debian forky/main amd64 python3-zipp all 3.21.0-1 [10.6 kB] Get: 62 http://deb.debian.org/debian forky/main amd64 python3-setuptools all 78.1.1-0.1 [738 kB] Get: 63 http://deb.debian.org/debian forky/main amd64 python3-jaraco.context all 6.0.1-1 [8276 B] Get: 64 http://deb.debian.org/debian forky/main amd64 python3-packaging all 25.0-1 [56.6 kB] Get: 65 http://deb.debian.org/debian forky/main amd64 python3-numexpr amd64 2.11.0-1 [130 kB] Get: 66 http://deb.debian.org/debian forky/main amd64 python3-pluggy all 1.6.0-1 [27.1 kB] Get: 67 http://deb.debian.org/debian forky/main amd64 python3-pytest all 8.3.5-2 [250 kB] Get: 68 http://deb.debian.org/debian forky/main amd64 python3-scipy amd64 1.15.3-1 [16.3 MB] Fetched 44.6 MB in 6s (7046 kB/s) Preconfiguring packages ... Selecting previously unselected package libexpat1:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19897 files and directories currently installed.) Preparing to unpack .../libexpat1_2.7.1-2_amd64.deb ... Unpacking libexpat1:amd64 (2.7.1-2) ... Selecting previously unselected package libpython3.13-minimal:amd64. Preparing to unpack .../libpython3.13-minimal_3.13.7-1_amd64.deb ... Unpacking libpython3.13-minimal:amd64 (3.13.7-1) ... Selecting previously unselected package python3.13-minimal. Preparing to unpack .../python3.13-minimal_3.13.7-1_amd64.deb ... Unpacking python3.13-minimal (3.13.7-1) ... Setting up libpython3.13-minimal:amd64 (3.13.7-1) ... Setting up libexpat1:amd64 (2.7.1-2) ... Setting up python3.13-minimal (3.13.7-1) ... Selecting previously unselected package python3-minimal. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20231 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.13.5-1_amd64.deb ... Unpacking python3-minimal (3.13.5-1) ... 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-5_all.deb ... Unpacking tzdata (2025b-5) ... Selecting previously unselected package libffi8:amd64. Preparing to unpack .../4-libffi8_3.4.8-2_amd64.deb ... Unpacking libffi8:amd64 (3.4.8-2) ... 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:amd64. Preparing to unpack .../6-libreadline8t64_8.2-6_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:amd64 (8.2-6) ... Selecting previously unselected package libpython3.13-stdlib:amd64. Preparing to unpack .../7-libpython3.13-stdlib_3.13.7-1_amd64.deb ... Unpacking libpython3.13-stdlib:amd64 (3.13.7-1) ... Selecting previously unselected package python3.13. Preparing to unpack .../8-python3.13_3.13.7-1_amd64.deb ... Unpacking python3.13 (3.13.7-1) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../9-libpython3-stdlib_3.13.5-1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.13.5-1) ... Setting up python3-minimal (3.13.5-1) ... Selecting previously unselected package python3. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 21246 files and directories currently installed.) Preparing to unpack .../00-python3_3.13.5-1_amd64.deb ... Unpacking python3 (3.13.5-1) ... Selecting previously unselected package python3-numpy-dev:amd64. 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Setting up bsdextrautils (2.41.1-1) ... Setting up libmagic-mgc (1:5.46-5) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libxml2-16:amd64 (2.14.5+dfsg-0.2) ... Setting up libdebhelper-perl (13.26) ... Setting up libmagic1t64:amd64 (1:5.46-5) ... Setting up gettext-base (0.23.1-2+b1) ... Setting up m4 (1.4.19-8) ... Setting up file (1:5.46-5) ... Setting up libelf1t64:amd64 (0.192-4) ... Setting up tzdata (2025b-5) ... Current default time zone: 'Etc/UTC' Local time is now: Mon Sep 1 23:34:54 UTC 2025. Universal Time is now: Mon Sep 1 23:34:54 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20240727.1) ... Setting up libblas3:amd64 (3.12.1-6) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up libunistring5:amd64 (1.3-2) ... Setting up python3-numpy-dev:amd64 (1:2.2.4+ds-1) ... Setting up autopoint (0.23.1-2) ... Setting up libgfortran5:amd64 (15.2.0-1) ... Setting up autoconf (2.72-3.1) ... Setting up libffi8:amd64 (3.4.8-2) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.26) ... Setting up libuchardet0:amd64 (0.0.8-1+b2) ... Setting up netbase (6.5) ... Setting up readline-common (8.2-6) ... 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 (1.14.2-1) ... Setting up liblapack3:amd64 (3.12.1-6) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode Setting up gettext (0.23.1-2+b1) ... Setting up libtool (2.5.4-4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libreadline8t64:amd64 (8.2-6) ... 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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 amd64 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:599: SetuptoolsDeprecationWarning: Invalid dash-separated key 'description-file' in 'metadata' (setup.cfg), please use the underscore name 'description_file' instead. !! ******************************************************************************** Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead. By 2026-Mar-03, you need to update your project and remove deprecated calls or your builds will no longer be supported. See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. ******************************************************************************** !! opt = self._enforce_underscore(opt, section) /usr/lib/python3/dist-packages/setuptools/dist.py:599: SetuptoolsDeprecationWarning: Invalid dash-separated key 'description-file' in 'metadata' (setup.cfg), please use the underscore name 'description_file' instead. !! ******************************************************************************** Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead. (Affected: pymbar). By 2026-Mar-03, you need to update your project and remove deprecated calls or your builds will no longer be supported. See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. ******************************************************************************** !! opt = self._enforce_underscore(opt, section) /usr/lib/python3/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. !! ******************************************************************************** Please consider removing the following classifiers in favor of a SPDX license expression: License :: OSI Approved :: MIT License See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. ******************************************************************************** !! self._finalize_license_expression() running clean removing '/build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build' (and everything under it) 'build/bdist.linux-x86_64' 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:599: SetuptoolsDeprecationWarning: Invalid dash-separated key 'description-file' in 'metadata' (setup.cfg), please use the underscore name 'description_file' instead. !! ******************************************************************************** Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead. By 2026-Mar-03, you need to update your project and remove deprecated calls or your builds will no longer be supported. See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. ******************************************************************************** !! opt = self._enforce_underscore(opt, section) /usr/lib/python3/dist-packages/setuptools/dist.py:599: SetuptoolsDeprecationWarning: Invalid dash-separated key 'description-file' in 'metadata' (setup.cfg), please use the underscore name 'description_file' instead. !! ******************************************************************************** Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead. (Affected: pymbar). By 2026-Mar-03, you need to update your project and remove deprecated calls or your builds will no longer be supported. See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. ******************************************************************************** !! opt = self._enforce_underscore(opt, section) /usr/lib/python3/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. !! ******************************************************************************** Please consider removing the following classifiers in favor of a SPDX license expression: License :: OSI Approved :: MIT License See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. ******************************************************************************** !! self._finalize_license_expression() 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:599: SetuptoolsDeprecationWarning: Invalid dash-separated key 'description-file' in 'metadata' (setup.cfg), please use the underscore name 'description_file' instead. !! ******************************************************************************** Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead. By 2026-Mar-03, you need to update your project and remove deprecated calls or your builds will no longer be supported. See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. ******************************************************************************** !! opt = self._enforce_underscore(opt, section) /usr/lib/python3/dist-packages/setuptools/dist.py:599: SetuptoolsDeprecationWarning: Invalid dash-separated key 'description-file' in 'metadata' (setup.cfg), please use the underscore name 'description_file' instead. !! ******************************************************************************** Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead. (Affected: pymbar). By 2026-Mar-03, you need to update your project and remove deprecated calls or your builds will no longer be supported. See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. ******************************************************************************** !! opt = self._enforce_underscore(opt, section) /usr/lib/python3/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. !! ******************************************************************************** Please consider removing the following classifiers in favor of a SPDX license expression: License :: OSI Approved :: MIT License See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. ******************************************************************************** !! self._finalize_license_expression() running build running build_py creating /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/__init__.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/other_estimators.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/mbar_solvers.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/utils_for_testing.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/timeseries.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/tests copying pymbar/tests/__init__.py -> /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_fes.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_covariance.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_bar.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_exp.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/tests creating /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 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/harmonic_oscillators.py -> /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/gaussian_work.py -> /build/reproducible-path/python-pymbar-4.0.3/.pybuild/cpython3_3.13_pymbar/build/pymbar/testsystems 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 3.13.7, pytest-8.3.5, pluggy-1.6.0 rootdir: /build/reproducible-path/python-pymbar-4.0.3 configfile: setup.cfg plugins: typeguard-4.4.4 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: 477 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, 480 warnings in 41.24s ========== 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:599: SetuptoolsDeprecationWarning: Invalid dash-separated key 'description-file' in 'metadata' (setup.cfg), please use the underscore name 'description_file' instead. !! ******************************************************************************** Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead. By 2026-Mar-03, you need to update your project and remove deprecated calls or your builds will no longer be supported. See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. ******************************************************************************** !! opt = self._enforce_underscore(opt, section) /usr/lib/python3/dist-packages/setuptools/dist.py:599: SetuptoolsDeprecationWarning: Invalid dash-separated key 'description-file' in 'metadata' (setup.cfg), please use the underscore name 'description_file' instead. !! ******************************************************************************** Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead. (Affected: pymbar). By 2026-Mar-03, you need to update your project and remove deprecated calls or your builds will no longer be supported. See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. ******************************************************************************** !! opt = self._enforce_underscore(opt, section) /usr/lib/python3/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. !! ******************************************************************************** Please consider removing the following classifiers in favor of a SPDX license expression: License :: OSI Approved :: MIT License See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. ******************************************************************************** !! self._finalize_license_expression() running install /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:90: 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 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/__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/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/other_estimators.py -> /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/tests 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_utils.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_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_covariance.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/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_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_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_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__/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_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__/__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/__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_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/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_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_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_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/_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/mbar_solvers.py -> /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__/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_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__/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__/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__/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__/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__/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__/__init__.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/utils.py -> /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/testsystems 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 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/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/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/utils_for_testing.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/timeseries.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/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/__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/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/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/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_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/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_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_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_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_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_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_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/_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/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/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/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/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/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/utils_for_testing.py to utils_for_testing.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/timeseries.py to timeseries.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_amd64.buildinfo dpkg-genchanges --build=binary -O../python-pymbar_4.0.3-2_amd64.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/2395591 and its subdirectories I: Current time: Mon Sep 1 11:36:25 -12 2025 I: pbuilder-time-stamp: 1756769785 Mon Sep 1 23:36:26 UTC 2025 I: 1st build successful. Starting 2nd build on remote node ionos5-amd64.debian.net. Mon Sep 1 23:36:26 UTC 2025 I: Preparing to do remote build '2' on ionos5-amd64.debian.net. Mon Sep 1 23:40:02 UTC 2025 I: Deleting $TMPDIR on ionos5-amd64.debian.net. Mon Sep 1 23:40:02 UTC 2025 I: python-pymbar_4.0.3-2_amd64.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: 3f2b2ea5b568ca561cfd68a95d2760fa40a1eaca 5861 python-pymbar_4.0.3-2_amd64.buildinfo c979e9db9539bcfec19d56712bd6607546ac0195 79556 python3-pymbar_4.0.3-2_all.deb Checksums-Sha256: 4afaf155a1414103ed0e61a16809458a0563e319c90a9a934f019775fc2dc6a6 5861 python-pymbar_4.0.3-2_amd64.buildinfo 03ef25f95e971d75580b20e0b153b3560f17c336da5428ea10b9f3c6016cdf45 79556 python3-pymbar_4.0.3-2_all.deb Files: e21a9e83fdc3815e94be1eec70d23848 5861 science optional python-pymbar_4.0.3-2_amd64.buildinfo 50bddba4d76a41e9609caedd2733172e 79556 science optional python3-pymbar_4.0.3-2_all.deb Mon Sep 1 23:40:03 UTC 2025 I: diffoscope 305 will be used to compare the two builds: Running as unit: rb-diffoscope-amd64_5-54957.service; invocation ID: 03f4ddfe0a044907a50afd4870bd358d # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.nJbiCLP4/python-pymbar_4.0.3-2.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.nJbiCLP4/python-pymbar_4.0.3-2.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.nJbiCLP4/python-pymbar_4.0.3-2.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.nJbiCLP4/b1/python-pymbar_4.0.3-2_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.nJbiCLP4/b2/python-pymbar_4.0.3-2_amd64.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call diffoscope.comparators.binary.FilesystemFile ## main (total time: 0.003s) 0.003s 2 calls outputs 0.000s 1 call cleanup Finished with result: success Main processes terminated with: code=exited, status=0/SUCCESS Service runtime: 215ms CPU time consumed: 173ms Memory peak: 17.5M (swap: 0B) Mon Sep 1 23:40:04 UTC 2025 I: diffoscope 305 found no differences in the changes files, and a .buildinfo file also exists. Mon Sep 1 23:40:04 UTC 2025 I: python-pymbar from forky built successfully and reproducibly on amd64. Mon Sep 1 23:40:05 UTC 2025 I: Removing signed python-pymbar_4.0.3-2_amd64.buildinfo.asc files: removed './b1/python-pymbar_4.0.3-2_amd64.buildinfo.asc' removed './b2/python-pymbar_4.0.3-2_amd64.buildinfo.asc'