Running as unit: rb-build-arm64_11-95700.service ==================================================================================== Fri Apr 25 20:37:14 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job reproducible_builder_arm64_11) on jenkins, called using "codethink04-arm64 codethink03-arm64" as arguments. Fri Apr 25 20:37:14 UTC 2025 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-XCjbJCc2" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Fri Apr 25 20:37:14 UTC 2025 - checking /var/lib/jenkins/offline_nodes if codethink04-arm64.debian.net is marked as down. Fri Apr 25 20:37:14 UTC 2025 - checking via ssh if codethink04-arm64.debian.net is up. removed '/tmp/read-only-fs-test-nNuVtj' Fri Apr 25 20:37:15 UTC 2025 - checking /var/lib/jenkins/offline_nodes if codethink03-arm64.debian.net is marked as down. Fri Apr 25 20:37:15 UTC 2025 - checking via ssh if codethink03-arm64.debian.net is up. removed '/tmp/read-only-fs-test-un49JU' ok, let's check if prody is building anywhere yet… ok, prody is not building anywhere… UPDATE 1 ============================================================================= Initialising reproducibly build of prody in unstable on arm64 on jenkins now. 1st build will be done on codethink04-arm64.debian.net. 2nd build will be done on codethink03-arm64.debian.net. ============================================================================= Fri Apr 25 20:37:18 UTC 2025 I: starting to build prody/unstable/arm64 on jenkins on '2025-04-25 20:37' Fri Apr 25 20:37:18 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_11/95700/console.log 1745613438 arm64 unstable prody Fri Apr 25 20:37:18 UTC 2025 I: Downloading source for unstable/prody=2.4.1+dfsg-2 --2025-04-25 20:37:18-- http://deb.debian.org/debian/pool/main/p/prody/prody_2.4.1%2bdfsg-2.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2243 (2.2K) [text/prs.lines.tag] Saving to: ‘prody_2.4.1+dfsg-2.dsc’ 0K .. 100% 214M=0s 2025-04-25 20:37:18 (214 MB/s) - ‘prody_2.4.1+dfsg-2.dsc’ saved [2243/2243] --2025-04-25 20:37:18-- http://deb.debian.org/debian/pool/main/p/prody/prody_2.4.1%2bdfsg-2.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2243 (2.2K) [text/prs.lines.tag] Saving to: ‘prody_2.4.1+dfsg-2.dsc’ 0K .. 100% 214M=0s 2025-04-25 20:37:18 (214 MB/s) - ‘prody_2.4.1+dfsg-2.dsc’ saved [2243/2243] Fri Apr 25 20:37:18 UTC 2025 I: prody_2.4.1+dfsg-2.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: prody Binary: python3-prody, python3-prody-tests Architecture: any all Version: 2.4.1+dfsg-2 Maintainer: Debichem Team Uploaders: Andrius Merkys , Homepage: https://github.com/prody/ProDy Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/debichem-team/prody Vcs-Git: https://salsa.debian.org/debichem-team/prody.git Testsuite: autopkgtest-pkg-pybuild Build-Depends: debhelper-compat (= 13), dh-python, python3-all-dev, python3-biopython , python3-numpy, python3-pyparsing , python3-scipy , python3-setuptools, python3-zombie-imp Package-List: python3-prody deb science optional arch=any python3-prody-tests deb science optional arch=all Checksums-Sha1: 9d0ead7d3fce8424a0c35a2396639566d5ebea77 16085288 prody_2.4.1+dfsg.orig.tar.xz 8197a08210bb98599434307c0619ecfaa172cb91 9728 prody_2.4.1+dfsg-2.debian.tar.xz Checksums-Sha256: f66b7affa47693dd3d8cf0f0ac833c4d313135420b1e6ece0767259099f5ad87 16085288 prody_2.4.1+dfsg.orig.tar.xz 0579e775804f9943152c3885561b5fcac4ed2c27557f32e6f20866a4d7c465e4 9728 prody_2.4.1+dfsg-2.debian.tar.xz Files: 295e44486fd6cb8cbe38f64aad51439e 16085288 prody_2.4.1+dfsg.orig.tar.xz b0b64099072b904019ec3863f8cf0801 9728 prody_2.4.1+dfsg-2.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJGBAEBCgAwFiEEdyKS9veshfrgQdQe5fQ/nCc08ocFAmXLF8QSHG1lcmt5c0Bk ZWJpYW4ub3JnAAoJEOX0P5wnNPKHJOYP/26FvLav1XZ1RkFUEwcX3U3CbXGw4asp U2QemYIXOfBoCAS7wuiWBDy/tzvjsp3he5V6jfM8x9DmHniyU7YSfeszZ6ogQR2m gsjCa+saWm93F5/I28ZQgY7soUCITQp3kdvMPJZO1fDr4CstwY42iBUxVO/X3k3R EqtERe8UkGwo5NLB9tu82KviG3IOni5IOeRpNUeZoSmdRMdssqmS8de+g+wBkvC5 L/A9bz2FPSLxG7UHGZlUuL5gKWEnCEsXmGVrzHZRr1/eqgnqRplr2M96tWolnoEy GytOsGn4pOA5XvPO2E/ZcCyKGQa3N8qVZl9/Az+JHxdgAEIHjWjEyRMBlXMQDwnA t8CHNsbXYmTjbvREQrPok3AbUQ7Wx7Q0M0HWsZDYDKqtD1FmNqu5avKhPgu7PSst wG9BCPfeM/+PBoRXjQcUhJ7PkkdGNwJ8XQLyli3qFaexeFAHFdKKXqFlc0V17zVU YNYyMcprmT/Nx+b1phYxFxQi3RKSai8FsWQlZJvTjfA5/VeGxOnPNS5gByWMQDrD 6asxG4WlZEt+DPTPx0jhj+jXfNhmH+sdqZTYhLsTEgI+2NrUqI6Dv/6WCghtj+g9 bRT0Mi3LjCqMSaS/cJ8sGkoHn7SlIvNPRtB2jTnzkSmGCPiAPFCRGx4hXqJma0Xp Yj+AfNx5Kb8D =NqP7 -----END PGP SIGNATURE----- Fri Apr 25 20:37:18 UTC 2025 I: Checking whether the package is not for us Fri Apr 25 20:37:18 UTC 2025 I: Starting 1st build on remote node codethink04-arm64.debian.net. Fri Apr 25 20:37:18 UTC 2025 I: Preparing to do remote build '1' on codethink04-arm64.debian.net. Fri Apr 25 20:37:18 UTC 2025 - checking /var/lib/jenkins/offline_nodes if codethink04-arm64.debian.net is marked as down. Fri Apr 25 20:37:18 UTC 2025 - checking via ssh if codethink04-arm64.debian.net is up. removed '/tmp/read-only-fs-test-pAAz7i' ==================================================================================== Fri Apr 25 20:37:20 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on codethink04-arm64, called using "1 prody unstable /srv/reproducible-results/rbuild-debian/r-b-build.0VbxGjxK 2.4.1+dfsg-2" as arguments. Fri Apr 25 20:37:20 UTC 2025 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-7DLkRSXO" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Fri Apr 25 20:37:20 UTC 2025 I: Downloading source for unstable/prody=2.4.1+dfsg-2 Reading package lists... NOTICE: 'prody' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/debichem-team/prody.git Please use: git clone https://salsa.debian.org/debichem-team/prody.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 16.1 MB of source archives. Get:1 http://deb.debian.org/debian unstable/main prody 2.4.1+dfsg-2 (dsc) [2243 B] Get:2 http://deb.debian.org/debian unstable/main prody 2.4.1+dfsg-2 (tar) [16.1 MB] Get:3 http://deb.debian.org/debian unstable/main prody 2.4.1+dfsg-2 (diff) [9728 B] Fetched 16.1 MB in 4s (3882 kB/s) Download complete and in download only mode Reading package lists... NOTICE: 'prody' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/debichem-team/prody.git Please use: git clone https://salsa.debian.org/debichem-team/prody.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 16.1 MB of source archives. Get:1 http://deb.debian.org/debian unstable/main prody 2.4.1+dfsg-2 (dsc) [2243 B] Get:2 http://deb.debian.org/debian unstable/main prody 2.4.1+dfsg-2 (tar) [16.1 MB] Get:3 http://deb.debian.org/debian unstable/main prody 2.4.1+dfsg-2 (diff) [9728 B] Fetched 16.1 MB in 4s (3882 kB/s) Download complete and in download only mode ============================================================================= Building prody in unstable on arm64 on codethink04-arm64 now. Date: Fri Apr 25 21:37:24 BST 2025 Date UTC: Fri Apr 25 20:37:24 UTC 2025 ============================================================================= W: /root/.pbuilderrc does not exist I: Logging to b1/build.log I: pbuilder: network access will be disabled during build I: Current time: Fri Apr 25 08:37:24 -12 2025 I: pbuilder-time-stamp: 1745613444 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [prody_2.4.1+dfsg-2.dsc] I: copying [./prody_2.4.1+dfsg.orig.tar.xz] I: copying [./prody_2.4.1+dfsg-2.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./prody_2.4.1+dfsg-2.dsc: unsupported subcommand dpkg-source: info: extracting prody in prody-2.4.1+dfsg dpkg-source: info: unpacking prody_2.4.1+dfsg.orig.tar.xz dpkg-source: info: unpacking prody_2.4.1+dfsg-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying no-network-access.patch dpkg-source: info: applying add-missing-test-files.patch dpkg-source: info: applying numpy-1.24.patch dpkg-source: info: applying 1816.patch dpkg-source: info: applying skip-equals-on-vector.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1618453/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='unstable' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='e7a11c6e6dcb49bfba197410e6e64951' 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='1618453' 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.0VbxGjxK/pbuilderrc_IqeL --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.0VbxGjxK/b1 --logfile b1/build.log prody_2.4.1+dfsg-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 codethink04-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 11:20 /bin -> usr/bin I: user script /srv/workspace/pbuilder/1618453/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-python, python3-all-dev, python3-biopython, python3-numpy, python3-pyparsing, python3-scipy, python3-setuptools, python3-zombie-imp dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19953 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-python; however: Package dh-python is not installed. pbuilder-satisfydepends-dummy depends on python3-all-dev; however: Package python3-all-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-biopython; however: Package python3-biopython is not installed. pbuilder-satisfydepends-dummy depends on python3-numpy; however: Package python3-numpy is not installed. pbuilder-satisfydepends-dummy depends on python3-pyparsing; however: Package python3-pyparsing 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. pbuilder-satisfydepends-dummy depends on python3-zombie-imp; however: Package python3-zombie-imp 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} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} fonts-urw-base35{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libblas3{a} libbrotli1{a} libcairo2{a} libdebhelper-perl{a} libdeflate0{a} libelf1t64{a} libexpat1{a} libexpat1-dev{a} libffi8{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfontenc1{a} libfreetype6{a} libfribidi0{a} libgfortran5{a} libglib2.0-0t64{a} libgraphite2-3{a} libharfbuzz0b{a} libimagequant0{a} libjbig0{a} libjpeg62-turbo{a} libjs-jquery{a} libjs-sphinxdoc{a} libjs-underscore{a} liblapack3{a} liblcms2-2{a} liblerc4{a} libmagic-mgc{a} libmagic1t64{a} libopenjp2-7{a} libpipeline1{a} libpixman-1-0{a} libpng16-16t64{a} libpython3-all-dev{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.13{a} libpython3.13-dev{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libraqm0{a} libreadline8t64{a} libsharpyuv0{a} libtiff6{a} libtool{a} libuchardet0{a} libunistring5{a} libwebp7{a} libwebpdemux2{a} libwebpmux3{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb-render0{a} libxcb-shm0{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxml2{a} libxrender1{a} m4{a} man-db{a} media-types{a} netbase{a} po-debconf{a} python3{a} python3-all{a} python3-all-dev{a} python3-autocommand{a} python3-biopython{a} python3-cairo{a} python3-chardet{a} python3-decorator{a} python3-dev{a} python3-freetype{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-minimal{a} python3-more-itertools{a} python3-numpy{a} python3-numpy-dev{a} python3-pil{a} python3-pkg-resources{a} python3-pyparsing{a} python3-reportlab{a} python3-rlpycairo{a} python3-scipy{a} python3-setuptools{a} python3-typeguard{a} python3-typing-extensions{a} python3-zipp{a} python3-zombie-imp{a} python3.13{a} python3.13-dev{a} python3.13-minimal{a} readline-common{a} sensible-utils{a} sgml-base{a} tzdata{a} w3c-sgml-lib{a} x11-common{a} xfonts-encodings{a} xfonts-utils{a} xml-core{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl fonts-dejavu-extra javascript-common libarchive-cpio-perl libglib2.0-data libltdl-dev libmail-sendmail-perl lynx ncbi-blast+ python-biopython-doc python3-olefile python3-pooch python3-yaml shared-mime-info wget xdg-user-dirs 0 packages upgraded, 127 newly installed, 0 to remove and 0 not upgraded. Need to get 72.9 MB of archives. After unpacking 286 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main arm64 libpython3.13-minimal arm64 3.13.3-2 [855 kB] Get: 2 http://deb.debian.org/debian unstable/main arm64 libexpat1 arm64 2.7.1-1 [93.3 kB] Get: 3 http://deb.debian.org/debian unstable/main arm64 python3.13-minimal arm64 3.13.3-2 [1998 kB] Get: 4 http://deb.debian.org/debian unstable/main arm64 python3-minimal arm64 3.13.3-1 [27.2 kB] Get: 5 http://deb.debian.org/debian unstable/main arm64 media-types all 13.0.0 [29.3 kB] Get: 6 http://deb.debian.org/debian unstable/main arm64 netbase all 6.5 [12.4 kB] Get: 7 http://deb.debian.org/debian unstable/main arm64 tzdata all 2025b-2 [260 kB] Get: 8 http://deb.debian.org/debian unstable/main arm64 libffi8 arm64 3.4.8-2 [21.3 kB] Get: 9 http://deb.debian.org/debian unstable/main arm64 readline-common all 8.2-6 [69.4 kB] Get: 10 http://deb.debian.org/debian unstable/main arm64 libreadline8t64 arm64 8.2-6 [159 kB] Get: 11 http://deb.debian.org/debian unstable/main arm64 libpython3.13-stdlib arm64 3.13.3-2 [1890 kB] Get: 12 http://deb.debian.org/debian unstable/main arm64 python3.13 arm64 3.13.3-2 [751 kB] Get: 13 http://deb.debian.org/debian unstable/main arm64 libpython3-stdlib arm64 3.13.3-1 [10.2 kB] Get: 14 http://deb.debian.org/debian unstable/main arm64 python3 arm64 3.13.3-1 [28.2 kB] Get: 15 http://deb.debian.org/debian unstable/main arm64 python3-numpy-dev arm64 1:2.2.4+ds-1 [136 kB] Get: 16 http://deb.debian.org/debian unstable/main arm64 libblas3 arm64 3.12.1-2 [104 kB] Get: 17 http://deb.debian.org/debian unstable/main arm64 libgfortran5 arm64 14.2.0-19 [361 kB] Get: 18 http://deb.debian.org/debian unstable/main arm64 liblapack3 arm64 3.12.1-2 [1819 kB] Get: 19 http://deb.debian.org/debian unstable/main arm64 python3-numpy arm64 1:2.2.4+ds-1 [3604 kB] Get: 20 http://deb.debian.org/debian unstable/main arm64 sensible-utils all 0.0.25 [25.0 kB] Get: 21 http://deb.debian.org/debian unstable/main arm64 libmagic-mgc arm64 1:5.46-5 [338 kB] Get: 22 http://deb.debian.org/debian unstable/main arm64 libmagic1t64 arm64 1:5.46-5 [103 kB] Get: 23 http://deb.debian.org/debian unstable/main arm64 file arm64 1:5.46-5 [43.7 kB] Get: 24 http://deb.debian.org/debian unstable/main arm64 gettext-base arm64 0.23.1-1 [241 kB] Get: 25 http://deb.debian.org/debian unstable/main arm64 libuchardet0 arm64 0.0.8-1+b2 [69.2 kB] Get: 26 http://deb.debian.org/debian unstable/main arm64 groff-base arm64 1.23.0-7 [1129 kB] Get: 27 http://deb.debian.org/debian unstable/main arm64 bsdextrautils arm64 2.41-4 [93.9 kB] Get: 28 http://deb.debian.org/debian unstable/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 29 http://deb.debian.org/debian unstable/main arm64 man-db arm64 2.13.0-1 [1404 kB] Get: 30 http://deb.debian.org/debian unstable/main arm64 m4 arm64 1.4.19-8 [285 kB] Get: 31 http://deb.debian.org/debian unstable/main arm64 autoconf all 2.72-3.1 [494 kB] Get: 32 http://deb.debian.org/debian unstable/main arm64 autotools-dev all 20240727.1 [60.2 kB] Get: 33 http://deb.debian.org/debian unstable/main arm64 automake all 1:1.17-4 [862 kB] Get: 34 http://deb.debian.org/debian unstable/main arm64 autopoint all 0.23.1-1 [770 kB] Get: 35 http://deb.debian.org/debian unstable/main arm64 libdebhelper-perl all 13.24.2 [90.9 kB] Get: 36 http://deb.debian.org/debian unstable/main arm64 libtool all 2.5.4-4 [539 kB] Get: 37 http://deb.debian.org/debian unstable/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 38 http://deb.debian.org/debian unstable/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 39 http://deb.debian.org/debian unstable/main arm64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 40 http://deb.debian.org/debian unstable/main arm64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 41 http://deb.debian.org/debian unstable/main arm64 libelf1t64 arm64 0.192-4 [189 kB] Get: 42 http://deb.debian.org/debian unstable/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 43 http://deb.debian.org/debian unstable/main arm64 libunistring5 arm64 1.3-2 [453 kB] Get: 44 http://deb.debian.org/debian unstable/main arm64 libxml2 arm64 2.12.7+dfsg+really2.9.14-0.4 [629 kB] Get: 45 http://deb.debian.org/debian unstable/main arm64 gettext arm64 0.23.1-1 [1610 kB] Get: 46 http://deb.debian.org/debian unstable/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 47 http://deb.debian.org/debian unstable/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 48 http://deb.debian.org/debian unstable/main arm64 debhelper all 13.24.2 [919 kB] Get: 49 http://deb.debian.org/debian unstable/main arm64 dh-python all 6.20250414 [116 kB] Get: 50 http://deb.debian.org/debian unstable/main arm64 fonts-dejavu-mono all 2.37-8 [489 kB] Get: 51 http://deb.debian.org/debian unstable/main arm64 fonts-dejavu-core all 2.37-8 [840 kB] Get: 52 http://deb.debian.org/debian unstable/main arm64 libfontenc1 arm64 1:1.1.8-1+b2 [22.5 kB] Get: 53 http://deb.debian.org/debian unstable/main arm64 libbrotli1 arm64 1.1.0-2+b7 [308 kB] Get: 54 http://deb.debian.org/debian unstable/main arm64 libpng16-16t64 arm64 1.6.47-1.1 [274 kB] Get: 55 http://deb.debian.org/debian unstable/main arm64 libfreetype6 arm64 2.13.3+dfsg-1 [422 kB] Get: 56 http://deb.debian.org/debian unstable/main arm64 x11-common all 1:7.7+24 [217 kB] Get: 57 http://deb.debian.org/debian unstable/main arm64 xfonts-encodings all 1:1.0.4-2.2 [577 kB] Get: 58 http://deb.debian.org/debian unstable/main arm64 xfonts-utils arm64 1:7.7+7 [89.3 kB] Get: 59 http://deb.debian.org/debian unstable/main arm64 fonts-urw-base35 all 20200910-8 [10.8 MB] Get: 60 http://deb.debian.org/debian unstable/main arm64 fontconfig-config arm64 2.15.0-2.3 [318 kB] Get: 61 http://deb.debian.org/debian unstable/main arm64 libfontconfig1 arm64 2.15.0-2.3 [387 kB] Get: 62 http://deb.debian.org/debian unstable/main arm64 libpixman-1-0 arm64 0.44.0-3 [168 kB] Get: 63 http://deb.debian.org/debian unstable/main arm64 libxau6 arm64 1:1.0.11-1 [20.6 kB] Get: 64 http://deb.debian.org/debian unstable/main arm64 libxdmcp6 arm64 1:1.1.5-1 [27.8 kB] Get: 65 http://deb.debian.org/debian unstable/main arm64 libxcb1 arm64 1.17.0-2+b1 [143 kB] Get: 66 http://deb.debian.org/debian unstable/main arm64 libx11-data all 2:1.8.12-1 [343 kB] Get: 67 http://deb.debian.org/debian unstable/main arm64 libx11-6 arm64 2:1.8.12-1 [795 kB] Get: 68 http://deb.debian.org/debian unstable/main arm64 libxcb-render0 arm64 1.17.0-2+b1 [115 kB] Get: 69 http://deb.debian.org/debian unstable/main arm64 libxcb-shm0 arm64 1.17.0-2+b1 [105 kB] Get: 70 http://deb.debian.org/debian unstable/main arm64 libxext6 arm64 2:1.3.4-1+b3 [49.2 kB] Get: 71 http://deb.debian.org/debian unstable/main arm64 libxrender1 arm64 1:0.9.12-1 [27.0 kB] Get: 72 http://deb.debian.org/debian unstable/main arm64 libcairo2 arm64 1.18.4-1+b1 [483 kB] Get: 73 http://deb.debian.org/debian unstable/main arm64 libdeflate0 arm64 1.23-2 [42.4 kB] Get: 74 http://deb.debian.org/debian unstable/main arm64 libexpat1-dev arm64 2.7.1-1 [145 kB] Get: 75 http://deb.debian.org/debian unstable/main arm64 libfribidi0 arm64 1.0.16-1 [26.5 kB] Get: 76 http://deb.debian.org/debian unstable/main arm64 libglib2.0-0t64 arm64 2.84.1-2 [1423 kB] Get: 77 http://deb.debian.org/debian unstable/main arm64 libgraphite2-3 arm64 1.3.14-2+b1 [70.4 kB] Get: 78 http://deb.debian.org/debian unstable/main arm64 libharfbuzz0b arm64 10.2.0-1+b1 [442 kB] Get: 79 http://deb.debian.org/debian unstable/main arm64 libimagequant0 arm64 2.18.0-1+b2 [34.6 kB] Get: 80 http://deb.debian.org/debian unstable/main arm64 libjbig0 arm64 2.1-6.1+b2 [30.4 kB] Get: 81 http://deb.debian.org/debian unstable/main arm64 libjpeg62-turbo arm64 1:2.1.5-3.1 [173 kB] Get: 82 http://deb.debian.org/debian unstable/main arm64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 83 http://deb.debian.org/debian unstable/main arm64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 84 http://deb.debian.org/debian unstable/main arm64 libjs-sphinxdoc all 8.1.3-5 [30.5 kB] Get: 85 http://deb.debian.org/debian unstable/main arm64 liblcms2-2 arm64 2.16-2 [151 kB] Get: 86 http://deb.debian.org/debian unstable/main arm64 liblerc4 arm64 4.0.0+ds-5 [146 kB] Get: 87 http://deb.debian.org/debian unstable/main arm64 libopenjp2-7 arm64 2.5.3-2 [190 kB] Get: 88 http://deb.debian.org/debian unstable/main arm64 libpython3.13 arm64 3.13.3-2 [1975 kB] Get: 89 http://deb.debian.org/debian unstable/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1+b1 [917 kB] Get: 90 http://deb.debian.org/debian unstable/main arm64 libpython3.13-dev arm64 3.13.3-2 [4688 kB] Get: 91 http://deb.debian.org/debian unstable/main arm64 libpython3-dev arm64 3.13.3-1 [10.4 kB] Get: 92 http://deb.debian.org/debian unstable/main arm64 libpython3-all-dev arm64 3.13.3-1 [1068 B] Get: 93 http://deb.debian.org/debian unstable/main arm64 libraqm0 arm64 0.10.2-1 [13.6 kB] Get: 94 http://deb.debian.org/debian unstable/main arm64 libsharpyuv0 arm64 1.5.0-0.1 [114 kB] Get: 95 http://deb.debian.org/debian unstable/main arm64 libwebp7 arm64 1.5.0-0.1 [271 kB] Get: 96 http://deb.debian.org/debian unstable/main arm64 libtiff6 arm64 4.7.0-3 [325 kB] Get: 97 http://deb.debian.org/debian unstable/main arm64 libwebpdemux2 arm64 1.5.0-0.1 [113 kB] Get: 98 http://deb.debian.org/debian unstable/main arm64 libwebpmux3 arm64 1.5.0-0.1 [125 kB] Get: 99 http://deb.debian.org/debian unstable/main arm64 python3-all arm64 3.13.3-1 [1048 B] Get: 100 http://deb.debian.org/debian unstable/main arm64 python3.13-dev arm64 3.13.3-2 [508 kB] Get: 101 http://deb.debian.org/debian unstable/main arm64 python3-dev arm64 3.13.3-1 [26.1 kB] Get: 102 http://deb.debian.org/debian unstable/main arm64 python3-all-dev arm64 3.13.3-1 [1068 B] Get: 103 http://deb.debian.org/debian unstable/main arm64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 104 http://deb.debian.org/debian unstable/main arm64 python3-chardet all 5.2.0+dfsg-2 [108 kB] Get: 105 http://deb.debian.org/debian unstable/main arm64 python3-pil arm64 11.1.0-5+b1 [495 kB] Get: 106 http://deb.debian.org/debian unstable/main arm64 python3-cairo arm64 1.27.0-2 [114 kB] Get: 107 http://deb.debian.org/debian unstable/main arm64 python3-freetype all 2.5.1-1 [89.3 kB] Get: 108 http://deb.debian.org/debian unstable/main arm64 python3-rlpycairo all 0.3.0-3 [9904 B] Get: 109 http://deb.debian.org/debian unstable/main arm64 python3-reportlab all 4.3.1-1 [1158 kB] Get: 110 http://deb.debian.org/debian unstable/main arm64 sgml-base all 1.31+nmu1 [10.9 kB] Get: 111 http://deb.debian.org/debian unstable/main arm64 xml-core all 0.19 [20.1 kB] Get: 112 http://deb.debian.org/debian unstable/main arm64 w3c-sgml-lib all 1.3-3 [273 kB] Get: 113 http://deb.debian.org/debian unstable/main arm64 python3-biopython arm64 1.85+dfsg-4 [1657 kB] Get: 114 http://deb.debian.org/debian unstable/main arm64 python3-decorator all 5.2.1-2 [33.0 kB] Get: 115 http://deb.debian.org/debian unstable/main arm64 python3-more-itertools all 10.6.0-1 [65.3 kB] Get: 116 http://deb.debian.org/debian unstable/main arm64 python3-typing-extensions all 4.13.2-1 [90.5 kB] Get: 117 http://deb.debian.org/debian unstable/main arm64 python3-typeguard all 4.4.2-1 [37.3 kB] Get: 118 http://deb.debian.org/debian unstable/main arm64 python3-inflect all 7.3.1-2 [32.4 kB] Get: 119 http://deb.debian.org/debian unstable/main arm64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 120 http://deb.debian.org/debian unstable/main arm64 python3-pkg-resources all 78.1.0-1.2 [224 kB] Get: 121 http://deb.debian.org/debian unstable/main arm64 python3-jaraco.text all 4.0.0-1 [11.4 kB] Get: 122 http://deb.debian.org/debian unstable/main arm64 python3-zipp all 3.21.0-1 [10.6 kB] Get: 123 http://deb.debian.org/debian unstable/main arm64 python3-setuptools all 78.1.0-1.2 [738 kB] Get: 124 http://deb.debian.org/debian unstable/main arm64 python3-jaraco.context all 6.0.1-1 [8276 B] Get: 125 http://deb.debian.org/debian unstable/main arm64 python3-pyparsing all 3.1.2-1 [146 kB] Get: 126 http://deb.debian.org/debian unstable/main arm64 python3-scipy arm64 1.15.2-8 [14.8 MB] Get: 127 http://deb.debian.org/debian unstable/main arm64 python3-zombie-imp all 0.0.3-1 [11.9 kB] Fetched 72.9 MB in 0s (237 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 ... 19953 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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Selecting previously unselected package python3-numpy-dev:arm64. Preparing to unpack .../001-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 .../002-libblas3_3.12.1-2_arm64.deb ... Unpacking libblas3:arm64 (3.12.1-2) ... Selecting previously unselected package libgfortran5:arm64. Preparing to unpack .../003-libgfortran5_14.2.0-19_arm64.deb ... Unpacking libgfortran5:arm64 (14.2.0-19) ... Selecting previously unselected package liblapack3:arm64. Preparing to unpack .../004-liblapack3_3.12.1-2_arm64.deb ... Unpacking liblapack3:arm64 (3.12.1-2) ... Selecting previously unselected package python3-numpy. Preparing to unpack .../005-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 .../006-sensible-utils_0.0.25_all.deb ... 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Unpacking libfile-stripnondeterminism-perl (1.14.1-2) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../026-dh-strip-nondeterminism_1.14.1-2_all.deb ... Unpacking dh-strip-nondeterminism (1.14.1-2) ... Selecting previously unselected package libelf1t64:arm64. Preparing to unpack .../027-libelf1t64_0.192-4_arm64.deb ... Unpacking libelf1t64:arm64 (0.192-4) ... Selecting previously unselected package dwz. Preparing to unpack .../028-dwz_0.15-1+b1_arm64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libunistring5:arm64. Preparing to unpack .../029-libunistring5_1.3-2_arm64.deb ... Unpacking libunistring5:arm64 (1.3-2) ... Selecting previously unselected package libxml2:arm64. Preparing to unpack .../030-libxml2_2.12.7+dfsg+really2.9.14-0.4_arm64.deb ... Unpacking libxml2:arm64 (2.12.7+dfsg+really2.9.14-0.4) ... Selecting previously unselected package gettext. 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Setting up libbrotli1:arm64 (1.1.0-2+b7) ... Setting up libmagic1t64:arm64 (1:5.46-5) ... Setting up x11-common (1:7.7+24) ... invoke-rc.d: could not determine current runlevel Setting up X socket directories... /tmp/.X11-unix /tmp/.ICE-unix. Setting up libdeflate0:arm64 (1.23-2) ... Setting up gettext-base (0.23.1-1) ... Setting up m4 (1.4.19-8) ... Setting up libxcb-shm0:arm64 (1.17.0-2+b1) ... Setting up file (1:5.46-5) ... Setting up libjbig0:arm64 (2.1-6.1+b2) ... 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 20:37:49 UTC 2025. Universal Time is now: Fri Apr 25 20:37:49 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libfontenc1:arm64 (1:1.1.8-1+b2) ... 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 libexpat1-dev:arm64 (2.7.1-1) ... Setting up libjpeg62-turbo:arm64 (1:2.1.5-3.1) ... Setting up libx11-data (2:1.8.12-1) ... Setting up xfonts-encodings (1:1.0.4-2.2) ... Setting up libfribidi0:arm64 (1.0.16-1) ... Setting up libimagequant0:arm64 (2.18.0-1+b2) ... Setting up libunistring5:arm64 (1.3-2) ... Setting up fonts-dejavu-mono (2.37-8) ... Setting up libpng16-16t64:arm64 (1.6.47-1.1) ... Setting up python3-numpy-dev:arm64 (1:2.2.4+ds-1) ... Setting up autopoint (0.23.1-1) ... Setting up fonts-dejavu-core (2.37-8) ... Setting up libgfortran5:arm64 (14.2.0-19) ... Setting up autoconf (2.72-3.1) ... Setting up libwebp7:arm64 (1.5.0-0.1) ... Setting up zlib1g-dev:arm64 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up libffi8:arm64 (3.4.8-2) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.25) ... Setting up libtiff6:arm64 (4.7.0-3) ... Setting up libuchardet0:arm64 (0.0.8-1+b2) ... Setting up libopenjp2-7:arm64 (2.5.3-2) ... Setting up libx11-6:arm64 (2:1.8.12-1) ... Setting up netbase (6.5) ... Setting up sgml-base (1.31+nmu1) ... Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Setting up libwebpmux3:arm64 (1.5.0-0.1) ... Setting up readline-common (8.2-6) ... Setting up libxml2:arm64 (2.12.7+dfsg+really2.9.14-0.4) ... Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 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) ... 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Setting up libpython3.13-stdlib:arm64 (3.13.3-2) ... Setting up libpython3-stdlib:arm64 (3.13.3-1) ... Setting up libpython3.13:arm64 (3.13.3-2) ... Setting up python3.13 (3.13.3-2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up python3 (3.13.3-1) ... Setting up python3-zipp (3.21.0-1) ... Setting up python3-freetype (2.5.1-1) ... Setting up xfonts-utils (1:7.7+7) ... 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 libcairo2:arm64 (1.18.4-1+b1) ... Setting up python3-decorator (5.2.1-2) ... Setting up python3-chardet (5.2.0+dfsg-2) ... Setting up python3-pyparsing (3.1.2-1) ... Setting up libraqm0:arm64 (0.10.2-1) ... Setting up libpython3.13-dev:arm64 (3.13.3-2) ... Setting up python3-typing-extensions (4.13.2-1) ... Setting up python3-numpy (1:2.2.4+ds-1) ... Setting up dh-python (6.20250414) ... Setting up python3-more-itertools (10.6.0-1) ... 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Processing triggers for sgml-base (1.31+nmu1) ... Setting up w3c-sgml-lib (1.3-3) ... Setting up python3-biopython (1.85+dfsg-4) ... 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/prody-2.4.1+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../prody_2.4.1+dfsg-2_source.changes dpkg-buildpackage: info: source package prody dpkg-buildpackage: info: source version 2.4.1+dfsg-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andrius Merkys dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean --buildsystem pybuild --with numpy3,python3 dh_auto_clean -O--buildsystem=pybuild I: pybuild base:311: python3.13 setup.py clean /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/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/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 debian/rules execute_after_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/prody-2.4.1+dfsg' rm -rf ProDy.egg-info make[1]: Leaving directory '/build/reproducible-path/prody-2.4.1+dfsg' dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary dh binary --buildsystem pybuild --with numpy3,python3 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: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: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/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody copying prody/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/pointer.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/atom.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/subset.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/selection.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/select.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/segment.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/residue.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/nbexclusion.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/improper.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/hierview.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/functions.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/flags.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/fields.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/donor.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/dihedral.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/crossterm.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/chain.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/bond.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/atommap.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/atomic.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/atomgroup.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/angle.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/acceptor.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/database copying prody/database/uniprot.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/database copying prody/database/quartataweb.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/database copying prody/database/pfam.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/database copying prody/database/goa.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/database copying prody/database/dali.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/database copying prody/database/cath.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/database copying prody/database/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/database creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/vmdfile.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/signature.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/sampling.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/rtb.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/plotting.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/perturb.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/pca.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/nmdfile.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/nma.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/modeset.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/mode.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/mechstiff.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/imanm.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/heatmapper.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/gnm.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/gamma.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/functions.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/exgnm.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/exanm.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/essa.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/entropy.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/editing.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/compare.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/clustenm.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/bildfile.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/bbenm.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/anm.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/analysis.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/adaptive.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/ensemble copying prody/ensemble/pdbensemble.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/ensemble copying prody/ensemble/functions.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/ensemble copying prody/ensemble/ensemble.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/ensemble copying prody/ensemble/conformation.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/ensemble copying prody/ensemble/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/ensemble creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/kdtree copying prody/kdtree/kdtree.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/kdtree copying prody/kdtree/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/kdtree creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/measure copying prody/measure/transform.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/measure copying prody/measure/measure.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/measure copying prody/measure/contacts.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/measure copying prody/measure/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/measure creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins copying prody/proteins/ciffile.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins copying prody/proteins/pdbfile.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins copying prody/proteins/wwpdb.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins copying prody/proteins/waterbridges.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins copying prody/proteins/stride.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins copying prody/proteins/starfile.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins copying prody/proteins/pdbclusters.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins copying prody/proteins/localpdb.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins copying prody/proteins/header.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins copying prody/proteins/functions.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins copying prody/proteins/fixer.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins copying prody/proteins/emdfile.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins copying prody/proteins/dssp.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins copying prody/proteins/compare.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins copying prody/proteins/cifheader.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins copying prody/proteins/blastpdb.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins copying prody/proteins/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/sequence copying prody/sequence/msa.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/sequence copying prody/sequence/sequence.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/sequence copying prody/sequence/plotting.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/sequence copying prody/sequence/msafile.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/sequence copying prody/sequence/analysis.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/sequence copying prody/sequence/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/sequence creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/trajectory copying prody/trajectory/trajfile.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/trajectory copying prody/trajectory/trajectory.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/trajectory copying prody/trajectory/trajbase.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/trajectory copying prody/trajectory/psffile.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/trajectory copying prody/trajectory/frame.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/trajectory copying prody/trajectory/dcdfile.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/trajectory copying prody/trajectory/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/trajectory creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/chromatin copying prody/chromatin/straw.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/chromatin copying prody/chromatin/norm.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/chromatin copying prody/chromatin/hic.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/chromatin copying prody/chromatin/functions.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/chromatin copying prody/chromatin/cluster.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/chromatin copying prody/chromatin/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/chromatin creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/compounds copying prody/compounds/pdbligands.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/compounds copying prody/compounds/functions.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/compounds copying prody/compounds/ccd.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/compounds copying prody/compounds/bird.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/compounds copying prody/compounds/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/compounds creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/domain_decomposition copying prody/domain_decomposition/spectrus.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/domain_decomposition copying prody/domain_decomposition/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/domain_decomposition creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities copying prody/utilities/catchall.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities copying prody/utilities/seqtools.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities copying prody/utilities/settings.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities copying prody/utilities/pathtools.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities copying prody/utilities/misctools.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities copying prody/utilities/logger.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities copying prody/utilities/legacy.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities copying prody/utilities/laptools.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities copying prody/utilities/eigtools.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities copying prody/utilities/drawtools.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities copying prody/utilities/doctools.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities copying prody/utilities/checkers.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities copying prody/utilities/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities copying prody/utilities/TreeConstruction.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps copying prody/apps/apptools.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps copying prody/apps/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_select.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_pca.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_gnm.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_fetch.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_energy.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_eda.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_contacts.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_clustenm.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_catdcd.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_blast.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_biomol.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_anm.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_align.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/nmaoptions.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/prody_apps creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_search.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_refine.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_rankorder.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_occupancy.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_merge.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_filter.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_fetch.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_conserv.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_coevol.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/evol_apps creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests copying prody/tests/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/apps copying prody/tests/apps/test_prody_pca.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/apps copying prody/tests/apps/test_prody_gnm.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/apps copying prody/tests/apps/test_prody_examples.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/apps copying prody/tests/apps/test_prody_catdcd.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/apps copying prody/tests/apps/test_prody_anm.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/apps copying prody/tests/apps/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/apps creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/atomic copying prody/tests/atomic/test_select.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/atomic copying prody/tests/atomic/test_subset.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/atomic copying prody/tests/atomic/test_hierview.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/atomic copying prody/tests/atomic/test_fragment.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/atomic copying prody/tests/atomic/test_atommap.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/atomic copying prody/tests/atomic/test_atomic.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/atomic copying prody/tests/atomic/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/atomic creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/dynamics copying prody/tests/dynamics/test_signature.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/dynamics copying prody/tests/dynamics/test_pca.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/dynamics copying prody/tests/dynamics/test_enms.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/dynamics copying prody/tests/dynamics/test_editing.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/dynamics copying prody/tests/dynamics/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/dynamics creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/ensemble copying prody/tests/ensemble/test_pdbensemble.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/ensemble copying prody/tests/ensemble/test_functions.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/ensemble copying prody/tests/ensemble/test_ensemble.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/ensemble copying prody/tests/ensemble/test_conformation.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/ensemble copying prody/tests/ensemble/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/ensemble creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/kdtree copying prody/tests/kdtree/test_kdtree.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/kdtree copying prody/tests/kdtree/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/kdtree creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/measure copying prody/tests/measure/test_transform.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/measure copying prody/tests/measure/test_measure.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/measure copying prody/tests/measure/test_contacts.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/measure copying prody/tests/measure/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/measure creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/proteins copying prody/tests/proteins/test_wwpdb.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/proteins copying prody/tests/proteins/test_localpdb.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/proteins copying prody/tests/proteins/test_pdbfile.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/proteins copying prody/tests/proteins/test_header.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/proteins copying prody/tests/proteins/test_dssp.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/proteins copying prody/tests/proteins/test_ciffile.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/proteins copying prody/tests/proteins/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/proteins creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/sequence copying prody/tests/sequence/test_analysis.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/sequence copying prody/tests/sequence/test_sequence.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/sequence copying prody/tests/sequence/test_msafile.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/sequence copying prody/tests/sequence/test_msa.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/sequence copying prody/tests/sequence/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/sequence creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/trajectory copying prody/tests/trajectory/test_frame.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/trajectory copying prody/tests/trajectory/test_dcdfile.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/trajectory copying prody/tests/trajectory/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/trajectory creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/utilities copying prody/tests/utilities/test_pathtools.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/utilities copying prody/tests/utilities/test_misctools.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/utilities copying prody/tests/utilities/test_checkers.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/utilities copying prody/tests/utilities/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/utilities creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities/datafiles copying prody/utilities/datafiles/saxs_water.dat -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities/datafiles copying prody/utilities/datafiles/mod_res_map.dat -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities/datafiles copying prody/tests/datafiles/pdbRTER.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb6fpj_Bb_fixed_solv_ions.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb4v8r_hex.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb4v8r_h36.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb3p3w.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb3o21.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb3mht.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb3hsy.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb2nwl-opm.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb2k39_truncated.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb2k39_ca.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb2gb1_truncated.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1ubi_ca.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1ubi.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1tw7_step3_charmm2namd_doubled_hex.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1tw7_step3_charmm2namd_doubled_h36.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1tw7_step3_charmm2namd.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1r19_dssp.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1ejg_oneatom.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1ejg.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pca2k39_vectors.dat -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pca2k39_evalues.dat -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/msa_Cys_knot_sca.dat -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/msa_Cys_knot_di.dat -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/hit1ubi.dat -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/gnm1ubi_vectors.dat -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/gnm1ubi_evalues.dat -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/exanm2nwl_vectors.dat -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/exanm2nwl_evalues.dat -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/commute1ubi.dat -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/anm1ubi_vectors.dat -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/anm1ubi_evalues.dat -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/mmcif_6zu5.cif -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/mmcif_6yfy.cif -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/rtb2gb1_project.coo -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/rtb2gb1_hessian.coo -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pca2k39_cov.coo -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/gnm1ubi_kirchhoff.coo -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/exanm2nwl_hessian.coo -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/anm1ubi_hessian.coo -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/dcd2k39_truncated.dcd -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/xmlSTI.xml -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/msa_3hsyA_3o21A_new.fasta -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/msa_Cys_knot.sth -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/msa_Cys_knot.slx -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/msa_Cys_knot.fasta -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/msa_3hsyA_3o21A.fasta -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles running build_ext building 'prody.dynamics.rtbtools' extension creating build/temp.linux-aarch64-cpython-313/prody/dynamics aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/prody-2.4.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c prody/dynamics/rtbtools.c -o build/temp.linux-aarch64-cpython-313/prody/dynamics/rtbtools.o In file included from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/npy_common.h:380, from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h:4, from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h:12, from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h:5, from prody/dynamics/rtbtools.c:9: prody/dynamics/rtbtools.c: In function 'dblock_projections2': prody/dynamics/rtbtools.c:422:17: error: expected identifier or '(' before '__extension__' 422 | double **X, **I, **IC, *CM, *W, **A, **ISQT; | ^ prody/dynamics/rtbtools.c:431:3: error: 'CM' undeclared (first use in this function) 431 | CM = dvector(1, 3); | ^~ prody/dynamics/rtbtools.c:431:3: note: each undeclared identifier is reported only once for each function it appears in prody/dynamics/rtbtools.c:432:5: error: lvalue required as left operand of assignment 432 | I = dmatrix(1, 3, 1, 3); | ^ prody/dynamics/rtbtools.c:433:3: error: 'IC' undeclared (first use in this function); did you mean 'I'? 433 | IC = dmatrix(1, 3, 1, 3); | ^~ | I prody/dynamics/rtbtools.c:434:3: error: 'W' undeclared (first use in this function) 434 | W = dvector(1, 3); | ^ prody/dynamics/rtbtools.c:435:3: error: 'A' undeclared (first use in this function) 435 | A = dmatrix(1, 3, 1, 3); | ^ prody/dynamics/rtbtools.c:436:3: error: 'ISQT' undeclared (first use in this function) 436 | ISQT = dmatrix(1, 3, 1, 3); | ^~~~ prody/dynamics/rtbtools.c:445:28: error: subscripted value is neither array nor pointer nor vector 445 | for(i=1; i<=3; i++) I[i][j] = 0.0; | ^ prody/dynamics/rtbtools.c:481:10: error: subscripted value is neither array nor pointer nor vector 481 | I[i][i] += (dd - X[k][i] * X[k][i]); | ^ prody/dynamics/rtbtools.c:484:12: error: subscripted value is neither array nor pointer nor vector 484 | I[i][j] -= X[k][i]*X[k][j]; | ^ prody/dynamics/rtbtools.c:485:12: error: subscripted value is neither array nor pointer nor vector 485 | I[j][i] = I[i][j]; | ^ prody/dynamics/rtbtools.c:485:22: error: subscripted value is neither array nor pointer nor vector 485 | I[j][i] = I[i][j]; | ^ prody/dynamics/rtbtools.c:493:25: error: subscripted value is neither array nor pointer nor vector 493 | IC[i][j]=I[i][j]; | ^ prody/dynamics/rtbtools.c:548:16: error: incompatible type for argument 1 of 'free_dmatrix' 548 | free_dmatrix(I, 1, 3, 1, 3); | ^ | | | complex float prody/dynamics/rtbtools.c:72:28: note: expected 'double **' but argument is of type 'complex float' 72 | void free_dmatrix(double **m, long nrl, long nrh, long ncl, long nch); | ~~~~~~~~~^ error: command '/usr/bin/aarch64-linux-gnu-gcc' failed with exit code 1 E: pybuild pybuild:389: build: plugin distutils failed with: exit code=1: /usr/bin/python3 setup.py build dh_auto_build: error: pybuild --build -i python{version} -p 3.13 returned exit code 13 make: *** [debian/rules:6: binary] Error 25 dpkg-buildpackage: error: debian/rules binary subprocess returned exit status 2 I: copying local configuration E: Failed autobuilding of package I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/1618453 and its subdirectories Starting cleanup. All cleanup done. Fri Apr 25 20:39:07 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-7DLkRSXO, removing. /srv/reproducible-results/rbuild-debian/r-b-build.0VbxGjxK: total 16 drwxr-xr-x 2 jenkins jenkins 4096 Apr 25 20:39 b1 drwxr-xr-x 2 jenkins jenkins 4096 Apr 25 20:37 b2 -rw-r--r-- 1 jenkins jenkins 2243 Feb 13 2024 prody_2.4.1+dfsg-2.dsc -rw------- 1 jenkins jenkins 3366 Apr 25 20:37 rbuildlog.CXSzy8s /srv/reproducible-results/rbuild-debian/r-b-build.0VbxGjxK/b1: total 96 -rw-r--r-- 1 jenkins jenkins 97593 Apr 25 20:39 build.log /srv/reproducible-results/rbuild-debian/r-b-build.0VbxGjxK/b2: total 0 Fri Apr 25 20:39:08 UTC 2025 I: Deleting $TMPDIR on codethink04-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Fri Apr 25 08:37:24 -12 2025 I: pbuilder-time-stamp: 1745613444 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [prody_2.4.1+dfsg-2.dsc] I: copying [./prody_2.4.1+dfsg.orig.tar.xz] I: copying [./prody_2.4.1+dfsg-2.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./prody_2.4.1+dfsg-2.dsc: unsupported subcommand dpkg-source: info: extracting prody in prody-2.4.1+dfsg dpkg-source: info: unpacking prody_2.4.1+dfsg.orig.tar.xz dpkg-source: info: unpacking prody_2.4.1+dfsg-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying no-network-access.patch dpkg-source: info: applying add-missing-test-files.patch dpkg-source: info: applying numpy-1.24.patch dpkg-source: info: applying 1816.patch dpkg-source: info: applying skip-equals-on-vector.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1618453/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='unstable' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='e7a11c6e6dcb49bfba197410e6e64951' 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='1618453' 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.0VbxGjxK/pbuilderrc_IqeL --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.0VbxGjxK/b1 --logfile b1/build.log prody_2.4.1+dfsg-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 codethink04-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 11:20 /bin -> usr/bin I: user script /srv/workspace/pbuilder/1618453/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-python, python3-all-dev, python3-biopython, python3-numpy, python3-pyparsing, python3-scipy, python3-setuptools, python3-zombie-imp dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19953 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-python; however: Package dh-python is not installed. pbuilder-satisfydepends-dummy depends on python3-all-dev; however: Package python3-all-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-biopython; however: Package python3-biopython is not installed. pbuilder-satisfydepends-dummy depends on python3-numpy; however: Package python3-numpy is not installed. pbuilder-satisfydepends-dummy depends on python3-pyparsing; however: Package python3-pyparsing 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. pbuilder-satisfydepends-dummy depends on python3-zombie-imp; however: Package python3-zombie-imp 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} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} fonts-urw-base35{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libblas3{a} libbrotli1{a} libcairo2{a} libdebhelper-perl{a} libdeflate0{a} libelf1t64{a} libexpat1{a} libexpat1-dev{a} libffi8{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfontenc1{a} libfreetype6{a} libfribidi0{a} libgfortran5{a} libglib2.0-0t64{a} libgraphite2-3{a} libharfbuzz0b{a} libimagequant0{a} libjbig0{a} libjpeg62-turbo{a} libjs-jquery{a} libjs-sphinxdoc{a} libjs-underscore{a} liblapack3{a} liblcms2-2{a} liblerc4{a} libmagic-mgc{a} libmagic1t64{a} libopenjp2-7{a} libpipeline1{a} libpixman-1-0{a} libpng16-16t64{a} libpython3-all-dev{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.13{a} libpython3.13-dev{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libraqm0{a} libreadline8t64{a} libsharpyuv0{a} libtiff6{a} libtool{a} libuchardet0{a} libunistring5{a} libwebp7{a} libwebpdemux2{a} libwebpmux3{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb-render0{a} libxcb-shm0{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxml2{a} libxrender1{a} m4{a} man-db{a} media-types{a} netbase{a} po-debconf{a} python3{a} python3-all{a} python3-all-dev{a} python3-autocommand{a} python3-biopython{a} python3-cairo{a} python3-chardet{a} python3-decorator{a} python3-dev{a} python3-freetype{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-minimal{a} python3-more-itertools{a} python3-numpy{a} python3-numpy-dev{a} python3-pil{a} python3-pkg-resources{a} python3-pyparsing{a} python3-reportlab{a} python3-rlpycairo{a} python3-scipy{a} python3-setuptools{a} python3-typeguard{a} python3-typing-extensions{a} python3-zipp{a} python3-zombie-imp{a} python3.13{a} python3.13-dev{a} python3.13-minimal{a} readline-common{a} sensible-utils{a} sgml-base{a} tzdata{a} w3c-sgml-lib{a} x11-common{a} xfonts-encodings{a} xfonts-utils{a} xml-core{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl fonts-dejavu-extra javascript-common libarchive-cpio-perl libglib2.0-data libltdl-dev libmail-sendmail-perl lynx ncbi-blast+ python-biopython-doc python3-olefile python3-pooch python3-yaml shared-mime-info wget xdg-user-dirs 0 packages upgraded, 127 newly installed, 0 to remove and 0 not upgraded. Need to get 72.9 MB of archives. After unpacking 286 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main arm64 libpython3.13-minimal arm64 3.13.3-2 [855 kB] Get: 2 http://deb.debian.org/debian unstable/main arm64 libexpat1 arm64 2.7.1-1 [93.3 kB] Get: 3 http://deb.debian.org/debian unstable/main arm64 python3.13-minimal arm64 3.13.3-2 [1998 kB] Get: 4 http://deb.debian.org/debian unstable/main arm64 python3-minimal arm64 3.13.3-1 [27.2 kB] Get: 5 http://deb.debian.org/debian unstable/main arm64 media-types all 13.0.0 [29.3 kB] Get: 6 http://deb.debian.org/debian unstable/main arm64 netbase all 6.5 [12.4 kB] Get: 7 http://deb.debian.org/debian unstable/main arm64 tzdata all 2025b-2 [260 kB] Get: 8 http://deb.debian.org/debian unstable/main arm64 libffi8 arm64 3.4.8-2 [21.3 kB] Get: 9 http://deb.debian.org/debian unstable/main arm64 readline-common all 8.2-6 [69.4 kB] Get: 10 http://deb.debian.org/debian unstable/main arm64 libreadline8t64 arm64 8.2-6 [159 kB] Get: 11 http://deb.debian.org/debian unstable/main arm64 libpython3.13-stdlib arm64 3.13.3-2 [1890 kB] Get: 12 http://deb.debian.org/debian unstable/main arm64 python3.13 arm64 3.13.3-2 [751 kB] Get: 13 http://deb.debian.org/debian unstable/main arm64 libpython3-stdlib arm64 3.13.3-1 [10.2 kB] Get: 14 http://deb.debian.org/debian unstable/main arm64 python3 arm64 3.13.3-1 [28.2 kB] Get: 15 http://deb.debian.org/debian unstable/main arm64 python3-numpy-dev arm64 1:2.2.4+ds-1 [136 kB] Get: 16 http://deb.debian.org/debian unstable/main arm64 libblas3 arm64 3.12.1-2 [104 kB] Get: 17 http://deb.debian.org/debian unstable/main arm64 libgfortran5 arm64 14.2.0-19 [361 kB] Get: 18 http://deb.debian.org/debian unstable/main arm64 liblapack3 arm64 3.12.1-2 [1819 kB] Get: 19 http://deb.debian.org/debian unstable/main arm64 python3-numpy arm64 1:2.2.4+ds-1 [3604 kB] Get: 20 http://deb.debian.org/debian unstable/main arm64 sensible-utils all 0.0.25 [25.0 kB] Get: 21 http://deb.debian.org/debian unstable/main arm64 libmagic-mgc arm64 1:5.46-5 [338 kB] Get: 22 http://deb.debian.org/debian unstable/main arm64 libmagic1t64 arm64 1:5.46-5 [103 kB] Get: 23 http://deb.debian.org/debian unstable/main arm64 file arm64 1:5.46-5 [43.7 kB] Get: 24 http://deb.debian.org/debian unstable/main arm64 gettext-base arm64 0.23.1-1 [241 kB] Get: 25 http://deb.debian.org/debian unstable/main arm64 libuchardet0 arm64 0.0.8-1+b2 [69.2 kB] Get: 26 http://deb.debian.org/debian unstable/main arm64 groff-base arm64 1.23.0-7 [1129 kB] Get: 27 http://deb.debian.org/debian unstable/main arm64 bsdextrautils arm64 2.41-4 [93.9 kB] Get: 28 http://deb.debian.org/debian unstable/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 29 http://deb.debian.org/debian unstable/main arm64 man-db arm64 2.13.0-1 [1404 kB] Get: 30 http://deb.debian.org/debian unstable/main arm64 m4 arm64 1.4.19-8 [285 kB] Get: 31 http://deb.debian.org/debian unstable/main arm64 autoconf all 2.72-3.1 [494 kB] Get: 32 http://deb.debian.org/debian unstable/main arm64 autotools-dev all 20240727.1 [60.2 kB] Get: 33 http://deb.debian.org/debian unstable/main arm64 automake all 1:1.17-4 [862 kB] Get: 34 http://deb.debian.org/debian unstable/main arm64 autopoint all 0.23.1-1 [770 kB] Get: 35 http://deb.debian.org/debian unstable/main arm64 libdebhelper-perl all 13.24.2 [90.9 kB] Get: 36 http://deb.debian.org/debian unstable/main arm64 libtool all 2.5.4-4 [539 kB] Get: 37 http://deb.debian.org/debian unstable/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 38 http://deb.debian.org/debian unstable/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 39 http://deb.debian.org/debian unstable/main arm64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 40 http://deb.debian.org/debian unstable/main arm64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 41 http://deb.debian.org/debian unstable/main arm64 libelf1t64 arm64 0.192-4 [189 kB] Get: 42 http://deb.debian.org/debian unstable/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 43 http://deb.debian.org/debian unstable/main arm64 libunistring5 arm64 1.3-2 [453 kB] Get: 44 http://deb.debian.org/debian unstable/main arm64 libxml2 arm64 2.12.7+dfsg+really2.9.14-0.4 [629 kB] Get: 45 http://deb.debian.org/debian unstable/main arm64 gettext arm64 0.23.1-1 [1610 kB] Get: 46 http://deb.debian.org/debian unstable/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 47 http://deb.debian.org/debian unstable/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 48 http://deb.debian.org/debian unstable/main arm64 debhelper all 13.24.2 [919 kB] Get: 49 http://deb.debian.org/debian unstable/main arm64 dh-python all 6.20250414 [116 kB] Get: 50 http://deb.debian.org/debian unstable/main arm64 fonts-dejavu-mono all 2.37-8 [489 kB] Get: 51 http://deb.debian.org/debian unstable/main arm64 fonts-dejavu-core all 2.37-8 [840 kB] Get: 52 http://deb.debian.org/debian unstable/main arm64 libfontenc1 arm64 1:1.1.8-1+b2 [22.5 kB] Get: 53 http://deb.debian.org/debian unstable/main arm64 libbrotli1 arm64 1.1.0-2+b7 [308 kB] Get: 54 http://deb.debian.org/debian unstable/main arm64 libpng16-16t64 arm64 1.6.47-1.1 [274 kB] Get: 55 http://deb.debian.org/debian unstable/main arm64 libfreetype6 arm64 2.13.3+dfsg-1 [422 kB] Get: 56 http://deb.debian.org/debian unstable/main arm64 x11-common all 1:7.7+24 [217 kB] Get: 57 http://deb.debian.org/debian unstable/main arm64 xfonts-encodings all 1:1.0.4-2.2 [577 kB] Get: 58 http://deb.debian.org/debian unstable/main arm64 xfonts-utils arm64 1:7.7+7 [89.3 kB] Get: 59 http://deb.debian.org/debian unstable/main arm64 fonts-urw-base35 all 20200910-8 [10.8 MB] Get: 60 http://deb.debian.org/debian unstable/main arm64 fontconfig-config arm64 2.15.0-2.3 [318 kB] Get: 61 http://deb.debian.org/debian unstable/main arm64 libfontconfig1 arm64 2.15.0-2.3 [387 kB] Get: 62 http://deb.debian.org/debian unstable/main arm64 libpixman-1-0 arm64 0.44.0-3 [168 kB] Get: 63 http://deb.debian.org/debian unstable/main arm64 libxau6 arm64 1:1.0.11-1 [20.6 kB] Get: 64 http://deb.debian.org/debian unstable/main arm64 libxdmcp6 arm64 1:1.1.5-1 [27.8 kB] Get: 65 http://deb.debian.org/debian unstable/main arm64 libxcb1 arm64 1.17.0-2+b1 [143 kB] Get: 66 http://deb.debian.org/debian unstable/main arm64 libx11-data all 2:1.8.12-1 [343 kB] Get: 67 http://deb.debian.org/debian unstable/main arm64 libx11-6 arm64 2:1.8.12-1 [795 kB] Get: 68 http://deb.debian.org/debian unstable/main arm64 libxcb-render0 arm64 1.17.0-2+b1 [115 kB] Get: 69 http://deb.debian.org/debian unstable/main arm64 libxcb-shm0 arm64 1.17.0-2+b1 [105 kB] Get: 70 http://deb.debian.org/debian unstable/main arm64 libxext6 arm64 2:1.3.4-1+b3 [49.2 kB] Get: 71 http://deb.debian.org/debian unstable/main arm64 libxrender1 arm64 1:0.9.12-1 [27.0 kB] Get: 72 http://deb.debian.org/debian unstable/main arm64 libcairo2 arm64 1.18.4-1+b1 [483 kB] Get: 73 http://deb.debian.org/debian unstable/main arm64 libdeflate0 arm64 1.23-2 [42.4 kB] Get: 74 http://deb.debian.org/debian unstable/main arm64 libexpat1-dev arm64 2.7.1-1 [145 kB] Get: 75 http://deb.debian.org/debian unstable/main arm64 libfribidi0 arm64 1.0.16-1 [26.5 kB] Get: 76 http://deb.debian.org/debian unstable/main arm64 libglib2.0-0t64 arm64 2.84.1-2 [1423 kB] Get: 77 http://deb.debian.org/debian unstable/main arm64 libgraphite2-3 arm64 1.3.14-2+b1 [70.4 kB] Get: 78 http://deb.debian.org/debian unstable/main arm64 libharfbuzz0b arm64 10.2.0-1+b1 [442 kB] Get: 79 http://deb.debian.org/debian unstable/main arm64 libimagequant0 arm64 2.18.0-1+b2 [34.6 kB] Get: 80 http://deb.debian.org/debian unstable/main arm64 libjbig0 arm64 2.1-6.1+b2 [30.4 kB] Get: 81 http://deb.debian.org/debian unstable/main arm64 libjpeg62-turbo arm64 1:2.1.5-3.1 [173 kB] Get: 82 http://deb.debian.org/debian unstable/main arm64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 83 http://deb.debian.org/debian unstable/main arm64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 84 http://deb.debian.org/debian unstable/main arm64 libjs-sphinxdoc all 8.1.3-5 [30.5 kB] Get: 85 http://deb.debian.org/debian unstable/main arm64 liblcms2-2 arm64 2.16-2 [151 kB] Get: 86 http://deb.debian.org/debian unstable/main arm64 liblerc4 arm64 4.0.0+ds-5 [146 kB] Get: 87 http://deb.debian.org/debian unstable/main arm64 libopenjp2-7 arm64 2.5.3-2 [190 kB] Get: 88 http://deb.debian.org/debian unstable/main arm64 libpython3.13 arm64 3.13.3-2 [1975 kB] Get: 89 http://deb.debian.org/debian unstable/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1+b1 [917 kB] Get: 90 http://deb.debian.org/debian unstable/main arm64 libpython3.13-dev arm64 3.13.3-2 [4688 kB] Get: 91 http://deb.debian.org/debian unstable/main arm64 libpython3-dev arm64 3.13.3-1 [10.4 kB] Get: 92 http://deb.debian.org/debian unstable/main arm64 libpython3-all-dev arm64 3.13.3-1 [1068 B] Get: 93 http://deb.debian.org/debian unstable/main arm64 libraqm0 arm64 0.10.2-1 [13.6 kB] Get: 94 http://deb.debian.org/debian unstable/main arm64 libsharpyuv0 arm64 1.5.0-0.1 [114 kB] Get: 95 http://deb.debian.org/debian unstable/main arm64 libwebp7 arm64 1.5.0-0.1 [271 kB] Get: 96 http://deb.debian.org/debian unstable/main arm64 libtiff6 arm64 4.7.0-3 [325 kB] Get: 97 http://deb.debian.org/debian unstable/main arm64 libwebpdemux2 arm64 1.5.0-0.1 [113 kB] Get: 98 http://deb.debian.org/debian unstable/main arm64 libwebpmux3 arm64 1.5.0-0.1 [125 kB] Get: 99 http://deb.debian.org/debian unstable/main arm64 python3-all arm64 3.13.3-1 [1048 B] Get: 100 http://deb.debian.org/debian unstable/main arm64 python3.13-dev arm64 3.13.3-2 [508 kB] Get: 101 http://deb.debian.org/debian unstable/main arm64 python3-dev arm64 3.13.3-1 [26.1 kB] Get: 102 http://deb.debian.org/debian unstable/main arm64 python3-all-dev arm64 3.13.3-1 [1068 B] Get: 103 http://deb.debian.org/debian unstable/main arm64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 104 http://deb.debian.org/debian unstable/main arm64 python3-chardet all 5.2.0+dfsg-2 [108 kB] Get: 105 http://deb.debian.org/debian unstable/main arm64 python3-pil arm64 11.1.0-5+b1 [495 kB] Get: 106 http://deb.debian.org/debian unstable/main arm64 python3-cairo arm64 1.27.0-2 [114 kB] Get: 107 http://deb.debian.org/debian unstable/main arm64 python3-freetype all 2.5.1-1 [89.3 kB] Get: 108 http://deb.debian.org/debian unstable/main arm64 python3-rlpycairo all 0.3.0-3 [9904 B] Get: 109 http://deb.debian.org/debian unstable/main arm64 python3-reportlab all 4.3.1-1 [1158 kB] Get: 110 http://deb.debian.org/debian unstable/main arm64 sgml-base all 1.31+nmu1 [10.9 kB] Get: 111 http://deb.debian.org/debian unstable/main arm64 xml-core all 0.19 [20.1 kB] Get: 112 http://deb.debian.org/debian unstable/main arm64 w3c-sgml-lib all 1.3-3 [273 kB] Get: 113 http://deb.debian.org/debian unstable/main arm64 python3-biopython arm64 1.85+dfsg-4 [1657 kB] Get: 114 http://deb.debian.org/debian unstable/main arm64 python3-decorator all 5.2.1-2 [33.0 kB] Get: 115 http://deb.debian.org/debian unstable/main arm64 python3-more-itertools all 10.6.0-1 [65.3 kB] Get: 116 http://deb.debian.org/debian unstable/main arm64 python3-typing-extensions all 4.13.2-1 [90.5 kB] Get: 117 http://deb.debian.org/debian unstable/main arm64 python3-typeguard all 4.4.2-1 [37.3 kB] Get: 118 http://deb.debian.org/debian unstable/main arm64 python3-inflect all 7.3.1-2 [32.4 kB] Get: 119 http://deb.debian.org/debian unstable/main arm64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 120 http://deb.debian.org/debian unstable/main arm64 python3-pkg-resources all 78.1.0-1.2 [224 kB] Get: 121 http://deb.debian.org/debian unstable/main arm64 python3-jaraco.text all 4.0.0-1 [11.4 kB] Get: 122 http://deb.debian.org/debian unstable/main arm64 python3-zipp all 3.21.0-1 [10.6 kB] Get: 123 http://deb.debian.org/debian unstable/main arm64 python3-setuptools all 78.1.0-1.2 [738 kB] Get: 124 http://deb.debian.org/debian unstable/main arm64 python3-jaraco.context all 6.0.1-1 [8276 B] Get: 125 http://deb.debian.org/debian unstable/main arm64 python3-pyparsing all 3.1.2-1 [146 kB] Get: 126 http://deb.debian.org/debian unstable/main arm64 python3-scipy arm64 1.15.2-8 [14.8 MB] Get: 127 http://deb.debian.org/debian unstable/main arm64 python3-zombie-imp all 0.0.3-1 [11.9 kB] Fetched 72.9 MB in 0s (237 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 ... 19953 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 ... 20287 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.13.3-1_arm64.deb ... Unpacking python3-minimal (3.13.3-1) ... 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-2_all.deb ... Unpacking tzdata (2025b-2) ... Selecting previously unselected package libffi8:arm64. Preparing to unpack .../4-libffi8_3.4.8-2_arm64.deb ... Unpacking libffi8:arm64 (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: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) ... 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Setting up libbrotli1:arm64 (1.1.0-2+b7) ... Setting up libmagic1t64:arm64 (1:5.46-5) ... Setting up x11-common (1:7.7+24) ... invoke-rc.d: could not determine current runlevel Setting up X socket directories... /tmp/.X11-unix /tmp/.ICE-unix. Setting up libdeflate0:arm64 (1.23-2) ... Setting up gettext-base (0.23.1-1) ... Setting up m4 (1.4.19-8) ... Setting up libxcb-shm0:arm64 (1.17.0-2+b1) ... Setting up file (1:5.46-5) ... Setting up libjbig0:arm64 (2.1-6.1+b2) ... 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 20:37:49 UTC 2025. Universal Time is now: Fri Apr 25 20:37:49 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libfontenc1:arm64 (1:1.1.8-1+b2) ... 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 libexpat1-dev:arm64 (2.7.1-1) ... Setting up libjpeg62-turbo:arm64 (1:2.1.5-3.1) ... Setting up libx11-data (2:1.8.12-1) ... Setting up xfonts-encodings (1:1.0.4-2.2) ... Setting up libfribidi0:arm64 (1.0.16-1) ... Setting up libimagequant0:arm64 (2.18.0-1+b2) ... Setting up libunistring5:arm64 (1.3-2) ... Setting up fonts-dejavu-mono (2.37-8) ... Setting up libpng16-16t64:arm64 (1.6.47-1.1) ... Setting up python3-numpy-dev:arm64 (1:2.2.4+ds-1) ... Setting up autopoint (0.23.1-1) ... Setting up fonts-dejavu-core (2.37-8) ... Setting up libgfortran5:arm64 (14.2.0-19) ... Setting up autoconf (2.72-3.1) ... Setting up libwebp7:arm64 (1.5.0-0.1) ... Setting up zlib1g-dev:arm64 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up libffi8:arm64 (3.4.8-2) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.25) ... Setting up libtiff6:arm64 (4.7.0-3) ... Setting up libuchardet0:arm64 (0.0.8-1+b2) ... Setting up libopenjp2-7:arm64 (2.5.3-2) ... Setting up libx11-6:arm64 (2:1.8.12-1) ... Setting up netbase (6.5) ... Setting up sgml-base (1.31+nmu1) ... Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Setting up libwebpmux3:arm64 (1.5.0-0.1) ... Setting up readline-common (8.2-6) ... Setting up libxml2:arm64 (2.12.7+dfsg+really2.9.14-0.4) ... Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 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 libxrender1:arm64 (1:0.9.12-1) ... Setting up libtool (2.5.4-4) ... Setting up fontconfig-config (2.15.0-2.3) ... Setting up libwebpdemux2:arm64 (1.5.0-0.1) ... Setting up libxext6:arm64 (2:1.3.4-1+b3) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libglib2.0-0t64:arm64 (2.84.1-2) ... No schema files found: doing nothing. Setting up libfreetype6:arm64 (2.13.3+dfsg-1) ... Setting up libjs-sphinxdoc (8.1.3-5) ... 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 xml-core (0.19) ... Setting up libharfbuzz0b:arm64 (10.2.0-1+b1) ... Setting up libfontconfig1:arm64 (2.15.0-2.3) ... Setting up libpython3.13-stdlib:arm64 (3.13.3-2) ... Setting up libpython3-stdlib:arm64 (3.13.3-1) ... Setting up libpython3.13:arm64 (3.13.3-2) ... Setting up python3.13 (3.13.3-2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up python3 (3.13.3-1) ... Setting up python3-zipp (3.21.0-1) ... Setting up python3-freetype (2.5.1-1) ... Setting up xfonts-utils (1:7.7+7) ... 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 libcairo2:arm64 (1.18.4-1+b1) ... Setting up python3-decorator (5.2.1-2) ... Setting up python3-chardet (5.2.0+dfsg-2) ... Setting up python3-pyparsing (3.1.2-1) ... Setting up libraqm0:arm64 (0.10.2-1) ... Setting up libpython3.13-dev:arm64 (3.13.3-2) ... Setting up python3-typing-extensions (4.13.2-1) ... Setting up python3-numpy (1:2.2.4+ds-1) ... Setting up dh-python (6.20250414) ... Setting up python3-more-itertools (10.6.0-1) ... Setting up python3-zombie-imp (0.0.3-1) ... Setting up python3-scipy (1.15.2-8) ... Setting up libpython3-dev:arm64 (3.13.3-1) ... Setting up python3-cairo (1.27.0-2) ... Setting up python3-jaraco.functools (4.1.0-1) ... Setting up python3-jaraco.context (6.0.1-1) ... Setting up python3.13-dev (3.13.3-2) ... Setting up python3-typeguard (4.4.2-1) ... Setting up python3-all (3.13.3-1) ... Setting up debhelper (13.24.2) ... Setting up fonts-urw-base35 (20200910-8) ... Setting up python3-pil:arm64 (11.1.0-5+b1) ... Setting up python3-inflect (7.3.1-2) ... Setting up python3-rlpycairo (0.3.0-3) ... Setting up libpython3-all-dev:arm64 (3.13.3-1) ... Setting up python3-jaraco.text (4.0.0-1) ... Setting up python3-dev (3.13.3-1) ... Setting up python3-reportlab (4.3.1-1) ... Setting up python3-pkg-resources (78.1.0-1.2) ... Setting up python3-all-dev (3.13.3-1) ... Setting up python3-setuptools (78.1.0-1.2) ... Processing triggers for libc-bin (2.41-7) ... Processing triggers for sgml-base (1.31+nmu1) ... Setting up w3c-sgml-lib (1.3-3) ... Setting up python3-biopython (1.85+dfsg-4) ... 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/prody-2.4.1+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../prody_2.4.1+dfsg-2_source.changes dpkg-buildpackage: info: source package prody dpkg-buildpackage: info: source version 2.4.1+dfsg-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andrius Merkys dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean --buildsystem pybuild --with numpy3,python3 dh_auto_clean -O--buildsystem=pybuild I: pybuild base:311: python3.13 setup.py clean /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/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/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 debian/rules execute_after_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/prody-2.4.1+dfsg' rm -rf ProDy.egg-info make[1]: Leaving directory '/build/reproducible-path/prody-2.4.1+dfsg' dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary dh binary --buildsystem pybuild --with numpy3,python3 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: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: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/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody copying prody/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/pointer.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/atom.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/subset.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/selection.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/select.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/segment.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/residue.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/nbexclusion.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/improper.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/hierview.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/functions.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/flags.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/fields.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/donor.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/dihedral.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/crossterm.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/chain.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/bond.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/atommap.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/atomic.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/atomgroup.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/angle.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/acceptor.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic copying prody/atomic/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/atomic creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/database copying prody/database/uniprot.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/database copying prody/database/quartataweb.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/database copying prody/database/pfam.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/database copying prody/database/goa.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/database copying prody/database/dali.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/database copying prody/database/cath.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/database copying prody/database/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/database creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/vmdfile.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/signature.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/sampling.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/rtb.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/plotting.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/perturb.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/pca.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/nmdfile.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/nma.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/modeset.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/mode.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/mechstiff.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/imanm.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/heatmapper.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/gnm.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/gamma.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/functions.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/exgnm.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/exanm.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/essa.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/entropy.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/editing.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/compare.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/clustenm.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/bildfile.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/bbenm.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/anm.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/analysis.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/adaptive.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics copying prody/dynamics/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/dynamics creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/ensemble copying prody/ensemble/pdbensemble.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/ensemble copying prody/ensemble/functions.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/ensemble copying prody/ensemble/ensemble.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/ensemble copying prody/ensemble/conformation.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/ensemble copying prody/ensemble/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/ensemble creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/kdtree copying prody/kdtree/kdtree.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/kdtree copying prody/kdtree/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/kdtree creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/measure copying prody/measure/transform.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/measure copying prody/measure/measure.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/measure copying prody/measure/contacts.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/measure copying prody/measure/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/measure creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins copying prody/proteins/ciffile.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins copying prody/proteins/pdbfile.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins copying prody/proteins/wwpdb.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins copying prody/proteins/waterbridges.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins copying prody/proteins/stride.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins copying prody/proteins/starfile.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins copying prody/proteins/pdbclusters.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins copying prody/proteins/localpdb.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins copying prody/proteins/header.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins copying prody/proteins/functions.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins copying prody/proteins/fixer.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins copying prody/proteins/emdfile.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins copying prody/proteins/dssp.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins copying prody/proteins/compare.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins copying prody/proteins/cifheader.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins copying prody/proteins/blastpdb.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins copying prody/proteins/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/proteins creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/sequence copying prody/sequence/msa.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/sequence copying prody/sequence/sequence.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/sequence copying prody/sequence/plotting.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/sequence copying prody/sequence/msafile.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/sequence copying prody/sequence/analysis.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/sequence copying prody/sequence/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/sequence creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/trajectory copying prody/trajectory/trajfile.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/trajectory copying prody/trajectory/trajectory.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/trajectory copying prody/trajectory/trajbase.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/trajectory copying prody/trajectory/psffile.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/trajectory copying prody/trajectory/frame.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/trajectory copying prody/trajectory/dcdfile.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/trajectory copying prody/trajectory/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/trajectory creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/chromatin copying prody/chromatin/straw.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/chromatin copying prody/chromatin/norm.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/chromatin copying prody/chromatin/hic.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/chromatin copying prody/chromatin/functions.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/chromatin copying prody/chromatin/cluster.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/chromatin copying prody/chromatin/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/chromatin creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/compounds copying prody/compounds/pdbligands.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/compounds copying prody/compounds/functions.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/compounds copying prody/compounds/ccd.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/compounds copying prody/compounds/bird.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/compounds copying prody/compounds/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/compounds creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/domain_decomposition copying prody/domain_decomposition/spectrus.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/domain_decomposition copying prody/domain_decomposition/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/domain_decomposition creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities copying prody/utilities/catchall.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities copying prody/utilities/seqtools.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities copying prody/utilities/settings.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities copying prody/utilities/pathtools.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities copying prody/utilities/misctools.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities copying prody/utilities/logger.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities copying prody/utilities/legacy.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities copying prody/utilities/laptools.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities copying prody/utilities/eigtools.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities copying prody/utilities/drawtools.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities copying prody/utilities/doctools.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities copying prody/utilities/checkers.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities copying prody/utilities/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities copying prody/utilities/TreeConstruction.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps copying prody/apps/apptools.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps copying prody/apps/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_select.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_pca.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_gnm.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_fetch.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_energy.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_eda.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_contacts.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_clustenm.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_catdcd.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_blast.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_biomol.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_anm.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_align.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/nmaoptions.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/prody_apps creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_search.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_refine.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_rankorder.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_occupancy.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_merge.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_filter.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_fetch.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_conserv.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_coevol.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/apps/evol_apps creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests copying prody/tests/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/apps copying prody/tests/apps/test_prody_pca.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/apps copying prody/tests/apps/test_prody_gnm.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/apps copying prody/tests/apps/test_prody_examples.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/apps copying prody/tests/apps/test_prody_catdcd.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/apps copying prody/tests/apps/test_prody_anm.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/apps copying prody/tests/apps/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/apps creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/atomic copying prody/tests/atomic/test_select.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/atomic copying prody/tests/atomic/test_subset.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/atomic copying prody/tests/atomic/test_hierview.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/atomic copying prody/tests/atomic/test_fragment.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/atomic copying prody/tests/atomic/test_atommap.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/atomic copying prody/tests/atomic/test_atomic.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/atomic copying prody/tests/atomic/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/atomic creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/dynamics copying prody/tests/dynamics/test_signature.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/dynamics copying prody/tests/dynamics/test_pca.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/dynamics copying prody/tests/dynamics/test_enms.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/dynamics copying prody/tests/dynamics/test_editing.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/dynamics copying prody/tests/dynamics/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/dynamics creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/ensemble copying prody/tests/ensemble/test_pdbensemble.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/ensemble copying prody/tests/ensemble/test_functions.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/ensemble copying prody/tests/ensemble/test_ensemble.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/ensemble copying prody/tests/ensemble/test_conformation.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/ensemble copying prody/tests/ensemble/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/ensemble creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/kdtree copying prody/tests/kdtree/test_kdtree.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/kdtree copying prody/tests/kdtree/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/kdtree creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/measure copying prody/tests/measure/test_transform.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/measure copying prody/tests/measure/test_measure.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/measure copying prody/tests/measure/test_contacts.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/measure copying prody/tests/measure/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/measure creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/proteins copying prody/tests/proteins/test_wwpdb.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/proteins copying prody/tests/proteins/test_localpdb.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/proteins copying prody/tests/proteins/test_pdbfile.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/proteins copying prody/tests/proteins/test_header.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/proteins copying prody/tests/proteins/test_dssp.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/proteins copying prody/tests/proteins/test_ciffile.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/proteins copying prody/tests/proteins/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/proteins creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/sequence copying prody/tests/sequence/test_analysis.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/sequence copying prody/tests/sequence/test_sequence.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/sequence copying prody/tests/sequence/test_msafile.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/sequence copying prody/tests/sequence/test_msa.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/sequence copying prody/tests/sequence/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/sequence creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/trajectory copying prody/tests/trajectory/test_frame.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/trajectory copying prody/tests/trajectory/test_dcdfile.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/trajectory copying prody/tests/trajectory/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/trajectory creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/utilities copying prody/tests/utilities/test_pathtools.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/utilities copying prody/tests/utilities/test_misctools.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/utilities copying prody/tests/utilities/test_checkers.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/utilities copying prody/tests/utilities/__init__.py -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/utilities creating /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities/datafiles copying prody/utilities/datafiles/saxs_water.dat -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities/datafiles copying prody/utilities/datafiles/mod_res_map.dat -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/utilities/datafiles copying prody/tests/datafiles/pdbRTER.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb6fpj_Bb_fixed_solv_ions.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb4v8r_hex.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb4v8r_h36.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb3p3w.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb3o21.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb3mht.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb3hsy.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb2nwl-opm.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb2k39_truncated.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb2k39_ca.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb2gb1_truncated.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1ubi_ca.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1ubi.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1tw7_step3_charmm2namd_doubled_hex.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1tw7_step3_charmm2namd_doubled_h36.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1tw7_step3_charmm2namd.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1r19_dssp.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1ejg_oneatom.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1ejg.pdb -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pca2k39_vectors.dat -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pca2k39_evalues.dat -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/msa_Cys_knot_sca.dat -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/msa_Cys_knot_di.dat -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/hit1ubi.dat -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/gnm1ubi_vectors.dat -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/gnm1ubi_evalues.dat -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/exanm2nwl_vectors.dat -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/exanm2nwl_evalues.dat -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/commute1ubi.dat -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/anm1ubi_vectors.dat -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/anm1ubi_evalues.dat -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/mmcif_6zu5.cif -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/mmcif_6yfy.cif -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/rtb2gb1_project.coo -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/rtb2gb1_hessian.coo -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pca2k39_cov.coo -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/gnm1ubi_kirchhoff.coo -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/exanm2nwl_hessian.coo -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/anm1ubi_hessian.coo -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/dcd2k39_truncated.dcd -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/xmlSTI.xml -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/msa_3hsyA_3o21A_new.fasta -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/msa_Cys_knot.sth -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/msa_Cys_knot.slx -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/msa_Cys_knot.fasta -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles copying prody/tests/datafiles/msa_3hsyA_3o21A.fasta -> /build/reproducible-path/prody-2.4.1+dfsg/.pybuild/cpython3_3.13_prody/build/prody/tests/datafiles running build_ext building 'prody.dynamics.rtbtools' extension creating build/temp.linux-aarch64-cpython-313/prody/dynamics aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/prody-2.4.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c prody/dynamics/rtbtools.c -o build/temp.linux-aarch64-cpython-313/prody/dynamics/rtbtools.o In file included from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/npy_common.h:380, from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h:4, from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h:12, from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h:5, from prody/dynamics/rtbtools.c:9: prody/dynamics/rtbtools.c: In function 'dblock_projections2': prody/dynamics/rtbtools.c:422:17: error: expected identifier or '(' before '__extension__' 422 | double **X, **I, **IC, *CM, *W, **A, **ISQT; | ^ prody/dynamics/rtbtools.c:431:3: error: 'CM' undeclared (first use in this function) 431 | CM = dvector(1, 3); | ^~ prody/dynamics/rtbtools.c:431:3: note: each undeclared identifier is reported only once for each function it appears in prody/dynamics/rtbtools.c:432:5: error: lvalue required as left operand of assignment 432 | I = dmatrix(1, 3, 1, 3); | ^ prody/dynamics/rtbtools.c:433:3: error: 'IC' undeclared (first use in this function); did you mean 'I'? 433 | IC = dmatrix(1, 3, 1, 3); | ^~ | I prody/dynamics/rtbtools.c:434:3: error: 'W' undeclared (first use in this function) 434 | W = dvector(1, 3); | ^ prody/dynamics/rtbtools.c:435:3: error: 'A' undeclared (first use in this function) 435 | A = dmatrix(1, 3, 1, 3); | ^ prody/dynamics/rtbtools.c:436:3: error: 'ISQT' undeclared (first use in this function) 436 | ISQT = dmatrix(1, 3, 1, 3); | ^~~~ prody/dynamics/rtbtools.c:445:28: error: subscripted value is neither array nor pointer nor vector 445 | for(i=1; i<=3; i++) I[i][j] = 0.0; | ^ prody/dynamics/rtbtools.c:481:10: error: subscripted value is neither array nor pointer nor vector 481 | I[i][i] += (dd - X[k][i] * X[k][i]); | ^ prody/dynamics/rtbtools.c:484:12: error: subscripted value is neither array nor pointer nor vector 484 | I[i][j] -= X[k][i]*X[k][j]; | ^ prody/dynamics/rtbtools.c:485:12: error: subscripted value is neither array nor pointer nor vector 485 | I[j][i] = I[i][j]; | ^ prody/dynamics/rtbtools.c:485:22: error: subscripted value is neither array nor pointer nor vector 485 | I[j][i] = I[i][j]; | ^ prody/dynamics/rtbtools.c:493:25: error: subscripted value is neither array nor pointer nor vector 493 | IC[i][j]=I[i][j]; | ^ prody/dynamics/rtbtools.c:548:16: error: incompatible type for argument 1 of 'free_dmatrix' 548 | free_dmatrix(I, 1, 3, 1, 3); | ^ | | | complex float prody/dynamics/rtbtools.c:72:28: note: expected 'double **' but argument is of type 'complex float' 72 | void free_dmatrix(double **m, long nrl, long nrh, long ncl, long nch); | ~~~~~~~~~^ error: command '/usr/bin/aarch64-linux-gnu-gcc' failed with exit code 1 E: pybuild pybuild:389: build: plugin distutils failed with: exit code=1: /usr/bin/python3 setup.py build dh_auto_build: error: pybuild --build -i python{version} -p 3.13 returned exit code 13 make: *** [debian/rules:6: binary] Error 25 dpkg-buildpackage: error: debian/rules binary subprocess returned exit status 2 I: copying local configuration E: Failed autobuilding of package I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/1618453 and its subdirectories prody failed to build from source. removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/arm64/prody_2.4.1+dfsg-2.rbuild.log' removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/arm64/prody_2.4.1+dfsg-2.rbuild.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/unstable/arm64/prody_2.4.1+dfsg-2.build1.log.gz' Fri Apr 25 20:39:09 UTC 2025 W: No second build log, what happened? Compressing the 1st log... b1/build.log: 86.3% -- replaced with stdout INSERT 0 1 INSERT 0 1 DELETE 1 [2025-04-25 20:39:10] INFO: Starting at 2025-04-25 20:39:10.366638 [2025-04-25 20:39:10] INFO: Generating the pages of 1 package(s) [2025-04-25 20:39:10] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/amd64/prody_2.4.1+dfsg-2.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/amd64/prody_2.4.1+dfsg-2.diff.gz is missing [2025-04-25 20:39:10] CRITICAL: https://tests.reproducible-builds.org/debian/unstable/arm64/prody didn't produce a buildlog, even though it has been built. [2025-04-25 20:39:10] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/armhf/prody_2.4.1+dfsg-2.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/armhf/prody_2.4.1+dfsg-2.diff.gz is missing [2025-04-25 20:39:10] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/i386/prody_2.4.1+dfsg-2.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/i386/prody_2.4.1+dfsg-2.diff.gz is missing [2025-04-25 20:39:10] INFO: Finished at 2025-04-25 20:39:10.570364, took: 0:00:00.203731 Fri Apr 25 20:39:10 UTC 2025 - successfully updated the database and updated https://tests.reproducible-builds.org/debian/rb-pkg/unstable/arm64/prody.html Starting cleanup. /var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/arm64/prody_2.4.1+dfsg-2.rbuild.log: 85.0% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/arm64/prody_2.4.1+dfsg-2.rbuild.log.gz [2025-04-25 20:39:10] INFO: Starting at 2025-04-25 20:39:10.955413 [2025-04-25 20:39:11] INFO: Generating the pages of 1 package(s) [2025-04-25 20:39:11] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/amd64/prody_2.4.1+dfsg-2.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/amd64/prody_2.4.1+dfsg-2.diff.gz is missing [2025-04-25 20:39:11] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/arm64/prody_2.4.1+dfsg-2.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/arm64/prody_2.4.1+dfsg-2.diff.gz is missing [2025-04-25 20:39:11] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/armhf/prody_2.4.1+dfsg-2.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/armhf/prody_2.4.1+dfsg-2.diff.gz is missing [2025-04-25 20:39:11] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/i386/prody_2.4.1+dfsg-2.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/i386/prody_2.4.1+dfsg-2.diff.gz is missing [2025-04-25 20:39:11] INFO: Finished at 2025-04-25 20:39:11.151397, took: 0:00:00.195994 All cleanup done. Fri Apr 25 20:39:11 UTC 2025 - total duration: 0h 1m 55s. Fri Apr 25 20:39:11 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-XCjbJCc2, removing. Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 1min 57.024s CPU time consumed: 4.646s