Fri Aug 15 22:49:02 UTC 2025 I: starting to build python-bx/forky/arm64 on jenkins on '2025-08-15 22:48' Fri Aug 15 22:49:02 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_2/108543/console.log Fri Aug 15 22:49:02 UTC 2025 I: Downloading source for forky/python-bx=0.13.0-1 --2025-08-15 22:49:02-- http://deb.debian.org/debian/pool/main/p/python-bx/python-bx_0.13.0-1.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2278 (2.2K) [text/prs.lines.tag] Saving to: ‘python-bx_0.13.0-1.dsc’ 0K .. 100% 253M=0s 2025-08-15 22:49:02 (253 MB/s) - ‘python-bx_0.13.0-1.dsc’ saved [2278/2278] Fri Aug 15 22:49:02 UTC 2025 I: python-bx_0.13.0-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: python-bx Binary: python3-bx Architecture: any Version: 0.13.0-1 Maintainer: Debian Med Packaging Team Uploaders: Steffen Moeller , Michael R. Crusoe Homepage: https://github.com/bxlab/bx-python Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/python-bx Vcs-Git: https://salsa.debian.org/med-team/python-bx.git Testsuite: autopkgtest-pkg-pybuild Build-Depends: debhelper-compat (= 13), dh-sequence-python3, zlib1g-dev, python3-setuptools, pybuild-plugin-pyproject, python3-all-dev:any, python3-lzo, python3-pyparsing , python3-pytest , python3-pytest-cython , python3-numpy , cython3 Package-List: python3-bx deb python optional arch=any Checksums-Sha1: bb4f1db8e7b49d900539bb64d9ab0ad5f4c43d32 1611987 python-bx_0.13.0.orig.tar.gz 4808d7a9e143f7f499919386c5f588e03abb6e3a 13776 python-bx_0.13.0-1.debian.tar.xz Checksums-Sha256: 90016460f4799758dc2891cf3209fbbbe41c9e7221a49821d958089c47bbbe33 1611987 python-bx_0.13.0.orig.tar.gz d5fe0a9a7be30de674e37179ab793f79d3bad9a8605912c2c0dcbb760d68db44 13776 python-bx_0.13.0-1.debian.tar.xz Files: f1b5b00c996f8a4ff38794ab99b67ccf 1611987 python-bx_0.13.0.orig.tar.gz e8f33be59957a3d3c129d93dd9d2f56c 13776 python-bx_0.13.0-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEEj23hBDd/OxHnQXSHMfMURUShdBoFAmbwDOsRHHRjaGV0QGRl Ymlhbi5vcmcACgkQMfMURUShdBpS7g/7BThgZunzgEQa4fEUqnQf7sXzJillGwT5 021g3KE4LfdjYrs4uKBdxUj+qvMT43W8WQAmy0cQwIjY89K+HL0a1idATbb1gW2g ROXfYfw9dxKjtv1LtibgTR2jl9JmhqxhDoPJ5eIv0vqM4SKcBXZiAHrflEFoIfII 94ukOlvNv+whccHmp2O8mlnekm5O9yz/qE+IsrIMz/JAO4onK5BVnSsGHlruy5vA bw7rG8EITUcUu+fF4WgqeLWLQoRzpRMjVVxQXG5Cpm36M3bINWbslqGFsGo9IgXY Qa/gNe8hHfwRMsee4jvH9JOHeeZ+9Nvmm7RhlSMycfFkW4ZHaRhrjU22wfXCIV4P xbo1pwdR5F4R3TMgD4KUIk4PgwMHmNMQ6nrn5DiRaHQcPSIA9Q/jGcHwNeMvZkWV GQrdCbjzP0lrJ2gHzlrbj+YR6UxbO6JFTpXwZSSGU9ru0hpkoA3YxR2s24R1KQnJ 03cCs9MKhAUY1+J2QpH7hRvGCYih971TzNzAE+k+zw3pPKUZ9QO2ZkV/5Yf3Xf2U haOJPpFxiIVmLjACK2I388Xw5SRhlsg7zdAOBwU7BToI5AcHX13b8wfiH+Bmb8pW jCAyarL0eGPwJiT8M/bXTpxyb+Qfhs1BC3t5hHG13B5bPDSKr6+KuNb4tyoHm+g4 DOktvOADQpg= =IjBM -----END PGP SIGNATURE----- Fri Aug 15 22:49:02 UTC 2025 I: Checking whether the package is not for us Fri Aug 15 22:49:02 UTC 2025 I: Starting 1st build on remote node codethink03-arm64.debian.net. Fri Aug 15 22:49:02 UTC 2025 I: Preparing to do remote build '1' on codethink03-arm64.debian.net. Fri Aug 15 22:52:47 UTC 2025 I: Deleting $TMPDIR on codethink03-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Thu Sep 17 17:12:03 -12 2026 I: pbuilder-time-stamp: 1789708323 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/forky-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [python-bx_0.13.0-1.dsc] I: copying [./python-bx_0.13.0.orig.tar.gz] I: copying [./python-bx_0.13.0-1.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./python-bx_0.13.0-1.dsc: no acceptable signature found dpkg-source: info: extracting python-bx in python-bx-0.13.0 dpkg-source: info: unpacking python-bx_0.13.0.orig.tar.gz dpkg-source: info: unpacking python-bx_0.13.0-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying spelling dpkg-source: info: applying shebang.patch dpkg-source: info: applying fix_BIN_OFFSETS_MAX I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1301188/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='forky' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='d87d585fcfd6407da10a6e7e9d13baea' 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='1301188' 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.lROaN8bR/pbuilderrc_1PPy --distribution forky --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.lROaN8bR/b1 --logfile b1/build.log python-bx_0.13.0-1.dsc' SUDO_GID='109' SUDO_HOME='/var/lib/jenkins' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.4:3128' I: uname -a Linux codethink03-arm64 6.12.41+deb13-cloud-arm64 #1 SMP Debian 6.12.41-1 (2025-08-12) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 May 12 2025 /bin -> usr/bin I: user script /srv/workspace/pbuilder/1301188/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), dh-sequence-python3, zlib1g-dev, python3-setuptools, pybuild-plugin-pyproject, python3-all-dev:any, python3-lzo, python3-pyparsing, python3-pytest, python3-pytest-cython, python3-numpy, cython3 dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19963 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-sequence-python3; however: Package dh-sequence-python3 is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on pybuild-plugin-pyproject; however: Package pybuild-plugin-pyproject is not installed. pbuilder-satisfydepends-dummy depends on python3-all-dev:any. pbuilder-satisfydepends-dummy depends on python3-lzo; however: Package python3-lzo is not installed. pbuilder-satisfydepends-dummy depends on python3-pyparsing; however: Package python3-pyparsing is not installed. pbuilder-satisfydepends-dummy depends on python3-pytest; however: Package python3-pytest is not installed. pbuilder-satisfydepends-dummy depends on python3-pytest-cython; however: Package python3-pytest-cython is not installed. pbuilder-satisfydepends-dummy depends on python3-numpy; however: Package python3-numpy is not installed. pbuilder-satisfydepends-dummy depends on cython3; however: Package cython3 is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} cython3{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libblas3{a} libdebhelper-perl{a} libelf1t64{a} libexpat1{a} libexpat1-dev{a} libffi8{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libjs-jquery{a} libjs-sphinxdoc{a} libjs-underscore{a} liblapack3{a} liblzo2-2{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{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} libreadline8t64{a} libtool{a} libuchardet0{a} libunistring5{a} libxml2{a} m4{a} man-db{a} media-types{a} netbase{a} po-debconf{a} pybuild-plugin-pyproject{a} python3{a} python3-all{a} python3-all-dev{a} python3-autocommand{a} python3-build{a} python3-dev{a} python3-inflect{a} python3-iniconfig{a} python3-installer{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-lzo{a} python3-minimal{a} python3-more-itertools{a} python3-numpy{a} python3-numpy-dev{a} python3-packaging{a} python3-pkg-resources{a} python3-pluggy{a} python3-pyparsing{a} python3-pyproject-hooks{a} python3-pytest{a} python3-pytest-cython{a} python3-setuptools{a} python3-typeguard{a} python3-typing-extensions{a} python3-wheel{a} python3-zipp{a} python3.13{a} python3.13-dev{a} python3.13-minimal{a} readline-common{a} sensible-utils{a} tzdata{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl javascript-common libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx python3-pygments wget 0 packages upgraded, 87 newly installed, 0 to remove and 0 not upgraded. Need to get 36.4 MB of archives. After unpacking 158 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian forky/main arm64 libexpat1 arm64 2.7.1-2 [93.3 kB] Get: 2 http://deb.debian.org/debian forky/main arm64 libpython3.13-minimal arm64 3.13.5-2 [856 kB] Get: 3 http://deb.debian.org/debian forky/main arm64 python3.13-minimal arm64 3.13.5-2 [2003 kB] Get: 4 http://deb.debian.org/debian forky/main arm64 python3-minimal arm64 3.13.5-1 [27.2 kB] Get: 5 http://deb.debian.org/debian forky/main arm64 media-types all 13.0.0 [29.3 kB] Get: 6 http://deb.debian.org/debian forky/main arm64 netbase all 6.5 [12.4 kB] Get: 7 http://deb.debian.org/debian forky/main arm64 tzdata all 2025b-4 [260 kB] Get: 8 http://deb.debian.org/debian forky/main arm64 libffi8 arm64 3.4.8-2 [21.3 kB] Get: 9 http://deb.debian.org/debian forky/main arm64 readline-common all 8.2-6 [69.4 kB] Get: 10 http://deb.debian.org/debian forky/main arm64 libreadline8t64 arm64 8.2-6 [159 kB] Get: 11 http://deb.debian.org/debian forky/main arm64 libpython3.13-stdlib arm64 3.13.5-2 [1892 kB] Get: 12 http://deb.debian.org/debian forky/main arm64 python3.13 arm64 3.13.5-2 [757 kB] Get: 13 http://deb.debian.org/debian forky/main arm64 libpython3-stdlib arm64 3.13.5-1 [10.2 kB] Get: 14 http://deb.debian.org/debian forky/main arm64 python3 arm64 3.13.5-1 [28.2 kB] Get: 15 http://deb.debian.org/debian forky/main arm64 python3-numpy-dev arm64 1:2.2.4+ds-1 [136 kB] Get: 16 http://deb.debian.org/debian forky/main arm64 libblas3 arm64 3.12.1-6 [104 kB] Get: 17 http://deb.debian.org/debian forky/main arm64 libgfortran5 arm64 14.2.0-19 [361 kB] Get: 18 http://deb.debian.org/debian forky/main arm64 liblapack3 arm64 3.12.1-6 [1820 kB] Get: 19 http://deb.debian.org/debian forky/main arm64 python3-numpy arm64 1:2.2.4+ds-1 [3604 kB] Get: 20 http://deb.debian.org/debian forky/main arm64 sensible-utils all 0.0.25 [25.0 kB] Get: 21 http://deb.debian.org/debian forky/main arm64 libmagic-mgc arm64 1:5.46-5 [338 kB] Get: 22 http://deb.debian.org/debian forky/main arm64 libmagic1t64 arm64 1:5.46-5 [103 kB] Get: 23 http://deb.debian.org/debian forky/main arm64 file arm64 1:5.46-5 [43.7 kB] Get: 24 http://deb.debian.org/debian forky/main arm64 gettext-base arm64 0.23.1-2 [241 kB] Get: 25 http://deb.debian.org/debian forky/main arm64 libuchardet0 arm64 0.0.8-1+b2 [69.2 kB] Get: 26 http://deb.debian.org/debian forky/main arm64 groff-base arm64 1.23.0-9 [1130 kB] Get: 27 http://deb.debian.org/debian forky/main arm64 bsdextrautils arm64 2.41-5 [93.8 kB] Get: 28 http://deb.debian.org/debian forky/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 29 http://deb.debian.org/debian forky/main arm64 man-db arm64 2.13.1-1 [1453 kB] Get: 30 http://deb.debian.org/debian forky/main arm64 m4 arm64 1.4.19-8 [285 kB] Get: 31 http://deb.debian.org/debian forky/main arm64 autoconf all 2.72-3.1 [494 kB] Get: 32 http://deb.debian.org/debian forky/main arm64 autotools-dev all 20240727.1 [60.2 kB] Get: 33 http://deb.debian.org/debian forky/main arm64 automake all 1:1.17-4 [862 kB] Get: 34 http://deb.debian.org/debian forky/main arm64 autopoint all 0.23.1-2 [770 kB] Get: 35 http://deb.debian.org/debian forky/main arm64 cython3 arm64 3.0.11+dfsg-2+b1 [2255 kB] Get: 36 http://deb.debian.org/debian forky/main arm64 libdebhelper-perl all 13.24.2 [90.9 kB] Get: 37 http://deb.debian.org/debian forky/main arm64 libtool all 2.5.4-4 [539 kB] Get: 38 http://deb.debian.org/debian forky/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 39 http://deb.debian.org/debian forky/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 40 http://deb.debian.org/debian forky/main arm64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 41 http://deb.debian.org/debian forky/main arm64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 42 http://deb.debian.org/debian forky/main arm64 libelf1t64 arm64 0.192-4 [189 kB] Get: 43 http://deb.debian.org/debian forky/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 44 http://deb.debian.org/debian forky/main arm64 libunistring5 arm64 1.3-2 [453 kB] Get: 45 http://deb.debian.org/debian forky/main arm64 libxml2 arm64 2.12.7+dfsg+really2.9.14-2.1 [630 kB] Get: 46 http://deb.debian.org/debian forky/main arm64 gettext arm64 0.23.1-2 [1611 kB] Get: 47 http://deb.debian.org/debian forky/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 48 http://deb.debian.org/debian forky/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 49 http://deb.debian.org/debian forky/main arm64 debhelper all 13.24.2 [919 kB] Get: 50 http://deb.debian.org/debian forky/main arm64 dh-python all 6.20250414 [116 kB] Get: 51 http://deb.debian.org/debian forky/main arm64 libexpat1-dev arm64 2.7.1-2 [145 kB] Get: 52 http://deb.debian.org/debian forky/main arm64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 53 http://deb.debian.org/debian forky/main arm64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 54 http://deb.debian.org/debian forky/main arm64 libjs-sphinxdoc all 8.1.3-5 [30.5 kB] Get: 55 http://deb.debian.org/debian forky/main arm64 liblzo2-2 arm64 2.10-3+b1 [49.6 kB] Get: 56 http://deb.debian.org/debian forky/main arm64 libpython3.13 arm64 3.13.5-2 [1976 kB] Get: 57 http://deb.debian.org/debian forky/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1+b1 [917 kB] Get: 58 http://deb.debian.org/debian forky/main arm64 libpython3.13-dev arm64 3.13.5-2 [4890 kB] Get: 59 http://deb.debian.org/debian forky/main arm64 libpython3-dev arm64 3.13.5-1 [10.4 kB] Get: 60 http://deb.debian.org/debian forky/main arm64 libpython3-all-dev arm64 3.13.5-1 [1068 B] Get: 61 http://deb.debian.org/debian forky/main arm64 python3-packaging all 25.0-1 [56.6 kB] Get: 62 http://deb.debian.org/debian forky/main arm64 python3-pyproject-hooks all 1.2.0-1 [11.7 kB] Get: 63 http://deb.debian.org/debian forky/main arm64 python3-wheel all 0.46.1-2 [21.7 kB] Get: 64 http://deb.debian.org/debian forky/main arm64 python3-build all 1.2.2-2 [36.1 kB] Get: 65 http://deb.debian.org/debian forky/main arm64 python3-installer all 0.7.0+dfsg1-3 [18.6 kB] Get: 66 http://deb.debian.org/debian forky/main arm64 pybuild-plugin-pyproject all 6.20250414 [11.8 kB] Get: 67 http://deb.debian.org/debian forky/main arm64 python3-all arm64 3.13.5-1 [1044 B] Get: 68 http://deb.debian.org/debian forky/main arm64 python3.13-dev arm64 3.13.5-2 [505 kB] Get: 69 http://deb.debian.org/debian forky/main arm64 python3-dev arm64 3.13.5-1 [26.1 kB] Get: 70 http://deb.debian.org/debian forky/main arm64 python3-all-dev arm64 3.13.5-1 [1068 B] Get: 71 http://deb.debian.org/debian forky/main arm64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 72 http://deb.debian.org/debian forky/main arm64 python3-more-itertools all 10.7.0-1 [67.4 kB] Get: 73 http://deb.debian.org/debian forky/main arm64 python3-typing-extensions all 4.13.2-1 [90.5 kB] Get: 74 http://deb.debian.org/debian forky/main arm64 python3-typeguard all 4.4.2-1 [37.3 kB] Get: 75 http://deb.debian.org/debian forky/main arm64 python3-inflect all 7.3.1-2 [32.4 kB] Get: 76 http://deb.debian.org/debian forky/main arm64 python3-iniconfig all 1.1.1-2 [6396 B] Get: 77 http://deb.debian.org/debian forky/main arm64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 78 http://deb.debian.org/debian forky/main arm64 python3-pkg-resources all 78.1.1-0.1 [224 kB] Get: 79 http://deb.debian.org/debian forky/main arm64 python3-jaraco.text all 4.0.0-1 [11.4 kB] Get: 80 http://deb.debian.org/debian forky/main arm64 python3-zipp all 3.21.0-1 [10.6 kB] Get: 81 http://deb.debian.org/debian forky/main arm64 python3-setuptools all 78.1.1-0.1 [738 kB] Get: 82 http://deb.debian.org/debian forky/main arm64 python3-jaraco.context all 6.0.1-1 [8276 B] Get: 83 http://deb.debian.org/debian forky/main arm64 python3-lzo arm64 1.15-2+b4 [8896 B] Get: 84 http://deb.debian.org/debian forky/main arm64 python3-pluggy all 1.5.0-1 [26.9 kB] Get: 85 http://deb.debian.org/debian forky/main arm64 python3-pyparsing all 3.1.2-1 [146 kB] Get: 86 http://deb.debian.org/debian forky/main arm64 python3-pytest all 8.3.5-2 [250 kB] Get: 87 http://deb.debian.org/debian forky/main arm64 python3-pytest-cython all 0.3.1-1 [8032 B] Fetched 36.4 MB in 0s (79.7 MB/s) Preconfiguring packages ... Selecting previously unselected package libexpat1: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 ... 19963 files and directories currently installed.) Preparing to unpack .../libexpat1_2.7.1-2_arm64.deb ... Unpacking libexpat1:arm64 (2.7.1-2) ... Selecting previously unselected package libpython3.13-minimal:arm64. Preparing to unpack .../libpython3.13-minimal_3.13.5-2_arm64.deb ... Unpacking libpython3.13-minimal:arm64 (3.13.5-2) ... 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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_3.13.5-2_arm64.deb ... Unpacking libpython3.13-stdlib:arm64 (3.13.5-2) ... Selecting previously unselected package python3.13. Preparing to unpack .../8-python3.13_3.13.5-2_arm64.deb ... Unpacking python3.13 (3.13.5-2) ... 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Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20240727.1) ... Setting up libblas3:arm64 (3.12.1-6) ... 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 (2.7.1-2) ... Setting up libunistring5:arm64 (1.3-2) ... Setting up python3-numpy-dev:arm64 (1:2.2.4+ds-1) ... Setting up autopoint (0.23.1-2) ... Setting up libgfortran5:arm64 (14.2.0-19) ... Setting up autoconf (2.72-3.1) ... 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 libuchardet0:arm64 (0.0.8-1+b2) ... Setting up netbase (6.5) ... Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Setting up readline-common (8.2-6) ... Setting up libxml2:arm64 (2.12.7+dfsg+really2.9.14-2.1) ... 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 (3.12.1-6) ... 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 (0.23.1-2) ... Setting up libtool (2.5.4-4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... 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 (1.23.0-9) ... Setting up libpython3.13-stdlib:arm64 (3.13.5-2) ... Setting up libpython3-stdlib:arm64 (3.13.5-1) ... Setting up libpython3.13:arm64 (3.13.5-2) ... Setting up python3.13 (3.13.5-2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up python3 (3.13.5-1) ... Setting up python3-zipp (3.21.0-1) ... Setting up python3-autocommand (2.2.2-3) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up python3-packaging (25.0-1) ... Setting up python3-pyproject-hooks (1.2.0-1) ... Setting up python3-pyparsing (3.1.2-1) ... Setting up libpython3.13-dev:arm64 (3.13.5-2) ... Setting up cython3 (3.0.11+dfsg-2+b1) ... Setting up python3-typing-extensions (4.13.2-1) ... Setting up python3-numpy (1:2.2.4+ds-1) ... Setting up python3-installer (0.7.0+dfsg1-3) ... Setting up python3-pluggy (1.5.0-1) ... Setting up python3-lzo:arm64 (1.15-2+b4) ... Setting up dh-python (6.20250414) ... Setting up python3-more-itertools (10.7.0-1) ... Setting up python3-iniconfig (1.1.1-2) ... Setting up libpython3-dev:arm64 (3.13.5-1) ... Setting up python3-jaraco.functools (4.1.0-1) ... Setting up python3-jaraco.context (6.0.1-1) ... Setting up python3.13-dev (3.13.5-2) ... Setting up python3-pytest (8.3.5-2) ... Setting up python3-typeguard (4.4.2-1) ... Setting up python3-all (3.13.5-1) ... Setting up debhelper (13.24.2) ... Setting up python3-wheel (0.46.1-2) ... Setting up python3-inflect (7.3.1-2) ... Setting up libpython3-all-dev:arm64 (3.13.5-1) ... Setting up python3-jaraco.text (4.0.0-1) ... Setting up python3-dev (3.13.5-1) ... Setting up python3-build (1.2.2-2) ... Setting up python3-pkg-resources (78.1.1-0.1) ... Setting up python3-all-dev (3.13.5-1) ... Setting up python3-setuptools (78.1.1-0.1) ... Setting up python3-pytest-cython (0.3.1-1) ... Setting up pybuild-plugin-pyproject (6.20250414) ... Processing triggers for libc-bin (2.41-12) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/python-bx-0.13.0/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../python-bx_0.13.0-1_source.changes dpkg-buildpackage: info: source package python-bx dpkg-buildpackage: info: source version 0.13.0-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Alexandre Detiste dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean --buildsystem=pybuild dh_auto_clean -O--buildsystem=pybuild debian/rules execute_after_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/python-bx-0.13.0' find -name "*.pyx" | sed 's/pyx$/c/' | xargs rm -f grep -rli "Generated by Cython" lib/ | xargs -r rm rm -rf lib/bx_python.egg-info make[1]: Leaving directory '/build/reproducible-path/python-bx-0.13.0' dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary dh binary --buildsystem=pybuild dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild dh_auto_build -O--buildsystem=pybuild I: pybuild plugin_pyproject:129: Building wheel for python3.13 with "build" module I: pybuild base:311: python3.13 -m build --skip-dependency-check --no-isolation --wheel --outdir /build/reproducible-path/python-bx-0.13.0/.pybuild/cpython3_3.13_bx-python * Building wheel... /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 bdist_wheel running build running build_py creating build/lib.linux-aarch64-cpython-313/bx_extras copying lib/bx_extras/stats.py -> build/lib.linux-aarch64-cpython-313/bx_extras copying lib/bx_extras/pstat.py -> build/lib.linux-aarch64-cpython-313/bx_extras copying lib/bx_extras/lrucache.py -> build/lib.linux-aarch64-cpython-313/bx_extras copying lib/bx_extras/fpconst_tests.py -> build/lib.linux-aarch64-cpython-313/bx_extras copying lib/bx_extras/fpconst.py -> build/lib.linux-aarch64-cpython-313/bx_extras copying lib/bx_extras/__init__.py -> build/lib.linux-aarch64-cpython-313/bx_extras creating build/lib.linux-aarch64-cpython-313/bx copying lib/bx/interval_index_file.py -> build/lib.linux-aarch64-cpython-313/bx copying lib/bx/wiggle_tests.py -> build/lib.linux-aarch64-cpython-313/bx copying lib/bx/wiggle.py -> build/lib.linux-aarch64-cpython-313/bx copying lib/bx/seqmapping_tests.py -> build/lib.linux-aarch64-cpython-313/bx copying lib/bx/seqmapping.py -> build/lib.linux-aarch64-cpython-313/bx copying lib/bx/interval_index_file_tests.py -> build/lib.linux-aarch64-cpython-313/bx copying lib/bx/gene_reader.py -> build/lib.linux-aarch64-cpython-313/bx copying lib/bx/filter.py -> build/lib.linux-aarch64-cpython-313/bx copying lib/bx/bitset_utils.py -> build/lib.linux-aarch64-cpython-313/bx copying lib/bx/bitset_tests.py -> build/lib.linux-aarch64-cpython-313/bx copying lib/bx/bitset_builders.py -> build/lib.linux-aarch64-cpython-313/bx copying lib/bx/binned_array_tests.py -> build/lib.linux-aarch64-cpython-313/bx copying lib/bx/binned_array.py -> build/lib.linux-aarch64-cpython-313/bx copying lib/bx/__init__.py -> build/lib.linux-aarch64-cpython-313/bx creating build/lib.linux-aarch64-cpython-313/bx/tabular copying lib/bx/tabular/io.py -> build/lib.linux-aarch64-cpython-313/bx/tabular copying lib/bx/tabular/__init__.py -> build/lib.linux-aarch64-cpython-313/bx/tabular creating build/lib.linux-aarch64-cpython-313/bx/seq copying lib/bx/seq/twobit_tests.py -> build/lib.linux-aarch64-cpython-313/bx/seq copying lib/bx/seq/twobit.py -> build/lib.linux-aarch64-cpython-313/bx/seq copying lib/bx/seq/seq_tests.py -> build/lib.linux-aarch64-cpython-313/bx/seq copying lib/bx/seq/seq.py -> build/lib.linux-aarch64-cpython-313/bx/seq copying lib/bx/seq/qdna_tests.py -> build/lib.linux-aarch64-cpython-313/bx/seq copying lib/bx/seq/qdna.py -> build/lib.linux-aarch64-cpython-313/bx/seq copying lib/bx/seq/nib_tests.py -> build/lib.linux-aarch64-cpython-313/bx/seq copying lib/bx/seq/nib.py -> build/lib.linux-aarch64-cpython-313/bx/seq copying lib/bx/seq/fasta_tests.py -> build/lib.linux-aarch64-cpython-313/bx/seq copying lib/bx/seq/fasta.py -> build/lib.linux-aarch64-cpython-313/bx/seq copying lib/bx/seq/core.py -> build/lib.linux-aarch64-cpython-313/bx/seq copying lib/bx/seq/__init__.py -> build/lib.linux-aarch64-cpython-313/bx/seq creating build/lib.linux-aarch64-cpython-313/bx/pwm copying lib/bx/pwm/pwm_score_maf.py -> build/lib.linux-aarch64-cpython-313/bx/pwm copying lib/bx/pwm/pwm_score_positions.py -> build/lib.linux-aarch64-cpython-313/bx/pwm copying lib/bx/pwm/pwm_score_motifs.py -> build/lib.linux-aarch64-cpython-313/bx/pwm copying lib/bx/pwm/position_weight_matrix.py -> build/lib.linux-aarch64-cpython-313/bx/pwm copying lib/bx/pwm/maf_select_motifs.py -> build/lib.linux-aarch64-cpython-313/bx/pwm copying lib/bx/pwm/bed_score_aligned_string.py -> build/lib.linux-aarch64-cpython-313/bx/pwm copying lib/bx/pwm/bed_score_aligned_pwm.py -> build/lib.linux-aarch64-cpython-313/bx/pwm copying lib/bx/pwm/pwm_tests.py -> build/lib.linux-aarch64-cpython-313/bx/pwm copying lib/bx/pwm/__init__.py -> build/lib.linux-aarch64-cpython-313/bx/pwm creating build/lib.linux-aarch64-cpython-313/bx/phylo copying lib/bx/phylo/phast_tests.py -> build/lib.linux-aarch64-cpython-313/bx/phylo copying lib/bx/phylo/phast.py -> build/lib.linux-aarch64-cpython-313/bx/phylo copying lib/bx/phylo/newick_tests.py -> build/lib.linux-aarch64-cpython-313/bx/phylo copying lib/bx/phylo/newick.py -> build/lib.linux-aarch64-cpython-313/bx/phylo copying lib/bx/phylo/__init__.py -> build/lib.linux-aarch64-cpython-313/bx/phylo creating build/lib.linux-aarch64-cpython-313/bx/motif copying lib/bx/motif/pwm_tests.py -> build/lib.linux-aarch64-cpython-313/bx/motif copying lib/bx/motif/pwm.py -> build/lib.linux-aarch64-cpython-313/bx/motif copying lib/bx/motif/__init__.py -> build/lib.linux-aarch64-cpython-313/bx/motif creating build/lib.linux-aarch64-cpython-313/bx/misc copying lib/bx/misc/seeklzop_tests.py -> build/lib.linux-aarch64-cpython-313/bx/misc copying lib/bx/misc/seeklzop.py -> build/lib.linux-aarch64-cpython-313/bx/misc copying lib/bx/misc/seekbzip2_tests.py -> build/lib.linux-aarch64-cpython-313/bx/misc copying lib/bx/misc/seekbzip2.py -> build/lib.linux-aarch64-cpython-313/bx/misc copying lib/bx/misc/readlengths.py -> build/lib.linux-aarch64-cpython-313/bx/misc copying lib/bx/misc/filecache_tests.py -> build/lib.linux-aarch64-cpython-313/bx/misc copying lib/bx/misc/filecache.py -> build/lib.linux-aarch64-cpython-313/bx/misc copying lib/bx/misc/cdb_tests.py -> build/lib.linux-aarch64-cpython-313/bx/misc copying lib/bx/misc/cdb.py -> build/lib.linux-aarch64-cpython-313/bx/misc copying lib/bx/misc/binary_file.py -> build/lib.linux-aarch64-cpython-313/bx/misc copying lib/bx/misc/bgzf_tests.py -> build/lib.linux-aarch64-cpython-313/bx/misc copying lib/bx/misc/__init__.py -> build/lib.linux-aarch64-cpython-313/bx/misc creating build/lib.linux-aarch64-cpython-313/bx/intseq copying lib/bx/intseq/__init__.py -> build/lib.linux-aarch64-cpython-313/bx/intseq creating build/lib.linux-aarch64-cpython-313/bx/intervals copying lib/bx/intervals/random_intervals.py -> build/lib.linux-aarch64-cpython-313/bx/intervals copying lib/bx/intervals/io.py -> build/lib.linux-aarch64-cpython-313/bx/intervals copying lib/bx/intervals/intersection_tests.py -> build/lib.linux-aarch64-cpython-313/bx/intervals copying lib/bx/intervals/cluster_tests.py -> build/lib.linux-aarch64-cpython-313/bx/intervals copying lib/bx/intervals/__init__.py -> build/lib.linux-aarch64-cpython-313/bx/intervals creating build/lib.linux-aarch64-cpython-313/bx/cookbook copying lib/bx/cookbook/doc_optparse.py -> build/lib.linux-aarch64-cpython-313/bx/cookbook copying lib/bx/cookbook/attribute.py -> build/lib.linux-aarch64-cpython-313/bx/cookbook copying lib/bx/cookbook/__init__.py -> build/lib.linux-aarch64-cpython-313/bx/cookbook creating build/lib.linux-aarch64-cpython-313/bx/bbi copying lib/bx/bbi/bigwig_tests.py -> build/lib.linux-aarch64-cpython-313/bx/bbi copying lib/bx/bbi/__init__.py -> build/lib.linux-aarch64-cpython-313/bx/bbi creating build/lib.linux-aarch64-cpython-313/bx/arrays copying lib/bx/arrays/array_tree_tests.py -> build/lib.linux-aarch64-cpython-313/bx/arrays copying lib/bx/arrays/__init__.py -> build/lib.linux-aarch64-cpython-313/bx/arrays creating build/lib.linux-aarch64-cpython-313/bx/align copying lib/bx/align/epo_tests.py -> build/lib.linux-aarch64-cpython-313/bx/align copying lib/bx/align/epo.py -> build/lib.linux-aarch64-cpython-313/bx/align copying lib/bx/align/score_tests.py -> build/lib.linux-aarch64-cpython-313/bx/align copying lib/bx/align/score.py -> build/lib.linux-aarch64-cpython-313/bx/align copying lib/bx/align/maf_tests.py -> build/lib.linux-aarch64-cpython-313/bx/align copying lib/bx/align/maf.py -> build/lib.linux-aarch64-cpython-313/bx/align copying lib/bx/align/lav_tests.py -> build/lib.linux-aarch64-cpython-313/bx/align copying lib/bx/align/lav.py -> build/lib.linux-aarch64-cpython-313/bx/align copying lib/bx/align/core.py -> build/lib.linux-aarch64-cpython-313/bx/align copying lib/bx/align/axt.py -> build/lib.linux-aarch64-cpython-313/bx/align copying lib/bx/align/__init__.py -> build/lib.linux-aarch64-cpython-313/bx/align creating build/lib.linux-aarch64-cpython-313/bx/motif/logo copying lib/bx/motif/logo/__init__.py -> build/lib.linux-aarch64-cpython-313/bx/motif/logo creating build/lib.linux-aarch64-cpython-313/bx/motif/io copying lib/bx/motif/io/transfac_tests.py -> build/lib.linux-aarch64-cpython-313/bx/motif/io copying lib/bx/motif/io/transfac.py -> build/lib.linux-aarch64-cpython-313/bx/motif/io copying lib/bx/motif/io/__init__.py -> build/lib.linux-aarch64-cpython-313/bx/motif/io creating build/lib.linux-aarch64-cpython-313/bx/intervals/operations copying lib/bx/intervals/operations/subtract.py -> build/lib.linux-aarch64-cpython-313/bx/intervals/operations copying lib/bx/intervals/operations/quicksect.py -> build/lib.linux-aarch64-cpython-313/bx/intervals/operations copying lib/bx/intervals/operations/merge.py -> build/lib.linux-aarch64-cpython-313/bx/intervals/operations copying lib/bx/intervals/operations/join.py -> build/lib.linux-aarch64-cpython-313/bx/intervals/operations copying lib/bx/intervals/operations/intersect.py -> build/lib.linux-aarch64-cpython-313/bx/intervals/operations copying lib/bx/intervals/operations/find_clusters.py -> build/lib.linux-aarch64-cpython-313/bx/intervals/operations copying lib/bx/intervals/operations/coverage.py -> build/lib.linux-aarch64-cpython-313/bx/intervals/operations copying lib/bx/intervals/operations/concat.py -> build/lib.linux-aarch64-cpython-313/bx/intervals/operations copying lib/bx/intervals/operations/complement.py -> build/lib.linux-aarch64-cpython-313/bx/intervals/operations copying lib/bx/intervals/operations/base_coverage.py -> build/lib.linux-aarch64-cpython-313/bx/intervals/operations copying lib/bx/intervals/operations/__init__.py -> build/lib.linux-aarch64-cpython-313/bx/intervals/operations creating build/lib.linux-aarch64-cpython-313/bx/align/tools copying lib/bx/align/tools/tile.py -> build/lib.linux-aarch64-cpython-313/bx/align/tools copying lib/bx/align/tools/thread.py -> build/lib.linux-aarch64-cpython-313/bx/align/tools copying lib/bx/align/tools/fuse.py -> build/lib.linux-aarch64-cpython-313/bx/align/tools copying lib/bx/align/tools/chop.py -> build/lib.linux-aarch64-cpython-313/bx/align/tools copying lib/bx/align/tools/__init__.py -> build/lib.linux-aarch64-cpython-313/bx/align/tools creating build/lib.linux-aarch64-cpython-313/bx/align/sitemask copying lib/bx/align/sitemask/sitemask_tests.py -> build/lib.linux-aarch64-cpython-313/bx/align/sitemask copying lib/bx/align/sitemask/quality.py -> build/lib.linux-aarch64-cpython-313/bx/align/sitemask copying lib/bx/align/sitemask/cpg.py -> build/lib.linux-aarch64-cpython-313/bx/align/sitemask copying lib/bx/align/sitemask/core.py -> build/lib.linux-aarch64-cpython-313/bx/align/sitemask copying lib/bx/align/sitemask/__init__.py -> build/lib.linux-aarch64-cpython-313/bx/align/sitemask copying lib/bx/motif/logo/template.ps -> build/lib.linux-aarch64-cpython-313/bx/motif/logo running build_ext /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/python-bx-0.13.0/lib/bx/bitset.pyx tree = Parsing.p_module(s, pxd, full_module_name) Compiling lib/bx/bitset.pyx because it changed. [1/1] Cythonizing lib/bx/bitset.pyx building 'bx.bitset' extension creating build/temp.linux-aarch64-cpython-313/lib/bx creating build/temp.linux-aarch64-cpython-313/src creating build/temp.linux-aarch64-cpython-313/src/kent aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Isrc/kent -Isrc -I/usr/include/python3.13 -c lib/bx/bitset.c -o build/temp.linux-aarch64-cpython-313/lib/bx/bitset.o aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Isrc/kent -Isrc -I/usr/include/python3.13 -c src/binBits.c -o build/temp.linux-aarch64-cpython-313/src/binBits.o aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Isrc/kent -Isrc -I/usr/include/python3.13 -c src/kent/bits.c -o build/temp.linux-aarch64-cpython-313/src/kent/bits.o aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Isrc/kent -Isrc -I/usr/include/python3.13 -c src/kent/common.c -o build/temp.linux-aarch64-cpython-313/src/kent/common.o aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-313/lib/bx/bitset.o build/temp.linux-aarch64-cpython-313/src/binBits.o build/temp.linux-aarch64-cpython-313/src/kent/bits.o build/temp.linux-aarch64-cpython-313/src/kent/common.o -L/usr/lib/aarch64-linux-gnu -o build/lib.linux-aarch64-cpython-313/bx/bitset.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/python-bx-0.13.0/lib/bx/intervals/intersection.pyx tree = Parsing.p_module(s, pxd, full_module_name) Compiling lib/bx/intervals/intersection.pyx because it changed. [1/1] Cythonizing lib/bx/intervals/intersection.pyx building 'bx.intervals.intersection' extension creating build/temp.linux-aarch64-cpython-313/lib/bx/intervals aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.13 -c lib/bx/intervals/intersection.c -o build/temp.linux-aarch64-cpython-313/lib/bx/intervals/intersection.o aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-313/lib/bx/intervals/intersection.o -L/usr/lib/aarch64-linux-gnu -o build/lib.linux-aarch64-cpython-313/bx/intervals/intersection.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/python-bx-0.13.0/lib/bx/align/_core.pyx tree = Parsing.p_module(s, pxd, full_module_name) Compiling lib/bx/align/_core.pyx because it changed. [1/1] Cythonizing lib/bx/align/_core.pyx building 'bx.align._core' extension creating build/temp.linux-aarch64-cpython-313/lib/bx/align aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.13 -c lib/bx/align/_core.c -o build/temp.linux-aarch64-cpython-313/lib/bx/align/_core.o aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-313/lib/bx/align/_core.o -L/usr/lib/aarch64-linux-gnu -o build/lib.linux-aarch64-cpython-313/bx/align/_core.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/python-bx-0.13.0/lib/bx/seq/_nib.pyx tree = Parsing.p_module(s, pxd, full_module_name) Compiling lib/bx/seq/_nib.pyx because it changed. [1/1] Cythonizing lib/bx/seq/_nib.pyx building 'bx.seq._nib' extension creating build/temp.linux-aarch64-cpython-313/lib/bx/seq aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.13 -c lib/bx/seq/_nib.c -o build/temp.linux-aarch64-cpython-313/lib/bx/seq/_nib.o aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-313/lib/bx/seq/_nib.o -L/usr/lib/aarch64-linux-gnu -o build/lib.linux-aarch64-cpython-313/bx/seq/_nib.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/python-bx-0.13.0/lib/bx/seq/_twobit.pyx tree = Parsing.p_module(s, pxd, full_module_name) Compiling lib/bx/seq/_twobit.pyx because it changed. [1/1] Cythonizing lib/bx/seq/_twobit.pyx building 'bx.seq._twobit' extension aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.13 -c lib/bx/seq/_twobit.c -o build/temp.linux-aarch64-cpython-313/lib/bx/seq/_twobit.o aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-313/lib/bx/seq/_twobit.o -L/usr/lib/aarch64-linux-gnu -o build/lib.linux-aarch64-cpython-313/bx/seq/_twobit.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/python-bx-0.13.0/lib/bx/_seqmapping.pyx tree = Parsing.p_module(s, pxd, full_module_name) Compiling lib/bx/_seqmapping.pyx because it changed. [1/1] Cythonizing lib/bx/_seqmapping.pyx building 'bx._seqmapping' extension aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.13 -c lib/bx/_seqmapping.c -o build/temp.linux-aarch64-cpython-313/lib/bx/_seqmapping.o In function ‘__pyx_pf_2bx_11_seqmapping_15IntToIntMapping___cinit__’, inlined from ‘__pyx_pw_2bx_11_seqmapping_15IntToIntMapping_1__cinit__’ at lib/bx/_seqmapping.c:5104:13, inlined from ‘__pyx_tp_new_2bx_11_seqmapping_IntToIntMapping’ at lib/bx/_seqmapping.c:8107:7: lib/bx/_seqmapping.c:5142:33: warning: argument 1 value ‘18446744073709551612’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 5142 | __pyx_v_self->table = ((int *)malloc((__pyx_v_in_size * (sizeof(int))))); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/python3.13/Python.h:38, from lib/bx/_seqmapping.c:29: /usr/include/stdlib.h: In function ‘__pyx_tp_new_2bx_11_seqmapping_IntToIntMapping’: /usr/include/stdlib.h:672:14: note: in a call to allocation function ‘malloc’ declared here 672 | extern void *malloc (size_t __size) __THROW __attribute_malloc__ | ^~~~~~ aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-313/lib/bx/_seqmapping.o -L/usr/lib/aarch64-linux-gnu -o build/lib.linux-aarch64-cpython-313/bx/_seqmapping.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/python-bx-0.13.0/lib/bx/misc/bgzf.pyx tree = Parsing.p_module(s, pxd, full_module_name) Compiling lib/bx/misc/bgzf.pyx because it changed. [1/1] Cythonizing lib/bx/misc/bgzf.pyx building 'bx.misc.bgzf' extension creating build/temp.linux-aarch64-cpython-313/lib/bx/misc creating build/temp.linux-aarch64-cpython-313/src/samtools aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Isrc/samtools -I/usr/include/python3.13 -c lib/bx/misc/bgzf.c -o build/temp.linux-aarch64-cpython-313/lib/bx/misc/bgzf.o aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Isrc/samtools -I/usr/include/python3.13 -c src/samtools/bgzf.c -o build/temp.linux-aarch64-cpython-313/src/samtools/bgzf.o src/samtools/bgzf.c: In function ‘bgzf_check_EOF’: src/samtools/bgzf.c:662:9: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 662 | fread(buf, 1, 28, fp->file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-313/lib/bx/misc/bgzf.o build/temp.linux-aarch64-cpython-313/src/samtools/bgzf.o -L/usr/lib/aarch64-linux-gnu -lz -o build/lib.linux-aarch64-cpython-313/bx/misc/bgzf.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/python-bx-0.13.0/lib/bx/intervals/cluster.pyx tree = Parsing.p_module(s, pxd, full_module_name) Compiling lib/bx/intervals/cluster.pyx because it changed. [1/1] Cythonizing lib/bx/intervals/cluster.pyx building 'bx.intervals.cluster' extension aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Isrc -I/usr/include/python3.13 -c lib/bx/intervals/cluster.c -o build/temp.linux-aarch64-cpython-313/lib/bx/intervals/cluster.o aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Isrc -I/usr/include/python3.13 -c src/cluster.c -o build/temp.linux-aarch64-cpython-313/src/cluster.o aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-313/lib/bx/intervals/cluster.o build/temp.linux-aarch64-cpython-313/src/cluster.o -L/usr/lib/aarch64-linux-gnu -o build/lib.linux-aarch64-cpython-313/bx/intervals/cluster.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/python-bx-0.13.0/lib/bx/pwm/_position_weight_matrix.pyx tree = Parsing.p_module(s, pxd, full_module_name) Compiling lib/bx/pwm/_position_weight_matrix.pyx because it changed. [1/1] Cythonizing lib/bx/pwm/_position_weight_matrix.pyx building 'bx.pwm._position_weight_matrix' extension creating build/temp.linux-aarch64-cpython-313/lib/bx/pwm aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Isrc -I/usr/include/python3.13 -c lib/bx/pwm/_position_weight_matrix.c -o build/temp.linux-aarch64-cpython-313/lib/bx/pwm/_position_weight_matrix.o aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Isrc -I/usr/include/python3.13 -c src/pwm_utils.c -o build/temp.linux-aarch64-cpython-313/src/pwm_utils.o aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-313/lib/bx/pwm/_position_weight_matrix.o build/temp.linux-aarch64-cpython-313/src/pwm_utils.o -L/usr/lib/aarch64-linux-gnu -o build/lib.linux-aarch64-cpython-313/bx/pwm/_position_weight_matrix.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/python-bx-0.13.0/lib/bx/motif/_pwm.pyx tree = Parsing.p_module(s, pxd, full_module_name) Compiling lib/bx/motif/_pwm.pyx because it changed. [1/1] Cythonizing lib/bx/motif/_pwm.pyx building 'bx.motif._pwm' extension creating build/temp.linux-aarch64-cpython-313/lib/bx/motif aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -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 lib/bx/motif/_pwm.c -o build/temp.linux-aarch64-cpython-313/lib/bx/motif/_pwm.o In file included from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h:1913, 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 lib/bx/motif/_pwm.c:1240: /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 17 | #warning "Using deprecated NumPy API, disable it with " \ | ^~~~~~~ aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-313/lib/bx/motif/_pwm.o -L/usr/lib/aarch64-linux-gnu -o build/lib.linux-aarch64-cpython-313/bx/motif/_pwm.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/python-bx-0.13.0/lib/bx/arrays/array_tree.pyx tree = Parsing.p_module(s, pxd, full_module_name) Compiling lib/bx/arrays/array_tree.pyx because it changed. [1/1] Cythonizing lib/bx/arrays/array_tree.pyx building 'bx.arrays.array_tree' extension creating build/temp.linux-aarch64-cpython-313/lib/bx/arrays aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -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 lib/bx/arrays/array_tree.c -o build/temp.linux-aarch64-cpython-313/lib/bx/arrays/array_tree.o In file included from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h:1913, 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 lib/bx/arrays/array_tree.c:1249: /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 17 | #warning "Using deprecated NumPy API, disable it with " \ | ^~~~~~~ aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-313/lib/bx/arrays/array_tree.o -L/usr/lib/aarch64-linux-gnu -o build/lib.linux-aarch64-cpython-313/bx/arrays/array_tree.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/python-bx-0.13.0/lib/bx/bbi/bpt_file.pxd tree = Parsing.p_module(s, pxd, full_module_name) Compiling lib/bx/bbi/bpt_file.pyx because it changed. [1/1] Cythonizing lib/bx/bbi/bpt_file.pyx building 'bx.bbi.bpt_file' extension creating build/temp.linux-aarch64-cpython-313/lib/bx/bbi aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.13 -c lib/bx/bbi/bpt_file.c -o build/temp.linux-aarch64-cpython-313/lib/bx/bbi/bpt_file.o aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-313/lib/bx/bbi/bpt_file.o -L/usr/lib/aarch64-linux-gnu -o build/lib.linux-aarch64-cpython-313/bx/bbi/bpt_file.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/python-bx-0.13.0/lib/bx/bbi/cirtree_file.pxd tree = Parsing.p_module(s, pxd, full_module_name) Compiling lib/bx/bbi/cirtree_file.pyx because it changed. [1/1] Cythonizing lib/bx/bbi/cirtree_file.pyx building 'bx.bbi.cirtree_file' extension aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.13 -c lib/bx/bbi/cirtree_file.c -o build/temp.linux-aarch64-cpython-313/lib/bx/bbi/cirtree_file.o aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-313/lib/bx/bbi/cirtree_file.o -L/usr/lib/aarch64-linux-gnu -o build/lib.linux-aarch64-cpython-313/bx/bbi/cirtree_file.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/python-bx-0.13.0/lib/bx/bbi/bbi_file.pxd tree = Parsing.p_module(s, pxd, full_module_name) Compiling lib/bx/bbi/bbi_file.pyx because it changed. [1/1] Cythonizing lib/bx/bbi/bbi_file.pyx building 'bx.bbi.bbi_file' extension aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -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 lib/bx/bbi/bbi_file.c -o build/temp.linux-aarch64-cpython-313/lib/bx/bbi/bbi_file.o In file included from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h:1913, 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 lib/bx/bbi/bbi_file.c:1249: /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 17 | #warning "Using deprecated NumPy API, disable it with " \ | ^~~~~~~ aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-313/lib/bx/bbi/bbi_file.o -L/usr/lib/aarch64-linux-gnu -o build/lib.linux-aarch64-cpython-313/bx/bbi/bbi_file.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/python-bx-0.13.0/lib/bx/bbi/bigwig_file.pyx tree = Parsing.p_module(s, pxd, full_module_name) Compiling lib/bx/bbi/bigwig_file.pyx because it changed. [1/1] Cythonizing lib/bx/bbi/bigwig_file.pyx building 'bx.bbi.bigwig_file' extension aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -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 lib/bx/bbi/bigwig_file.c -o build/temp.linux-aarch64-cpython-313/lib/bx/bbi/bigwig_file.o In file included from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h:1913, 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 lib/bx/bbi/bigwig_file.c:1249: /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 17 | #warning "Using deprecated NumPy API, disable it with " \ | ^~~~~~~ aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-313/lib/bx/bbi/bigwig_file.o -L/usr/lib/aarch64-linux-gnu -o build/lib.linux-aarch64-cpython-313/bx/bbi/bigwig_file.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/python-bx-0.13.0/lib/bx/bbi/bigbed_file.pyx tree = Parsing.p_module(s, pxd, full_module_name) Compiling lib/bx/bbi/bigbed_file.pyx because it changed. [1/1] Cythonizing lib/bx/bbi/bigbed_file.pyx building 'bx.bbi.bigbed_file' extension aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -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 lib/bx/bbi/bigbed_file.c -o build/temp.linux-aarch64-cpython-313/lib/bx/bbi/bigbed_file.o In file included from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h:1913, 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 lib/bx/bbi/bigbed_file.c:1249: /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 17 | #warning "Using deprecated NumPy API, disable it with " \ | ^~~~~~~ aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-313/lib/bx/bbi/bigbed_file.o -L/usr/lib/aarch64-linux-gnu -o build/lib.linux-aarch64-cpython-313/bx/bbi/bigbed_file.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/python-bx-0.13.0/lib/bx/align/_epo.pyx tree = Parsing.p_module(s, pxd, full_module_name) Compiling lib/bx/align/_epo.pyx because it changed. [1/1] Cythonizing lib/bx/align/_epo.pyx building 'bx.align._epo' extension aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -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 lib/bx/align/_epo.c -o build/temp.linux-aarch64-cpython-313/lib/bx/align/_epo.o In file included from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h:1913, 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 lib/bx/align/_epo.c:1249: /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 17 | #warning "Using deprecated NumPy API, disable it with " \ | ^~~~~~~ aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-313/lib/bx/align/_epo.o -L/usr/lib/aarch64-linux-gnu -o build/lib.linux-aarch64-cpython-313/bx/align/_epo.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/python-bx-0.13.0/lib/bx/arrays/bed.pyx tree = Parsing.p_module(s, pxd, full_module_name) Compiling lib/bx/arrays/bed.pyx because it changed. [1/1] Cythonizing lib/bx/arrays/bed.pyx building 'bx.arrays.bed' extension aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.13 -c lib/bx/arrays/bed.c -o build/temp.linux-aarch64-cpython-313/lib/bx/arrays/bed.o aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-313/lib/bx/arrays/bed.o -L/usr/lib/aarch64-linux-gnu -o build/lib.linux-aarch64-cpython-313/bx/arrays/bed.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/python-bx-0.13.0/lib/bx/arrays/wiggle.pxd tree = Parsing.p_module(s, pxd, full_module_name) warning: lib/bx/arrays/wiggle.pyx:94:20: Unreachable code Compiling lib/bx/arrays/wiggle.pyx because it changed. [1/1] Cythonizing lib/bx/arrays/wiggle.pyx building 'bx.arrays.wiggle' extension aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.13 -c lib/bx/arrays/wiggle.c -o build/temp.linux-aarch64-cpython-313/lib/bx/arrays/wiggle.o aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-313/lib/bx/arrays/wiggle.o -L/usr/lib/aarch64-linux-gnu -o build/lib.linux-aarch64-cpython-313/bx/arrays/wiggle.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/python-bx-0.13.0/lib/bx/align/sitemask/_cpg.pyx tree = Parsing.p_module(s, pxd, full_module_name) Compiling lib/bx/align/sitemask/_cpg.pyx because it changed. [1/1] Cythonizing lib/bx/align/sitemask/_cpg.pyx building 'bx.align.sitemask._cpg' extension creating build/temp.linux-aarch64-cpython-313/lib/bx/align/sitemask aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.13 -c lib/bx/align/sitemask/_cpg.c -o build/temp.linux-aarch64-cpython-313/lib/bx/align/sitemask/_cpg.o aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.13 -c lib/bx/align/sitemask/find_cpg.c -o build/temp.linux-aarch64-cpython-313/lib/bx/align/sitemask/find_cpg.o aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-313/lib/bx/align/sitemask/_cpg.o build/temp.linux-aarch64-cpython-313/lib/bx/align/sitemask/find_cpg.o -L/usr/lib/aarch64-linux-gnu -o build/lib.linux-aarch64-cpython-313/bx/align/sitemask/_cpg.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/python-bx-0.13.0/lib/bx/intseq/ngramcount.pyx tree = Parsing.p_module(s, pxd, full_module_name) Compiling lib/bx/intseq/ngramcount.pyx because it changed. [1/1] Cythonizing lib/bx/intseq/ngramcount.pyx building 'bx.intseq.ngramcount' extension creating build/temp.linux-aarch64-cpython-313/lib/bx/intseq aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Isrc -I/usr/include/python3.13 -c lib/bx/intseq/ngramcount.c -o build/temp.linux-aarch64-cpython-313/lib/bx/intseq/ngramcount.o aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-313/lib/bx/intseq/ngramcount.o -L/usr/lib/aarch64-linux-gnu -o build/lib.linux-aarch64-cpython-313/bx/intseq/ngramcount.cpython-313-aarch64-linux-gnu.so /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/python-bx-0.13.0/lib/bx/misc/_seekbzip2.pyx tree = Parsing.p_module(s, pxd, full_module_name) Compiling lib/bx/misc/_seekbzip2.pyx because it changed. [1/1] Cythonizing lib/bx/misc/_seekbzip2.pyx building 'bx.misc._seekbzip2' extension creating build/temp.linux-aarch64-cpython-313/src/bunzip aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Isrc/bunzip -I/usr/include/python3.13 -c lib/bx/misc/_seekbzip2.c -o build/temp.linux-aarch64-cpython-313/lib/bx/misc/_seekbzip2.o aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Isrc/bunzip -I/usr/include/python3.13 -c src/bunzip/micro-bunzip.c -o build/temp.linux-aarch64-cpython-313/src/bunzip/micro-bunzip.o aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/python-bx-0.13.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-313/lib/bx/misc/_seekbzip2.o build/temp.linux-aarch64-cpython-313/src/bunzip/micro-bunzip.o -L/usr/lib/aarch64-linux-gnu -o build/lib.linux-aarch64-cpython-313/bx/misc/_seekbzip2.cpython-313-aarch64-linux-gnu.so running build_scripts creating build/scripts-3.13 copying and adjusting scripts/wiggle_to_simple.py -> build/scripts-3.13 copying and adjusting scripts/wiggle_to_chr_binned_array.py -> build/scripts-3.13 copying and adjusting scripts/wiggle_to_binned_array.py -> build/scripts-3.13 copying and adjusting scripts/wiggle_to_array_tree.py -> build/scripts-3.13 copying and adjusting scripts/ucsc_gene_table_to_intervals.py -> build/scripts-3.13 copying and adjusting scripts/tfloc_summary.py -> build/scripts-3.13 copying and adjusting scripts/table_filter.py -> build/scripts-3.13 copying and adjusting scripts/table_add_column.py -> build/scripts-3.13 copying and adjusting scripts/random_lines.py -> build/scripts-3.13 copying and adjusting scripts/qv_to_bqv.py -> build/scripts-3.13 copying and adjusting scripts/pretty_table.py -> build/scripts-3.13 copying and adjusting scripts/prefix_lines.py -> build/scripts-3.13 copying and adjusting scripts/out_to_chain.py -> build/scripts-3.13 copying and adjusting scripts/one_field_per_line.py -> build/scripts-3.13 copying and adjusting scripts/nib_length.py -> build/scripts-3.13 copying and adjusting scripts/nib_intervals_to_fasta.py -> build/scripts-3.13 copying and adjusting scripts/nib_chrom_intervals_to_fasta.py -> build/scripts-3.13 copying and adjusting scripts/mask_quality.py -> build/scripts-3.13 copying and adjusting scripts/maf_word_frequency.py -> build/scripts-3.13 copying and adjusting scripts/maf_truncate.py -> build/scripts-3.13 copying and adjusting scripts/maf_translate_chars.py -> build/scripts-3.13 copying and adjusting scripts/maf_to_int_seqs.py -> build/scripts-3.13 copying and adjusting scripts/maf_to_fasta.py -> build/scripts-3.13 copying and adjusting scripts/maf_to_concat_fasta.py -> build/scripts-3.13 copying and adjusting scripts/maf_to_axt.py -> build/scripts-3.13 copying and adjusting scripts/maf_tile_2bit.py -> build/scripts-3.13 copying and adjusting scripts/maf_tile_2.py -> build/scripts-3.13 copying and adjusting scripts/maf_tile.py -> build/scripts-3.13 copying and adjusting scripts/maf_thread_for_species.py -> build/scripts-3.13 copying and adjusting scripts/maf_split_by_src.py -> build/scripts-3.13 copying and adjusting scripts/maf_species_in_all_files.py -> build/scripts-3.13 copying and adjusting scripts/maf_shuffle_columns.py -> build/scripts-3.13 copying and adjusting scripts/maf_select.py -> build/scripts-3.13 copying and adjusting scripts/maf_region_coverage_by_src.py -> build/scripts-3.13 copying and adjusting scripts/maf_randomize.py -> build/scripts-3.13 copying and adjusting scripts/maf_print_scores.py -> build/scripts-3.13 copying and adjusting scripts/maf_print_chroms.py -> build/scripts-3.13 copying and adjusting scripts/maf_percent_identity.py -> build/scripts-3.13 copying and adjusting scripts/maf_percent_columns_matching.py -> build/scripts-3.13 copying and adjusting scripts/maf_mean_length_ungapped_piece.py -> build/scripts-3.13 copying and adjusting scripts/maf_mask_cpg.py -> build/scripts-3.13 copying and adjusting scripts/maf_mapping_word_frequency.py -> build/scripts-3.13 copying and adjusting scripts/maf_limit_to_species.py -> build/scripts-3.13 copying and adjusting scripts/maf_interval_alignibility.py -> build/scripts-3.13 copying and adjusting scripts/maf_gc_content.py -> build/scripts-3.13 copying and adjusting scripts/maf_gap_frequency.py -> build/scripts-3.13 copying and adjusting scripts/maf_filter_max_wc.py -> build/scripts-3.13 copying and adjusting scripts/maf_filter.py -> build/scripts-3.13 copying and adjusting scripts/maf_extract_ranges_indexed.py -> build/scripts-3.13 copying and adjusting scripts/maf_extract_ranges.py -> build/scripts-3.13 copying and adjusting scripts/maf_extract_chrom_ranges.py -> build/scripts-3.13 copying and adjusting scripts/maf_drop_overlapping.py -> build/scripts-3.13 copying and adjusting scripts/maf_div_sites.py -> build/scripts-3.13 copying and adjusting scripts/maf_covered_regions.py -> build/scripts-3.13 copying and adjusting scripts/maf_covered_ranges.py -> build/scripts-3.13 copying and adjusting scripts/maf_count.py -> build/scripts-3.13 copying and adjusting scripts/maf_col_counts_all.py -> build/scripts-3.13 copying and adjusting scripts/maf_col_counts.py -> build/scripts-3.13 copying and adjusting scripts/maf_chunk.py -> build/scripts-3.13 copying and adjusting scripts/maf_chop.py -> build/scripts-3.13 copying and adjusting scripts/maf_build_index.py -> build/scripts-3.13 copying and adjusting scripts/mMK_bitset.py -> build/scripts-3.13 copying and adjusting scripts/lzop_build_offset_table.py -> build/scripts-3.13 copying and adjusting scripts/line_select.py -> build/scripts-3.13 copying and adjusting scripts/lav_to_maf.py -> build/scripts-3.13 copying and adjusting scripts/lav_to_axt.py -> build/scripts-3.13 copying and adjusting scripts/interval_join.py -> build/scripts-3.13 copying and adjusting scripts/interval_count_intersections.py -> build/scripts-3.13 copying and adjusting scripts/int_seqs_to_char_strings.py -> build/scripts-3.13 copying and adjusting scripts/get_scores_in_intervals.py -> build/scripts-3.13 copying and adjusting scripts/find_in_sorted_file.py -> build/scripts-3.13 copying and adjusting scripts/div_snp_table_chr.py -> build/scripts-3.13 copying and adjusting scripts/bnMapper.py -> build/scripts-3.13 copying and adjusting scripts/bed_subtract_basewise.py -> build/scripts-3.13 copying and adjusting scripts/bed_rand_intersect.py -> build/scripts-3.13 copying and adjusting scripts/bed_merge_overlapping.py -> build/scripts-3.13 copying and adjusting scripts/bed_intersect_basewise.py -> build/scripts-3.13 copying and adjusting scripts/bed_intersect.py -> build/scripts-3.13 copying and adjusting scripts/bed_extend_to.py -> build/scripts-3.13 copying and adjusting scripts/bed_diff_basewise_summary.py -> build/scripts-3.13 copying and adjusting scripts/bed_coverage_by_interval.py -> build/scripts-3.13 copying and adjusting scripts/bed_coverage.py -> build/scripts-3.13 copying and adjusting scripts/bed_count_overlapping.py -> build/scripts-3.13 copying and adjusting scripts/bed_count_by_interval.py -> build/scripts-3.13 copying and adjusting scripts/bed_complement.py -> build/scripts-3.13 copying and adjusting scripts/bed_build_windows.py -> build/scripts-3.13 copying and adjusting scripts/bed_bigwig_profile.py -> build/scripts-3.13 copying and adjusting scripts/axt_to_maf.py -> build/scripts-3.13 copying and adjusting scripts/axt_to_lav.py -> build/scripts-3.13 copying and adjusting scripts/axt_to_fasta.py -> build/scripts-3.13 copying and adjusting scripts/axt_extract_ranges.py -> build/scripts-3.13 copying and adjusting scripts/align_print_template.py -> build/scripts-3.13 copying and adjusting scripts/aggregate_scores_in_intervals.py -> build/scripts-3.13 copying and adjusting scripts/gene_fourfold_sites.py -> build/scripts-3.13 changing mode of build/scripts-3.13/wiggle_to_simple.py from 644 to 755 changing mode of build/scripts-3.13/wiggle_to_chr_binned_array.py from 644 to 755 changing mode of build/scripts-3.13/wiggle_to_binned_array.py from 644 to 755 changing mode of build/scripts-3.13/wiggle_to_array_tree.py from 644 to 755 changing mode of build/scripts-3.13/ucsc_gene_table_to_intervals.py from 644 to 755 changing mode of build/scripts-3.13/tfloc_summary.py from 644 to 755 changing mode of build/scripts-3.13/table_filter.py from 644 to 755 changing mode of build/scripts-3.13/table_add_column.py from 644 to 755 changing mode of build/scripts-3.13/random_lines.py from 644 to 755 changing mode of build/scripts-3.13/qv_to_bqv.py from 644 to 755 changing mode of build/scripts-3.13/pretty_table.py from 644 to 755 changing mode of build/scripts-3.13/prefix_lines.py from 644 to 755 changing mode of build/scripts-3.13/out_to_chain.py from 644 to 755 changing mode of build/scripts-3.13/one_field_per_line.py from 644 to 755 changing mode of build/scripts-3.13/nib_length.py from 644 to 755 changing mode of build/scripts-3.13/nib_intervals_to_fasta.py from 644 to 755 changing mode of build/scripts-3.13/nib_chrom_intervals_to_fasta.py from 644 to 755 changing mode of build/scripts-3.13/mask_quality.py from 644 to 755 changing mode of build/scripts-3.13/maf_word_frequency.py from 644 to 755 changing mode of build/scripts-3.13/maf_truncate.py from 644 to 755 changing mode of build/scripts-3.13/maf_translate_chars.py from 644 to 755 changing mode of build/scripts-3.13/maf_to_int_seqs.py from 644 to 755 changing mode of build/scripts-3.13/maf_to_fasta.py from 644 to 755 changing mode of build/scripts-3.13/maf_to_concat_fasta.py from 644 to 755 changing mode of build/scripts-3.13/maf_to_axt.py from 644 to 755 changing mode of build/scripts-3.13/maf_tile_2bit.py from 644 to 755 changing mode of build/scripts-3.13/maf_tile_2.py from 644 to 755 changing mode of build/scripts-3.13/maf_tile.py from 644 to 755 changing mode of build/scripts-3.13/maf_thread_for_species.py from 644 to 755 changing mode of build/scripts-3.13/maf_split_by_src.py from 644 to 755 changing mode of build/scripts-3.13/maf_species_in_all_files.py from 644 to 755 changing mode of build/scripts-3.13/maf_shuffle_columns.py from 644 to 755 changing mode of build/scripts-3.13/maf_select.py from 644 to 755 changing mode of build/scripts-3.13/maf_region_coverage_by_src.py from 644 to 755 changing mode of build/scripts-3.13/maf_randomize.py from 644 to 755 changing mode of build/scripts-3.13/maf_print_scores.py from 644 to 755 changing mode of build/scripts-3.13/maf_print_chroms.py from 644 to 755 changing mode of build/scripts-3.13/maf_percent_identity.py from 644 to 755 changing mode of build/scripts-3.13/maf_percent_columns_matching.py from 644 to 755 changing mode of build/scripts-3.13/maf_mean_length_ungapped_piece.py from 644 to 755 changing mode of build/scripts-3.13/maf_mask_cpg.py from 644 to 755 changing mode of build/scripts-3.13/maf_mapping_word_frequency.py from 644 to 755 changing mode of build/scripts-3.13/maf_limit_to_species.py from 644 to 755 changing mode of build/scripts-3.13/maf_interval_alignibility.py from 644 to 755 changing mode of build/scripts-3.13/maf_gc_content.py from 644 to 755 changing mode of build/scripts-3.13/maf_gap_frequency.py from 644 to 755 changing mode of build/scripts-3.13/maf_filter_max_wc.py from 644 to 755 changing mode of build/scripts-3.13/maf_filter.py from 644 to 755 changing mode of build/scripts-3.13/maf_extract_ranges_indexed.py from 644 to 755 changing mode of build/scripts-3.13/maf_extract_ranges.py from 644 to 755 changing mode of build/scripts-3.13/maf_extract_chrom_ranges.py from 644 to 755 changing mode of build/scripts-3.13/maf_drop_overlapping.py from 644 to 755 changing mode of build/scripts-3.13/maf_div_sites.py from 644 to 755 changing mode of build/scripts-3.13/maf_covered_regions.py from 644 to 755 changing mode of build/scripts-3.13/maf_covered_ranges.py from 644 to 755 changing mode of build/scripts-3.13/maf_count.py from 644 to 755 changing mode of build/scripts-3.13/maf_col_counts_all.py from 644 to 755 changing mode of build/scripts-3.13/maf_col_counts.py from 644 to 755 changing mode of build/scripts-3.13/maf_chunk.py from 644 to 755 changing mode of build/scripts-3.13/maf_chop.py from 644 to 755 changing mode of build/scripts-3.13/maf_build_index.py from 644 to 755 changing mode of build/scripts-3.13/mMK_bitset.py from 644 to 755 changing mode of build/scripts-3.13/lzop_build_offset_table.py from 644 to 755 changing mode of build/scripts-3.13/line_select.py from 644 to 755 changing mode of build/scripts-3.13/lav_to_maf.py from 644 to 755 changing mode of build/scripts-3.13/lav_to_axt.py from 644 to 755 changing mode of build/scripts-3.13/interval_join.py from 644 to 755 changing mode of build/scripts-3.13/interval_count_intersections.py from 644 to 755 changing mode of build/scripts-3.13/int_seqs_to_char_strings.py from 644 to 755 changing mode of build/scripts-3.13/get_scores_in_intervals.py from 644 to 755 changing mode of build/scripts-3.13/find_in_sorted_file.py from 644 to 755 changing mode of build/scripts-3.13/div_snp_table_chr.py from 644 to 755 changing mode of build/scripts-3.13/bnMapper.py from 644 to 755 changing mode of build/scripts-3.13/bed_subtract_basewise.py from 644 to 755 changing mode of build/scripts-3.13/bed_rand_intersect.py from 644 to 755 changing mode of build/scripts-3.13/bed_merge_overlapping.py from 644 to 755 changing mode of build/scripts-3.13/bed_intersect_basewise.py from 644 to 755 changing mode of build/scripts-3.13/bed_intersect.py from 644 to 755 changing mode of build/scripts-3.13/bed_extend_to.py from 644 to 755 changing mode of build/scripts-3.13/bed_diff_basewise_summary.py from 644 to 755 changing mode of build/scripts-3.13/bed_coverage_by_interval.py from 644 to 755 changing mode of build/scripts-3.13/bed_coverage.py from 644 to 755 changing mode of build/scripts-3.13/bed_count_overlapping.py from 644 to 755 changing mode of build/scripts-3.13/bed_count_by_interval.py from 644 to 755 changing mode of build/scripts-3.13/bed_complement.py from 644 to 755 changing mode of build/scripts-3.13/bed_build_windows.py from 644 to 755 changing mode of build/scripts-3.13/bed_bigwig_profile.py from 644 to 755 changing mode of build/scripts-3.13/axt_to_maf.py from 644 to 755 changing mode of build/scripts-3.13/axt_to_lav.py from 644 to 755 changing mode of build/scripts-3.13/axt_to_fasta.py from 644 to 755 changing mode of build/scripts-3.13/axt_extract_ranges.py from 644 to 755 changing mode of build/scripts-3.13/align_print_template.py from 644 to 755 changing mode of build/scripts-3.13/aggregate_scores_in_intervals.py from 644 to 755 changing mode of build/scripts-3.13/gene_fourfold_sites.py from 644 to 755 installing to build/bdist.linux-aarch64/wheel running install running install_lib creating build/bdist.linux-aarch64/wheel creating build/bdist.linux-aarch64/wheel/bx copying build/lib.linux-aarch64-cpython-313/bx/_seqmapping.cpython-313-aarch64-linux-gnu.so -> build/bdist.linux-aarch64/wheel/./bx copying build/lib.linux-aarch64-cpython-313/bx/bitset.cpython-313-aarch64-linux-gnu.so -> build/bdist.linux-aarch64/wheel/./bx creating build/bdist.linux-aarch64/wheel/bx/align copying build/lib.linux-aarch64-cpython-313/bx/align/_epo.cpython-313-aarch64-linux-gnu.so -> build/bdist.linux-aarch64/wheel/./bx/align copying build/lib.linux-aarch64-cpython-313/bx/align/_core.cpython-313-aarch64-linux-gnu.so -> build/bdist.linux-aarch64/wheel/./bx/align creating build/bdist.linux-aarch64/wheel/bx/align/sitemask copying build/lib.linux-aarch64-cpython-313/bx/align/sitemask/_cpg.cpython-313-aarch64-linux-gnu.so -> build/bdist.linux-aarch64/wheel/./bx/align/sitemask copying build/lib.linux-aarch64-cpython-313/bx/align/sitemask/__init__.py -> build/bdist.linux-aarch64/wheel/./bx/align/sitemask copying build/lib.linux-aarch64-cpython-313/bx/align/sitemask/core.py -> build/bdist.linux-aarch64/wheel/./bx/align/sitemask copying build/lib.linux-aarch64-cpython-313/bx/align/sitemask/cpg.py -> build/bdist.linux-aarch64/wheel/./bx/align/sitemask copying build/lib.linux-aarch64-cpython-313/bx/align/sitemask/quality.py -> build/bdist.linux-aarch64/wheel/./bx/align/sitemask copying build/lib.linux-aarch64-cpython-313/bx/align/sitemask/sitemask_tests.py -> build/bdist.linux-aarch64/wheel/./bx/align/sitemask creating build/bdist.linux-aarch64/wheel/bx/align/tools copying build/lib.linux-aarch64-cpython-313/bx/align/tools/__init__.py -> build/bdist.linux-aarch64/wheel/./bx/align/tools copying build/lib.linux-aarch64-cpython-313/bx/align/tools/chop.py -> build/bdist.linux-aarch64/wheel/./bx/align/tools copying build/lib.linux-aarch64-cpython-313/bx/align/tools/fuse.py -> build/bdist.linux-aarch64/wheel/./bx/align/tools copying build/lib.linux-aarch64-cpython-313/bx/align/tools/thread.py -> build/bdist.linux-aarch64/wheel/./bx/align/tools copying build/lib.linux-aarch64-cpython-313/bx/align/tools/tile.py -> build/bdist.linux-aarch64/wheel/./bx/align/tools copying build/lib.linux-aarch64-cpython-313/bx/align/__init__.py -> build/bdist.linux-aarch64/wheel/./bx/align copying build/lib.linux-aarch64-cpython-313/bx/align/axt.py -> build/bdist.linux-aarch64/wheel/./bx/align copying build/lib.linux-aarch64-cpython-313/bx/align/core.py -> build/bdist.linux-aarch64/wheel/./bx/align copying build/lib.linux-aarch64-cpython-313/bx/align/lav.py -> build/bdist.linux-aarch64/wheel/./bx/align copying build/lib.linux-aarch64-cpython-313/bx/align/lav_tests.py -> build/bdist.linux-aarch64/wheel/./bx/align copying build/lib.linux-aarch64-cpython-313/bx/align/maf.py -> build/bdist.linux-aarch64/wheel/./bx/align copying build/lib.linux-aarch64-cpython-313/bx/align/maf_tests.py -> build/bdist.linux-aarch64/wheel/./bx/align copying build/lib.linux-aarch64-cpython-313/bx/align/score.py -> build/bdist.linux-aarch64/wheel/./bx/align copying build/lib.linux-aarch64-cpython-313/bx/align/score_tests.py -> build/bdist.linux-aarch64/wheel/./bx/align copying build/lib.linux-aarch64-cpython-313/bx/align/epo.py -> build/bdist.linux-aarch64/wheel/./bx/align copying build/lib.linux-aarch64-cpython-313/bx/align/epo_tests.py -> build/bdist.linux-aarch64/wheel/./bx/align creating build/bdist.linux-aarch64/wheel/bx/arrays copying build/lib.linux-aarch64-cpython-313/bx/arrays/wiggle.cpython-313-aarch64-linux-gnu.so -> build/bdist.linux-aarch64/wheel/./bx/arrays copying build/lib.linux-aarch64-cpython-313/bx/arrays/bed.cpython-313-aarch64-linux-gnu.so -> build/bdist.linux-aarch64/wheel/./bx/arrays copying build/lib.linux-aarch64-cpython-313/bx/arrays/array_tree.cpython-313-aarch64-linux-gnu.so -> build/bdist.linux-aarch64/wheel/./bx/arrays copying build/lib.linux-aarch64-cpython-313/bx/arrays/__init__.py -> build/bdist.linux-aarch64/wheel/./bx/arrays copying build/lib.linux-aarch64-cpython-313/bx/arrays/array_tree_tests.py -> build/bdist.linux-aarch64/wheel/./bx/arrays creating build/bdist.linux-aarch64/wheel/bx/bbi copying build/lib.linux-aarch64-cpython-313/bx/bbi/bigbed_file.cpython-313-aarch64-linux-gnu.so -> build/bdist.linux-aarch64/wheel/./bx/bbi copying build/lib.linux-aarch64-cpython-313/bx/bbi/bigwig_file.cpython-313-aarch64-linux-gnu.so -> build/bdist.linux-aarch64/wheel/./bx/bbi copying build/lib.linux-aarch64-cpython-313/bx/bbi/bbi_file.cpython-313-aarch64-linux-gnu.so -> build/bdist.linux-aarch64/wheel/./bx/bbi copying build/lib.linux-aarch64-cpython-313/bx/bbi/cirtree_file.cpython-313-aarch64-linux-gnu.so -> build/bdist.linux-aarch64/wheel/./bx/bbi copying build/lib.linux-aarch64-cpython-313/bx/bbi/bpt_file.cpython-313-aarch64-linux-gnu.so -> build/bdist.linux-aarch64/wheel/./bx/bbi copying build/lib.linux-aarch64-cpython-313/bx/bbi/__init__.py -> build/bdist.linux-aarch64/wheel/./bx/bbi copying build/lib.linux-aarch64-cpython-313/bx/bbi/bigwig_tests.py -> build/bdist.linux-aarch64/wheel/./bx/bbi creating build/bdist.linux-aarch64/wheel/bx/cookbook copying build/lib.linux-aarch64-cpython-313/bx/cookbook/__init__.py -> build/bdist.linux-aarch64/wheel/./bx/cookbook copying build/lib.linux-aarch64-cpython-313/bx/cookbook/attribute.py -> build/bdist.linux-aarch64/wheel/./bx/cookbook copying build/lib.linux-aarch64-cpython-313/bx/cookbook/doc_optparse.py -> build/bdist.linux-aarch64/wheel/./bx/cookbook creating build/bdist.linux-aarch64/wheel/bx/intervals copying build/lib.linux-aarch64-cpython-313/bx/intervals/cluster.cpython-313-aarch64-linux-gnu.so -> build/bdist.linux-aarch64/wheel/./bx/intervals copying build/lib.linux-aarch64-cpython-313/bx/intervals/intersection.cpython-313-aarch64-linux-gnu.so -> build/bdist.linux-aarch64/wheel/./bx/intervals creating build/bdist.linux-aarch64/wheel/bx/intervals/operations copying build/lib.linux-aarch64-cpython-313/bx/intervals/operations/__init__.py -> build/bdist.linux-aarch64/wheel/./bx/intervals/operations copying build/lib.linux-aarch64-cpython-313/bx/intervals/operations/base_coverage.py -> build/bdist.linux-aarch64/wheel/./bx/intervals/operations copying build/lib.linux-aarch64-cpython-313/bx/intervals/operations/complement.py -> build/bdist.linux-aarch64/wheel/./bx/intervals/operations copying build/lib.linux-aarch64-cpython-313/bx/intervals/operations/concat.py -> build/bdist.linux-aarch64/wheel/./bx/intervals/operations copying build/lib.linux-aarch64-cpython-313/bx/intervals/operations/coverage.py -> build/bdist.linux-aarch64/wheel/./bx/intervals/operations copying build/lib.linux-aarch64-cpython-313/bx/intervals/operations/find_clusters.py -> build/bdist.linux-aarch64/wheel/./bx/intervals/operations copying build/lib.linux-aarch64-cpython-313/bx/intervals/operations/intersect.py -> build/bdist.linux-aarch64/wheel/./bx/intervals/operations copying build/lib.linux-aarch64-cpython-313/bx/intervals/operations/join.py -> build/bdist.linux-aarch64/wheel/./bx/intervals/operations copying build/lib.linux-aarch64-cpython-313/bx/intervals/operations/merge.py -> build/bdist.linux-aarch64/wheel/./bx/intervals/operations copying build/lib.linux-aarch64-cpython-313/bx/intervals/operations/quicksect.py -> build/bdist.linux-aarch64/wheel/./bx/intervals/operations copying build/lib.linux-aarch64-cpython-313/bx/intervals/operations/subtract.py -> build/bdist.linux-aarch64/wheel/./bx/intervals/operations copying build/lib.linux-aarch64-cpython-313/bx/intervals/__init__.py -> build/bdist.linux-aarch64/wheel/./bx/intervals copying build/lib.linux-aarch64-cpython-313/bx/intervals/cluster_tests.py -> build/bdist.linux-aarch64/wheel/./bx/intervals copying build/lib.linux-aarch64-cpython-313/bx/intervals/intersection_tests.py -> build/bdist.linux-aarch64/wheel/./bx/intervals copying build/lib.linux-aarch64-cpython-313/bx/intervals/io.py -> build/bdist.linux-aarch64/wheel/./bx/intervals copying build/lib.linux-aarch64-cpython-313/bx/intervals/random_intervals.py -> build/bdist.linux-aarch64/wheel/./bx/intervals creating build/bdist.linux-aarch64/wheel/bx/intseq copying build/lib.linux-aarch64-cpython-313/bx/intseq/ngramcount.cpython-313-aarch64-linux-gnu.so -> build/bdist.linux-aarch64/wheel/./bx/intseq copying build/lib.linux-aarch64-cpython-313/bx/intseq/__init__.py -> build/bdist.linux-aarch64/wheel/./bx/intseq creating build/bdist.linux-aarch64/wheel/bx/misc copying build/lib.linux-aarch64-cpython-313/bx/misc/_seekbzip2.cpython-313-aarch64-linux-gnu.so -> build/bdist.linux-aarch64/wheel/./bx/misc copying build/lib.linux-aarch64-cpython-313/bx/misc/bgzf.cpython-313-aarch64-linux-gnu.so -> build/bdist.linux-aarch64/wheel/./bx/misc copying build/lib.linux-aarch64-cpython-313/bx/misc/__init__.py -> build/bdist.linux-aarch64/wheel/./bx/misc copying build/lib.linux-aarch64-cpython-313/bx/misc/bgzf_tests.py -> build/bdist.linux-aarch64/wheel/./bx/misc copying build/lib.linux-aarch64-cpython-313/bx/misc/binary_file.py -> build/bdist.linux-aarch64/wheel/./bx/misc copying build/lib.linux-aarch64-cpython-313/bx/misc/cdb.py -> build/bdist.linux-aarch64/wheel/./bx/misc copying build/lib.linux-aarch64-cpython-313/bx/misc/cdb_tests.py -> build/bdist.linux-aarch64/wheel/./bx/misc copying build/lib.linux-aarch64-cpython-313/bx/misc/filecache.py -> build/bdist.linux-aarch64/wheel/./bx/misc copying build/lib.linux-aarch64-cpython-313/bx/misc/filecache_tests.py -> build/bdist.linux-aarch64/wheel/./bx/misc copying build/lib.linux-aarch64-cpython-313/bx/misc/readlengths.py -> build/bdist.linux-aarch64/wheel/./bx/misc copying build/lib.linux-aarch64-cpython-313/bx/misc/seekbzip2.py -> build/bdist.linux-aarch64/wheel/./bx/misc copying build/lib.linux-aarch64-cpython-313/bx/misc/seekbzip2_tests.py -> build/bdist.linux-aarch64/wheel/./bx/misc copying build/lib.linux-aarch64-cpython-313/bx/misc/seeklzop.py -> build/bdist.linux-aarch64/wheel/./bx/misc copying build/lib.linux-aarch64-cpython-313/bx/misc/seeklzop_tests.py -> build/bdist.linux-aarch64/wheel/./bx/misc creating build/bdist.linux-aarch64/wheel/bx/motif copying build/lib.linux-aarch64-cpython-313/bx/motif/_pwm.cpython-313-aarch64-linux-gnu.so -> build/bdist.linux-aarch64/wheel/./bx/motif creating build/bdist.linux-aarch64/wheel/bx/motif/io copying build/lib.linux-aarch64-cpython-313/bx/motif/io/__init__.py -> build/bdist.linux-aarch64/wheel/./bx/motif/io copying build/lib.linux-aarch64-cpython-313/bx/motif/io/transfac.py -> build/bdist.linux-aarch64/wheel/./bx/motif/io copying build/lib.linux-aarch64-cpython-313/bx/motif/io/transfac_tests.py -> build/bdist.linux-aarch64/wheel/./bx/motif/io creating build/bdist.linux-aarch64/wheel/bx/motif/logo copying build/lib.linux-aarch64-cpython-313/bx/motif/logo/template.ps -> build/bdist.linux-aarch64/wheel/./bx/motif/logo copying build/lib.linux-aarch64-cpython-313/bx/motif/logo/__init__.py -> build/bdist.linux-aarch64/wheel/./bx/motif/logo copying build/lib.linux-aarch64-cpython-313/bx/motif/__init__.py -> build/bdist.linux-aarch64/wheel/./bx/motif copying build/lib.linux-aarch64-cpython-313/bx/motif/pwm.py -> build/bdist.linux-aarch64/wheel/./bx/motif copying build/lib.linux-aarch64-cpython-313/bx/motif/pwm_tests.py -> build/bdist.linux-aarch64/wheel/./bx/motif creating build/bdist.linux-aarch64/wheel/bx/phylo copying build/lib.linux-aarch64-cpython-313/bx/phylo/__init__.py -> build/bdist.linux-aarch64/wheel/./bx/phylo copying build/lib.linux-aarch64-cpython-313/bx/phylo/newick.py -> build/bdist.linux-aarch64/wheel/./bx/phylo copying build/lib.linux-aarch64-cpython-313/bx/phylo/newick_tests.py -> build/bdist.linux-aarch64/wheel/./bx/phylo copying build/lib.linux-aarch64-cpython-313/bx/phylo/phast.py -> build/bdist.linux-aarch64/wheel/./bx/phylo copying build/lib.linux-aarch64-cpython-313/bx/phylo/phast_tests.py -> build/bdist.linux-aarch64/wheel/./bx/phylo creating build/bdist.linux-aarch64/wheel/bx/pwm copying build/lib.linux-aarch64-cpython-313/bx/pwm/_position_weight_matrix.cpython-313-aarch64-linux-gnu.so -> build/bdist.linux-aarch64/wheel/./bx/pwm copying build/lib.linux-aarch64-cpython-313/bx/pwm/__init__.py -> build/bdist.linux-aarch64/wheel/./bx/pwm copying build/lib.linux-aarch64-cpython-313/bx/pwm/pwm_tests.py -> build/bdist.linux-aarch64/wheel/./bx/pwm copying build/lib.linux-aarch64-cpython-313/bx/pwm/bed_score_aligned_pwm.py -> build/bdist.linux-aarch64/wheel/./bx/pwm copying build/lib.linux-aarch64-cpython-313/bx/pwm/bed_score_aligned_string.py -> build/bdist.linux-aarch64/wheel/./bx/pwm copying build/lib.linux-aarch64-cpython-313/bx/pwm/maf_select_motifs.py -> build/bdist.linux-aarch64/wheel/./bx/pwm copying build/lib.linux-aarch64-cpython-313/bx/pwm/position_weight_matrix.py -> build/bdist.linux-aarch64/wheel/./bx/pwm copying build/lib.linux-aarch64-cpython-313/bx/pwm/pwm_score_motifs.py -> build/bdist.linux-aarch64/wheel/./bx/pwm copying build/lib.linux-aarch64-cpython-313/bx/pwm/pwm_score_positions.py -> build/bdist.linux-aarch64/wheel/./bx/pwm copying build/lib.linux-aarch64-cpython-313/bx/pwm/pwm_score_maf.py -> build/bdist.linux-aarch64/wheel/./bx/pwm creating build/bdist.linux-aarch64/wheel/bx/seq copying build/lib.linux-aarch64-cpython-313/bx/seq/_twobit.cpython-313-aarch64-linux-gnu.so -> build/bdist.linux-aarch64/wheel/./bx/seq copying build/lib.linux-aarch64-cpython-313/bx/seq/_nib.cpython-313-aarch64-linux-gnu.so -> build/bdist.linux-aarch64/wheel/./bx/seq copying build/lib.linux-aarch64-cpython-313/bx/seq/__init__.py -> build/bdist.linux-aarch64/wheel/./bx/seq copying build/lib.linux-aarch64-cpython-313/bx/seq/core.py -> build/bdist.linux-aarch64/wheel/./bx/seq copying build/lib.linux-aarch64-cpython-313/bx/seq/fasta.py -> build/bdist.linux-aarch64/wheel/./bx/seq copying build/lib.linux-aarch64-cpython-313/bx/seq/fasta_tests.py -> build/bdist.linux-aarch64/wheel/./bx/seq copying build/lib.linux-aarch64-cpython-313/bx/seq/nib.py -> build/bdist.linux-aarch64/wheel/./bx/seq copying build/lib.linux-aarch64-cpython-313/bx/seq/nib_tests.py -> build/bdist.linux-aarch64/wheel/./bx/seq copying build/lib.linux-aarch64-cpython-313/bx/seq/qdna.py -> build/bdist.linux-aarch64/wheel/./bx/seq copying build/lib.linux-aarch64-cpython-313/bx/seq/qdna_tests.py -> build/bdist.linux-aarch64/wheel/./bx/seq copying build/lib.linux-aarch64-cpython-313/bx/seq/seq.py -> build/bdist.linux-aarch64/wheel/./bx/seq copying build/lib.linux-aarch64-cpython-313/bx/seq/seq_tests.py -> build/bdist.linux-aarch64/wheel/./bx/seq copying build/lib.linux-aarch64-cpython-313/bx/seq/twobit.py -> build/bdist.linux-aarch64/wheel/./bx/seq copying build/lib.linux-aarch64-cpython-313/bx/seq/twobit_tests.py -> build/bdist.linux-aarch64/wheel/./bx/seq creating build/bdist.linux-aarch64/wheel/bx/tabular copying build/lib.linux-aarch64-cpython-313/bx/tabular/__init__.py -> build/bdist.linux-aarch64/wheel/./bx/tabular copying build/lib.linux-aarch64-cpython-313/bx/tabular/io.py -> build/bdist.linux-aarch64/wheel/./bx/tabular copying build/lib.linux-aarch64-cpython-313/bx/__init__.py -> build/bdist.linux-aarch64/wheel/./bx copying build/lib.linux-aarch64-cpython-313/bx/binned_array.py -> build/bdist.linux-aarch64/wheel/./bx copying build/lib.linux-aarch64-cpython-313/bx/binned_array_tests.py -> build/bdist.linux-aarch64/wheel/./bx copying build/lib.linux-aarch64-cpython-313/bx/bitset_builders.py -> build/bdist.linux-aarch64/wheel/./bx copying build/lib.linux-aarch64-cpython-313/bx/bitset_tests.py -> build/bdist.linux-aarch64/wheel/./bx copying build/lib.linux-aarch64-cpython-313/bx/bitset_utils.py -> build/bdist.linux-aarch64/wheel/./bx copying build/lib.linux-aarch64-cpython-313/bx/filter.py -> build/bdist.linux-aarch64/wheel/./bx copying build/lib.linux-aarch64-cpython-313/bx/gene_reader.py -> build/bdist.linux-aarch64/wheel/./bx copying build/lib.linux-aarch64-cpython-313/bx/interval_index_file_tests.py -> build/bdist.linux-aarch64/wheel/./bx copying build/lib.linux-aarch64-cpython-313/bx/seqmapping.py -> build/bdist.linux-aarch64/wheel/./bx copying build/lib.linux-aarch64-cpython-313/bx/seqmapping_tests.py -> build/bdist.linux-aarch64/wheel/./bx copying build/lib.linux-aarch64-cpython-313/bx/wiggle.py -> build/bdist.linux-aarch64/wheel/./bx copying build/lib.linux-aarch64-cpython-313/bx/wiggle_tests.py -> build/bdist.linux-aarch64/wheel/./bx copying build/lib.linux-aarch64-cpython-313/bx/interval_index_file.py -> build/bdist.linux-aarch64/wheel/./bx creating build/bdist.linux-aarch64/wheel/bx_extras copying build/lib.linux-aarch64-cpython-313/bx_extras/__init__.py -> build/bdist.linux-aarch64/wheel/./bx_extras copying build/lib.linux-aarch64-cpython-313/bx_extras/fpconst.py -> build/bdist.linux-aarch64/wheel/./bx_extras copying build/lib.linux-aarch64-cpython-313/bx_extras/fpconst_tests.py -> build/bdist.linux-aarch64/wheel/./bx_extras copying build/lib.linux-aarch64-cpython-313/bx_extras/lrucache.py -> build/bdist.linux-aarch64/wheel/./bx_extras copying build/lib.linux-aarch64-cpython-313/bx_extras/pstat.py -> build/bdist.linux-aarch64/wheel/./bx_extras copying build/lib.linux-aarch64-cpython-313/bx_extras/stats.py -> build/bdist.linux-aarch64/wheel/./bx_extras running install_egg_info running egg_info creating lib/bx_python.egg-info writing lib/bx_python.egg-info/PKG-INFO writing dependency_links to lib/bx_python.egg-info/dependency_links.txt writing requirements to lib/bx_python.egg-info/requires.txt writing top-level names to lib/bx_python.egg-info/top_level.txt writing manifest file 'lib/bx_python.egg-info/SOURCES.txt' reading manifest file 'lib/bx_python.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' adding license file 'LICENSE' writing manifest file 'lib/bx_python.egg-info/SOURCES.txt' Copying lib/bx_python.egg-info to build/bdist.linux-aarch64/wheel/./bx_python-0.13.0.egg-info running install_scripts creating build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/gene_fourfold_sites.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/aggregate_scores_in_intervals.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/align_print_template.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/axt_extract_ranges.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/axt_to_fasta.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/axt_to_lav.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/axt_to_maf.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/bed_bigwig_profile.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/bed_build_windows.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/bed_complement.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/bed_count_by_interval.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/bed_count_overlapping.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/bed_coverage.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/bed_coverage_by_interval.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/bed_diff_basewise_summary.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/bed_extend_to.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/bed_intersect.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/bed_intersect_basewise.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/bed_merge_overlapping.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/bed_rand_intersect.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/bed_subtract_basewise.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/bnMapper.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/div_snp_table_chr.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/find_in_sorted_file.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/get_scores_in_intervals.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/int_seqs_to_char_strings.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/interval_count_intersections.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/interval_join.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/lav_to_axt.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/lav_to_maf.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/line_select.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/lzop_build_offset_table.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/mMK_bitset.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_build_index.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_chop.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_chunk.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_col_counts.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_col_counts_all.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_count.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_covered_ranges.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_covered_regions.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_div_sites.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_drop_overlapping.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_extract_chrom_ranges.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_extract_ranges.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_extract_ranges_indexed.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_filter.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_filter_max_wc.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_gap_frequency.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_gc_content.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_interval_alignibility.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_limit_to_species.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_mapping_word_frequency.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_mask_cpg.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_mean_length_ungapped_piece.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_percent_columns_matching.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_percent_identity.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_print_chroms.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_print_scores.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_randomize.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_region_coverage_by_src.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_select.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_shuffle_columns.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_species_in_all_files.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_split_by_src.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_thread_for_species.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_tile.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_tile_2.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_tile_2bit.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_to_axt.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_to_concat_fasta.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_to_fasta.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_to_int_seqs.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_translate_chars.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_truncate.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/maf_word_frequency.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/mask_quality.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/nib_chrom_intervals_to_fasta.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/nib_intervals_to_fasta.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/nib_length.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/one_field_per_line.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/out_to_chain.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/prefix_lines.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/pretty_table.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/qv_to_bqv.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/random_lines.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/table_add_column.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/table_filter.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/tfloc_summary.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/ucsc_gene_table_to_intervals.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/wiggle_to_array_tree.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/wiggle_to_binned_array.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/wiggle_to_chr_binned_array.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts copying build/scripts-3.13/wiggle_to_simple.py -> build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/gene_fourfold_sites.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/aggregate_scores_in_intervals.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/align_print_template.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/axt_extract_ranges.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/axt_to_fasta.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/axt_to_lav.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/axt_to_maf.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/bed_bigwig_profile.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/bed_build_windows.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/bed_complement.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/bed_count_by_interval.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/bed_count_overlapping.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/bed_coverage.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/bed_coverage_by_interval.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/bed_diff_basewise_summary.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/bed_extend_to.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/bed_intersect.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/bed_intersect_basewise.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/bed_merge_overlapping.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/bed_rand_intersect.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/bed_subtract_basewise.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/bnMapper.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/div_snp_table_chr.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/find_in_sorted_file.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/get_scores_in_intervals.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/int_seqs_to_char_strings.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/interval_count_intersections.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/interval_join.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/lav_to_axt.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/lav_to_maf.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/line_select.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/lzop_build_offset_table.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/mMK_bitset.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_build_index.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_chop.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_chunk.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_col_counts.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_col_counts_all.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_count.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_covered_ranges.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_covered_regions.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_div_sites.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_drop_overlapping.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_extract_chrom_ranges.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_extract_ranges.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_extract_ranges_indexed.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_filter.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_filter_max_wc.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_gap_frequency.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_gc_content.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_interval_alignibility.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_limit_to_species.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_mapping_word_frequency.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_mask_cpg.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_mean_length_ungapped_piece.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_percent_columns_matching.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_percent_identity.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_print_chroms.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_print_scores.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_randomize.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_region_coverage_by_src.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_select.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_shuffle_columns.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_species_in_all_files.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_split_by_src.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_thread_for_species.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_tile.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_tile_2.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_tile_2bit.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_to_axt.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_to_concat_fasta.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_to_fasta.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_to_int_seqs.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_translate_chars.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_truncate.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/maf_word_frequency.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/mask_quality.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/nib_chrom_intervals_to_fasta.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/nib_intervals_to_fasta.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/nib_length.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/one_field_per_line.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/out_to_chain.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/prefix_lines.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/pretty_table.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/qv_to_bqv.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/random_lines.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/table_add_column.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/table_filter.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/tfloc_summary.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/ucsc_gene_table_to_intervals.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/wiggle_to_array_tree.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/wiggle_to_binned_array.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/wiggle_to_chr_binned_array.py to 755 changing mode of build/bdist.linux-aarch64/wheel/bx_python-0.13.0.data/scripts/wiggle_to_simple.py to 755 creating build/bdist.linux-aarch64/wheel/bx_python-0.13.0.dist-info/WHEEL creating '/build/reproducible-path/python-bx-0.13.0/.pybuild/cpython3_3.13_bx-python/.tmp-l96z3ozb/bx_python-0.13.0-cp313-cp313-linux_aarch64.whl' and adding 'build/bdist.linux-aarch64/wheel' to it adding 'bx/__init__.py' adding 'bx/_seqmapping.cpython-313-aarch64-linux-gnu.so' adding 'bx/binned_array.py' adding 'bx/binned_array_tests.py' adding 'bx/bitset.cpython-313-aarch64-linux-gnu.so' adding 'bx/bitset_builders.py' adding 'bx/bitset_tests.py' adding 'bx/bitset_utils.py' adding 'bx/filter.py' adding 'bx/gene_reader.py' adding 'bx/interval_index_file.py' adding 'bx/interval_index_file_tests.py' adding 'bx/seqmapping.py' adding 'bx/seqmapping_tests.py' adding 'bx/wiggle.py' adding 'bx/wiggle_tests.py' adding 'bx/align/__init__.py' adding 'bx/align/_core.cpython-313-aarch64-linux-gnu.so' adding 'bx/align/_epo.cpython-313-aarch64-linux-gnu.so' adding 'bx/align/axt.py' adding 'bx/align/core.py' adding 'bx/align/epo.py' adding 'bx/align/epo_tests.py' adding 'bx/align/lav.py' adding 'bx/align/lav_tests.py' adding 'bx/align/maf.py' adding 'bx/align/maf_tests.py' adding 'bx/align/score.py' adding 'bx/align/score_tests.py' adding 'bx/align/sitemask/__init__.py' adding 'bx/align/sitemask/_cpg.cpython-313-aarch64-linux-gnu.so' adding 'bx/align/sitemask/core.py' adding 'bx/align/sitemask/cpg.py' adding 'bx/align/sitemask/quality.py' adding 'bx/align/sitemask/sitemask_tests.py' adding 'bx/align/tools/__init__.py' adding 'bx/align/tools/chop.py' adding 'bx/align/tools/fuse.py' adding 'bx/align/tools/thread.py' adding 'bx/align/tools/tile.py' adding 'bx/arrays/__init__.py' adding 'bx/arrays/array_tree.cpython-313-aarch64-linux-gnu.so' adding 'bx/arrays/array_tree_tests.py' adding 'bx/arrays/bed.cpython-313-aarch64-linux-gnu.so' adding 'bx/arrays/wiggle.cpython-313-aarch64-linux-gnu.so' adding 'bx/bbi/__init__.py' adding 'bx/bbi/bbi_file.cpython-313-aarch64-linux-gnu.so' adding 'bx/bbi/bigbed_file.cpython-313-aarch64-linux-gnu.so' adding 'bx/bbi/bigwig_file.cpython-313-aarch64-linux-gnu.so' adding 'bx/bbi/bigwig_tests.py' adding 'bx/bbi/bpt_file.cpython-313-aarch64-linux-gnu.so' adding 'bx/bbi/cirtree_file.cpython-313-aarch64-linux-gnu.so' adding 'bx/cookbook/__init__.py' adding 'bx/cookbook/attribute.py' adding 'bx/cookbook/doc_optparse.py' adding 'bx/intervals/__init__.py' adding 'bx/intervals/cluster.cpython-313-aarch64-linux-gnu.so' adding 'bx/intervals/cluster_tests.py' adding 'bx/intervals/intersection.cpython-313-aarch64-linux-gnu.so' adding 'bx/intervals/intersection_tests.py' adding 'bx/intervals/io.py' adding 'bx/intervals/random_intervals.py' adding 'bx/intervals/operations/__init__.py' adding 'bx/intervals/operations/base_coverage.py' adding 'bx/intervals/operations/complement.py' adding 'bx/intervals/operations/concat.py' adding 'bx/intervals/operations/coverage.py' adding 'bx/intervals/operations/find_clusters.py' adding 'bx/intervals/operations/intersect.py' adding 'bx/intervals/operations/join.py' adding 'bx/intervals/operations/merge.py' adding 'bx/intervals/operations/quicksect.py' adding 'bx/intervals/operations/subtract.py' adding 'bx/intseq/__init__.py' adding 'bx/intseq/ngramcount.cpython-313-aarch64-linux-gnu.so' adding 'bx/misc/__init__.py' adding 'bx/misc/_seekbzip2.cpython-313-aarch64-linux-gnu.so' adding 'bx/misc/bgzf.cpython-313-aarch64-linux-gnu.so' adding 'bx/misc/bgzf_tests.py' adding 'bx/misc/binary_file.py' adding 'bx/misc/cdb.py' adding 'bx/misc/cdb_tests.py' adding 'bx/misc/filecache.py' adding 'bx/misc/filecache_tests.py' adding 'bx/misc/readlengths.py' adding 'bx/misc/seekbzip2.py' adding 'bx/misc/seekbzip2_tests.py' adding 'bx/misc/seeklzop.py' adding 'bx/misc/seeklzop_tests.py' adding 'bx/motif/__init__.py' adding 'bx/motif/_pwm.cpython-313-aarch64-linux-gnu.so' adding 'bx/motif/pwm.py' adding 'bx/motif/pwm_tests.py' adding 'bx/motif/io/__init__.py' adding 'bx/motif/io/transfac.py' adding 'bx/motif/io/transfac_tests.py' adding 'bx/motif/logo/__init__.py' adding 'bx/motif/logo/template.ps' adding 'bx/phylo/__init__.py' adding 'bx/phylo/newick.py' adding 'bx/phylo/newick_tests.py' adding 'bx/phylo/phast.py' adding 'bx/phylo/phast_tests.py' adding 'bx/pwm/__init__.py' adding 'bx/pwm/_position_weight_matrix.cpython-313-aarch64-linux-gnu.so' adding 'bx/pwm/bed_score_aligned_pwm.py' adding 'bx/pwm/bed_score_aligned_string.py' adding 'bx/pwm/maf_select_motifs.py' adding 'bx/pwm/position_weight_matrix.py' adding 'bx/pwm/pwm_score_maf.py' adding 'bx/pwm/pwm_score_motifs.py' adding 'bx/pwm/pwm_score_positions.py' adding 'bx/pwm/pwm_tests.py' adding 'bx/seq/__init__.py' adding 'bx/seq/_nib.cpython-313-aarch64-linux-gnu.so' adding 'bx/seq/_twobit.cpython-313-aarch64-linux-gnu.so' adding 'bx/seq/core.py' adding 'bx/seq/fasta.py' adding 'bx/seq/fasta_tests.py' adding 'bx/seq/nib.py' adding 'bx/seq/nib_tests.py' adding 'bx/seq/qdna.py' adding 'bx/seq/qdna_tests.py' adding 'bx/seq/seq.py' adding 'bx/seq/seq_tests.py' adding 'bx/seq/twobit.py' adding 'bx/seq/twobit_tests.py' adding 'bx/tabular/__init__.py' adding 'bx/tabular/io.py' adding 'bx_extras/__init__.py' adding 'bx_extras/fpconst.py' adding 'bx_extras/fpconst_tests.py' adding 'bx_extras/lrucache.py' adding 'bx_extras/pstat.py' adding 'bx_extras/stats.py' adding 'bx_python-0.13.0.data/scripts/aggregate_scores_in_intervals.py' adding 'bx_python-0.13.0.data/scripts/align_print_template.py' adding 'bx_python-0.13.0.data/scripts/axt_extract_ranges.py' adding 'bx_python-0.13.0.data/scripts/axt_to_fasta.py' adding 'bx_python-0.13.0.data/scripts/axt_to_lav.py' adding 'bx_python-0.13.0.data/scripts/axt_to_maf.py' adding 'bx_python-0.13.0.data/scripts/bed_bigwig_profile.py' adding 'bx_python-0.13.0.data/scripts/bed_build_windows.py' adding 'bx_python-0.13.0.data/scripts/bed_complement.py' adding 'bx_python-0.13.0.data/scripts/bed_count_by_interval.py' adding 'bx_python-0.13.0.data/scripts/bed_count_overlapping.py' adding 'bx_python-0.13.0.data/scripts/bed_coverage.py' adding 'bx_python-0.13.0.data/scripts/bed_coverage_by_interval.py' adding 'bx_python-0.13.0.data/scripts/bed_diff_basewise_summary.py' adding 'bx_python-0.13.0.data/scripts/bed_extend_to.py' adding 'bx_python-0.13.0.data/scripts/bed_intersect.py' adding 'bx_python-0.13.0.data/scripts/bed_intersect_basewise.py' adding 'bx_python-0.13.0.data/scripts/bed_merge_overlapping.py' adding 'bx_python-0.13.0.data/scripts/bed_rand_intersect.py' adding 'bx_python-0.13.0.data/scripts/bed_subtract_basewise.py' adding 'bx_python-0.13.0.data/scripts/bnMapper.py' adding 'bx_python-0.13.0.data/scripts/div_snp_table_chr.py' adding 'bx_python-0.13.0.data/scripts/find_in_sorted_file.py' adding 'bx_python-0.13.0.data/scripts/gene_fourfold_sites.py' adding 'bx_python-0.13.0.data/scripts/get_scores_in_intervals.py' adding 'bx_python-0.13.0.data/scripts/int_seqs_to_char_strings.py' adding 'bx_python-0.13.0.data/scripts/interval_count_intersections.py' adding 'bx_python-0.13.0.data/scripts/interval_join.py' adding 'bx_python-0.13.0.data/scripts/lav_to_axt.py' adding 'bx_python-0.13.0.data/scripts/lav_to_maf.py' adding 'bx_python-0.13.0.data/scripts/line_select.py' adding 'bx_python-0.13.0.data/scripts/lzop_build_offset_table.py' adding 'bx_python-0.13.0.data/scripts/mMK_bitset.py' adding 'bx_python-0.13.0.data/scripts/maf_build_index.py' adding 'bx_python-0.13.0.data/scripts/maf_chop.py' adding 'bx_python-0.13.0.data/scripts/maf_chunk.py' adding 'bx_python-0.13.0.data/scripts/maf_col_counts.py' adding 'bx_python-0.13.0.data/scripts/maf_col_counts_all.py' adding 'bx_python-0.13.0.data/scripts/maf_count.py' adding 'bx_python-0.13.0.data/scripts/maf_covered_ranges.py' adding 'bx_python-0.13.0.data/scripts/maf_covered_regions.py' adding 'bx_python-0.13.0.data/scripts/maf_div_sites.py' adding 'bx_python-0.13.0.data/scripts/maf_drop_overlapping.py' adding 'bx_python-0.13.0.data/scripts/maf_extract_chrom_ranges.py' adding 'bx_python-0.13.0.data/scripts/maf_extract_ranges.py' adding 'bx_python-0.13.0.data/scripts/maf_extract_ranges_indexed.py' adding 'bx_python-0.13.0.data/scripts/maf_filter.py' adding 'bx_python-0.13.0.data/scripts/maf_filter_max_wc.py' adding 'bx_python-0.13.0.data/scripts/maf_gap_frequency.py' adding 'bx_python-0.13.0.data/scripts/maf_gc_content.py' adding 'bx_python-0.13.0.data/scripts/maf_interval_alignibility.py' adding 'bx_python-0.13.0.data/scripts/maf_limit_to_species.py' adding 'bx_python-0.13.0.data/scripts/maf_mapping_word_frequency.py' adding 'bx_python-0.13.0.data/scripts/maf_mask_cpg.py' adding 'bx_python-0.13.0.data/scripts/maf_mean_length_ungapped_piece.py' adding 'bx_python-0.13.0.data/scripts/maf_percent_columns_matching.py' adding 'bx_python-0.13.0.data/scripts/maf_percent_identity.py' adding 'bx_python-0.13.0.data/scripts/maf_print_chroms.py' adding 'bx_python-0.13.0.data/scripts/maf_print_scores.py' adding 'bx_python-0.13.0.data/scripts/maf_randomize.py' adding 'bx_python-0.13.0.data/scripts/maf_region_coverage_by_src.py' adding 'bx_python-0.13.0.data/scripts/maf_select.py' adding 'bx_python-0.13.0.data/scripts/maf_shuffle_columns.py' adding 'bx_python-0.13.0.data/scripts/maf_species_in_all_files.py' adding 'bx_python-0.13.0.data/scripts/maf_split_by_src.py' adding 'bx_python-0.13.0.data/scripts/maf_thread_for_species.py' adding 'bx_python-0.13.0.data/scripts/maf_tile.py' adding 'bx_python-0.13.0.data/scripts/maf_tile_2.py' adding 'bx_python-0.13.0.data/scripts/maf_tile_2bit.py' adding 'bx_python-0.13.0.data/scripts/maf_to_axt.py' adding 'bx_python-0.13.0.data/scripts/maf_to_concat_fasta.py' adding 'bx_python-0.13.0.data/scripts/maf_to_fasta.py' adding 'bx_python-0.13.0.data/scripts/maf_to_int_seqs.py' adding 'bx_python-0.13.0.data/scripts/maf_translate_chars.py' adding 'bx_python-0.13.0.data/scripts/maf_truncate.py' adding 'bx_python-0.13.0.data/scripts/maf_word_frequency.py' adding 'bx_python-0.13.0.data/scripts/mask_quality.py' adding 'bx_python-0.13.0.data/scripts/nib_chrom_intervals_to_fasta.py' adding 'bx_python-0.13.0.data/scripts/nib_intervals_to_fasta.py' adding 'bx_python-0.13.0.data/scripts/nib_length.py' adding 'bx_python-0.13.0.data/scripts/one_field_per_line.py' adding 'bx_python-0.13.0.data/scripts/out_to_chain.py' adding 'bx_python-0.13.0.data/scripts/prefix_lines.py' adding 'bx_python-0.13.0.data/scripts/pretty_table.py' adding 'bx_python-0.13.0.data/scripts/qv_to_bqv.py' adding 'bx_python-0.13.0.data/scripts/random_lines.py' adding 'bx_python-0.13.0.data/scripts/table_add_column.py' adding 'bx_python-0.13.0.data/scripts/table_filter.py' adding 'bx_python-0.13.0.data/scripts/tfloc_summary.py' adding 'bx_python-0.13.0.data/scripts/ucsc_gene_table_to_intervals.py' adding 'bx_python-0.13.0.data/scripts/wiggle_to_array_tree.py' adding 'bx_python-0.13.0.data/scripts/wiggle_to_binned_array.py' adding 'bx_python-0.13.0.data/scripts/wiggle_to_chr_binned_array.py' adding 'bx_python-0.13.0.data/scripts/wiggle_to_simple.py' adding 'bx_python-0.13.0.dist-info/licenses/LICENSE' adding 'bx_python-0.13.0.dist-info/METADATA' adding 'bx_python-0.13.0.dist-info/WHEEL' adding 'bx_python-0.13.0.dist-info/top_level.txt' adding 'bx_python-0.13.0.dist-info/RECORD' removing build/bdist.linux-aarch64/wheel Successfully built bx_python-0.13.0-cp313-cp313-linux_aarch64.whl I: pybuild plugin_pyproject:144: Unpacking wheel built for python3.13 with "installer" module dh_auto_test -O--buildsystem=pybuild I: pybuild base:311: cd /build/reproducible-path/python-bx-0.13.0/.pybuild/cpython3_3.13_bx-python/build; python3.13 -m pytest ============================= test session starts ============================== platform linux -- Python 3.13.5, pytest-8.3.5, pluggy-1.5.0 rootdir: /build/reproducible-path/python-bx-0.13.0/.pybuild/cpython3_3.13_bx-python/build configfile: pytest.ini plugins: cython-0.3.1, typeguard-4.4.2 collected 139 items bx/align/epo_tests.py ..... [ 3%] bx/align/lav_tests.py . [ 4%] bx/align/maf_tests.py ........ [ 10%] bx/align/score_tests.py ..... [ 13%] bx/align/sitemask/sitemask_tests.py ... [ 15%] bx/align/tools/fuse.py . [ 16%] bx/align/tools/thread.py . [ 17%] bx/arrays/array_tree_tests.py ...... [ 21%] bx/bbi/bigwig_tests.py ........................... [ 41%] bx/binned_array_tests.py .... [ 43%] bx/bitset_tests.py .................. [ 56%] bx/interval_index_file_tests.py ... [ 58%] bx/intervals/cluster_tests.py ............. [ 68%] bx/intervals/intersection_tests.py ............. [ 77%] bx/intervals/io.py .. [ 79%] bx/misc/bgzf_tests.py . [ 79%] bx/misc/cdb_tests.py . [ 80%] bx/motif/io/transfac_tests.py . [ 81%] bx/motif/pwm_tests.py ... [ 83%] bx/phylo/newick_tests.py ........ [ 89%] bx/phylo/phast_tests.py . [ 89%] bx/pwm/pwm_tests.py . [ 90%] bx/seq/fasta_tests.py . [ 91%] bx/seq/nib_tests.py . [ 92%] bx/seq/qdna_tests.py . [ 92%] bx/seq/seq_tests.py .... [ 95%] bx/seq/twobit_tests.py ... [ 97%] bx/wiggle_tests.py .. [ 99%] bx_extras/fpconst_tests.py . [100%] =============================== warnings summary =============================== ../../../../../../usr/lib/python3/dist-packages/_pytest/config/__init__.py:1500 /usr/lib/python3/dist-packages/_pytest/config/__init__.py:1500: PytestConfigWarning: No files were found in testpaths; consider removing or adjusting your testpaths configuration. Searching recursively from the current directory instead. self.args, self.args_source = self._decide_args( bx/bbi/bigwig_tests.py::TestBigWig::test_summary_from_file[chr1 10000 12000 10 mean n/a n/a n/a n/a -0.164968 -0.194169 -0.0533029 0.00390226 -0.00226906 -0.0365958\n] bx/bbi/bigwig_tests.py::TestBigWig::test_summary_from_file[chr1 10000 20000 100 mean n/a n/a n/a n/a n/a n/a n/a n/a n/a -0.163546 -0.272118 -0.127111 -0.116169 0.0202627 -0.0243522 0.0349913 -0.0054408 -0.00101548 -0.0307148 -0.0374406 -0.0024669 -0.034042 -0.0343892 -0.0199075 -0.0406878 -0.0322236 -0.080479 -0.235991 -0.0897865 -0.041593 0.019942 -0.0608448 0.0144338 -0.0348468 0.0195101 -0.0555526 -0.0892809 0.011672 -0.173894 -0.0849444 0.0718796 0.0608432 0.0313183 0.0439315 -0.0242363 0.03288 0.0318241 0.122005 0.0879138 0.00102565 0.0334753 -0.00263047 -0.103023 -0.0275437 0.0958326 0.0147229 -0.0629772 0.00541821 0.062474 0.069069 -0.0389339 0.0206174 0.0278476 -0.0182009 0.00568736 0.000397305 0.13104 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replacing shebang in debian/python3-bx/usr/bin/maf_to_axt.py I: dh_python3 tools:114: replacing shebang in debian/python3-bx/usr/bin/maf_to_concat_fasta.py I: dh_python3 tools:114: replacing shebang in debian/python3-bx/usr/bin/maf_to_fasta.py I: dh_python3 tools:114: replacing shebang in debian/python3-bx/usr/bin/maf_to_int_seqs.py I: dh_python3 tools:114: replacing shebang in debian/python3-bx/usr/bin/maf_translate_chars.py I: dh_python3 tools:114: replacing shebang in debian/python3-bx/usr/bin/maf_truncate.py I: dh_python3 tools:114: replacing shebang in debian/python3-bx/usr/bin/maf_word_frequency.py I: dh_python3 tools:114: replacing shebang in debian/python3-bx/usr/bin/mask_quality.py I: dh_python3 tools:114: replacing shebang in debian/python3-bx/usr/bin/nib_chrom_intervals_to_fasta.py I: dh_python3 tools:114: replacing shebang in debian/python3-bx/usr/bin/nib_intervals_to_fasta.py I: dh_python3 tools:114: replacing shebang in debian/python3-bx/usr/bin/nib_length.py I: dh_python3 tools:114: replacing shebang in debian/python3-bx/usr/bin/one_field_per_line.py I: dh_python3 tools:114: replacing shebang in debian/python3-bx/usr/bin/out_to_chain.py I: dh_python3 tools:114: replacing shebang in debian/python3-bx/usr/bin/prefix_lines.py I: dh_python3 tools:114: replacing shebang in debian/python3-bx/usr/bin/pretty_table.py I: dh_python3 tools:114: replacing shebang in debian/python3-bx/usr/bin/qv_to_bqv.py I: dh_python3 tools:114: replacing shebang in debian/python3-bx/usr/bin/random_lines.py I: dh_python3 tools:114: replacing shebang in debian/python3-bx/usr/bin/table_add_column.py I: dh_python3 tools:114: replacing shebang in debian/python3-bx/usr/bin/table_filter.py I: dh_python3 tools:114: replacing shebang in debian/python3-bx/usr/bin/tfloc_summary.py I: dh_python3 tools:114: replacing shebang in debian/python3-bx/usr/bin/ucsc_gene_table_to_intervals.py I: dh_python3 tools:114: replacing shebang in debian/python3-bx/usr/bin/wiggle_to_array_tree.py I: dh_python3 tools:114: replacing shebang in debian/python3-bx/usr/bin/wiggle_to_binned_array.py I: dh_python3 tools:114: replacing shebang in debian/python3-bx/usr/bin/wiggle_to_chr_binned_array.py I: dh_python3 tools:114: replacing shebang in debian/python3-bx/usr/bin/wiggle_to_simple.py dh_numpy3 Possible precedence issue with control flow operator (return) at /usr/bin/dh_numpy3 line 57. make[1]: Leaving directory '/build/reproducible-path/python-bx-0.13.0' dh_installsystemduser -O--buildsystem=pybuild dh_lintian -O--buildsystem=pybuild dh_perl -O--buildsystem=pybuild dh_link -O--buildsystem=pybuild dh_strip_nondeterminism -O--buildsystem=pybuild dh_compress -O--buildsystem=pybuild dh_fixperms -O--buildsystem=pybuild dh_missing -O--buildsystem=pybuild dh_dwz -a -O--buildsystem=pybuild dh_strip -a -O--buildsystem=pybuild dh_makeshlibs -a -O--buildsystem=pybuild dh_shlibdeps -a -O--buildsystem=pybuild dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged dh_installdeb -O--buildsystem=pybuild dh_gencontrol -O--buildsystem=pybuild dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild dpkg-deb: building package 'python3-bx' in '../python3-bx_0.13.0-1_arm64.deb'. dpkg-deb: building package 'python3-bx-dbgsym' in '../python3-bx-dbgsym_0.13.0-1_arm64.deb'. dpkg-genbuildinfo --build=binary -O../python-bx_0.13.0-1_arm64.buildinfo dpkg-genchanges --build=binary -O../python-bx_0.13.0-1_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/1301188 and its subdirectories I: Current time: Thu Sep 17 17:15:46 -12 2026 I: pbuilder-time-stamp: 1789708546 Fri Aug 15 22:52:47 UTC 2025 I: 1st build successful. Starting 2nd build on remote node codethink04-arm64.debian.net. Fri Aug 15 22:52:47 UTC 2025 I: Preparing to do remote build '2' on codethink04-arm64.debian.net. Fri Aug 15 22:55:14 UTC 2025 I: Deleting $TMPDIR on codethink04-arm64.debian.net. Fri Aug 15 22:55:15 UTC 2025 I: python-bx_0.13.0-1_arm64.changes: Format: 1.8 Date: Sun, 22 Sep 2024 14:14:04 +0200 Source: python-bx Binary: python3-bx python3-bx-dbgsym Architecture: arm64 Version: 0.13.0-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Alexandre Detiste Description: python3-bx - library to manage genomic data and its alignment Closes: 1081624 Changes: python-bx (0.13.0-1) unstable; urgency=medium . * Team Upload * New upstream version 0.13.0 (Closes: #1081624) * Refresh patches * Add build-depends on python3-pyparsing Checksums-Sha1: 023341920bb9ebabd76ca42a37637225101eac43 6747 python-bx_0.13.0-1_arm64.buildinfo de25024431edfc4cd00bb76e4af6fb1a93750d7d 3764316 python3-bx-dbgsym_0.13.0-1_arm64.deb b6f94611a84191c2ea8436a61f9b3d6944a9117e 646392 python3-bx_0.13.0-1_arm64.deb Checksums-Sha256: 1403f399ce59ff703d1250b121f70acb28e6c293949e732cf1626601d958cad2 6747 python-bx_0.13.0-1_arm64.buildinfo 30ddb8ee68299c7a9016487bcd6cceff14c1996a722eca07eda9252ea9227ed8 3764316 python3-bx-dbgsym_0.13.0-1_arm64.deb be23d2380edc9509acc631af54e6da9e9973cee257870ef4c8b565e78e77e853 646392 python3-bx_0.13.0-1_arm64.deb Files: 0a27d5cae650461fd9fe0054f255d1b5 6747 python optional python-bx_0.13.0-1_arm64.buildinfo cb8424096db97140f6ca86380002a6d1 3764316 debug optional python3-bx-dbgsym_0.13.0-1_arm64.deb 0d1a746f4dae19f76d8f7570156029e2 646392 python optional python3-bx_0.13.0-1_arm64.deb Fri Aug 15 22:55:15 UTC 2025 I: diffoscope 303 will be used to compare the two builds: Running as unit: rb-diffoscope-arm64_2-108543.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.lROaN8bR/python-bx_0.13.0-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.lROaN8bR/python-bx_0.13.0-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.lROaN8bR/python-bx_0.13.0-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.lROaN8bR/b1/python-bx_0.13.0-1_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.lROaN8bR/b2/python-bx_0.13.0-1_arm64.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call diffoscope.comparators.binary.FilesystemFile ## main (total time: 0.003s) 0.003s 2 calls outputs 0.000s 1 call cleanup Finished with result: success Main processes terminated with: code=exited, status=0/SUCCESS Service runtime: 220ms CPU time consumed: 179ms Memory peak: 17.4M (swap: 0B) Fri Aug 15 22:55:17 UTC 2025 I: diffoscope 303 found no differences in the changes files, and a .buildinfo file also exists. Fri Aug 15 22:55:17 UTC 2025 I: python-bx from forky built successfully and reproducibly on arm64. Fri Aug 15 22:55:18 UTC 2025 I: Removing signed python-bx_0.13.0-1_arm64.buildinfo.asc files: removed './b1/python-bx_0.13.0-1_arm64.buildinfo.asc' removed './b2/python-bx_0.13.0-1_arm64.buildinfo.asc'