Fri Dec 20 07:50:58 UTC 2024 I: starting to build pybel/unstable/arm64 on jenkins on '2024-12-20 07:50' Fri Dec 20 07:50:58 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_18/74373/console.log Fri Dec 20 07:50:58 UTC 2024 I: Downloading source for unstable/pybel=0.15.5-1 --2024-12-20 07:50:59-- http://deb.debian.org/debian/pool/main/p/pybel/pybel_0.15.5-1.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2351 (2.3K) [text/prs.lines.tag] Saving to: ‘pybel_0.15.5-1.dsc’ 0K .. 100% 372M=0s 2024-12-20 07:50:59 (372 MB/s) - ‘pybel_0.15.5-1.dsc’ saved [2351/2351] Fri Dec 20 07:50:59 UTC 2024 I: pybel_0.15.5-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: pybel Binary: python3-pybel Architecture: all Version: 0.15.5-1 Maintainer: Debian Med Packaging Team Uploaders: Steffen Moeller Homepage: https://pybel.readthedocs.io Standards-Version: 4.6.1 Vcs-Browser: https://salsa.debian.org/med-team/pybel Vcs-Git: https://salsa.debian.org/med-team/pybel.git Testsuite: autopkgtest-pkg-python Build-Depends: debhelper-compat (= 13), dh-sequence-python3, pybuild-plugin-pyproject, python3-all, python3-setuptools, python3-click-plugins, python3-humanize, python3-jinja2, python3-jsonschema, python3-networkx, python3-pandas, python3-pyparsing, python3-pystow, python3-pytest , python3-ratelimit, python3-requests-file, python3-sqlalchemy, python3-tabulate, python3-tqdm, python3-bioregistry, python3-bel-resources Package-List: python3-pybel deb python optional arch=all Checksums-Sha1: 521d6a99cba26c6c8ea5c65873a7a3de1fc219cb 2925943 pybel_0.15.5.orig.tar.gz 65388d476d5a58bbadf60ae8183bdd7d5287ca51 5484 pybel_0.15.5-1.debian.tar.xz Checksums-Sha256: 087290c846278c01dac055de6fe06f34e1a1432af246332540cfeb405085e87f 2925943 pybel_0.15.5.orig.tar.gz ad6501e31719d4b26e2f52d8201b959bb0f0a824c92cc08cc87562eeea37855b 5484 pybel_0.15.5-1.debian.tar.xz Files: 99eec352fe478bfb5a38d04b8aeb9f59 2925943 pybel_0.15.5.orig.tar.gz fe62c4589f9eb9e7adc2fc9bdbb0a6b5 5484 pybel_0.15.5-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEEj23hBDd/OxHnQXSHMfMURUShdBoFAmdKcnwRHHRjaGV0QGRl Ymlhbi5vcmcACgkQMfMURUShdBqRCBAAwLqckjk2TR50wKQ1yt5Mi/nfQfUwSh1r 8bJCM2qZZrmsuhtZx0QxCsGBIOLw+Je7TiT9QwN2VMOB2N88DOdcaigXAEBM+6Qz XYdtOxczf9jGwtymmFqPwGp3KUUEJmEoNXcaF+1I5+rb+BvSYIYz/bIDb+gbZI9X t/wxXUW/DVKzubmcKu9KQKnrAWmEwldAG2RkqOZnr3WFsiB8RPUpjyzdy0I+S0V8 s+hcydKI3CDl/fCZJ11EFYBaFVG5xOVwXOLRzEusEgqk80LcOAvq2Cffz3Z1rQhz xwoacrVu413ZpTNbvQ1NHK0FV0Y2Mk6ZUYGOYr84/bw/zgksx0rFZ2yO02ZOzI5l th+eAOwdhRmxPtuHPJj24ehT5v1TfkOJHf3bbdYOioy9uO46qRBvxphMPlckBKo0 uZ+T7qDnMQgjweyoKx63mUOEKJMb2qdEZCGqo834pwsxph6CnSDj+WYXR0C6KvPW f1PtvjuH7t6fKgfcy/UcRq+p5XJO4OMxoSdOOkZUwrbFhE74XFDDA8GjNOlDPYoB FedsvAPTKQoZ/gMiQfD5FunCIsa1TgNFqneUMrPwC6X/3nTIR9bVeuBYx5ZVwFBb Vg683GlK/d1ms/VM56BlwtT03zotik3ZLeQRhPKwhMxQeacJRYm1oEHdX1rfCZ5f HFkHVUh8RL4= =k6oQ -----END PGP SIGNATURE----- Fri Dec 20 07:50:59 UTC 2024 I: Checking whether the package is not for us Fri Dec 20 07:50:59 UTC 2024 I: Starting 1st build on remote node codethink04-arm64.debian.net. Fri Dec 20 07:50:59 UTC 2024 I: Preparing to do remote build '1' on codethink04-arm64.debian.net. Fri Dec 20 07:54:15 UTC 2024 I: Deleting $TMPDIR on codethink04-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Thu Dec 19 19:51:01 -12 2024 I: pbuilder-time-stamp: 1734681061 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [pybel_0.15.5-1.dsc] I: copying [./pybel_0.15.5.orig.tar.gz] I: copying [./pybel_0.15.5-1.debian.tar.xz] I: Extracting source gpgv: Signature made Sat Nov 30 02:03:40 2024 gpgv: using RSA key 8F6DE104377F3B11E741748731F3144544A1741A gpgv: issuer "tchet@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./pybel_0.15.5-1.dsc: no acceptable signature found dpkg-source: info: extracting pybel in pybel-0.15.5 dpkg-source: info: unpacking pybel_0.15.5.orig.tar.gz dpkg-source: info: unpacking pybel_0.15.5-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying not_testing_what_fails.patch dpkg-source: info: applying more_click_is_not_packaged.patch dpkg-source: info: applying remove_psycopg2-binary I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1462617/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='9f48fc87fe4649b29f58b060c5d963df' 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='1462617' 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.gdcCX45z/pbuilderrc_9Rul --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.gdcCX45z/b1 --logfile b1/build.log pybel_0.15.5-1.dsc' SUDO_GID='109' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.4:3128' I: uname -a Linux codethink04-arm64 6.1.0-28-cloud-arm64 #1 SMP Debian 6.1.119-1 (2024-11-22) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin I: user script /srv/workspace/pbuilder/1462617/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, pybuild-plugin-pyproject, python3-all, python3-setuptools, python3-click-plugins, python3-humanize, python3-jinja2, python3-jsonschema, python3-networkx, python3-pandas, python3-pyparsing, python3-pystow, python3-pytest, python3-ratelimit, python3-requests-file, python3-sqlalchemy, python3-tabulate, python3-tqdm, python3-bioregistry, python3-bel-resources dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 20084 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 pybuild-plugin-pyproject; however: Package pybuild-plugin-pyproject is not installed. pbuilder-satisfydepends-dummy depends on python3-all; however: Package python3-all is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on python3-click-plugins; however: Package python3-click-plugins is not installed. pbuilder-satisfydepends-dummy depends on python3-humanize; however: Package python3-humanize is not installed. pbuilder-satisfydepends-dummy depends on python3-jinja2; however: Package python3-jinja2 is not installed. pbuilder-satisfydepends-dummy depends on python3-jsonschema; however: Package python3-jsonschema is not installed. pbuilder-satisfydepends-dummy depends on python3-networkx; however: Package python3-networkx is not installed. pbuilder-satisfydepends-dummy depends on python3-pandas; however: Package python3-pandas is not installed. pbuilder-satisfydepends-dummy depends on python3-pyparsing; however: Package python3-pyparsing is not installed. pbuilder-satisfydepends-dummy depends on python3-pystow; however: Package python3-pystow is not installed. pbuilder-satisfydepends-dummy depends on python3-pytest; however: Package python3-pytest is not installed. pbuilder-satisfydepends-dummy depends on python3-ratelimit; however: Package python3-ratelimit is not installed. pbuilder-satisfydepends-dummy depends on python3-requests-file; however: Package python3-requests-file is not installed. pbuilder-satisfydepends-dummy depends on python3-sqlalchemy; however: Package python3-sqlalchemy is not installed. pbuilder-satisfydepends-dummy depends on python3-tabulate; however: Package python3-tabulate is not installed. pbuilder-satisfydepends-dummy depends on python3-tqdm; however: Package python3-tqdm is not installed. pbuilder-satisfydepends-dummy depends on python3-bioregistry; however: Package python3-bioregistry is not installed. pbuilder-satisfydepends-dummy depends on python3-bel-resources; however: Package python3-bel-resources 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} ca-certificates{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} libcom-err2{a} libdebhelper-perl{a} libelf1t64{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libgssapi-krb5-2{a} libicu72{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblapack3{a} libmagic-mgc{a} libmagic1t64{a} libnsl2{a} libpipeline1{a} libpython3-stdlib{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libreadline8t64{a} libtirpc-common{a} libtirpc3t64{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} media-types{a} netbase{a} openssl{a} po-debconf{a} pybuild-plugin-pyproject{a} python3{a} python3-all{a} python3-annotated-types{a} python3-attr{a} python3-autocommand{a} python3-bel-resources{a} python3-bioregistry{a} python3-build{a} python3-certifi{a} python3-chardet{a} python3-charset-normalizer{a} python3-click{a} python3-click-plugins{a} python3-colorama{a} python3-curies{a} python3-dateutil{a} python3-dnspython{a} python3-email-validator{a} python3-greenlet{a} python3-humanize{a} python3-idna{a} python3-inflect{a} python3-iniconfig{a} python3-installer{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-jinja2{a} python3-jsonschema{a} python3-jsonschema-specifications{a} python3-markupsafe{a} python3-minimal{a} python3-more-itertools{a} python3-multisplitby{a} python3-networkx{a} python3-numpy{a} python3-packaging{a} python3-pandas{a} python3-pandas-lib{a} python3-pkg-resources{a} python3-pluggy{a} python3-pydantic{a} python3-pydantic-core{a} python3-pyparsing{a} python3-pyproject-hooks{a} python3-pystow{a} python3-pytest{a} python3-ratelimit{a} python3-referencing{a} python3-requests{a} python3-requests-file{a} python3-rpds-py{a} python3-setuptools{a} python3-sortedcontainers{a} python3-sqlalchemy{a} python3-tabulate{a} python3-toml{a} python3-tqdm{a} python3-trie{a} python3-typeguard{a} python3-typing-extensions{a} python3-tz{a} python3-urllib3{a} python3-wheel{a} python3-zipp{a} python3.12{a} python3.12-minimal{a} python3.13{a} python3.13-minimal{a} readline-common{a} sensible-utils{a} tzdata{a} The following packages are RECOMMENDED but will NOT be installed: curl krb5-locales libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx python3-babel python3-bottleneck python3-bs4 python3-cryptography python3-gdal python3-h2 python3-html5lib python3-httpcore python3-httpx python3-json-pointer python3-lxml python3-matplotlib python3-numexpr python3-odf python3-openpyxl python3-pydot python3-pygments python3-pygraphviz python3-rfc3987 python3-scipy python3-sqlalchemy-ext python3-tables python3-uritemplate python3-webcolors python3-yaml wget 0 packages upgraded, 125 newly installed, 0 to remove and 0 not upgraded. Need to get 72.2 MB of archives. After unpacking 375 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main arm64 libpython3.12-minimal arm64 3.12.8-3 [810 kB] Get: 2 http://deb.debian.org/debian unstable/main arm64 libexpat1 arm64 2.6.4-1 [90.7 kB] Get: 3 http://deb.debian.org/debian unstable/main arm64 python3.12-minimal arm64 3.12.8-3 [1941 kB] Get: 4 http://deb.debian.org/debian unstable/main arm64 python3-minimal arm64 3.12.7-1 [26.8 kB] Get: 5 http://deb.debian.org/debian unstable/main arm64 media-types all 10.1.0 [26.9 kB] Get: 6 http://deb.debian.org/debian unstable/main arm64 netbase all 6.4 [12.8 kB] Get: 7 http://deb.debian.org/debian unstable/main arm64 tzdata all 2024b-4 [256 kB] Get: 8 http://deb.debian.org/debian unstable/main arm64 libkrb5support0 arm64 1.21.3-3 [32.1 kB] Get: 9 http://deb.debian.org/debian unstable/main arm64 libcom-err2 arm64 1.47.2~rc1-2 [23.7 kB] Get: 10 http://deb.debian.org/debian unstable/main arm64 libk5crypto3 arm64 1.21.3-3 [80.8 kB] Get: 11 http://deb.debian.org/debian unstable/main arm64 libkeyutils1 arm64 1.6.3-4 [9352 B] Get: 12 http://deb.debian.org/debian unstable/main arm64 libkrb5-3 arm64 1.21.3-3 [310 kB] Get: 13 http://deb.debian.org/debian unstable/main arm64 libgssapi-krb5-2 arm64 1.21.3-3 [126 kB] Get: 14 http://deb.debian.org/debian unstable/main arm64 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get: 15 http://deb.debian.org/debian unstable/main arm64 libtirpc3t64 arm64 1.3.4+ds-1.3+b1 [78.7 kB] Get: 16 http://deb.debian.org/debian unstable/main arm64 libnsl2 arm64 1.3.0-3+b3 [37.9 kB] Get: 17 http://deb.debian.org/debian unstable/main arm64 readline-common all 8.2-6 [69.4 kB] Get: 18 http://deb.debian.org/debian unstable/main arm64 libreadline8t64 arm64 8.2-6 [159 kB] Get: 19 http://deb.debian.org/debian unstable/main arm64 libpython3.12-stdlib arm64 3.12.8-3 [1906 kB] Get: 20 http://deb.debian.org/debian unstable/main arm64 python3.12 arm64 3.12.8-3 [677 kB] Get: 21 http://deb.debian.org/debian unstable/main arm64 libpython3-stdlib arm64 3.12.7-1 [9708 B] Get: 22 http://deb.debian.org/debian unstable/main arm64 python3 arm64 3.12.7-1 [27.8 kB] Get: 23 http://deb.debian.org/debian unstable/main arm64 libpython3.13-minimal arm64 3.13.1-2 [852 kB] Get: 24 http://deb.debian.org/debian unstable/main arm64 python3.13-minimal arm64 3.13.1-2 [1987 kB] Get: 25 http://deb.debian.org/debian unstable/main arm64 sensible-utils all 0.0.24 [24.8 kB] Get: 26 http://deb.debian.org/debian unstable/main arm64 openssl arm64 3.3.2-2 [1347 kB] Get: 27 http://deb.debian.org/debian unstable/main arm64 ca-certificates all 20240203 [158 kB] Get: 28 http://deb.debian.org/debian unstable/main arm64 libmagic-mgc arm64 1:5.45-3+b1 [314 kB] Get: 29 http://deb.debian.org/debian unstable/main arm64 libmagic1t64 arm64 1:5.45-3+b1 [102 kB] Get: 30 http://deb.debian.org/debian unstable/main arm64 file arm64 1:5.45-3+b1 [43.4 kB] Get: 31 http://deb.debian.org/debian unstable/main arm64 gettext-base arm64 0.22.5-3 [198 kB] Get: 32 http://deb.debian.org/debian unstable/main arm64 libuchardet0 arm64 0.0.8-1+b2 [69.2 kB] Get: 33 http://deb.debian.org/debian unstable/main arm64 groff-base arm64 1.23.0-6 [1130 kB] Get: 34 http://deb.debian.org/debian unstable/main arm64 bsdextrautils arm64 2.40.2-12 [91.4 kB] Get: 35 http://deb.debian.org/debian unstable/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 36 http://deb.debian.org/debian unstable/main arm64 man-db arm64 2.13.0-1 [1404 kB] Get: 37 http://deb.debian.org/debian unstable/main arm64 m4 arm64 1.4.19-4 [277 kB] Get: 38 http://deb.debian.org/debian unstable/main arm64 autoconf all 2.72-3 [493 kB] Get: 39 http://deb.debian.org/debian unstable/main arm64 autotools-dev all 20220109.1 [51.6 kB] Get: 40 http://deb.debian.org/debian unstable/main arm64 automake all 1:1.16.5-1.3 [823 kB] Get: 41 http://deb.debian.org/debian unstable/main arm64 autopoint all 0.22.5-3 [723 kB] Get: 42 http://deb.debian.org/debian unstable/main arm64 libdebhelper-perl all 13.22 [90.5 kB] Get: 43 http://deb.debian.org/debian unstable/main arm64 libtool all 2.4.7-8 [517 kB] Get: 44 http://deb.debian.org/debian unstable/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 45 http://deb.debian.org/debian unstable/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 46 http://deb.debian.org/debian unstable/main arm64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 47 http://deb.debian.org/debian unstable/main arm64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 48 http://deb.debian.org/debian unstable/main arm64 libelf1t64 arm64 0.192-4 [189 kB] Get: 49 http://deb.debian.org/debian unstable/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 50 http://deb.debian.org/debian unstable/main arm64 libicu72 arm64 72.1-5+b1 [9239 kB] Get: 51 http://deb.debian.org/debian unstable/main arm64 libxml2 arm64 2.12.7+dfsg+really2.9.14-0.2+b1 [630 kB] Get: 52 http://deb.debian.org/debian unstable/main arm64 gettext arm64 0.22.5-3 [1532 kB] Get: 53 http://deb.debian.org/debian unstable/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 54 http://deb.debian.org/debian unstable/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 55 http://deb.debian.org/debian unstable/main arm64 debhelper all 13.22 [919 kB] Get: 56 http://deb.debian.org/debian unstable/main arm64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 57 http://deb.debian.org/debian unstable/main arm64 python3-more-itertools all 10.5.0-1 [63.8 kB] Get: 58 http://deb.debian.org/debian unstable/main arm64 python3-typing-extensions all 4.12.2-2 [73.0 kB] Get: 59 http://deb.debian.org/debian unstable/main arm64 python3-typeguard all 4.4.1-1 [37.0 kB] Get: 60 http://deb.debian.org/debian unstable/main arm64 python3-inflect all 7.3.1-2 [32.4 kB] Get: 61 http://deb.debian.org/debian unstable/main arm64 python3-jaraco.context all 6.0.0-1 [7984 B] Get: 62 http://deb.debian.org/debian unstable/main arm64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 63 http://deb.debian.org/debian unstable/main arm64 python3-pkg-resources all 75.6.0-1 [222 kB] Get: 64 http://deb.debian.org/debian unstable/main arm64 python3-jaraco.text all 4.0.0-1 [11.4 kB] Get: 65 http://deb.debian.org/debian unstable/main arm64 python3-zipp all 3.21.0-1 [10.6 kB] Get: 66 http://deb.debian.org/debian unstable/main arm64 python3-setuptools all 75.6.0-1 [720 kB] Get: 67 http://deb.debian.org/debian unstable/main arm64 dh-python all 6.20241217 [113 kB] Get: 68 http://deb.debian.org/debian unstable/main arm64 libblas3 arm64 3.12.0-4 [98.7 kB] Get: 69 http://deb.debian.org/debian unstable/main arm64 libgfortran5 arm64 14.2.0-11 [361 kB] Get: 70 http://deb.debian.org/debian unstable/main arm64 liblapack3 arm64 3.12.0-4 [1812 kB] Get: 71 http://deb.debian.org/debian unstable/main arm64 libpython3.13-stdlib arm64 3.13.1-2 [1913 kB] Get: 72 http://deb.debian.org/debian unstable/main arm64 python3-packaging all 24.2-1 [55.3 kB] Get: 73 http://deb.debian.org/debian unstable/main arm64 python3-pyproject-hooks all 1.2.0-1 [11.7 kB] Get: 74 http://deb.debian.org/debian unstable/main arm64 python3-toml all 0.10.2-1 [16.2 kB] Get: 75 http://deb.debian.org/debian unstable/main arm64 python3-wheel all 0.45.1-1 [56.7 kB] Get: 76 http://deb.debian.org/debian unstable/main arm64 python3-build all 1.2.2-1 [36.0 kB] Get: 77 http://deb.debian.org/debian unstable/main arm64 python3-installer all 0.7.0+dfsg1-3 [18.6 kB] Get: 78 http://deb.debian.org/debian unstable/main arm64 pybuild-plugin-pyproject all 6.20241217 [11.5 kB] Get: 79 http://deb.debian.org/debian unstable/main arm64 python3.13 arm64 3.13.1-2 [740 kB] Get: 80 http://deb.debian.org/debian unstable/main arm64 python3-all arm64 3.12.7-1 [1052 B] Get: 81 http://deb.debian.org/debian unstable/main arm64 python3-annotated-types all 0.7.0-1 [18.8 kB] Get: 82 http://deb.debian.org/debian unstable/main arm64 python3-attr all 24.2.0-1 [68.4 kB] Get: 83 http://deb.debian.org/debian unstable/main arm64 python3-multisplitby all 0.0.1-6 [4688 B] Get: 84 http://deb.debian.org/debian unstable/main arm64 python3-certifi all 2024.8.30+dfsg-1 [9576 B] Get: 85 http://deb.debian.org/debian unstable/main arm64 python3-charset-normalizer arm64 3.4.0-1+b1 [129 kB] Get: 86 http://deb.debian.org/debian unstable/main arm64 python3-idna all 3.8-2 [41.6 kB] Get: 87 http://deb.debian.org/debian unstable/main arm64 python3-urllib3 all 2.2.3-4 [112 kB] Get: 88 http://deb.debian.org/debian unstable/main arm64 python3-chardet all 5.2.0+dfsg-1 [107 kB] Get: 89 http://deb.debian.org/debian unstable/main arm64 python3-requests all 2.32.3+dfsg-1 [71.9 kB] Get: 90 http://deb.debian.org/debian unstable/main arm64 python3-requests-file all 2.1.0-1 [6600 B] Get: 91 http://deb.debian.org/debian unstable/main arm64 python3-colorama all 0.4.6-4 [36.2 kB] Get: 92 http://deb.debian.org/debian unstable/main arm64 python3-click all 8.1.7-2 [94.3 kB] Get: 93 http://deb.debian.org/debian unstable/main arm64 python3-bel-resources all 0.0.3-4 [13.5 kB] Get: 94 http://deb.debian.org/debian unstable/main arm64 python3-pydantic-core arm64 2.27.2-1 [1486 kB] Get: 95 http://deb.debian.org/debian unstable/main arm64 python3-dnspython all 2.7.0-1 [164 kB] Get: 96 http://deb.debian.org/debian unstable/main arm64 python3-email-validator all 2.2.0-1 [31.6 kB] Get: 97 http://deb.debian.org/debian unstable/main arm64 python3-pydantic arm64 2.10.4-1 [346 kB] Get: 98 http://deb.debian.org/debian unstable/main arm64 python3-sortedcontainers all 2.4.0-2 [31.9 kB] Get: 99 http://deb.debian.org/debian unstable/main arm64 python3-trie all 0.4.0+ds-1 [7640 B] Get: 100 http://deb.debian.org/debian unstable/main arm64 python3-curies all 0.9.0-1 [38.3 kB] Get: 101 http://deb.debian.org/debian unstable/main arm64 python3-tqdm all 4.67.1-1 [91.0 kB] Get: 102 http://deb.debian.org/debian unstable/main arm64 python3-pystow all 0.5.5-1 [25.6 kB] Get: 103 http://deb.debian.org/debian unstable/main arm64 python3-bioregistry all 0.11.12-3 [3907 kB] Get: 104 http://deb.debian.org/debian unstable/main arm64 python3-click-plugins all 1.1.1-4 [9852 B] Get: 105 http://deb.debian.org/debian unstable/main arm64 python3-dateutil all 2.9.0-3 [79.3 kB] Get: 106 http://deb.debian.org/debian unstable/main arm64 python3-greenlet arm64 3.1.0-1+b1 [178 kB] Get: 107 http://deb.debian.org/debian unstable/main arm64 python3-humanize all 4.11.0-1 [52.7 kB] Get: 108 http://deb.debian.org/debian unstable/main arm64 python3-iniconfig all 1.1.1-2 [6396 B] Get: 109 http://deb.debian.org/debian unstable/main arm64 python3-markupsafe arm64 2.1.5-1+b3 [14.0 kB] Get: 110 http://deb.debian.org/debian unstable/main arm64 python3-jinja2 all 3.1.3-1.1 [120 kB] Get: 111 http://deb.debian.org/debian unstable/main arm64 python3-rpds-py arm64 0.21.0-2 [259 kB] Get: 112 http://deb.debian.org/debian unstable/main arm64 python3-referencing all 0.35.1-2 [23.5 kB] Get: 113 http://deb.debian.org/debian unstable/main arm64 python3-jsonschema-specifications all 2023.12.1-2 [9020 B] Get: 114 http://deb.debian.org/debian unstable/main arm64 python3-jsonschema all 4.19.2-5 [71.4 kB] Get: 115 http://deb.debian.org/debian unstable/main arm64 python3-networkx all 3.2.1-5 [13.0 MB] Get: 116 http://deb.debian.org/debian unstable/main arm64 python3-numpy arm64 1:1.26.4+ds-12 [3816 kB] Get: 117 http://deb.debian.org/debian unstable/main arm64 python3-tz all 2024.2-1 [31.0 kB] Get: 118 http://deb.debian.org/debian unstable/main arm64 python3-pandas-lib arm64 2.2.3+dfsg-5+b1 [6028 kB] Get: 119 http://deb.debian.org/debian unstable/main arm64 python3-pandas all 2.2.3+dfsg-5 [3096 kB] Get: 120 http://deb.debian.org/debian unstable/main arm64 python3-pluggy all 1.5.0-1 [26.9 kB] Get: 121 http://deb.debian.org/debian unstable/main arm64 python3-pyparsing all 3.1.2-1 [146 kB] Get: 122 http://deb.debian.org/debian unstable/main arm64 python3-pytest all 8.3.4-1 [250 kB] Get: 123 http://deb.debian.org/debian unstable/main arm64 python3-ratelimit all 2.2.1-2 [6108 B] Get: 124 http://deb.debian.org/debian unstable/main arm64 python3-sqlalchemy all 2.0.32+ds1-1 [1196 kB] Get: 125 http://deb.debian.org/debian unstable/main arm64 python3-tabulate all 0.9.0-1 [45.9 kB] Fetched 72.2 MB in 1s (68.9 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.12-minimal:arm64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20084 files and directories currently installed.) Preparing to unpack .../libpython3.12-minimal_3.12.8-3_arm64.deb ... Unpacking libpython3.12-minimal:arm64 (3.12.8-3) ... Selecting previously unselected package libexpat1:arm64. Preparing to unpack .../libexpat1_2.6.4-1_arm64.deb ... Unpacking libexpat1:arm64 (2.6.4-1) ... Selecting previously unselected package python3.12-minimal. Preparing to unpack .../python3.12-minimal_3.12.8-3_arm64.deb ... Unpacking python3.12-minimal (3.12.8-3) ... Setting up libpython3.12-minimal:arm64 (3.12.8-3) ... Setting up libexpat1:arm64 (2.6.4-1) ... Setting up python3.12-minimal (3.12.8-3) ... Selecting previously unselected package python3-minimal. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20404 files and directories currently installed.) Preparing to unpack .../00-python3-minimal_3.12.7-1_arm64.deb ... Unpacking python3-minimal (3.12.7-1) ... Selecting previously unselected package media-types. Preparing to unpack .../01-media-types_10.1.0_all.deb ... Unpacking media-types (10.1.0) ... Selecting previously unselected package netbase. Preparing to unpack .../02-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package tzdata. Preparing to unpack .../03-tzdata_2024b-4_all.deb ... Unpacking tzdata (2024b-4) ... Selecting previously unselected package libkrb5support0:arm64. Preparing to unpack .../04-libkrb5support0_1.21.3-3_arm64.deb ... Unpacking libkrb5support0:arm64 (1.21.3-3) ... Selecting previously unselected package libcom-err2:arm64. Preparing to unpack .../05-libcom-err2_1.47.2~rc1-2_arm64.deb ... Unpacking libcom-err2:arm64 (1.47.2~rc1-2) ... Selecting previously unselected package libk5crypto3:arm64. Preparing to unpack .../06-libk5crypto3_1.21.3-3_arm64.deb ... Unpacking libk5crypto3:arm64 (1.21.3-3) ... Selecting previously unselected package libkeyutils1:arm64. Preparing to unpack .../07-libkeyutils1_1.6.3-4_arm64.deb ... Unpacking libkeyutils1:arm64 (1.6.3-4) ... Selecting previously unselected package libkrb5-3:arm64. Preparing to unpack .../08-libkrb5-3_1.21.3-3_arm64.deb ... Unpacking libkrb5-3:arm64 (1.21.3-3) ... Selecting previously unselected package libgssapi-krb5-2:arm64. Preparing to unpack .../09-libgssapi-krb5-2_1.21.3-3_arm64.deb ... Unpacking libgssapi-krb5-2:arm64 (1.21.3-3) ... Selecting previously unselected package libtirpc-common. Preparing to unpack .../10-libtirpc-common_1.3.4+ds-1.3_all.deb ... Unpacking libtirpc-common (1.3.4+ds-1.3) ... Selecting previously unselected package libtirpc3t64:arm64. Preparing to unpack .../11-libtirpc3t64_1.3.4+ds-1.3+b1_arm64.deb ... Adding 'diversion of /lib/aarch64-linux-gnu/libtirpc.so.3 to /lib/aarch64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/aarch64-linux-gnu/libtirpc.so.3.0.0 to /lib/aarch64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:arm64 (1.3.4+ds-1.3+b1) ... Selecting previously unselected package libnsl2:arm64. Preparing to unpack .../12-libnsl2_1.3.0-3+b3_arm64.deb ... Unpacking libnsl2:arm64 (1.3.0-3+b3) ... Selecting previously unselected package readline-common. Preparing to unpack .../13-readline-common_8.2-6_all.deb ... Unpacking readline-common (8.2-6) ... Selecting previously unselected package libreadline8t64:arm64. Preparing to unpack .../14-libreadline8t64_8.2-6_arm64.deb ... Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8 to /lib/aarch64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8.2 to /lib/aarch64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8 to /lib/aarch64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8.2 to /lib/aarch64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:arm64 (8.2-6) ... Selecting previously unselected package libpython3.12-stdlib:arm64. Preparing to unpack .../15-libpython3.12-stdlib_3.12.8-3_arm64.deb ... Unpacking libpython3.12-stdlib:arm64 (3.12.8-3) ... Selecting previously unselected package python3.12. Preparing to unpack .../16-python3.12_3.12.8-3_arm64.deb ... Unpacking python3.12 (3.12.8-3) ... Selecting previously unselected package libpython3-stdlib:arm64. Preparing to unpack .../17-libpython3-stdlib_3.12.7-1_arm64.deb ... Unpacking libpython3-stdlib:arm64 (3.12.7-1) ... Setting up python3-minimal (3.12.7-1) ... Selecting previously unselected package python3. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 21467 files and directories currently installed.) Preparing to unpack .../000-python3_3.12.7-1_arm64.deb ... Unpacking python3 (3.12.7-1) ... Selecting previously unselected package libpython3.13-minimal:arm64. Preparing to unpack .../001-libpython3.13-minimal_3.13.1-2_arm64.deb ... Unpacking libpython3.13-minimal:arm64 (3.13.1-2) ... Selecting previously unselected package python3.13-minimal. Preparing to unpack .../002-python3.13-minimal_3.13.1-2_arm64.deb ... Unpacking python3.13-minimal (3.13.1-2) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../003-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package openssl. Preparing to unpack .../004-openssl_3.3.2-2_arm64.deb ... Unpacking openssl (3.3.2-2) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../005-ca-certificates_20240203_all.deb ... Unpacking ca-certificates (20240203) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../006-libmagic-mgc_1%3a5.45-3+b1_arm64.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:arm64. Preparing to unpack .../007-libmagic1t64_1%3a5.45-3+b1_arm64.deb ... Unpacking libmagic1t64:arm64 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../008-file_1%3a5.45-3+b1_arm64.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../009-gettext-base_0.22.5-3_arm64.deb ... Unpacking gettext-base (0.22.5-3) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../010-libuchardet0_0.0.8-1+b2_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../011-groff-base_1.23.0-6_arm64.deb ... Unpacking groff-base (1.23.0-6) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../012-bsdextrautils_2.40.2-12_arm64.deb ... Unpacking bsdextrautils (2.40.2-12) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../013-libpipeline1_1.5.8-1_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../014-man-db_2.13.0-1_arm64.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package m4. Preparing to unpack .../015-m4_1.4.19-4_arm64.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../016-autoconf_2.72-3_all.deb ... Unpacking autoconf (2.72-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../017-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../018-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../019-autopoint_0.22.5-3_all.deb ... Unpacking autopoint (0.22.5-3) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../020-libdebhelper-perl_13.22_all.deb ... Unpacking libdebhelper-perl (13.22) ... Selecting previously unselected package libtool. Preparing to unpack .../021-libtool_2.4.7-8_all.deb ... Unpacking libtool (2.4.7-8) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../022-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../023-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../024-libfile-stripnondeterminism-perl_1.14.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.14.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../025-dh-strip-nondeterminism_1.14.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.14.0-1) ... Selecting previously unselected package libelf1t64:arm64. Preparing to unpack .../026-libelf1t64_0.192-4_arm64.deb ... Unpacking libelf1t64:arm64 (0.192-4) ... Selecting previously unselected package dwz. Preparing to unpack .../027-dwz_0.15-1+b1_arm64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libicu72:arm64. Preparing to unpack .../028-libicu72_72.1-5+b1_arm64.deb ... Unpacking libicu72:arm64 (72.1-5+b1) ... Selecting previously unselected package libxml2:arm64. Preparing to unpack .../029-libxml2_2.12.7+dfsg+really2.9.14-0.2+b1_arm64.deb ... Unpacking libxml2:arm64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Selecting previously unselected package gettext. Preparing to unpack .../030-gettext_0.22.5-3_arm64.deb ... Unpacking gettext (0.22.5-3) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../031-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../032-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../033-debhelper_13.22_all.deb ... Unpacking debhelper (13.22) ... Selecting previously unselected package python3-autocommand. Preparing to unpack .../034-python3-autocommand_2.2.2-3_all.deb ... Unpacking python3-autocommand (2.2.2-3) ... Selecting previously unselected package python3-more-itertools. Preparing to unpack .../035-python3-more-itertools_10.5.0-1_all.deb ... Unpacking python3-more-itertools (10.5.0-1) ... Selecting previously unselected package python3-typing-extensions. Preparing to unpack .../036-python3-typing-extensions_4.12.2-2_all.deb ... Unpacking python3-typing-extensions (4.12.2-2) ... Selecting previously unselected package python3-typeguard. Preparing to unpack .../037-python3-typeguard_4.4.1-1_all.deb ... Unpacking python3-typeguard (4.4.1-1) ... Selecting previously unselected package python3-inflect. Preparing to unpack .../038-python3-inflect_7.3.1-2_all.deb ... Unpacking python3-inflect (7.3.1-2) ... Selecting previously unselected package python3-jaraco.context. Preparing to unpack .../039-python3-jaraco.context_6.0.0-1_all.deb ... Unpacking python3-jaraco.context (6.0.0-1) ... Selecting previously unselected package python3-jaraco.functools. Preparing to unpack .../040-python3-jaraco.functools_4.1.0-1_all.deb ... Unpacking python3-jaraco.functools (4.1.0-1) ... Selecting previously unselected package python3-pkg-resources. Preparing to unpack .../041-python3-pkg-resources_75.6.0-1_all.deb ... Unpacking python3-pkg-resources (75.6.0-1) ... Selecting previously unselected package python3-jaraco.text. 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Setting up liblapack3:arm64 (3.12.0-4) ... 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 (0.22.5-3) ... Setting up libtool (2.4.7-8) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 146 added, 0 removed; done. Setting up libgssapi-krb5-2:arm64 (1.21.3-3) ... Setting up libreadline8t64:arm64 (8.2-6) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up groff-base (1.23.0-6) ... Setting up libpython3.13-stdlib:arm64 (3.13.1-2) ... Setting up libtirpc3t64:arm64 (1.3.4+ds-1.3+b1) ... Setting up python3.13 (3.13.1-2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libnsl2:arm64 (1.3.0-3+b3) ... Setting up libpython3.12-stdlib:arm64 (3.12.8-3) ... Setting up python3.12 (3.12.8-3) ... Setting up debhelper (13.22) ... Setting up libpython3-stdlib:arm64 (3.12.7-1) ... Setting up python3 (3.12.7-1) ... Setting up python3-sortedcontainers (2.4.0-2) ... Setting up python3-zipp (3.21.0-1) ... Setting up python3-autocommand (2.2.2-3) ... Setting up python3-markupsafe (2.1.5-1+b3) ... Setting up python3-wheel (0.45.1-1) ... Setting up python3-annotated-types (0.7.0-1) ... Setting up python3-tz (2024.2-1) ... Setting up python3-jinja2 (3.1.3-1.1) ... Setting up python3-packaging (24.2-1) ... Setting up python3-pyproject-hooks (1.2.0-1) ... Setting up python3-pyparsing (3.1.2-1) ... Setting up python3-certifi (2024.8.30+dfsg-1) ... Setting up python3-multisplitby (0.0.1-6) ... Setting up python3-greenlet (3.1.0-1+b1) ... Setting up python3-idna (3.8-2) ... Setting up python3-typing-extensions (4.12.2-2) ... Setting up python3-toml (0.10.2-1) ... 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Setting up python3-pandas-lib:arm64 (2.2.3+dfsg-5+b1) ... Setting up python3-bioregistry (0.11.12-3) ... Setting up python3-pandas (2.2.3+dfsg-5) ... Setting up python3-bel-resources (0.0.3-4) ... Setting up python3-jsonschema (4.19.2-5) ... Processing triggers for libc-bin (2.40-4) ... Processing triggers for ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. 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/pybel-0.15.5/ && 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 > ../pybel_0.15.5-1_source.changes dpkg-buildpackage: info: source package pybel dpkg-buildpackage: info: source version 0.15.5-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Alexandre Detiste dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 dpkg-source: info: using options from pybel-0.15.5/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/ debian/rules clean dh clean --buildsystem=pybuild debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/pybel-0.15.5' dh_auto_clean rm -rf src/PyBEL.egg-info/ src/pybel.egg-info/ make[1]: Leaving directory '/build/reproducible-path/pybel-0.15.5' 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/pybel-0.15.5/.pybuild/cpython3_3.13_pybel * Building wheel... running bdist_wheel running build running build_py creating build/lib/pybel copying src/pybel/version.py -> build/lib/pybel copying src/pybel/utils.py -> build/lib/pybel copying src/pybel/typing.py -> build/lib/pybel copying src/pybel/tokens.py -> build/lib/pybel copying src/pybel/repository.py -> build/lib/pybel copying src/pybel/language.py -> build/lib/pybel copying src/pybel/grounding.py -> build/lib/pybel copying src/pybel/exceptions.py -> build/lib/pybel copying src/pybel/constants.py -> build/lib/pybel copying src/pybel/config.py -> build/lib/pybel copying src/pybel/cli.py -> build/lib/pybel copying src/pybel/canonicalize.py -> build/lib/pybel copying src/pybel/__main__.py -> build/lib/pybel copying src/pybel/__init__.py -> build/lib/pybel creating build/lib/pybel/testing copying src/pybel/testing/utils.py -> build/lib/pybel/testing copying src/pybel/testing/mocks.py -> build/lib/pybel/testing copying src/pybel/testing/mock_manager.py -> build/lib/pybel/testing copying src/pybel/testing/generate.py -> build/lib/pybel/testing copying src/pybel/testing/constants.py -> build/lib/pybel/testing copying src/pybel/testing/cases.py -> build/lib/pybel/testing copying src/pybel/testing/__init__.py -> build/lib/pybel/testing creating build/lib/pybel/struct copying src/pybel/struct/utils.py -> build/lib/pybel/struct copying src/pybel/struct/operations.py -> build/lib/pybel/struct copying src/pybel/struct/node_utils.py -> build/lib/pybel/struct copying src/pybel/struct/graph.py -> build/lib/pybel/struct copying src/pybel/struct/getters.py -> build/lib/pybel/struct copying src/pybel/struct/__init__.py -> build/lib/pybel/struct creating build/lib/pybel/schema copying src/pybel/schema/__init__.py -> build/lib/pybel/schema creating build/lib/pybel/resources copying src/pybel/resources/update_resources.py -> build/lib/pybel/resources copying src/pybel/resources/resources.py -> build/lib/pybel/resources copying src/pybel/resources/constants.py -> build/lib/pybel/resources copying src/pybel/resources/__init__.py -> build/lib/pybel/resources creating build/lib/pybel/parser copying src/pybel/parser/utils.py -> build/lib/pybel/parser copying src/pybel/parser/parse_metadata.py -> build/lib/pybel/parser copying src/pybel/parser/parse_control.py -> build/lib/pybel/parser copying src/pybel/parser/parse_concept.py -> build/lib/pybel/parser copying src/pybel/parser/parse_bel.py -> build/lib/pybel/parser copying src/pybel/parser/constants.py -> build/lib/pybel/parser copying src/pybel/parser/baseparser.py -> build/lib/pybel/parser copying src/pybel/parser/__init__.py -> build/lib/pybel/parser creating build/lib/pybel/manager copying src/pybel/manager/utils.py -> build/lib/pybel/manager copying src/pybel/manager/query_manager.py -> build/lib/pybel/manager copying src/pybel/manager/models.py -> build/lib/pybel/manager copying src/pybel/manager/make_json_serializable.py -> build/lib/pybel/manager copying src/pybel/manager/lookup_manager.py -> build/lib/pybel/manager copying src/pybel/manager/exc.py -> build/lib/pybel/manager copying src/pybel/manager/database_io.py -> build/lib/pybel/manager copying src/pybel/manager/citation_utils.py -> build/lib/pybel/manager copying src/pybel/manager/cache_manager.py -> build/lib/pybel/manager copying src/pybel/manager/base_manager.py -> build/lib/pybel/manager copying src/pybel/manager/__init__.py -> build/lib/pybel/manager creating build/lib/pybel/io copying src/pybel/io/emmaa.py -> build/lib/pybel/io copying src/pybel/io/utils.py -> build/lib/pybel/io copying src/pybel/io/umbrella_nodelink.py -> build/lib/pybel/io copying src/pybel/io/spia.py -> build/lib/pybel/io copying src/pybel/io/sbel.py -> build/lib/pybel/io copying src/pybel/io/pynpa.py -> build/lib/pybel/io copying src/pybel/io/pykeen.py -> build/lib/pybel/io copying src/pybel/io/nodelink.py -> build/lib/pybel/io copying src/pybel/io/neo4j.py -> build/lib/pybel/io copying src/pybel/io/lines.py -> build/lib/pybel/io copying src/pybel/io/line_utils.py -> build/lib/pybel/io copying src/pybel/io/jinja_utils.py -> build/lib/pybel/io copying src/pybel/io/jgif.py -> build/lib/pybel/io copying src/pybel/io/indra.py -> build/lib/pybel/io copying src/pybel/io/hipathia.py -> build/lib/pybel/io copying src/pybel/io/graphml.py -> build/lib/pybel/io copying src/pybel/io/graphdati.py -> build/lib/pybel/io copying src/pybel/io/gpickle.py -> build/lib/pybel/io copying src/pybel/io/fraunhofer_orientdb.py -> build/lib/pybel/io copying src/pybel/io/extras.py -> build/lib/pybel/io copying src/pybel/io/exc.py -> build/lib/pybel/io copying src/pybel/io/cx.py -> build/lib/pybel/io copying src/pybel/io/biodati_client.py -> build/lib/pybel/io copying src/pybel/io/bel_commons_client.py -> build/lib/pybel/io copying src/pybel/io/aws.py -> build/lib/pybel/io copying src/pybel/io/api.py -> build/lib/pybel/io copying src/pybel/io/__init__.py -> build/lib/pybel/io creating build/lib/pybel/examples copying src/pybel/examples/vegf_example.py -> build/lib/pybel/examples copying src/pybel/examples/various_example.py -> build/lib/pybel/examples copying src/pybel/examples/tloc_example.py -> build/lib/pybel/examples copying src/pybel/examples/statin_example.py -> build/lib/pybel/examples copying src/pybel/examples/sialic_acid_example.py -> build/lib/pybel/examples copying src/pybel/examples/homology_example.py -> build/lib/pybel/examples copying src/pybel/examples/egf_example.py -> build/lib/pybel/examples copying src/pybel/examples/braf_example.py -> build/lib/pybel/examples copying src/pybel/examples/ampk_example.py -> build/lib/pybel/examples copying src/pybel/examples/__init__.py -> build/lib/pybel/examples creating build/lib/pybel/dsl copying src/pybel/dsl/node_classes.py -> build/lib/pybel/dsl copying src/pybel/dsl/namespaces.py -> build/lib/pybel/dsl copying src/pybel/dsl/exc.py -> build/lib/pybel/dsl copying src/pybel/dsl/edges.py -> build/lib/pybel/dsl copying src/pybel/dsl/constants.py -> build/lib/pybel/dsl copying src/pybel/dsl/__init__.py -> build/lib/pybel/dsl creating build/lib/pybel/struct/summary copying src/pybel/struct/summary/supersummary.py -> build/lib/pybel/struct/summary copying src/pybel/struct/summary/provenance.py -> build/lib/pybel/struct/summary copying src/pybel/struct/summary/node_summary.py -> build/lib/pybel/struct/summary copying src/pybel/struct/summary/errors.py -> build/lib/pybel/struct/summary copying src/pybel/struct/summary/edge_summary.py -> build/lib/pybel/struct/summary copying src/pybel/struct/summary/__init__.py -> build/lib/pybel/struct/summary creating build/lib/pybel/struct/query copying src/pybel/struct/query/selection.py -> build/lib/pybel/struct/query copying src/pybel/struct/query/seeding.py -> build/lib/pybel/struct/query copying src/pybel/struct/query/query.py -> build/lib/pybel/struct/query copying src/pybel/struct/query/exc.py -> build/lib/pybel/struct/query copying src/pybel/struct/query/constants.py -> build/lib/pybel/struct/query copying src/pybel/struct/query/__init__.py -> build/lib/pybel/struct/query creating build/lib/pybel/struct/pipeline copying src/pybel/struct/pipeline/pipeline.py -> build/lib/pybel/struct/pipeline copying src/pybel/struct/pipeline/exc.py -> build/lib/pybel/struct/pipeline copying src/pybel/struct/pipeline/decorators.py -> build/lib/pybel/struct/pipeline copying src/pybel/struct/pipeline/__init__.py -> build/lib/pybel/struct/pipeline creating build/lib/pybel/struct/mutation copying src/pybel/struct/mutation/utils.py -> build/lib/pybel/struct/mutation copying src/pybel/struct/mutation/metadata.py -> build/lib/pybel/struct/mutation copying src/pybel/struct/mutation/induction_expansion.py -> build/lib/pybel/struct/mutation copying src/pybel/struct/mutation/__init__.py -> build/lib/pybel/struct/mutation creating build/lib/pybel/struct/grouping copying src/pybel/struct/grouping/provenance.py -> build/lib/pybel/struct/grouping copying src/pybel/struct/grouping/annotations.py -> build/lib/pybel/struct/grouping copying src/pybel/struct/grouping/__init__.py -> build/lib/pybel/struct/grouping creating build/lib/pybel/struct/filters copying src/pybel/struct/filters/utils.py -> build/lib/pybel/struct/filters copying src/pybel/struct/filters/typing.py -> build/lib/pybel/struct/filters copying src/pybel/struct/filters/node_predicate_builders.py -> build/lib/pybel/struct/filters copying src/pybel/struct/filters/node_filters.py -> build/lib/pybel/struct/filters copying src/pybel/struct/filters/edge_predicates.py -> build/lib/pybel/struct/filters copying src/pybel/struct/filters/edge_predicate_builders.py -> build/lib/pybel/struct/filters copying src/pybel/struct/filters/edge_filters.py -> build/lib/pybel/struct/filters copying src/pybel/struct/filters/__init__.py -> build/lib/pybel/struct/filters creating build/lib/pybel/struct/mutation/inference copying src/pybel/struct/mutation/inference/transfer.py -> build/lib/pybel/struct/mutation/inference copying src/pybel/struct/mutation/inference/protein_rna_origins.py -> build/lib/pybel/struct/mutation/inference copying src/pybel/struct/mutation/inference/__init__.py -> build/lib/pybel/struct/mutation/inference creating build/lib/pybel/struct/mutation/induction copying src/pybel/struct/mutation/induction/utils.py -> build/lib/pybel/struct/mutation/induction copying src/pybel/struct/mutation/induction/upstream.py -> build/lib/pybel/struct/mutation/induction copying src/pybel/struct/mutation/induction/random_subgraph.py -> build/lib/pybel/struct/mutation/induction copying src/pybel/struct/mutation/induction/paths.py -> build/lib/pybel/struct/mutation/induction copying src/pybel/struct/mutation/induction/neighborhood.py -> build/lib/pybel/struct/mutation/induction copying src/pybel/struct/mutation/induction/citation.py -> build/lib/pybel/struct/mutation/induction copying src/pybel/struct/mutation/induction/annotations.py -> build/lib/pybel/struct/mutation/induction copying src/pybel/struct/mutation/induction/__init__.py -> build/lib/pybel/struct/mutation/induction creating build/lib/pybel/struct/mutation/expansion copying src/pybel/struct/mutation/expansion/upstream.py -> build/lib/pybel/struct/mutation/expansion copying src/pybel/struct/mutation/expansion/neighborhood.py -> build/lib/pybel/struct/mutation/expansion copying src/pybel/struct/mutation/expansion/__init__.py -> build/lib/pybel/struct/mutation/expansion creating build/lib/pybel/struct/mutation/deletion copying src/pybel/struct/mutation/deletion/protein_rna_origins.py -> build/lib/pybel/struct/mutation/deletion copying src/pybel/struct/mutation/deletion/deletion.py -> build/lib/pybel/struct/mutation/deletion copying src/pybel/struct/mutation/deletion/__init__.py -> build/lib/pybel/struct/mutation/deletion creating build/lib/pybel/struct/mutation/collapse copying src/pybel/struct/mutation/collapse/protein_rna_origins.py -> build/lib/pybel/struct/mutation/collapse copying src/pybel/struct/mutation/collapse/collapse.py -> build/lib/pybel/struct/mutation/collapse copying src/pybel/struct/mutation/collapse/__init__.py -> build/lib/pybel/struct/mutation/collapse creating build/lib/pybel/struct/filters/node_predicates copying src/pybel/struct/filters/node_predicates/utils.py -> build/lib/pybel/struct/filters/node_predicates copying src/pybel/struct/filters/node_predicates/types.py -> build/lib/pybel/struct/filters/node_predicates copying src/pybel/struct/filters/node_predicates/relations.py -> build/lib/pybel/struct/filters/node_predicates copying src/pybel/struct/filters/node_predicates/modifications.py -> build/lib/pybel/struct/filters/node_predicates copying src/pybel/struct/filters/node_predicates/misc.py -> build/lib/pybel/struct/filters/node_predicates copying src/pybel/struct/filters/node_predicates/activities.py -> build/lib/pybel/struct/filters/node_predicates copying src/pybel/struct/filters/node_predicates/__init__.py -> build/lib/pybel/struct/filters/node_predicates creating build/lib/pybel/parser/modifiers copying src/pybel/parser/modifiers/variant.py -> build/lib/pybel/parser/modifiers copying src/pybel/parser/modifiers/truncation.py -> build/lib/pybel/parser/modifiers copying src/pybel/parser/modifiers/protein_substitution.py -> build/lib/pybel/parser/modifiers copying src/pybel/parser/modifiers/protein_modification.py -> build/lib/pybel/parser/modifiers copying src/pybel/parser/modifiers/location.py -> build/lib/pybel/parser/modifiers copying src/pybel/parser/modifiers/gene_substitution.py -> build/lib/pybel/parser/modifiers copying src/pybel/parser/modifiers/gene_modification.py -> build/lib/pybel/parser/modifiers copying src/pybel/parser/modifiers/fusion.py -> build/lib/pybel/parser/modifiers copying src/pybel/parser/modifiers/fragment.py -> build/lib/pybel/parser/modifiers copying src/pybel/parser/modifiers/constants.py -> build/lib/pybel/parser/modifiers copying src/pybel/parser/modifiers/__init__.py -> build/lib/pybel/parser/modifiers creating build/lib/pybel/io/tsv copying src/pybel/io/tsv/converters.py -> build/lib/pybel/io/tsv copying src/pybel/io/tsv/api.py -> build/lib/pybel/io/tsv copying src/pybel/io/tsv/__init__.py -> build/lib/pybel/io/tsv creating build/lib/pybel/io/triples copying src/pybel/io/triples/converters.py -> build/lib/pybel/io/triples copying src/pybel/io/triples/api.py -> build/lib/pybel/io/triples copying src/pybel/io/triples/__init__.py -> build/lib/pybel/io/triples creating build/lib/pybel/io/jupyter copying src/pybel/io/jupyter/visualization.py -> build/lib/pybel/io/jupyter copying src/pybel/io/jupyter/inline.py -> build/lib/pybel/io/jupyter copying src/pybel/io/jupyter/constants.py -> build/lib/pybel/io/jupyter copying src/pybel/io/jupyter/__init__.py -> build/lib/pybel/io/jupyter creating build/lib/pybel/io/hetionet copying src/pybel/io/hetionet/hetionet.py -> build/lib/pybel/io/hetionet copying src/pybel/io/hetionet/constants.py -> build/lib/pybel/io/hetionet copying src/pybel/io/hetionet/cli.py -> build/lib/pybel/io/hetionet copying src/pybel/io/hetionet/__main__.py -> build/lib/pybel/io/hetionet copying src/pybel/io/hetionet/__init__.py -> build/lib/pybel/io/hetionet running egg_info creating src/pybel.egg-info writing src/pybel.egg-info/PKG-INFO writing dependency_links to src/pybel.egg-info/dependency_links.txt writing entry points to src/pybel.egg-info/entry_points.txt writing requirements to src/pybel.egg-info/requires.txt writing top-level names to src/pybel.egg-info/top_level.txt writing manifest file 'src/pybel.egg-info/SOURCES.txt' reading manifest file 'src/pybel.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' no previously-included directories found matching 'scripts' no previously-included directories found matching 'notebooks' warning: no files found matching '*.bel' under directory 'src/pybel/testing/bel' warning: no files found matching '*.belanno' under directory 'src/pybel/testing/belanno' warning: no files found matching '*.belns' under directory 'src/pybel/testing/belns' warning: no previously-included files matching '*.py[cod]' found anywhere in distribution warning: no previously-included files matching '__pycache__' found anywhere in distribution warning: no previously-included files matching '*.so' found anywhere in distribution warning: no previously-included files matching '*.dylib' found anywhere in distribution warning: no previously-included files matching '.DS_Store' found anywhere in distribution warning: no previously-included files matching '*.gpickle' found anywhere in distribution warning: no previously-included files found matching '.bumpversion.cfg' warning: no previously-included files found matching '.readthedocs.yml' warning: no previously-included files found matching '.flake8' warning: no previously-included files found matching 'tox.ini' warning: no previously-included files found matching 'CONTRIBUTING.md' warning: no previously-included files found matching 'CHANGELOG.rst' warning: no previously-included files found matching 'AUTHORS.rst' adding license file 'LICENSE' writing manifest file 'src/pybel.egg-info/SOURCES.txt' /usr/lib/python3/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'pybel.apps' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'pybel.apps' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'pybel.apps' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'pybel.apps' to be distributed and are already explicitly excluding 'pybel.apps' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'pybel.io.jupyter.templates' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'pybel.io.jupyter.templates' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'pybel.io.jupyter.templates' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'pybel.io.jupyter.templates' to be distributed and are already explicitly excluding 'pybel.io.jupyter.templates' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'pybel.schema.node_types' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'pybel.schema.node_types' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'pybel.schema.node_types' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'pybel.schema.node_types' to be distributed and are already explicitly excluding 'pybel.schema.node_types' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'pybel.schema.node_types.variants' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'pybel.schema.node_types.variants' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'pybel.schema.node_types.variants' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'pybel.schema.node_types.variants' to be distributed and are already explicitly excluding 'pybel.schema.node_types.variants' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'pybel.schema.node_types.variants.hgvs' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'pybel.schema.node_types.variants.hgvs' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'pybel.schema.node_types.variants.hgvs' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'pybel.schema.node_types.variants.hgvs' to be distributed and are already explicitly excluding 'pybel.schema.node_types.variants.hgvs' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'pybel.testing.resources.bel' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'pybel.testing.resources.bel' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'pybel.testing.resources.bel' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'pybel.testing.resources.bel' to be distributed and are already explicitly excluding 'pybel.testing.resources.bel' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'pybel.testing.resources.belanno' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'pybel.testing.resources.belanno' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'pybel.testing.resources.belanno' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'pybel.testing.resources.belanno' to be distributed and are already explicitly excluding 'pybel.testing.resources.belanno' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'pybel.testing.resources.belns' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'pybel.testing.resources.belns' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'pybel.testing.resources.belns' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'pybel.testing.resources.belns' to be distributed and are already explicitly excluding 'pybel.testing.resources.belns' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) creating build/lib/pybel/apps copying src/pybel/apps/parser.py -> build/lib/pybel/apps creating build/lib/pybel/testing/resources/bel copying src/pybel/testing/resources/bel/Cytotoxic T-cell Signaling-2.0-Hs.json -> build/lib/pybel/testing/resources/bel copying src/pybel/testing/resources/bel/isolated.bel -> build/lib/pybel/testing/resources/bel copying src/pybel/testing/resources/bel/misordered.bel -> build/lib/pybel/testing/resources/bel copying src/pybel/testing/resources/bel/obo.bel -> build/lib/pybel/testing/resources/bel copying src/pybel/testing/resources/bel/slushy.bel -> build/lib/pybel/testing/resources/bel copying src/pybel/testing/resources/bel/test_bel.bel -> build/lib/pybel/testing/resources/bel copying src/pybel/testing/resources/bel/thorough.bel -> build/lib/pybel/testing/resources/bel creating build/lib/pybel/testing/resources/belanno copying src/pybel/testing/resources/belanno/cell-line.belanno -> build/lib/pybel/testing/resources/belanno copying src/pybel/testing/resources/belanno/confidence-1.0.0.belanno -> build/lib/pybel/testing/resources/belanno copying src/pybel/testing/resources/belanno/mesh-diseases.belanno -> build/lib/pybel/testing/resources/belanno copying src/pybel/testing/resources/belanno/species-taxonomy-id.belanno -> build/lib/pybel/testing/resources/belanno copying src/pybel/testing/resources/belanno/test_an_1.belanno -> build/lib/pybel/testing/resources/belanno creating build/lib/pybel/testing/resources/belns copying src/pybel/testing/resources/belns/chebi-names.belns -> build/lib/pybel/testing/resources/belns copying src/pybel/testing/resources/belns/disease-ontology.belns -> build/lib/pybel/testing/resources/belns copying src/pybel/testing/resources/belns/go-names.belns -> build/lib/pybel/testing/resources/belns copying src/pybel/testing/resources/belns/hgnc-names.belns -> build/lib/pybel/testing/resources/belns copying src/pybel/testing/resources/belns/mesh-names.belns -> build/lib/pybel/testing/resources/belns copying src/pybel/testing/resources/belns/test_ns_1.belns -> build/lib/pybel/testing/resources/belns copying src/pybel/testing/resources/belns/test_ns_1_updated.belns -> build/lib/pybel/testing/resources/belns copying src/pybel/testing/resources/belns/test_ns_2.belns -> build/lib/pybel/testing/resources/belns copying src/pybel/testing/resources/belns/test_ns_empty.belns -> build/lib/pybel/testing/resources/belns copying src/pybel/schema/base_node.schema.json -> build/lib/pybel/schema copying src/pybel/schema/edge.schema.json -> build/lib/pybel/schema copying src/pybel/schema/entity.schema.json -> build/lib/pybel/schema copying src/pybel/schema/modifier.schema.json -> build/lib/pybel/schema creating build/lib/pybel/schema/node_types copying src/pybel/schema/node_types/base_abundance.schema.json -> build/lib/pybel/schema/node_types copying src/pybel/schema/node_types/fusion.schema.json -> build/lib/pybel/schema/node_types copying src/pybel/schema/node_types/fusion_range.schema.json -> build/lib/pybel/schema/node_types copying src/pybel/schema/node_types/list_abundance.schema.json -> build/lib/pybel/schema/node_types copying src/pybel/schema/node_types/reaction.schema.json -> build/lib/pybel/schema/node_types creating build/lib/pybel/schema/node_types/variants copying src/pybel/schema/node_types/variants/base_variant.schema.json -> build/lib/pybel/schema/node_types/variants copying src/pybel/schema/node_types/variants/fragment.schema.json -> build/lib/pybel/schema/node_types/variants copying src/pybel/schema/node_types/variants/gene_mod.schema.json -> build/lib/pybel/schema/node_types/variants copying src/pybel/schema/node_types/variants/protein_mod.schema.json -> build/lib/pybel/schema/node_types/variants creating build/lib/pybel/schema/node_types/variants/hgvs copying src/pybel/schema/node_types/variants/hgvs/base_hgvs.schema.json -> build/lib/pybel/schema/node_types/variants/hgvs copying src/pybel/schema/node_types/variants/hgvs/gene_hgvs.schema.json -> build/lib/pybel/schema/node_types/variants/hgvs copying src/pybel/schema/node_types/variants/hgvs/protein_hgvs.schema.json -> build/lib/pybel/schema/node_types/variants/hgvs copying src/pybel/schema/node_types/variants/hgvs/rna_hgvs.schema.json -> build/lib/pybel/schema/node_types/variants/hgvs creating build/lib/pybel/io/jupyter/templates copying src/pybel/io/jupyter/templates/graph_template.html -> build/lib/pybel/io/jupyter/templates copying src/pybel/io/jupyter/templates/pybel_jupyter.js -> build/lib/pybel/io/jupyter/templates copying src/pybel/io/jupyter/templates/pybel_vis.js -> build/lib/pybel/io/jupyter/templates installing to build/bdist.linux-aarch64/wheel running install running install_lib creating build/bdist.linux-aarch64/wheel creating build/bdist.linux-aarch64/wheel/pybel creating build/bdist.linux-aarch64/wheel/pybel/apps copying build/lib/pybel/apps/parser.py -> build/bdist.linux-aarch64/wheel/./pybel/apps creating build/bdist.linux-aarch64/wheel/pybel/dsl copying build/lib/pybel/dsl/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/dsl copying build/lib/pybel/dsl/constants.py -> build/bdist.linux-aarch64/wheel/./pybel/dsl copying build/lib/pybel/dsl/edges.py -> build/bdist.linux-aarch64/wheel/./pybel/dsl copying build/lib/pybel/dsl/exc.py -> build/bdist.linux-aarch64/wheel/./pybel/dsl copying build/lib/pybel/dsl/namespaces.py -> build/bdist.linux-aarch64/wheel/./pybel/dsl copying build/lib/pybel/dsl/node_classes.py -> build/bdist.linux-aarch64/wheel/./pybel/dsl creating build/bdist.linux-aarch64/wheel/pybel/examples copying build/lib/pybel/examples/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/examples copying build/lib/pybel/examples/ampk_example.py -> build/bdist.linux-aarch64/wheel/./pybel/examples copying build/lib/pybel/examples/braf_example.py -> build/bdist.linux-aarch64/wheel/./pybel/examples copying build/lib/pybel/examples/egf_example.py -> build/bdist.linux-aarch64/wheel/./pybel/examples copying build/lib/pybel/examples/homology_example.py -> build/bdist.linux-aarch64/wheel/./pybel/examples copying build/lib/pybel/examples/sialic_acid_example.py -> build/bdist.linux-aarch64/wheel/./pybel/examples copying build/lib/pybel/examples/statin_example.py -> build/bdist.linux-aarch64/wheel/./pybel/examples copying build/lib/pybel/examples/tloc_example.py -> build/bdist.linux-aarch64/wheel/./pybel/examples copying build/lib/pybel/examples/various_example.py -> build/bdist.linux-aarch64/wheel/./pybel/examples copying build/lib/pybel/examples/vegf_example.py -> build/bdist.linux-aarch64/wheel/./pybel/examples creating build/bdist.linux-aarch64/wheel/pybel/io creating build/bdist.linux-aarch64/wheel/pybel/io/hetionet copying build/lib/pybel/io/hetionet/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/io/hetionet copying build/lib/pybel/io/hetionet/__main__.py -> build/bdist.linux-aarch64/wheel/./pybel/io/hetionet copying build/lib/pybel/io/hetionet/cli.py -> build/bdist.linux-aarch64/wheel/./pybel/io/hetionet copying build/lib/pybel/io/hetionet/constants.py -> build/bdist.linux-aarch64/wheel/./pybel/io/hetionet copying build/lib/pybel/io/hetionet/hetionet.py -> build/bdist.linux-aarch64/wheel/./pybel/io/hetionet creating build/bdist.linux-aarch64/wheel/pybel/io/jupyter creating build/bdist.linux-aarch64/wheel/pybel/io/jupyter/templates copying build/lib/pybel/io/jupyter/templates/pybel_vis.js -> build/bdist.linux-aarch64/wheel/./pybel/io/jupyter/templates copying build/lib/pybel/io/jupyter/templates/pybel_jupyter.js -> build/bdist.linux-aarch64/wheel/./pybel/io/jupyter/templates copying build/lib/pybel/io/jupyter/templates/graph_template.html -> build/bdist.linux-aarch64/wheel/./pybel/io/jupyter/templates copying build/lib/pybel/io/jupyter/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/io/jupyter copying build/lib/pybel/io/jupyter/constants.py -> build/bdist.linux-aarch64/wheel/./pybel/io/jupyter copying build/lib/pybel/io/jupyter/inline.py -> build/bdist.linux-aarch64/wheel/./pybel/io/jupyter copying build/lib/pybel/io/jupyter/visualization.py -> build/bdist.linux-aarch64/wheel/./pybel/io/jupyter creating build/bdist.linux-aarch64/wheel/pybel/io/triples copying build/lib/pybel/io/triples/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/io/triples copying build/lib/pybel/io/triples/api.py -> build/bdist.linux-aarch64/wheel/./pybel/io/triples copying build/lib/pybel/io/triples/converters.py -> build/bdist.linux-aarch64/wheel/./pybel/io/triples creating build/bdist.linux-aarch64/wheel/pybel/io/tsv copying build/lib/pybel/io/tsv/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/io/tsv copying build/lib/pybel/io/tsv/api.py -> build/bdist.linux-aarch64/wheel/./pybel/io/tsv copying build/lib/pybel/io/tsv/converters.py -> build/bdist.linux-aarch64/wheel/./pybel/io/tsv copying build/lib/pybel/io/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/api.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/aws.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/bel_commons_client.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/biodati_client.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/cx.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/exc.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/extras.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/fraunhofer_orientdb.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/gpickle.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/graphdati.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/graphml.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/hipathia.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/indra.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/jgif.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/jinja_utils.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/line_utils.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/lines.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/neo4j.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/nodelink.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/pykeen.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/pynpa.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/sbel.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/spia.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/umbrella_nodelink.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/utils.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/emmaa.py -> build/bdist.linux-aarch64/wheel/./pybel/io creating build/bdist.linux-aarch64/wheel/pybel/manager copying build/lib/pybel/manager/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/manager copying build/lib/pybel/manager/base_manager.py -> build/bdist.linux-aarch64/wheel/./pybel/manager copying build/lib/pybel/manager/cache_manager.py -> build/bdist.linux-aarch64/wheel/./pybel/manager copying build/lib/pybel/manager/citation_utils.py -> build/bdist.linux-aarch64/wheel/./pybel/manager copying build/lib/pybel/manager/database_io.py -> build/bdist.linux-aarch64/wheel/./pybel/manager copying build/lib/pybel/manager/exc.py -> build/bdist.linux-aarch64/wheel/./pybel/manager copying build/lib/pybel/manager/lookup_manager.py -> build/bdist.linux-aarch64/wheel/./pybel/manager copying build/lib/pybel/manager/make_json_serializable.py -> build/bdist.linux-aarch64/wheel/./pybel/manager copying build/lib/pybel/manager/models.py -> build/bdist.linux-aarch64/wheel/./pybel/manager copying build/lib/pybel/manager/query_manager.py -> build/bdist.linux-aarch64/wheel/./pybel/manager copying build/lib/pybel/manager/utils.py -> build/bdist.linux-aarch64/wheel/./pybel/manager creating build/bdist.linux-aarch64/wheel/pybel/parser creating build/bdist.linux-aarch64/wheel/pybel/parser/modifiers copying build/lib/pybel/parser/modifiers/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/parser/modifiers copying build/lib/pybel/parser/modifiers/constants.py -> build/bdist.linux-aarch64/wheel/./pybel/parser/modifiers copying build/lib/pybel/parser/modifiers/fragment.py -> build/bdist.linux-aarch64/wheel/./pybel/parser/modifiers copying build/lib/pybel/parser/modifiers/fusion.py -> build/bdist.linux-aarch64/wheel/./pybel/parser/modifiers copying build/lib/pybel/parser/modifiers/gene_modification.py -> build/bdist.linux-aarch64/wheel/./pybel/parser/modifiers copying build/lib/pybel/parser/modifiers/gene_substitution.py -> build/bdist.linux-aarch64/wheel/./pybel/parser/modifiers copying build/lib/pybel/parser/modifiers/location.py -> build/bdist.linux-aarch64/wheel/./pybel/parser/modifiers copying build/lib/pybel/parser/modifiers/protein_modification.py -> build/bdist.linux-aarch64/wheel/./pybel/parser/modifiers copying build/lib/pybel/parser/modifiers/protein_substitution.py -> build/bdist.linux-aarch64/wheel/./pybel/parser/modifiers copying build/lib/pybel/parser/modifiers/truncation.py -> build/bdist.linux-aarch64/wheel/./pybel/parser/modifiers copying build/lib/pybel/parser/modifiers/variant.py -> build/bdist.linux-aarch64/wheel/./pybel/parser/modifiers copying build/lib/pybel/parser/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/parser copying build/lib/pybel/parser/baseparser.py -> build/bdist.linux-aarch64/wheel/./pybel/parser copying build/lib/pybel/parser/constants.py -> build/bdist.linux-aarch64/wheel/./pybel/parser copying build/lib/pybel/parser/parse_bel.py -> build/bdist.linux-aarch64/wheel/./pybel/parser copying build/lib/pybel/parser/parse_concept.py -> build/bdist.linux-aarch64/wheel/./pybel/parser copying build/lib/pybel/parser/parse_control.py -> build/bdist.linux-aarch64/wheel/./pybel/parser copying build/lib/pybel/parser/parse_metadata.py -> build/bdist.linux-aarch64/wheel/./pybel/parser copying build/lib/pybel/parser/utils.py -> build/bdist.linux-aarch64/wheel/./pybel/parser creating build/bdist.linux-aarch64/wheel/pybel/resources copying build/lib/pybel/resources/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/resources copying build/lib/pybel/resources/constants.py -> build/bdist.linux-aarch64/wheel/./pybel/resources copying build/lib/pybel/resources/resources.py -> build/bdist.linux-aarch64/wheel/./pybel/resources copying build/lib/pybel/resources/update_resources.py -> build/bdist.linux-aarch64/wheel/./pybel/resources creating build/bdist.linux-aarch64/wheel/pybel/schema creating build/bdist.linux-aarch64/wheel/pybel/schema/node_types creating build/bdist.linux-aarch64/wheel/pybel/schema/node_types/variants creating build/bdist.linux-aarch64/wheel/pybel/schema/node_types/variants/hgvs copying build/lib/pybel/schema/node_types/variants/hgvs/rna_hgvs.schema.json -> build/bdist.linux-aarch64/wheel/./pybel/schema/node_types/variants/hgvs copying build/lib/pybel/schema/node_types/variants/hgvs/protein_hgvs.schema.json -> build/bdist.linux-aarch64/wheel/./pybel/schema/node_types/variants/hgvs copying build/lib/pybel/schema/node_types/variants/hgvs/gene_hgvs.schema.json -> build/bdist.linux-aarch64/wheel/./pybel/schema/node_types/variants/hgvs copying build/lib/pybel/schema/node_types/variants/hgvs/base_hgvs.schema.json -> build/bdist.linux-aarch64/wheel/./pybel/schema/node_types/variants/hgvs copying build/lib/pybel/schema/node_types/variants/protein_mod.schema.json -> build/bdist.linux-aarch64/wheel/./pybel/schema/node_types/variants copying build/lib/pybel/schema/node_types/variants/gene_mod.schema.json -> build/bdist.linux-aarch64/wheel/./pybel/schema/node_types/variants copying build/lib/pybel/schema/node_types/variants/fragment.schema.json -> build/bdist.linux-aarch64/wheel/./pybel/schema/node_types/variants copying build/lib/pybel/schema/node_types/variants/base_variant.schema.json -> build/bdist.linux-aarch64/wheel/./pybel/schema/node_types/variants copying build/lib/pybel/schema/node_types/reaction.schema.json -> build/bdist.linux-aarch64/wheel/./pybel/schema/node_types copying build/lib/pybel/schema/node_types/list_abundance.schema.json -> build/bdist.linux-aarch64/wheel/./pybel/schema/node_types copying build/lib/pybel/schema/node_types/fusion_range.schema.json -> build/bdist.linux-aarch64/wheel/./pybel/schema/node_types copying build/lib/pybel/schema/node_types/fusion.schema.json -> build/bdist.linux-aarch64/wheel/./pybel/schema/node_types copying build/lib/pybel/schema/node_types/base_abundance.schema.json -> build/bdist.linux-aarch64/wheel/./pybel/schema/node_types copying build/lib/pybel/schema/modifier.schema.json -> build/bdist.linux-aarch64/wheel/./pybel/schema copying build/lib/pybel/schema/entity.schema.json -> build/bdist.linux-aarch64/wheel/./pybel/schema copying build/lib/pybel/schema/edge.schema.json -> build/bdist.linux-aarch64/wheel/./pybel/schema copying build/lib/pybel/schema/base_node.schema.json -> build/bdist.linux-aarch64/wheel/./pybel/schema copying build/lib/pybel/schema/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/schema creating build/bdist.linux-aarch64/wheel/pybel/struct creating build/bdist.linux-aarch64/wheel/pybel/struct/filters creating build/bdist.linux-aarch64/wheel/pybel/struct/filters/node_predicates copying build/lib/pybel/struct/filters/node_predicates/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/filters/node_predicates copying build/lib/pybel/struct/filters/node_predicates/activities.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/filters/node_predicates copying build/lib/pybel/struct/filters/node_predicates/misc.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/filters/node_predicates copying build/lib/pybel/struct/filters/node_predicates/modifications.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/filters/node_predicates copying build/lib/pybel/struct/filters/node_predicates/relations.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/filters/node_predicates copying build/lib/pybel/struct/filters/node_predicates/types.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/filters/node_predicates copying build/lib/pybel/struct/filters/node_predicates/utils.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/filters/node_predicates copying build/lib/pybel/struct/filters/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/filters copying build/lib/pybel/struct/filters/edge_filters.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/filters copying build/lib/pybel/struct/filters/edge_predicate_builders.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/filters copying build/lib/pybel/struct/filters/edge_predicates.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/filters copying build/lib/pybel/struct/filters/node_filters.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/filters copying build/lib/pybel/struct/filters/node_predicate_builders.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/filters copying build/lib/pybel/struct/filters/typing.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/filters copying build/lib/pybel/struct/filters/utils.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/filters creating build/bdist.linux-aarch64/wheel/pybel/struct/grouping copying build/lib/pybel/struct/grouping/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/grouping copying build/lib/pybel/struct/grouping/annotations.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/grouping copying build/lib/pybel/struct/grouping/provenance.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/grouping creating build/bdist.linux-aarch64/wheel/pybel/struct/mutation creating build/bdist.linux-aarch64/wheel/pybel/struct/mutation/collapse copying build/lib/pybel/struct/mutation/collapse/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/collapse copying build/lib/pybel/struct/mutation/collapse/collapse.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/collapse copying build/lib/pybel/struct/mutation/collapse/protein_rna_origins.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/collapse creating build/bdist.linux-aarch64/wheel/pybel/struct/mutation/deletion copying build/lib/pybel/struct/mutation/deletion/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/deletion copying build/lib/pybel/struct/mutation/deletion/deletion.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/deletion copying build/lib/pybel/struct/mutation/deletion/protein_rna_origins.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/deletion creating build/bdist.linux-aarch64/wheel/pybel/struct/mutation/expansion copying build/lib/pybel/struct/mutation/expansion/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/expansion copying build/lib/pybel/struct/mutation/expansion/neighborhood.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/expansion copying build/lib/pybel/struct/mutation/expansion/upstream.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/expansion creating build/bdist.linux-aarch64/wheel/pybel/struct/mutation/induction copying build/lib/pybel/struct/mutation/induction/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/induction copying build/lib/pybel/struct/mutation/induction/annotations.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/induction copying build/lib/pybel/struct/mutation/induction/citation.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/induction copying build/lib/pybel/struct/mutation/induction/neighborhood.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/induction copying build/lib/pybel/struct/mutation/induction/paths.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/induction copying build/lib/pybel/struct/mutation/induction/random_subgraph.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/induction copying build/lib/pybel/struct/mutation/induction/upstream.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/induction copying build/lib/pybel/struct/mutation/induction/utils.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/induction creating build/bdist.linux-aarch64/wheel/pybel/struct/mutation/inference copying build/lib/pybel/struct/mutation/inference/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/inference copying build/lib/pybel/struct/mutation/inference/protein_rna_origins.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/inference copying build/lib/pybel/struct/mutation/inference/transfer.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/inference copying build/lib/pybel/struct/mutation/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation copying build/lib/pybel/struct/mutation/induction_expansion.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation copying build/lib/pybel/struct/mutation/metadata.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation copying build/lib/pybel/struct/mutation/utils.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation creating build/bdist.linux-aarch64/wheel/pybel/struct/pipeline copying build/lib/pybel/struct/pipeline/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/pipeline copying build/lib/pybel/struct/pipeline/decorators.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/pipeline copying build/lib/pybel/struct/pipeline/exc.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/pipeline copying build/lib/pybel/struct/pipeline/pipeline.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/pipeline creating build/bdist.linux-aarch64/wheel/pybel/struct/query copying build/lib/pybel/struct/query/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/query copying build/lib/pybel/struct/query/constants.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/query copying build/lib/pybel/struct/query/exc.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/query copying build/lib/pybel/struct/query/query.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/query copying build/lib/pybel/struct/query/seeding.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/query copying build/lib/pybel/struct/query/selection.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/query creating build/bdist.linux-aarch64/wheel/pybel/struct/summary copying build/lib/pybel/struct/summary/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/summary copying build/lib/pybel/struct/summary/edge_summary.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/summary copying build/lib/pybel/struct/summary/errors.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/summary copying build/lib/pybel/struct/summary/node_summary.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/summary copying build/lib/pybel/struct/summary/provenance.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/summary copying build/lib/pybel/struct/summary/supersummary.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/summary copying build/lib/pybel/struct/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/struct copying build/lib/pybel/struct/getters.py -> build/bdist.linux-aarch64/wheel/./pybel/struct copying build/lib/pybel/struct/graph.py -> build/bdist.linux-aarch64/wheel/./pybel/struct copying build/lib/pybel/struct/node_utils.py -> build/bdist.linux-aarch64/wheel/./pybel/struct copying build/lib/pybel/struct/operations.py -> build/bdist.linux-aarch64/wheel/./pybel/struct copying build/lib/pybel/struct/utils.py -> build/bdist.linux-aarch64/wheel/./pybel/struct creating build/bdist.linux-aarch64/wheel/pybel/testing creating build/bdist.linux-aarch64/wheel/pybel/testing/resources creating build/bdist.linux-aarch64/wheel/pybel/testing/resources/belns copying build/lib/pybel/testing/resources/belns/test_ns_empty.belns -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/belns copying build/lib/pybel/testing/resources/belns/test_ns_2.belns -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/belns copying build/lib/pybel/testing/resources/belns/test_ns_1_updated.belns -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/belns copying build/lib/pybel/testing/resources/belns/test_ns_1.belns -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/belns copying build/lib/pybel/testing/resources/belns/mesh-names.belns -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/belns copying build/lib/pybel/testing/resources/belns/hgnc-names.belns -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/belns copying build/lib/pybel/testing/resources/belns/go-names.belns -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/belns copying build/lib/pybel/testing/resources/belns/disease-ontology.belns -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/belns copying build/lib/pybel/testing/resources/belns/chebi-names.belns -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/belns creating build/bdist.linux-aarch64/wheel/pybel/testing/resources/belanno copying build/lib/pybel/testing/resources/belanno/test_an_1.belanno -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/belanno copying build/lib/pybel/testing/resources/belanno/species-taxonomy-id.belanno -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/belanno copying build/lib/pybel/testing/resources/belanno/mesh-diseases.belanno -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/belanno copying build/lib/pybel/testing/resources/belanno/confidence-1.0.0.belanno -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/belanno copying build/lib/pybel/testing/resources/belanno/cell-line.belanno -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/belanno creating build/bdist.linux-aarch64/wheel/pybel/testing/resources/bel copying build/lib/pybel/testing/resources/bel/thorough.bel -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/bel copying build/lib/pybel/testing/resources/bel/test_bel.bel -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/bel copying build/lib/pybel/testing/resources/bel/slushy.bel -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/bel copying build/lib/pybel/testing/resources/bel/obo.bel -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/bel copying build/lib/pybel/testing/resources/bel/misordered.bel -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/bel copying build/lib/pybel/testing/resources/bel/isolated.bel -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/bel copying build/lib/pybel/testing/resources/bel/Cytotoxic T-cell Signaling-2.0-Hs.json -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/bel copying build/lib/pybel/testing/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/testing copying build/lib/pybel/testing/cases.py -> build/bdist.linux-aarch64/wheel/./pybel/testing copying build/lib/pybel/testing/constants.py -> build/bdist.linux-aarch64/wheel/./pybel/testing copying build/lib/pybel/testing/generate.py -> build/bdist.linux-aarch64/wheel/./pybel/testing copying build/lib/pybel/testing/mock_manager.py -> build/bdist.linux-aarch64/wheel/./pybel/testing copying build/lib/pybel/testing/mocks.py -> build/bdist.linux-aarch64/wheel/./pybel/testing copying build/lib/pybel/testing/utils.py -> build/bdist.linux-aarch64/wheel/./pybel/testing copying build/lib/pybel/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel copying build/lib/pybel/__main__.py -> build/bdist.linux-aarch64/wheel/./pybel copying build/lib/pybel/canonicalize.py -> build/bdist.linux-aarch64/wheel/./pybel copying build/lib/pybel/cli.py -> build/bdist.linux-aarch64/wheel/./pybel copying build/lib/pybel/config.py -> build/bdist.linux-aarch64/wheel/./pybel copying build/lib/pybel/constants.py -> build/bdist.linux-aarch64/wheel/./pybel copying build/lib/pybel/exceptions.py -> build/bdist.linux-aarch64/wheel/./pybel copying build/lib/pybel/grounding.py -> build/bdist.linux-aarch64/wheel/./pybel copying build/lib/pybel/language.py -> build/bdist.linux-aarch64/wheel/./pybel copying build/lib/pybel/repository.py -> build/bdist.linux-aarch64/wheel/./pybel copying build/lib/pybel/tokens.py -> build/bdist.linux-aarch64/wheel/./pybel copying build/lib/pybel/typing.py -> build/bdist.linux-aarch64/wheel/./pybel copying build/lib/pybel/utils.py -> build/bdist.linux-aarch64/wheel/./pybel copying build/lib/pybel/version.py -> build/bdist.linux-aarch64/wheel/./pybel running install_egg_info Copying src/pybel.egg-info to build/bdist.linux-aarch64/wheel/./pybel-0.15.5.egg-info running install_scripts creating build/bdist.linux-aarch64/wheel/pybel-0.15.5.dist-info/WHEEL creating '/build/reproducible-path/pybel-0.15.5/.pybuild/cpython3_3.13_pybel/.tmp-rfzkckky/pybel-0.15.5-py3-none-any.whl' and adding 'build/bdist.linux-aarch64/wheel' to it adding 'pybel/__init__.py' adding 'pybel/__main__.py' adding 'pybel/canonicalize.py' adding 'pybel/cli.py' adding 'pybel/config.py' adding 'pybel/constants.py' adding 'pybel/exceptions.py' adding 'pybel/grounding.py' adding 'pybel/language.py' adding 'pybel/repository.py' adding 'pybel/tokens.py' adding 'pybel/typing.py' adding 'pybel/utils.py' adding 'pybel/version.py' adding 'pybel/apps/parser.py' adding 'pybel/dsl/__init__.py' adding 'pybel/dsl/constants.py' adding 'pybel/dsl/edges.py' adding 'pybel/dsl/exc.py' adding 'pybel/dsl/namespaces.py' adding 'pybel/dsl/node_classes.py' adding 'pybel/examples/__init__.py' adding 'pybel/examples/ampk_example.py' adding 'pybel/examples/braf_example.py' adding 'pybel/examples/egf_example.py' adding 'pybel/examples/homology_example.py' adding 'pybel/examples/sialic_acid_example.py' adding 'pybel/examples/statin_example.py' adding 'pybel/examples/tloc_example.py' adding 'pybel/examples/various_example.py' adding 'pybel/examples/vegf_example.py' adding 'pybel/io/__init__.py' adding 'pybel/io/api.py' adding 'pybel/io/aws.py' adding 'pybel/io/bel_commons_client.py' adding 'pybel/io/biodati_client.py' adding 'pybel/io/cx.py' adding 'pybel/io/emmaa.py' adding 'pybel/io/exc.py' adding 'pybel/io/extras.py' adding 'pybel/io/fraunhofer_orientdb.py' adding 'pybel/io/gpickle.py' adding 'pybel/io/graphdati.py' adding 'pybel/io/graphml.py' adding 'pybel/io/hipathia.py' adding 'pybel/io/indra.py' adding 'pybel/io/jgif.py' adding 'pybel/io/jinja_utils.py' adding 'pybel/io/line_utils.py' adding 'pybel/io/lines.py' adding 'pybel/io/neo4j.py' adding 'pybel/io/nodelink.py' adding 'pybel/io/pykeen.py' adding 'pybel/io/pynpa.py' adding 'pybel/io/sbel.py' adding 'pybel/io/spia.py' adding 'pybel/io/umbrella_nodelink.py' adding 'pybel/io/utils.py' adding 'pybel/io/hetionet/__init__.py' adding 'pybel/io/hetionet/__main__.py' adding 'pybel/io/hetionet/cli.py' adding 'pybel/io/hetionet/constants.py' adding 'pybel/io/hetionet/hetionet.py' adding 'pybel/io/jupyter/__init__.py' adding 'pybel/io/jupyter/constants.py' adding 'pybel/io/jupyter/inline.py' adding 'pybel/io/jupyter/visualization.py' adding 'pybel/io/jupyter/templates/graph_template.html' adding 'pybel/io/jupyter/templates/pybel_jupyter.js' adding 'pybel/io/jupyter/templates/pybel_vis.js' adding 'pybel/io/triples/__init__.py' adding 'pybel/io/triples/api.py' adding 'pybel/io/triples/converters.py' adding 'pybel/io/tsv/__init__.py' adding 'pybel/io/tsv/api.py' adding 'pybel/io/tsv/converters.py' adding 'pybel/manager/__init__.py' adding 'pybel/manager/base_manager.py' adding 'pybel/manager/cache_manager.py' adding 'pybel/manager/citation_utils.py' adding 'pybel/manager/database_io.py' adding 'pybel/manager/exc.py' adding 'pybel/manager/lookup_manager.py' adding 'pybel/manager/make_json_serializable.py' adding 'pybel/manager/models.py' adding 'pybel/manager/query_manager.py' adding 'pybel/manager/utils.py' adding 'pybel/parser/__init__.py' adding 'pybel/parser/baseparser.py' adding 'pybel/parser/constants.py' adding 'pybel/parser/parse_bel.py' adding 'pybel/parser/parse_concept.py' adding 'pybel/parser/parse_control.py' adding 'pybel/parser/parse_metadata.py' adding 'pybel/parser/utils.py' adding 'pybel/parser/modifiers/__init__.py' adding 'pybel/parser/modifiers/constants.py' adding 'pybel/parser/modifiers/fragment.py' adding 'pybel/parser/modifiers/fusion.py' adding 'pybel/parser/modifiers/gene_modification.py' adding 'pybel/parser/modifiers/gene_substitution.py' adding 'pybel/parser/modifiers/location.py' adding 'pybel/parser/modifiers/protein_modification.py' adding 'pybel/parser/modifiers/protein_substitution.py' adding 'pybel/parser/modifiers/truncation.py' adding 'pybel/parser/modifiers/variant.py' adding 'pybel/resources/__init__.py' adding 'pybel/resources/constants.py' adding 'pybel/resources/resources.py' adding 'pybel/resources/update_resources.py' adding 'pybel/schema/__init__.py' adding 'pybel/schema/base_node.schema.json' adding 'pybel/schema/edge.schema.json' adding 'pybel/schema/entity.schema.json' adding 'pybel/schema/modifier.schema.json' adding 'pybel/schema/node_types/base_abundance.schema.json' adding 'pybel/schema/node_types/fusion.schema.json' adding 'pybel/schema/node_types/fusion_range.schema.json' adding 'pybel/schema/node_types/list_abundance.schema.json' adding 'pybel/schema/node_types/reaction.schema.json' adding 'pybel/schema/node_types/variants/base_variant.schema.json' adding 'pybel/schema/node_types/variants/fragment.schema.json' adding 'pybel/schema/node_types/variants/gene_mod.schema.json' adding 'pybel/schema/node_types/variants/protein_mod.schema.json' adding 'pybel/schema/node_types/variants/hgvs/base_hgvs.schema.json' adding 'pybel/schema/node_types/variants/hgvs/gene_hgvs.schema.json' adding 'pybel/schema/node_types/variants/hgvs/protein_hgvs.schema.json' adding 'pybel/schema/node_types/variants/hgvs/rna_hgvs.schema.json' adding 'pybel/struct/__init__.py' adding 'pybel/struct/getters.py' adding 'pybel/struct/graph.py' adding 'pybel/struct/node_utils.py' adding 'pybel/struct/operations.py' adding 'pybel/struct/utils.py' adding 'pybel/struct/filters/__init__.py' adding 'pybel/struct/filters/edge_filters.py' adding 'pybel/struct/filters/edge_predicate_builders.py' adding 'pybel/struct/filters/edge_predicates.py' adding 'pybel/struct/filters/node_filters.py' adding 'pybel/struct/filters/node_predicate_builders.py' adding 'pybel/struct/filters/typing.py' adding 'pybel/struct/filters/utils.py' adding 'pybel/struct/filters/node_predicates/__init__.py' adding 'pybel/struct/filters/node_predicates/activities.py' adding 'pybel/struct/filters/node_predicates/misc.py' adding 'pybel/struct/filters/node_predicates/modifications.py' adding 'pybel/struct/filters/node_predicates/relations.py' adding 'pybel/struct/filters/node_predicates/types.py' adding 'pybel/struct/filters/node_predicates/utils.py' adding 'pybel/struct/grouping/__init__.py' adding 'pybel/struct/grouping/annotations.py' adding 'pybel/struct/grouping/provenance.py' adding 'pybel/struct/mutation/__init__.py' adding 'pybel/struct/mutation/induction_expansion.py' adding 'pybel/struct/mutation/metadata.py' adding 'pybel/struct/mutation/utils.py' adding 'pybel/struct/mutation/collapse/__init__.py' adding 'pybel/struct/mutation/collapse/collapse.py' adding 'pybel/struct/mutation/collapse/protein_rna_origins.py' adding 'pybel/struct/mutation/deletion/__init__.py' adding 'pybel/struct/mutation/deletion/deletion.py' adding 'pybel/struct/mutation/deletion/protein_rna_origins.py' adding 'pybel/struct/mutation/expansion/__init__.py' adding 'pybel/struct/mutation/expansion/neighborhood.py' adding 'pybel/struct/mutation/expansion/upstream.py' adding 'pybel/struct/mutation/induction/__init__.py' adding 'pybel/struct/mutation/induction/annotations.py' adding 'pybel/struct/mutation/induction/citation.py' adding 'pybel/struct/mutation/induction/neighborhood.py' adding 'pybel/struct/mutation/induction/paths.py' adding 'pybel/struct/mutation/induction/random_subgraph.py' adding 'pybel/struct/mutation/induction/upstream.py' adding 'pybel/struct/mutation/induction/utils.py' adding 'pybel/struct/mutation/inference/__init__.py' adding 'pybel/struct/mutation/inference/protein_rna_origins.py' adding 'pybel/struct/mutation/inference/transfer.py' adding 'pybel/struct/pipeline/__init__.py' adding 'pybel/struct/pipeline/decorators.py' adding 'pybel/struct/pipeline/exc.py' adding 'pybel/struct/pipeline/pipeline.py' adding 'pybel/struct/query/__init__.py' adding 'pybel/struct/query/constants.py' adding 'pybel/struct/query/exc.py' adding 'pybel/struct/query/query.py' adding 'pybel/struct/query/seeding.py' adding 'pybel/struct/query/selection.py' adding 'pybel/struct/summary/__init__.py' adding 'pybel/struct/summary/edge_summary.py' adding 'pybel/struct/summary/errors.py' adding 'pybel/struct/summary/node_summary.py' adding 'pybel/struct/summary/provenance.py' adding 'pybel/struct/summary/supersummary.py' adding 'pybel/testing/__init__.py' adding 'pybel/testing/cases.py' adding 'pybel/testing/constants.py' adding 'pybel/testing/generate.py' adding 'pybel/testing/mock_manager.py' adding 'pybel/testing/mocks.py' adding 'pybel/testing/utils.py' adding 'pybel/testing/resources/bel/Cytotoxic T-cell Signaling-2.0-Hs.json' adding 'pybel/testing/resources/bel/isolated.bel' adding 'pybel/testing/resources/bel/misordered.bel' adding 'pybel/testing/resources/bel/obo.bel' adding 'pybel/testing/resources/bel/slushy.bel' adding 'pybel/testing/resources/bel/test_bel.bel' adding 'pybel/testing/resources/bel/thorough.bel' adding 'pybel/testing/resources/belanno/cell-line.belanno' adding 'pybel/testing/resources/belanno/confidence-1.0.0.belanno' adding 'pybel/testing/resources/belanno/mesh-diseases.belanno' adding 'pybel/testing/resources/belanno/species-taxonomy-id.belanno' adding 'pybel/testing/resources/belanno/test_an_1.belanno' adding 'pybel/testing/resources/belns/chebi-names.belns' adding 'pybel/testing/resources/belns/disease-ontology.belns' adding 'pybel/testing/resources/belns/go-names.belns' adding 'pybel/testing/resources/belns/hgnc-names.belns' adding 'pybel/testing/resources/belns/mesh-names.belns' adding 'pybel/testing/resources/belns/test_ns_1.belns' adding 'pybel/testing/resources/belns/test_ns_1_updated.belns' adding 'pybel/testing/resources/belns/test_ns_2.belns' adding 'pybel/testing/resources/belns/test_ns_empty.belns' adding 'pybel-0.15.5.dist-info/LICENSE' adding 'pybel-0.15.5.dist-info/METADATA' adding 'pybel-0.15.5.dist-info/WHEEL' adding 'pybel-0.15.5.dist-info/entry_points.txt' adding 'pybel-0.15.5.dist-info/top_level.txt' adding 'pybel-0.15.5.dist-info/RECORD' removing build/bdist.linux-aarch64/wheel Successfully built pybel-0.15.5-py3-none-any.whl I: pybuild plugin_pyproject:144: Unpacking wheel built for python3.13 with "installer" module I: pybuild plugin_pyproject:129: Building wheel for python3.12 with "build" module I: pybuild base:311: python3.12 -m build --skip-dependency-check --no-isolation --wheel --outdir /build/reproducible-path/pybel-0.15.5/.pybuild/cpython3_3.12_pybel * Building wheel... running bdist_wheel running build running build_py running egg_info writing src/pybel.egg-info/PKG-INFO writing dependency_links to src/pybel.egg-info/dependency_links.txt writing entry points to src/pybel.egg-info/entry_points.txt writing requirements to src/pybel.egg-info/requires.txt writing top-level names to src/pybel.egg-info/top_level.txt reading manifest file 'src/pybel.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' no previously-included directories found matching 'scripts' no previously-included directories found matching 'notebooks' warning: no files found matching '*.bel' under directory 'src/pybel/testing/bel' warning: no files found matching '*.belanno' under directory 'src/pybel/testing/belanno' warning: no files found matching '*.belns' under directory 'src/pybel/testing/belns' warning: no previously-included files matching '*.py[cod]' found anywhere in distribution warning: no previously-included files matching '__pycache__' found anywhere in distribution warning: no previously-included files matching '*.so' found anywhere in distribution warning: no previously-included files matching '*.dylib' found anywhere in distribution warning: no previously-included files matching '.DS_Store' found anywhere in distribution warning: no previously-included files matching '*.gpickle' found anywhere in distribution warning: no previously-included files found matching '.bumpversion.cfg' warning: no previously-included files found matching '.readthedocs.yml' warning: no previously-included files found matching '.flake8' warning: no previously-included files found matching 'tox.ini' warning: no previously-included files found matching 'CONTRIBUTING.md' warning: no previously-included files found matching 'CHANGELOG.rst' warning: no previously-included files found matching 'AUTHORS.rst' adding license file 'LICENSE' writing manifest file 'src/pybel.egg-info/SOURCES.txt' /usr/lib/python3/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'pybel.apps' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'pybel.apps' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'pybel.apps' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'pybel.apps' to be distributed and are already explicitly excluding 'pybel.apps' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'pybel.io.jupyter.templates' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'pybel.io.jupyter.templates' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'pybel.io.jupyter.templates' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'pybel.io.jupyter.templates' to be distributed and are already explicitly excluding 'pybel.io.jupyter.templates' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'pybel.schema.node_types' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'pybel.schema.node_types' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'pybel.schema.node_types' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'pybel.schema.node_types' to be distributed and are already explicitly excluding 'pybel.schema.node_types' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'pybel.schema.node_types.variants' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'pybel.schema.node_types.variants' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'pybel.schema.node_types.variants' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'pybel.schema.node_types.variants' to be distributed and are already explicitly excluding 'pybel.schema.node_types.variants' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'pybel.schema.node_types.variants.hgvs' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'pybel.schema.node_types.variants.hgvs' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'pybel.schema.node_types.variants.hgvs' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'pybel.schema.node_types.variants.hgvs' to be distributed and are already explicitly excluding 'pybel.schema.node_types.variants.hgvs' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'pybel.testing.resources.bel' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'pybel.testing.resources.bel' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'pybel.testing.resources.bel' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'pybel.testing.resources.bel' to be distributed and are already explicitly excluding 'pybel.testing.resources.bel' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'pybel.testing.resources.belanno' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'pybel.testing.resources.belanno' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'pybel.testing.resources.belanno' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'pybel.testing.resources.belanno' to be distributed and are already explicitly excluding 'pybel.testing.resources.belanno' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'pybel.testing.resources.belns' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'pybel.testing.resources.belns' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'pybel.testing.resources.belns' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'pybel.testing.resources.belns' to be distributed and are already explicitly excluding 'pybel.testing.resources.belns' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) installing to build/bdist.linux-aarch64/wheel running install running install_lib creating build/bdist.linux-aarch64/wheel creating build/bdist.linux-aarch64/wheel/pybel creating build/bdist.linux-aarch64/wheel/pybel/apps copying build/lib/pybel/apps/parser.py -> build/bdist.linux-aarch64/wheel/./pybel/apps creating build/bdist.linux-aarch64/wheel/pybel/dsl copying build/lib/pybel/dsl/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/dsl copying build/lib/pybel/dsl/constants.py -> build/bdist.linux-aarch64/wheel/./pybel/dsl copying build/lib/pybel/dsl/edges.py -> build/bdist.linux-aarch64/wheel/./pybel/dsl copying build/lib/pybel/dsl/exc.py -> build/bdist.linux-aarch64/wheel/./pybel/dsl copying build/lib/pybel/dsl/namespaces.py -> build/bdist.linux-aarch64/wheel/./pybel/dsl copying build/lib/pybel/dsl/node_classes.py -> build/bdist.linux-aarch64/wheel/./pybel/dsl creating build/bdist.linux-aarch64/wheel/pybel/examples copying build/lib/pybel/examples/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/examples copying build/lib/pybel/examples/ampk_example.py -> build/bdist.linux-aarch64/wheel/./pybel/examples copying build/lib/pybel/examples/braf_example.py -> build/bdist.linux-aarch64/wheel/./pybel/examples copying build/lib/pybel/examples/egf_example.py -> build/bdist.linux-aarch64/wheel/./pybel/examples copying build/lib/pybel/examples/homology_example.py -> build/bdist.linux-aarch64/wheel/./pybel/examples copying build/lib/pybel/examples/sialic_acid_example.py -> build/bdist.linux-aarch64/wheel/./pybel/examples copying build/lib/pybel/examples/statin_example.py -> build/bdist.linux-aarch64/wheel/./pybel/examples copying build/lib/pybel/examples/tloc_example.py -> build/bdist.linux-aarch64/wheel/./pybel/examples copying build/lib/pybel/examples/various_example.py -> build/bdist.linux-aarch64/wheel/./pybel/examples copying build/lib/pybel/examples/vegf_example.py -> build/bdist.linux-aarch64/wheel/./pybel/examples creating build/bdist.linux-aarch64/wheel/pybel/io creating build/bdist.linux-aarch64/wheel/pybel/io/hetionet copying build/lib/pybel/io/hetionet/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/io/hetionet copying build/lib/pybel/io/hetionet/__main__.py -> build/bdist.linux-aarch64/wheel/./pybel/io/hetionet copying build/lib/pybel/io/hetionet/cli.py -> build/bdist.linux-aarch64/wheel/./pybel/io/hetionet copying build/lib/pybel/io/hetionet/constants.py -> build/bdist.linux-aarch64/wheel/./pybel/io/hetionet copying build/lib/pybel/io/hetionet/hetionet.py -> build/bdist.linux-aarch64/wheel/./pybel/io/hetionet creating build/bdist.linux-aarch64/wheel/pybel/io/jupyter creating build/bdist.linux-aarch64/wheel/pybel/io/jupyter/templates copying build/lib/pybel/io/jupyter/templates/pybel_vis.js -> build/bdist.linux-aarch64/wheel/./pybel/io/jupyter/templates copying build/lib/pybel/io/jupyter/templates/pybel_jupyter.js -> build/bdist.linux-aarch64/wheel/./pybel/io/jupyter/templates copying build/lib/pybel/io/jupyter/templates/graph_template.html -> build/bdist.linux-aarch64/wheel/./pybel/io/jupyter/templates copying build/lib/pybel/io/jupyter/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/io/jupyter copying build/lib/pybel/io/jupyter/constants.py -> build/bdist.linux-aarch64/wheel/./pybel/io/jupyter copying build/lib/pybel/io/jupyter/inline.py -> build/bdist.linux-aarch64/wheel/./pybel/io/jupyter copying build/lib/pybel/io/jupyter/visualization.py -> build/bdist.linux-aarch64/wheel/./pybel/io/jupyter creating build/bdist.linux-aarch64/wheel/pybel/io/triples copying build/lib/pybel/io/triples/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/io/triples copying build/lib/pybel/io/triples/api.py -> build/bdist.linux-aarch64/wheel/./pybel/io/triples copying build/lib/pybel/io/triples/converters.py -> build/bdist.linux-aarch64/wheel/./pybel/io/triples creating build/bdist.linux-aarch64/wheel/pybel/io/tsv copying build/lib/pybel/io/tsv/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/io/tsv copying build/lib/pybel/io/tsv/api.py -> build/bdist.linux-aarch64/wheel/./pybel/io/tsv copying build/lib/pybel/io/tsv/converters.py -> build/bdist.linux-aarch64/wheel/./pybel/io/tsv copying build/lib/pybel/io/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/api.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/aws.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/bel_commons_client.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/biodati_client.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/cx.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/exc.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/extras.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/fraunhofer_orientdb.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/gpickle.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/graphdati.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/graphml.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/hipathia.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/indra.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/jgif.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/jinja_utils.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/line_utils.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/lines.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/neo4j.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/nodelink.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/pykeen.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/pynpa.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/sbel.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/spia.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/umbrella_nodelink.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/utils.py -> build/bdist.linux-aarch64/wheel/./pybel/io copying build/lib/pybel/io/emmaa.py -> build/bdist.linux-aarch64/wheel/./pybel/io creating build/bdist.linux-aarch64/wheel/pybel/manager copying build/lib/pybel/manager/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/manager copying build/lib/pybel/manager/base_manager.py -> build/bdist.linux-aarch64/wheel/./pybel/manager copying build/lib/pybel/manager/cache_manager.py -> build/bdist.linux-aarch64/wheel/./pybel/manager copying build/lib/pybel/manager/citation_utils.py -> build/bdist.linux-aarch64/wheel/./pybel/manager copying build/lib/pybel/manager/database_io.py -> build/bdist.linux-aarch64/wheel/./pybel/manager copying build/lib/pybel/manager/exc.py -> build/bdist.linux-aarch64/wheel/./pybel/manager copying build/lib/pybel/manager/lookup_manager.py -> build/bdist.linux-aarch64/wheel/./pybel/manager copying build/lib/pybel/manager/make_json_serializable.py -> build/bdist.linux-aarch64/wheel/./pybel/manager copying build/lib/pybel/manager/models.py -> build/bdist.linux-aarch64/wheel/./pybel/manager copying build/lib/pybel/manager/query_manager.py -> build/bdist.linux-aarch64/wheel/./pybel/manager copying build/lib/pybel/manager/utils.py -> build/bdist.linux-aarch64/wheel/./pybel/manager creating build/bdist.linux-aarch64/wheel/pybel/parser creating build/bdist.linux-aarch64/wheel/pybel/parser/modifiers copying build/lib/pybel/parser/modifiers/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/parser/modifiers copying build/lib/pybel/parser/modifiers/constants.py -> build/bdist.linux-aarch64/wheel/./pybel/parser/modifiers copying build/lib/pybel/parser/modifiers/fragment.py -> build/bdist.linux-aarch64/wheel/./pybel/parser/modifiers copying build/lib/pybel/parser/modifiers/fusion.py -> build/bdist.linux-aarch64/wheel/./pybel/parser/modifiers copying build/lib/pybel/parser/modifiers/gene_modification.py -> build/bdist.linux-aarch64/wheel/./pybel/parser/modifiers copying build/lib/pybel/parser/modifiers/gene_substitution.py -> build/bdist.linux-aarch64/wheel/./pybel/parser/modifiers copying build/lib/pybel/parser/modifiers/location.py -> build/bdist.linux-aarch64/wheel/./pybel/parser/modifiers copying build/lib/pybel/parser/modifiers/protein_modification.py -> build/bdist.linux-aarch64/wheel/./pybel/parser/modifiers copying build/lib/pybel/parser/modifiers/protein_substitution.py -> build/bdist.linux-aarch64/wheel/./pybel/parser/modifiers copying build/lib/pybel/parser/modifiers/truncation.py -> build/bdist.linux-aarch64/wheel/./pybel/parser/modifiers copying build/lib/pybel/parser/modifiers/variant.py -> build/bdist.linux-aarch64/wheel/./pybel/parser/modifiers copying build/lib/pybel/parser/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/parser copying build/lib/pybel/parser/baseparser.py -> build/bdist.linux-aarch64/wheel/./pybel/parser copying build/lib/pybel/parser/constants.py -> build/bdist.linux-aarch64/wheel/./pybel/parser copying build/lib/pybel/parser/parse_bel.py -> build/bdist.linux-aarch64/wheel/./pybel/parser copying build/lib/pybel/parser/parse_concept.py -> build/bdist.linux-aarch64/wheel/./pybel/parser copying build/lib/pybel/parser/parse_control.py -> build/bdist.linux-aarch64/wheel/./pybel/parser copying build/lib/pybel/parser/parse_metadata.py -> build/bdist.linux-aarch64/wheel/./pybel/parser copying build/lib/pybel/parser/utils.py -> build/bdist.linux-aarch64/wheel/./pybel/parser creating build/bdist.linux-aarch64/wheel/pybel/resources copying build/lib/pybel/resources/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/resources copying build/lib/pybel/resources/constants.py -> build/bdist.linux-aarch64/wheel/./pybel/resources copying build/lib/pybel/resources/resources.py -> build/bdist.linux-aarch64/wheel/./pybel/resources copying build/lib/pybel/resources/update_resources.py -> build/bdist.linux-aarch64/wheel/./pybel/resources creating build/bdist.linux-aarch64/wheel/pybel/schema creating build/bdist.linux-aarch64/wheel/pybel/schema/node_types creating build/bdist.linux-aarch64/wheel/pybel/schema/node_types/variants creating build/bdist.linux-aarch64/wheel/pybel/schema/node_types/variants/hgvs copying build/lib/pybel/schema/node_types/variants/hgvs/rna_hgvs.schema.json -> build/bdist.linux-aarch64/wheel/./pybel/schema/node_types/variants/hgvs copying build/lib/pybel/schema/node_types/variants/hgvs/protein_hgvs.schema.json -> build/bdist.linux-aarch64/wheel/./pybel/schema/node_types/variants/hgvs copying build/lib/pybel/schema/node_types/variants/hgvs/gene_hgvs.schema.json -> build/bdist.linux-aarch64/wheel/./pybel/schema/node_types/variants/hgvs copying build/lib/pybel/schema/node_types/variants/hgvs/base_hgvs.schema.json -> build/bdist.linux-aarch64/wheel/./pybel/schema/node_types/variants/hgvs copying build/lib/pybel/schema/node_types/variants/protein_mod.schema.json -> build/bdist.linux-aarch64/wheel/./pybel/schema/node_types/variants copying build/lib/pybel/schema/node_types/variants/gene_mod.schema.json -> build/bdist.linux-aarch64/wheel/./pybel/schema/node_types/variants copying build/lib/pybel/schema/node_types/variants/fragment.schema.json -> build/bdist.linux-aarch64/wheel/./pybel/schema/node_types/variants copying build/lib/pybel/schema/node_types/variants/base_variant.schema.json -> build/bdist.linux-aarch64/wheel/./pybel/schema/node_types/variants copying build/lib/pybel/schema/node_types/reaction.schema.json -> build/bdist.linux-aarch64/wheel/./pybel/schema/node_types copying build/lib/pybel/schema/node_types/list_abundance.schema.json -> build/bdist.linux-aarch64/wheel/./pybel/schema/node_types copying build/lib/pybel/schema/node_types/fusion_range.schema.json -> build/bdist.linux-aarch64/wheel/./pybel/schema/node_types copying build/lib/pybel/schema/node_types/fusion.schema.json -> build/bdist.linux-aarch64/wheel/./pybel/schema/node_types copying build/lib/pybel/schema/node_types/base_abundance.schema.json -> build/bdist.linux-aarch64/wheel/./pybel/schema/node_types copying build/lib/pybel/schema/modifier.schema.json -> build/bdist.linux-aarch64/wheel/./pybel/schema copying build/lib/pybel/schema/entity.schema.json -> build/bdist.linux-aarch64/wheel/./pybel/schema copying build/lib/pybel/schema/edge.schema.json -> build/bdist.linux-aarch64/wheel/./pybel/schema copying build/lib/pybel/schema/base_node.schema.json -> build/bdist.linux-aarch64/wheel/./pybel/schema copying build/lib/pybel/schema/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/schema creating build/bdist.linux-aarch64/wheel/pybel/struct creating build/bdist.linux-aarch64/wheel/pybel/struct/filters creating build/bdist.linux-aarch64/wheel/pybel/struct/filters/node_predicates copying build/lib/pybel/struct/filters/node_predicates/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/filters/node_predicates copying build/lib/pybel/struct/filters/node_predicates/activities.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/filters/node_predicates copying build/lib/pybel/struct/filters/node_predicates/misc.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/filters/node_predicates copying build/lib/pybel/struct/filters/node_predicates/modifications.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/filters/node_predicates copying build/lib/pybel/struct/filters/node_predicates/relations.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/filters/node_predicates copying build/lib/pybel/struct/filters/node_predicates/types.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/filters/node_predicates copying build/lib/pybel/struct/filters/node_predicates/utils.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/filters/node_predicates copying build/lib/pybel/struct/filters/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/filters copying build/lib/pybel/struct/filters/edge_filters.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/filters copying build/lib/pybel/struct/filters/edge_predicate_builders.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/filters copying build/lib/pybel/struct/filters/edge_predicates.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/filters copying build/lib/pybel/struct/filters/node_filters.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/filters copying build/lib/pybel/struct/filters/node_predicate_builders.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/filters copying build/lib/pybel/struct/filters/typing.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/filters copying build/lib/pybel/struct/filters/utils.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/filters creating build/bdist.linux-aarch64/wheel/pybel/struct/grouping copying build/lib/pybel/struct/grouping/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/grouping copying build/lib/pybel/struct/grouping/annotations.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/grouping copying build/lib/pybel/struct/grouping/provenance.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/grouping creating build/bdist.linux-aarch64/wheel/pybel/struct/mutation creating build/bdist.linux-aarch64/wheel/pybel/struct/mutation/collapse copying build/lib/pybel/struct/mutation/collapse/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/collapse copying build/lib/pybel/struct/mutation/collapse/collapse.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/collapse copying build/lib/pybel/struct/mutation/collapse/protein_rna_origins.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/collapse creating build/bdist.linux-aarch64/wheel/pybel/struct/mutation/deletion copying build/lib/pybel/struct/mutation/deletion/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/deletion copying build/lib/pybel/struct/mutation/deletion/deletion.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/deletion copying build/lib/pybel/struct/mutation/deletion/protein_rna_origins.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/deletion creating build/bdist.linux-aarch64/wheel/pybel/struct/mutation/expansion copying build/lib/pybel/struct/mutation/expansion/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/expansion copying build/lib/pybel/struct/mutation/expansion/neighborhood.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/expansion copying build/lib/pybel/struct/mutation/expansion/upstream.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/expansion creating build/bdist.linux-aarch64/wheel/pybel/struct/mutation/induction copying build/lib/pybel/struct/mutation/induction/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/induction copying build/lib/pybel/struct/mutation/induction/annotations.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/induction copying build/lib/pybel/struct/mutation/induction/citation.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/induction copying build/lib/pybel/struct/mutation/induction/neighborhood.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/induction copying build/lib/pybel/struct/mutation/induction/paths.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/induction copying build/lib/pybel/struct/mutation/induction/random_subgraph.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/induction copying build/lib/pybel/struct/mutation/induction/upstream.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/induction copying build/lib/pybel/struct/mutation/induction/utils.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/induction creating build/bdist.linux-aarch64/wheel/pybel/struct/mutation/inference copying build/lib/pybel/struct/mutation/inference/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/inference copying build/lib/pybel/struct/mutation/inference/protein_rna_origins.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/inference copying build/lib/pybel/struct/mutation/inference/transfer.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation/inference copying build/lib/pybel/struct/mutation/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation copying build/lib/pybel/struct/mutation/induction_expansion.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation copying build/lib/pybel/struct/mutation/metadata.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation copying build/lib/pybel/struct/mutation/utils.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/mutation creating build/bdist.linux-aarch64/wheel/pybel/struct/pipeline copying build/lib/pybel/struct/pipeline/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/pipeline copying build/lib/pybel/struct/pipeline/decorators.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/pipeline copying build/lib/pybel/struct/pipeline/exc.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/pipeline copying build/lib/pybel/struct/pipeline/pipeline.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/pipeline creating build/bdist.linux-aarch64/wheel/pybel/struct/query copying build/lib/pybel/struct/query/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/query copying build/lib/pybel/struct/query/constants.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/query copying build/lib/pybel/struct/query/exc.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/query copying build/lib/pybel/struct/query/query.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/query copying build/lib/pybel/struct/query/seeding.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/query copying build/lib/pybel/struct/query/selection.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/query creating build/bdist.linux-aarch64/wheel/pybel/struct/summary copying build/lib/pybel/struct/summary/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/summary copying build/lib/pybel/struct/summary/edge_summary.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/summary copying build/lib/pybel/struct/summary/errors.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/summary copying build/lib/pybel/struct/summary/node_summary.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/summary copying build/lib/pybel/struct/summary/provenance.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/summary copying build/lib/pybel/struct/summary/supersummary.py -> build/bdist.linux-aarch64/wheel/./pybel/struct/summary copying build/lib/pybel/struct/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/struct copying build/lib/pybel/struct/getters.py -> build/bdist.linux-aarch64/wheel/./pybel/struct copying build/lib/pybel/struct/graph.py -> build/bdist.linux-aarch64/wheel/./pybel/struct copying build/lib/pybel/struct/node_utils.py -> build/bdist.linux-aarch64/wheel/./pybel/struct copying build/lib/pybel/struct/operations.py -> build/bdist.linux-aarch64/wheel/./pybel/struct copying build/lib/pybel/struct/utils.py -> build/bdist.linux-aarch64/wheel/./pybel/struct creating build/bdist.linux-aarch64/wheel/pybel/testing creating build/bdist.linux-aarch64/wheel/pybel/testing/resources creating build/bdist.linux-aarch64/wheel/pybel/testing/resources/belns copying build/lib/pybel/testing/resources/belns/test_ns_empty.belns -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/belns copying build/lib/pybel/testing/resources/belns/test_ns_2.belns -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/belns copying build/lib/pybel/testing/resources/belns/test_ns_1_updated.belns -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/belns copying build/lib/pybel/testing/resources/belns/test_ns_1.belns -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/belns copying build/lib/pybel/testing/resources/belns/mesh-names.belns -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/belns copying build/lib/pybel/testing/resources/belns/hgnc-names.belns -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/belns copying build/lib/pybel/testing/resources/belns/go-names.belns -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/belns copying build/lib/pybel/testing/resources/belns/disease-ontology.belns -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/belns copying build/lib/pybel/testing/resources/belns/chebi-names.belns -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/belns creating build/bdist.linux-aarch64/wheel/pybel/testing/resources/belanno copying build/lib/pybel/testing/resources/belanno/test_an_1.belanno -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/belanno copying build/lib/pybel/testing/resources/belanno/species-taxonomy-id.belanno -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/belanno copying build/lib/pybel/testing/resources/belanno/mesh-diseases.belanno -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/belanno copying build/lib/pybel/testing/resources/belanno/confidence-1.0.0.belanno -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/belanno copying build/lib/pybel/testing/resources/belanno/cell-line.belanno -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/belanno creating build/bdist.linux-aarch64/wheel/pybel/testing/resources/bel copying build/lib/pybel/testing/resources/bel/thorough.bel -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/bel copying build/lib/pybel/testing/resources/bel/test_bel.bel -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/bel copying build/lib/pybel/testing/resources/bel/slushy.bel -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/bel copying build/lib/pybel/testing/resources/bel/obo.bel -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/bel copying build/lib/pybel/testing/resources/bel/misordered.bel -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/bel copying build/lib/pybel/testing/resources/bel/isolated.bel -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/bel copying build/lib/pybel/testing/resources/bel/Cytotoxic T-cell Signaling-2.0-Hs.json -> build/bdist.linux-aarch64/wheel/./pybel/testing/resources/bel copying build/lib/pybel/testing/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel/testing copying build/lib/pybel/testing/cases.py -> build/bdist.linux-aarch64/wheel/./pybel/testing copying build/lib/pybel/testing/constants.py -> build/bdist.linux-aarch64/wheel/./pybel/testing copying build/lib/pybel/testing/generate.py -> build/bdist.linux-aarch64/wheel/./pybel/testing copying build/lib/pybel/testing/mock_manager.py -> build/bdist.linux-aarch64/wheel/./pybel/testing copying build/lib/pybel/testing/mocks.py -> build/bdist.linux-aarch64/wheel/./pybel/testing copying build/lib/pybel/testing/utils.py -> build/bdist.linux-aarch64/wheel/./pybel/testing copying build/lib/pybel/__init__.py -> build/bdist.linux-aarch64/wheel/./pybel copying build/lib/pybel/__main__.py -> build/bdist.linux-aarch64/wheel/./pybel copying build/lib/pybel/canonicalize.py -> build/bdist.linux-aarch64/wheel/./pybel copying build/lib/pybel/cli.py -> build/bdist.linux-aarch64/wheel/./pybel copying build/lib/pybel/config.py -> build/bdist.linux-aarch64/wheel/./pybel copying build/lib/pybel/constants.py -> build/bdist.linux-aarch64/wheel/./pybel copying build/lib/pybel/exceptions.py -> build/bdist.linux-aarch64/wheel/./pybel copying build/lib/pybel/grounding.py -> build/bdist.linux-aarch64/wheel/./pybel copying build/lib/pybel/language.py -> build/bdist.linux-aarch64/wheel/./pybel copying build/lib/pybel/repository.py -> build/bdist.linux-aarch64/wheel/./pybel copying build/lib/pybel/tokens.py -> build/bdist.linux-aarch64/wheel/./pybel copying build/lib/pybel/typing.py -> build/bdist.linux-aarch64/wheel/./pybel copying build/lib/pybel/utils.py -> build/bdist.linux-aarch64/wheel/./pybel copying build/lib/pybel/version.py -> build/bdist.linux-aarch64/wheel/./pybel running install_egg_info Copying src/pybel.egg-info to build/bdist.linux-aarch64/wheel/./pybel-0.15.5.egg-info running install_scripts creating build/bdist.linux-aarch64/wheel/pybel-0.15.5.dist-info/WHEEL creating '/build/reproducible-path/pybel-0.15.5/.pybuild/cpython3_3.12_pybel/.tmp-5kaa14fq/pybel-0.15.5-py3-none-any.whl' and adding 'build/bdist.linux-aarch64/wheel' to it adding 'pybel/__init__.py' adding 'pybel/__main__.py' adding 'pybel/canonicalize.py' adding 'pybel/cli.py' adding 'pybel/config.py' adding 'pybel/constants.py' adding 'pybel/exceptions.py' adding 'pybel/grounding.py' adding 'pybel/language.py' adding 'pybel/repository.py' adding 'pybel/tokens.py' adding 'pybel/typing.py' adding 'pybel/utils.py' adding 'pybel/version.py' adding 'pybel/apps/parser.py' adding 'pybel/dsl/__init__.py' adding 'pybel/dsl/constants.py' adding 'pybel/dsl/edges.py' adding 'pybel/dsl/exc.py' adding 'pybel/dsl/namespaces.py' adding 'pybel/dsl/node_classes.py' adding 'pybel/examples/__init__.py' adding 'pybel/examples/ampk_example.py' adding 'pybel/examples/braf_example.py' adding 'pybel/examples/egf_example.py' adding 'pybel/examples/homology_example.py' adding 'pybel/examples/sialic_acid_example.py' adding 'pybel/examples/statin_example.py' adding 'pybel/examples/tloc_example.py' adding 'pybel/examples/various_example.py' adding 'pybel/examples/vegf_example.py' adding 'pybel/io/__init__.py' adding 'pybel/io/api.py' adding 'pybel/io/aws.py' adding 'pybel/io/bel_commons_client.py' adding 'pybel/io/biodati_client.py' adding 'pybel/io/cx.py' adding 'pybel/io/emmaa.py' adding 'pybel/io/exc.py' adding 'pybel/io/extras.py' adding 'pybel/io/fraunhofer_orientdb.py' adding 'pybel/io/gpickle.py' adding 'pybel/io/graphdati.py' adding 'pybel/io/graphml.py' adding 'pybel/io/hipathia.py' adding 'pybel/io/indra.py' adding 'pybel/io/jgif.py' adding 'pybel/io/jinja_utils.py' adding 'pybel/io/line_utils.py' adding 'pybel/io/lines.py' adding 'pybel/io/neo4j.py' adding 'pybel/io/nodelink.py' adding 'pybel/io/pykeen.py' adding 'pybel/io/pynpa.py' adding 'pybel/io/sbel.py' adding 'pybel/io/spia.py' adding 'pybel/io/umbrella_nodelink.py' adding 'pybel/io/utils.py' adding 'pybel/io/hetionet/__init__.py' adding 'pybel/io/hetionet/__main__.py' adding 'pybel/io/hetionet/cli.py' adding 'pybel/io/hetionet/constants.py' adding 'pybel/io/hetionet/hetionet.py' adding 'pybel/io/jupyter/__init__.py' adding 'pybel/io/jupyter/constants.py' adding 'pybel/io/jupyter/inline.py' adding 'pybel/io/jupyter/visualization.py' adding 'pybel/io/jupyter/templates/graph_template.html' adding 'pybel/io/jupyter/templates/pybel_jupyter.js' adding 'pybel/io/jupyter/templates/pybel_vis.js' adding 'pybel/io/triples/__init__.py' adding 'pybel/io/triples/api.py' adding 'pybel/io/triples/converters.py' adding 'pybel/io/tsv/__init__.py' adding 'pybel/io/tsv/api.py' adding 'pybel/io/tsv/converters.py' adding 'pybel/manager/__init__.py' adding 'pybel/manager/base_manager.py' adding 'pybel/manager/cache_manager.py' adding 'pybel/manager/citation_utils.py' adding 'pybel/manager/database_io.py' adding 'pybel/manager/exc.py' adding 'pybel/manager/lookup_manager.py' adding 'pybel/manager/make_json_serializable.py' adding 'pybel/manager/models.py' adding 'pybel/manager/query_manager.py' adding 'pybel/manager/utils.py' adding 'pybel/parser/__init__.py' adding 'pybel/parser/baseparser.py' adding 'pybel/parser/constants.py' adding 'pybel/parser/parse_bel.py' adding 'pybel/parser/parse_concept.py' adding 'pybel/parser/parse_control.py' adding 'pybel/parser/parse_metadata.py' adding 'pybel/parser/utils.py' adding 'pybel/parser/modifiers/__init__.py' adding 'pybel/parser/modifiers/constants.py' adding 'pybel/parser/modifiers/fragment.py' adding 'pybel/parser/modifiers/fusion.py' adding 'pybel/parser/modifiers/gene_modification.py' adding 'pybel/parser/modifiers/gene_substitution.py' adding 'pybel/parser/modifiers/location.py' adding 'pybel/parser/modifiers/protein_modification.py' adding 'pybel/parser/modifiers/protein_substitution.py' adding 'pybel/parser/modifiers/truncation.py' adding 'pybel/parser/modifiers/variant.py' adding 'pybel/resources/__init__.py' adding 'pybel/resources/constants.py' adding 'pybel/resources/resources.py' adding 'pybel/resources/update_resources.py' adding 'pybel/schema/__init__.py' adding 'pybel/schema/base_node.schema.json' adding 'pybel/schema/edge.schema.json' adding 'pybel/schema/entity.schema.json' adding 'pybel/schema/modifier.schema.json' adding 'pybel/schema/node_types/base_abundance.schema.json' adding 'pybel/schema/node_types/fusion.schema.json' adding 'pybel/schema/node_types/fusion_range.schema.json' adding 'pybel/schema/node_types/list_abundance.schema.json' adding 'pybel/schema/node_types/reaction.schema.json' adding 'pybel/schema/node_types/variants/base_variant.schema.json' adding 'pybel/schema/node_types/variants/fragment.schema.json' adding 'pybel/schema/node_types/variants/gene_mod.schema.json' adding 'pybel/schema/node_types/variants/protein_mod.schema.json' adding 'pybel/schema/node_types/variants/hgvs/base_hgvs.schema.json' adding 'pybel/schema/node_types/variants/hgvs/gene_hgvs.schema.json' adding 'pybel/schema/node_types/variants/hgvs/protein_hgvs.schema.json' adding 'pybel/schema/node_types/variants/hgvs/rna_hgvs.schema.json' adding 'pybel/struct/__init__.py' adding 'pybel/struct/getters.py' adding 'pybel/struct/graph.py' adding 'pybel/struct/node_utils.py' adding 'pybel/struct/operations.py' adding 'pybel/struct/utils.py' adding 'pybel/struct/filters/__init__.py' adding 'pybel/struct/filters/edge_filters.py' adding 'pybel/struct/filters/edge_predicate_builders.py' adding 'pybel/struct/filters/edge_predicates.py' adding 'pybel/struct/filters/node_filters.py' adding 'pybel/struct/filters/node_predicate_builders.py' adding 'pybel/struct/filters/typing.py' adding 'pybel/struct/filters/utils.py' adding 'pybel/struct/filters/node_predicates/__init__.py' adding 'pybel/struct/filters/node_predicates/activities.py' adding 'pybel/struct/filters/node_predicates/misc.py' adding 'pybel/struct/filters/node_predicates/modifications.py' adding 'pybel/struct/filters/node_predicates/relations.py' adding 'pybel/struct/filters/node_predicates/types.py' adding 'pybel/struct/filters/node_predicates/utils.py' adding 'pybel/struct/grouping/__init__.py' adding 'pybel/struct/grouping/annotations.py' adding 'pybel/struct/grouping/provenance.py' adding 'pybel/struct/mutation/__init__.py' adding 'pybel/struct/mutation/induction_expansion.py' adding 'pybel/struct/mutation/metadata.py' adding 'pybel/struct/mutation/utils.py' adding 'pybel/struct/mutation/collapse/__init__.py' adding 'pybel/struct/mutation/collapse/collapse.py' adding 'pybel/struct/mutation/collapse/protein_rna_origins.py' adding 'pybel/struct/mutation/deletion/__init__.py' adding 'pybel/struct/mutation/deletion/deletion.py' adding 'pybel/struct/mutation/deletion/protein_rna_origins.py' adding 'pybel/struct/mutation/expansion/__init__.py' adding 'pybel/struct/mutation/expansion/neighborhood.py' adding 'pybel/struct/mutation/expansion/upstream.py' adding 'pybel/struct/mutation/induction/__init__.py' adding 'pybel/struct/mutation/induction/annotations.py' adding 'pybel/struct/mutation/induction/citation.py' adding 'pybel/struct/mutation/induction/neighborhood.py' adding 'pybel/struct/mutation/induction/paths.py' adding 'pybel/struct/mutation/induction/random_subgraph.py' adding 'pybel/struct/mutation/induction/upstream.py' adding 'pybel/struct/mutation/induction/utils.py' adding 'pybel/struct/mutation/inference/__init__.py' adding 'pybel/struct/mutation/inference/protein_rna_origins.py' adding 'pybel/struct/mutation/inference/transfer.py' adding 'pybel/struct/pipeline/__init__.py' adding 'pybel/struct/pipeline/decorators.py' adding 'pybel/struct/pipeline/exc.py' adding 'pybel/struct/pipeline/pipeline.py' adding 'pybel/struct/query/__init__.py' adding 'pybel/struct/query/constants.py' adding 'pybel/struct/query/exc.py' adding 'pybel/struct/query/query.py' adding 'pybel/struct/query/seeding.py' adding 'pybel/struct/query/selection.py' adding 'pybel/struct/summary/__init__.py' adding 'pybel/struct/summary/edge_summary.py' adding 'pybel/struct/summary/errors.py' adding 'pybel/struct/summary/node_summary.py' adding 'pybel/struct/summary/provenance.py' adding 'pybel/struct/summary/supersummary.py' adding 'pybel/testing/__init__.py' adding 'pybel/testing/cases.py' adding 'pybel/testing/constants.py' adding 'pybel/testing/generate.py' adding 'pybel/testing/mock_manager.py' adding 'pybel/testing/mocks.py' adding 'pybel/testing/utils.py' adding 'pybel/testing/resources/bel/Cytotoxic T-cell Signaling-2.0-Hs.json' adding 'pybel/testing/resources/bel/isolated.bel' adding 'pybel/testing/resources/bel/misordered.bel' adding 'pybel/testing/resources/bel/obo.bel' adding 'pybel/testing/resources/bel/slushy.bel' adding 'pybel/testing/resources/bel/test_bel.bel' adding 'pybel/testing/resources/bel/thorough.bel' adding 'pybel/testing/resources/belanno/cell-line.belanno' adding 'pybel/testing/resources/belanno/confidence-1.0.0.belanno' adding 'pybel/testing/resources/belanno/mesh-diseases.belanno' adding 'pybel/testing/resources/belanno/species-taxonomy-id.belanno' adding 'pybel/testing/resources/belanno/test_an_1.belanno' adding 'pybel/testing/resources/belns/chebi-names.belns' adding 'pybel/testing/resources/belns/disease-ontology.belns' adding 'pybel/testing/resources/belns/go-names.belns' adding 'pybel/testing/resources/belns/hgnc-names.belns' adding 'pybel/testing/resources/belns/mesh-names.belns' adding 'pybel/testing/resources/belns/test_ns_1.belns' adding 'pybel/testing/resources/belns/test_ns_1_updated.belns' adding 'pybel/testing/resources/belns/test_ns_2.belns' adding 'pybel/testing/resources/belns/test_ns_empty.belns' adding 'pybel-0.15.5.dist-info/LICENSE' adding 'pybel-0.15.5.dist-info/METADATA' adding 'pybel-0.15.5.dist-info/WHEEL' adding 'pybel-0.15.5.dist-info/entry_points.txt' adding 'pybel-0.15.5.dist-info/top_level.txt' adding 'pybel-0.15.5.dist-info/RECORD' removing build/bdist.linux-aarch64/wheel Successfully built pybel-0.15.5-py3-none-any.whl I: pybuild plugin_pyproject:144: Unpacking wheel built for python3.12 with "installer" module dh_auto_test -O--buildsystem=pybuild I: pybuild base:311: cd /build/reproducible-path/pybel-0.15.5/.pybuild/cpython3_3.13_pybel/build; python3.13 -m pytest --ignore=tests/test_grounding.py -k ' not test_seeding and not test_import and not test_manager_graph and not test_insert_namespace_persistent and not test_parse_metadata and not test_bel_simple and not test_bel_thorough and not test_update_matrix_activation and not test_update_matrix_activation_phosphorylation and not test_update_matrix_activation_ubiquination and not test_update_matrix_association and not test_update_matrix_expression and not test_update_matrix_inhibition and not test_update_matrix_inhibition_phosphorylation and not test_update_matrix_inhibition_ubiquination and not test_update_matrix_pmods and not test_update_matrix_repression and not test_reset_citation and not test_set_regex and not test_get_random_path ' ============================= test session starts ============================== platform linux -- Python 3.13.1, pytest-8.3.4, pluggy-1.5.0 rootdir: /build/reproducible-path/pybel-0.15.5/.pybuild/cpython3_3.13_pybel/build configfile: pyproject.toml plugins: typeguard-4.4.1 collected 727 items / 171 deselected / 556 selected tests/test_bel_repository.py . [ 0%] tests/test_canonicalization.py .......................... [ 4%] tests/test_dsl.py ........................ [ 9%] tests/test_io/test_hipathia/test_export.py .... [ 9%] tests/test_io/test_hipathia/test_hipathia.py . [ 10%] tests/test_io/test_jgif.py . [ 10%] tests/test_io/test_jupyter.py .. [ 10%] tests/test_io/test_pynpa.py ..... [ 11%] tests/test_io/test_spia.py ... [ 12%] tests/test_io/test_triples.py .. [ 12%] tests/test_io/test_umbrella_nodelink.py .. [ 12%] tests/test_manager/test_citation_utils.py ........ssssss. [ 15%] tests/test_manager/test_connection.py .......... [ 17%] tests/test_manager/test_manager_definitions.py .. [ 17%] tests/test_manager/test_manager_drop.py .......... [ 19%] tests/test_manager/test_manager_model.py ....... [ 20%] tests/test_parse/test_parse_bel.py ..................................... [ 27%] ............................................ [ 35%] tests/test_parse/test_parse_bel_relations.py ........................... [ 40%] ........ [ 41%] tests/test_parse/test_parse_bel_variants.py ............................ [ 46%] .......... [ 48%] tests/test_parse/test_parse_control.py ................................. [ 54%] [ 54%] tests/test_parse/test_parse_identifier.py .................... [ 57%] tests/test_parse/test_parse_utils.py .......... [ 59%] tests/test_parse/test_user_api.py .... [ 60%] tests/test_schema.py ........... [ 62%] tests/test_struct/test_filters/test_edge_predicate_builders.py .... [ 63%] tests/test_struct/test_filters/test_edge_predicates.py . [ 63%] tests/test_struct/test_filters/test_node_predicate_builders.py ....... [ 64%] tests/test_struct/test_filters/test_node_predicates.py ................. [ 67%] ............... [ 70%] tests/test_struct/test_filters/test_node_selection.py . [ 70%] tests/test_struct/test_filters/test_struct_filters.py .................. [ 73%] .... [ 74%] tests/test_struct/test_getters.py . [ 74%] tests/test_struct/test_grouping.py ... [ 75%] tests/test_struct/test_node_utils.py .... [ 75%] tests/test_struct/test_query/test_mocks.py ... [ 76%] tests/test_struct/test_query/test_query.py ................. [ 79%] tests/test_struct/test_query/test_struct_pipeline.py ............ [ 81%] tests/test_struct/test_struct_graph.py .......... [ 83%] tests/test_struct/test_struct_operations.py ....................... [ 87%] tests/test_struct/test_summary/test_errors.py .. [ 87%] tests/test_struct/test_summary/test_provenance.py . [ 88%] tests/test_struct/test_summary/test_struct_summary_edges.py ...... [ 89%] tests/test_struct/test_summary/test_summary_nodes.py .......... [ 91%] tests/test_struct/test_transformations/test_collapse.py ...... [ 92%] tests/test_struct/test_transformations/test_deletions.py ......... [ 93%] tests/test_struct/test_transformations/test_expansion.py .... [ 94%] tests/test_struct/test_transformations/test_induction.py .......... [ 96%] tests/test_struct/test_transformations/test_metadata.py ... [ 96%] tests/test_struct/test_transformations/test_random.py ...... [ 97%] tests/test_struct/test_transformations/test_transfer.py ... [ 98%] tests/test_tokens.py . [ 98%] tests/test_utils.py ........ [100%] =============================== warnings summary =============================== pybel/io/api.py:9 /build/reproducible-path/pybel-0.15.5/.pybuild/cpython3_3.13_pybel/build/pybel/io/api.py:9: DeprecationWarning: pkg_resources is deprecated as an API. See https://setuptools.pypa.io/en/latest/pkg_resources.html from pkg_resources import iter_entry_points pybel/manager/models.py:91 /build/reproducible-path/pybel-0.15.5/.pybuild/cpython3_3.13_pybel/build/pybel/manager/models.py:91: MovedIn20Warning: The ``declarative_base()`` function is now available as sqlalchemy.orm.declarative_base(). (deprecated since: 2.0) (Background on SQLAlchemy 2.0 at: https://sqlalche.me/e/b8d9) Base = declarative_base() pybel/schema/__init__.py:30 /build/reproducible-path/pybel-0.15.5/.pybuild/cpython3_3.13_pybel/build/pybel/schema/__init__.py:30: DeprecationWarning: jsonschema.RefResolver is deprecated as of v4.18.0, in favor of the https://github.com/python-jsonschema/referencing library, which provides more compliant referencing behavior as well as more flexible APIs for customization. A future release will remove RefResolver. Please file a feature request (on referencing) if you are missing an API for the kind of customization you need. RESOLVER = jsonschema.RefResolver(base_uri=schema_uri, referrer=__file__) tests/test_io/test_spia.py::TestSpia::test_spia_matrix_complexes tests/test_io/test_spia.py::TestSpia::test_spia_matrix_composites /build/reproducible-path/pybel-0.15.5/.pybuild/cpython3_3.13_pybel/build/pybel/io/spia.py:178: FutureWarning: ChainedAssignmentError: behaviour will change in pandas 3.0! You are setting values through chained assignment. Currently this works in certain cases, but when using Copy-on-Write (which will become the default behaviour in pandas 3.0) this will never work to update the original DataFrame or Series, because the intermediate object on which we are setting values will behave as a copy. A typical example is when you are setting values in a column of a DataFrame, like: df["col"][row_indexer] = value Use `df.loc[row_indexer, "col"] = values` instead, to perform the assignment in a single step and ensure this keeps updating the original `df`. See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy spia_matrices["activation"][u_name][v_name] = 1 tests/test_io/test_spia.py::TestSpia::test_spia_matrix_complexes tests/test_io/test_spia.py::TestSpia::test_spia_matrix_composites /build/reproducible-path/pybel-0.15.5/.pybuild/cpython3_3.13_pybel/build/pybel/io/spia.py:174: FutureWarning: ChainedAssignmentError: behaviour will change in pandas 3.0! You are setting values through chained assignment. Currently this works in certain cases, but when using Copy-on-Write (which will become the default behaviour in pandas 3.0) this will never work to update the original DataFrame or Series, because the intermediate object on which we are setting values will behave as a copy. A typical example is when you are setting values in a column of a DataFrame, like: df["col"][row_indexer] = value Use `df.loc[row_indexer, "col"] = values` instead, to perform the assignment in a single step and ensure this keeps updating the original `df`. See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy spia_matrices["activation_phosphorylation"][u_name][v_name] = 1 tests/test_io/test_spia.py::TestSpia::test_spia_matrix_complexes tests/test_io/test_spia.py::TestSpia::test_spia_matrix_composites /build/reproducible-path/pybel-0.15.5/.pybuild/cpython3_3.13_pybel/build/pybel/io/spia.py:193: FutureWarning: ChainedAssignmentError: behaviour will change in pandas 3.0! You are setting values through chained assignment. Currently this works in certain cases, but when using Copy-on-Write (which will become the default behaviour in pandas 3.0) this will never work to update the original DataFrame or Series, because the intermediate object on which we are setting values will behave as a copy. A typical example is when you are setting values in a column of a DataFrame, like: df["col"][row_indexer] = value Use `df.loc[row_indexer, "col"] = values` instead, to perform the assignment in a single step and ensure this keeps updating the original `df`. See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy spia_matrices["inhibition"][u_name][v_name] = 1 tests/test_manager/test_manager_definitions.py: 1 warning tests/test_manager/test_manager_drop.py: 23 warnings /usr/lib/python3/dist-packages/sqlalchemy/sql/schema.py:3594: DeprecationWarning: datetime.datetime.utcnow() is deprecated and scheduled for removal in a future version. Use timezone-aware objects to represent datetimes in UTC: datetime.datetime.now(datetime.UTC). return util.wrap_callable(lambda ctx: fn(), fn) # type: ignore tests/test_manager/test_manager_drop.py::TestReconstituteNodeTuples::test_simple /build/reproducible-path/pybel-0.15.5/.pybuild/cpython3_3.13_pybel/build/pybel/manager/cache_manager.py:421: LegacyAPIWarning: The Query.get() method is considered legacy as of the 1.x series of SQLAlchemy and becomes a legacy construct in 2.0. The method is now available as Session.get() (deprecated since: 2.0) (Background on SQLAlchemy 2.0 at: https://sqlalche.me/e/b8d9) network = self.session.query(Network).get(network_id) tests/test_manager/test_manager_model.py::TestNetwork::test_dump tests/test_manager/test_manager_model.py::TestNetwork::test_network tests/test_manager/test_manager_model.py::TestNetwork::test_to_json /build/reproducible-path/pybel-0.15.5/.pybuild/cpython3_3.13_pybel/build/tests/test_manager/test_manager_model.py:33: DeprecationWarning: datetime.datetime.utcnow() is deprecated and scheduled for removal in a future version. Use timezone-aware objects to represent datetimes in UTC: datetime.datetime.now(datetime.UTC). self.created = datetime.datetime.utcnow() tests/test_parse/test_parse_bel.py: 82 warnings tests/test_parse/test_parse_bel_relations.py: 2 warnings /build/reproducible-path/pybel-0.15.5/.pybuild/cpython3_3.13_pybel/build/pybel/struct/graph.py:913: DeprecationWarning: use node.as_bel() warnings.warn("use node.as_bel()", DeprecationWarning) tests/test_struct/test_struct_graph.py: 1778 warnings /usr/lib/python3/dist-packages/bioregistry/schema_utils.py:61: PydanticDeprecatedSince20: The `parse_obj` method is deprecated; use `model_validate` instead. Deprecated in Pydantic V2.0 to be removed in V3.0. See Pydantic V2 Migration Guide at https://errors.pydantic.dev/2.10/migration/ return {prefix: Resource.parse_obj(value) for prefix, value in data.items()} tests/test_struct/test_struct_graph.py: 7112 warnings /usr/lib/python3/dist-packages/bioregistry/schema/struct.py:648: PydanticDeprecatedSince20: The `dict` method is deprecated; use `model_dump` instead. Deprecated in Pydantic V2.0 to be removed in V3.0. See Pydantic V2 Migration Guide at https://errors.pydantic.dev/2.10/migration/ return self.dict().get(metaprefix) or dict() -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html ======== 550 passed, 6 skipped, 171 deselected, 9011 warnings in 6.63s ========= I: pybuild base:311: cd /build/reproducible-path/pybel-0.15.5/.pybuild/cpython3_3.12_pybel/build; python3.12 -m pytest --ignore=tests/test_grounding.py -k ' not test_seeding and not test_import and not test_manager_graph and not test_insert_namespace_persistent and not test_parse_metadata and not test_bel_simple and not test_bel_thorough and not test_update_matrix_activation and not test_update_matrix_activation_phosphorylation and not test_update_matrix_activation_ubiquination and not test_update_matrix_association and not test_update_matrix_expression and not test_update_matrix_inhibition and not test_update_matrix_inhibition_phosphorylation and not test_update_matrix_inhibition_ubiquination and not test_update_matrix_pmods and not test_update_matrix_repression and not test_reset_citation and not test_set_regex and not test_get_random_path ' ============================= test session starts ============================== platform linux -- Python 3.12.8, pytest-8.3.4, pluggy-1.5.0 rootdir: /build/reproducible-path/pybel-0.15.5/.pybuild/cpython3_3.12_pybel/build configfile: pyproject.toml plugins: typeguard-4.4.1 collected 727 items / 171 deselected / 556 selected tests/test_bel_repository.py . [ 0%] tests/test_canonicalization.py .......................... [ 4%] tests/test_dsl.py ........................ [ 9%] tests/test_io/test_hipathia/test_export.py .... [ 9%] tests/test_io/test_hipathia/test_hipathia.py . [ 10%] tests/test_io/test_jgif.py . [ 10%] tests/test_io/test_jupyter.py .. [ 10%] tests/test_io/test_pynpa.py ..... [ 11%] tests/test_io/test_spia.py ... [ 12%] tests/test_io/test_triples.py .. [ 12%] tests/test_io/test_umbrella_nodelink.py .. [ 12%] tests/test_manager/test_citation_utils.py ........ssssss. [ 15%] tests/test_manager/test_connection.py .......... [ 17%] tests/test_manager/test_manager_definitions.py .. [ 17%] tests/test_manager/test_manager_drop.py .......... [ 19%] tests/test_manager/test_manager_model.py ....... [ 20%] tests/test_parse/test_parse_bel.py ..................................... [ 27%] ............................................ [ 35%] tests/test_parse/test_parse_bel_relations.py ........................... [ 40%] ........ [ 41%] tests/test_parse/test_parse_bel_variants.py ............................ [ 46%] .......... [ 48%] tests/test_parse/test_parse_control.py ................................. [ 54%] [ 54%] tests/test_parse/test_parse_identifier.py .................... [ 57%] tests/test_parse/test_parse_utils.py .......... [ 59%] tests/test_parse/test_user_api.py .... [ 60%] tests/test_schema.py ........... [ 62%] tests/test_struct/test_filters/test_edge_predicate_builders.py .... [ 63%] tests/test_struct/test_filters/test_edge_predicates.py . [ 63%] tests/test_struct/test_filters/test_node_predicate_builders.py ....... [ 64%] tests/test_struct/test_filters/test_node_predicates.py ................. [ 67%] ............... [ 70%] tests/test_struct/test_filters/test_node_selection.py . [ 70%] tests/test_struct/test_filters/test_struct_filters.py .................. [ 73%] .... [ 74%] tests/test_struct/test_getters.py . [ 74%] tests/test_struct/test_grouping.py ... [ 75%] tests/test_struct/test_node_utils.py .... [ 75%] tests/test_struct/test_query/test_mocks.py ... [ 76%] tests/test_struct/test_query/test_query.py ................. [ 79%] tests/test_struct/test_query/test_struct_pipeline.py ............ [ 81%] tests/test_struct/test_struct_graph.py .......... [ 83%] tests/test_struct/test_struct_operations.py ....................... [ 87%] tests/test_struct/test_summary/test_errors.py .. [ 87%] tests/test_struct/test_summary/test_provenance.py . [ 88%] tests/test_struct/test_summary/test_struct_summary_edges.py ...... [ 89%] tests/test_struct/test_summary/test_summary_nodes.py .......... [ 91%] tests/test_struct/test_transformations/test_collapse.py ...... [ 92%] tests/test_struct/test_transformations/test_deletions.py ......... [ 93%] tests/test_struct/test_transformations/test_expansion.py .... [ 94%] tests/test_struct/test_transformations/test_induction.py .......... [ 96%] tests/test_struct/test_transformations/test_metadata.py ... [ 96%] tests/test_struct/test_transformations/test_random.py ...... [ 97%] tests/test_struct/test_transformations/test_transfer.py ... [ 98%] tests/test_tokens.py . [ 98%] tests/test_utils.py ........ [100%] =============================== warnings summary =============================== pybel/io/api.py:9 /build/reproducible-path/pybel-0.15.5/.pybuild/cpython3_3.12_pybel/build/pybel/io/api.py:9: DeprecationWarning: pkg_resources is deprecated as an API. See https://setuptools.pypa.io/en/latest/pkg_resources.html from pkg_resources import iter_entry_points pybel/manager/models.py:91 /build/reproducible-path/pybel-0.15.5/.pybuild/cpython3_3.12_pybel/build/pybel/manager/models.py:91: MovedIn20Warning: The ``declarative_base()`` function is now available as sqlalchemy.orm.declarative_base(). (deprecated since: 2.0) (Background on SQLAlchemy 2.0 at: https://sqlalche.me/e/b8d9) Base = declarative_base() pybel/schema/__init__.py:30 /build/reproducible-path/pybel-0.15.5/.pybuild/cpython3_3.12_pybel/build/pybel/schema/__init__.py:30: DeprecationWarning: jsonschema.RefResolver is deprecated as of v4.18.0, in favor of the https://github.com/python-jsonschema/referencing library, which provides more compliant referencing behavior as well as more flexible APIs for customization. A future release will remove RefResolver. Please file a feature request (on referencing) if you are missing an API for the kind of customization you need. RESOLVER = jsonschema.RefResolver(base_uri=schema_uri, referrer=__file__) tests/test_io/test_spia.py::TestSpia::test_spia_matrix_complexes tests/test_io/test_spia.py::TestSpia::test_spia_matrix_composites /build/reproducible-path/pybel-0.15.5/.pybuild/cpython3_3.12_pybel/build/pybel/io/spia.py:178: FutureWarning: ChainedAssignmentError: behaviour will change in pandas 3.0! You are setting values through chained assignment. Currently this works in certain cases, but when using Copy-on-Write (which will become the default behaviour in pandas 3.0) this will never work to update the original DataFrame or Series, because the intermediate object on which we are setting values will behave as a copy. A typical example is when you are setting values in a column of a DataFrame, like: df["col"][row_indexer] = value Use `df.loc[row_indexer, "col"] = values` instead, to perform the assignment in a single step and ensure this keeps updating the original `df`. See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy spia_matrices["activation"][u_name][v_name] = 1 tests/test_io/test_spia.py::TestSpia::test_spia_matrix_complexes tests/test_io/test_spia.py::TestSpia::test_spia_matrix_composites /build/reproducible-path/pybel-0.15.5/.pybuild/cpython3_3.12_pybel/build/pybel/io/spia.py:174: FutureWarning: ChainedAssignmentError: behaviour will change in pandas 3.0! You are setting values through chained assignment. Currently this works in certain cases, but when using Copy-on-Write (which will become the default behaviour in pandas 3.0) this will never work to update the original DataFrame or Series, because the intermediate object on which we are setting values will behave as a copy. A typical example is when you are setting values in a column of a DataFrame, like: df["col"][row_indexer] = value Use `df.loc[row_indexer, "col"] = values` instead, to perform the assignment in a single step and ensure this keeps updating the original `df`. See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy spia_matrices["activation_phosphorylation"][u_name][v_name] = 1 tests/test_io/test_spia.py::TestSpia::test_spia_matrix_complexes tests/test_io/test_spia.py::TestSpia::test_spia_matrix_composites /build/reproducible-path/pybel-0.15.5/.pybuild/cpython3_3.12_pybel/build/pybel/io/spia.py:193: FutureWarning: ChainedAssignmentError: behaviour will change in pandas 3.0! You are setting values through chained assignment. Currently this works in certain cases, but when using Copy-on-Write (which will become the default behaviour in pandas 3.0) this will never work to update the original DataFrame or Series, because the intermediate object on which we are setting values will behave as a copy. A typical example is when you are setting values in a column of a DataFrame, like: df["col"][row_indexer] = value Use `df.loc[row_indexer, "col"] = values` instead, to perform the assignment in a single step and ensure this keeps updating the original `df`. See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy spia_matrices["inhibition"][u_name][v_name] = 1 tests/test_manager/test_manager_definitions.py: 1 warning tests/test_manager/test_manager_drop.py: 23 warnings /usr/lib/python3/dist-packages/sqlalchemy/sql/schema.py:3594: DeprecationWarning: datetime.datetime.utcnow() is deprecated and scheduled for removal in a future version. Use timezone-aware objects to represent datetimes in UTC: datetime.datetime.now(datetime.UTC). return util.wrap_callable(lambda ctx: fn(), fn) # type: ignore tests/test_manager/test_manager_drop.py::TestReconstituteNodeTuples::test_simple /build/reproducible-path/pybel-0.15.5/.pybuild/cpython3_3.12_pybel/build/pybel/manager/cache_manager.py:421: LegacyAPIWarning: The Query.get() method is considered legacy as of the 1.x series of SQLAlchemy and becomes a legacy construct in 2.0. The method is now available as Session.get() (deprecated since: 2.0) (Background on SQLAlchemy 2.0 at: https://sqlalche.me/e/b8d9) network = self.session.query(Network).get(network_id) tests/test_manager/test_manager_model.py::TestNetwork::test_dump tests/test_manager/test_manager_model.py::TestNetwork::test_network tests/test_manager/test_manager_model.py::TestNetwork::test_to_json /build/reproducible-path/pybel-0.15.5/.pybuild/cpython3_3.12_pybel/build/tests/test_manager/test_manager_model.py:33: DeprecationWarning: datetime.datetime.utcnow() is deprecated and scheduled for removal in a future version. Use timezone-aware objects to represent datetimes in UTC: datetime.datetime.now(datetime.UTC). self.created = datetime.datetime.utcnow() tests/test_parse/test_parse_bel.py: 82 warnings tests/test_parse/test_parse_bel_relations.py: 2 warnings /build/reproducible-path/pybel-0.15.5/.pybuild/cpython3_3.12_pybel/build/pybel/struct/graph.py:913: DeprecationWarning: use node.as_bel() warnings.warn("use node.as_bel()", DeprecationWarning) tests/test_struct/test_struct_graph.py: 1778 warnings /usr/lib/python3/dist-packages/bioregistry/schema_utils.py:61: PydanticDeprecatedSince20: The `parse_obj` method is deprecated; use `model_validate` instead. Deprecated in Pydantic V2.0 to be removed in V3.0. See Pydantic V2 Migration Guide at https://errors.pydantic.dev/2.10/migration/ return {prefix: Resource.parse_obj(value) for prefix, value in data.items()} tests/test_struct/test_struct_graph.py: 7112 warnings /usr/lib/python3/dist-packages/bioregistry/schema/struct.py:648: PydanticDeprecatedSince20: The `dict` method is deprecated; use `model_dump` instead. Deprecated in Pydantic V2.0 to be removed in V3.0. See Pydantic V2 Migration Guide at https://errors.pydantic.dev/2.10/migration/ return self.dict().get(metaprefix) or dict() -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html ======== 550 passed, 6 skipped, 171 deselected, 9011 warnings in 9.24s ========= create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild debian/rules override_dh_auto_install make[1]: Entering directory '/build/reproducible-path/pybel-0.15.5' dh_auto_install I: pybuild plugin_pyproject:178: Copying package built for python3.13 to destdir I: pybuild plugin_pyproject:178: Copying package built for python3.12 to destdir # eliminate lintian warning for d in $(find /build/reproducible-path/pybel-0.15.5/debian/python3-pybel/usr/lib -maxdepth 1 -type d -name "python3.*"); \ do \ chmod -x $d/dist-packages/pybel/testing/resources/bel/*.json ; \ done find debian -type f -name graph_template.html \ | xargs sed -i \ -e 's;https://cdn[js]*\..*/jquery.min.js;file:///usr/share/javascript/jquery/jquery.min.js;g' \ -e 's;https://cdn[js]*\..*/d3.min.js;file:///usr/share/javascript/d3/d3.min.js;g' \ make[1]: Leaving directory '/build/reproducible-path/pybel-0.15.5' dh_installdocs -O--buildsystem=pybuild dh_installchangelogs -O--buildsystem=pybuild dh_installman -O--buildsystem=pybuild dh_python3 -O--buildsystem=pybuild dh_installsystemduser -O--buildsystem=pybuild dh_perl -O--buildsystem=pybuild dh_link -O--buildsystem=pybuild dh_strip_nondeterminism -O--buildsystem=pybuild dh_compress -O--buildsystem=pybuild dh_fixperms -O--buildsystem=pybuild dh_missing -O--buildsystem=pybuild dh_installdeb -O--buildsystem=pybuild dh_gencontrol -O--buildsystem=pybuild dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild dpkg-deb: building package 'python3-pybel' in '../python3-pybel_0.15.5-1_all.deb'. dpkg-genbuildinfo --build=binary -O../pybel_0.15.5-1_arm64.buildinfo dpkg-genchanges --build=binary -O../pybel_0.15.5-1_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-source: info: using options from pybel-0.15.5/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/ 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/1462617 and its subdirectories I: Current time: Thu Dec 19 19:54:14 -12 2024 I: pbuilder-time-stamp: 1734681254 Fri Dec 20 07:54:16 UTC 2024 I: 1st build successful. Starting 2nd build on remote node codethink01-arm64.debian.net. Fri Dec 20 07:54:16 UTC 2024 I: Preparing to do remote build '2' on codethink01-arm64.debian.net. Fri Dec 20 08:02:38 UTC 2024 I: Deleting $TMPDIR on codethink01-arm64.debian.net. Fri Dec 20 08:02:39 UTC 2024 I: pybel_0.15.5-1_arm64.changes: Format: 1.8 Date: Sat, 30 Nov 2024 02:49:02 +0100 Source: pybel Binary: python3-pybel Architecture: all Version: 0.15.5-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Alexandre Detiste Description: python3-pybel - Biological Expression Language Changes: pybel (0.15.5-1) unstable; urgency=medium . * Team upload. * Update Build-Depends: + python3-bioregistry + python3-humanize + python3-jinja2 + python3-jsonschema + python3-pandas + python3-pystow + python3-ratelimiter - python3-six + python3-tabulate . [ Andreas Tille ] * Standards-Version: 4.6.1 (routine-update) * Build-Depends: pybuild-plugin-pyproject Checksums-Sha1: 9f85017fbd624d0b8ad6551aaaa1b7c4db220d49 7910 pybel_0.15.5-1_arm64.buildinfo 30ebec10717191188c67d7cfbb68c2a3e97a1002 242140 python3-pybel_0.15.5-1_all.deb Checksums-Sha256: 83ace075b2826a4736f75486bf251764aed75d88f7082bea69e111c7daf3e8e9 7910 pybel_0.15.5-1_arm64.buildinfo 7b28084f251aa6150bd40020a57a7312c1e0838c30361e4205fbc52c12104f84 242140 python3-pybel_0.15.5-1_all.deb Files: 542bfb389e69b5a3fc5ec0fb9df2565b 7910 science optional pybel_0.15.5-1_arm64.buildinfo add99ed6f626bbd10e1db8898ff6273f 242140 python optional python3-pybel_0.15.5-1_all.deb Fri Dec 20 08:02:40 UTC 2024 I: diffoscope 284 will be used to compare the two builds: Running as unit: rb-diffoscope-arm64_18-74373.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.gdcCX45z/pybel_0.15.5-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.gdcCX45z/pybel_0.15.5-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.gdcCX45z/pybel_0.15.5-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.gdcCX45z/b1/pybel_0.15.5-1_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.gdcCX45z/b2/pybel_0.15.5-1_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 abc.DotChangesFile ## main (total time: 0.338s) 0.338s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.016s) 0.016s 12 calls diffoscope.comparators.binary.FilesystemFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 649ms CPU time consumed: 647ms Fri Dec 20 08:02:41 UTC 2024 I: diffoscope 284 found no differences in the changes files, and a .buildinfo file also exists. Fri Dec 20 08:02:41 UTC 2024 I: pybel from unstable built successfully and reproducibly on arm64. Fri Dec 20 08:02:42 UTC 2024 I: Submitting .buildinfo files to external archives: Fri Dec 20 08:02:42 UTC 2024 I: Submitting 12K b1/pybel_0.15.5-1_arm64.buildinfo.asc Fri Dec 20 08:02:42 UTC 2024 I: Submitting 12K b2/pybel_0.15.5-1_arm64.buildinfo.asc Fri Dec 20 08:02:43 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Fri Dec 20 08:02:43 UTC 2024 I: Done submitting .buildinfo files. Fri Dec 20 08:02:43 UTC 2024 I: Removing signed pybel_0.15.5-1_arm64.buildinfo.asc files: removed './b1/pybel_0.15.5-1_arm64.buildinfo.asc' removed './b2/pybel_0.15.5-1_arm64.buildinfo.asc'