I: pbuilder: network access will be disabled during build
I: Current time: Sat Mar 21 19:45:19 -12 2026
I: pbuilder-time-stamp: 1774165519
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: using eatmydata during job
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
dpkg-source: warning: cannot verify inline signature for ./pybel_0.15.5-1.dsc: unsupported subcommand
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/124898/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='i386'
DEBIAN_FRONTEND='noninteractive'
DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=22 '
DISTRIBUTION='unstable'
HOME='/root'
HOST_ARCH='i386'
IFS='
'
INVOCATION_ID='f7b150328d0b488c9c0091660b70c8d3'
LANG='C'
LANGUAGE='en_US:en'
LC_ALL='C'
LD_LIBRARY_PATH='/usr/lib/libeatmydata'
LD_PRELOAD='libeatmydata.so'
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='124898'
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.ucpC4qlU/pbuilderrc_V9EO --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.ucpC4qlU/b1 --logfile b1/build.log pybel_0.15.5-1.dsc'
SUDO_GID='112'
SUDO_UID='107'
SUDO_USER='jenkins'
TERM='unknown'
TZ='/usr/share/zoneinfo/Etc/GMT+12'
USER='root'
_='/usr/bin/systemd-run'
http_proxy='http://213.165.73.152:3128'
I: uname -a
Linux ionos16-i386 6.1.0-31-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.128-1 (2025-02-07) x86_64 GNU/Linux
I: ls -l /bin
lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin
I: user script /srv/workspace/pbuilder/124898/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: i386
Maintainer: Debian Pbuilder Team <pbuilder-maint@lists.alioth.debian.org>
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 ... 19792 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} libffi8{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} libunistring5{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-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-numpy-dev{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-pytz{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-fqdn python3-gdal python3-h2 python3-html5lib python3-httpcore python3-httpx python3-isoduration python3-json-pointer python3-lxml python3-matplotlib python3-numexpr python3-odf python3-openpyxl python3-pydot python3-pygments python3-pygraphviz python3-rfc3339-validator python3-rfc3986-validator python3-rfc3987 python3-scipy python3-sqlalchemy-ext python3-tables python3-uritemplate python3-webcolors python3-yaml wget
0 packages upgraded, 128 newly installed, 0 to remove and 0 not upgraded.
Need to get 80.4 MB of archives. After unpacking 403 MB will be used.
Writing extended state information...
Get: 1 http://deb.debian.org/debian unstable/main i386 libpython3.13-minimal i386 3.13.2-1 [859 kB]
Get: 2 http://deb.debian.org/debian unstable/main i386 libexpat1 i386 2.6.4-1 [107 kB]
Get: 3 http://deb.debian.org/debian unstable/main i386 python3.13-minimal i386 3.13.2-1 [2266 kB]
Get: 4 http://deb.debian.org/debian unstable/main i386 python3-minimal i386 3.13.1-2 [27.0 kB]
Get: 5 http://deb.debian.org/debian unstable/main i386 media-types all 11.0.0 [27.6 kB]
Get: 6 http://deb.debian.org/debian unstable/main i386 netbase all 6.4 [12.8 kB]
Get: 7 http://deb.debian.org/debian unstable/main i386 tzdata all 2025a-2 [259 kB]
Get: 8 http://deb.debian.org/debian unstable/main i386 libffi8 i386 3.4.7-1 [21.4 kB]
Get: 9 http://deb.debian.org/debian unstable/main i386 readline-common all 8.2-6 [69.4 kB]
Get: 10 http://deb.debian.org/debian unstable/main i386 libreadline8t64 i386 8.2-6 [173 kB]
Get: 11 http://deb.debian.org/debian unstable/main i386 libpython3.13-stdlib i386 3.13.2-1 [1985 kB]
Get: 12 http://deb.debian.org/debian unstable/main i386 python3.13 i386 3.13.2-1 [745 kB]
Get: 13 http://deb.debian.org/debian unstable/main i386 libpython3-stdlib i386 3.13.1-2 [9952 B]
Get: 14 http://deb.debian.org/debian unstable/main i386 python3 i386 3.13.1-2 [28.0 kB]
Get: 15 http://deb.debian.org/debian unstable/main i386 libpython3.12-minimal i386 3.12.9-1 [816 kB]
Get: 16 http://deb.debian.org/debian unstable/main i386 python3.12-minimal i386 3.12.9-1 [2238 kB]
Get: 17 http://deb.debian.org/debian unstable/main i386 sensible-utils all 0.0.24 [24.8 kB]
Get: 18 http://deb.debian.org/debian unstable/main i386 openssl i386 3.4.1-1 [1432 kB]
Get: 19 http://deb.debian.org/debian unstable/main i386 ca-certificates all 20241223 [164 kB]
Get: 20 http://deb.debian.org/debian unstable/main i386 libmagic-mgc i386 1:5.45-3+b1 [314 kB]
Get: 21 http://deb.debian.org/debian unstable/main i386 libmagic1t64 i386 1:5.45-3+b1 [115 kB]
Get: 22 http://deb.debian.org/debian unstable/main i386 file i386 1:5.45-3+b1 [43.2 kB]
Get: 23 http://deb.debian.org/debian unstable/main i386 gettext-base i386 0.23.1-1 [245 kB]
Get: 24 http://deb.debian.org/debian unstable/main i386 libuchardet0 i386 0.0.8-1+b2 [69.2 kB]
Get: 25 http://deb.debian.org/debian unstable/main i386 groff-base i386 1.23.0-7 [1199 kB]
Get: 26 http://deb.debian.org/debian unstable/main i386 bsdextrautils i386 2.40.4-3 [96.2 kB]
Get: 27 http://deb.debian.org/debian unstable/main i386 libpipeline1 i386 1.5.8-1 [41.2 kB]
Get: 28 http://deb.debian.org/debian unstable/main i386 man-db i386 2.13.0-1 [1428 kB]
Get: 29 http://deb.debian.org/debian unstable/main i386 m4 i386 1.4.19-5 [301 kB]
Get: 30 http://deb.debian.org/debian unstable/main i386 autoconf all 2.72-3 [493 kB]
Get: 31 http://deb.debian.org/debian unstable/main i386 autotools-dev all 20220109.1 [51.6 kB]
Get: 32 http://deb.debian.org/debian unstable/main i386 automake all 1:1.17-3 [862 kB]
Get: 33 http://deb.debian.org/debian unstable/main i386 autopoint all 0.23.1-1 [770 kB]
Get: 34 http://deb.debian.org/debian unstable/main i386 libdebhelper-perl all 13.24.1 [90.9 kB]
Get: 35 http://deb.debian.org/debian unstable/main i386 libtool all 2.5.4-3 [539 kB]
Get: 36 http://deb.debian.org/debian unstable/main i386 dh-autoreconf all 20 [17.1 kB]
Get: 37 http://deb.debian.org/debian unstable/main i386 libarchive-zip-perl all 1.68-1 [104 kB]
Get: 38 http://deb.debian.org/debian unstable/main i386 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB]
Get: 39 http://deb.debian.org/debian unstable/main i386 dh-strip-nondeterminism all 1.14.1-2 [8620 B]
Get: 40 http://deb.debian.org/debian unstable/main i386 libelf1t64 i386 0.192-4 [195 kB]
Get: 41 http://deb.debian.org/debian unstable/main i386 dwz i386 0.15-1+b1 [116 kB]
Get: 42 http://deb.debian.org/debian unstable/main i386 libunistring5 i386 1.3-1 [458 kB]
Get: 43 http://deb.debian.org/debian unstable/main i386 libicu72 i386 72.1-6 [9582 kB]
Get: 44 http://deb.debian.org/debian unstable/main i386 libxml2 i386 2.12.7+dfsg+really2.9.14-0.2+b1 [734 kB]
Get: 45 http://deb.debian.org/debian unstable/main i386 gettext i386 0.23.1-1 [1714 kB]
Get: 46 http://deb.debian.org/debian unstable/main i386 intltool-debian all 0.35.0+20060710.6 [22.9 kB]
Get: 47 http://deb.debian.org/debian unstable/main i386 po-debconf all 1.0.21+nmu1 [248 kB]
Get: 48 http://deb.debian.org/debian unstable/main i386 debhelper all 13.24.1 [920 kB]
Get: 49 http://deb.debian.org/debian unstable/main i386 python3-autocommand all 2.2.2-3 [13.6 kB]
Get: 50 http://deb.debian.org/debian unstable/main i386 python3-more-itertools all 10.6.0-1 [65.3 kB]
Get: 51 http://deb.debian.org/debian unstable/main i386 python3-typing-extensions all 4.12.2-2 [73.0 kB]
Get: 52 http://deb.debian.org/debian unstable/main i386 python3-typeguard all 4.4.1-1 [37.0 kB]
Get: 53 http://deb.debian.org/debian unstable/main i386 python3-inflect all 7.3.1-2 [32.4 kB]
Get: 54 http://deb.debian.org/debian unstable/main i386 python3-jaraco.context all 6.0.0-1 [7984 B]
Get: 55 http://deb.debian.org/debian unstable/main i386 python3-jaraco.functools all 4.1.0-1 [12.0 kB]
Get: 56 http://deb.debian.org/debian unstable/main i386 python3-pkg-resources all 75.6.0-1 [222 kB]
Get: 57 http://deb.debian.org/debian unstable/main i386 python3-jaraco.text all 4.0.0-1 [11.4 kB]
Get: 58 http://deb.debian.org/debian unstable/main i386 python3-zipp all 3.21.0-1 [10.6 kB]
Get: 59 http://deb.debian.org/debian unstable/main i386 python3-setuptools all 75.6.0-1 [720 kB]
Get: 60 http://deb.debian.org/debian unstable/main i386 dh-python all 6.20250108 [113 kB]
Get: 61 http://deb.debian.org/debian unstable/main i386 libblas3 i386 3.12.1-2 [150 kB]
Get: 62 http://deb.debian.org/debian unstable/main i386 libcom-err2 i386 1.47.2-1 [24.3 kB]
Get: 63 http://deb.debian.org/debian unstable/main i386 libgfortran5 i386 14.2.0-17 [735 kB]
Get: 64 http://deb.debian.org/debian unstable/main i386 libkrb5support0 i386 1.21.3-4 [35.0 kB]
Get: 65 http://deb.debian.org/debian unstable/main i386 libk5crypto3 i386 1.21.3-4 [83.7 kB]
Get: 66 http://deb.debian.org/debian unstable/main i386 libkeyutils1 i386 1.6.3-4 [9600 B]
Get: 67 http://deb.debian.org/debian unstable/main i386 libkrb5-3 i386 1.21.3-4 [354 kB]
Get: 68 http://deb.debian.org/debian unstable/main i386 libgssapi-krb5-2 i386 1.21.3-4 [149 kB]
Get: 69 http://deb.debian.org/debian unstable/main i386 liblapack3 i386 3.12.1-2 [2198 kB]
Get: 70 http://deb.debian.org/debian unstable/main i386 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB]
Get: 71 http://deb.debian.org/debian unstable/main i386 libtirpc3t64 i386 1.3.4+ds-1.3+b1 [90.5 kB]
Get: 72 http://deb.debian.org/debian unstable/main i386 libnsl2 i386 1.3.0-3+b3 [42.7 kB]
Get: 73 http://deb.debian.org/debian unstable/main i386 libpython3.12-stdlib i386 3.12.9-1 [1972 kB]
Get: 74 http://deb.debian.org/debian unstable/main i386 python3-packaging all 24.2-1 [55.3 kB]
Get: 75 http://deb.debian.org/debian unstable/main i386 python3-pyproject-hooks all 1.2.0-1 [11.7 kB]
Get: 76 http://deb.debian.org/debian unstable/main i386 python3-toml all 0.10.2-1 [16.2 kB]
Get: 77 http://deb.debian.org/debian unstable/main i386 python3-wheel all 0.45.1-1 [56.7 kB]
Get: 78 http://deb.debian.org/debian unstable/main i386 python3-build all 1.2.2-1 [36.0 kB]
Get: 79 http://deb.debian.org/debian unstable/main i386 python3-installer all 0.7.0+dfsg1-3 [18.6 kB]
Get: 80 http://deb.debian.org/debian unstable/main i386 pybuild-plugin-pyproject all 6.20250108 [11.6 kB]
Get: 81 http://deb.debian.org/debian unstable/main i386 python3.12 i386 3.12.9-1 [681 kB]
Get: 82 http://deb.debian.org/debian unstable/main i386 python3-all i386 3.13.1-2 [1052 B]
Get: 83 http://deb.debian.org/debian unstable/main i386 python3-annotated-types all 0.7.0-1 [18.8 kB]
Get: 84 http://deb.debian.org/debian unstable/main i386 python3-attr all 25.1.0-1 [68.7 kB]
Get: 85 http://deb.debian.org/debian unstable/main i386 python3-multisplitby all 0.0.1-6 [4688 B]
Get: 86 http://deb.debian.org/debian unstable/main i386 python3-certifi all 2025.1.31+ds-1 [9652 B]
Get: 87 http://deb.debian.org/debian unstable/main i386 python3-charset-normalizer i386 3.4.0-1+b1 [139 kB]
Get: 88 http://deb.debian.org/debian unstable/main i386 python3-idna all 3.10-1 [42.0 kB]
Get: 89 http://deb.debian.org/debian unstable/main i386 python3-urllib3 all 2.3.0-1 [114 kB]
Get: 90 http://deb.debian.org/debian unstable/main i386 python3-chardet all 5.2.0+dfsg-2 [108 kB]
Get: 91 http://deb.debian.org/debian unstable/main i386 python3-requests all 2.32.3+dfsg-1 [71.9 kB]
Get: 92 http://deb.debian.org/debian unstable/main i386 python3-requests-file all 2.1.0-1 [6600 B]
Get: 93 http://deb.debian.org/debian unstable/main i386 python3-click all 8.1.8-1 [95.2 kB]
Get: 94 http://deb.debian.org/debian unstable/main i386 python3-bel-resources all 0.0.3-4 [13.5 kB]
Get: 95 http://deb.debian.org/debian unstable/main i386 python3-pydantic-core i386 2.27.2-1+b1 [1599 kB]
Get: 96 http://deb.debian.org/debian unstable/main i386 python3-dnspython all 2.7.0-1 [164 kB]
Get: 97 http://deb.debian.org/debian unstable/main i386 python3-email-validator all 2.2.0-1 [31.6 kB]
Get: 98 http://deb.debian.org/debian unstable/main i386 python3-pydantic i386 2.10.6-1 [346 kB]
Get: 99 http://deb.debian.org/debian unstable/main i386 python3-sortedcontainers all 2.4.0-2 [31.9 kB]
Get: 100 http://deb.debian.org/debian unstable/main i386 python3-trie all 0.4.0+ds-1 [7640 B]
Get: 101 http://deb.debian.org/debian unstable/main i386 python3-curies all 0.9.0-1 [38.3 kB]
Get: 102 http://deb.debian.org/debian unstable/main i386 python3-tqdm all 4.67.1-2 [91.1 kB]
Get: 103 http://deb.debian.org/debian unstable/main i386 python3-pystow all 0.5.5-1 [25.6 kB]
Get: 104 http://deb.debian.org/debian unstable/main i386 python3-bioregistry all 0.11.12-3 [3907 kB]
Get: 105 http://deb.debian.org/debian unstable/main i386 python3-click-plugins all 1.1.1-4 [9852 B]
Get: 106 http://deb.debian.org/debian unstable/main i386 python3-dateutil all 2.9.0-3 [79.3 kB]
Get: 107 http://deb.debian.org/debian unstable/main i386 python3-greenlet i386 3.1.0-1+b1 [183 kB]
Get: 108 http://deb.debian.org/debian unstable/main i386 python3-humanize all 4.11.0-2 [52.8 kB]
Get: 109 http://deb.debian.org/debian unstable/main i386 python3-iniconfig all 1.1.1-2 [6396 B]
Get: 110 http://deb.debian.org/debian unstable/main i386 python3-markupsafe i386 2.1.5-1+b2 [13.9 kB]
Get: 111 http://deb.debian.org/debian unstable/main i386 python3-jinja2 all 3.1.5-2 [107 kB]
Get: 112 http://deb.debian.org/debian unstable/main i386 python3-rpds-py i386 0.21.0-2 [313 kB]
Get: 113 http://deb.debian.org/debian unstable/main i386 python3-referencing all 0.35.1-2 [23.5 kB]
Get: 114 http://deb.debian.org/debian unstable/main i386 python3-jsonschema-specifications all 2023.12.1-2 [9020 B]
Get: 115 http://deb.debian.org/debian unstable/main i386 python3-jsonschema all 4.19.2-6 [71.4 kB]
Get: 116 http://deb.debian.org/debian unstable/main i386 python3-networkx all 3.2.1-5 [13.0 MB]
Get: 117 http://deb.debian.org/debian unstable/main i386 python3-numpy-dev i386 1:2.2.2+ds-2 [145 kB]
Get: 118 http://deb.debian.org/debian unstable/main i386 python3-numpy i386 1:2.2.2+ds-2 [7536 kB]
Get: 119 http://deb.debian.org/debian unstable/main i386 python3-pytz all 2025.1-3 [150 kB]
Get: 120 http://deb.debian.org/debian unstable/main i386 python3-tz all 2025.1-3 [4004 B]
Get: 121 http://deb.debian.org/debian unstable/main i386 python3-pandas-lib i386 2.2.3+dfsg-8 [6848 kB]
Get: 122 http://deb.debian.org/debian unstable/main i386 python3-pandas all 2.2.3+dfsg-8 [3097 kB]
Get: 123 http://deb.debian.org/debian unstable/main i386 python3-pluggy all 1.5.0-1 [26.9 kB]
Get: 124 http://deb.debian.org/debian unstable/main i386 python3-pyparsing all 3.1.2-1 [146 kB]
Get: 125 http://deb.debian.org/debian unstable/main i386 python3-pytest all 8.3.4-1 [250 kB]
Get: 126 http://deb.debian.org/debian unstable/main i386 python3-ratelimit all 2.2.1-2 [6108 B]
Get: 127 http://deb.debian.org/debian unstable/main i386 python3-sqlalchemy all 2.0.32+ds1-1 [1196 kB]
Get: 128 http://deb.debian.org/debian unstable/main i386 python3-tabulate all 0.9.0-1 [45.9 kB]
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Current default time zone: 'Etc/UTC'
Local time is now: Sun Mar 22 07:45:43 UTC 2026.
Universal Time is now: Sun Mar 22 07:45:43 UTC 2026.
Run 'dpkg-reconfigure tzdata' if you wish to change it.
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update-alternatives: using /usr/lib/i386-linux-gnu/blas/libblas.so.3 to provide /usr/lib/i386-linux-gnu/libblas.so.3 (libblas.so.3-i386-linux-gnu) in auto mode
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Reading package lists...
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-> 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 <tchet@debian.org>
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture i386
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 python3.12 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
creating build/lib/pybel
copying src/pybel/tokens.py -> build/lib/pybel
copying src/pybel/canonicalize.py -> build/lib/pybel
copying src/pybel/version.py -> build/lib/pybel
copying src/pybel/constants.py -> build/lib/pybel
copying src/pybel/typing.py -> build/lib/pybel
copying src/pybel/grounding.py -> build/lib/pybel
copying src/pybel/repository.py -> build/lib/pybel
copying src/pybel/__main__.py -> build/lib/pybel
copying src/pybel/exceptions.py -> build/lib/pybel
copying src/pybel/__init__.py -> build/lib/pybel
copying src/pybel/language.py -> build/lib/pybel
copying src/pybel/utils.py -> build/lib/pybel
copying src/pybel/config.py -> build/lib/pybel
copying src/pybel/cli.py -> build/lib/pybel
creating build/lib/pybel/io
copying src/pybel/io/exc.py -> build/lib/pybel/io
copying src/pybel/io/gpickle.py -> build/lib/pybel/io
copying src/pybel/io/line_utils.py -> build/lib/pybel/io
copying src/pybel/io/graphml.py -> build/lib/pybel/io
copying src/pybel/io/cx.py -> build/lib/pybel/io
copying src/pybel/io/emmaa.py -> build/lib/pybel/io
copying src/pybel/io/extras.py -> build/lib/pybel/io
copying src/pybel/io/indra.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/nodelink.py -> build/lib/pybel/io
copying src/pybel/io/pykeen.py -> build/lib/pybel/io
copying src/pybel/io/jgif.py -> build/lib/pybel/io
copying src/pybel/io/__init__.py -> build/lib/pybel/io
copying src/pybel/io/spia.py -> build/lib/pybel/io
copying src/pybel/io/lines.py -> build/lib/pybel/io
copying src/pybel/io/hipathia.py -> build/lib/pybel/io
copying src/pybel/io/sbel.py -> build/lib/pybel/io
copying src/pybel/io/utils.py -> build/lib/pybel/io
copying src/pybel/io/aws.py -> build/lib/pybel/io
copying src/pybel/io/umbrella_nodelink.py -> build/lib/pybel/io
copying src/pybel/io/neo4j.py -> build/lib/pybel/io
copying src/pybel/io/fraunhofer_orientdb.py -> build/lib/pybel/io
copying src/pybel/io/jinja_utils.py -> build/lib/pybel/io
copying src/pybel/io/api.py -> build/lib/pybel/io
copying src/pybel/io/pynpa.py -> build/lib/pybel/io
copying src/pybel/io/graphdati.py -> build/lib/pybel/io
creating build/lib/pybel/schema
copying src/pybel/schema/__init__.py -> build/lib/pybel/schema
creating build/lib/pybel/dsl
copying src/pybel/dsl/exc.py -> build/lib/pybel/dsl
copying src/pybel/dsl/constants.py -> build/lib/pybel/dsl
copying src/pybel/dsl/edges.py -> build/lib/pybel/dsl
copying src/pybel/dsl/__init__.py -> 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
creating build/lib/pybel/testing
copying src/pybel/testing/generate.py -> build/lib/pybel/testing
copying src/pybel/testing/mock_manager.py -> build/lib/pybel/testing
copying src/pybel/testing/mocks.py -> build/lib/pybel/testing
copying src/pybel/testing/constants.py -> build/lib/pybel/testing
copying src/pybel/testing/__init__.py -> build/lib/pybel/testing
copying src/pybel/testing/cases.py -> build/lib/pybel/testing
copying src/pybel/testing/utils.py -> build/lib/pybel/testing
creating build/lib/pybel/manager
copying src/pybel/manager/exc.py -> build/lib/pybel/manager
copying src/pybel/manager/lookup_manager.py -> build/lib/pybel/manager
copying src/pybel/manager/query_manager.py -> build/lib/pybel/manager
copying src/pybel/manager/citation_utils.py -> build/lib/pybel/manager
copying src/pybel/manager/database_io.py -> build/lib/pybel/manager
copying src/pybel/manager/base_manager.py -> build/lib/pybel/manager
copying src/pybel/manager/cache_manager.py -> build/lib/pybel/manager
copying src/pybel/manager/__init__.py -> build/lib/pybel/manager
copying src/pybel/manager/make_json_serializable.py -> build/lib/pybel/manager
copying src/pybel/manager/utils.py -> build/lib/pybel/manager
copying src/pybel/manager/models.py -> build/lib/pybel/manager
creating build/lib/pybel/parser
copying src/pybel/parser/baseparser.py -> build/lib/pybel/parser
copying src/pybel/parser/parse_metadata.py -> build/lib/pybel/parser
copying src/pybel/parser/constants.py -> build/lib/pybel/parser
copying src/pybel/parser/parse_bel.py -> build/lib/pybel/parser
copying src/pybel/parser/__init__.py -> build/lib/pybel/parser
copying src/pybel/parser/parse_concept.py -> build/lib/pybel/parser
copying src/pybel/parser/utils.py -> build/lib/pybel/parser
copying src/pybel/parser/parse_control.py -> build/lib/pybel/parser
creating 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/various_example.py -> build/lib/pybel/examples
copying src/pybel/examples/braf_example.py -> build/lib/pybel/examples
copying src/pybel/examples/__init__.py -> build/lib/pybel/examples
copying src/pybel/examples/tloc_example.py -> build/lib/pybel/examples
copying src/pybel/examples/vegf_example.py -> build/lib/pybel/examples
copying src/pybel/examples/ampk_example.py -> build/lib/pybel/examples
copying src/pybel/examples/sialic_acid_example.py -> build/lib/pybel/examples
copying src/pybel/examples/statin_example.py -> build/lib/pybel/examples
creating build/lib/pybel/struct
copying src/pybel/struct/graph.py -> build/lib/pybel/struct
copying src/pybel/struct/__init__.py -> build/lib/pybel/struct
copying src/pybel/struct/node_utils.py -> build/lib/pybel/struct
copying src/pybel/struct/utils.py -> build/lib/pybel/struct
copying src/pybel/struct/getters.py -> build/lib/pybel/struct
copying src/pybel/struct/operations.py -> build/lib/pybel/struct
creating build/lib/pybel/resources
copying src/pybel/resources/constants.py -> build/lib/pybel/resources
copying src/pybel/resources/resources.py -> build/lib/pybel/resources
copying src/pybel/resources/__init__.py -> build/lib/pybel/resources
copying src/pybel/resources/update_resources.py -> build/lib/pybel/resources
creating build/lib/pybel/io/jupyter
copying src/pybel/io/jupyter/constants.py -> build/lib/pybel/io/jupyter
copying src/pybel/io/jupyter/inline.py -> build/lib/pybel/io/jupyter
copying src/pybel/io/jupyter/__init__.py -> build/lib/pybel/io/jupyter
copying src/pybel/io/jupyter/visualization.py -> build/lib/pybel/io/jupyter
creating build/lib/pybel/io/triples
copying src/pybel/io/triples/__init__.py -> 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
creating build/lib/pybel/io/tsv
copying src/pybel/io/tsv/__init__.py -> 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
creating build/lib/pybel/io/hetionet
copying src/pybel/io/hetionet/constants.py -> build/lib/pybel/io/hetionet
copying src/pybel/io/hetionet/hetionet.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
copying src/pybel/io/hetionet/cli.py -> build/lib/pybel/io/hetionet
creating build/lib/pybel/parser/modifiers
copying src/pybel/parser/modifiers/protein_modification.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/truncation.py -> build/lib/pybel/parser/modifiers
copying src/pybel/parser/modifiers/constants.py -> build/lib/pybel/parser/modifiers
copying src/pybel/parser/modifiers/location.py -> build/lib/pybel/parser/modifiers
copying src/pybel/parser/modifiers/__init__.py -> build/lib/pybel/parser/modifiers
copying src/pybel/parser/modifiers/gene_substitution.py -> build/lib/pybel/parser/modifiers
copying src/pybel/parser/modifiers/fragment.py -> build/lib/pybel/parser/modifiers
copying src/pybel/parser/modifiers/variant.py -> build/lib/pybel/parser/modifiers
copying src/pybel/parser/modifiers/protein_substitution.py -> build/lib/pybel/parser/modifiers
creating build/lib/pybel/struct/filters
copying src/pybel/struct/filters/edge_predicate_builders.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/edge_predicates.py -> build/lib/pybel/struct/filters
copying src/pybel/struct/filters/typing.py -> build/lib/pybel/struct/filters
copying src/pybel/struct/filters/__init__.py -> build/lib/pybel/struct/filters
copying src/pybel/struct/filters/utils.py -> build/lib/pybel/struct/filters
copying src/pybel/struct/filters/edge_filters.py -> build/lib/pybel/struct/filters
copying src/pybel/struct/filters/node_filters.py -> build/lib/pybel/struct/filters
creating 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/seeding.py -> build/lib/pybel/struct/query
copying src/pybel/struct/query/__init__.py -> build/lib/pybel/struct/query
copying src/pybel/struct/query/query.py -> build/lib/pybel/struct/query
copying src/pybel/struct/query/selection.py -> build/lib/pybel/struct/query
creating build/lib/pybel/struct/summary
copying src/pybel/struct/summary/edge_summary.py -> build/lib/pybel/struct/summary
copying src/pybel/struct/summary/node_summary.py -> build/lib/pybel/struct/summary
copying src/pybel/struct/summary/provenance.py -> build/lib/pybel/struct/summary
copying src/pybel/struct/summary/supersummary.py -> build/lib/pybel/struct/summary
copying src/pybel/struct/summary/__init__.py -> build/lib/pybel/struct/summary
copying src/pybel/struct/summary/errors.py -> build/lib/pybel/struct/summary
creating build/lib/pybel/struct/grouping
copying src/pybel/struct/grouping/provenance.py -> build/lib/pybel/struct/grouping
copying src/pybel/struct/grouping/__init__.py -> build/lib/pybel/struct/grouping
copying src/pybel/struct/grouping/annotations.py -> build/lib/pybel/struct/grouping
creating build/lib/pybel/struct/mutation
copying src/pybel/struct/mutation/__init__.py -> build/lib/pybel/struct/mutation
copying src/pybel/struct/mutation/induction_expansion.py -> 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
creating 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
copying src/pybel/struct/pipeline/pipeline.py -> build/lib/pybel/struct/pipeline
creating 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/activities.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/__init__.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/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
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/__init__.py -> build/lib/pybel/struct/mutation/collapse
copying src/pybel/struct/mutation/collapse/collapse.py -> build/lib/pybel/struct/mutation/collapse
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/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/random_subgraph.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/neighborhood.py -> build/lib/pybel/struct/mutation/induction
copying src/pybel/struct/mutation/induction/__init__.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/annotations.py -> 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/citation.py -> build/lib/pybel/struct/mutation/induction
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
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/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
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-i686/wheel
running install
running install_lib
creating build/bdist.linux-i686/wheel
creating build/bdist.linux-i686/wheel/pybel
creating build/bdist.linux-i686/wheel/pybel/io
copying build/lib/pybel/io/exc.py -> build/bdist.linux-i686/wheel/./pybel/io
creating build/bdist.linux-i686/wheel/pybel/io/jupyter
creating build/bdist.linux-i686/wheel/pybel/io/jupyter/templates
copying build/lib/pybel/io/jupyter/templates/pybel_jupyter.js -> build/bdist.linux-i686/wheel/./pybel/io/jupyter/templates
copying build/lib/pybel/io/jupyter/templates/graph_template.html -> build/bdist.linux-i686/wheel/./pybel/io/jupyter/templates
copying build/lib/pybel/io/jupyter/templates/pybel_vis.js -> build/bdist.linux-i686/wheel/./pybel/io/jupyter/templates
copying build/lib/pybel/io/jupyter/constants.py -> build/bdist.linux-i686/wheel/./pybel/io/jupyter
copying build/lib/pybel/io/jupyter/inline.py -> build/bdist.linux-i686/wheel/./pybel/io/jupyter
copying build/lib/pybel/io/jupyter/__init__.py -> build/bdist.linux-i686/wheel/./pybel/io/jupyter
copying build/lib/pybel/io/jupyter/visualization.py -> build/bdist.linux-i686/wheel/./pybel/io/jupyter
copying build/lib/pybel/io/gpickle.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/line_utils.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/graphml.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/cx.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/emmaa.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/extras.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/indra.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/biodati_client.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/bel_commons_client.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/nodelink.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/pykeen.py -> build/bdist.linux-i686/wheel/./pybel/io
creating build/bdist.linux-i686/wheel/pybel/io/triples
copying build/lib/pybel/io/triples/__init__.py -> build/bdist.linux-i686/wheel/./pybel/io/triples
copying build/lib/pybel/io/triples/converters.py -> build/bdist.linux-i686/wheel/./pybel/io/triples
copying build/lib/pybel/io/triples/api.py -> build/bdist.linux-i686/wheel/./pybel/io/triples
copying build/lib/pybel/io/jgif.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/__init__.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/spia.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/lines.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/hipathia.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/sbel.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/utils.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/aws.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/umbrella_nodelink.py -> build/bdist.linux-i686/wheel/./pybel/io
creating build/bdist.linux-i686/wheel/pybel/io/tsv
copying build/lib/pybel/io/tsv/__init__.py -> build/bdist.linux-i686/wheel/./pybel/io/tsv
copying build/lib/pybel/io/tsv/converters.py -> build/bdist.linux-i686/wheel/./pybel/io/tsv
copying build/lib/pybel/io/tsv/api.py -> build/bdist.linux-i686/wheel/./pybel/io/tsv
copying build/lib/pybel/io/neo4j.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/fraunhofer_orientdb.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/jinja_utils.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/api.py -> build/bdist.linux-i686/wheel/./pybel/io
creating build/bdist.linux-i686/wheel/pybel/io/hetionet
copying build/lib/pybel/io/hetionet/constants.py -> build/bdist.linux-i686/wheel/./pybel/io/hetionet
copying build/lib/pybel/io/hetionet/hetionet.py -> build/bdist.linux-i686/wheel/./pybel/io/hetionet
copying build/lib/pybel/io/hetionet/__main__.py -> build/bdist.linux-i686/wheel/./pybel/io/hetionet
copying build/lib/pybel/io/hetionet/__init__.py -> build/bdist.linux-i686/wheel/./pybel/io/hetionet
copying build/lib/pybel/io/hetionet/cli.py -> build/bdist.linux-i686/wheel/./pybel/io/hetionet
copying build/lib/pybel/io/pynpa.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/graphdati.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/tokens.py -> build/bdist.linux-i686/wheel/./pybel
copying build/lib/pybel/canonicalize.py -> build/bdist.linux-i686/wheel/./pybel
copying build/lib/pybel/version.py -> build/bdist.linux-i686/wheel/./pybel
copying build/lib/pybel/constants.py -> build/bdist.linux-i686/wheel/./pybel
copying build/lib/pybel/typing.py -> build/bdist.linux-i686/wheel/./pybel
copying build/lib/pybel/grounding.py -> build/bdist.linux-i686/wheel/./pybel
creating build/bdist.linux-i686/wheel/pybel/schema
copying build/lib/pybel/schema/edge.schema.json -> build/bdist.linux-i686/wheel/./pybel/schema
copying build/lib/pybel/schema/entity.schema.json -> build/bdist.linux-i686/wheel/./pybel/schema
copying build/lib/pybel/schema/__init__.py -> build/bdist.linux-i686/wheel/./pybel/schema
copying build/lib/pybel/schema/modifier.schema.json -> build/bdist.linux-i686/wheel/./pybel/schema
copying build/lib/pybel/schema/base_node.schema.json -> build/bdist.linux-i686/wheel/./pybel/schema
creating build/bdist.linux-i686/wheel/pybel/schema/node_types
copying build/lib/pybel/schema/node_types/base_abundance.schema.json -> build/bdist.linux-i686/wheel/./pybel/schema/node_types
copying build/lib/pybel/schema/node_types/reaction.schema.json -> build/bdist.linux-i686/wheel/./pybel/schema/node_types
copying build/lib/pybel/schema/node_types/fusion.schema.json -> build/bdist.linux-i686/wheel/./pybel/schema/node_types
copying build/lib/pybel/schema/node_types/fusion_range.schema.json -> build/bdist.linux-i686/wheel/./pybel/schema/node_types
copying build/lib/pybel/schema/node_types/list_abundance.schema.json -> build/bdist.linux-i686/wheel/./pybel/schema/node_types
creating build/bdist.linux-i686/wheel/pybel/schema/node_types/variants
creating build/bdist.linux-i686/wheel/pybel/schema/node_types/variants/hgvs
copying build/lib/pybel/schema/node_types/variants/hgvs/gene_hgvs.schema.json -> build/bdist.linux-i686/wheel/./pybel/schema/node_types/variants/hgvs
copying build/lib/pybel/schema/node_types/variants/hgvs/base_hgvs.schema.json -> build/bdist.linux-i686/wheel/./pybel/schema/node_types/variants/hgvs
copying build/lib/pybel/schema/node_types/variants/hgvs/protein_hgvs.schema.json -> build/bdist.linux-i686/wheel/./pybel/schema/node_types/variants/hgvs
copying build/lib/pybel/schema/node_types/variants/hgvs/rna_hgvs.schema.json -> build/bdist.linux-i686/wheel/./pybel/schema/node_types/variants/hgvs
copying build/lib/pybel/schema/node_types/variants/base_variant.schema.json -> build/bdist.linux-i686/wheel/./pybel/schema/node_types/variants
copying build/lib/pybel/schema/node_types/variants/gene_mod.schema.json -> build/bdist.linux-i686/wheel/./pybel/schema/node_types/variants
copying build/lib/pybel/schema/node_types/variants/protein_mod.schema.json -> build/bdist.linux-i686/wheel/./pybel/schema/node_types/variants
copying build/lib/pybel/schema/node_types/variants/fragment.schema.json -> build/bdist.linux-i686/wheel/./pybel/schema/node_types/variants
copying build/lib/pybel/repository.py -> build/bdist.linux-i686/wheel/./pybel
creating build/bdist.linux-i686/wheel/pybel/dsl
copying build/lib/pybel/dsl/exc.py -> build/bdist.linux-i686/wheel/./pybel/dsl
copying build/lib/pybel/dsl/constants.py -> build/bdist.linux-i686/wheel/./pybel/dsl
copying build/lib/pybel/dsl/edges.py -> build/bdist.linux-i686/wheel/./pybel/dsl
copying build/lib/pybel/dsl/__init__.py -> build/bdist.linux-i686/wheel/./pybel/dsl
copying build/lib/pybel/dsl/node_classes.py -> build/bdist.linux-i686/wheel/./pybel/dsl
copying build/lib/pybel/dsl/namespaces.py -> build/bdist.linux-i686/wheel/./pybel/dsl
copying build/lib/pybel/__main__.py -> build/bdist.linux-i686/wheel/./pybel
copying build/lib/pybel/exceptions.py -> build/bdist.linux-i686/wheel/./pybel
creating build/bdist.linux-i686/wheel/pybel/testing
copying build/lib/pybel/testing/generate.py -> build/bdist.linux-i686/wheel/./pybel/testing
copying build/lib/pybel/testing/mock_manager.py -> build/bdist.linux-i686/wheel/./pybel/testing
copying build/lib/pybel/testing/mocks.py -> build/bdist.linux-i686/wheel/./pybel/testing
copying build/lib/pybel/testing/constants.py -> build/bdist.linux-i686/wheel/./pybel/testing
copying build/lib/pybel/testing/__init__.py -> build/bdist.linux-i686/wheel/./pybel/testing
copying build/lib/pybel/testing/cases.py -> build/bdist.linux-i686/wheel/./pybel/testing
copying build/lib/pybel/testing/utils.py -> build/bdist.linux-i686/wheel/./pybel/testing
creating build/bdist.linux-i686/wheel/pybel/testing/resources
creating build/bdist.linux-i686/wheel/pybel/testing/resources/belanno
copying build/lib/pybel/testing/resources/belanno/confidence-1.0.0.belanno -> build/bdist.linux-i686/wheel/./pybel/testing/resources/belanno
copying build/lib/pybel/testing/resources/belanno/cell-line.belanno -> build/bdist.linux-i686/wheel/./pybel/testing/resources/belanno
copying build/lib/pybel/testing/resources/belanno/mesh-diseases.belanno -> build/bdist.linux-i686/wheel/./pybel/testing/resources/belanno
copying build/lib/pybel/testing/resources/belanno/species-taxonomy-id.belanno -> build/bdist.linux-i686/wheel/./pybel/testing/resources/belanno
copying build/lib/pybel/testing/resources/belanno/test_an_1.belanno -> build/bdist.linux-i686/wheel/./pybel/testing/resources/belanno
creating build/bdist.linux-i686/wheel/pybel/testing/resources/belns
copying build/lib/pybel/testing/resources/belns/test_ns_1_updated.belns -> build/bdist.linux-i686/wheel/./pybel/testing/resources/belns
copying build/lib/pybel/testing/resources/belns/test_ns_empty.belns -> build/bdist.linux-i686/wheel/./pybel/testing/resources/belns
copying build/lib/pybel/testing/resources/belns/mesh-names.belns -> build/bdist.linux-i686/wheel/./pybel/testing/resources/belns
copying build/lib/pybel/testing/resources/belns/chebi-names.belns -> build/bdist.linux-i686/wheel/./pybel/testing/resources/belns
copying build/lib/pybel/testing/resources/belns/go-names.belns -> build/bdist.linux-i686/wheel/./pybel/testing/resources/belns
copying build/lib/pybel/testing/resources/belns/hgnc-names.belns -> build/bdist.linux-i686/wheel/./pybel/testing/resources/belns
copying build/lib/pybel/testing/resources/belns/test_ns_1.belns -> build/bdist.linux-i686/wheel/./pybel/testing/resources/belns
copying build/lib/pybel/testing/resources/belns/test_ns_2.belns -> build/bdist.linux-i686/wheel/./pybel/testing/resources/belns
copying build/lib/pybel/testing/resources/belns/disease-ontology.belns -> build/bdist.linux-i686/wheel/./pybel/testing/resources/belns
creating build/bdist.linux-i686/wheel/pybel/testing/resources/bel
copying build/lib/pybel/testing/resources/bel/obo.bel -> build/bdist.linux-i686/wheel/./pybel/testing/resources/bel
copying build/lib/pybel/testing/resources/bel/test_bel.bel -> build/bdist.linux-i686/wheel/./pybel/testing/resources/bel
copying build/lib/pybel/testing/resources/bel/isolated.bel -> build/bdist.linux-i686/wheel/./pybel/testing/resources/bel
copying build/lib/pybel/testing/resources/bel/Cytotoxic T-cell Signaling-2.0-Hs.json -> build/bdist.linux-i686/wheel/./pybel/testing/resources/bel
copying build/lib/pybel/testing/resources/bel/thorough.bel -> build/bdist.linux-i686/wheel/./pybel/testing/resources/bel
copying build/lib/pybel/testing/resources/bel/misordered.bel -> build/bdist.linux-i686/wheel/./pybel/testing/resources/bel
copying build/lib/pybel/testing/resources/bel/slushy.bel -> build/bdist.linux-i686/wheel/./pybel/testing/resources/bel
copying build/lib/pybel/__init__.py -> build/bdist.linux-i686/wheel/./pybel
copying build/lib/pybel/language.py -> build/bdist.linux-i686/wheel/./pybel
creating build/bdist.linux-i686/wheel/pybel/manager
copying build/lib/pybel/manager/exc.py -> build/bdist.linux-i686/wheel/./pybel/manager
copying build/lib/pybel/manager/lookup_manager.py -> build/bdist.linux-i686/wheel/./pybel/manager
copying build/lib/pybel/manager/query_manager.py -> build/bdist.linux-i686/wheel/./pybel/manager
copying build/lib/pybel/manager/citation_utils.py -> build/bdist.linux-i686/wheel/./pybel/manager
copying build/lib/pybel/manager/database_io.py -> build/bdist.linux-i686/wheel/./pybel/manager
copying build/lib/pybel/manager/base_manager.py -> build/bdist.linux-i686/wheel/./pybel/manager
copying build/lib/pybel/manager/cache_manager.py -> build/bdist.linux-i686/wheel/./pybel/manager
copying build/lib/pybel/manager/__init__.py -> build/bdist.linux-i686/wheel/./pybel/manager
copying build/lib/pybel/manager/make_json_serializable.py -> build/bdist.linux-i686/wheel/./pybel/manager
copying build/lib/pybel/manager/utils.py -> build/bdist.linux-i686/wheel/./pybel/manager
copying build/lib/pybel/manager/models.py -> build/bdist.linux-i686/wheel/./pybel/manager
copying build/lib/pybel/utils.py -> build/bdist.linux-i686/wheel/./pybel
creating build/bdist.linux-i686/wheel/pybel/parser
copying build/lib/pybel/parser/baseparser.py -> build/bdist.linux-i686/wheel/./pybel/parser
copying build/lib/pybel/parser/parse_metadata.py -> build/bdist.linux-i686/wheel/./pybel/parser
copying build/lib/pybel/parser/constants.py -> build/bdist.linux-i686/wheel/./pybel/parser
copying build/lib/pybel/parser/parse_bel.py -> build/bdist.linux-i686/wheel/./pybel/parser
copying build/lib/pybel/parser/__init__.py -> build/bdist.linux-i686/wheel/./pybel/parser
copying build/lib/pybel/parser/parse_concept.py -> build/bdist.linux-i686/wheel/./pybel/parser
copying build/lib/pybel/parser/utils.py -> build/bdist.linux-i686/wheel/./pybel/parser
creating build/bdist.linux-i686/wheel/pybel/parser/modifiers
copying build/lib/pybel/parser/modifiers/protein_modification.py -> build/bdist.linux-i686/wheel/./pybel/parser/modifiers
copying build/lib/pybel/parser/modifiers/gene_modification.py -> build/bdist.linux-i686/wheel/./pybel/parser/modifiers
copying build/lib/pybel/parser/modifiers/fusion.py -> build/bdist.linux-i686/wheel/./pybel/parser/modifiers
copying build/lib/pybel/parser/modifiers/truncation.py -> build/bdist.linux-i686/wheel/./pybel/parser/modifiers
copying build/lib/pybel/parser/modifiers/constants.py -> build/bdist.linux-i686/wheel/./pybel/parser/modifiers
copying build/lib/pybel/parser/modifiers/location.py -> build/bdist.linux-i686/wheel/./pybel/parser/modifiers
copying build/lib/pybel/parser/modifiers/__init__.py -> build/bdist.linux-i686/wheel/./pybel/parser/modifiers
copying build/lib/pybel/parser/modifiers/gene_substitution.py -> build/bdist.linux-i686/wheel/./pybel/parser/modifiers
copying build/lib/pybel/parser/modifiers/fragment.py -> build/bdist.linux-i686/wheel/./pybel/parser/modifiers
copying build/lib/pybel/parser/modifiers/variant.py -> build/bdist.linux-i686/wheel/./pybel/parser/modifiers
copying build/lib/pybel/parser/modifiers/protein_substitution.py -> build/bdist.linux-i686/wheel/./pybel/parser/modifiers
copying build/lib/pybel/parser/parse_control.py -> build/bdist.linux-i686/wheel/./pybel/parser
copying build/lib/pybel/config.py -> build/bdist.linux-i686/wheel/./pybel
creating build/bdist.linux-i686/wheel/pybel/examples
copying build/lib/pybel/examples/homology_example.py -> build/bdist.linux-i686/wheel/./pybel/examples
copying build/lib/pybel/examples/egf_example.py -> build/bdist.linux-i686/wheel/./pybel/examples
copying build/lib/pybel/examples/various_example.py -> build/bdist.linux-i686/wheel/./pybel/examples
copying build/lib/pybel/examples/braf_example.py -> build/bdist.linux-i686/wheel/./pybel/examples
copying build/lib/pybel/examples/__init__.py -> build/bdist.linux-i686/wheel/./pybel/examples
copying build/lib/pybel/examples/tloc_example.py -> build/bdist.linux-i686/wheel/./pybel/examples
copying build/lib/pybel/examples/vegf_example.py -> build/bdist.linux-i686/wheel/./pybel/examples
copying build/lib/pybel/examples/ampk_example.py -> build/bdist.linux-i686/wheel/./pybel/examples
copying build/lib/pybel/examples/sialic_acid_example.py -> build/bdist.linux-i686/wheel/./pybel/examples
copying build/lib/pybel/examples/statin_example.py -> build/bdist.linux-i686/wheel/./pybel/examples
creating build/bdist.linux-i686/wheel/pybel/apps
copying build/lib/pybel/apps/parser.py -> build/bdist.linux-i686/wheel/./pybel/apps
creating build/bdist.linux-i686/wheel/pybel/struct
creating build/bdist.linux-i686/wheel/pybel/struct/filters
copying build/lib/pybel/struct/filters/edge_predicate_builders.py -> build/bdist.linux-i686/wheel/./pybel/struct/filters
copying build/lib/pybel/struct/filters/node_predicate_builders.py -> build/bdist.linux-i686/wheel/./pybel/struct/filters
copying build/lib/pybel/struct/filters/edge_predicates.py -> build/bdist.linux-i686/wheel/./pybel/struct/filters
copying build/lib/pybel/struct/filters/typing.py -> build/bdist.linux-i686/wheel/./pybel/struct/filters
creating build/bdist.linux-i686/wheel/pybel/struct/filters/node_predicates
copying build/lib/pybel/struct/filters/node_predicates/modifications.py -> build/bdist.linux-i686/wheel/./pybel/struct/filters/node_predicates
copying build/lib/pybel/struct/filters/node_predicates/activities.py -> build/bdist.linux-i686/wheel/./pybel/struct/filters/node_predicates
copying build/lib/pybel/struct/filters/node_predicates/misc.py -> build/bdist.linux-i686/wheel/./pybel/struct/filters/node_predicates
copying build/lib/pybel/struct/filters/node_predicates/__init__.py -> build/bdist.linux-i686/wheel/./pybel/struct/filters/node_predicates
copying build/lib/pybel/struct/filters/node_predicates/relations.py -> build/bdist.linux-i686/wheel/./pybel/struct/filters/node_predicates
copying build/lib/pybel/struct/filters/node_predicates/utils.py -> build/bdist.linux-i686/wheel/./pybel/struct/filters/node_predicates
copying build/lib/pybel/struct/filters/node_predicates/types.py -> build/bdist.linux-i686/wheel/./pybel/struct/filters/node_predicates
copying build/lib/pybel/struct/filters/__init__.py -> build/bdist.linux-i686/wheel/./pybel/struct/filters
copying build/lib/pybel/struct/filters/utils.py -> build/bdist.linux-i686/wheel/./pybel/struct/filters
copying build/lib/pybel/struct/filters/edge_filters.py -> build/bdist.linux-i686/wheel/./pybel/struct/filters
copying build/lib/pybel/struct/filters/node_filters.py -> build/bdist.linux-i686/wheel/./pybel/struct/filters
copying build/lib/pybel/struct/graph.py -> build/bdist.linux-i686/wheel/./pybel/struct
creating build/bdist.linux-i686/wheel/pybel/struct/query
copying build/lib/pybel/struct/query/exc.py -> build/bdist.linux-i686/wheel/./pybel/struct/query
copying build/lib/pybel/struct/query/constants.py -> build/bdist.linux-i686/wheel/./pybel/struct/query
copying build/lib/pybel/struct/query/seeding.py -> build/bdist.linux-i686/wheel/./pybel/struct/query
copying build/lib/pybel/struct/query/__init__.py -> build/bdist.linux-i686/wheel/./pybel/struct/query
copying build/lib/pybel/struct/query/query.py -> build/bdist.linux-i686/wheel/./pybel/struct/query
copying build/lib/pybel/struct/query/selection.py -> build/bdist.linux-i686/wheel/./pybel/struct/query
creating build/bdist.linux-i686/wheel/pybel/struct/summary
copying build/lib/pybel/struct/summary/edge_summary.py -> build/bdist.linux-i686/wheel/./pybel/struct/summary
copying build/lib/pybel/struct/summary/node_summary.py -> build/bdist.linux-i686/wheel/./pybel/struct/summary
copying build/lib/pybel/struct/summary/provenance.py -> build/bdist.linux-i686/wheel/./pybel/struct/summary
copying build/lib/pybel/struct/summary/supersummary.py -> build/bdist.linux-i686/wheel/./pybel/struct/summary
copying build/lib/pybel/struct/summary/__init__.py -> build/bdist.linux-i686/wheel/./pybel/struct/summary
copying build/lib/pybel/struct/summary/errors.py -> build/bdist.linux-i686/wheel/./pybel/struct/summary
creating build/bdist.linux-i686/wheel/pybel/struct/grouping
copying build/lib/pybel/struct/grouping/provenance.py -> build/bdist.linux-i686/wheel/./pybel/struct/grouping
copying build/lib/pybel/struct/grouping/__init__.py -> build/bdist.linux-i686/wheel/./pybel/struct/grouping
copying build/lib/pybel/struct/grouping/annotations.py -> build/bdist.linux-i686/wheel/./pybel/struct/grouping
creating build/bdist.linux-i686/wheel/pybel/struct/mutation
creating build/bdist.linux-i686/wheel/pybel/struct/mutation/deletion
copying build/lib/pybel/struct/mutation/deletion/protein_rna_origins.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/deletion
copying build/lib/pybel/struct/mutation/deletion/deletion.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/deletion
copying build/lib/pybel/struct/mutation/deletion/__init__.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/deletion
creating build/bdist.linux-i686/wheel/pybel/struct/mutation/collapse
copying build/lib/pybel/struct/mutation/collapse/protein_rna_origins.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/collapse
copying build/lib/pybel/struct/mutation/collapse/__init__.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/collapse
copying build/lib/pybel/struct/mutation/collapse/collapse.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/collapse
copying build/lib/pybel/struct/mutation/__init__.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation
creating build/bdist.linux-i686/wheel/pybel/struct/mutation/expansion
copying build/lib/pybel/struct/mutation/expansion/upstream.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/expansion
copying build/lib/pybel/struct/mutation/expansion/neighborhood.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/expansion
copying build/lib/pybel/struct/mutation/expansion/__init__.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/expansion
copying build/lib/pybel/struct/mutation/induction_expansion.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation
copying build/lib/pybel/struct/mutation/utils.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation
creating build/bdist.linux-i686/wheel/pybel/struct/mutation/inference
copying build/lib/pybel/struct/mutation/inference/transfer.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/inference
copying build/lib/pybel/struct/mutation/inference/protein_rna_origins.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/inference
copying build/lib/pybel/struct/mutation/inference/__init__.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/inference
copying build/lib/pybel/struct/mutation/metadata.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation
creating build/bdist.linux-i686/wheel/pybel/struct/mutation/induction
copying build/lib/pybel/struct/mutation/induction/random_subgraph.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/induction
copying build/lib/pybel/struct/mutation/induction/upstream.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/induction
copying build/lib/pybel/struct/mutation/induction/neighborhood.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/induction
copying build/lib/pybel/struct/mutation/induction/__init__.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/induction
copying build/lib/pybel/struct/mutation/induction/paths.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/induction
copying build/lib/pybel/struct/mutation/induction/annotations.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/induction
copying build/lib/pybel/struct/mutation/induction/utils.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/induction
copying build/lib/pybel/struct/mutation/induction/citation.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/induction
creating build/bdist.linux-i686/wheel/pybel/struct/pipeline
copying build/lib/pybel/struct/pipeline/exc.py -> build/bdist.linux-i686/wheel/./pybel/struct/pipeline
copying build/lib/pybel/struct/pipeline/decorators.py -> build/bdist.linux-i686/wheel/./pybel/struct/pipeline
copying build/lib/pybel/struct/pipeline/__init__.py -> build/bdist.linux-i686/wheel/./pybel/struct/pipeline
copying build/lib/pybel/struct/pipeline/pipeline.py -> build/bdist.linux-i686/wheel/./pybel/struct/pipeline
copying build/lib/pybel/struct/__init__.py -> build/bdist.linux-i686/wheel/./pybel/struct
copying build/lib/pybel/struct/node_utils.py -> build/bdist.linux-i686/wheel/./pybel/struct
copying build/lib/pybel/struct/utils.py -> build/bdist.linux-i686/wheel/./pybel/struct
copying build/lib/pybel/struct/getters.py -> build/bdist.linux-i686/wheel/./pybel/struct
copying build/lib/pybel/struct/operations.py -> build/bdist.linux-i686/wheel/./pybel/struct
creating build/bdist.linux-i686/wheel/pybel/resources
copying build/lib/pybel/resources/constants.py -> build/bdist.linux-i686/wheel/./pybel/resources
copying build/lib/pybel/resources/resources.py -> build/bdist.linux-i686/wheel/./pybel/resources
copying build/lib/pybel/resources/__init__.py -> build/bdist.linux-i686/wheel/./pybel/resources
copying build/lib/pybel/resources/update_resources.py -> build/bdist.linux-i686/wheel/./pybel/resources
copying build/lib/pybel/cli.py -> build/bdist.linux-i686/wheel/./pybel
running install_egg_info
Copying src/pybel.egg-info to build/bdist.linux-i686/wheel/./pybel-0.15.5.egg-info
running install_scripts
creating build/bdist.linux-i686/wheel/pybel-0.15.5.dist-info/WHEEL
creating '/build/reproducible-path/pybel-0.15.5/.pybuild/cpython3_3.12_pybel/.tmp-2muqmh9z/pybel-0.15.5-py3-none-any.whl' and adding 'build/bdist.linux-i686/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-i686/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
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
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-i686/wheel
running install
running install_lib
creating build/bdist.linux-i686/wheel
creating build/bdist.linux-i686/wheel/pybel
creating build/bdist.linux-i686/wheel/pybel/io
copying build/lib/pybel/io/exc.py -> build/bdist.linux-i686/wheel/./pybel/io
creating build/bdist.linux-i686/wheel/pybel/io/jupyter
creating build/bdist.linux-i686/wheel/pybel/io/jupyter/templates
copying build/lib/pybel/io/jupyter/templates/pybel_jupyter.js -> build/bdist.linux-i686/wheel/./pybel/io/jupyter/templates
copying build/lib/pybel/io/jupyter/templates/graph_template.html -> build/bdist.linux-i686/wheel/./pybel/io/jupyter/templates
copying build/lib/pybel/io/jupyter/templates/pybel_vis.js -> build/bdist.linux-i686/wheel/./pybel/io/jupyter/templates
copying build/lib/pybel/io/jupyter/constants.py -> build/bdist.linux-i686/wheel/./pybel/io/jupyter
copying build/lib/pybel/io/jupyter/inline.py -> build/bdist.linux-i686/wheel/./pybel/io/jupyter
copying build/lib/pybel/io/jupyter/__init__.py -> build/bdist.linux-i686/wheel/./pybel/io/jupyter
copying build/lib/pybel/io/jupyter/visualization.py -> build/bdist.linux-i686/wheel/./pybel/io/jupyter
copying build/lib/pybel/io/gpickle.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/line_utils.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/graphml.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/cx.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/emmaa.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/extras.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/indra.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/biodati_client.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/bel_commons_client.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/nodelink.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/pykeen.py -> build/bdist.linux-i686/wheel/./pybel/io
creating build/bdist.linux-i686/wheel/pybel/io/triples
copying build/lib/pybel/io/triples/__init__.py -> build/bdist.linux-i686/wheel/./pybel/io/triples
copying build/lib/pybel/io/triples/converters.py -> build/bdist.linux-i686/wheel/./pybel/io/triples
copying build/lib/pybel/io/triples/api.py -> build/bdist.linux-i686/wheel/./pybel/io/triples
copying build/lib/pybel/io/jgif.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/__init__.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/spia.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/lines.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/hipathia.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/sbel.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/utils.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/aws.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/umbrella_nodelink.py -> build/bdist.linux-i686/wheel/./pybel/io
creating build/bdist.linux-i686/wheel/pybel/io/tsv
copying build/lib/pybel/io/tsv/__init__.py -> build/bdist.linux-i686/wheel/./pybel/io/tsv
copying build/lib/pybel/io/tsv/converters.py -> build/bdist.linux-i686/wheel/./pybel/io/tsv
copying build/lib/pybel/io/tsv/api.py -> build/bdist.linux-i686/wheel/./pybel/io/tsv
copying build/lib/pybel/io/neo4j.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/fraunhofer_orientdb.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/jinja_utils.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/api.py -> build/bdist.linux-i686/wheel/./pybel/io
creating build/bdist.linux-i686/wheel/pybel/io/hetionet
copying build/lib/pybel/io/hetionet/constants.py -> build/bdist.linux-i686/wheel/./pybel/io/hetionet
copying build/lib/pybel/io/hetionet/hetionet.py -> build/bdist.linux-i686/wheel/./pybel/io/hetionet
copying build/lib/pybel/io/hetionet/__main__.py -> build/bdist.linux-i686/wheel/./pybel/io/hetionet
copying build/lib/pybel/io/hetionet/__init__.py -> build/bdist.linux-i686/wheel/./pybel/io/hetionet
copying build/lib/pybel/io/hetionet/cli.py -> build/bdist.linux-i686/wheel/./pybel/io/hetionet
copying build/lib/pybel/io/pynpa.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/io/graphdati.py -> build/bdist.linux-i686/wheel/./pybel/io
copying build/lib/pybel/tokens.py -> build/bdist.linux-i686/wheel/./pybel
copying build/lib/pybel/canonicalize.py -> build/bdist.linux-i686/wheel/./pybel
copying build/lib/pybel/version.py -> build/bdist.linux-i686/wheel/./pybel
copying build/lib/pybel/constants.py -> build/bdist.linux-i686/wheel/./pybel
copying build/lib/pybel/typing.py -> build/bdist.linux-i686/wheel/./pybel
copying build/lib/pybel/grounding.py -> build/bdist.linux-i686/wheel/./pybel
creating build/bdist.linux-i686/wheel/pybel/schema
copying build/lib/pybel/schema/edge.schema.json -> build/bdist.linux-i686/wheel/./pybel/schema
copying build/lib/pybel/schema/entity.schema.json -> build/bdist.linux-i686/wheel/./pybel/schema
copying build/lib/pybel/schema/__init__.py -> build/bdist.linux-i686/wheel/./pybel/schema
copying build/lib/pybel/schema/modifier.schema.json -> build/bdist.linux-i686/wheel/./pybel/schema
copying build/lib/pybel/schema/base_node.schema.json -> build/bdist.linux-i686/wheel/./pybel/schema
creating build/bdist.linux-i686/wheel/pybel/schema/node_types
copying build/lib/pybel/schema/node_types/base_abundance.schema.json -> build/bdist.linux-i686/wheel/./pybel/schema/node_types
copying build/lib/pybel/schema/node_types/reaction.schema.json -> build/bdist.linux-i686/wheel/./pybel/schema/node_types
copying build/lib/pybel/schema/node_types/fusion.schema.json -> build/bdist.linux-i686/wheel/./pybel/schema/node_types
copying build/lib/pybel/schema/node_types/fusion_range.schema.json -> build/bdist.linux-i686/wheel/./pybel/schema/node_types
copying build/lib/pybel/schema/node_types/list_abundance.schema.json -> build/bdist.linux-i686/wheel/./pybel/schema/node_types
creating build/bdist.linux-i686/wheel/pybel/schema/node_types/variants
creating build/bdist.linux-i686/wheel/pybel/schema/node_types/variants/hgvs
copying build/lib/pybel/schema/node_types/variants/hgvs/gene_hgvs.schema.json -> build/bdist.linux-i686/wheel/./pybel/schema/node_types/variants/hgvs
copying build/lib/pybel/schema/node_types/variants/hgvs/base_hgvs.schema.json -> build/bdist.linux-i686/wheel/./pybel/schema/node_types/variants/hgvs
copying build/lib/pybel/schema/node_types/variants/hgvs/protein_hgvs.schema.json -> build/bdist.linux-i686/wheel/./pybel/schema/node_types/variants/hgvs
copying build/lib/pybel/schema/node_types/variants/hgvs/rna_hgvs.schema.json -> build/bdist.linux-i686/wheel/./pybel/schema/node_types/variants/hgvs
copying build/lib/pybel/schema/node_types/variants/base_variant.schema.json -> build/bdist.linux-i686/wheel/./pybel/schema/node_types/variants
copying build/lib/pybel/schema/node_types/variants/gene_mod.schema.json -> build/bdist.linux-i686/wheel/./pybel/schema/node_types/variants
copying build/lib/pybel/schema/node_types/variants/protein_mod.schema.json -> build/bdist.linux-i686/wheel/./pybel/schema/node_types/variants
copying build/lib/pybel/schema/node_types/variants/fragment.schema.json -> build/bdist.linux-i686/wheel/./pybel/schema/node_types/variants
copying build/lib/pybel/repository.py -> build/bdist.linux-i686/wheel/./pybel
creating build/bdist.linux-i686/wheel/pybel/dsl
copying build/lib/pybel/dsl/exc.py -> build/bdist.linux-i686/wheel/./pybel/dsl
copying build/lib/pybel/dsl/constants.py -> build/bdist.linux-i686/wheel/./pybel/dsl
copying build/lib/pybel/dsl/edges.py -> build/bdist.linux-i686/wheel/./pybel/dsl
copying build/lib/pybel/dsl/__init__.py -> build/bdist.linux-i686/wheel/./pybel/dsl
copying build/lib/pybel/dsl/node_classes.py -> build/bdist.linux-i686/wheel/./pybel/dsl
copying build/lib/pybel/dsl/namespaces.py -> build/bdist.linux-i686/wheel/./pybel/dsl
copying build/lib/pybel/__main__.py -> build/bdist.linux-i686/wheel/./pybel
copying build/lib/pybel/exceptions.py -> build/bdist.linux-i686/wheel/./pybel
creating build/bdist.linux-i686/wheel/pybel/testing
copying build/lib/pybel/testing/generate.py -> build/bdist.linux-i686/wheel/./pybel/testing
copying build/lib/pybel/testing/mock_manager.py -> build/bdist.linux-i686/wheel/./pybel/testing
copying build/lib/pybel/testing/mocks.py -> build/bdist.linux-i686/wheel/./pybel/testing
copying build/lib/pybel/testing/constants.py -> build/bdist.linux-i686/wheel/./pybel/testing
copying build/lib/pybel/testing/__init__.py -> build/bdist.linux-i686/wheel/./pybel/testing
copying build/lib/pybel/testing/cases.py -> build/bdist.linux-i686/wheel/./pybel/testing
copying build/lib/pybel/testing/utils.py -> build/bdist.linux-i686/wheel/./pybel/testing
creating build/bdist.linux-i686/wheel/pybel/testing/resources
creating build/bdist.linux-i686/wheel/pybel/testing/resources/belanno
copying build/lib/pybel/testing/resources/belanno/confidence-1.0.0.belanno -> build/bdist.linux-i686/wheel/./pybel/testing/resources/belanno
copying build/lib/pybel/testing/resources/belanno/cell-line.belanno -> build/bdist.linux-i686/wheel/./pybel/testing/resources/belanno
copying build/lib/pybel/testing/resources/belanno/mesh-diseases.belanno -> build/bdist.linux-i686/wheel/./pybel/testing/resources/belanno
copying build/lib/pybel/testing/resources/belanno/species-taxonomy-id.belanno -> build/bdist.linux-i686/wheel/./pybel/testing/resources/belanno
copying build/lib/pybel/testing/resources/belanno/test_an_1.belanno -> build/bdist.linux-i686/wheel/./pybel/testing/resources/belanno
creating build/bdist.linux-i686/wheel/pybel/testing/resources/belns
copying build/lib/pybel/testing/resources/belns/test_ns_1_updated.belns -> build/bdist.linux-i686/wheel/./pybel/testing/resources/belns
copying build/lib/pybel/testing/resources/belns/test_ns_empty.belns -> build/bdist.linux-i686/wheel/./pybel/testing/resources/belns
copying build/lib/pybel/testing/resources/belns/mesh-names.belns -> build/bdist.linux-i686/wheel/./pybel/testing/resources/belns
copying build/lib/pybel/testing/resources/belns/chebi-names.belns -> build/bdist.linux-i686/wheel/./pybel/testing/resources/belns
copying build/lib/pybel/testing/resources/belns/go-names.belns -> build/bdist.linux-i686/wheel/./pybel/testing/resources/belns
copying build/lib/pybel/testing/resources/belns/hgnc-names.belns -> build/bdist.linux-i686/wheel/./pybel/testing/resources/belns
copying build/lib/pybel/testing/resources/belns/test_ns_1.belns -> build/bdist.linux-i686/wheel/./pybel/testing/resources/belns
copying build/lib/pybel/testing/resources/belns/test_ns_2.belns -> build/bdist.linux-i686/wheel/./pybel/testing/resources/belns
copying build/lib/pybel/testing/resources/belns/disease-ontology.belns -> build/bdist.linux-i686/wheel/./pybel/testing/resources/belns
creating build/bdist.linux-i686/wheel/pybel/testing/resources/bel
copying build/lib/pybel/testing/resources/bel/obo.bel -> build/bdist.linux-i686/wheel/./pybel/testing/resources/bel
copying build/lib/pybel/testing/resources/bel/test_bel.bel -> build/bdist.linux-i686/wheel/./pybel/testing/resources/bel
copying build/lib/pybel/testing/resources/bel/isolated.bel -> build/bdist.linux-i686/wheel/./pybel/testing/resources/bel
copying build/lib/pybel/testing/resources/bel/Cytotoxic T-cell Signaling-2.0-Hs.json -> build/bdist.linux-i686/wheel/./pybel/testing/resources/bel
copying build/lib/pybel/testing/resources/bel/thorough.bel -> build/bdist.linux-i686/wheel/./pybel/testing/resources/bel
copying build/lib/pybel/testing/resources/bel/misordered.bel -> build/bdist.linux-i686/wheel/./pybel/testing/resources/bel
copying build/lib/pybel/testing/resources/bel/slushy.bel -> build/bdist.linux-i686/wheel/./pybel/testing/resources/bel
copying build/lib/pybel/__init__.py -> build/bdist.linux-i686/wheel/./pybel
copying build/lib/pybel/language.py -> build/bdist.linux-i686/wheel/./pybel
creating build/bdist.linux-i686/wheel/pybel/manager
copying build/lib/pybel/manager/exc.py -> build/bdist.linux-i686/wheel/./pybel/manager
copying build/lib/pybel/manager/lookup_manager.py -> build/bdist.linux-i686/wheel/./pybel/manager
copying build/lib/pybel/manager/query_manager.py -> build/bdist.linux-i686/wheel/./pybel/manager
copying build/lib/pybel/manager/citation_utils.py -> build/bdist.linux-i686/wheel/./pybel/manager
copying build/lib/pybel/manager/database_io.py -> build/bdist.linux-i686/wheel/./pybel/manager
copying build/lib/pybel/manager/base_manager.py -> build/bdist.linux-i686/wheel/./pybel/manager
copying build/lib/pybel/manager/cache_manager.py -> build/bdist.linux-i686/wheel/./pybel/manager
copying build/lib/pybel/manager/__init__.py -> build/bdist.linux-i686/wheel/./pybel/manager
copying build/lib/pybel/manager/make_json_serializable.py -> build/bdist.linux-i686/wheel/./pybel/manager
copying build/lib/pybel/manager/utils.py -> build/bdist.linux-i686/wheel/./pybel/manager
copying build/lib/pybel/manager/models.py -> build/bdist.linux-i686/wheel/./pybel/manager
copying build/lib/pybel/utils.py -> build/bdist.linux-i686/wheel/./pybel
creating build/bdist.linux-i686/wheel/pybel/parser
copying build/lib/pybel/parser/baseparser.py -> build/bdist.linux-i686/wheel/./pybel/parser
copying build/lib/pybel/parser/parse_metadata.py -> build/bdist.linux-i686/wheel/./pybel/parser
copying build/lib/pybel/parser/constants.py -> build/bdist.linux-i686/wheel/./pybel/parser
copying build/lib/pybel/parser/parse_bel.py -> build/bdist.linux-i686/wheel/./pybel/parser
copying build/lib/pybel/parser/__init__.py -> build/bdist.linux-i686/wheel/./pybel/parser
copying build/lib/pybel/parser/parse_concept.py -> build/bdist.linux-i686/wheel/./pybel/parser
copying build/lib/pybel/parser/utils.py -> build/bdist.linux-i686/wheel/./pybel/parser
creating build/bdist.linux-i686/wheel/pybel/parser/modifiers
copying build/lib/pybel/parser/modifiers/protein_modification.py -> build/bdist.linux-i686/wheel/./pybel/parser/modifiers
copying build/lib/pybel/parser/modifiers/gene_modification.py -> build/bdist.linux-i686/wheel/./pybel/parser/modifiers
copying build/lib/pybel/parser/modifiers/fusion.py -> build/bdist.linux-i686/wheel/./pybel/parser/modifiers
copying build/lib/pybel/parser/modifiers/truncation.py -> build/bdist.linux-i686/wheel/./pybel/parser/modifiers
copying build/lib/pybel/parser/modifiers/constants.py -> build/bdist.linux-i686/wheel/./pybel/parser/modifiers
copying build/lib/pybel/parser/modifiers/location.py -> build/bdist.linux-i686/wheel/./pybel/parser/modifiers
copying build/lib/pybel/parser/modifiers/__init__.py -> build/bdist.linux-i686/wheel/./pybel/parser/modifiers
copying build/lib/pybel/parser/modifiers/gene_substitution.py -> build/bdist.linux-i686/wheel/./pybel/parser/modifiers
copying build/lib/pybel/parser/modifiers/fragment.py -> build/bdist.linux-i686/wheel/./pybel/parser/modifiers
copying build/lib/pybel/parser/modifiers/variant.py -> build/bdist.linux-i686/wheel/./pybel/parser/modifiers
copying build/lib/pybel/parser/modifiers/protein_substitution.py -> build/bdist.linux-i686/wheel/./pybel/parser/modifiers
copying build/lib/pybel/parser/parse_control.py -> build/bdist.linux-i686/wheel/./pybel/parser
copying build/lib/pybel/config.py -> build/bdist.linux-i686/wheel/./pybel
creating build/bdist.linux-i686/wheel/pybel/examples
copying build/lib/pybel/examples/homology_example.py -> build/bdist.linux-i686/wheel/./pybel/examples
copying build/lib/pybel/examples/egf_example.py -> build/bdist.linux-i686/wheel/./pybel/examples
copying build/lib/pybel/examples/various_example.py -> build/bdist.linux-i686/wheel/./pybel/examples
copying build/lib/pybel/examples/braf_example.py -> build/bdist.linux-i686/wheel/./pybel/examples
copying build/lib/pybel/examples/__init__.py -> build/bdist.linux-i686/wheel/./pybel/examples
copying build/lib/pybel/examples/tloc_example.py -> build/bdist.linux-i686/wheel/./pybel/examples
copying build/lib/pybel/examples/vegf_example.py -> build/bdist.linux-i686/wheel/./pybel/examples
copying build/lib/pybel/examples/ampk_example.py -> build/bdist.linux-i686/wheel/./pybel/examples
copying build/lib/pybel/examples/sialic_acid_example.py -> build/bdist.linux-i686/wheel/./pybel/examples
copying build/lib/pybel/examples/statin_example.py -> build/bdist.linux-i686/wheel/./pybel/examples
creating build/bdist.linux-i686/wheel/pybel/apps
copying build/lib/pybel/apps/parser.py -> build/bdist.linux-i686/wheel/./pybel/apps
creating build/bdist.linux-i686/wheel/pybel/struct
creating build/bdist.linux-i686/wheel/pybel/struct/filters
copying build/lib/pybel/struct/filters/edge_predicate_builders.py -> build/bdist.linux-i686/wheel/./pybel/struct/filters
copying build/lib/pybel/struct/filters/node_predicate_builders.py -> build/bdist.linux-i686/wheel/./pybel/struct/filters
copying build/lib/pybel/struct/filters/edge_predicates.py -> build/bdist.linux-i686/wheel/./pybel/struct/filters
copying build/lib/pybel/struct/filters/typing.py -> build/bdist.linux-i686/wheel/./pybel/struct/filters
creating build/bdist.linux-i686/wheel/pybel/struct/filters/node_predicates
copying build/lib/pybel/struct/filters/node_predicates/modifications.py -> build/bdist.linux-i686/wheel/./pybel/struct/filters/node_predicates
copying build/lib/pybel/struct/filters/node_predicates/activities.py -> build/bdist.linux-i686/wheel/./pybel/struct/filters/node_predicates
copying build/lib/pybel/struct/filters/node_predicates/misc.py -> build/bdist.linux-i686/wheel/./pybel/struct/filters/node_predicates
copying build/lib/pybel/struct/filters/node_predicates/__init__.py -> build/bdist.linux-i686/wheel/./pybel/struct/filters/node_predicates
copying build/lib/pybel/struct/filters/node_predicates/relations.py -> build/bdist.linux-i686/wheel/./pybel/struct/filters/node_predicates
copying build/lib/pybel/struct/filters/node_predicates/utils.py -> build/bdist.linux-i686/wheel/./pybel/struct/filters/node_predicates
copying build/lib/pybel/struct/filters/node_predicates/types.py -> build/bdist.linux-i686/wheel/./pybel/struct/filters/node_predicates
copying build/lib/pybel/struct/filters/__init__.py -> build/bdist.linux-i686/wheel/./pybel/struct/filters
copying build/lib/pybel/struct/filters/utils.py -> build/bdist.linux-i686/wheel/./pybel/struct/filters
copying build/lib/pybel/struct/filters/edge_filters.py -> build/bdist.linux-i686/wheel/./pybel/struct/filters
copying build/lib/pybel/struct/filters/node_filters.py -> build/bdist.linux-i686/wheel/./pybel/struct/filters
copying build/lib/pybel/struct/graph.py -> build/bdist.linux-i686/wheel/./pybel/struct
creating build/bdist.linux-i686/wheel/pybel/struct/query
copying build/lib/pybel/struct/query/exc.py -> build/bdist.linux-i686/wheel/./pybel/struct/query
copying build/lib/pybel/struct/query/constants.py -> build/bdist.linux-i686/wheel/./pybel/struct/query
copying build/lib/pybel/struct/query/seeding.py -> build/bdist.linux-i686/wheel/./pybel/struct/query
copying build/lib/pybel/struct/query/__init__.py -> build/bdist.linux-i686/wheel/./pybel/struct/query
copying build/lib/pybel/struct/query/query.py -> build/bdist.linux-i686/wheel/./pybel/struct/query
copying build/lib/pybel/struct/query/selection.py -> build/bdist.linux-i686/wheel/./pybel/struct/query
creating build/bdist.linux-i686/wheel/pybel/struct/summary
copying build/lib/pybel/struct/summary/edge_summary.py -> build/bdist.linux-i686/wheel/./pybel/struct/summary
copying build/lib/pybel/struct/summary/node_summary.py -> build/bdist.linux-i686/wheel/./pybel/struct/summary
copying build/lib/pybel/struct/summary/provenance.py -> build/bdist.linux-i686/wheel/./pybel/struct/summary
copying build/lib/pybel/struct/summary/supersummary.py -> build/bdist.linux-i686/wheel/./pybel/struct/summary
copying build/lib/pybel/struct/summary/__init__.py -> build/bdist.linux-i686/wheel/./pybel/struct/summary
copying build/lib/pybel/struct/summary/errors.py -> build/bdist.linux-i686/wheel/./pybel/struct/summary
creating build/bdist.linux-i686/wheel/pybel/struct/grouping
copying build/lib/pybel/struct/grouping/provenance.py -> build/bdist.linux-i686/wheel/./pybel/struct/grouping
copying build/lib/pybel/struct/grouping/__init__.py -> build/bdist.linux-i686/wheel/./pybel/struct/grouping
copying build/lib/pybel/struct/grouping/annotations.py -> build/bdist.linux-i686/wheel/./pybel/struct/grouping
creating build/bdist.linux-i686/wheel/pybel/struct/mutation
creating build/bdist.linux-i686/wheel/pybel/struct/mutation/deletion
copying build/lib/pybel/struct/mutation/deletion/protein_rna_origins.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/deletion
copying build/lib/pybel/struct/mutation/deletion/deletion.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/deletion
copying build/lib/pybel/struct/mutation/deletion/__init__.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/deletion
creating build/bdist.linux-i686/wheel/pybel/struct/mutation/collapse
copying build/lib/pybel/struct/mutation/collapse/protein_rna_origins.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/collapse
copying build/lib/pybel/struct/mutation/collapse/__init__.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/collapse
copying build/lib/pybel/struct/mutation/collapse/collapse.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/collapse
copying build/lib/pybel/struct/mutation/__init__.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation
creating build/bdist.linux-i686/wheel/pybel/struct/mutation/expansion
copying build/lib/pybel/struct/mutation/expansion/upstream.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/expansion
copying build/lib/pybel/struct/mutation/expansion/neighborhood.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/expansion
copying build/lib/pybel/struct/mutation/expansion/__init__.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/expansion
copying build/lib/pybel/struct/mutation/induction_expansion.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation
copying build/lib/pybel/struct/mutation/utils.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation
creating build/bdist.linux-i686/wheel/pybel/struct/mutation/inference
copying build/lib/pybel/struct/mutation/inference/transfer.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/inference
copying build/lib/pybel/struct/mutation/inference/protein_rna_origins.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/inference
copying build/lib/pybel/struct/mutation/inference/__init__.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/inference
copying build/lib/pybel/struct/mutation/metadata.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation
creating build/bdist.linux-i686/wheel/pybel/struct/mutation/induction
copying build/lib/pybel/struct/mutation/induction/random_subgraph.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/induction
copying build/lib/pybel/struct/mutation/induction/upstream.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/induction
copying build/lib/pybel/struct/mutation/induction/neighborhood.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/induction
copying build/lib/pybel/struct/mutation/induction/__init__.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/induction
copying build/lib/pybel/struct/mutation/induction/paths.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/induction
copying build/lib/pybel/struct/mutation/induction/annotations.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/induction
copying build/lib/pybel/struct/mutation/induction/utils.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/induction
copying build/lib/pybel/struct/mutation/induction/citation.py -> build/bdist.linux-i686/wheel/./pybel/struct/mutation/induction
creating build/bdist.linux-i686/wheel/pybel/struct/pipeline
copying build/lib/pybel/struct/pipeline/exc.py -> build/bdist.linux-i686/wheel/./pybel/struct/pipeline
copying build/lib/pybel/struct/pipeline/decorators.py -> build/bdist.linux-i686/wheel/./pybel/struct/pipeline
copying build/lib/pybel/struct/pipeline/__init__.py -> build/bdist.linux-i686/wheel/./pybel/struct/pipeline
copying build/lib/pybel/struct/pipeline/pipeline.py -> build/bdist.linux-i686/wheel/./pybel/struct/pipeline
copying build/lib/pybel/struct/__init__.py -> build/bdist.linux-i686/wheel/./pybel/struct
copying build/lib/pybel/struct/node_utils.py -> build/bdist.linux-i686/wheel/./pybel/struct
copying build/lib/pybel/struct/utils.py -> build/bdist.linux-i686/wheel/./pybel/struct
copying build/lib/pybel/struct/getters.py -> build/bdist.linux-i686/wheel/./pybel/struct
copying build/lib/pybel/struct/operations.py -> build/bdist.linux-i686/wheel/./pybel/struct
creating build/bdist.linux-i686/wheel/pybel/resources
copying build/lib/pybel/resources/constants.py -> build/bdist.linux-i686/wheel/./pybel/resources
copying build/lib/pybel/resources/resources.py -> build/bdist.linux-i686/wheel/./pybel/resources
copying build/lib/pybel/resources/__init__.py -> build/bdist.linux-i686/wheel/./pybel/resources
copying build/lib/pybel/resources/update_resources.py -> build/bdist.linux-i686/wheel/./pybel/resources
copying build/lib/pybel/cli.py -> build/bdist.linux-i686/wheel/./pybel
running install_egg_info
Copying src/pybel.egg-info to build/bdist.linux-i686/wheel/./pybel-0.15.5.egg-info
running install_scripts
creating build/bdist.linux-i686/wheel/pybel-0.15.5.dist-info/WHEEL
creating '/build/reproducible-path/pybel-0.15.5/.pybuild/cpython3_3.13_pybel/.tmp-q83qre10/pybel-0.15.5-py3-none-any.whl' and adding 'build/bdist.linux-i686/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-i686/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
dh_auto_test -O--buildsystem=pybuild
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 3.12.9, 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 9.21s =========
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 3.13.2, 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 8.55s =========
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 python3.12 to destdir
I: pybuild plugin_pyproject:178: Copying package built for python3.13 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_i386.buildinfo
dpkg-genchanges --build=binary -O../pybel_0.15.5-1_i386.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/124898 and its subdirectories
I: Current time: Sat Mar 21 19:46:52 -12 2026
I: pbuilder-time-stamp: 1774165612