2026-02-08T22:07:46,627 Created temporary directory: /tmp/pip-ephem-wheel-cache-6z_cxpp4 2026-02-08T22:07:46,629 Created temporary directory: /tmp/pip-build-tracker-z4ibjj18 2026-02-08T22:07:46,629 Initialized build tracking at /tmp/pip-build-tracker-z4ibjj18 2026-02-08T22:07:46,630 Created build tracker: /tmp/pip-build-tracker-z4ibjj18 2026-02-08T22:07:46,630 Entered build tracker: /tmp/pip-build-tracker-z4ibjj18 2026-02-08T22:07:46,631 Created temporary directory: /tmp/pip-wheel-q7_x6aw7 2026-02-08T22:07:46,633 DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453 2026-02-08T22:07:46,636 Created temporary directory: /tmp/pip-ephem-wheel-cache-5a4kcg4k 2026-02-08T22:07:46,659 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-02-08T22:07:46,662 2 location(s) to search for versions of aoptk: 2026-02-08T22:07:46,662 * https://pypi.org/simple/aoptk/ 2026-02-08T22:07:46,662 * https://www.piwheels.org/simple/aoptk/ 2026-02-08T22:07:46,663 Fetching project page and analyzing links: https://pypi.org/simple/aoptk/ 2026-02-08T22:07:46,664 Getting page https://pypi.org/simple/aoptk/ 2026-02-08T22:07:46,665 Found index url https://pypi.org/simple 2026-02-08T22:07:46,805 Fetched page https://pypi.org/simple/aoptk/ as application/vnd.pypi.simple.v1+json 2026-02-08T22:07:46,808 Skipping link: No binaries permitted for aoptk: https://files.pythonhosted.org/packages/4b/d6/384d5602117668d9368aaf2151a9b9eef9040cad1af0597c4a61a431dc32/aoptk-0.1.0-py3-none-any.whl (from https://pypi.org/simple/aoptk/) (requires-python:>=3.8) 2026-02-08T22:07:46,809 Found link https://files.pythonhosted.org/packages/3c/0b/6ee2e5619ce9230307113c992ace76e126a0afe211e6cff0114e5e21c555/aoptk-0.1.0.tar.gz (from https://pypi.org/simple/aoptk/) (requires-python:>=3.8), version: 0.1.0 2026-02-08T22:07:46,810 Skipping link: No binaries permitted for aoptk: https://files.pythonhosted.org/packages/39/08/e2621f4b2faf8e16aab6437af0245042fa1f56eb9e6d5b8a3497b0e4a42f/aoptk-0.1.1-py3-none-any.whl (from https://pypi.org/simple/aoptk/) (requires-python:>=3.8) 2026-02-08T22:07:46,811 Found link https://files.pythonhosted.org/packages/21/59/05f875bd1dd4c4edac306e1e85fc6c589b2fa00f94693287fd2249007416/aoptk-0.1.1.tar.gz (from https://pypi.org/simple/aoptk/) (requires-python:>=3.8), version: 0.1.1 2026-02-08T22:07:46,812 Skipping link: No binaries permitted for aoptk: https://files.pythonhosted.org/packages/25/8a/cc74e1935468567e709e4d0b0775fae7c7999f4d550d202554f26fc8807c/aoptk-0.1.3-py3-none-any.whl (from https://pypi.org/simple/aoptk/) (requires-python:>=3.10) 2026-02-08T22:07:46,813 Found link https://files.pythonhosted.org/packages/ab/ba/59d070d1e9e68886157fe9815f4808d34629cf444027b99cc6e37ff50fed/aoptk-0.1.3.tar.gz (from https://pypi.org/simple/aoptk/) (requires-python:>=3.10), version: 0.1.3 2026-02-08T22:07:46,814 Skipping link: No binaries permitted for aoptk: https://files.pythonhosted.org/packages/09/18/831de8fac3196d62e7bcc5f701d724a681903a24f8f2f69ad527ac00b7e3/aoptk-0.1.4-py3-none-any.whl (from https://pypi.org/simple/aoptk/) (requires-python:>=3.10) 2026-02-08T22:07:46,815 Found link https://files.pythonhosted.org/packages/97/5c/d4ee4004b70af67a4020e8960783876dac154a7440079530302dd88e93b8/aoptk-0.1.4.tar.gz (from https://pypi.org/simple/aoptk/) (requires-python:>=3.10), version: 0.1.4 2026-02-08T22:07:46,815 Skipping link: No binaries permitted for aoptk: https://files.pythonhosted.org/packages/08/a1/30a6bec86f370bdfa443cac60c93c5d03014808c364a2854ed0c2a5b91a9/aoptk-0.1.5-py3-none-any.whl (from https://pypi.org/simple/aoptk/) (requires-python:>=3.10) 2026-02-08T22:07:46,816 Found link https://files.pythonhosted.org/packages/a3/75/34369baf9135531f36e392c6ad20f1f9954e0b1fb7988f513bb84704507d/aoptk-0.1.5.tar.gz (from https://pypi.org/simple/aoptk/) (requires-python:>=3.10), version: 0.1.5 2026-02-08T22:07:46,817 Skipping link: No binaries permitted for aoptk: https://files.pythonhosted.org/packages/66/ed/b715ba2c6486fcbb10cbceaca45f2230b1330c5be19054afb704e8ccfadf/aoptk-0.1.6-py3-none-any.whl (from https://pypi.org/simple/aoptk/) (requires-python:>=3.10) 2026-02-08T22:07:46,818 Found link https://files.pythonhosted.org/packages/af/6a/a9593e3f2c2eeaaded381d65b77318caffde8f5a48d71a89bad93264fa60/aoptk-0.1.6.tar.gz (from https://pypi.org/simple/aoptk/) (requires-python:>=3.10), version: 0.1.6 2026-02-08T22:07:46,819 Skipping link: No binaries permitted for aoptk: https://files.pythonhosted.org/packages/db/eb/cb6f29cfaa33e3b014a5a30fa04bb03949c0d67cf7a93ecdcfc1b6fed0c6/aoptk-0.2.0-py3-none-any.whl (from https://pypi.org/simple/aoptk/) (requires-python:>=3.10) 2026-02-08T22:07:46,820 Found link https://files.pythonhosted.org/packages/ae/42/125a9d1b24aa3905e135286d1d915015175a4813e16f7319679083a7fe42/aoptk-0.2.0.tar.gz (from https://pypi.org/simple/aoptk/) (requires-python:>=3.10), version: 0.2.0 2026-02-08T22:07:46,820 Fetching project page and analyzing links: https://www.piwheels.org/simple/aoptk/ 2026-02-08T22:07:46,821 Getting page https://www.piwheels.org/simple/aoptk/ 2026-02-08T22:07:46,822 Found index url https://www.piwheels.org/simple 2026-02-08T22:07:46,987 Fetched page https://www.piwheels.org/simple/aoptk/ as text/html 2026-02-08T22:07:46,989 Skipping link: No binaries permitted for aoptk: https://www.piwheels.org/simple/aoptk/aoptk-0.1.3-py3-none-any.whl#sha256=c4498769b4890de65cc3350de686e24482781d49ec980ff56c661abd6dceda37 (from https://www.piwheels.org/simple/aoptk/) (requires-python:>=3.10) 2026-02-08T22:07:46,990 Skipping link: No binaries permitted for aoptk: https://www.piwheels.org/simple/aoptk/aoptk-0.1.1-py3-none-any.whl#sha256=7985d9a26e118e074b99d4d1e744a5096f4fb94be10bf74b56cf5b6aa116705a (from https://www.piwheels.org/simple/aoptk/) (requires-python:>=3.8) 2026-02-08T22:07:46,990 Skipping link: No binaries permitted for aoptk: https://www.piwheels.org/simple/aoptk/aoptk-0.1.0-py3-none-any.whl#sha256=198d0fc25eadbf1d18fa9ad643921c7ef552f7e75b1184be0690a45dfbf94086 (from https://www.piwheels.org/simple/aoptk/) (requires-python:>=3.8) 2026-02-08T22:07:46,991 Skipping link: not a file: https://www.piwheels.org/simple/aoptk/ 2026-02-08T22:07:46,991 Skipping link: not a file: https://pypi.org/simple/aoptk/ 2026-02-08T22:07:47,011 Given no hashes to check 1 links for project 'aoptk': discarding no candidates 2026-02-08T22:07:47,029 Collecting aoptk==0.1.4 2026-02-08T22:07:47,031 Created temporary directory: /tmp/pip-unpack-2biftnf3 2026-02-08T22:07:47,166 Downloading aoptk-0.1.4.tar.gz (167 kB) 2026-02-08T22:07:47,444 Added aoptk==0.1.4 from https://files.pythonhosted.org/packages/97/5c/d4ee4004b70af67a4020e8960783876dac154a7440079530302dd88e93b8/aoptk-0.1.4.tar.gz to build tracker '/tmp/pip-build-tracker-z4ibjj18' 2026-02-08T22:07:47,453 Created temporary directory: /tmp/pip-build-env-y762adqs 2026-02-08T22:07:47,457 Installing build dependencies: started 2026-02-08T22:07:47,458 Running command pip subprocess to install build dependencies 2026-02-08T22:07:48,623 Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11) 2026-02-08T22:07:49,237 DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453 2026-02-08T22:07:49,260 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-02-08T22:07:50,994 Collecting setuptools>=64.0.0 2026-02-08T22:07:51,014 Using cached setuptools-82.0.0-py3-none-any.whl (1.0 MB) 2026-02-08T22:07:51,379 Collecting setuptools-scm 2026-02-08T22:07:51,397 Using cached https://www.piwheels.org/simple/setuptools-scm/setuptools_scm-9.2.2-py3-none-any.whl (62 kB) 2026-02-08T22:07:51,629 Collecting wheel 2026-02-08T22:07:51,634 Using cached wheel-0.46.3-py3-none-any.whl (30 kB) 2026-02-08T22:07:51,824 Collecting packaging>=20 2026-02-08T22:07:51,831 Using cached packaging-26.0-py3-none-any.whl (74 kB) 2026-02-08T22:07:54,888 Installing collected packages: setuptools, packaging, wheel, setuptools-scm 2026-02-08T22:07:58,285 Creating /tmp/pip-build-env-y762adqs/overlay/local/bin 2026-02-08T22:07:58,287 changing mode of /tmp/pip-build-env-y762adqs/overlay/local/bin/wheel to 755 2026-02-08T22:07:58,561 changing mode of /tmp/pip-build-env-y762adqs/overlay/local/bin/setuptools-scm to 755 2026-02-08T22:07:58,601 Successfully installed packaging-26.0 setuptools-82.0.0 setuptools-scm-9.2.2 wheel-0.46.3 2026-02-08T22:07:58,913 Installing build dependencies: finished with status 'done' 2026-02-08T22:07:58,920 Getting requirements to build wheel: started 2026-02-08T22:07:58,921 Running command Getting requirements to build wheel 2026-02-08T22:07:59,562 toml section missing PosixPath('pyproject.toml') does not contain a tool.setuptools_scm section 2026-02-08T22:07:59,603 /tmp/pip-build-env-y762adqs/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsDeprecationWarning: `project.license` as a TOML table is deprecated 2026-02-08T22:07:59,604 !! 2026-02-08T22:07:59,605 ******************************************************************************** 2026-02-08T22:07:59,606 Please use a simple string containing a SPDX expression for `project.license`. You can also use `project.license-files`. (Both options available on setuptools>=77.0.0). 2026-02-08T22:07:59,607 By 2027-Feb-18, you need to update your project and remove deprecated calls 2026-02-08T22:07:59,607 or your builds will no longer be supported. 2026-02-08T22:07:59,608 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-02-08T22:07:59,609 ******************************************************************************** 2026-02-08T22:07:59,610 !! 2026-02-08T22:07:59,611 corresp(dist, value, root_dir) 2026-02-08T22:07:59,703 running egg_info 2026-02-08T22:07:59,711 writing src/aoptk.egg-info/PKG-INFO 2026-02-08T22:07:59,718 writing dependency_links to src/aoptk.egg-info/dependency_links.txt 2026-02-08T22:07:59,720 writing entry points to src/aoptk.egg-info/entry_points.txt 2026-02-08T22:07:59,724 writing requirements to src/aoptk.egg-info/requires.txt 2026-02-08T22:07:59,725 writing top-level names to src/aoptk.egg-info/top_level.txt 2026-02-08T22:07:59,781 listing git files failed - pretending there aren't any 2026-02-08T22:07:59,788 reading manifest file 'src/aoptk.egg-info/SOURCES.txt' 2026-02-08T22:07:59,797 reading manifest template 'MANIFEST.in' 2026-02-08T22:07:59,799 warning: no files found matching 'NOTICE' 2026-02-08T22:07:59,800 adding license file 'LICENSE' 2026-02-08T22:07:59,806 writing manifest file 'src/aoptk.egg-info/SOURCES.txt' 2026-02-08T22:07:59,911 Getting requirements to build wheel: finished with status 'done' 2026-02-08T22:07:59,915 Created temporary directory: /tmp/pip-modern-metadata-_t_sm3n6 2026-02-08T22:07:59,917 Preparing metadata (pyproject.toml): started 2026-02-08T22:07:59,918 Running command Preparing metadata (pyproject.toml) 2026-02-08T22:08:00,495 toml section missing PosixPath('pyproject.toml') does not contain a tool.setuptools_scm section 2026-02-08T22:08:00,535 /tmp/pip-build-env-y762adqs/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsDeprecationWarning: `project.license` as a TOML table is deprecated 2026-02-08T22:08:00,535 !! 2026-02-08T22:08:00,537 ******************************************************************************** 2026-02-08T22:08:00,538 Please use a simple string containing a SPDX expression for `project.license`. You can also use `project.license-files`. (Both options available on setuptools>=77.0.0). 2026-02-08T22:08:00,539 By 2027-Feb-18, you need to update your project and remove deprecated calls 2026-02-08T22:08:00,540 or your builds will no longer be supported. 2026-02-08T22:08:00,541 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-02-08T22:08:00,542 ******************************************************************************** 2026-02-08T22:08:00,542 !! 2026-02-08T22:08:00,543 corresp(dist, value, root_dir) 2026-02-08T22:08:00,630 running dist_info 2026-02-08T22:08:00,643 creating /tmp/pip-modern-metadata-_t_sm3n6/aoptk.egg-info 2026-02-08T22:08:00,644 writing /tmp/pip-modern-metadata-_t_sm3n6/aoptk.egg-info/PKG-INFO 2026-02-08T22:08:00,652 writing dependency_links to /tmp/pip-modern-metadata-_t_sm3n6/aoptk.egg-info/dependency_links.txt 2026-02-08T22:08:00,653 writing entry points to /tmp/pip-modern-metadata-_t_sm3n6/aoptk.egg-info/entry_points.txt 2026-02-08T22:08:00,657 writing requirements to /tmp/pip-modern-metadata-_t_sm3n6/aoptk.egg-info/requires.txt 2026-02-08T22:08:00,658 writing top-level names to /tmp/pip-modern-metadata-_t_sm3n6/aoptk.egg-info/top_level.txt 2026-02-08T22:08:00,660 writing manifest file '/tmp/pip-modern-metadata-_t_sm3n6/aoptk.egg-info/SOURCES.txt' 2026-02-08T22:08:00,711 listing git files failed - pretending there aren't any 2026-02-08T22:08:00,717 reading manifest file '/tmp/pip-modern-metadata-_t_sm3n6/aoptk.egg-info/SOURCES.txt' 2026-02-08T22:08:00,719 reading manifest template 'MANIFEST.in' 2026-02-08T22:08:00,720 warning: no files found matching 'NOTICE' 2026-02-08T22:08:00,721 adding license file 'LICENSE' 2026-02-08T22:08:00,725 writing manifest file '/tmp/pip-modern-metadata-_t_sm3n6/aoptk.egg-info/SOURCES.txt' 2026-02-08T22:08:00,727 creating '/tmp/pip-modern-metadata-_t_sm3n6/aoptk-0.1.4.dist-info' 2026-02-08T22:08:00,863 Preparing metadata (pyproject.toml): finished with status 'done' 2026-02-08T22:08:00,868 Source in /tmp/pip-wheel-q7_x6aw7/aoptk_05dfeee8900d4999a5a38daf02751154 has version 0.1.4, which satisfies requirement aoptk==0.1.4 from https://files.pythonhosted.org/packages/97/5c/d4ee4004b70af67a4020e8960783876dac154a7440079530302dd88e93b8/aoptk-0.1.4.tar.gz 2026-02-08T22:08:00,869 Removed aoptk==0.1.4 from https://files.pythonhosted.org/packages/97/5c/d4ee4004b70af67a4020e8960783876dac154a7440079530302dd88e93b8/aoptk-0.1.4.tar.gz from build tracker '/tmp/pip-build-tracker-z4ibjj18' 2026-02-08T22:08:00,875 Created temporary directory: /tmp/pip-unpack-p5z194iy 2026-02-08T22:08:00,876 Building wheels for collected packages: aoptk 2026-02-08T22:08:00,880 Created temporary directory: /tmp/pip-wheel-k6ntf2i0 2026-02-08T22:08:00,881 Destination directory: /tmp/pip-wheel-k6ntf2i0 2026-02-08T22:08:00,883 Building wheel for aoptk (pyproject.toml): started 2026-02-08T22:08:00,884 Running command Building wheel for aoptk (pyproject.toml) 2026-02-08T22:08:01,444 toml section missing PosixPath('pyproject.toml') does not contain a tool.setuptools_scm section 2026-02-08T22:08:01,482 /tmp/pip-build-env-y762adqs/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsDeprecationWarning: `project.license` as a TOML table is deprecated 2026-02-08T22:08:01,483 !! 2026-02-08T22:08:01,484 ******************************************************************************** 2026-02-08T22:08:01,484 Please use a simple string containing a SPDX expression for `project.license`. You can also use `project.license-files`. (Both options available on setuptools>=77.0.0). 2026-02-08T22:08:01,486 By 2027-Feb-18, you need to update your project and remove deprecated calls 2026-02-08T22:08:01,486 or your builds will no longer be supported. 2026-02-08T22:08:01,488 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-02-08T22:08:01,488 ******************************************************************************** 2026-02-08T22:08:01,489 !! 2026-02-08T22:08:01,490 corresp(dist, value, root_dir) 2026-02-08T22:08:01,563 running bdist_wheel 2026-02-08T22:08:01,585 running build 2026-02-08T22:08:01,585 running build_py 2026-02-08T22:08:01,592 creating build/lib/aoptk 2026-02-08T22:08:01,594 copying src/aoptk/find_chemical.py -> build/lib/aoptk 2026-02-08T22:08:01,596 copying src/aoptk/regex_sentence_generator.py -> build/lib/aoptk 2026-02-08T22:08:01,598 copying src/aoptk/spacy_processor.py -> build/lib/aoptk 2026-02-08T22:08:01,600 copying src/aoptk/__init__.py -> build/lib/aoptk 2026-02-08T22:08:01,602 copying src/aoptk/effect.py -> build/lib/aoptk 2026-02-08T22:08:01,603 copying src/aoptk/sentence_generator.py -> build/lib/aoptk 2026-02-08T22:08:01,605 copying src/aoptk/chemical.py -> build/lib/aoptk 2026-02-08T22:08:01,607 copying src/aoptk/sentence.py -> build/lib/aoptk 2026-02-08T22:08:01,610 creating build/lib/aoptk/cleaning 2026-02-08T22:08:01,611 copying src/aoptk/cleaning/text_cleaner.py -> build/lib/aoptk/cleaning 2026-02-08T22:08:01,613 copying src/aoptk/cleaning/__init__.py -> build/lib/aoptk/cleaning 2026-02-08T22:08:01,614 copying src/aoptk/cleaning/html_tag_remover.py -> build/lib/aoptk/cleaning 2026-02-08T22:08:01,616 creating build/lib/aoptk/application 2026-02-08T22:08:01,617 copying src/aoptk/application/__init__.py -> build/lib/aoptk/application 2026-02-08T22:08:01,619 copying src/aoptk/application/chemical_identifier.py -> build/lib/aoptk/application 2026-02-08T22:08:01,621 copying src/aoptk/application/publication_tracker.py -> build/lib/aoptk/application 2026-02-08T22:08:01,623 creating build/lib/aoptk/normalization 2026-02-08T22:08:01,624 copying src/aoptk/normalization/normalize_chemical.py -> build/lib/aoptk/normalization 2026-02-08T22:08:01,626 copying src/aoptk/normalization/pubchem_abbreviation_uppercase.py -> build/lib/aoptk/normalization 2026-02-08T22:08:01,628 copying src/aoptk/normalization/__init__.py -> build/lib/aoptk/normalization 2026-02-08T22:08:01,629 copying src/aoptk/normalization/mesh_terms.py -> build/lib/aoptk/normalization 2026-02-08T22:08:01,631 copying src/aoptk/normalization/provide_mesh_term_dataframe_from_xml.py -> build/lib/aoptk/normalization 2026-02-08T22:08:01,633 copying src/aoptk/normalization/pubchem_abbreviation_short.py -> build/lib/aoptk/normalization 2026-02-08T22:08:01,635 copying src/aoptk/normalization/pubchem_local.py -> build/lib/aoptk/normalization 2026-02-08T22:08:01,636 copying src/aoptk/normalization/pubchem_api.py -> build/lib/aoptk/normalization 2026-02-08T22:08:01,638 copying src/aoptk/normalization/provide_normalization_dataframe.py -> build/lib/aoptk/normalization 2026-02-08T22:08:01,640 creating build/lib/aoptk/literature 2026-02-08T22:08:01,641 copying src/aoptk/literature/pymupdf_parser.py -> build/lib/aoptk/literature 2026-02-08T22:08:01,644 copying src/aoptk/literature/publication_metadata.py -> build/lib/aoptk/literature 2026-02-08T22:08:01,646 copying src/aoptk/literature/abbreviations.py -> build/lib/aoptk/literature 2026-02-08T22:08:01,647 copying src/aoptk/literature/get_id.py -> build/lib/aoptk/literature 2026-02-08T22:08:01,649 copying src/aoptk/literature/utils.py -> build/lib/aoptk/literature 2026-02-08T22:08:01,651 copying src/aoptk/literature/__init__.py -> build/lib/aoptk/literature 2026-02-08T22:08:01,652 copying src/aoptk/literature/publication.py -> build/lib/aoptk/literature 2026-02-08T22:08:01,654 copying src/aoptk/literature/get_pdf.py -> build/lib/aoptk/literature 2026-02-08T22:08:01,656 copying src/aoptk/literature/id.py -> build/lib/aoptk/literature 2026-02-08T22:08:01,657 copying src/aoptk/literature/abstract.py -> build/lib/aoptk/literature 2026-02-08T22:08:01,659 copying src/aoptk/literature/get_abstract.py -> build/lib/aoptk/literature 2026-02-08T22:08:01,661 copying src/aoptk/literature/get_publication.py -> build/lib/aoptk/literature 2026-02-08T22:08:01,663 copying src/aoptk/literature/pdf.py -> build/lib/aoptk/literature 2026-02-08T22:08:01,664 copying src/aoptk/literature/pdf_parser.py -> build/lib/aoptk/literature 2026-02-08T22:08:01,667 creating build/lib/aoptk/relationships 2026-02-08T22:08:01,667 copying src/aoptk/relationships/relationship.py -> build/lib/aoptk/relationships 2026-02-08T22:08:01,669 copying src/aoptk/relationships/zero_shot_classification_single.py -> build/lib/aoptk/relationships 2026-02-08T22:08:01,671 copying src/aoptk/relationships/__init__.py -> build/lib/aoptk/relationships 2026-02-08T22:08:01,673 copying src/aoptk/relationships/find_relationship.py -> build/lib/aoptk/relationships 2026-02-08T22:08:01,674 copying src/aoptk/relationships/zero_shot_classification_multiple.py -> build/lib/aoptk/relationships 2026-02-08T22:08:01,676 copying src/aoptk/relationships/zero_shot_classification.py -> build/lib/aoptk/relationships 2026-02-08T22:08:01,679 creating build/lib/aoptk/abbreviations 2026-02-08T22:08:01,679 copying src/aoptk/abbreviations/abbreviation_translator_dictionary.py -> build/lib/aoptk/abbreviations 2026-02-08T22:08:01,681 copying src/aoptk/abbreviations/__init__.py -> build/lib/aoptk/abbreviations 2026-02-08T22:08:01,683 copying src/aoptk/abbreviations/abbreviation_translator.py -> build/lib/aoptk/abbreviations 2026-02-08T22:08:01,684 copying src/aoptk/abbreviations/abbreviation_translator_dictionary_generator.py -> build/lib/aoptk/abbreviations 2026-02-08T22:08:01,687 creating build/lib/aoptk/literature/databases 2026-02-08T22:08:01,688 copying src/aoptk/literature/databases/__init__.py -> build/lib/aoptk/literature/databases 2026-02-08T22:08:01,689 copying src/aoptk/literature/databases/pubmed.py -> build/lib/aoptk/literature/databases 2026-02-08T22:08:01,691 copying src/aoptk/literature/databases/europepmc.py -> build/lib/aoptk/literature/databases 2026-02-08T22:08:01,693 running egg_info 2026-02-08T22:08:01,705 writing src/aoptk.egg-info/PKG-INFO 2026-02-08T22:08:01,712 writing dependency_links to src/aoptk.egg-info/dependency_links.txt 2026-02-08T22:08:01,714 writing entry points to src/aoptk.egg-info/entry_points.txt 2026-02-08T22:08:01,717 writing requirements to src/aoptk.egg-info/requires.txt 2026-02-08T22:08:01,718 writing top-level names to src/aoptk.egg-info/top_level.txt 2026-02-08T22:08:01,755 listing git files failed - pretending there aren't any 2026-02-08T22:08:01,761 reading manifest file 'src/aoptk.egg-info/SOURCES.txt' 2026-02-08T22:08:01,768 reading manifest template 'MANIFEST.in' 2026-02-08T22:08:01,769 warning: no files found matching 'NOTICE' 2026-02-08T22:08:01,769 adding license file 'LICENSE' 2026-02-08T22:08:01,776 writing manifest file 'src/aoptk.egg-info/SOURCES.txt' 2026-02-08T22:08:01,796 installing to build/bdist.linux-armv7l/wheel 2026-02-08T22:08:01,797 running install 2026-02-08T22:08:01,820 running install_lib 2026-02-08T22:08:01,827 creating build/bdist.linux-armv7l/wheel 2026-02-08T22:08:01,829 creating build/bdist.linux-armv7l/wheel/aoptk 2026-02-08T22:08:01,831 creating build/bdist.linux-armv7l/wheel/aoptk/cleaning 2026-02-08T22:08:01,832 copying build/lib/aoptk/cleaning/text_cleaner.py -> build/bdist.linux-armv7l/wheel/./aoptk/cleaning 2026-02-08T22:08:01,834 copying build/lib/aoptk/cleaning/__init__.py -> build/bdist.linux-armv7l/wheel/./aoptk/cleaning 2026-02-08T22:08:01,835 copying build/lib/aoptk/cleaning/html_tag_remover.py -> build/bdist.linux-armv7l/wheel/./aoptk/cleaning 2026-02-08T22:08:01,837 copying build/lib/aoptk/find_chemical.py -> build/bdist.linux-armv7l/wheel/./aoptk 2026-02-08T22:08:01,839 copying build/lib/aoptk/regex_sentence_generator.py -> build/bdist.linux-armv7l/wheel/./aoptk 2026-02-08T22:08:01,841 creating build/bdist.linux-armv7l/wheel/aoptk/application 2026-02-08T22:08:01,842 copying build/lib/aoptk/application/__init__.py -> build/bdist.linux-armv7l/wheel/./aoptk/application 2026-02-08T22:08:01,844 copying build/lib/aoptk/application/chemical_identifier.py -> build/bdist.linux-armv7l/wheel/./aoptk/application 2026-02-08T22:08:01,846 copying build/lib/aoptk/application/publication_tracker.py -> build/bdist.linux-armv7l/wheel/./aoptk/application 2026-02-08T22:08:01,849 creating build/bdist.linux-armv7l/wheel/aoptk/normalization 2026-02-08T22:08:01,850 copying build/lib/aoptk/normalization/normalize_chemical.py -> build/bdist.linux-armv7l/wheel/./aoptk/normalization 2026-02-08T22:08:01,852 copying build/lib/aoptk/normalization/pubchem_abbreviation_uppercase.py -> build/bdist.linux-armv7l/wheel/./aoptk/normalization 2026-02-08T22:08:01,853 copying build/lib/aoptk/normalization/__init__.py -> build/bdist.linux-armv7l/wheel/./aoptk/normalization 2026-02-08T22:08:01,855 copying build/lib/aoptk/normalization/mesh_terms.py -> build/bdist.linux-armv7l/wheel/./aoptk/normalization 2026-02-08T22:08:01,857 copying build/lib/aoptk/normalization/provide_mesh_term_dataframe_from_xml.py -> build/bdist.linux-armv7l/wheel/./aoptk/normalization 2026-02-08T22:08:01,858 copying build/lib/aoptk/normalization/pubchem_abbreviation_short.py -> build/bdist.linux-armv7l/wheel/./aoptk/normalization 2026-02-08T22:08:01,860 copying build/lib/aoptk/normalization/pubchem_local.py -> build/bdist.linux-armv7l/wheel/./aoptk/normalization 2026-02-08T22:08:01,862 copying build/lib/aoptk/normalization/pubchem_api.py -> build/bdist.linux-armv7l/wheel/./aoptk/normalization 2026-02-08T22:08:01,863 copying build/lib/aoptk/normalization/provide_normalization_dataframe.py -> build/bdist.linux-armv7l/wheel/./aoptk/normalization 2026-02-08T22:08:01,865 copying build/lib/aoptk/spacy_processor.py -> build/bdist.linux-armv7l/wheel/./aoptk 2026-02-08T22:08:01,867 copying build/lib/aoptk/__init__.py -> build/bdist.linux-armv7l/wheel/./aoptk 2026-02-08T22:08:01,869 copying build/lib/aoptk/effect.py -> build/bdist.linux-armv7l/wheel/./aoptk 2026-02-08T22:08:01,871 creating build/bdist.linux-armv7l/wheel/aoptk/literature 2026-02-08T22:08:01,872 copying build/lib/aoptk/literature/pymupdf_parser.py -> build/bdist.linux-armv7l/wheel/./aoptk/literature 2026-02-08T22:08:01,875 copying build/lib/aoptk/literature/publication_metadata.py -> build/bdist.linux-armv7l/wheel/./aoptk/literature 2026-02-08T22:08:01,877 copying build/lib/aoptk/literature/abbreviations.py -> build/bdist.linux-armv7l/wheel/./aoptk/literature 2026-02-08T22:08:01,878 copying build/lib/aoptk/literature/get_id.py -> build/bdist.linux-armv7l/wheel/./aoptk/literature 2026-02-08T22:08:01,880 copying build/lib/aoptk/literature/utils.py -> build/bdist.linux-armv7l/wheel/./aoptk/literature 2026-02-08T22:08:01,882 copying build/lib/aoptk/literature/__init__.py -> build/bdist.linux-armv7l/wheel/./aoptk/literature 2026-02-08T22:08:01,883 copying build/lib/aoptk/literature/publication.py -> build/bdist.linux-armv7l/wheel/./aoptk/literature 2026-02-08T22:08:01,885 copying build/lib/aoptk/literature/get_pdf.py -> build/bdist.linux-armv7l/wheel/./aoptk/literature 2026-02-08T22:08:01,887 copying build/lib/aoptk/literature/id.py -> build/bdist.linux-armv7l/wheel/./aoptk/literature 2026-02-08T22:08:01,889 copying build/lib/aoptk/literature/abstract.py -> build/bdist.linux-armv7l/wheel/./aoptk/literature 2026-02-08T22:08:01,891 copying build/lib/aoptk/literature/get_abstract.py -> build/bdist.linux-armv7l/wheel/./aoptk/literature 2026-02-08T22:08:01,893 copying build/lib/aoptk/literature/get_publication.py -> build/bdist.linux-armv7l/wheel/./aoptk/literature 2026-02-08T22:08:01,895 copying build/lib/aoptk/literature/pdf.py -> build/bdist.linux-armv7l/wheel/./aoptk/literature 2026-02-08T22:08:01,896 copying build/lib/aoptk/literature/pdf_parser.py -> build/bdist.linux-armv7l/wheel/./aoptk/literature 2026-02-08T22:08:01,899 creating build/bdist.linux-armv7l/wheel/aoptk/literature/databases 2026-02-08T22:08:01,900 copying build/lib/aoptk/literature/databases/__init__.py -> build/bdist.linux-armv7l/wheel/./aoptk/literature/databases 2026-02-08T22:08:01,901 copying build/lib/aoptk/literature/databases/pubmed.py -> build/bdist.linux-armv7l/wheel/./aoptk/literature/databases 2026-02-08T22:08:01,903 copying build/lib/aoptk/literature/databases/europepmc.py -> build/bdist.linux-armv7l/wheel/./aoptk/literature/databases 2026-02-08T22:08:01,906 creating build/bdist.linux-armv7l/wheel/aoptk/relationships 2026-02-08T22:08:01,907 copying build/lib/aoptk/relationships/relationship.py -> build/bdist.linux-armv7l/wheel/./aoptk/relationships 2026-02-08T22:08:01,909 copying build/lib/aoptk/relationships/zero_shot_classification_single.py -> build/bdist.linux-armv7l/wheel/./aoptk/relationships 2026-02-08T22:08:01,911 copying build/lib/aoptk/relationships/__init__.py -> build/bdist.linux-armv7l/wheel/./aoptk/relationships 2026-02-08T22:08:01,913 copying build/lib/aoptk/relationships/find_relationship.py -> build/bdist.linux-armv7l/wheel/./aoptk/relationships 2026-02-08T22:08:01,914 copying build/lib/aoptk/relationships/zero_shot_classification_multiple.py -> build/bdist.linux-armv7l/wheel/./aoptk/relationships 2026-02-08T22:08:01,916 copying build/lib/aoptk/relationships/zero_shot_classification.py -> build/bdist.linux-armv7l/wheel/./aoptk/relationships 2026-02-08T22:08:01,918 copying build/lib/aoptk/sentence_generator.py -> build/bdist.linux-armv7l/wheel/./aoptk 2026-02-08T22:08:01,920 creating build/bdist.linux-armv7l/wheel/aoptk/abbreviations 2026-02-08T22:08:01,921 copying build/lib/aoptk/abbreviations/abbreviation_translator_dictionary.py -> build/bdist.linux-armv7l/wheel/./aoptk/abbreviations 2026-02-08T22:08:01,924 copying build/lib/aoptk/abbreviations/__init__.py -> build/bdist.linux-armv7l/wheel/./aoptk/abbreviations 2026-02-08T22:08:01,925 copying build/lib/aoptk/abbreviations/abbreviation_translator.py -> build/bdist.linux-armv7l/wheel/./aoptk/abbreviations 2026-02-08T22:08:01,927 copying build/lib/aoptk/abbreviations/abbreviation_translator_dictionary_generator.py -> build/bdist.linux-armv7l/wheel/./aoptk/abbreviations 2026-02-08T22:08:01,929 copying build/lib/aoptk/chemical.py -> build/bdist.linux-armv7l/wheel/./aoptk 2026-02-08T22:08:01,931 copying build/lib/aoptk/sentence.py -> build/bdist.linux-armv7l/wheel/./aoptk 2026-02-08T22:08:01,932 running install_egg_info 2026-02-08T22:08:01,939 Copying src/aoptk.egg-info to build/bdist.linux-armv7l/wheel/./aoptk-0.1.4-py3.11.egg-info 2026-02-08T22:08:01,950 running install_scripts 2026-02-08T22:08:01,962 creating build/bdist.linux-armv7l/wheel/aoptk-0.1.4.dist-info/WHEEL 2026-02-08T22:08:01,964 creating '/tmp/pip-wheel-k6ntf2i0/.tmp-n_ummwjm/aoptk-0.1.4-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2026-02-08T22:08:01,967 adding 'aoptk/__init__.py' 2026-02-08T22:08:01,968 adding 'aoptk/chemical.py' 2026-02-08T22:08:01,969 adding 'aoptk/effect.py' 2026-02-08T22:08:01,971 adding 'aoptk/find_chemical.py' 2026-02-08T22:08:01,972 adding 'aoptk/regex_sentence_generator.py' 2026-02-08T22:08:01,973 adding 'aoptk/sentence.py' 2026-02-08T22:08:01,975 adding 'aoptk/sentence_generator.py' 2026-02-08T22:08:01,976 adding 'aoptk/spacy_processor.py' 2026-02-08T22:08:01,978 adding 'aoptk/abbreviations/__init__.py' 2026-02-08T22:08:01,979 adding 'aoptk/abbreviations/abbreviation_translator.py' 2026-02-08T22:08:01,980 adding 'aoptk/abbreviations/abbreviation_translator_dictionary.py' 2026-02-08T22:08:01,982 adding 'aoptk/abbreviations/abbreviation_translator_dictionary_generator.py' 2026-02-08T22:08:01,984 adding 'aoptk/application/__init__.py' 2026-02-08T22:08:01,985 adding 'aoptk/application/chemical_identifier.py' 2026-02-08T22:08:01,987 adding 'aoptk/application/publication_tracker.py' 2026-02-08T22:08:01,988 adding 'aoptk/cleaning/__init__.py' 2026-02-08T22:08:01,990 adding 'aoptk/cleaning/html_tag_remover.py' 2026-02-08T22:08:01,991 adding 'aoptk/cleaning/text_cleaner.py' 2026-02-08T22:08:01,993 adding 'aoptk/literature/__init__.py' 2026-02-08T22:08:01,994 adding 'aoptk/literature/abbreviations.py' 2026-02-08T22:08:01,995 adding 'aoptk/literature/abstract.py' 2026-02-08T22:08:01,996 adding 'aoptk/literature/get_abstract.py' 2026-02-08T22:08:01,998 adding 'aoptk/literature/get_id.py' 2026-02-08T22:08:01,999 adding 'aoptk/literature/get_pdf.py' 2026-02-08T22:08:02,000 adding 'aoptk/literature/get_publication.py' 2026-02-08T22:08:02,001 adding 'aoptk/literature/id.py' 2026-02-08T22:08:02,002 adding 'aoptk/literature/pdf.py' 2026-02-08T22:08:02,003 adding 'aoptk/literature/pdf_parser.py' 2026-02-08T22:08:02,004 adding 'aoptk/literature/publication.py' 2026-02-08T22:08:02,005 adding 'aoptk/literature/publication_metadata.py' 2026-02-08T22:08:02,007 adding 'aoptk/literature/pymupdf_parser.py' 2026-02-08T22:08:02,009 adding 'aoptk/literature/utils.py' 2026-02-08T22:08:02,010 adding 'aoptk/literature/databases/__init__.py' 2026-02-08T22:08:02,012 adding 'aoptk/literature/databases/europepmc.py' 2026-02-08T22:08:02,013 adding 'aoptk/literature/databases/pubmed.py' 2026-02-08T22:08:02,015 adding 'aoptk/normalization/__init__.py' 2026-02-08T22:08:02,016 adding 'aoptk/normalization/mesh_terms.py' 2026-02-08T22:08:02,017 adding 'aoptk/normalization/normalize_chemical.py' 2026-02-08T22:08:02,018 adding 'aoptk/normalization/provide_mesh_term_dataframe_from_xml.py' 2026-02-08T22:08:02,019 adding 'aoptk/normalization/provide_normalization_dataframe.py' 2026-02-08T22:08:02,021 adding 'aoptk/normalization/pubchem_abbreviation_short.py' 2026-02-08T22:08:02,022 adding 'aoptk/normalization/pubchem_abbreviation_uppercase.py' 2026-02-08T22:08:02,023 adding 'aoptk/normalization/pubchem_api.py' 2026-02-08T22:08:02,024 adding 'aoptk/normalization/pubchem_local.py' 2026-02-08T22:08:02,026 adding 'aoptk/relationships/__init__.py' 2026-02-08T22:08:02,027 adding 'aoptk/relationships/find_relationship.py' 2026-02-08T22:08:02,028 adding 'aoptk/relationships/relationship.py' 2026-02-08T22:08:02,029 adding 'aoptk/relationships/zero_shot_classification.py' 2026-02-08T22:08:02,031 adding 'aoptk/relationships/zero_shot_classification_multiple.py' 2026-02-08T22:08:02,032 adding 'aoptk/relationships/zero_shot_classification_single.py' 2026-02-08T22:08:02,035 adding 'aoptk-0.1.4.dist-info/licenses/LICENSE' 2026-02-08T22:08:02,036 adding 'aoptk-0.1.4.dist-info/METADATA' 2026-02-08T22:08:02,037 adding 'aoptk-0.1.4.dist-info/WHEEL' 2026-02-08T22:08:02,038 adding 'aoptk-0.1.4.dist-info/entry_points.txt' 2026-02-08T22:08:02,039 adding 'aoptk-0.1.4.dist-info/top_level.txt' 2026-02-08T22:08:02,040 adding 'aoptk-0.1.4.dist-info/RECORD' 2026-02-08T22:08:02,043 removing build/bdist.linux-armv7l/wheel 2026-02-08T22:08:02,162 Building wheel for aoptk (pyproject.toml): finished with status 'done' 2026-02-08T22:08:02,167 Created wheel for aoptk: filename=aoptk-0.1.4-py3-none-any.whl size=37708 sha256=017a7a258e33079170ed7b9a9cc2c447641f47b264928589234455dba69c24c3 2026-02-08T22:08:02,168 Stored in directory: /tmp/pip-ephem-wheel-cache-5a4kcg4k/wheels/4d/94/24/018ed9865a1fef1d85724bc8aa9cb9470a0fc0dadaaafc7e6b 2026-02-08T22:08:02,182 Successfully built aoptk 2026-02-08T22:08:02,187 Removed build tracker: '/tmp/pip-build-tracker-z4ibjj18'