2024-03-07T21:29:30,552 Created temporary directory: /tmp/pip-build-tracker-05s8x59j 2024-03-07T21:29:30,553 Initialized build tracking at /tmp/pip-build-tracker-05s8x59j 2024-03-07T21:29:30,553 Created build tracker: /tmp/pip-build-tracker-05s8x59j 2024-03-07T21:29:30,554 Entered build tracker: /tmp/pip-build-tracker-05s8x59j 2024-03-07T21:29:30,555 Created temporary directory: /tmp/pip-wheel-jqa2036_ 2024-03-07T21:29:30,558 Created temporary directory: /tmp/pip-ephem-wheel-cache-js2jluyk 2024-03-07T21:29:30,580 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2024-03-07T21:29:30,583 2 location(s) to search for versions of pub-worm: 2024-03-07T21:29:30,583 * https://pypi.org/simple/pub-worm/ 2024-03-07T21:29:30,583 * https://www.piwheels.org/simple/pub-worm/ 2024-03-07T21:29:30,584 Fetching project page and analyzing links: https://pypi.org/simple/pub-worm/ 2024-03-07T21:29:30,585 Getting page https://pypi.org/simple/pub-worm/ 2024-03-07T21:29:30,586 Found index url https://pypi.org/simple/ 2024-03-07T21:29:30,724 Fetched page https://pypi.org/simple/pub-worm/ as application/vnd.pypi.simple.v1+json 2024-03-07T21:29:30,726 Found link https://files.pythonhosted.org/packages/b8/f0/9bb3afc5b9c0aba5ffc3e0530f85826c7d472bd722f814015247c340fb9f/pub_worm-0.0.1.tar.gz (from https://pypi.org/simple/pub-worm/), version: 0.0.1 2024-03-07T21:29:30,727 Found link https://files.pythonhosted.org/packages/d8/da/df592d4da97e43ba80b8d21977686643e2fe53863198e8636d52f8385c43/pub_worm-0.1.1.tar.gz (from https://pypi.org/simple/pub-worm/), version: 0.1.1 2024-03-07T21:29:30,727 Found link https://files.pythonhosted.org/packages/6f/b8/c578681405080946ef981f7d8ffca920a824488067c8d71585d3ed6a579d/pub_worm-0.1.2.tar.gz (from https://pypi.org/simple/pub-worm/), version: 0.1.2 2024-03-07T21:29:30,728 Found link https://files.pythonhosted.org/packages/95/ea/f0d51e75f6a6bc592da883218d988cf193bf319166fa473a9b9b88e8d264/pub_worm-0.1.3.tar.gz (from https://pypi.org/simple/pub-worm/), version: 0.1.3 2024-03-07T21:29:30,729 Found link https://files.pythonhosted.org/packages/75/a9/79c8f5eedf2bb7efb9da2d0fe145f73a38f517eb8598c34ee7c96cde0708/pub_worm-0.1.4.tar.gz (from https://pypi.org/simple/pub-worm/), version: 0.1.4 2024-03-07T21:29:30,729 Found link https://files.pythonhosted.org/packages/49/b1/562faa427fd1ff40c449f87cda75c7c1df17d70bb5190dd9acaa36d175b1/pub_worm-0.1.5.tar.gz (from https://pypi.org/simple/pub-worm/), version: 0.1.5 2024-03-07T21:29:30,730 Fetching project page and analyzing links: https://www.piwheels.org/simple/pub-worm/ 2024-03-07T21:29:30,731 Getting page https://www.piwheels.org/simple/pub-worm/ 2024-03-07T21:29:30,732 Found index url https://www.piwheels.org/simple/ 2024-03-07T21:29:30,909 Fetched page https://www.piwheels.org/simple/pub-worm/ as text/html 2024-03-07T21:29:30,911 Skipping link: No binaries permitted for pub-worm: https://www.piwheels.org/simple/pub-worm/pub_worm-0.1.3-py3-none-any.whl#sha256=c93d251f88dea0862a7a5878ea9d242ca2a3dfc38922c876268f91def0e576c1 (from https://www.piwheels.org/simple/pub-worm/) 2024-03-07T21:29:30,912 Skipping link: No binaries permitted for pub-worm: https://www.piwheels.org/simple/pub-worm/pub_worm-0.1.2-py3-none-any.whl#sha256=414b783788f7426c998a30debf92f860ff421126db3b85415eedd560336e1cbb (from https://www.piwheels.org/simple/pub-worm/) 2024-03-07T21:29:30,913 Skipping link: No binaries permitted for pub-worm: https://www.piwheels.org/simple/pub-worm/pub_worm-0.1.1-py3-none-any.whl#sha256=dc4fcd02bf9ebdf2ea21f21ce51753823c46f53bdf7ad2cc731b344c105df198 (from https://www.piwheels.org/simple/pub-worm/) 2024-03-07T21:29:30,913 Skipping link: No binaries permitted for pub-worm: https://www.piwheels.org/simple/pub-worm/pub_worm-0.0.1-py3-none-any.whl#sha256=64fc08fd5ed29b5a07f1941f7d146f1e984af13e0587f87fc5f8c4c194bd7330 (from https://www.piwheels.org/simple/pub-worm/) 2024-03-07T21:29:30,914 Skipping link: not a file: https://www.piwheels.org/simple/pub-worm/ 2024-03-07T21:29:30,914 Skipping link: not a file: https://pypi.org/simple/pub-worm/ 2024-03-07T21:29:30,934 Given no hashes to check 1 links for project 'pub-worm': discarding no candidates 2024-03-07T21:29:30,952 Collecting pub-worm==0.1.4 2024-03-07T21:29:30,954 Created temporary directory: /tmp/pip-unpack-cgd5c219 2024-03-07T21:29:31,166 Downloading pub_worm-0.1.4.tar.gz (384 kB) 2024-03-07T21:29:31,344 Added pub-worm==0.1.4 from https://files.pythonhosted.org/packages/75/a9/79c8f5eedf2bb7efb9da2d0fe145f73a38f517eb8598c34ee7c96cde0708/pub_worm-0.1.4.tar.gz to build tracker '/tmp/pip-build-tracker-05s8x59j' 2024-03-07T21:29:31,345 Running setup.py (path:/tmp/pip-wheel-jqa2036_/pub-worm_e71b61bb62924b0994c59f866678cf4a/setup.py) egg_info for package pub-worm 2024-03-07T21:29:31,346 Created temporary directory: /tmp/pip-pip-egg-info-bpl_y535 2024-03-07T21:29:31,346 Preparing metadata (setup.py): started 2024-03-07T21:29:31,348 Running command python setup.py egg_info 2024-03-07T21:29:32,364 running egg_info 2024-03-07T21:29:32,365 creating /tmp/pip-pip-egg-info-bpl_y535/pub_worm.egg-info 2024-03-07T21:29:32,389 writing /tmp/pip-pip-egg-info-bpl_y535/pub_worm.egg-info/PKG-INFO 2024-03-07T21:29:32,393 writing dependency_links to /tmp/pip-pip-egg-info-bpl_y535/pub_worm.egg-info/dependency_links.txt 2024-03-07T21:29:32,394 writing requirements to /tmp/pip-pip-egg-info-bpl_y535/pub_worm.egg-info/requires.txt 2024-03-07T21:29:32,395 writing top-level names to /tmp/pip-pip-egg-info-bpl_y535/pub_worm.egg-info/top_level.txt 2024-03-07T21:29:32,396 writing manifest file '/tmp/pip-pip-egg-info-bpl_y535/pub_worm.egg-info/SOURCES.txt' 2024-03-07T21:29:32,475 reading manifest file '/tmp/pip-pip-egg-info-bpl_y535/pub_worm.egg-info/SOURCES.txt' 2024-03-07T21:29:32,476 reading manifest template 'MANIFEST.in' 2024-03-07T21:29:32,479 writing manifest file '/tmp/pip-pip-egg-info-bpl_y535/pub_worm.egg-info/SOURCES.txt' 2024-03-07T21:29:32,590 Preparing metadata (setup.py): finished with status 'done' 2024-03-07T21:29:32,594 Source in /tmp/pip-wheel-jqa2036_/pub-worm_e71b61bb62924b0994c59f866678cf4a has version 0.1.4, which satisfies requirement pub-worm==0.1.4 from https://files.pythonhosted.org/packages/75/a9/79c8f5eedf2bb7efb9da2d0fe145f73a38f517eb8598c34ee7c96cde0708/pub_worm-0.1.4.tar.gz 2024-03-07T21:29:32,595 Removed pub-worm==0.1.4 from https://files.pythonhosted.org/packages/75/a9/79c8f5eedf2bb7efb9da2d0fe145f73a38f517eb8598c34ee7c96cde0708/pub_worm-0.1.4.tar.gz from build tracker '/tmp/pip-build-tracker-05s8x59j' 2024-03-07T21:29:32,599 Created temporary directory: /tmp/pip-unpack-_pcdntaq 2024-03-07T21:29:32,600 Created temporary directory: /tmp/pip-unpack-nqbu7fkz 2024-03-07T21:29:32,604 Building wheels for collected packages: pub-worm 2024-03-07T21:29:32,608 Created temporary directory: /tmp/pip-wheel-g7uach7p 2024-03-07T21:29:32,609 Building wheel for pub-worm (setup.py): started 2024-03-07T21:29:32,610 Destination directory: /tmp/pip-wheel-g7uach7p 2024-03-07T21:29:32,611 Running command python setup.py bdist_wheel 2024-03-07T21:29:33,629 running bdist_wheel 2024-03-07T21:29:33,724 running build 2024-03-07T21:29:33,725 running build_py 2024-03-07T21:29:33,752 creating build 2024-03-07T21:29:33,753 creating build/lib 2024-03-07T21:29:33,753 creating build/lib/pub_worm 2024-03-07T21:29:33,755 copying pub_worm/__init__.py -> build/lib/pub_worm 2024-03-07T21:29:33,757 creating build/lib/pub_worm/ncbi 2024-03-07T21:29:33,758 copying pub_worm/ncbi/entreze_api.py -> build/lib/pub_worm/ncbi 2024-03-07T21:29:33,760 copying pub_worm/ncbi/__init__.py -> build/lib/pub_worm/ncbi 2024-03-07T21:29:33,762 creating build/lib/pub_worm/impact_factor 2024-03-07T21:29:33,763 copying pub_worm/impact_factor/impact_factor_lookup.py -> build/lib/pub_worm/impact_factor 2024-03-07T21:29:33,765 copying pub_worm/impact_factor/__init__.py -> build/lib/pub_worm/impact_factor 2024-03-07T21:29:33,767 creating build/lib/pub_worm/wormbase 2024-03-07T21:29:33,768 copying pub_worm/wormbase/to_csv_helpers.py -> build/lib/pub_worm/wormbase 2024-03-07T21:29:33,770 copying pub_worm/wormbase/__init__.py -> build/lib/pub_worm/wormbase 2024-03-07T21:29:33,772 copying pub_worm/wormbase/wormbase_api.py -> build/lib/pub_worm/wormbase 2024-03-07T21:29:33,774 running egg_info 2024-03-07T21:29:33,829 writing pub_worm.egg-info/PKG-INFO 2024-03-07T21:29:33,832 writing dependency_links to pub_worm.egg-info/dependency_links.txt 2024-03-07T21:29:33,834 writing requirements to pub_worm.egg-info/requires.txt 2024-03-07T21:29:33,835 writing top-level names to pub_worm.egg-info/top_level.txt 2024-03-07T21:29:33,864 reading manifest file 'pub_worm.egg-info/SOURCES.txt' 2024-03-07T21:29:33,866 reading manifest template 'MANIFEST.in' 2024-03-07T21:29:33,869 writing manifest file 'pub_worm.egg-info/SOURCES.txt' 2024-03-07T21:29:33,872 /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'pub_worm.impact_factor.data' is absent from the `packages` configuration. 2024-03-07T21:29:33,872 !! 2024-03-07T21:29:33,873 ******************************************************************************** 2024-03-07T21:29:33,873 ############################ 2024-03-07T21:29:33,874 # Package would be ignored # 2024-03-07T21:29:33,874 ############################ 2024-03-07T21:29:33,875 Python recognizes 'pub_worm.impact_factor.data' as an importable package[^1], 2024-03-07T21:29:33,875 but it is absent from setuptools' `packages` configuration. 2024-03-07T21:29:33,876 This leads to an ambiguous overall configuration. If you want to distribute this 2024-03-07T21:29:33,876 package, please make sure that 'pub_worm.impact_factor.data' is explicitly added 2024-03-07T21:29:33,877 to the `packages` configuration field. 2024-03-07T21:29:33,878 Alternatively, you can also rely on setuptools' discovery methods 2024-03-07T21:29:33,879 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-03-07T21:29:33,880 instead of `find_packages(...)`/`find:`). 2024-03-07T21:29:33,881 You can read more about "package discovery" on setuptools documentation page: 2024-03-07T21:29:33,882 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-03-07T21:29:33,884 If you don't want 'pub_worm.impact_factor.data' to be distributed and are 2024-03-07T21:29:33,884 already explicitly excluding 'pub_worm.impact_factor.data' via 2024-03-07T21:29:33,886 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-03-07T21:29:33,888 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-03-07T21:29:33,892 combination with a more fine grained `package-data` configuration. 2024-03-07T21:29:33,906 You can read more about "package data files" on setuptools documentation page: 2024-03-07T21:29:33,908 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-03-07T21:29:33,909 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-03-07T21:29:33,910 even if it does not contain any `.py` files. 2024-03-07T21:29:33,910 On the other hand, currently there is no concept of package data 2024-03-07T21:29:33,911 directory, all directories are treated like packages. 2024-03-07T21:29:33,911 ******************************************************************************** 2024-03-07T21:29:33,912 !! 2024-03-07T21:29:33,913 check.warn(importable) 2024-03-07T21:29:33,913 /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'pub_worm.wormbase.data' is absent from the `packages` configuration. 2024-03-07T21:29:33,914 !! 2024-03-07T21:29:33,915 ******************************************************************************** 2024-03-07T21:29:33,915 ############################ 2024-03-07T21:29:33,916 # Package would be ignored # 2024-03-07T21:29:33,917 ############################ 2024-03-07T21:29:33,917 Python recognizes 'pub_worm.wormbase.data' as an importable package[^1], 2024-03-07T21:29:33,918 but it is absent from setuptools' `packages` configuration. 2024-03-07T21:29:33,919 This leads to an ambiguous overall configuration. If you want to distribute this 2024-03-07T21:29:33,919 package, please make sure that 'pub_worm.wormbase.data' is explicitly added 2024-03-07T21:29:33,919 to the `packages` configuration field. 2024-03-07T21:29:33,920 Alternatively, you can also rely on setuptools' discovery methods 2024-03-07T21:29:33,921 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-03-07T21:29:33,921 instead of `find_packages(...)`/`find:`). 2024-03-07T21:29:33,922 You can read more about "package discovery" on setuptools documentation page: 2024-03-07T21:29:33,923 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-03-07T21:29:33,924 If you don't want 'pub_worm.wormbase.data' to be distributed and are 2024-03-07T21:29:33,924 already explicitly excluding 'pub_worm.wormbase.data' via 2024-03-07T21:29:33,925 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-03-07T21:29:33,925 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-03-07T21:29:33,926 combination with a more fine grained `package-data` configuration. 2024-03-07T21:29:33,927 You can read more about "package data files" on setuptools documentation page: 2024-03-07T21:29:33,928 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-03-07T21:29:33,929 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-03-07T21:29:33,930 even if it does not contain any `.py` files. 2024-03-07T21:29:33,930 On the other hand, currently there is no concept of package data 2024-03-07T21:29:33,931 directory, all directories are treated like packages. 2024-03-07T21:29:33,931 ******************************************************************************** 2024-03-07T21:29:33,932 !! 2024-03-07T21:29:33,933 check.warn(importable) 2024-03-07T21:29:33,933 creating build/lib/pub_worm/impact_factor/data 2024-03-07T21:29:33,934 copying pub_worm/impact_factor/data/2022_JCR_IF.csv -> build/lib/pub_worm/impact_factor/data 2024-03-07T21:29:33,934 creating build/lib/pub_worm/wormbase/data 2024-03-07T21:29:33,935 copying pub_worm/wormbase/data/wormbase_field_gene.json -> build/lib/pub_worm/wormbase/data 2024-03-07T21:29:33,936 copying pub_worm/wormbase/data/wormbase_field_paper.json -> build/lib/pub_worm/wormbase/data 2024-03-07T21:29:33,936 copying pub_worm/wormbase/data/wormbase_widget_gene.json -> build/lib/pub_worm/wormbase/data 2024-03-07T21:29:33,946 /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2024-03-07T21:29:33,947 !! 2024-03-07T21:29:33,948 ******************************************************************************** 2024-03-07T21:29:33,949 Please avoid running ``setup.py`` directly. 2024-03-07T21:29:33,949 Instead, use pypa/build, pypa/installer or other 2024-03-07T21:29:33,950 standards-based tools. 2024-03-07T21:29:33,951 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2024-03-07T21:29:33,952 ******************************************************************************** 2024-03-07T21:29:33,953 !! 2024-03-07T21:29:33,953 self.initialize_options() 2024-03-07T21:29:33,972 installing to build/bdist.linux-armv7l/wheel 2024-03-07T21:29:33,973 running install 2024-03-07T21:29:33,996 running install_lib 2024-03-07T21:29:34,021 creating build/bdist.linux-armv7l 2024-03-07T21:29:34,021 creating build/bdist.linux-armv7l/wheel 2024-03-07T21:29:34,023 creating build/bdist.linux-armv7l/wheel/pub_worm 2024-03-07T21:29:34,024 creating build/bdist.linux-armv7l/wheel/pub_worm/ncbi 2024-03-07T21:29:34,025 copying build/lib/pub_worm/ncbi/entreze_api.py -> build/bdist.linux-armv7l/wheel/pub_worm/ncbi 2024-03-07T21:29:34,028 copying build/lib/pub_worm/ncbi/__init__.py -> build/bdist.linux-armv7l/wheel/pub_worm/ncbi 2024-03-07T21:29:34,030 creating build/bdist.linux-armv7l/wheel/pub_worm/impact_factor 2024-03-07T21:29:34,031 creating build/bdist.linux-armv7l/wheel/pub_worm/impact_factor/data 2024-03-07T21:29:34,032 copying build/lib/pub_worm/impact_factor/data/2022_JCR_IF.csv -> build/bdist.linux-armv7l/wheel/pub_worm/impact_factor/data 2024-03-07T21:29:34,062 copying build/lib/pub_worm/impact_factor/impact_factor_lookup.py -> build/bdist.linux-armv7l/wheel/pub_worm/impact_factor 2024-03-07T21:29:34,064 copying build/lib/pub_worm/impact_factor/__init__.py -> build/bdist.linux-armv7l/wheel/pub_worm/impact_factor 2024-03-07T21:29:34,066 creating build/bdist.linux-armv7l/wheel/pub_worm/wormbase 2024-03-07T21:29:34,067 creating build/bdist.linux-armv7l/wheel/pub_worm/wormbase/data 2024-03-07T21:29:34,068 copying build/lib/pub_worm/wormbase/data/wormbase_field_paper.json -> build/bdist.linux-armv7l/wheel/pub_worm/wormbase/data 2024-03-07T21:29:34,070 copying build/lib/pub_worm/wormbase/data/wormbase_field_gene.json -> build/bdist.linux-armv7l/wheel/pub_worm/wormbase/data 2024-03-07T21:29:34,072 copying build/lib/pub_worm/wormbase/data/wormbase_widget_gene.json -> build/bdist.linux-armv7l/wheel/pub_worm/wormbase/data 2024-03-07T21:29:34,073 copying build/lib/pub_worm/wormbase/to_csv_helpers.py -> build/bdist.linux-armv7l/wheel/pub_worm/wormbase 2024-03-07T21:29:34,075 copying build/lib/pub_worm/wormbase/__init__.py -> build/bdist.linux-armv7l/wheel/pub_worm/wormbase 2024-03-07T21:29:34,077 copying build/lib/pub_worm/wormbase/wormbase_api.py -> build/bdist.linux-armv7l/wheel/pub_worm/wormbase 2024-03-07T21:29:34,079 copying build/lib/pub_worm/__init__.py -> build/bdist.linux-armv7l/wheel/pub_worm 2024-03-07T21:29:34,081 running install_egg_info 2024-03-07T21:29:34,111 Copying pub_worm.egg-info to build/bdist.linux-armv7l/wheel/pub_worm-0.1.4-py3.11.egg-info 2024-03-07T21:29:34,122 running install_scripts 2024-03-07T21:29:34,133 creating build/bdist.linux-armv7l/wheel/pub_worm-0.1.4.dist-info/WHEEL 2024-03-07T21:29:34,135 creating '/tmp/pip-wheel-g7uach7p/pub_worm-0.1.4-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2024-03-07T21:29:34,137 adding 'pub_worm/__init__.py' 2024-03-07T21:29:34,139 adding 'pub_worm/impact_factor/__init__.py' 2024-03-07T21:29:34,140 adding 'pub_worm/impact_factor/impact_factor_lookup.py' 2024-03-07T21:29:34,306 adding 'pub_worm/impact_factor/data/2022_JCR_IF.csv' 2024-03-07T21:29:34,316 adding 'pub_worm/ncbi/__init__.py' 2024-03-07T21:29:34,318 adding 'pub_worm/ncbi/entreze_api.py' 2024-03-07T21:29:34,320 adding 'pub_worm/wormbase/__init__.py' 2024-03-07T21:29:34,321 adding 'pub_worm/wormbase/to_csv_helpers.py' 2024-03-07T21:29:34,323 adding 'pub_worm/wormbase/wormbase_api.py' 2024-03-07T21:29:34,325 adding 'pub_worm/wormbase/data/wormbase_field_gene.json' 2024-03-07T21:29:34,326 adding 'pub_worm/wormbase/data/wormbase_field_paper.json' 2024-03-07T21:29:34,327 adding 'pub_worm/wormbase/data/wormbase_widget_gene.json' 2024-03-07T21:29:34,329 adding 'pub_worm-0.1.4.dist-info/METADATA' 2024-03-07T21:29:34,330 adding 'pub_worm-0.1.4.dist-info/WHEEL' 2024-03-07T21:29:34,331 adding 'pub_worm-0.1.4.dist-info/top_level.txt' 2024-03-07T21:29:34,331 adding 'pub_worm-0.1.4.dist-info/RECORD' 2024-03-07T21:29:34,339 removing build/bdist.linux-armv7l/wheel 2024-03-07T21:29:34,461 Building wheel for pub-worm (setup.py): finished with status 'done' 2024-03-07T21:29:34,467 Created wheel for pub-worm: filename=pub_worm-0.1.4-py3-none-any.whl size=388000 sha256=84de546e9b8e73c3cdbccb497a05d28c60537eda48d1b1fdb879be94e3fe3f27 2024-03-07T21:29:34,469 Stored in directory: /tmp/pip-ephem-wheel-cache-js2jluyk/wheels/86/a1/d3/f512f46a14a97987ce0d8544cc60e7a3c7936794cf9d1cd018 2024-03-07T21:29:34,478 Successfully built pub-worm 2024-03-07T21:29:34,496 Removed build tracker: '/tmp/pip-build-tracker-05s8x59j'