2024-03-07T21:28:13,317 Created temporary directory: /tmp/pip-build-tracker-dsftdyob 2024-03-07T21:28:13,319 Initialized build tracking at /tmp/pip-build-tracker-dsftdyob 2024-03-07T21:28:13,319 Created build tracker: /tmp/pip-build-tracker-dsftdyob 2024-03-07T21:28:13,320 Entered build tracker: /tmp/pip-build-tracker-dsftdyob 2024-03-07T21:28:13,320 Created temporary directory: /tmp/pip-wheel-t35hwjuq 2024-03-07T21:28:13,323 Created temporary directory: /tmp/pip-ephem-wheel-cache-_2rxn9l_ 2024-03-07T21:28:13,349 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2024-03-07T21:28:13,352 2 location(s) to search for versions of pub-worm: 2024-03-07T21:28:13,352 * https://pypi.org/simple/pub-worm/ 2024-03-07T21:28:13,352 * https://www.piwheels.org/simple/pub-worm/ 2024-03-07T21:28:13,353 Fetching project page and analyzing links: https://pypi.org/simple/pub-worm/ 2024-03-07T21:28:13,354 Getting page https://pypi.org/simple/pub-worm/ 2024-03-07T21:28:13,356 Found index url https://pypi.org/simple/ 2024-03-07T21:28:13,494 Fetched page https://pypi.org/simple/pub-worm/ as application/vnd.pypi.simple.v1+json 2024-03-07T21:28:13,497 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 2024-03-07T21:28:13,710 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 2024-03-07T21:28:13,711 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 2024-03-07T21:28:13,711 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 2024-03-07T21:28:13,712 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 2024-03-07T21:28:13,713 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 2024-03-07T21:28:13,715 Fetching project page and analyzing links: https://www.piwheels.org/simple/pub-worm/ 2024-03-07T21:28:13,716 Getting page https://www.piwheels.org/simple/pub-worm/ 2024-03-07T21:28:13,718 Found index url https://www.piwheels.org/simple/ 2024-03-07T21:28:13,896 Fetched page https://www.piwheels.org/simple/pub-worm/ as text/html 2024-03-07T21:28:13,899 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/) 2024-03-07T21:28:13,899 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/) 2024-03-07T21:28:13,900 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/) 2024-03-07T21:28:13,901 Skipping link: not a file: https://www.piwheels.org/simple/pub-worm/ 2024-03-07T21:28:13,901 Skipping link: not a file: https://pypi.org/simple/pub-worm/ 2024-03-07T21:28:13,921 Given no hashes to check 1 links for project 'pub-worm': discarding no candidates 2024-03-07T21:28:13,939 Collecting pub-worm==0.1.3 2024-03-07T21:28:13,942 Created temporary directory: /tmp/pip-unpack-b75ubm93 2024-03-07T21:28:14,342 Downloading pub_worm-0.1.3.tar.gz (383 kB) 2024-03-07T21:28:14,680 Added pub-worm==0.1.3 from https://files.pythonhosted.org/packages/95/ea/f0d51e75f6a6bc592da883218d988cf193bf319166fa473a9b9b88e8d264/pub_worm-0.1.3.tar.gz to build tracker '/tmp/pip-build-tracker-dsftdyob' 2024-03-07T21:28:14,682 Running setup.py (path:/tmp/pip-wheel-t35hwjuq/pub-worm_4c536a0a80074d4b9b201a7af9d72663/setup.py) egg_info for package pub-worm 2024-03-07T21:28:14,683 Created temporary directory: /tmp/pip-pip-egg-info-j6v36cuz 2024-03-07T21:28:14,683 Preparing metadata (setup.py): started 2024-03-07T21:28:14,685 Running command python setup.py egg_info 2024-03-07T21:28:15,768 running egg_info 2024-03-07T21:28:15,769 creating /tmp/pip-pip-egg-info-j6v36cuz/pub_worm.egg-info 2024-03-07T21:28:15,795 writing /tmp/pip-pip-egg-info-j6v36cuz/pub_worm.egg-info/PKG-INFO 2024-03-07T21:28:15,798 writing dependency_links to /tmp/pip-pip-egg-info-j6v36cuz/pub_worm.egg-info/dependency_links.txt 2024-03-07T21:28:15,800 writing requirements to /tmp/pip-pip-egg-info-j6v36cuz/pub_worm.egg-info/requires.txt 2024-03-07T21:28:15,801 writing top-level names to /tmp/pip-pip-egg-info-j6v36cuz/pub_worm.egg-info/top_level.txt 2024-03-07T21:28:15,802 writing manifest file '/tmp/pip-pip-egg-info-j6v36cuz/pub_worm.egg-info/SOURCES.txt' 2024-03-07T21:28:15,884 reading manifest file '/tmp/pip-pip-egg-info-j6v36cuz/pub_worm.egg-info/SOURCES.txt' 2024-03-07T21:28:15,886 reading manifest template 'MANIFEST.in' 2024-03-07T21:28:15,889 writing manifest file '/tmp/pip-pip-egg-info-j6v36cuz/pub_worm.egg-info/SOURCES.txt' 2024-03-07T21:28:15,999 Preparing metadata (setup.py): finished with status 'done' 2024-03-07T21:28:16,004 Source in /tmp/pip-wheel-t35hwjuq/pub-worm_4c536a0a80074d4b9b201a7af9d72663 has version 0.1.3, which satisfies requirement pub-worm==0.1.3 from https://files.pythonhosted.org/packages/95/ea/f0d51e75f6a6bc592da883218d988cf193bf319166fa473a9b9b88e8d264/pub_worm-0.1.3.tar.gz 2024-03-07T21:28:16,005 Removed pub-worm==0.1.3 from https://files.pythonhosted.org/packages/95/ea/f0d51e75f6a6bc592da883218d988cf193bf319166fa473a9b9b88e8d264/pub_worm-0.1.3.tar.gz from build tracker '/tmp/pip-build-tracker-dsftdyob' 2024-03-07T21:28:16,009 Created temporary directory: /tmp/pip-unpack-0qtl67q6 2024-03-07T21:28:16,010 Created temporary directory: /tmp/pip-unpack-xomww6nb 2024-03-07T21:28:16,014 Building wheels for collected packages: pub-worm 2024-03-07T21:28:16,018 Created temporary directory: /tmp/pip-wheel-u3n2tr4p 2024-03-07T21:28:16,018 Building wheel for pub-worm (setup.py): started 2024-03-07T21:28:16,020 Destination directory: /tmp/pip-wheel-u3n2tr4p 2024-03-07T21:28:16,020 Running command python setup.py bdist_wheel 2024-03-07T21:28:17,302 running bdist_wheel 2024-03-07T21:28:17,397 running build 2024-03-07T21:28:17,397 running build_py 2024-03-07T21:28:17,425 creating build 2024-03-07T21:28:17,425 creating build/lib 2024-03-07T21:28:17,426 creating build/lib/pub_worm 2024-03-07T21:28:17,428 copying pub_worm/__init__.py -> build/lib/pub_worm 2024-03-07T21:28:17,430 creating build/lib/pub_worm/wormbase 2024-03-07T21:28:17,431 copying pub_worm/wormbase/wormbase_api.py -> build/lib/pub_worm/wormbase 2024-03-07T21:28:17,434 copying pub_worm/wormbase/to_csv_helpers.py -> build/lib/pub_worm/wormbase 2024-03-07T21:28:17,435 copying pub_worm/wormbase/__init__.py -> build/lib/pub_worm/wormbase 2024-03-07T21:28:17,437 creating build/lib/pub_worm/ncbi 2024-03-07T21:28:17,438 copying pub_worm/ncbi/__init__.py -> build/lib/pub_worm/ncbi 2024-03-07T21:28:17,440 copying pub_worm/ncbi/entreze_api.py -> build/lib/pub_worm/ncbi 2024-03-07T21:28:17,443 creating build/lib/pub_worm/impact_factor 2024-03-07T21:28:17,444 copying pub_worm/impact_factor/impact_factor_lookup.py -> build/lib/pub_worm/impact_factor 2024-03-07T21:28:17,446 copying pub_worm/impact_factor/__init__.py -> build/lib/pub_worm/impact_factor 2024-03-07T21:28:17,447 running egg_info 2024-03-07T21:28:17,502 writing pub_worm.egg-info/PKG-INFO 2024-03-07T21:28:17,505 writing dependency_links to pub_worm.egg-info/dependency_links.txt 2024-03-07T21:28:17,507 writing requirements to pub_worm.egg-info/requires.txt 2024-03-07T21:28:17,508 writing top-level names to pub_worm.egg-info/top_level.txt 2024-03-07T21:28:17,538 reading manifest file 'pub_worm.egg-info/SOURCES.txt' 2024-03-07T21:28:17,540 reading manifest template 'MANIFEST.in' 2024-03-07T21:28:17,543 writing manifest file 'pub_worm.egg-info/SOURCES.txt' 2024-03-07T21:28:17,545 /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. 2024-03-07T21:28:17,546 !! 2024-03-07T21:28:17,546 ******************************************************************************** 2024-03-07T21:28:17,547 ############################ 2024-03-07T21:28:17,547 # Package would be ignored # 2024-03-07T21:28:17,548 ############################ 2024-03-07T21:28:17,549 Python recognizes 'pub_worm.impact_factor.data' as an importable package[^1], 2024-03-07T21:28:17,549 but it is absent from setuptools' `packages` configuration. 2024-03-07T21:28:17,550 This leads to an ambiguous overall configuration. If you want to distribute this 2024-03-07T21:28:17,550 package, please make sure that 'pub_worm.impact_factor.data' is explicitly added 2024-03-07T21:28:17,551 to the `packages` configuration field. 2024-03-07T21:28:17,552 Alternatively, you can also rely on setuptools' discovery methods 2024-03-07T21:28:17,552 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-03-07T21:28:17,553 instead of `find_packages(...)`/`find:`). 2024-03-07T21:28:17,554 You can read more about "package discovery" on setuptools documentation page: 2024-03-07T21:28:17,555 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-03-07T21:28:17,556 If you don't want 'pub_worm.impact_factor.data' to be distributed and are 2024-03-07T21:28:17,557 already explicitly excluding 'pub_worm.impact_factor.data' via 2024-03-07T21:28:17,557 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-03-07T21:28:17,558 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-03-07T21:28:17,559 combination with a more fine grained `package-data` configuration. 2024-03-07T21:28:17,560 You can read more about "package data files" on setuptools documentation page: 2024-03-07T21:28:17,561 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-03-07T21:28:17,563 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-03-07T21:28:17,564 even if it does not contain any `.py` files. 2024-03-07T21:28:17,565 On the other hand, currently there is no concept of package data 2024-03-07T21:28:17,565 directory, all directories are treated like packages. 2024-03-07T21:28:17,566 ******************************************************************************** 2024-03-07T21:28:17,587 !! 2024-03-07T21:28:17,666 check.warn(importable) 2024-03-07T21:28:17,667 /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. 2024-03-07T21:28:17,668 !! 2024-03-07T21:28:17,669 ******************************************************************************** 2024-03-07T21:28:17,670 ############################ 2024-03-07T21:28:17,670 # Package would be ignored # 2024-03-07T21:28:17,671 ############################ 2024-03-07T21:28:17,672 Python recognizes 'pub_worm.wormbase.data' as an importable package[^1], 2024-03-07T21:28:17,672 but it is absent from setuptools' `packages` configuration. 2024-03-07T21:28:17,674 This leads to an ambiguous overall configuration. If you want to distribute this 2024-03-07T21:28:17,674 package, please make sure that 'pub_worm.wormbase.data' is explicitly added 2024-03-07T21:28:17,675 to the `packages` configuration field. 2024-03-07T21:28:17,676 Alternatively, you can also rely on setuptools' discovery methods 2024-03-07T21:28:17,677 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-03-07T21:28:17,677 instead of `find_packages(...)`/`find:`). 2024-03-07T21:28:17,678 You can read more about "package discovery" on setuptools documentation page: 2024-03-07T21:28:17,679 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-03-07T21:28:17,680 If you don't want 'pub_worm.wormbase.data' to be distributed and are 2024-03-07T21:28:17,680 already explicitly excluding 'pub_worm.wormbase.data' via 2024-03-07T21:28:17,681 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-03-07T21:28:17,681 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-03-07T21:28:17,682 combination with a more fine grained `package-data` configuration. 2024-03-07T21:28:17,683 You can read more about "package data files" on setuptools documentation page: 2024-03-07T21:28:17,684 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-03-07T21:28:17,685 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-03-07T21:28:17,686 even if it does not contain any `.py` files. 2024-03-07T21:28:17,686 On the other hand, currently there is no concept of package data 2024-03-07T21:28:17,687 directory, all directories are treated like packages. 2024-03-07T21:28:17,687 ******************************************************************************** 2024-03-07T21:28:17,689 !! 2024-03-07T21:28:17,689 check.warn(importable) 2024-03-07T21:28:17,690 creating build/lib/pub_worm/wormbase/data 2024-03-07T21:28:17,690 copying pub_worm/wormbase/data/wormbase_field_gene.json -> build/lib/pub_worm/wormbase/data 2024-03-07T21:28:17,691 copying pub_worm/wormbase/data/wormbase_field_paper.json -> build/lib/pub_worm/wormbase/data 2024-03-07T21:28:17,692 copying pub_worm/wormbase/data/wormbase_widget_gene.json -> build/lib/pub_worm/wormbase/data 2024-03-07T21:28:17,692 creating build/lib/pub_worm/impact_factor/data 2024-03-07T21:28:17,693 copying pub_worm/impact_factor/data/2022_JCR_IF.csv -> build/lib/pub_worm/impact_factor/data 2024-03-07T21:28:17,700 /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2024-03-07T21:28:17,701 !! 2024-03-07T21:28:17,703 ******************************************************************************** 2024-03-07T21:28:17,703 Please avoid running ``setup.py`` directly. 2024-03-07T21:28:17,704 Instead, use pypa/build, pypa/installer or other 2024-03-07T21:28:17,705 standards-based tools. 2024-03-07T21:28:17,706 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2024-03-07T21:28:17,706 ******************************************************************************** 2024-03-07T21:28:17,707 !! 2024-03-07T21:28:17,708 self.initialize_options() 2024-03-07T21:28:17,726 installing to build/bdist.linux-armv7l/wheel 2024-03-07T21:28:17,727 running install 2024-03-07T21:28:17,752 running install_lib 2024-03-07T21:28:17,779 creating build/bdist.linux-armv7l 2024-03-07T21:28:17,779 creating build/bdist.linux-armv7l/wheel 2024-03-07T21:28:17,781 creating build/bdist.linux-armv7l/wheel/pub_worm 2024-03-07T21:28:17,784 creating build/bdist.linux-armv7l/wheel/pub_worm/wormbase 2024-03-07T21:28:17,786 copying build/lib/pub_worm/wormbase/wormbase_api.py -> build/bdist.linux-armv7l/wheel/pub_worm/wormbase 2024-03-07T21:28:17,791 copying build/lib/pub_worm/wormbase/to_csv_helpers.py -> build/bdist.linux-armv7l/wheel/pub_worm/wormbase 2024-03-07T21:28:17,795 copying build/lib/pub_worm/wormbase/__init__.py -> build/bdist.linux-armv7l/wheel/pub_worm/wormbase 2024-03-07T21:28:17,801 creating build/bdist.linux-armv7l/wheel/pub_worm/wormbase/data 2024-03-07T21:28:17,803 copying build/lib/pub_worm/wormbase/data/wormbase_field_gene.json -> build/bdist.linux-armv7l/wheel/pub_worm/wormbase/data 2024-03-07T21:28:17,805 copying build/lib/pub_worm/wormbase/data/wormbase_field_paper.json -> build/bdist.linux-armv7l/wheel/pub_worm/wormbase/data 2024-03-07T21:28:17,807 copying build/lib/pub_worm/wormbase/data/wormbase_widget_gene.json -> build/bdist.linux-armv7l/wheel/pub_worm/wormbase/data 2024-03-07T21:28:17,809 copying build/lib/pub_worm/__init__.py -> build/bdist.linux-armv7l/wheel/pub_worm 2024-03-07T21:28:17,812 creating build/bdist.linux-armv7l/wheel/pub_worm/ncbi 2024-03-07T21:28:17,813 copying build/lib/pub_worm/ncbi/__init__.py -> build/bdist.linux-armv7l/wheel/pub_worm/ncbi 2024-03-07T21:28:17,815 copying build/lib/pub_worm/ncbi/entreze_api.py -> build/bdist.linux-armv7l/wheel/pub_worm/ncbi 2024-03-07T21:28:17,818 creating build/bdist.linux-armv7l/wheel/pub_worm/impact_factor 2024-03-07T21:28:17,819 copying build/lib/pub_worm/impact_factor/impact_factor_lookup.py -> build/bdist.linux-armv7l/wheel/pub_worm/impact_factor 2024-03-07T21:28:17,821 copying build/lib/pub_worm/impact_factor/__init__.py -> build/bdist.linux-armv7l/wheel/pub_worm/impact_factor 2024-03-07T21:28:17,823 creating build/bdist.linux-armv7l/wheel/pub_worm/impact_factor/data 2024-03-07T21:28:17,824 copying build/lib/pub_worm/impact_factor/data/2022_JCR_IF.csv -> build/bdist.linux-armv7l/wheel/pub_worm/impact_factor/data 2024-03-07T21:28:17,897 running install_egg_info 2024-03-07T21:28:17,927 Copying pub_worm.egg-info to build/bdist.linux-armv7l/wheel/pub_worm-0.1.3-py3.11.egg-info 2024-03-07T21:28:17,938 running install_scripts 2024-03-07T21:28:17,949 creating build/bdist.linux-armv7l/wheel/pub_worm-0.1.3.dist-info/WHEEL 2024-03-07T21:28:17,952 creating '/tmp/pip-wheel-u3n2tr4p/pub_worm-0.1.3-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2024-03-07T21:28:17,954 adding 'pub_worm/__init__.py' 2024-03-07T21:28:17,956 adding 'pub_worm/impact_factor/__init__.py' 2024-03-07T21:28:17,957 adding 'pub_worm/impact_factor/impact_factor_lookup.py' 2024-03-07T21:28:18,122 adding 'pub_worm/impact_factor/data/2022_JCR_IF.csv' 2024-03-07T21:28:18,133 adding 'pub_worm/ncbi/__init__.py' 2024-03-07T21:28:18,134 adding 'pub_worm/ncbi/entreze_api.py' 2024-03-07T21:28:18,137 adding 'pub_worm/wormbase/__init__.py' 2024-03-07T21:28:18,138 adding 'pub_worm/wormbase/to_csv_helpers.py' 2024-03-07T21:28:18,140 adding 'pub_worm/wormbase/wormbase_api.py' 2024-03-07T21:28:18,143 adding 'pub_worm/wormbase/data/wormbase_field_gene.json' 2024-03-07T21:28:18,144 adding 'pub_worm/wormbase/data/wormbase_field_paper.json' 2024-03-07T21:28:18,146 adding 'pub_worm/wormbase/data/wormbase_widget_gene.json' 2024-03-07T21:28:18,148 adding 'pub_worm-0.1.3.dist-info/METADATA' 2024-03-07T21:28:18,149 adding 'pub_worm-0.1.3.dist-info/WHEEL' 2024-03-07T21:28:18,150 adding 'pub_worm-0.1.3.dist-info/top_level.txt' 2024-03-07T21:28:18,151 adding 'pub_worm-0.1.3.dist-info/RECORD' 2024-03-07T21:28:18,166 removing build/bdist.linux-armv7l/wheel 2024-03-07T21:28:18,287 Building wheel for pub-worm (setup.py): finished with status 'done' 2024-03-07T21:28:18,294 Created wheel for pub-worm: filename=pub_worm-0.1.3-py3-none-any.whl size=387941 sha256=c93d251f88dea0862a7a5878ea9d242ca2a3dfc38922c876268f91def0e576c1 2024-03-07T21:28:18,295 Stored in directory: /tmp/pip-ephem-wheel-cache-_2rxn9l_/wheels/bd/2a/c6/350ca7d81de6f3e0fcdae6ac4dbb5a5aa6d8bc3fc300569aa1 2024-03-07T21:28:18,305 Successfully built pub-worm 2024-03-07T21:28:18,369 Removed build tracker: '/tmp/pip-build-tracker-dsftdyob'