2024-03-07T21:29:57,103 Created temporary directory: /tmp/pip-build-tracker-asup7scf 2024-03-07T21:29:57,104 Initialized build tracking at /tmp/pip-build-tracker-asup7scf 2024-03-07T21:29:57,105 Created build tracker: /tmp/pip-build-tracker-asup7scf 2024-03-07T21:29:57,105 Entered build tracker: /tmp/pip-build-tracker-asup7scf 2024-03-07T21:29:57,106 Created temporary directory: /tmp/pip-wheel-fcs92dbb 2024-03-07T21:29:57,110 Created temporary directory: /tmp/pip-ephem-wheel-cache-gi_6dhno 2024-03-07T21:29:57,131 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2024-03-07T21:29:57,135 2 location(s) to search for versions of pub-worm: 2024-03-07T21:29:57,135 * https://pypi.org/simple/pub-worm/ 2024-03-07T21:29:57,135 * https://www.piwheels.org/simple/pub-worm/ 2024-03-07T21:29:57,136 Fetching project page and analyzing links: https://pypi.org/simple/pub-worm/ 2024-03-07T21:29:57,136 Getting page https://pypi.org/simple/pub-worm/ 2024-03-07T21:29:57,138 Found index url https://pypi.org/simple/ 2024-03-07T21:29:57,274 Fetched page https://pypi.org/simple/pub-worm/ as application/vnd.pypi.simple.v1+json 2024-03-07T21:29:57,276 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 2024-03-07T21:29:57,276 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 2024-03-07T21:29:57,277 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 2024-03-07T21:29:57,278 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 2024-03-07T21:29:57,278 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 2024-03-07T21:29:57,279 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 2024-03-07T21:29:57,280 Fetching project page and analyzing links: https://www.piwheels.org/simple/pub-worm/ 2024-03-07T21:29:57,281 Getting page https://www.piwheels.org/simple/pub-worm/ 2024-03-07T21:29:57,282 Found index url https://www.piwheels.org/simple/ 2024-03-07T21:29:57,479 Fetched page https://www.piwheels.org/simple/pub-worm/ as text/html 2024-03-07T21:29:57,481 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/) 2024-03-07T21:29:57,482 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/) 2024-03-07T21:29:57,482 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/) 2024-03-07T21:29:57,483 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/) 2024-03-07T21:29:57,483 Skipping link: not a file: https://www.piwheels.org/simple/pub-worm/ 2024-03-07T21:29:57,484 Skipping link: not a file: https://pypi.org/simple/pub-worm/ 2024-03-07T21:29:57,503 Given no hashes to check 1 links for project 'pub-worm': discarding no candidates 2024-03-07T21:29:57,521 Collecting pub-worm==0.1.5 2024-03-07T21:29:57,523 Created temporary directory: /tmp/pip-unpack-ke6tacil 2024-03-07T21:29:57,737 Downloading pub_worm-0.1.5.tar.gz (383 kB) 2024-03-07T21:29:57,914 Added pub-worm==0.1.5 from https://files.pythonhosted.org/packages/49/b1/562faa427fd1ff40c449f87cda75c7c1df17d70bb5190dd9acaa36d175b1/pub_worm-0.1.5.tar.gz to build tracker '/tmp/pip-build-tracker-asup7scf' 2024-03-07T21:29:57,916 Running setup.py (path:/tmp/pip-wheel-fcs92dbb/pub-worm_e65456ebad454ac09e0f49c8719cd8b6/setup.py) egg_info for package pub-worm 2024-03-07T21:29:57,917 Created temporary directory: /tmp/pip-pip-egg-info-duv8zexy 2024-03-07T21:29:57,917 Preparing metadata (setup.py): started 2024-03-07T21:29:57,918 Running command python setup.py egg_info 2024-03-07T21:29:58,953 running egg_info 2024-03-07T21:29:58,955 creating /tmp/pip-pip-egg-info-duv8zexy/pub_worm.egg-info 2024-03-07T21:29:58,979 writing /tmp/pip-pip-egg-info-duv8zexy/pub_worm.egg-info/PKG-INFO 2024-03-07T21:29:58,982 writing dependency_links to /tmp/pip-pip-egg-info-duv8zexy/pub_worm.egg-info/dependency_links.txt 2024-03-07T21:29:58,984 writing requirements to /tmp/pip-pip-egg-info-duv8zexy/pub_worm.egg-info/requires.txt 2024-03-07T21:29:58,985 writing top-level names to /tmp/pip-pip-egg-info-duv8zexy/pub_worm.egg-info/top_level.txt 2024-03-07T21:29:58,986 writing manifest file '/tmp/pip-pip-egg-info-duv8zexy/pub_worm.egg-info/SOURCES.txt' 2024-03-07T21:29:59,064 reading manifest file '/tmp/pip-pip-egg-info-duv8zexy/pub_worm.egg-info/SOURCES.txt' 2024-03-07T21:29:59,065 reading manifest template 'MANIFEST.in' 2024-03-07T21:29:59,069 writing manifest file '/tmp/pip-pip-egg-info-duv8zexy/pub_worm.egg-info/SOURCES.txt' 2024-03-07T21:29:59,180 Preparing metadata (setup.py): finished with status 'done' 2024-03-07T21:29:59,184 Source in /tmp/pip-wheel-fcs92dbb/pub-worm_e65456ebad454ac09e0f49c8719cd8b6 has version 0.1.5, which satisfies requirement pub-worm==0.1.5 from https://files.pythonhosted.org/packages/49/b1/562faa427fd1ff40c449f87cda75c7c1df17d70bb5190dd9acaa36d175b1/pub_worm-0.1.5.tar.gz 2024-03-07T21:29:59,185 Removed pub-worm==0.1.5 from https://files.pythonhosted.org/packages/49/b1/562faa427fd1ff40c449f87cda75c7c1df17d70bb5190dd9acaa36d175b1/pub_worm-0.1.5.tar.gz from build tracker '/tmp/pip-build-tracker-asup7scf' 2024-03-07T21:29:59,189 Created temporary directory: /tmp/pip-unpack-f9om0tux 2024-03-07T21:29:59,190 Created temporary directory: /tmp/pip-unpack-5cchwpdy 2024-03-07T21:29:59,194 Building wheels for collected packages: pub-worm 2024-03-07T21:29:59,199 Created temporary directory: /tmp/pip-wheel-uv3yn0l1 2024-03-07T21:29:59,199 Building wheel for pub-worm (setup.py): started 2024-03-07T21:29:59,201 Destination directory: /tmp/pip-wheel-uv3yn0l1 2024-03-07T21:29:59,201 Running command python setup.py bdist_wheel 2024-03-07T21:30:00,219 running bdist_wheel 2024-03-07T21:30:00,311 running build 2024-03-07T21:30:00,311 running build_py 2024-03-07T21:30:00,339 creating build 2024-03-07T21:30:00,340 creating build/lib 2024-03-07T21:30:00,341 creating build/lib/pub_worm 2024-03-07T21:30:00,343 copying pub_worm/__init__.py -> build/lib/pub_worm 2024-03-07T21:30:00,345 creating build/lib/pub_worm/ncbi 2024-03-07T21:30:00,347 copying pub_worm/ncbi/entreze_api.py -> build/lib/pub_worm/ncbi 2024-03-07T21:30:00,349 copying pub_worm/ncbi/__init__.py -> build/lib/pub_worm/ncbi 2024-03-07T21:30:00,352 creating build/lib/pub_worm/impact_factor 2024-03-07T21:30:00,353 copying pub_worm/impact_factor/impact_factor_lookup.py -> build/lib/pub_worm/impact_factor 2024-03-07T21:30:00,355 copying pub_worm/impact_factor/__init__.py -> build/lib/pub_worm/impact_factor 2024-03-07T21:30:00,358 creating build/lib/pub_worm/wormbase 2024-03-07T21:30:00,359 copying pub_worm/wormbase/to_csv_helpers.py -> build/lib/pub_worm/wormbase 2024-03-07T21:30:00,361 copying pub_worm/wormbase/__init__.py -> build/lib/pub_worm/wormbase 2024-03-07T21:30:00,363 copying pub_worm/wormbase/wormbase_api.py -> build/lib/pub_worm/wormbase 2024-03-07T21:30:00,365 running egg_info 2024-03-07T21:30:00,420 writing pub_worm.egg-info/PKG-INFO 2024-03-07T21:30:00,423 writing dependency_links to pub_worm.egg-info/dependency_links.txt 2024-03-07T21:30:00,425 writing requirements to pub_worm.egg-info/requires.txt 2024-03-07T21:30:00,426 writing top-level names to pub_worm.egg-info/top_level.txt 2024-03-07T21:30:00,455 reading manifest file 'pub_worm.egg-info/SOURCES.txt' 2024-03-07T21:30:00,457 reading manifest template 'MANIFEST.in' 2024-03-07T21:30:00,460 writing manifest file 'pub_worm.egg-info/SOURCES.txt' 2024-03-07T21:30:00,463 /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. 2024-03-07T21:30:00,463 !! 2024-03-07T21:30:00,464 ******************************************************************************** 2024-03-07T21:30:00,465 ############################ 2024-03-07T21:30:00,465 # Package would be ignored # 2024-03-07T21:30:00,466 ############################ 2024-03-07T21:30:00,466 Python recognizes 'pub_worm.impact_factor.data' as an importable package[^1], 2024-03-07T21:30:00,467 but it is absent from setuptools' `packages` configuration. 2024-03-07T21:30:00,468 This leads to an ambiguous overall configuration. If you want to distribute this 2024-03-07T21:30:00,468 package, please make sure that 'pub_worm.impact_factor.data' is explicitly added 2024-03-07T21:30:00,469 to the `packages` configuration field. 2024-03-07T21:30:00,470 Alternatively, you can also rely on setuptools' discovery methods 2024-03-07T21:30:00,470 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-03-07T21:30:00,471 instead of `find_packages(...)`/`find:`). 2024-03-07T21:30:00,472 You can read more about "package discovery" on setuptools documentation page: 2024-03-07T21:30:00,473 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-03-07T21:30:00,474 If you don't want 'pub_worm.impact_factor.data' to be distributed and are 2024-03-07T21:30:00,475 already explicitly excluding 'pub_worm.impact_factor.data' via 2024-03-07T21:30:00,475 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-03-07T21:30:00,476 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-03-07T21:30:00,476 combination with a more fine grained `package-data` configuration. 2024-03-07T21:30:00,478 You can read more about "package data files" on setuptools documentation page: 2024-03-07T21:30:00,479 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-03-07T21:30:00,480 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-03-07T21:30:00,481 even if it does not contain any `.py` files. 2024-03-07T21:30:00,481 On the other hand, currently there is no concept of package data 2024-03-07T21:30:00,482 directory, all directories are treated like packages. 2024-03-07T21:30:00,482 ******************************************************************************** 2024-03-07T21:30:00,483 !! 2024-03-07T21:30:00,484 check.warn(importable) 2024-03-07T21:30:00,485 /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. 2024-03-07T21:30:00,486 !! 2024-03-07T21:30:00,487 ******************************************************************************** 2024-03-07T21:30:00,488 ############################ 2024-03-07T21:30:00,488 # Package would be ignored # 2024-03-07T21:30:00,489 ############################ 2024-03-07T21:30:00,490 Python recognizes 'pub_worm.wormbase.data' as an importable package[^1], 2024-03-07T21:30:00,491 but it is absent from setuptools' `packages` configuration. 2024-03-07T21:30:00,492 This leads to an ambiguous overall configuration. If you want to distribute this 2024-03-07T21:30:00,493 package, please make sure that 'pub_worm.wormbase.data' is explicitly added 2024-03-07T21:30:00,493 to the `packages` configuration field. 2024-03-07T21:30:00,494 Alternatively, you can also rely on setuptools' discovery methods 2024-03-07T21:30:00,495 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-03-07T21:30:00,495 instead of `find_packages(...)`/`find:`). 2024-03-07T21:30:00,497 You can read more about "package discovery" on setuptools documentation page: 2024-03-07T21:30:00,498 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-03-07T21:30:00,499 If you don't want 'pub_worm.wormbase.data' to be distributed and are 2024-03-07T21:30:00,500 already explicitly excluding 'pub_worm.wormbase.data' via 2024-03-07T21:30:00,500 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-03-07T21:30:00,501 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-03-07T21:30:00,502 combination with a more fine grained `package-data` configuration. 2024-03-07T21:30:00,503 You can read more about "package data files" on setuptools documentation page: 2024-03-07T21:30:00,504 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-03-07T21:30:00,507 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-03-07T21:30:00,507 even if it does not contain any `.py` files. 2024-03-07T21:30:00,514 On the other hand, currently there is no concept of package data 2024-03-07T21:30:00,517 directory, all directories are treated like packages. 2024-03-07T21:30:00,518 ******************************************************************************** 2024-03-07T21:30:00,519 !! 2024-03-07T21:30:00,519 check.warn(importable) 2024-03-07T21:30:00,520 creating build/lib/pub_worm/impact_factor/data 2024-03-07T21:30:00,520 copying pub_worm/impact_factor/data/2022_JCR_IF.csv -> build/lib/pub_worm/impact_factor/data 2024-03-07T21:30:00,521 creating build/lib/pub_worm/wormbase/data 2024-03-07T21:30:00,521 copying pub_worm/wormbase/data/wormbase_field_gene.json -> build/lib/pub_worm/wormbase/data 2024-03-07T21:30:00,523 copying pub_worm/wormbase/data/wormbase_field_paper.json -> build/lib/pub_worm/wormbase/data 2024-03-07T21:30:00,525 copying pub_worm/wormbase/data/wormbase_widget_gene.json -> build/lib/pub_worm/wormbase/data 2024-03-07T21:30:00,553 /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2024-03-07T21:30:00,553 !! 2024-03-07T21:30:00,554 ******************************************************************************** 2024-03-07T21:30:00,555 Please avoid running ``setup.py`` directly. 2024-03-07T21:30:00,556 Instead, use pypa/build, pypa/installer or other 2024-03-07T21:30:00,556 standards-based tools. 2024-03-07T21:30:00,557 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2024-03-07T21:30:00,558 ******************************************************************************** 2024-03-07T21:30:00,559 !! 2024-03-07T21:30:00,560 self.initialize_options() 2024-03-07T21:30:00,578 installing to build/bdist.linux-armv7l/wheel 2024-03-07T21:30:00,579 running install 2024-03-07T21:30:00,602 running install_lib 2024-03-07T21:30:00,627 creating build/bdist.linux-armv7l 2024-03-07T21:30:00,627 creating build/bdist.linux-armv7l/wheel 2024-03-07T21:30:00,629 creating build/bdist.linux-armv7l/wheel/pub_worm 2024-03-07T21:30:00,631 creating build/bdist.linux-armv7l/wheel/pub_worm/ncbi 2024-03-07T21:30:00,631 copying build/lib/pub_worm/ncbi/entreze_api.py -> build/bdist.linux-armv7l/wheel/pub_worm/ncbi 2024-03-07T21:30:00,634 copying build/lib/pub_worm/ncbi/__init__.py -> build/bdist.linux-armv7l/wheel/pub_worm/ncbi 2024-03-07T21:30:00,636 creating build/bdist.linux-armv7l/wheel/pub_worm/impact_factor 2024-03-07T21:30:00,637 creating build/bdist.linux-armv7l/wheel/pub_worm/impact_factor/data 2024-03-07T21:30:00,638 copying build/lib/pub_worm/impact_factor/data/2022_JCR_IF.csv -> build/bdist.linux-armv7l/wheel/pub_worm/impact_factor/data 2024-03-07T21:30:00,669 copying build/lib/pub_worm/impact_factor/impact_factor_lookup.py -> build/bdist.linux-armv7l/wheel/pub_worm/impact_factor 2024-03-07T21:30:00,671 copying build/lib/pub_worm/impact_factor/__init__.py -> build/bdist.linux-armv7l/wheel/pub_worm/impact_factor 2024-03-07T21:30:00,673 creating build/bdist.linux-armv7l/wheel/pub_worm/wormbase 2024-03-07T21:30:00,674 creating build/bdist.linux-armv7l/wheel/pub_worm/wormbase/data 2024-03-07T21:30:00,675 copying build/lib/pub_worm/wormbase/data/wormbase_field_paper.json -> build/bdist.linux-armv7l/wheel/pub_worm/wormbase/data 2024-03-07T21:30:00,677 copying build/lib/pub_worm/wormbase/data/wormbase_field_gene.json -> build/bdist.linux-armv7l/wheel/pub_worm/wormbase/data 2024-03-07T21:30:00,678 copying build/lib/pub_worm/wormbase/data/wormbase_widget_gene.json -> build/bdist.linux-armv7l/wheel/pub_worm/wormbase/data 2024-03-07T21:30:00,680 copying build/lib/pub_worm/wormbase/to_csv_helpers.py -> build/bdist.linux-armv7l/wheel/pub_worm/wormbase 2024-03-07T21:30:00,682 copying build/lib/pub_worm/wormbase/__init__.py -> build/bdist.linux-armv7l/wheel/pub_worm/wormbase 2024-03-07T21:30:00,684 copying build/lib/pub_worm/wormbase/wormbase_api.py -> build/bdist.linux-armv7l/wheel/pub_worm/wormbase 2024-03-07T21:30:00,686 copying build/lib/pub_worm/__init__.py -> build/bdist.linux-armv7l/wheel/pub_worm 2024-03-07T21:30:00,687 running install_egg_info 2024-03-07T21:30:00,717 Copying pub_worm.egg-info to build/bdist.linux-armv7l/wheel/pub_worm-0.1.5-py3.11.egg-info 2024-03-07T21:30:00,728 running install_scripts 2024-03-07T21:30:00,739 creating build/bdist.linux-armv7l/wheel/pub_worm-0.1.5.dist-info/WHEEL 2024-03-07T21:30:00,741 creating '/tmp/pip-wheel-uv3yn0l1/pub_worm-0.1.5-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2024-03-07T21:30:00,743 adding 'pub_worm/__init__.py' 2024-03-07T21:30:00,745 adding 'pub_worm/impact_factor/__init__.py' 2024-03-07T21:30:00,746 adding 'pub_worm/impact_factor/impact_factor_lookup.py' 2024-03-07T21:30:00,932 adding 'pub_worm/impact_factor/data/2022_JCR_IF.csv' 2024-03-07T21:30:00,948 adding 'pub_worm/ncbi/__init__.py' 2024-03-07T21:30:00,950 adding 'pub_worm/ncbi/entreze_api.py' 2024-03-07T21:30:00,952 adding 'pub_worm/wormbase/__init__.py' 2024-03-07T21:30:00,954 adding 'pub_worm/wormbase/to_csv_helpers.py' 2024-03-07T21:30:00,956 adding 'pub_worm/wormbase/wormbase_api.py' 2024-03-07T21:30:00,958 adding 'pub_worm/wormbase/data/wormbase_field_gene.json' 2024-03-07T21:30:00,960 adding 'pub_worm/wormbase/data/wormbase_field_paper.json' 2024-03-07T21:30:00,962 adding 'pub_worm/wormbase/data/wormbase_widget_gene.json' 2024-03-07T21:30:00,964 adding 'pub_worm-0.1.5.dist-info/METADATA' 2024-03-07T21:30:00,966 adding 'pub_worm-0.1.5.dist-info/WHEEL' 2024-03-07T21:30:00,967 adding 'pub_worm-0.1.5.dist-info/top_level.txt' 2024-03-07T21:30:00,968 adding 'pub_worm-0.1.5.dist-info/RECORD' 2024-03-07T21:30:00,973 removing build/bdist.linux-armv7l/wheel 2024-03-07T21:30:01,095 Building wheel for pub-worm (setup.py): finished with status 'done' 2024-03-07T21:30:01,102 Created wheel for pub-worm: filename=pub_worm-0.1.5-py3-none-any.whl size=387989 sha256=194f3e97c1023b9ba1e3ada69ff1de5c0883d9bf2e6c11d2b6173cf86f7d23ec 2024-03-07T21:30:01,103 Stored in directory: /tmp/pip-ephem-wheel-cache-gi_6dhno/wheels/08/39/92/4fd101b72bd9f8a0d6389ac3daefd0896606e3f953e9b7f126 2024-03-07T21:30:01,112 Successfully built pub-worm 2024-03-07T21:30:01,125 Removed build tracker: '/tmp/pip-build-tracker-asup7scf'