2024-11-11T19:26:40,447 Created temporary directory: /tmp/pip-build-tracker-ym9zqprp 2024-11-11T19:26:40,448 Initialized build tracking at /tmp/pip-build-tracker-ym9zqprp 2024-11-11T19:26:40,449 Created build tracker: /tmp/pip-build-tracker-ym9zqprp 2024-11-11T19:26:40,449 Entered build tracker: /tmp/pip-build-tracker-ym9zqprp 2024-11-11T19:26:40,450 Created temporary directory: /tmp/pip-wheel-wc4h7z_3 2024-11-11T19:26:40,454 Created temporary directory: /tmp/pip-ephem-wheel-cache-2vmh31vb 2024-11-11T19:26:40,498 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2024-11-11T19:26:40,501 2 location(s) to search for versions of proteomedataprep: 2024-11-11T19:26:40,501 * https://pypi.org/simple/proteomedataprep/ 2024-11-11T19:26:40,501 * https://www.piwheels.org/simple/proteomedataprep/ 2024-11-11T19:26:40,501 Fetching project page and analyzing links: https://pypi.org/simple/proteomedataprep/ 2024-11-11T19:26:40,502 Getting page https://pypi.org/simple/proteomedataprep/ 2024-11-11T19:26:40,504 Found index url https://pypi.org/simple/ 2024-11-11T19:26:40,723 Fetched page https://pypi.org/simple/proteomedataprep/ as application/vnd.pypi.simple.v1+json 2024-11-11T19:26:40,727 Skipping link: No binaries permitted for proteomedataprep: https://files.pythonhosted.org/packages/43/6b/4e39e06e38aaf068629784a7295f5a051bf2f045fda0d161ac781e77fed8/ProteomeDataPrep-0.1.0-py3-none-any.whl (from https://pypi.org/simple/proteomedataprep/) (requires-python:>=3.6) 2024-11-11T19:26:40,728 Found link https://files.pythonhosted.org/packages/c5/aa/27a6f70896dfb99a924f00c909a438019868aec0e1e7d48696edd83ec7c3/proteomedataprep-0.1.0.tar.gz (from https://pypi.org/simple/proteomedataprep/) (requires-python:>=3.6), version: 0.1.0 2024-11-11T19:26:40,729 Skipping link: No binaries permitted for proteomedataprep: https://files.pythonhosted.org/packages/c4/44/e6d782cb71a9efd4b62a6db38610962ba23731e2b1de6e03c3247a74db5a/ProteomeDataPrep-0.2.0-py3-none-any.whl (from https://pypi.org/simple/proteomedataprep/) (requires-python:>=3.6) 2024-11-11T19:26:40,730 Found link https://files.pythonhosted.org/packages/af/e3/f1d00196524835d572126c422fcf300df4947749200d430492580037c55a/proteomedataprep-0.2.0.tar.gz (from https://pypi.org/simple/proteomedataprep/) (requires-python:>=3.6), version: 0.2.0 2024-11-11T19:26:40,730 Skipping link: No binaries permitted for proteomedataprep: https://files.pythonhosted.org/packages/71/4d/1a0a049752b2614e34d3b027a66853f242586403db0ae623c789716c34bc/ProteomeDataPrep-0.2.1-py3-none-any.whl (from https://pypi.org/simple/proteomedataprep/) (requires-python:>=3.6) 2024-11-11T19:26:40,731 Found link https://files.pythonhosted.org/packages/d0/e3/995cdf9ab27398225e07fe4874f79bf81a27a13e52d59a55f222a94ac518/proteomedataprep-0.2.1.tar.gz (from https://pypi.org/simple/proteomedataprep/) (requires-python:>=3.6), version: 0.2.1 2024-11-11T19:26:40,732 Skipping link: No binaries permitted for proteomedataprep: https://files.pythonhosted.org/packages/ac/64/a3abb82026c082f787dfc15ba35271a8ec9f8a092e368226f5912dda8450/ProteomeDataPrep-0.2.2-py3-none-any.whl (from https://pypi.org/simple/proteomedataprep/) (requires-python:>=3.6) 2024-11-11T19:26:40,733 Found link https://files.pythonhosted.org/packages/89/e2/d0d864b83e71e2c0551230b154fb8c1898c0553927e494888be78644ba86/proteomedataprep-0.2.2.tar.gz (from https://pypi.org/simple/proteomedataprep/) (requires-python:>=3.6), version: 0.2.2 2024-11-11T19:26:40,734 Skipping link: No binaries permitted for proteomedataprep: https://files.pythonhosted.org/packages/2f/4f/34eb6fb5ef8ad1fd3183d5b9d2721dc619c7b5cd28dcb724dcdb58c0a8b7/ProteomeDataPrep-0.2.3-py3-none-any.whl (from https://pypi.org/simple/proteomedataprep/) (requires-python:>=3.6) 2024-11-11T19:26:40,735 Found link https://files.pythonhosted.org/packages/ae/d0/c6aaf2bb351ef8754e19916365ee7728d91a89627591eba8d7c1f3b0f0fd/proteomedataprep-0.2.3.tar.gz (from https://pypi.org/simple/proteomedataprep/) (requires-python:>=3.6), version: 0.2.3 2024-11-11T19:26:40,735 Skipping link: No binaries permitted for proteomedataprep: https://files.pythonhosted.org/packages/ad/04/1e3763d8b16ec3a5aed7213b2fc58f08f3fc8b6972a121b47c2405f6be47/ProteomeDataPrep-0.2.4-py3-none-any.whl (from https://pypi.org/simple/proteomedataprep/) (requires-python:>=3.6) 2024-11-11T19:26:40,736 Found link https://files.pythonhosted.org/packages/46/c2/4b16b50011de85d52c84928a3c2632c169252f9aebefb9e9629ec57c163f/proteomedataprep-0.2.4.tar.gz (from https://pypi.org/simple/proteomedataprep/) (requires-python:>=3.6), version: 0.2.4 2024-11-11T19:26:40,737 Skipping link: No binaries permitted for proteomedataprep: https://files.pythonhosted.org/packages/34/e8/f33f833ed364378f8cbcdb5894d13bd2b8844b197c3a400f9f1b63495539/ProteomeDataPrep-0.2.5-py3-none-any.whl (from https://pypi.org/simple/proteomedataprep/) (requires-python:>=3.6) 2024-11-11T19:26:40,738 Found link https://files.pythonhosted.org/packages/ea/43/f6913ce574787e9c1bfb2ddf76d9ac587a03f899c22cc1b58149cc62e33a/proteomedataprep-0.2.5.tar.gz (from https://pypi.org/simple/proteomedataprep/) (requires-python:>=3.6), version: 0.2.5 2024-11-11T19:26:40,739 Fetching project page and analyzing links: https://www.piwheels.org/simple/proteomedataprep/ 2024-11-11T19:26:40,739 Getting page https://www.piwheels.org/simple/proteomedataprep/ 2024-11-11T19:26:40,741 Found index url https://www.piwheels.org/simple/ 2024-11-11T19:26:40,905 Fetched page https://www.piwheels.org/simple/proteomedataprep/ as text/html 2024-11-11T19:26:40,908 Skipping link: No binaries permitted for proteomedataprep: https://www.piwheels.org/simple/proteomedataprep/ProteomeDataPrep-0.2.4-py3-none-any.whl#sha256=505febcbae635e71aecdd302b6e469696cfd21ca17a8c0e0bb41f5a1e1e77aed (from https://www.piwheels.org/simple/proteomedataprep/) (requires-python:>=3.6) 2024-11-11T19:26:40,909 Skipping link: No binaries permitted for proteomedataprep: https://www.piwheels.org/simple/proteomedataprep/ProteomeDataPrep-0.2.3-py3-none-any.whl#sha256=ebebd8113ff1bf0062eace631c018d3126e7ced75dd7756eb10a94b697772406 (from https://www.piwheels.org/simple/proteomedataprep/) (requires-python:>=3.6) 2024-11-11T19:26:40,909 Skipping link: No binaries permitted for proteomedataprep: https://www.piwheels.org/simple/proteomedataprep/ProteomeDataPrep-0.2.2-py3-none-any.whl#sha256=e2141b6d18c339178827227151421668234574ea1aff8b77e9980d3558ccd58e (from https://www.piwheels.org/simple/proteomedataprep/) (requires-python:>=3.6) 2024-11-11T19:26:40,910 Skipping link: No binaries permitted for proteomedataprep: https://www.piwheels.org/simple/proteomedataprep/ProteomeDataPrep-0.2.1-py3-none-any.whl#sha256=f601afca63d23535b72b4a262681f6cf42814a62958523d20286d1f5ace4395b (from https://www.piwheels.org/simple/proteomedataprep/) (requires-python:>=3.6) 2024-11-11T19:26:40,911 Skipping link: No binaries permitted for proteomedataprep: https://www.piwheels.org/simple/proteomedataprep/ProteomeDataPrep-0.2.0-py3-none-any.whl#sha256=3431642206fad994e0fd46d920b2e061cc50dfbdb50747b9d04cbdb22213f981 (from https://www.piwheels.org/simple/proteomedataprep/) (requires-python:>=3.6) 2024-11-11T19:26:40,911 Skipping link: No binaries permitted for proteomedataprep: https://www.piwheels.org/simple/proteomedataprep/ProteomeDataPrep-0.1.0-py3-none-any.whl#sha256=d8ad9f89b3d8739e9e7779cafe89fe7ecb1dd70716a6a1141b2f2aec90b7af6d (from https://www.piwheels.org/simple/proteomedataprep/) (requires-python:>=3.6) 2024-11-11T19:26:40,912 Skipping link: not a file: https://www.piwheels.org/simple/proteomedataprep/ 2024-11-11T19:26:40,913 Skipping link: not a file: https://pypi.org/simple/proteomedataprep/ 2024-11-11T19:26:40,932 Given no hashes to check 1 links for project 'proteomedataprep': discarding no candidates 2024-11-11T19:26:40,934 Collecting proteomedataprep==0.2.5 2024-11-11T19:26:40,937 Created temporary directory: /tmp/pip-unpack-kiwejpvj 2024-11-11T19:26:41,409 Downloading proteomedataprep-0.2.5.tar.gz (838 kB) 2024-11-11T19:26:41,774 Added proteomedataprep==0.2.5 from https://files.pythonhosted.org/packages/ea/43/f6913ce574787e9c1bfb2ddf76d9ac587a03f899c22cc1b58149cc62e33a/proteomedataprep-0.2.5.tar.gz to build tracker '/tmp/pip-build-tracker-ym9zqprp' 2024-11-11T19:26:41,775 Running setup.py (path:/tmp/pip-wheel-wc4h7z_3/proteomedataprep_67b637af7edc4ad1ababca4fd6579c37/setup.py) egg_info for package proteomedataprep 2024-11-11T19:26:41,777 Created temporary directory: /tmp/pip-pip-egg-info-6fke05nh 2024-11-11T19:26:41,777 Preparing metadata (setup.py): started 2024-11-11T19:26:41,778 Running command python setup.py egg_info 2024-11-11T19:26:42,846 running egg_info 2024-11-11T19:26:42,874 creating /tmp/pip-pip-egg-info-6fke05nh/ProteomeDataPrep.egg-info 2024-11-11T19:26:42,875 writing /tmp/pip-pip-egg-info-6fke05nh/ProteomeDataPrep.egg-info/PKG-INFO 2024-11-11T19:26:42,878 writing dependency_links to /tmp/pip-pip-egg-info-6fke05nh/ProteomeDataPrep.egg-info/dependency_links.txt 2024-11-11T19:26:42,880 writing requirements to /tmp/pip-pip-egg-info-6fke05nh/ProteomeDataPrep.egg-info/requires.txt 2024-11-11T19:26:42,881 writing top-level names to /tmp/pip-pip-egg-info-6fke05nh/ProteomeDataPrep.egg-info/top_level.txt 2024-11-11T19:26:42,883 writing manifest file '/tmp/pip-pip-egg-info-6fke05nh/ProteomeDataPrep.egg-info/SOURCES.txt' 2024-11-11T19:26:42,971 reading manifest file '/tmp/pip-pip-egg-info-6fke05nh/ProteomeDataPrep.egg-info/SOURCES.txt' 2024-11-11T19:26:42,975 writing manifest file '/tmp/pip-pip-egg-info-6fke05nh/ProteomeDataPrep.egg-info/SOURCES.txt' 2024-11-11T19:26:43,084 Preparing metadata (setup.py): finished with status 'done' 2024-11-11T19:26:43,088 Source in /tmp/pip-wheel-wc4h7z_3/proteomedataprep_67b637af7edc4ad1ababca4fd6579c37 has version 0.2.5, which satisfies requirement proteomedataprep==0.2.5 from https://files.pythonhosted.org/packages/ea/43/f6913ce574787e9c1bfb2ddf76d9ac587a03f899c22cc1b58149cc62e33a/proteomedataprep-0.2.5.tar.gz 2024-11-11T19:26:43,088 Removed proteomedataprep==0.2.5 from https://files.pythonhosted.org/packages/ea/43/f6913ce574787e9c1bfb2ddf76d9ac587a03f899c22cc1b58149cc62e33a/proteomedataprep-0.2.5.tar.gz from build tracker '/tmp/pip-build-tracker-ym9zqprp' 2024-11-11T19:26:43,094 Created temporary directory: /tmp/pip-unpack-sl988iir 2024-11-11T19:26:43,095 Created temporary directory: /tmp/pip-unpack-0rt1dvjr 2024-11-11T19:26:43,096 Building wheels for collected packages: proteomedataprep 2024-11-11T19:26:43,100 Created temporary directory: /tmp/pip-wheel-pvrvqv6z 2024-11-11T19:26:43,101 Building wheel for proteomedataprep (setup.py): started 2024-11-11T19:26:43,102 Destination directory: /tmp/pip-wheel-pvrvqv6z 2024-11-11T19:26:43,103 Running command python setup.py bdist_wheel 2024-11-11T19:26:44,119 running bdist_wheel 2024-11-11T19:26:44,250 running build 2024-11-11T19:26:44,250 running build_py 2024-11-11T19:26:44,281 creating build/lib/proteome_data_prep 2024-11-11T19:26:44,283 copying proteome_data_prep/data_loader.py -> build/lib/proteome_data_prep 2024-11-11T19:26:44,286 copying proteome_data_prep/__init__.py -> build/lib/proteome_data_prep 2024-11-11T19:26:44,288 copying proteome_data_prep/data_utils.py -> build/lib/proteome_data_prep 2024-11-11T19:26:44,290 copying proteome_data_prep/data_container.py -> build/lib/proteome_data_prep 2024-11-11T19:26:44,292 copying proteome_data_prep/process_utils.py -> build/lib/proteome_data_prep 2024-11-11T19:26:44,294 running egg_info 2024-11-11T19:26:44,321 writing ProteomeDataPrep.egg-info/PKG-INFO 2024-11-11T19:26:44,324 writing dependency_links to ProteomeDataPrep.egg-info/dependency_links.txt 2024-11-11T19:26:44,326 writing requirements to ProteomeDataPrep.egg-info/requires.txt 2024-11-11T19:26:44,327 writing top-level names to ProteomeDataPrep.egg-info/top_level.txt 2024-11-11T19:26:44,358 reading manifest file 'ProteomeDataPrep.egg-info/SOURCES.txt' 2024-11-11T19:26:44,363 writing manifest file 'ProteomeDataPrep.egg-info/SOURCES.txt' 2024-11-11T19:26:44,365 /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:220: _Warning: Package 'proteome_data_prep.data' is absent from the `packages` configuration. 2024-11-11T19:26:44,366 !! 2024-11-11T19:26:44,367 ******************************************************************************** 2024-11-11T19:26:44,367 ############################ 2024-11-11T19:26:44,368 # Package would be ignored # 2024-11-11T19:26:44,369 ############################ 2024-11-11T19:26:44,369 Python recognizes 'proteome_data_prep.data' as an importable package[^1], 2024-11-11T19:26:44,370 but it is absent from setuptools' `packages` configuration. 2024-11-11T19:26:44,371 This leads to an ambiguous overall configuration. If you want to distribute this 2024-11-11T19:26:44,371 package, please make sure that 'proteome_data_prep.data' is explicitly added 2024-11-11T19:26:44,372 to the `packages` configuration field. 2024-11-11T19:26:44,373 Alternatively, you can also rely on setuptools' discovery methods 2024-11-11T19:26:44,373 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-11-11T19:26:44,374 instead of `find_packages(...)`/`find:`). 2024-11-11T19:26:44,375 You can read more about "package discovery" on setuptools documentation page: 2024-11-11T19:26:44,376 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-11-11T19:26:44,377 If you don't want 'proteome_data_prep.data' to be distributed and are 2024-11-11T19:26:44,377 already explicitly excluding 'proteome_data_prep.data' via 2024-11-11T19:26:44,378 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-11-11T19:26:44,378 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-11-11T19:26:44,378 combination with a more fine grained `package-data` configuration. 2024-11-11T19:26:44,380 You can read more about "package data files" on setuptools documentation page: 2024-11-11T19:26:44,381 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-11-11T19:26:44,383 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-11-11T19:26:44,383 even if it does not contain any `.py` files. 2024-11-11T19:26:44,384 On the other hand, currently there is no concept of package data 2024-11-11T19:26:44,385 directory, all directories are treated like packages. 2024-11-11T19:26:44,385 ******************************************************************************** 2024-11-11T19:26:44,386 !! 2024-11-11T19:26:44,387 check.warn(importable) 2024-11-11T19:26:44,388 creating build/lib/proteome_data_prep/data 2024-11-11T19:26:44,388 copying proteome_data_prep/data/acc_by_tf_gene.json -> build/lib/proteome_data_prep/data 2024-11-11T19:26:44,389 copying proteome_data_prep/data/bad_batches.txt -> build/lib/proteome_data_prep/data 2024-11-11T19:26:44,389 copying proteome_data_prep/data/gene_info_by_acc.json -> build/lib/proteome_data_prep/data 2024-11-11T19:26:44,442 copying proteome_data_prep/data/tf_proteins.txt -> build/lib/proteome_data_prep/data 2024-11-11T19:26:44,473 /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2024-11-11T19:26:44,473 !! 2024-11-11T19:26:44,474 ******************************************************************************** 2024-11-11T19:26:44,475 Please avoid running ``setup.py`` directly. 2024-11-11T19:26:44,476 Instead, use pypa/build, pypa/installer or other 2024-11-11T19:26:44,476 standards-based tools. 2024-11-11T19:26:44,477 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2024-11-11T19:26:44,478 ******************************************************************************** 2024-11-11T19:26:44,479 !! 2024-11-11T19:26:44,480 self.initialize_options() 2024-11-11T19:26:44,501 installing to build/bdist.linux-armv7l/wheel 2024-11-11T19:26:44,502 running install 2024-11-11T19:26:44,526 running install_lib 2024-11-11T19:26:44,556 creating build/bdist.linux-armv7l/wheel 2024-11-11T19:26:44,558 creating build/bdist.linux-armv7l/wheel/proteome_data_prep 2024-11-11T19:26:44,560 copying build/lib/proteome_data_prep/data_loader.py -> build/bdist.linux-armv7l/wheel/./proteome_data_prep 2024-11-11T19:26:44,563 copying build/lib/proteome_data_prep/__init__.py -> build/bdist.linux-armv7l/wheel/./proteome_data_prep 2024-11-11T19:26:44,565 copying build/lib/proteome_data_prep/data_utils.py -> build/bdist.linux-armv7l/wheel/./proteome_data_prep 2024-11-11T19:26:44,567 creating build/bdist.linux-armv7l/wheel/proteome_data_prep/data 2024-11-11T19:26:44,569 copying build/lib/proteome_data_prep/data/gene_info_by_acc.json -> build/bdist.linux-armv7l/wheel/./proteome_data_prep/data 2024-11-11T19:26:44,641 copying build/lib/proteome_data_prep/data/bad_batches.txt -> build/bdist.linux-armv7l/wheel/./proteome_data_prep/data 2024-11-11T19:26:44,643 copying build/lib/proteome_data_prep/data/tf_proteins.txt -> build/bdist.linux-armv7l/wheel/./proteome_data_prep/data 2024-11-11T19:26:44,647 copying build/lib/proteome_data_prep/data/acc_by_tf_gene.json -> build/bdist.linux-armv7l/wheel/./proteome_data_prep/data 2024-11-11T19:26:44,650 copying build/lib/proteome_data_prep/data_container.py -> build/bdist.linux-armv7l/wheel/./proteome_data_prep 2024-11-11T19:26:44,651 copying build/lib/proteome_data_prep/process_utils.py -> build/bdist.linux-armv7l/wheel/./proteome_data_prep 2024-11-11T19:26:44,654 running install_egg_info 2024-11-11T19:26:44,687 Copying ProteomeDataPrep.egg-info to build/bdist.linux-armv7l/wheel/./ProteomeDataPrep-0.2.5-py3.11.egg-info 2024-11-11T19:26:44,698 running install_scripts 2024-11-11T19:26:44,710 creating build/bdist.linux-armv7l/wheel/ProteomeDataPrep-0.2.5.dist-info/WHEEL 2024-11-11T19:26:44,713 creating '/tmp/pip-wheel-pvrvqv6z/ProteomeDataPrep-0.2.5-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2024-11-11T19:26:44,716 adding 'proteome_data_prep/__init__.py' 2024-11-11T19:26:44,717 adding 'proteome_data_prep/data_container.py' 2024-11-11T19:26:44,719 adding 'proteome_data_prep/data_loader.py' 2024-11-11T19:26:44,721 adding 'proteome_data_prep/data_utils.py' 2024-11-11T19:26:44,724 adding 'proteome_data_prep/process_utils.py' 2024-11-11T19:26:44,731 adding 'proteome_data_prep/data/acc_by_tf_gene.json' 2024-11-11T19:26:44,732 adding 'proteome_data_prep/data/bad_batches.txt' 2024-11-11T19:26:45,087 adding 'proteome_data_prep/data/gene_info_by_acc.json' 2024-11-11T19:26:45,127 adding 'proteome_data_prep/data/tf_proteins.txt' 2024-11-11T19:26:45,128 adding 'ProteomeDataPrep-0.2.5.dist-info/METADATA' 2024-11-11T19:26:45,129 adding 'ProteomeDataPrep-0.2.5.dist-info/WHEEL' 2024-11-11T19:26:45,130 adding 'ProteomeDataPrep-0.2.5.dist-info/top_level.txt' 2024-11-11T19:26:45,131 adding 'ProteomeDataPrep-0.2.5.dist-info/RECORD' 2024-11-11T19:26:45,140 removing build/bdist.linux-armv7l/wheel 2024-11-11T19:26:45,257 Building wheel for proteomedataprep (setup.py): finished with status 'done' 2024-11-11T19:26:45,268 Created wheel for proteomedataprep: filename=ProteomeDataPrep-0.2.5-py3-none-any.whl size=860833 sha256=df13a967ce7c341c68cda7b4973a593017c0630646e9f723a31548baeb33bdfa 2024-11-11T19:26:45,269 Stored in directory: /tmp/pip-ephem-wheel-cache-2vmh31vb/wheels/94/ed/8f/4360a199238158837e628f68eec437bb3d934b7ddcdb1972a8 2024-11-11T19:26:45,279 Successfully built proteomedataprep 2024-11-11T19:26:45,310 Removed build tracker: '/tmp/pip-build-tracker-ym9zqprp'