2025-09-13T08:54:10,099 Created temporary directory: /tmp/pip-build-tracker-0zo0mg4b
2025-09-13T08:54:10,100 Initialized build tracking at /tmp/pip-build-tracker-0zo0mg4b
2025-09-13T08:54:10,101 Created build tracker: /tmp/pip-build-tracker-0zo0mg4b
2025-09-13T08:54:10,101 Entered build tracker: /tmp/pip-build-tracker-0zo0mg4b
2025-09-13T08:54:10,102 Created temporary directory: /tmp/pip-wheel-amspvt81
2025-09-13T08:54:10,106 Created temporary directory: /tmp/pip-ephem-wheel-cache-c81pcdej
2025-09-13T08:54:10,152 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2025-09-13T08:54:10,155 2 location(s) to search for versions of mitywgs:
2025-09-13T08:54:10,155 * https://pypi.org/simple/mitywgs/
2025-09-13T08:54:10,155 * https://www.piwheels.org/simple/mitywgs/
2025-09-13T08:54:10,155 Fetching project page and analyzing links: https://pypi.org/simple/mitywgs/
2025-09-13T08:54:10,156 Getting page https://pypi.org/simple/mitywgs/
2025-09-13T08:54:10,158 Found index url https://pypi.org/simple/
2025-09-13T08:54:10,441 Fetched page https://pypi.org/simple/mitywgs/ as application/vnd.pypi.simple.v1+json
2025-09-13T08:54:10,445   Skipping link: No binaries permitted for mitywgs: https://files.pythonhosted.org/packages/95/5f/0fba9bf0dc8952226a3f354f63799ffc90c6316bd29655a65af24a4eb38a/mitywgs-0.1.0-py3-none-any.whl (from https://pypi.org/simple/mitywgs/) (requires-python:>=3.5.3)
2025-09-13T08:54:10,446   Found link https://files.pythonhosted.org/packages/86/fc/4260dd9cae80420e003f605e31b54e73af7fb685625664d1ccf0435ac64e/mitywgs-0.1.0.tar.gz (from https://pypi.org/simple/mitywgs/) (requires-python:>=3.5.3), version: 0.1.0
2025-09-13T08:54:10,446   Skipping link: No binaries permitted for mitywgs: https://files.pythonhosted.org/packages/4f/5e/b43206082ca61da3e83d9e5c1e143c3de55f32c04146c81a70281726522a/mitywgs-0.1.1-py3-none-any.whl (from https://pypi.org/simple/mitywgs/) (requires-python:>=3.5.3)
2025-09-13T08:54:10,447   Found link https://files.pythonhosted.org/packages/9b/c5/77f664847f6788589008debb792b3c5436e4b496a030cb90e2062aaa1086/mitywgs-0.1.1.tar.gz (from https://pypi.org/simple/mitywgs/) (requires-python:>=3.5.3), version: 0.1.1
2025-09-13T08:54:10,448   Skipping link: No binaries permitted for mitywgs: https://files.pythonhosted.org/packages/e5/b4/1512000bcbc0c4187fb9078309af272f45133fd51123b493a487b4712d3d/mitywgs-0.1.2-py3-none-any.whl (from https://pypi.org/simple/mitywgs/) (requires-python:>=3.5.3)
2025-09-13T08:54:10,448   Found link https://files.pythonhosted.org/packages/9a/17/bd154ed0992c1dfe18326afd02587f9acc83c7f06d0d10c7b1953b4dbd26/mitywgs-0.1.2.tar.gz (from https://pypi.org/simple/mitywgs/) (requires-python:>=3.5.3), version: 0.1.2
2025-09-13T08:54:10,449   Skipping link: No binaries permitted for mitywgs: https://files.pythonhosted.org/packages/40/b3/d2199c137c3893b5935b31a46b771ca9cb02e01ea169646a124bc8b19bde/mitywgs-0.1.3-py3-none-any.whl (from https://pypi.org/simple/mitywgs/) (requires-python:>=3.5.3)
2025-09-13T08:54:10,450   Found link https://files.pythonhosted.org/packages/09/89/ec808bf6dd1fb7095eda564ef732a03d2146981fa599f862b3d0ed07a687/mitywgs-0.1.3.tar.gz (from https://pypi.org/simple/mitywgs/) (requires-python:>=3.5.3), version: 0.1.3
2025-09-13T08:54:10,450   Skipping link: No binaries permitted for mitywgs: https://files.pythonhosted.org/packages/c7/ab/17446e81990597f0ede16c0426ba76037f02b440dc5d51a6b8dc9a208881/mitywgs-0.2.0-py3-none-any.whl (from https://pypi.org/simple/mitywgs/) (requires-python:>=3.5.3)
2025-09-13T08:54:10,451   Found link https://files.pythonhosted.org/packages/c9/ab/7de2568d5ed11e067b0390fd31fa1d30eb099bce133b55cb0afed11c1986/mitywgs-0.2.0.tar.gz (from https://pypi.org/simple/mitywgs/) (requires-python:>=3.5.3), version: 0.2.0
2025-09-13T08:54:10,452   Found link https://files.pythonhosted.org/packages/1d/42/c1c72c18c8e20c698dde0e058896655b177d48e46693afd5f25a4820a8d0/mitywgs-0.2.1.tar.gz (from https://pypi.org/simple/mitywgs/) (requires-python:>=3.5.4), version: 0.2.1
2025-09-13T08:54:10,453   Skipping link: No binaries permitted for mitywgs: https://files.pythonhosted.org/packages/70/65/149da0fc3c6b39d585afe30be8e565acd57c30ab061098b91d24e4bf3b28/mitywgs-0.3.0-py3-none-any.whl (from https://pypi.org/simple/mitywgs/) (requires-python:>=3.5.4)
2025-09-13T08:54:10,453   Found link https://files.pythonhosted.org/packages/85/f2/da170c825d1453e9c350e288bd19018b54d9df4dc1c1d1fcb7332bbc67d2/mitywgs-0.3.0.tar.gz (from https://pypi.org/simple/mitywgs/) (requires-python:>=3.5.4), version: 0.3.0
2025-09-13T08:54:10,454   Skipping link: No binaries permitted for mitywgs: https://files.pythonhosted.org/packages/29/f0/3e335d7958a5d6d3dcf1dfba93594eec77bcf0aa9adde9d0978c0ff444bb/mitywgs-0.3.1-py3-none-any.whl (from https://pypi.org/simple/mitywgs/) (requires-python:>=3.5.4)
2025-09-13T08:54:10,455   Found link https://files.pythonhosted.org/packages/93/a8/845e11c50e4bf8459685b1fe4a3123c2495d573056c3e56a17c6e84d35c5/mitywgs-0.3.1.tar.gz (from https://pypi.org/simple/mitywgs/) (requires-python:>=3.5.4), version: 0.3.1
2025-09-13T08:54:10,456   Skipping link: No binaries permitted for mitywgs: https://files.pythonhosted.org/packages/1b/9e/ca91734f30aaf35c1b27ac388e8b333de771694b23c20559ab3c7469abe3/mitywgs-0.4.0-py3-none-any.whl (from https://pypi.org/simple/mitywgs/) (requires-python:>=3.5.4)
2025-09-13T08:54:10,456   Found link https://files.pythonhosted.org/packages/11/3e/0afdf01d6c7065637962c87ace18a33bfdd4c33a0685f255459a73c29662/mitywgs-0.4.0.tar.gz (from https://pypi.org/simple/mitywgs/) (requires-python:>=3.5.4), version: 0.4.0
2025-09-13T08:54:10,457   Found link https://files.pythonhosted.org/packages/27/00/b37d3d18ec330c45f5922187afc37eaa805a6182d8fa29954c29652068a7/mitywgs-1.0.0.tar.gz (from https://pypi.org/simple/mitywgs/) (requires-python:>=3.5.4), version: 1.0.0
2025-09-13T08:54:10,458   Found link https://files.pythonhosted.org/packages/8b/07/911f1a30fcd360a0861a2f6bb887f87a39b2d4cb788123cfbc3856e7f4de/mitywgs-1.1.0.tar.gz (from https://pypi.org/simple/mitywgs/) (requires-python:>=3.5.4), version: 1.1.0
2025-09-13T08:54:10,459   Found link https://files.pythonhosted.org/packages/d3/32/3e4a32faed6f5c80577d01b95ef993ec8ebe13d15b0328c172bd7fbc8f93/mitywgs-1.2.0.tar.gz (from https://pypi.org/simple/mitywgs/) (requires-python:>=3.10), version: 1.2.0
2025-09-13T08:54:10,460   Found link https://files.pythonhosted.org/packages/58/56/3c4d991974d5cae481f5cd6d4885b42538545ecbd1a2038d0fd10b69c153/mitywgs-2.0.0.tar.gz (from https://pypi.org/simple/mitywgs/) (requires-python:>=3.10), version: 2.0.0
2025-09-13T08:54:10,461   Found link https://files.pythonhosted.org/packages/01/32/81ab0a1a9f1a80dbaca0c552076a07680fcbc6da29767013292b5f7c050f/mitywgs-2.0.1.tar.gz (from https://pypi.org/simple/mitywgs/) (requires-python:>=3.10), version: 2.0.1
2025-09-13T08:54:10,462 Fetching project page and analyzing links: https://www.piwheels.org/simple/mitywgs/
2025-09-13T08:54:10,462 Getting page https://www.piwheels.org/simple/mitywgs/
2025-09-13T08:54:10,464 Found index url https://www.piwheels.org/simple/
2025-09-13T08:54:10,664 Fetched page https://www.piwheels.org/simple/mitywgs/ as text/html
2025-09-13T08:54:10,668   Skipping link: No binaries permitted for mitywgs: https://archive1.piwheels.org/simple/mitywgs/mitywgs-2.0.0-py3-none-any.whl#sha256=b8ba9d38d507cd0c23ec57a2645bf52e37165d0b7fb798a16065962ad9487cdc (from https://www.piwheels.org/simple/mitywgs/) (requires-python:>=3.10)
2025-09-13T08:54:10,669   Skipping link: No binaries permitted for mitywgs: https://archive1.piwheels.org/simple/mitywgs/mitywgs-1.2.0-py3-none-any.whl#sha256=2eace025a387ebfbcb0111b29f97cf4820491153e828d2f844511f8b0bfc69ba (from https://www.piwheels.org/simple/mitywgs/) (requires-python:>=3.10)
2025-09-13T08:54:10,669   Skipping link: No binaries permitted for mitywgs: https://archive1.piwheels.org/simple/mitywgs/mitywgs-1.1.0-py3-none-any.whl#sha256=390a7b76c7bf3e68217de7b0e1f1d0d3ecf08dd0956f03160e32250c3778fa04 (from https://www.piwheels.org/simple/mitywgs/) (requires-python:>=3.5.4)
2025-09-13T08:54:10,670   Skipping link: No binaries permitted for mitywgs: https://archive1.piwheels.org/simple/mitywgs/mitywgs-1.0.0-py3-none-any.whl#sha256=b347af79edf93d63124288c6875a3f9b20eb1e9c0386a990c7222166f8af2461 (from https://www.piwheels.org/simple/mitywgs/) (requires-python:>=3.5.4)
2025-09-13T08:54:10,670   Skipping link: No binaries permitted for mitywgs: https://archive1.piwheels.org/simple/mitywgs/mitywgs-0.4.0-py3-none-any.whl#sha256=f8865542ccd554aba04ac95d9728beee6034f5c1de378ccf783d530a0d4db8f9 (from https://www.piwheels.org/simple/mitywgs/) (requires-python:>=3.5.4)
2025-09-13T08:54:10,671   Skipping link: No binaries permitted for mitywgs: https://archive1.piwheels.org/simple/mitywgs/mitywgs-0.3.1-py3-none-any.whl#sha256=bd4183a43f9f7e27c073f03cb6d76dbb1e81448b2712bf4d2247c205bd0a5572 (from https://www.piwheels.org/simple/mitywgs/) (requires-python:>=3.5.4)
2025-09-13T08:54:10,671   Skipping link: No binaries permitted for mitywgs: https://archive1.piwheels.org/simple/mitywgs/mitywgs-0.3.0-py3-none-any.whl#sha256=0e8c010b09481b6c8a42d1cc2a56d0406491b1b3bd937d4b122d905315bb968f (from https://www.piwheels.org/simple/mitywgs/) (requires-python:>=3.5.4)
2025-09-13T08:54:10,672   Skipping link: No binaries permitted for mitywgs: https://archive1.piwheels.org/simple/mitywgs/mitywgs-0.2.1-py3-none-any.whl#sha256=b0e58845f593a26d29938af561d632fa6174a7428a90b1f2b49cf5cd8e1a3950 (from https://www.piwheels.org/simple/mitywgs/) (requires-python:>=3.5.4)
2025-09-13T08:54:10,672   Skipping link: No binaries permitted for mitywgs: https://archive1.piwheels.org/simple/mitywgs/mitywgs-0.2.0-py3-none-any.whl#sha256=59db3a95242366e4220ca17e0d453c893e0e0ac128f0ce98c494ad7ce76cf7d7 (from https://www.piwheels.org/simple/mitywgs/) (requires-python:>=3.5.3)
2025-09-13T08:54:10,673   Skipping link: No binaries permitted for mitywgs: https://archive1.piwheels.org/simple/mitywgs/mitywgs-0.1.3-py3-none-any.whl#sha256=0a374d9c6a2f3332d7807769be46d2afa345326c4820f6bc0997ca0aeb6f5f36 (from https://www.piwheels.org/simple/mitywgs/) (requires-python:>=3.5.3)
2025-09-13T08:54:10,673   Skipping link: No binaries permitted for mitywgs: https://archive1.piwheels.org/simple/mitywgs/mitywgs-0.1.2-py3-none-any.whl#sha256=a69913d9779386126f0b05545efd39978dfab19c637cd2a9536c436bd0b54d51 (from https://www.piwheels.org/simple/mitywgs/) (requires-python:>=3.5.3)
2025-09-13T08:54:10,674   Skipping link: No binaries permitted for mitywgs: https://archive1.piwheels.org/simple/mitywgs/mitywgs-0.1.1-py3-none-any.whl#sha256=a48d78fdf8a9fb6409720d417602a7e690c2b28aeff99462182df4d6fb9acf27 (from https://www.piwheels.org/simple/mitywgs/) (requires-python:>=3.5.3)
2025-09-13T08:54:10,674   Skipping link: No binaries permitted for mitywgs: https://archive1.piwheels.org/simple/mitywgs/mitywgs-0.1.0-py3-none-any.whl#sha256=90e433721fea608ae7c7843812b355412ebe36937935f260e72a87ab21f6aefd (from https://www.piwheels.org/simple/mitywgs/) (requires-python:>=3.5.3)
2025-09-13T08:54:10,675 Skipping link: not a file: https://www.piwheels.org/simple/mitywgs/
2025-09-13T08:54:10,675 Skipping link: not a file: https://pypi.org/simple/mitywgs/
2025-09-13T08:54:10,694 Given no hashes to check 1 links for project 'mitywgs': discarding no candidates
2025-09-13T08:54:10,695 Collecting mitywgs==2.0.1
2025-09-13T08:54:10,698   Created temporary directory: /tmp/pip-unpack-axckvmmo
2025-09-13T08:54:11,089   Downloading mitywgs-2.0.1.tar.gz (1.4 MB)
2025-09-13T08:54:11,576   Added mitywgs==2.0.1 from https://files.pythonhosted.org/packages/01/32/81ab0a1a9f1a80dbaca0c552076a07680fcbc6da29767013292b5f7c050f/mitywgs-2.0.1.tar.gz to build tracker '/tmp/pip-build-tracker-0zo0mg4b'
2025-09-13T08:54:11,578   Running setup.py (path:/tmp/pip-wheel-amspvt81/mitywgs_2fc3328f263748f094513225ecc29378/setup.py) egg_info for package mitywgs
2025-09-13T08:54:11,578   Created temporary directory: /tmp/pip-pip-egg-info-0gylxsw4
2025-09-13T08:54:11,579   Preparing metadata (setup.py): started
2025-09-13T08:54:11,580   Running command python setup.py egg_info
2025-09-13T08:54:12,387   /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated.
2025-09-13T08:54:12,388   !!

2025-09-13T08:54:12,389           ********************************************************************************
2025-09-13T08:54:12,389           Please consider removing the following classifiers in favor of a SPDX license expression:

2025-09-13T08:54:12,390           License :: Free for non-commercial use

2025-09-13T08:54:12,391           See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details.
2025-09-13T08:54:12,392           ********************************************************************************

2025-09-13T08:54:12,393   !!
2025-09-13T08:54:12,393     self._finalize_license_expression()
2025-09-13T08:54:12,416   running egg_info
2025-09-13T08:54:12,442   creating /tmp/pip-pip-egg-info-0gylxsw4/mitywgs.egg-info
2025-09-13T08:54:12,443   writing /tmp/pip-pip-egg-info-0gylxsw4/mitywgs.egg-info/PKG-INFO
2025-09-13T08:54:12,447   writing dependency_links to /tmp/pip-pip-egg-info-0gylxsw4/mitywgs.egg-info/dependency_links.txt
2025-09-13T08:54:12,449   writing requirements to /tmp/pip-pip-egg-info-0gylxsw4/mitywgs.egg-info/requires.txt
2025-09-13T08:54:12,450   writing top-level names to /tmp/pip-pip-egg-info-0gylxsw4/mitywgs.egg-info/top_level.txt
2025-09-13T08:54:12,451   writing manifest file '/tmp/pip-pip-egg-info-0gylxsw4/mitywgs.egg-info/SOURCES.txt'
2025-09-13T08:54:12,569   reading manifest file '/tmp/pip-pip-egg-info-0gylxsw4/mitywgs.egg-info/SOURCES.txt'
2025-09-13T08:54:12,570   adding license file 'LICENSE.txt'
2025-09-13T08:54:12,575   writing manifest file '/tmp/pip-pip-egg-info-0gylxsw4/mitywgs.egg-info/SOURCES.txt'
2025-09-13T08:54:12,683   Preparing metadata (setup.py): finished with status 'done'
2025-09-13T08:54:12,688   Source in /tmp/pip-wheel-amspvt81/mitywgs_2fc3328f263748f094513225ecc29378 has version 2.0.1, which satisfies requirement mitywgs==2.0.1 from https://files.pythonhosted.org/packages/01/32/81ab0a1a9f1a80dbaca0c552076a07680fcbc6da29767013292b5f7c050f/mitywgs-2.0.1.tar.gz
2025-09-13T08:54:12,689   Removed mitywgs==2.0.1 from https://files.pythonhosted.org/packages/01/32/81ab0a1a9f1a80dbaca0c552076a07680fcbc6da29767013292b5f7c050f/mitywgs-2.0.1.tar.gz from build tracker '/tmp/pip-build-tracker-0zo0mg4b'
2025-09-13T08:54:12,696 Created temporary directory: /tmp/pip-unpack-oadwlkbi
2025-09-13T08:54:12,697 Created temporary directory: /tmp/pip-unpack-m1giijgz
2025-09-13T08:54:12,698 Building wheels for collected packages: mitywgs
2025-09-13T08:54:12,702   Created temporary directory: /tmp/pip-wheel-vxey794s
2025-09-13T08:54:12,703   DEPRECATION: Building 'mitywgs' using the legacy setup.py bdist_wheel mechanism, which will be removed in a future version. pip 25.3 will enforce this behaviour change. A possible replacement is to use the standardized build interface by setting the `--use-pep517` option, (possibly combined with `--no-build-isolation`), or adding a `pyproject.toml` file to the source tree of 'mitywgs'. Discussion can be found at https://github.com/pypa/pip/issues/6334
2025-09-13T08:54:12,704   Building wheel for mitywgs (setup.py): started
2025-09-13T08:54:12,705   Destination directory: /tmp/pip-wheel-vxey794s
2025-09-13T08:54:12,706   Running command python setup.py bdist_wheel
2025-09-13T08:54:13,513   /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated.
2025-09-13T08:54:13,513   !!

2025-09-13T08:54:13,514           ********************************************************************************
2025-09-13T08:54:13,515           Please consider removing the following classifiers in favor of a SPDX license expression:

2025-09-13T08:54:13,516           License :: Free for non-commercial use

2025-09-13T08:54:13,517           See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details.
2025-09-13T08:54:13,518           ********************************************************************************

2025-09-13T08:54:13,519   !!
2025-09-13T08:54:13,520     self._finalize_license_expression()
2025-09-13T08:54:13,520   running bdist_wheel
2025-09-13T08:54:13,644   running build
2025-09-13T08:54:13,644   running build_py
2025-09-13T08:54:13,674   creating build/lib/mitylib
2025-09-13T08:54:13,676   copying mitylib/__init__.py -> build/lib/mitylib
2025-09-13T08:54:13,678   copying mitylib/call.py -> build/lib/mitylib
2025-09-13T08:54:13,680   copying mitylib/commands.py -> build/lib/mitylib
2025-09-13T08:54:13,682   copying mitylib/util.py -> build/lib/mitylib
2025-09-13T08:54:13,685   copying mitylib/_version.py -> build/lib/mitylib
2025-09-13T08:54:13,686   copying mitylib/merge.py -> build/lib/mitylib
2025-09-13T08:54:13,689   copying mitylib/report.py -> build/lib/mitylib
2025-09-13T08:54:13,691   copying mitylib/normalise.py -> build/lib/mitylib
2025-09-13T08:54:13,693   running egg_info
2025-09-13T08:54:13,720   writing mitywgs.egg-info/PKG-INFO
2025-09-13T08:54:13,723   writing dependency_links to mitywgs.egg-info/dependency_links.txt
2025-09-13T08:54:13,725   writing requirements to mitywgs.egg-info/requires.txt
2025-09-13T08:54:13,726   writing top-level names to mitywgs.egg-info/top_level.txt
2025-09-13T08:54:13,762   reading manifest file 'mitywgs.egg-info/SOURCES.txt'
2025-09-13T08:54:13,769   adding license file 'LICENSE.txt'
2025-09-13T08:54:13,774   writing manifest file 'mitywgs.egg-info/SOURCES.txt'
2025-09-13T08:54:13,776   /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'mitylib.annot_chrm' is absent from the `packages` configuration.
2025-09-13T08:54:13,777   !!

2025-09-13T08:54:13,778           ********************************************************************************
2025-09-13T08:54:13,778           ############################
2025-09-13T08:54:13,779           # Package would be ignored #
2025-09-13T08:54:13,779           ############################
2025-09-13T08:54:13,780           Python recognizes 'mitylib.annot_chrm' as an importable package[^1],
2025-09-13T08:54:13,780           but it is absent from setuptools' `packages` configuration.

2025-09-13T08:54:13,781           This leads to an ambiguous overall configuration. If you want to distribute this
2025-09-13T08:54:13,782           package, please make sure that 'mitylib.annot_chrm' is explicitly added
2025-09-13T08:54:13,782           to the `packages` configuration field.

2025-09-13T08:54:13,783           Alternatively, you can also rely on setuptools' discovery methods
2025-09-13T08:54:13,784           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2025-09-13T08:54:13,784           instead of `find_packages(...)`/`find:`).

2025-09-13T08:54:13,785           You can read more about "package discovery" on setuptools documentation page:

2025-09-13T08:54:13,786           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2025-09-13T08:54:13,787           If you don't want 'mitylib.annot_chrm' to be distributed and are
2025-09-13T08:54:13,788           already explicitly excluding 'mitylib.annot_chrm' via
2025-09-13T08:54:13,788           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2025-09-13T08:54:13,789           you can try to use `exclude_package_data`, or `include-package-data=False` in
2025-09-13T08:54:13,789           combination with a more fine grained `package-data` configuration.

2025-09-13T08:54:13,790           You can read more about "package data files" on setuptools documentation page:

2025-09-13T08:54:13,791           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2025-09-13T08:54:13,793           [^1]: For Python, any directory (with suitable naming) can be imported,
2025-09-13T08:54:13,793                 even if it does not contain any `.py` files.
2025-09-13T08:54:13,793                 On the other hand, currently there is no concept of package data
2025-09-13T08:54:13,794                 directory, all directories are treated like packages.
2025-09-13T08:54:13,794           ********************************************************************************

2025-09-13T08:54:13,796   !!
2025-09-13T08:54:13,796     check.warn(importable)
2025-09-13T08:54:13,797   /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'mitylib.annot_mt' is absent from the `packages` configuration.
2025-09-13T08:54:13,797   !!

2025-09-13T08:54:13,798           ********************************************************************************
2025-09-13T08:54:13,798           ############################
2025-09-13T08:54:13,798           # Package would be ignored #
2025-09-13T08:54:13,799           ############################
2025-09-13T08:54:13,799           Python recognizes 'mitylib.annot_mt' as an importable package[^1],
2025-09-13T08:54:13,800           but it is absent from setuptools' `packages` configuration.

2025-09-13T08:54:13,800           This leads to an ambiguous overall configuration. If you want to distribute this
2025-09-13T08:54:13,801           package, please make sure that 'mitylib.annot_mt' is explicitly added
2025-09-13T08:54:13,801           to the `packages` configuration field.

2025-09-13T08:54:13,802           Alternatively, you can also rely on setuptools' discovery methods
2025-09-13T08:54:13,803           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2025-09-13T08:54:13,804           instead of `find_packages(...)`/`find:`).

2025-09-13T08:54:13,804           You can read more about "package discovery" on setuptools documentation page:

2025-09-13T08:54:13,805           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2025-09-13T08:54:13,806           If you don't want 'mitylib.annot_mt' to be distributed and are
2025-09-13T08:54:13,807           already explicitly excluding 'mitylib.annot_mt' via
2025-09-13T08:54:13,807           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2025-09-13T08:54:13,808           you can try to use `exclude_package_data`, or `include-package-data=False` in
2025-09-13T08:54:13,808           combination with a more fine grained `package-data` configuration.

2025-09-13T08:54:13,809           You can read more about "package data files" on setuptools documentation page:

2025-09-13T08:54:13,810           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2025-09-13T08:54:13,812           [^1]: For Python, any directory (with suitable naming) can be imported,
2025-09-13T08:54:13,812                 even if it does not contain any `.py` files.
2025-09-13T08:54:13,813                 On the other hand, currently there is no concept of package data
2025-09-13T08:54:13,813                 directory, all directories are treated like packages.
2025-09-13T08:54:13,814           ********************************************************************************

2025-09-13T08:54:13,815   !!
2025-09-13T08:54:13,815     check.warn(importable)
2025-09-13T08:54:13,816   /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'mitylib.config' is absent from the `packages` configuration.
2025-09-13T08:54:13,816   !!

2025-09-13T08:54:13,817           ********************************************************************************
2025-09-13T08:54:13,818           ############################
2025-09-13T08:54:13,818           # Package would be ignored #
2025-09-13T08:54:13,819           ############################
2025-09-13T08:54:13,819           Python recognizes 'mitylib.config' as an importable package[^1],
2025-09-13T08:54:13,820           but it is absent from setuptools' `packages` configuration.

2025-09-13T08:54:13,821           This leads to an ambiguous overall configuration. If you want to distribute this
2025-09-13T08:54:13,821           package, please make sure that 'mitylib.config' is explicitly added
2025-09-13T08:54:13,822           to the `packages` configuration field.

2025-09-13T08:54:13,824           Alternatively, you can also rely on setuptools' discovery methods
2025-09-13T08:54:13,825           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2025-09-13T08:54:13,825           instead of `find_packages(...)`/`find:`).

2025-09-13T08:54:13,827           You can read more about "package discovery" on setuptools documentation page:

2025-09-13T08:54:13,827           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2025-09-13T08:54:13,828           If you don't want 'mitylib.config' to be distributed and are
2025-09-13T08:54:13,829           already explicitly excluding 'mitylib.config' via
2025-09-13T08:54:13,829           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2025-09-13T08:54:13,830           you can try to use `exclude_package_data`, or `include-package-data=False` in
2025-09-13T08:54:13,830           combination with a more fine grained `package-data` configuration.

2025-09-13T08:54:13,831           You can read more about "package data files" on setuptools documentation page:

2025-09-13T08:54:13,832           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2025-09-13T08:54:13,833           [^1]: For Python, any directory (with suitable naming) can be imported,
2025-09-13T08:54:13,834                 even if it does not contain any `.py` files.
2025-09-13T08:54:13,834                 On the other hand, currently there is no concept of package data
2025-09-13T08:54:13,836                 directory, all directories are treated like packages.
2025-09-13T08:54:13,836           ********************************************************************************

2025-09-13T08:54:13,837   !!
2025-09-13T08:54:13,837     check.warn(importable)
2025-09-13T08:54:13,838   /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'mitylib.reference' is absent from the `packages` configuration.
2025-09-13T08:54:13,838   !!

2025-09-13T08:54:13,839           ********************************************************************************
2025-09-13T08:54:13,840           ############################
2025-09-13T08:54:13,840           # Package would be ignored #
2025-09-13T08:54:13,841           ############################
2025-09-13T08:54:13,841           Python recognizes 'mitylib.reference' as an importable package[^1],
2025-09-13T08:54:13,842           but it is absent from setuptools' `packages` configuration.

2025-09-13T08:54:13,843           This leads to an ambiguous overall configuration. If you want to distribute this
2025-09-13T08:54:13,843           package, please make sure that 'mitylib.reference' is explicitly added
2025-09-13T08:54:13,844           to the `packages` configuration field.

2025-09-13T08:54:13,845           Alternatively, you can also rely on setuptools' discovery methods
2025-09-13T08:54:13,845           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2025-09-13T08:54:13,846           instead of `find_packages(...)`/`find:`).

2025-09-13T08:54:13,847           You can read more about "package discovery" on setuptools documentation page:

2025-09-13T08:54:13,848           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2025-09-13T08:54:13,849           If you don't want 'mitylib.reference' to be distributed and are
2025-09-13T08:54:13,850           already explicitly excluding 'mitylib.reference' via
2025-09-13T08:54:13,850           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2025-09-13T08:54:13,851           you can try to use `exclude_package_data`, or `include-package-data=False` in
2025-09-13T08:54:13,851           combination with a more fine grained `package-data` configuration.

2025-09-13T08:54:13,852           You can read more about "package data files" on setuptools documentation page:

2025-09-13T08:54:13,853           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2025-09-13T08:54:13,855           [^1]: For Python, any directory (with suitable naming) can be imported,
2025-09-13T08:54:13,856                 even if it does not contain any `.py` files.
2025-09-13T08:54:13,856                 On the other hand, currently there is no concept of package data
2025-09-13T08:54:13,856                 directory, all directories are treated like packages.
2025-09-13T08:54:13,857           ********************************************************************************

2025-09-13T08:54:13,858   !!
2025-09-13T08:54:13,859     check.warn(importable)
2025-09-13T08:54:13,859   copying mitylib/mity -> build/lib/mitylib
2025-09-13T08:54:13,860   creating build/lib/mitylib/annot_chrm
2025-09-13T08:54:13,860   copying mitylib/annot_chrm/chrm_anticodon_positions.bed.gz -> build/lib/mitylib/annot_chrm
2025-09-13T08:54:13,860   copying mitylib/annot_chrm/chrm_anticodon_positions.bed.gz.tbi -> build/lib/mitylib/annot_chrm
2025-09-13T08:54:13,861   copying mitylib/annot_chrm/chrm_gtf_annotations.bed.gz -> build/lib/mitylib/annot_chrm
2025-09-13T08:54:13,861   copying mitylib/annot_chrm/chrm_gtf_annotations.bed.gz.tbi -> build/lib/mitylib/annot_chrm
2025-09-13T08:54:13,862   copying mitylib/annot_chrm/chrm_haplotype_data.vcf.gz -> build/lib/mitylib/annot_chrm
2025-09-13T08:54:13,862   copying mitylib/annot_chrm/chrm_haplotype_data.vcf.gz.tbi -> build/lib/mitylib/annot_chrm
2025-09-13T08:54:13,862   copying mitylib/annot_chrm/chrm_mgrb_variants.vcf.gz -> build/lib/mitylib/annot_chrm
2025-09-13T08:54:13,863   copying mitylib/annot_chrm/chrm_mgrb_variants.vcf.gz.tbi -> build/lib/mitylib/annot_chrm
2025-09-13T08:54:13,863   copying mitylib/annot_chrm/chrm_mito_dna_func_loc.bed.gz -> build/lib/mitylib/annot_chrm
2025-09-13T08:54:13,864   copying mitylib/annot_chrm/chrm_mito_dna_func_loc.bed.gz.tbi -> build/lib/mitylib/annot_chrm
2025-09-13T08:54:13,864   copying mitylib/annot_chrm/chrm_mitomap_confirmed_mutations.vcf.gz -> build/lib/mitylib/annot_chrm
2025-09-13T08:54:13,865   copying mitylib/annot_chrm/chrm_mitomap_confirmed_mutations.vcf.gz.tbi -> build/lib/mitylib/annot_chrm
2025-09-13T08:54:13,865   copying mitylib/annot_chrm/chrm_mitomap_disease.vcf.gz -> build/lib/mitylib/annot_chrm
2025-09-13T08:54:13,866   copying mitylib/annot_chrm/chrm_mitomap_disease.vcf.gz.tbi -> build/lib/mitylib/annot_chrm
2025-09-13T08:54:13,867   copying mitylib/annot_chrm/chrm_mitomap_mutations_coding_control.vcf.gz -> build/lib/mitylib/annot_chrm
2025-09-13T08:54:13,867   copying mitylib/annot_chrm/chrm_mitomap_mutations_coding_control.vcf.gz.tbi -> build/lib/mitylib/annot_chrm
2025-09-13T08:54:13,868   copying mitylib/annot_chrm/chrm_mitomap_mutations_rna.vcf.gz -> build/lib/mitylib/annot_chrm
2025-09-13T08:54:13,868   copying mitylib/annot_chrm/chrm_mitomap_mutations_rna.vcf.gz.tbi -> build/lib/mitylib/annot_chrm
2025-09-13T08:54:13,869   copying mitylib/annot_chrm/chrm_mitomap_polymorphisms.vcf.gz -> build/lib/mitylib/annot_chrm
2025-09-13T08:54:13,870   copying mitylib/annot_chrm/chrm_mitomap_polymorphisms.vcf.gz.tbi -> build/lib/mitylib/annot_chrm
2025-09-13T08:54:13,870   copying mitylib/annot_chrm/chrm_mitomap_variants_coding.vcf.gz -> build/lib/mitylib/annot_chrm
2025-09-13T08:54:13,875   copying mitylib/annot_chrm/chrm_mitomap_variants_coding.vcf.gz.tbi -> build/lib/mitylib/annot_chrm
2025-09-13T08:54:13,877   copying mitylib/annot_chrm/chrm_mitomap_variants_control.vcf.gz -> build/lib/mitylib/annot_chrm
2025-09-13T08:54:13,881   copying mitylib/annot_chrm/chrm_mitomap_variants_control.vcf.gz.tbi -> build/lib/mitylib/annot_chrm
2025-09-13T08:54:13,883   copying mitylib/annot_chrm/chrm_mitotip_scores.vcf.gz -> build/lib/mitylib/annot_chrm
2025-09-13T08:54:13,886   copying mitylib/annot_chrm/chrm_mitotip_scores.vcf.gz.tbi -> build/lib/mitylib/annot_chrm
2025-09-13T08:54:13,888   creating build/lib/mitylib/annot_mt
2025-09-13T08:54:13,889   copying mitylib/annot_mt/anticodon_positions.bed.gz -> build/lib/mitylib/annot_mt
2025-09-13T08:54:13,891   copying mitylib/annot_mt/anticodon_positions.bed.gz.tbi -> build/lib/mitylib/annot_mt
2025-09-13T08:54:13,894   copying mitylib/annot_mt/gtf_annotations.bed.gz -> build/lib/mitylib/annot_mt
2025-09-13T08:54:13,897   copying mitylib/annot_mt/gtf_annotations.bed.gz.tbi -> build/lib/mitylib/annot_mt
2025-09-13T08:54:13,899   copying mitylib/annot_mt/haplotype_data.vcf.gz -> build/lib/mitylib/annot_mt
2025-09-13T08:54:13,904   copying mitylib/annot_mt/haplotype_data.vcf.gz.tbi -> build/lib/mitylib/annot_mt
2025-09-13T08:54:13,906   copying mitylib/annot_mt/mgrb_variants.vcf.gz -> build/lib/mitylib/annot_mt
2025-09-13T08:54:13,909   copying mitylib/annot_mt/mgrb_variants.vcf.gz.tbi -> build/lib/mitylib/annot_mt
2025-09-13T08:54:13,911   copying mitylib/annot_mt/mito_dna_func_loc.bed.gz -> build/lib/mitylib/annot_mt
2025-09-13T08:54:13,916   copying mitylib/annot_mt/mito_dna_func_loc.bed.gz.tbi -> build/lib/mitylib/annot_mt
2025-09-13T08:54:13,918   copying mitylib/annot_mt/mitomap_confirmed_mutations.vcf.gz -> build/lib/mitylib/annot_mt
2025-09-13T08:54:13,920   copying mitylib/annot_mt/mitomap_confirmed_mutations.vcf.gz.tbi -> build/lib/mitylib/annot_mt
2025-09-13T08:54:13,922   copying mitylib/annot_mt/mitomap_disease.vcf.gz -> build/lib/mitylib/annot_mt
2025-09-13T08:54:13,926   copying mitylib/annot_mt/mitomap_disease.vcf.gz.tbi -> build/lib/mitylib/annot_mt
2025-09-13T08:54:13,928   copying mitylib/annot_mt/mitomap_mutations_coding_control.vcf.gz -> build/lib/mitylib/annot_mt
2025-09-13T08:54:13,930   copying mitylib/annot_mt/mitomap_mutations_coding_control.vcf.gz.tbi -> build/lib/mitylib/annot_mt
2025-09-13T08:54:13,932   copying mitylib/annot_mt/mitomap_mutations_rna.vcf.gz -> build/lib/mitylib/annot_mt
2025-09-13T08:54:13,935   copying mitylib/annot_mt/mitomap_mutations_rna.vcf.gz.tbi -> build/lib/mitylib/annot_mt
2025-09-13T08:54:13,937   copying mitylib/annot_mt/mitomap_polymorphisms.vcf.gz -> build/lib/mitylib/annot_mt
2025-09-13T08:54:13,941   copying mitylib/annot_mt/mitomap_polymorphisms.vcf.gz.tbi -> build/lib/mitylib/annot_mt
2025-09-13T08:54:13,944   copying mitylib/annot_mt/mitomap_variants_coding.vcf.gz -> build/lib/mitylib/annot_mt
2025-09-13T08:54:13,950   copying mitylib/annot_mt/mitomap_variants_coding.vcf.gz.tbi -> build/lib/mitylib/annot_mt
2025-09-13T08:54:13,952   copying mitylib/annot_mt/mitomap_variants_control.vcf.gz -> build/lib/mitylib/annot_mt
2025-09-13T08:54:13,955   copying mitylib/annot_mt/mitomap_variants_control.vcf.gz.tbi -> build/lib/mitylib/annot_mt
2025-09-13T08:54:13,957   copying mitylib/annot_mt/mitotip_scores.vcf.gz -> build/lib/mitylib/annot_mt
2025-09-13T08:54:13,960   copying mitylib/annot_mt/mitotip_scores.vcf.gz.tbi -> build/lib/mitylib/annot_mt
2025-09-13T08:54:13,962   creating build/lib/mitylib/config
2025-09-13T08:54:13,963   copying mitylib/config/report-config.yaml -> build/lib/mitylib/config
2025-09-13T08:54:13,966   copying mitylib/config/vcfanno-config-chrm.toml -> build/lib/mitylib/config
2025-09-13T08:54:13,970   copying mitylib/config/vcfanno-config-mt.toml -> build/lib/mitylib/config
2025-09-13T08:54:13,972   creating build/lib/mitylib/reference
2025-09-13T08:54:13,973   copying mitylib/reference/hg19.chrM.fa -> build/lib/mitylib/reference
2025-09-13T08:54:13,976   copying mitylib/reference/hg19.chrM.fa.fai -> build/lib/mitylib/reference
2025-09-13T08:54:13,978   copying mitylib/reference/hg19.dict -> build/lib/mitylib/reference
2025-09-13T08:54:13,981   copying mitylib/reference/hg19.genome -> build/lib/mitylib/reference
2025-09-13T08:54:13,983   copying mitylib/reference/hg38.chrM.fa -> build/lib/mitylib/reference
2025-09-13T08:54:13,986   copying mitylib/reference/hg38.chrM.fa.fai -> build/lib/mitylib/reference
2025-09-13T08:54:13,988   copying mitylib/reference/hg38.dict -> build/lib/mitylib/reference
2025-09-13T08:54:14,016   copying mitylib/reference/hg38.genome -> build/lib/mitylib/reference
2025-09-13T08:54:14,020   copying mitylib/reference/hs37d5.MT.fa -> build/lib/mitylib/reference
2025-09-13T08:54:14,023   copying mitylib/reference/hs37d5.MT.fa.fai -> build/lib/mitylib/reference
2025-09-13T08:54:14,025   copying mitylib/reference/hs37d5.dict -> build/lib/mitylib/reference
2025-09-13T08:54:14,028   copying mitylib/reference/hs37d5.genome -> build/lib/mitylib/reference
2025-09-13T08:54:14,031   copying mitylib/reference/mm10.MT.fa -> build/lib/mitylib/reference
2025-09-13T08:54:14,034   copying mitylib/reference/mm10.MT.fa.fai -> build/lib/mitylib/reference
2025-09-13T08:54:14,036   copying mitylib/reference/mm10.chrM.fa -> build/lib/mitylib/reference
2025-09-13T08:54:14,039   copying mitylib/reference/mm10.chrM.fa.fai -> build/lib/mitylib/reference
2025-09-13T08:54:14,041   copying mitylib/reference/mm10.genome -> build/lib/mitylib/reference
2025-09-13T08:54:14,044   running build_scripts
2025-09-13T08:54:14,045   creating build/scripts-3.11
2025-09-13T08:54:14,046   copying and adjusting mitylib/mity -> build/scripts-3.11
2025-09-13T08:54:14,048   changing mode of build/scripts-3.11/mity from 644 to 755
2025-09-13T08:54:14,074   /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:90: SetuptoolsDeprecationWarning: setup.py install is deprecated.
2025-09-13T08:54:14,074   !!

2025-09-13T08:54:14,075           ********************************************************************************
2025-09-13T08:54:14,076           Please avoid running ``setup.py`` directly.
2025-09-13T08:54:14,076           Instead, use pypa/build, pypa/installer or other
2025-09-13T08:54:14,077           standards-based tools.

2025-09-13T08:54:14,078           By 2025-Oct-31, you need to update your project and remove deprecated calls
2025-09-13T08:54:14,078           or your builds will no longer be supported.

2025-09-13T08:54:14,079           See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details.
2025-09-13T08:54:14,080           ********************************************************************************

2025-09-13T08:54:14,081   !!
2025-09-13T08:54:14,081     self.initialize_options()
2025-09-13T08:54:14,104   installing to build/bdist.linux-armv7l/wheel
2025-09-13T08:54:14,105   running install
2025-09-13T08:54:14,129   running install_lib
2025-09-13T08:54:14,155   creating build/bdist.linux-armv7l/wheel
2025-09-13T08:54:14,157   creating build/bdist.linux-armv7l/wheel/mitylib
2025-09-13T08:54:14,159   copying build/lib/mitylib/mity -> build/bdist.linux-armv7l/wheel/./mitylib
2025-09-13T08:54:14,161   copying build/lib/mitylib/__init__.py -> build/bdist.linux-armv7l/wheel/./mitylib
2025-09-13T08:54:14,162   copying build/lib/mitylib/call.py -> build/bdist.linux-armv7l/wheel/./mitylib
2025-09-13T08:54:14,165   copying build/lib/mitylib/commands.py -> build/bdist.linux-armv7l/wheel/./mitylib
2025-09-13T08:54:14,167   copying build/lib/mitylib/util.py -> build/bdist.linux-armv7l/wheel/./mitylib
2025-09-13T08:54:14,170   copying build/lib/mitylib/_version.py -> build/bdist.linux-armv7l/wheel/./mitylib
2025-09-13T08:54:14,172   copying build/lib/mitylib/merge.py -> build/bdist.linux-armv7l/wheel/./mitylib
2025-09-13T08:54:14,175   creating build/bdist.linux-armv7l/wheel/mitylib/annot_chrm
2025-09-13T08:54:14,177   copying build/lib/mitylib/annot_chrm/chrm_anticodon_positions.bed.gz.tbi -> build/bdist.linux-armv7l/wheel/./mitylib/annot_chrm
2025-09-13T08:54:14,179   copying build/lib/mitylib/annot_chrm/chrm_haplotype_data.vcf.gz -> build/bdist.linux-armv7l/wheel/./mitylib/annot_chrm
2025-09-13T08:54:14,182   copying build/lib/mitylib/annot_chrm/chrm_gtf_annotations.bed.gz.tbi -> build/bdist.linux-armv7l/wheel/./mitylib/annot_chrm
2025-09-13T08:54:14,184   copying build/lib/mitylib/annot_chrm/chrm_mitomap_confirmed_mutations.vcf.gz.tbi -> build/bdist.linux-armv7l/wheel/./mitylib/annot_chrm
2025-09-13T08:54:14,186   copying build/lib/mitylib/annot_chrm/chrm_mito_dna_func_loc.bed.gz.tbi -> build/bdist.linux-armv7l/wheel/./mitylib/annot_chrm
2025-09-13T08:54:14,188   copying build/lib/mitylib/annot_chrm/chrm_mitomap_variants_coding.vcf.gz.tbi -> build/bdist.linux-armv7l/wheel/./mitylib/annot_chrm
2025-09-13T08:54:14,189   copying build/lib/mitylib/annot_chrm/chrm_mitotip_scores.vcf.gz.tbi -> build/bdist.linux-armv7l/wheel/./mitylib/annot_chrm
2025-09-13T08:54:14,191   copying build/lib/mitylib/annot_chrm/chrm_mitomap_disease.vcf.gz.tbi -> build/bdist.linux-armv7l/wheel/./mitylib/annot_chrm
2025-09-13T08:54:14,193   copying build/lib/mitylib/annot_chrm/chrm_mitomap_mutations_coding_control.vcf.gz -> build/bdist.linux-armv7l/wheel/./mitylib/annot_chrm
2025-09-13T08:54:14,196   copying build/lib/mitylib/annot_chrm/chrm_mitomap_variants_control.vcf.gz -> build/bdist.linux-armv7l/wheel/./mitylib/annot_chrm
2025-09-13T08:54:14,200   copying build/lib/mitylib/annot_chrm/chrm_mitomap_disease.vcf.gz -> build/bdist.linux-armv7l/wheel/./mitylib/annot_chrm
2025-09-13T08:54:14,203   copying build/lib/mitylib/annot_chrm/chrm_mitomap_polymorphisms.vcf.gz.tbi -> build/bdist.linux-armv7l/wheel/./mitylib/annot_chrm
2025-09-13T08:54:14,205   copying build/lib/mitylib/annot_chrm/chrm_mitomap_mutations_rna.vcf.gz.tbi -> build/bdist.linux-armv7l/wheel/./mitylib/annot_chrm
2025-09-13T08:54:14,207   copying build/lib/mitylib/annot_chrm/chrm_mitomap_polymorphisms.vcf.gz -> build/bdist.linux-armv7l/wheel/./mitylib/annot_chrm
2025-09-13T08:54:14,211   copying build/lib/mitylib/annot_chrm/chrm_mitomap_confirmed_mutations.vcf.gz -> build/bdist.linux-armv7l/wheel/./mitylib/annot_chrm
2025-09-13T08:54:14,214   copying build/lib/mitylib/annot_chrm/chrm_haplotype_data.vcf.gz.tbi -> build/bdist.linux-armv7l/wheel/./mitylib/annot_chrm
2025-09-13T08:54:14,216   copying build/lib/mitylib/annot_chrm/chrm_mgrb_variants.vcf.gz.tbi -> build/bdist.linux-armv7l/wheel/./mitylib/annot_chrm
2025-09-13T08:54:14,218   copying build/lib/mitylib/annot_chrm/chrm_mito_dna_func_loc.bed.gz -> build/bdist.linux-armv7l/wheel/./mitylib/annot_chrm
2025-09-13T08:54:14,221   copying build/lib/mitylib/annot_chrm/chrm_gtf_annotations.bed.gz -> build/bdist.linux-armv7l/wheel/./mitylib/annot_chrm
2025-09-13T08:54:14,225   copying build/lib/mitylib/annot_chrm/chrm_mitomap_mutations_rna.vcf.gz -> build/bdist.linux-armv7l/wheel/./mitylib/annot_chrm
2025-09-13T08:54:14,227   copying build/lib/mitylib/annot_chrm/chrm_mitomap_variants_control.vcf.gz.tbi -> build/bdist.linux-armv7l/wheel/./mitylib/annot_chrm
2025-09-13T08:54:14,229   copying build/lib/mitylib/annot_chrm/chrm_mitotip_scores.vcf.gz -> build/bdist.linux-armv7l/wheel/./mitylib/annot_chrm
2025-09-13T08:54:14,232   copying build/lib/mitylib/annot_chrm/chrm_mitomap_mutations_coding_control.vcf.gz.tbi -> build/bdist.linux-armv7l/wheel/./mitylib/annot_chrm
2025-09-13T08:54:14,234   copying build/lib/mitylib/annot_chrm/chrm_mgrb_variants.vcf.gz -> build/bdist.linux-armv7l/wheel/./mitylib/annot_chrm
2025-09-13T08:54:14,237   copying build/lib/mitylib/annot_chrm/chrm_mitomap_variants_coding.vcf.gz -> build/bdist.linux-armv7l/wheel/./mitylib/annot_chrm
2025-09-13T08:54:14,242   copying build/lib/mitylib/annot_chrm/chrm_anticodon_positions.bed.gz -> build/bdist.linux-armv7l/wheel/./mitylib/annot_chrm
2025-09-13T08:54:14,245   creating build/bdist.linux-armv7l/wheel/mitylib/annot_mt
2025-09-13T08:54:14,246   copying build/lib/mitylib/annot_mt/mitomap_mutations_coding_control.vcf.gz.tbi -> build/bdist.linux-armv7l/wheel/./mitylib/annot_mt
2025-09-13T08:54:14,249   copying build/lib/mitylib/annot_mt/mitomap_variants_coding.vcf.gz.tbi -> build/bdist.linux-armv7l/wheel/./mitylib/annot_mt
2025-09-13T08:54:14,251   copying build/lib/mitylib/annot_mt/anticodon_positions.bed.gz -> build/bdist.linux-armv7l/wheel/./mitylib/annot_mt
2025-09-13T08:54:14,253   copying build/lib/mitylib/annot_mt/mitomap_polymorphisms.vcf.gz -> build/bdist.linux-armv7l/wheel/./mitylib/annot_mt
2025-09-13T08:54:14,257   copying build/lib/mitylib/annot_mt/mito_dna_func_loc.bed.gz -> build/bdist.linux-armv7l/wheel/./mitylib/annot_mt
2025-09-13T08:54:14,261   copying build/lib/mitylib/annot_mt/mitomap_mutations_coding_control.vcf.gz -> build/bdist.linux-armv7l/wheel/./mitylib/annot_mt
2025-09-13T08:54:14,263   copying build/lib/mitylib/annot_mt/mitomap_variants_control.vcf.gz.tbi -> build/bdist.linux-armv7l/wheel/./mitylib/annot_mt
2025-09-13T08:54:14,265   copying build/lib/mitylib/annot_mt/mitomap_disease.vcf.gz -> build/bdist.linux-armv7l/wheel/./mitylib/annot_mt
2025-09-13T08:54:14,268   copying build/lib/mitylib/annot_mt/anticodon_positions.bed.gz.tbi -> build/bdist.linux-armv7l/wheel/./mitylib/annot_mt
2025-09-13T08:54:14,270   copying build/lib/mitylib/annot_mt/mitomap_mutations_rna.vcf.gz.tbi -> build/bdist.linux-armv7l/wheel/./mitylib/annot_mt
2025-09-13T08:54:14,272   copying build/lib/mitylib/annot_mt/mitomap_polymorphisms.vcf.gz.tbi -> build/bdist.linux-armv7l/wheel/./mitylib/annot_mt
2025-09-13T08:54:14,274   copying build/lib/mitylib/annot_mt/mitomap_disease.vcf.gz.tbi -> build/bdist.linux-armv7l/wheel/./mitylib/annot_mt
2025-09-13T08:54:14,276   copying build/lib/mitylib/annot_mt/mitomap_mutations_rna.vcf.gz -> build/bdist.linux-armv7l/wheel/./mitylib/annot_mt
2025-09-13T08:54:14,279   copying build/lib/mitylib/annot_mt/mitomap_variants_control.vcf.gz -> build/bdist.linux-armv7l/wheel/./mitylib/annot_mt
2025-09-13T08:54:14,282   copying build/lib/mitylib/annot_mt/haplotype_data.vcf.gz -> build/bdist.linux-armv7l/wheel/./mitylib/annot_mt
2025-09-13T08:54:14,285   copying build/lib/mitylib/annot_mt/mitomap_variants_coding.vcf.gz -> build/bdist.linux-armv7l/wheel/./mitylib/annot_mt
2025-09-13T08:54:14,290   copying build/lib/mitylib/annot_mt/mitomap_confirmed_mutations.vcf.gz -> build/bdist.linux-armv7l/wheel/./mitylib/annot_mt
2025-09-13T08:54:14,293   copying build/lib/mitylib/annot_mt/mgrb_variants.vcf.gz -> build/bdist.linux-armv7l/wheel/./mitylib/annot_mt
2025-09-13T08:54:14,295   copying build/lib/mitylib/annot_mt/mitotip_scores.vcf.gz -> build/bdist.linux-armv7l/wheel/./mitylib/annot_mt
2025-09-13T08:54:14,299   copying build/lib/mitylib/annot_mt/gtf_annotations.bed.gz.tbi -> build/bdist.linux-armv7l/wheel/./mitylib/annot_mt
2025-09-13T08:54:14,301   copying build/lib/mitylib/annot_mt/gtf_annotations.bed.gz -> build/bdist.linux-armv7l/wheel/./mitylib/annot_mt
2025-09-13T08:54:14,305   copying build/lib/mitylib/annot_mt/mito_dna_func_loc.bed.gz.tbi -> build/bdist.linux-armv7l/wheel/./mitylib/annot_mt
2025-09-13T08:54:14,307   copying build/lib/mitylib/annot_mt/mitomap_confirmed_mutations.vcf.gz.tbi -> build/bdist.linux-armv7l/wheel/./mitylib/annot_mt
2025-09-13T08:54:14,309   copying build/lib/mitylib/annot_mt/mitotip_scores.vcf.gz.tbi -> build/bdist.linux-armv7l/wheel/./mitylib/annot_mt
2025-09-13T08:54:14,311   copying build/lib/mitylib/annot_mt/mgrb_variants.vcf.gz.tbi -> build/bdist.linux-armv7l/wheel/./mitylib/annot_mt
2025-09-13T08:54:14,313   copying build/lib/mitylib/annot_mt/haplotype_data.vcf.gz.tbi -> build/bdist.linux-armv7l/wheel/./mitylib/annot_mt
2025-09-13T08:54:14,316   creating build/bdist.linux-armv7l/wheel/mitylib/reference
2025-09-13T08:54:14,317   copying build/lib/mitylib/reference/hs37d5.dict -> build/bdist.linux-armv7l/wheel/./mitylib/reference
2025-09-13T08:54:14,320   copying build/lib/mitylib/reference/hg38.genome -> build/bdist.linux-armv7l/wheel/./mitylib/reference
2025-09-13T08:54:14,324   copying build/lib/mitylib/reference/mm10.genome -> build/bdist.linux-armv7l/wheel/./mitylib/reference
2025-09-13T08:54:14,326   copying build/lib/mitylib/reference/hs37d5.MT.fa.fai -> build/bdist.linux-armv7l/wheel/./mitylib/reference
2025-09-13T08:54:14,328   copying build/lib/mitylib/reference/hg38.chrM.fa -> build/bdist.linux-armv7l/wheel/./mitylib/reference
2025-09-13T08:54:14,331   copying build/lib/mitylib/reference/hs37d5.MT.fa -> build/bdist.linux-armv7l/wheel/./mitylib/reference
2025-09-13T08:54:14,334   copying build/lib/mitylib/reference/mm10.MT.fa.fai -> build/bdist.linux-armv7l/wheel/./mitylib/reference
2025-09-13T08:54:14,336   copying build/lib/mitylib/reference/mm10.MT.fa -> build/bdist.linux-armv7l/wheel/./mitylib/reference
2025-09-13T08:54:14,339   copying build/lib/mitylib/reference/hs37d5.genome -> build/bdist.linux-armv7l/wheel/./mitylib/reference
2025-09-13T08:54:14,341   copying build/lib/mitylib/reference/hg38.dict -> build/bdist.linux-armv7l/wheel/./mitylib/reference
2025-09-13T08:54:14,356   copying build/lib/mitylib/reference/hg19.dict -> build/bdist.linux-armv7l/wheel/./mitylib/reference
2025-09-13T08:54:14,359   copying build/lib/mitylib/reference/mm10.chrM.fa -> build/bdist.linux-armv7l/wheel/./mitylib/reference
2025-09-13T08:54:14,362   copying build/lib/mitylib/reference/mm10.chrM.fa.fai -> build/bdist.linux-armv7l/wheel/./mitylib/reference
2025-09-13T08:54:14,364   copying build/lib/mitylib/reference/hg19.chrM.fa -> build/bdist.linux-armv7l/wheel/./mitylib/reference
2025-09-13T08:54:14,367   copying build/lib/mitylib/reference/hg38.chrM.fa.fai -> build/bdist.linux-armv7l/wheel/./mitylib/reference
2025-09-13T08:54:14,369   copying build/lib/mitylib/reference/hg19.chrM.fa.fai -> build/bdist.linux-armv7l/wheel/./mitylib/reference
2025-09-13T08:54:14,371   copying build/lib/mitylib/reference/hg19.genome -> build/bdist.linux-armv7l/wheel/./mitylib/reference
2025-09-13T08:54:14,373   copying build/lib/mitylib/report.py -> build/bdist.linux-armv7l/wheel/./mitylib
2025-09-13T08:54:14,376   copying build/lib/mitylib/normalise.py -> build/bdist.linux-armv7l/wheel/./mitylib
2025-09-13T08:54:14,379   creating build/bdist.linux-armv7l/wheel/mitylib/config
2025-09-13T08:54:14,380   copying build/lib/mitylib/config/vcfanno-config-chrm.toml -> build/bdist.linux-armv7l/wheel/./mitylib/config
2025-09-13T08:54:14,383   copying build/lib/mitylib/config/report-config.yaml -> build/bdist.linux-armv7l/wheel/./mitylib/config
2025-09-13T08:54:14,385   copying build/lib/mitylib/config/vcfanno-config-mt.toml -> build/bdist.linux-armv7l/wheel/./mitylib/config
2025-09-13T08:54:14,388   running install_egg_info
2025-09-13T08:54:14,421   Copying mitywgs.egg-info to build/bdist.linux-armv7l/wheel/./mitywgs-2.0.1-py3.11.egg-info
2025-09-13T08:54:14,431   running install_scripts
2025-09-13T08:54:14,432   creating build/bdist.linux-armv7l/wheel/mitywgs-2.0.1.data/scripts
2025-09-13T08:54:14,434   copying build/scripts-3.11/mity -> build/bdist.linux-armv7l/wheel/mitywgs-2.0.1.data/scripts
2025-09-13T08:54:14,436   changing mode of build/bdist.linux-armv7l/wheel/mitywgs-2.0.1.data/scripts/mity to 755
2025-09-13T08:54:14,448   creating build/bdist.linux-armv7l/wheel/mitywgs-2.0.1.dist-info/WHEEL
2025-09-13T08:54:14,451   creating '/tmp/pip-wheel-vxey794s/mitywgs-2.0.1-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2025-09-13T08:54:14,453   adding 'mitylib/__init__.py'
2025-09-13T08:54:14,455   adding 'mitylib/_version.py'
2025-09-13T08:54:14,457   adding 'mitylib/call.py'
2025-09-13T08:54:14,460   adding 'mitylib/commands.py'
2025-09-13T08:54:14,462   adding 'mitylib/merge.py'
2025-09-13T08:54:14,464   adding 'mitylib/mity'
2025-09-13T08:54:14,466   adding 'mitylib/normalise.py'
2025-09-13T08:54:14,469   adding 'mitylib/report.py'
2025-09-13T08:54:14,471   adding 'mitylib/util.py'
2025-09-13T08:54:14,474   adding 'mitylib/annot_chrm/chrm_anticodon_positions.bed.gz'
2025-09-13T08:54:14,476   adding 'mitylib/annot_chrm/chrm_anticodon_positions.bed.gz.tbi'
2025-09-13T08:54:14,481   adding 'mitylib/annot_chrm/chrm_gtf_annotations.bed.gz'
2025-09-13T08:54:14,483   adding 'mitylib/annot_chrm/chrm_gtf_annotations.bed.gz.tbi'
2025-09-13T08:54:14,488   adding 'mitylib/annot_chrm/chrm_haplotype_data.vcf.gz'
2025-09-13T08:54:14,490   adding 'mitylib/annot_chrm/chrm_haplotype_data.vcf.gz.tbi'
2025-09-13T08:54:14,494   adding 'mitylib/annot_chrm/chrm_mgrb_variants.vcf.gz'
2025-09-13T08:54:14,496   adding 'mitylib/annot_chrm/chrm_mgrb_variants.vcf.gz.tbi'
2025-09-13T08:54:14,502   adding 'mitylib/annot_chrm/chrm_mito_dna_func_loc.bed.gz'
2025-09-13T08:54:14,504   adding 'mitylib/annot_chrm/chrm_mito_dna_func_loc.bed.gz.tbi'
2025-09-13T08:54:14,506   adding 'mitylib/annot_chrm/chrm_mitomap_confirmed_mutations.vcf.gz'
2025-09-13T08:54:14,508   adding 'mitylib/annot_chrm/chrm_mitomap_confirmed_mutations.vcf.gz.tbi'
2025-09-13T08:54:14,513   adding 'mitylib/annot_chrm/chrm_mitomap_disease.vcf.gz'
2025-09-13T08:54:14,515   adding 'mitylib/annot_chrm/chrm_mitomap_disease.vcf.gz.tbi'
2025-09-13T08:54:14,518   adding 'mitylib/annot_chrm/chrm_mitomap_mutations_coding_control.vcf.gz'
2025-09-13T08:54:14,520   adding 'mitylib/annot_chrm/chrm_mitomap_mutations_coding_control.vcf.gz.tbi'
2025-09-13T08:54:14,522   adding 'mitylib/annot_chrm/chrm_mitomap_mutations_rna.vcf.gz'
2025-09-13T08:54:14,524   adding 'mitylib/annot_chrm/chrm_mitomap_mutations_rna.vcf.gz.tbi'
2025-09-13T08:54:14,537   adding 'mitylib/annot_chrm/chrm_mitomap_polymorphisms.vcf.gz'
2025-09-13T08:54:14,540   adding 'mitylib/annot_chrm/chrm_mitomap_polymorphisms.vcf.gz.tbi'
2025-09-13T08:54:14,560   adding 'mitylib/annot_chrm/chrm_mitomap_variants_coding.vcf.gz'
2025-09-13T08:54:14,563   adding 'mitylib/annot_chrm/chrm_mitomap_variants_coding.vcf.gz.tbi'
2025-09-13T08:54:14,570   adding 'mitylib/annot_chrm/chrm_mitomap_variants_control.vcf.gz'
2025-09-13T08:54:14,571   adding 'mitylib/annot_chrm/chrm_mitomap_variants_control.vcf.gz.tbi'
2025-09-13T08:54:14,577   adding 'mitylib/annot_chrm/chrm_mitotip_scores.vcf.gz'
2025-09-13T08:54:14,579   adding 'mitylib/annot_chrm/chrm_mitotip_scores.vcf.gz.tbi'
2025-09-13T08:54:14,581   adding 'mitylib/annot_mt/anticodon_positions.bed.gz'
2025-09-13T08:54:14,583   adding 'mitylib/annot_mt/anticodon_positions.bed.gz.tbi'
2025-09-13T08:54:14,588   adding 'mitylib/annot_mt/gtf_annotations.bed.gz'
2025-09-13T08:54:14,590   adding 'mitylib/annot_mt/gtf_annotations.bed.gz.tbi'
2025-09-13T08:54:14,595   adding 'mitylib/annot_mt/haplotype_data.vcf.gz'
2025-09-13T08:54:14,597   adding 'mitylib/annot_mt/haplotype_data.vcf.gz.tbi'
2025-09-13T08:54:14,600   adding 'mitylib/annot_mt/mgrb_variants.vcf.gz'
2025-09-13T08:54:14,602   adding 'mitylib/annot_mt/mgrb_variants.vcf.gz.tbi'
2025-09-13T08:54:14,608   adding 'mitylib/annot_mt/mito_dna_func_loc.bed.gz'
2025-09-13T08:54:14,610   adding 'mitylib/annot_mt/mito_dna_func_loc.bed.gz.tbi'
2025-09-13T08:54:14,612   adding 'mitylib/annot_mt/mitomap_confirmed_mutations.vcf.gz'
2025-09-13T08:54:14,614   adding 'mitylib/annot_mt/mitomap_confirmed_mutations.vcf.gz.tbi'
2025-09-13T08:54:14,620   adding 'mitylib/annot_mt/mitomap_disease.vcf.gz'
2025-09-13T08:54:14,622   adding 'mitylib/annot_mt/mitomap_disease.vcf.gz.tbi'
2025-09-13T08:54:14,624   adding 'mitylib/annot_mt/mitomap_mutations_coding_control.vcf.gz'
2025-09-13T08:54:14,626   adding 'mitylib/annot_mt/mitomap_mutations_coding_control.vcf.gz.tbi'
2025-09-13T08:54:14,628   adding 'mitylib/annot_mt/mitomap_mutations_rna.vcf.gz'
2025-09-13T08:54:14,630   adding 'mitylib/annot_mt/mitomap_mutations_rna.vcf.gz.tbi'
2025-09-13T08:54:14,643   adding 'mitylib/annot_mt/mitomap_polymorphisms.vcf.gz'
2025-09-13T08:54:14,645   adding 'mitylib/annot_mt/mitomap_polymorphisms.vcf.gz.tbi'
2025-09-13T08:54:14,666   adding 'mitylib/annot_mt/mitomap_variants_coding.vcf.gz'
2025-09-13T08:54:14,668   adding 'mitylib/annot_mt/mitomap_variants_coding.vcf.gz.tbi'
2025-09-13T08:54:14,675   adding 'mitylib/annot_mt/mitomap_variants_control.vcf.gz'
2025-09-13T08:54:14,677   adding 'mitylib/annot_mt/mitomap_variants_control.vcf.gz.tbi'
2025-09-13T08:54:14,683   adding 'mitylib/annot_mt/mitotip_scores.vcf.gz'
2025-09-13T08:54:14,685   adding 'mitylib/annot_mt/mitotip_scores.vcf.gz.tbi'
2025-09-13T08:54:14,687   adding 'mitylib/config/report-config.yaml'
2025-09-13T08:54:14,689   adding 'mitylib/config/vcfanno-config-chrm.toml'
2025-09-13T08:54:14,691   adding 'mitylib/config/vcfanno-config-mt.toml'
2025-09-13T08:54:14,700   adding 'mitylib/reference/hg19.chrM.fa'
2025-09-13T08:54:14,701   adding 'mitylib/reference/hg19.chrM.fa.fai'
2025-09-13T08:54:14,704   adding 'mitylib/reference/hg19.dict'
2025-09-13T08:54:14,705   adding 'mitylib/reference/hg19.genome'
2025-09-13T08:54:14,714   adding 'mitylib/reference/hg38.chrM.fa'
2025-09-13T08:54:14,716   adding 'mitylib/reference/hg38.chrM.fa.fai'
2025-09-13T08:54:14,751   adding 'mitylib/reference/hg38.dict'
2025-09-13T08:54:14,764   adding 'mitylib/reference/hg38.genome'
2025-09-13T08:54:14,773   adding 'mitylib/reference/hs37d5.MT.fa'
2025-09-13T08:54:14,775   adding 'mitylib/reference/hs37d5.MT.fa.fai'
2025-09-13T08:54:14,777   adding 'mitylib/reference/hs37d5.dict'
2025-09-13T08:54:14,779   adding 'mitylib/reference/hs37d5.genome'
2025-09-13T08:54:14,787   adding 'mitylib/reference/mm10.MT.fa'
2025-09-13T08:54:14,789   adding 'mitylib/reference/mm10.MT.fa.fai'
2025-09-13T08:54:14,797   adding 'mitylib/reference/mm10.chrM.fa'
2025-09-13T08:54:14,799   adding 'mitylib/reference/mm10.chrM.fa.fai'
2025-09-13T08:54:14,800   adding 'mitylib/reference/mm10.genome'
2025-09-13T08:54:14,803   adding 'mitywgs-2.0.1.data/scripts/mity'
2025-09-13T08:54:14,805   adding 'mitywgs-2.0.1.dist-info/licenses/LICENSE.txt'
2025-09-13T08:54:14,807   adding 'mitywgs-2.0.1.dist-info/METADATA'
2025-09-13T08:54:14,808   adding 'mitywgs-2.0.1.dist-info/WHEEL'
2025-09-13T08:54:14,809   adding 'mitywgs-2.0.1.dist-info/top_level.txt'
2025-09-13T08:54:14,810   adding 'mitywgs-2.0.1.dist-info/RECORD'
2025-09-13T08:54:14,864   removing build/bdist.linux-armv7l/wheel
2025-09-13T08:54:14,993   Building wheel for mitywgs (setup.py): finished with status 'done'
2025-09-13T08:54:15,009   Created wheel for mitywgs: filename=mitywgs-2.0.1-py3-none-any.whl size=1398648 sha256=a362f6509961abc85f30a38804c0816f38396832ef0ea9549078ec42946c5789
2025-09-13T08:54:15,010   Stored in directory: /tmp/pip-ephem-wheel-cache-c81pcdej/wheels/31/2c/a1/bd416a31de8e8c7392d2fc860bde56996104bf7e80069c655c
2025-09-13T08:54:15,025 Successfully built mitywgs
2025-09-13T08:54:15,070 Removed build tracker: '/tmp/pip-build-tracker-0zo0mg4b'