2025-09-08T14:55:29,362 Created temporary directory: /tmp/pip-build-tracker-cox7uubd
2025-09-08T14:55:29,363 Initialized build tracking at /tmp/pip-build-tracker-cox7uubd
2025-09-08T14:55:29,363 Created build tracker: /tmp/pip-build-tracker-cox7uubd
2025-09-08T14:55:29,363 Entered build tracker: /tmp/pip-build-tracker-cox7uubd
2025-09-08T14:55:29,363 Created temporary directory: /tmp/pip-wheel-3k1yb0b_
2025-09-08T14:55:29,366 Created temporary directory: /tmp/pip-ephem-wheel-cache-98t9oko4
2025-09-08T14:55:29,426 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2025-09-08T14:55:29,429 2 location(s) to search for versions of deeptoolsintervals:
2025-09-08T14:55:29,429 * https://pypi.org/simple/deeptoolsintervals/
2025-09-08T14:55:29,429 * https://www.piwheels.org/simple/deeptoolsintervals/
2025-09-08T14:55:29,429 Fetching project page and analyzing links: https://pypi.org/simple/deeptoolsintervals/
2025-09-08T14:55:29,429 Getting page https://pypi.org/simple/deeptoolsintervals/
2025-09-08T14:55:29,431 Found index url https://pypi.org/simple/
2025-09-08T14:55:29,578 Fetched page https://pypi.org/simple/deeptoolsintervals/ as application/vnd.pypi.simple.v1+json
2025-09-08T14:55:29,579   Found link https://files.pythonhosted.org/packages/da/1a/af0e167859b4302a666729c25cbcab02cc147c29a11e0b8768ce324960ff/deeptoolsintervals-0.1.7.tar.gz (from https://pypi.org/simple/deeptoolsintervals/), version: 0.1.7
2025-09-08T14:55:29,579   Found link https://files.pythonhosted.org/packages/5e/a6/fa0ec5fb29f0ab041ce69e6e837e04a831022bb5b1e2e8b524491d53b8a3/deeptoolsintervals-0.1.8.tar.gz (from https://pypi.org/simple/deeptoolsintervals/), version: 0.1.8
2025-09-08T14:55:29,579   Found link https://files.pythonhosted.org/packages/ac/1f/d10d6ad23c86c62d90d867d0506881a392ec6ef06885b858eaab868dd356/deeptoolsintervals-0.1.9.tar.gz (from https://pypi.org/simple/deeptoolsintervals/), version: 0.1.9
2025-09-08T14:55:29,580 Fetching project page and analyzing links: https://www.piwheels.org/simple/deeptoolsintervals/
2025-09-08T14:55:29,580 Getting page https://www.piwheels.org/simple/deeptoolsintervals/
2025-09-08T14:55:29,581 Found index url https://www.piwheels.org/simple/
2025-09-08T14:55:29,671 Fetched page https://www.piwheels.org/simple/deeptoolsintervals/ as text/html
2025-09-08T14:55:29,678   Skipping link: No binaries permitted for deeptoolsintervals: https://archive1.piwheels.org/simple/deeptoolsintervals/deeptoolsintervals-0.1.9-cp39-cp39-linux_armv6l.whl#sha256=2f13db26292dccd89ee311342a772297b96151bda8a0a5ead0808ce09a9c8923 (from https://www.piwheels.org/simple/deeptoolsintervals/)
2025-09-08T14:55:29,679   Skipping link: No binaries permitted for deeptoolsintervals: https://archive1.piwheels.org/simple/deeptoolsintervals/deeptoolsintervals-0.1.9-cp39-cp39-linux_armv7l.whl#sha256=2f13db26292dccd89ee311342a772297b96151bda8a0a5ead0808ce09a9c8923 (from https://www.piwheels.org/simple/deeptoolsintervals/)
2025-09-08T14:55:29,679   Skipping link: No binaries permitted for deeptoolsintervals: https://archive1.piwheels.org/simple/deeptoolsintervals/deeptoolsintervals-0.1.9-cp34-cp34m-linux_armv6l.whl#sha256=91eab1918368ae25211e7d2841d4473fac0b05d620c3ad20f790df228b29c454 (from https://www.piwheels.org/simple/deeptoolsintervals/)
2025-09-08T14:55:29,679   Skipping link: No binaries permitted for deeptoolsintervals: https://archive1.piwheels.org/simple/deeptoolsintervals/deeptoolsintervals-0.1.9-cp34-cp34m-linux_armv7l.whl#sha256=91eab1918368ae25211e7d2841d4473fac0b05d620c3ad20f790df228b29c454 (from https://www.piwheels.org/simple/deeptoolsintervals/)
2025-09-08T14:55:29,679   Skipping link: No binaries permitted for deeptoolsintervals: https://archive1.piwheels.org/simple/deeptoolsintervals/deeptoolsintervals-0.1.9-cp37-cp37m-linux_armv7l.whl#sha256=11923297523d08eb35fdb7f7759be6811ff716b3b3ea5d33740187c4cf0165b1 (from https://www.piwheels.org/simple/deeptoolsintervals/)
2025-09-08T14:55:29,679   Skipping link: No binaries permitted for deeptoolsintervals: https://archive1.piwheels.org/simple/deeptoolsintervals/deeptoolsintervals-0.1.9-cp37-cp37m-linux_armv6l.whl#sha256=11923297523d08eb35fdb7f7759be6811ff716b3b3ea5d33740187c4cf0165b1 (from https://www.piwheels.org/simple/deeptoolsintervals/)
2025-09-08T14:55:29,680   Skipping link: No binaries permitted for deeptoolsintervals: https://archive1.piwheels.org/simple/deeptoolsintervals/deeptoolsintervals-0.1.9-cp35-cp35m-linux_armv6l.whl#sha256=2d453ce2d0fb2bf50c891a544525eb35d0f7700d7fd6d9d8c25302f5c5c9e53b (from https://www.piwheels.org/simple/deeptoolsintervals/)
2025-09-08T14:55:29,680   Skipping link: No binaries permitted for deeptoolsintervals: https://archive1.piwheels.org/simple/deeptoolsintervals/deeptoolsintervals-0.1.9-cp35-cp35m-linux_armv7l.whl#sha256=2d453ce2d0fb2bf50c891a544525eb35d0f7700d7fd6d9d8c25302f5c5c9e53b (from https://www.piwheels.org/simple/deeptoolsintervals/)
2025-09-08T14:55:29,680   Skipping link: No binaries permitted for deeptoolsintervals: https://archive1.piwheels.org/simple/deeptoolsintervals/deeptoolsintervals-0.1.9-cp311-cp311-linux_armv6l.whl#sha256=9e834f26e0d4cf40863c709fe83567ed3a3b1a15b9edfc001f00b2a82c85e206 (from https://www.piwheels.org/simple/deeptoolsintervals/)
2025-09-08T14:55:29,680   Skipping link: No binaries permitted for deeptoolsintervals: https://archive1.piwheels.org/simple/deeptoolsintervals/deeptoolsintervals-0.1.9-cp311-cp311-linux_armv7l.whl#sha256=9e834f26e0d4cf40863c709fe83567ed3a3b1a15b9edfc001f00b2a82c85e206 (from https://www.piwheels.org/simple/deeptoolsintervals/)
2025-09-08T14:55:29,680   Skipping link: No binaries permitted for deeptoolsintervals: https://archive1.piwheels.org/simple/deeptoolsintervals/deeptoolsintervals-0.1.8-cp35-cp35m-linux_armv7l.whl#sha256=86dd9e684c755b17ce3217537d5674ccb22d9296fac1a122ffee17f7311121cd (from https://www.piwheels.org/simple/deeptoolsintervals/)
2025-09-08T14:55:29,680   Skipping link: No binaries permitted for deeptoolsintervals: https://archive1.piwheels.org/simple/deeptoolsintervals/deeptoolsintervals-0.1.8-cp35-cp35m-linux_armv6l.whl#sha256=86dd9e684c755b17ce3217537d5674ccb22d9296fac1a122ffee17f7311121cd (from https://www.piwheels.org/simple/deeptoolsintervals/)
2025-09-08T14:55:29,681   Skipping link: No binaries permitted for deeptoolsintervals: https://archive1.piwheels.org/simple/deeptoolsintervals/deeptoolsintervals-0.1.8-cp39-cp39-linux_armv6l.whl#sha256=db13f201d0c9021bd4b1f3365841785ee8bbd73b6d552748f1d7303f55c473fd (from https://www.piwheels.org/simple/deeptoolsintervals/)
2025-09-08T14:55:29,681   Skipping link: No binaries permitted for deeptoolsintervals: https://archive1.piwheels.org/simple/deeptoolsintervals/deeptoolsintervals-0.1.8-cp39-cp39-linux_armv7l.whl#sha256=db13f201d0c9021bd4b1f3365841785ee8bbd73b6d552748f1d7303f55c473fd (from https://www.piwheels.org/simple/deeptoolsintervals/)
2025-09-08T14:55:29,681   Skipping link: No binaries permitted for deeptoolsintervals: https://archive1.piwheels.org/simple/deeptoolsintervals/deeptoolsintervals-0.1.8-cp37-cp37m-linux_armv6l.whl#sha256=898b04fcb22761ad4e3b79c2f4d2e72eb288365a8dd8e0d1698859f77992d9e6 (from https://www.piwheels.org/simple/deeptoolsintervals/)
2025-09-08T14:55:29,681   Skipping link: No binaries permitted for deeptoolsintervals: https://archive1.piwheels.org/simple/deeptoolsintervals/deeptoolsintervals-0.1.8-cp37-cp37m-linux_armv7l.whl#sha256=898b04fcb22761ad4e3b79c2f4d2e72eb288365a8dd8e0d1698859f77992d9e6 (from https://www.piwheels.org/simple/deeptoolsintervals/)
2025-09-08T14:55:29,681   Skipping link: No binaries permitted for deeptoolsintervals: https://archive1.piwheels.org/simple/deeptoolsintervals/deeptoolsintervals-0.1.8-cp34-cp34m-linux_armv7l.whl#sha256=d4fa283502ec75c5e42a7d8d41d7b8b20b5f9689f833c74c9640b241e9349452 (from https://www.piwheels.org/simple/deeptoolsintervals/)
2025-09-08T14:55:29,682   Skipping link: No binaries permitted for deeptoolsintervals: https://archive1.piwheels.org/simple/deeptoolsintervals/deeptoolsintervals-0.1.8-cp34-cp34m-linux_armv6l.whl#sha256=d4fa283502ec75c5e42a7d8d41d7b8b20b5f9689f833c74c9640b241e9349452 (from https://www.piwheels.org/simple/deeptoolsintervals/)
2025-09-08T14:55:29,682   Skipping link: No binaries permitted for deeptoolsintervals: https://archive1.piwheels.org/simple/deeptoolsintervals/deeptoolsintervals-0.1.8-cp311-cp311-linux_armv6l.whl#sha256=85f986f39c204bfe14a0560d1f04534ed0ac452a4e32f4e18cf116ffb099378b (from https://www.piwheels.org/simple/deeptoolsintervals/)
2025-09-08T14:55:29,682   Skipping link: No binaries permitted for deeptoolsintervals: https://archive1.piwheels.org/simple/deeptoolsintervals/deeptoolsintervals-0.1.8-cp311-cp311-linux_armv7l.whl#sha256=85f986f39c204bfe14a0560d1f04534ed0ac452a4e32f4e18cf116ffb099378b (from https://www.piwheels.org/simple/deeptoolsintervals/)
2025-09-08T14:55:29,682   Skipping link: No binaries permitted for deeptoolsintervals: https://archive1.piwheels.org/simple/deeptoolsintervals/deeptoolsintervals-0.1.7-cp39-cp39-linux_armv6l.whl#sha256=eb0bac224f6b668a0df7e6e9b0b6134c995314abbcc98512494c9c1cb7ad5b41 (from https://www.piwheels.org/simple/deeptoolsintervals/)
2025-09-08T14:55:29,682   Skipping link: No binaries permitted for deeptoolsintervals: https://archive1.piwheels.org/simple/deeptoolsintervals/deeptoolsintervals-0.1.7-cp39-cp39-linux_armv7l.whl#sha256=eb0bac224f6b668a0df7e6e9b0b6134c995314abbcc98512494c9c1cb7ad5b41 (from https://www.piwheels.org/simple/deeptoolsintervals/)
2025-09-08T14:55:29,682   Skipping link: No binaries permitted for deeptoolsintervals: https://archive1.piwheels.org/simple/deeptoolsintervals/deeptoolsintervals-0.1.7-cp37-cp37m-linux_armv7l.whl#sha256=464d7cae1869359903217d944b97a89851f2e60b32febc1ad38315c9cd36aecb (from https://www.piwheels.org/simple/deeptoolsintervals/)
2025-09-08T14:55:29,683   Skipping link: No binaries permitted for deeptoolsintervals: https://archive1.piwheels.org/simple/deeptoolsintervals/deeptoolsintervals-0.1.7-cp37-cp37m-linux_armv6l.whl#sha256=464d7cae1869359903217d944b97a89851f2e60b32febc1ad38315c9cd36aecb (from https://www.piwheels.org/simple/deeptoolsintervals/)
2025-09-08T14:55:29,683   Skipping link: No binaries permitted for deeptoolsintervals: https://archive1.piwheels.org/simple/deeptoolsintervals/deeptoolsintervals-0.1.7-cp35-cp35m-linux_armv7l.whl#sha256=bce1bce1e3a3df7623d0f569053b98ac221c03fadeedc82985dce369b306025c (from https://www.piwheels.org/simple/deeptoolsintervals/)
2025-09-08T14:55:29,683   Skipping link: No binaries permitted for deeptoolsintervals: https://archive1.piwheels.org/simple/deeptoolsintervals/deeptoolsintervals-0.1.7-cp35-cp35m-linux_armv6l.whl#sha256=bce1bce1e3a3df7623d0f569053b98ac221c03fadeedc82985dce369b306025c (from https://www.piwheels.org/simple/deeptoolsintervals/)
2025-09-08T14:55:29,683   Skipping link: No binaries permitted for deeptoolsintervals: https://archive1.piwheels.org/simple/deeptoolsintervals/deeptoolsintervals-0.1.7-cp34-cp34m-linux_armv7l.whl#sha256=a98b482405bd8bd98b21ad30fe6cc5dc228cc630483cffd0fca10115b22e0dda (from https://www.piwheels.org/simple/deeptoolsintervals/)
2025-09-08T14:55:29,683   Skipping link: No binaries permitted for deeptoolsintervals: https://archive1.piwheels.org/simple/deeptoolsintervals/deeptoolsintervals-0.1.7-cp34-cp34m-linux_armv6l.whl#sha256=a98b482405bd8bd98b21ad30fe6cc5dc228cc630483cffd0fca10115b22e0dda (from https://www.piwheels.org/simple/deeptoolsintervals/)
2025-09-08T14:55:29,683   Skipping link: No binaries permitted for deeptoolsintervals: https://archive1.piwheels.org/simple/deeptoolsintervals/deeptoolsintervals-0.1.7-cp311-cp311-linux_armv6l.whl#sha256=dfa3923a42bb5707a468d8b6f97f92bd937a3d3e7ba8710cb2d611d6b5547a77 (from https://www.piwheels.org/simple/deeptoolsintervals/)
2025-09-08T14:55:29,683   Skipping link: No binaries permitted for deeptoolsintervals: https://archive1.piwheels.org/simple/deeptoolsintervals/deeptoolsintervals-0.1.7-cp311-cp311-linux_armv7l.whl#sha256=dfa3923a42bb5707a468d8b6f97f92bd937a3d3e7ba8710cb2d611d6b5547a77 (from https://www.piwheels.org/simple/deeptoolsintervals/)
2025-09-08T14:55:29,684 Skipping link: not a file: https://www.piwheels.org/simple/deeptoolsintervals/
2025-09-08T14:55:29,684 Skipping link: not a file: https://pypi.org/simple/deeptoolsintervals/
2025-09-08T14:55:29,707 Given no hashes to check 1 links for project 'deeptoolsintervals': discarding no candidates
2025-09-08T14:55:29,708 Collecting deeptoolsintervals==0.1.7
2025-09-08T14:55:29,710   Created temporary directory: /tmp/pip-unpack-c1_b47xz
2025-09-08T14:55:29,850   Downloading deeptoolsintervals-0.1.7.tar.gz (40 kB)
2025-09-08T14:55:29,890   Added deeptoolsintervals==0.1.7 from https://files.pythonhosted.org/packages/da/1a/af0e167859b4302a666729c25cbcab02cc147c29a11e0b8768ce324960ff/deeptoolsintervals-0.1.7.tar.gz to build tracker '/tmp/pip-build-tracker-cox7uubd'
2025-09-08T14:55:29,891   Running setup.py (path:/tmp/pip-wheel-3k1yb0b_/deeptoolsintervals_7df85c2ed8194235a6240a419c88492e/setup.py) egg_info for package deeptoolsintervals
2025-09-08T14:55:29,891   Created temporary directory: /tmp/pip-pip-egg-info-kmflq1ke
2025-09-08T14:55:29,891   Preparing metadata (setup.py): started
2025-09-08T14:55:29,892   Running command python setup.py egg_info
2025-09-08T14:55:30,588   /usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'classifier'
2025-09-08T14:55:30,588     warnings.warn(msg)
2025-09-08T14:55:31,038   running egg_info
2025-09-08T14:55:31,114   creating /tmp/pip-pip-egg-info-kmflq1ke/deeptoolsintervals.egg-info
2025-09-08T14:55:31,114   writing /tmp/pip-pip-egg-info-kmflq1ke/deeptoolsintervals.egg-info/PKG-INFO
2025-09-08T14:55:31,115   writing dependency_links to /tmp/pip-pip-egg-info-kmflq1ke/deeptoolsintervals.egg-info/dependency_links.txt
2025-09-08T14:55:31,116   writing top-level names to /tmp/pip-pip-egg-info-kmflq1ke/deeptoolsintervals.egg-info/top_level.txt
2025-09-08T14:55:31,117   writing manifest file '/tmp/pip-pip-egg-info-kmflq1ke/deeptoolsintervals.egg-info/SOURCES.txt'
2025-09-08T14:55:31,414   reading manifest file '/tmp/pip-pip-egg-info-kmflq1ke/deeptoolsintervals.egg-info/SOURCES.txt'
2025-09-08T14:55:31,415   reading manifest template 'MANIFEST.in'
2025-09-08T14:55:31,416   warning: no files found matching 'deeptoolsintervals/tree.*'
2025-09-08T14:55:31,418   warning: no previously-included files found matching 'deeptoolsintervals.egg-info/*'
2025-09-08T14:55:31,418   warning: no previously-included files found matching 'dist'
2025-09-08T14:55:31,422   writing manifest file '/tmp/pip-pip-egg-info-kmflq1ke/deeptoolsintervals.egg-info/SOURCES.txt'
2025-09-08T14:55:31,535   Preparing metadata (setup.py): finished with status 'done'
2025-09-08T14:55:31,540   Source in /tmp/pip-wheel-3k1yb0b_/deeptoolsintervals_7df85c2ed8194235a6240a419c88492e has version 0.1.7, which satisfies requirement deeptoolsintervals==0.1.7 from https://files.pythonhosted.org/packages/da/1a/af0e167859b4302a666729c25cbcab02cc147c29a11e0b8768ce324960ff/deeptoolsintervals-0.1.7.tar.gz
2025-09-08T14:55:31,540   Removed deeptoolsintervals==0.1.7 from https://files.pythonhosted.org/packages/da/1a/af0e167859b4302a666729c25cbcab02cc147c29a11e0b8768ce324960ff/deeptoolsintervals-0.1.7.tar.gz from build tracker '/tmp/pip-build-tracker-cox7uubd'
2025-09-08T14:55:31,543 Created temporary directory: /tmp/pip-unpack-sgorh4xs
2025-09-08T14:55:31,543 Created temporary directory: /tmp/pip-unpack-jrmr12sp
2025-09-08T14:55:31,543 Building wheels for collected packages: deeptoolsintervals
2025-09-08T14:55:31,544   Created temporary directory: /tmp/pip-wheel-l12uw6kj
2025-09-08T14:55:31,545   DEPRECATION: Building 'deeptoolsintervals' 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 'deeptoolsintervals'. Discussion can be found at https://github.com/pypa/pip/issues/6334
2025-09-08T14:55:31,546   Building wheel for deeptoolsintervals (setup.py): started
2025-09-08T14:55:31,546   Destination directory: /tmp/pip-wheel-l12uw6kj
2025-09-08T14:55:31,547   Running command python setup.py bdist_wheel
2025-09-08T14:55:32,250   /usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'classifier'
2025-09-08T14:55:32,250     warnings.warn(msg)
2025-09-08T14:55:32,633   running bdist_wheel
2025-09-08T14:55:33,006   running build
2025-09-08T14:55:33,006   running build_py
2025-09-08T14:55:33,085   creating build/lib.linux-armv7l-cpython-313/deeptoolsintervals
2025-09-08T14:55:33,086   copying deeptoolsintervals/enrichment.py -> build/lib.linux-armv7l-cpython-313/deeptoolsintervals
2025-09-08T14:55:33,087   copying deeptoolsintervals/parse.py -> build/lib.linux-armv7l-cpython-313/deeptoolsintervals
2025-09-08T14:55:33,087   copying deeptoolsintervals/__init__.py -> build/lib.linux-armv7l-cpython-313/deeptoolsintervals
2025-09-08T14:55:33,088   running egg_info
2025-09-08T14:55:33,163   writing deeptoolsintervals.egg-info/PKG-INFO
2025-09-08T14:55:33,164   writing dependency_links to deeptoolsintervals.egg-info/dependency_links.txt
2025-09-08T14:55:33,165   writing top-level names to deeptoolsintervals.egg-info/top_level.txt
2025-09-08T14:55:33,241   reading manifest file 'deeptoolsintervals.egg-info/SOURCES.txt'
2025-09-08T14:55:33,243   reading manifest template 'MANIFEST.in'
2025-09-08T14:55:33,244   warning: no files found matching 'deeptoolsintervals/tree.*'
2025-09-08T14:55:33,247   warning: no previously-included files found matching 'dist'
2025-09-08T14:55:33,250   writing manifest file 'deeptoolsintervals.egg-info/SOURCES.txt'
2025-09-08T14:55:33,251   /usr/local/lib/python3.13/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'deeptoolsintervals.test' is absent from the `packages` configuration.
2025-09-08T14:55:33,251   !!

2025-09-08T14:55:33,252           ********************************************************************************
2025-09-08T14:55:33,252           ############################
2025-09-08T14:55:33,252           # Package would be ignored #
2025-09-08T14:55:33,252           ############################
2025-09-08T14:55:33,252           Python recognizes 'deeptoolsintervals.test' as an importable package[^1],
2025-09-08T14:55:33,252           but it is absent from setuptools' `packages` configuration.

2025-09-08T14:55:33,252           This leads to an ambiguous overall configuration. If you want to distribute this
2025-09-08T14:55:33,252           package, please make sure that 'deeptoolsintervals.test' is explicitly added
2025-09-08T14:55:33,252           to the `packages` configuration field.

2025-09-08T14:55:33,253           Alternatively, you can also rely on setuptools' discovery methods
2025-09-08T14:55:33,253           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2025-09-08T14:55:33,253           instead of `find_packages(...)`/`find:`).

2025-09-08T14:55:33,253           You can read more about "package discovery" on setuptools documentation page:

2025-09-08T14:55:33,253           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2025-09-08T14:55:33,253           If you don't want 'deeptoolsintervals.test' to be distributed and are
2025-09-08T14:55:33,253           already explicitly excluding 'deeptoolsintervals.test' via
2025-09-08T14:55:33,253           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2025-09-08T14:55:33,254           you can try to use `exclude_package_data`, or `include-package-data=False` in
2025-09-08T14:55:33,254           combination with a more fine grained `package-data` configuration.

2025-09-08T14:55:33,254           You can read more about "package data files" on setuptools documentation page:

2025-09-08T14:55:33,254           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2025-09-08T14:55:33,254           [^1]: For Python, any directory (with suitable naming) can be imported,
2025-09-08T14:55:33,254                 even if it does not contain any `.py` files.
2025-09-08T14:55:33,254                 On the other hand, currently there is no concept of package data
2025-09-08T14:55:33,255                 directory, all directories are treated like packages.
2025-09-08T14:55:33,255           ********************************************************************************

2025-09-08T14:55:33,255   !!
2025-09-08T14:55:33,255     check.warn(importable)
2025-09-08T14:55:33,255   /usr/local/lib/python3.13/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'deeptoolsintervals.tree' is absent from the `packages` configuration.
2025-09-08T14:55:33,255   !!

2025-09-08T14:55:33,255           ********************************************************************************
2025-09-08T14:55:33,255           ############################
2025-09-08T14:55:33,256           # Package would be ignored #
2025-09-08T14:55:33,256           ############################
2025-09-08T14:55:33,256           Python recognizes 'deeptoolsintervals.tree' as an importable package[^1],
2025-09-08T14:55:33,256           but it is absent from setuptools' `packages` configuration.

2025-09-08T14:55:33,256           This leads to an ambiguous overall configuration. If you want to distribute this
2025-09-08T14:55:33,256           package, please make sure that 'deeptoolsintervals.tree' is explicitly added
2025-09-08T14:55:33,256           to the `packages` configuration field.

2025-09-08T14:55:33,256           Alternatively, you can also rely on setuptools' discovery methods
2025-09-08T14:55:33,256           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2025-09-08T14:55:33,256           instead of `find_packages(...)`/`find:`).

2025-09-08T14:55:33,257           You can read more about "package discovery" on setuptools documentation page:

2025-09-08T14:55:33,257           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2025-09-08T14:55:33,257           If you don't want 'deeptoolsintervals.tree' to be distributed and are
2025-09-08T14:55:33,257           already explicitly excluding 'deeptoolsintervals.tree' via
2025-09-08T14:55:33,257           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2025-09-08T14:55:33,257           you can try to use `exclude_package_data`, or `include-package-data=False` in
2025-09-08T14:55:33,257           combination with a more fine grained `package-data` configuration.

2025-09-08T14:55:33,258           You can read more about "package data files" on setuptools documentation page:

2025-09-08T14:55:33,258           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2025-09-08T14:55:33,258           [^1]: For Python, any directory (with suitable naming) can be imported,
2025-09-08T14:55:33,258                 even if it does not contain any `.py` files.
2025-09-08T14:55:33,258                 On the other hand, currently there is no concept of package data
2025-09-08T14:55:33,258                 directory, all directories are treated like packages.
2025-09-08T14:55:33,258           ********************************************************************************

2025-09-08T14:55:33,259   !!
2025-09-08T14:55:33,259     check.warn(importable)
2025-09-08T14:55:33,259   creating build/lib.linux-armv7l-cpython-313/deeptoolsintervals/test
2025-09-08T14:55:33,259   copying deeptoolsintervals/test/GRCh38.84.2.gtf.gz -> build/lib.linux-armv7l-cpython-313/deeptoolsintervals/test
2025-09-08T14:55:33,259   copying deeptoolsintervals/test/GRCh38.84.bed -> build/lib.linux-armv7l-cpython-313/deeptoolsintervals/test
2025-09-08T14:55:33,259   copying deeptoolsintervals/test/GRCh38.84.bed12.bz2 -> build/lib.linux-armv7l-cpython-313/deeptoolsintervals/test
2025-09-08T14:55:33,259   copying deeptoolsintervals/test/GRCh38.84.bed2 -> build/lib.linux-armv7l-cpython-313/deeptoolsintervals/test
2025-09-08T14:55:33,259   copying deeptoolsintervals/test/GRCh38.84.bed6 -> build/lib.linux-armv7l-cpython-313/deeptoolsintervals/test
2025-09-08T14:55:33,259   copying deeptoolsintervals/test/GRCh38.84.gtf.gz -> build/lib.linux-armv7l-cpython-313/deeptoolsintervals/test
2025-09-08T14:55:33,259   copying deeptoolsintervals/test/GRCh38.84.labels.bed -> build/lib.linux-armv7l-cpython-313/deeptoolsintervals/test
2025-09-08T14:55:33,259   copying deeptoolsintervals/test/noOverlaps.bed -> build/lib.linux-armv7l-cpython-313/deeptoolsintervals/test
2025-09-08T14:55:33,260   copying deeptoolsintervals/test/strands.bed -> build/lib.linux-armv7l-cpython-313/deeptoolsintervals/test
2025-09-08T14:55:33,260   creating build/lib.linux-armv7l-cpython-313/deeptoolsintervals/tree
2025-09-08T14:55:33,260   copying deeptoolsintervals/tree/findOverlaps.c -> build/lib.linux-armv7l-cpython-313/deeptoolsintervals/tree
2025-09-08T14:55:33,260   copying deeptoolsintervals/tree/gtf.c -> build/lib.linux-armv7l-cpython-313/deeptoolsintervals/tree
2025-09-08T14:55:33,260   copying deeptoolsintervals/tree/gtf.h -> build/lib.linux-armv7l-cpython-313/deeptoolsintervals/tree
2025-09-08T14:55:33,261   copying deeptoolsintervals/tree/hashTable.c -> build/lib.linux-armv7l-cpython-313/deeptoolsintervals/tree
2025-09-08T14:55:33,262   copying deeptoolsintervals/tree/kseq.h -> build/lib.linux-armv7l-cpython-313/deeptoolsintervals/tree
2025-09-08T14:55:33,262   copying deeptoolsintervals/tree/kstring.h -> build/lib.linux-armv7l-cpython-313/deeptoolsintervals/tree
2025-09-08T14:55:33,263   copying deeptoolsintervals/tree/murmur3.c -> build/lib.linux-armv7l-cpython-313/deeptoolsintervals/tree
2025-09-08T14:55:33,263   copying deeptoolsintervals/tree/murmur3.h -> build/lib.linux-armv7l-cpython-313/deeptoolsintervals/tree
2025-09-08T14:55:33,264   copying deeptoolsintervals/tree/tree.c -> build/lib.linux-armv7l-cpython-313/deeptoolsintervals/tree
2025-09-08T14:55:33,264   copying deeptoolsintervals/tree/tree.h -> build/lib.linux-armv7l-cpython-313/deeptoolsintervals/tree
2025-09-08T14:55:33,265   running build_ext
2025-09-08T14:55:33,622   building 'deeptoolsintervals.tree' extension
2025-09-08T14:55:33,623   creating build/temp.linux-armv7l-cpython-313/deeptoolsintervals/tree
2025-09-08T14:55:33,624   arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -fPIC -I/usr/include/python3.13 -I/usr/include/python3.13 -c deeptoolsintervals/tree/findOverlaps.c -o build/temp.linux-armv7l-cpython-313/deeptoolsintervals/tree/findOverlaps.o
2025-09-08T14:55:34,846   arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -fPIC -I/usr/include/python3.13 -I/usr/include/python3.13 -c deeptoolsintervals/tree/gtf.c -o build/temp.linux-armv7l-cpython-313/deeptoolsintervals/tree/gtf.o
2025-09-08T14:55:34,956   deeptoolsintervals/tree/gtf.c: In function ‘destroyGTFtree’:
2025-09-08T14:55:34,957   deeptoolsintervals/tree/gtf.c:58:15: warning: comparison of integer expressions of different signedness: ‘uint32_t’ {aka ‘unsigned int’} and ‘int32_t’ {aka ‘int’} [-Wsign-compare]
2025-09-08T14:55:34,957      58 |     for(i=0; i<t->n_targets; i++) {
2025-09-08T14:55:34,957         |               ^
2025-09-08T14:55:35,932   arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -fPIC -I/usr/include/python3.13 -I/usr/include/python3.13 -c deeptoolsintervals/tree/hashTable.c -o build/temp.linux-armv7l-cpython-313/deeptoolsintervals/tree/hashTable.o
2025-09-08T14:55:36,040   deeptoolsintervals/tree/hashTable.c: In function ‘rehashHT’:
2025-09-08T14:55:36,040   deeptoolsintervals/tree/hashTable.c:55:15: warning: comparison of integer expressions of different signedness: ‘int32_t’ {aka ‘int’} and ‘uint64_t’ {aka ‘long long unsigned int’} [-Wsign-compare]
2025-09-08T14:55:36,041      55 |     for(i=0; i<ht->l; i++) {
2025-09-08T14:55:36,041         |               ^
2025-09-08T14:55:36,042   deeptoolsintervals/tree/hashTable.c: In function ‘growHT’:
2025-09-08T14:55:36,042   deeptoolsintervals/tree/hashTable.c:72:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘uint64_t’ {aka ‘long long unsigned int’} [-Wsign-compare]
2025-09-08T14:55:36,042      72 |     for(i=ht->l; i<ht->m; i++) {
2025-09-08T14:55:36,042         |                   ^
2025-09-08T14:55:36,043   deeptoolsintervals/tree/hashTable.c: In function ‘destroyHT’:
2025-09-08T14:55:36,044   deeptoolsintervals/tree/hashTable.c:103:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘uint64_t’ {aka ‘long long unsigned int’} [-Wsign-compare]
2025-09-08T14:55:36,044     103 |     for(i=0; i<ht->l; i++) free(ht->str[i]);
2025-09-08T14:55:36,044         |               ^
2025-09-08T14:55:36,044   deeptoolsintervals/tree/hashTable.c:105:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘uint64_t’ {aka ‘long long unsigned int’} [-Wsign-compare]
2025-09-08T14:55:36,044     105 |     for(i=0; i<ht->m; i++) {
2025-09-08T14:55:36,044         |               ^
2025-09-08T14:55:36,045   deeptoolsintervals/tree/hashTable.c: In function ‘val2strHT’:
2025-09-08T14:55:36,046   deeptoolsintervals/tree/hashTable.c:139:11: warning: comparison of integer expressions of different signedness: ‘int32_t’ {aka ‘int’} and ‘uint64_t’ {aka ‘long long unsigned int’} [-Wsign-compare]
2025-09-08T14:55:36,046     139 |     if(val>=ht->l) return NULL;
2025-09-08T14:55:36,046         |           ^~
2025-09-08T14:55:36,299   arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -fPIC -I/usr/include/python3.13 -I/usr/include/python3.13 -c deeptoolsintervals/tree/murmur3.c -o build/temp.linux-armv7l-cpython-313/deeptoolsintervals/tree/murmur3.o
2025-09-08T14:55:36,905   arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -fPIC -I/usr/include/python3.13 -I/usr/include/python3.13 -c deeptoolsintervals/tree/tree.c -o build/temp.linux-armv7l-cpython-313/deeptoolsintervals/tree/tree.o
2025-09-08T14:55:37,272   deeptoolsintervals/tree/tree.c: In function ‘Numeric2Uint’:
2025-09-08T14:55:37,272   deeptoolsintervals/tree/tree.c:49:10: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘unsigned int’ [-Wsign-compare]
2025-09-08T14:55:37,273      49 |     if(l > 0xFFFFFFFF) {
2025-09-08T14:55:37,273         |          ^
2025-09-08T14:55:37,696   arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-313/deeptoolsintervals/tree/findOverlaps.o build/temp.linux-armv7l-cpython-313/deeptoolsintervals/tree/gtf.o build/temp.linux-armv7l-cpython-313/deeptoolsintervals/tree/hashTable.o build/temp.linux-armv7l-cpython-313/deeptoolsintervals/tree/murmur3.o build/temp.linux-armv7l-cpython-313/deeptoolsintervals/tree/tree.o -L/usr/lib/arm-linux-gnueabihf -L/usr/lib/python3.13/config-3.13-arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -lz -lpython3.13 -o build/lib.linux-armv7l-cpython-313/deeptoolsintervals/tree.cpython-313-arm-linux-gnueabihf.so
2025-09-08T14:55:37,982   /usr/local/lib/python3.13/dist-packages/setuptools/_distutils/cmd.py:90: SetuptoolsDeprecationWarning: setup.py install is deprecated.
2025-09-08T14:55:37,982   !!

2025-09-08T14:55:37,982           ********************************************************************************
2025-09-08T14:55:37,983           Please avoid running ``setup.py`` directly.
2025-09-08T14:55:37,983           Instead, use pypa/build, pypa/installer or other
2025-09-08T14:55:37,983           standards-based tools.

2025-09-08T14:55:37,983           By 2025-Oct-31, you need to update your project and remove deprecated calls
2025-09-08T14:55:37,983           or your builds will no longer be supported.

2025-09-08T14:55:37,983           See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details.
2025-09-08T14:55:37,983           ********************************************************************************

2025-09-08T14:55:37,984   !!
2025-09-08T14:55:37,984     self.initialize_options()
2025-09-08T14:55:38,062   installing to build/bdist.linux-armv7l/wheel
2025-09-08T14:55:38,062   running install
2025-09-08T14:55:38,084   running install_lib
2025-09-08T14:55:38,158   creating build/bdist.linux-armv7l/wheel
2025-09-08T14:55:38,159   creating build/bdist.linux-armv7l/wheel/deeptoolsintervals
2025-09-08T14:55:38,159   copying build/lib.linux-armv7l-cpython-313/deeptoolsintervals/tree.cpython-313-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/./deeptoolsintervals
2025-09-08T14:55:38,160   creating build/bdist.linux-armv7l/wheel/deeptoolsintervals/tree
2025-09-08T14:55:38,161   copying build/lib.linux-armv7l-cpython-313/deeptoolsintervals/tree/tree.h -> build/bdist.linux-armv7l/wheel/./deeptoolsintervals/tree
2025-09-08T14:55:38,161   copying build/lib.linux-armv7l-cpython-313/deeptoolsintervals/tree/tree.c -> build/bdist.linux-armv7l/wheel/./deeptoolsintervals/tree
2025-09-08T14:55:38,162   copying build/lib.linux-armv7l-cpython-313/deeptoolsintervals/tree/murmur3.h -> build/bdist.linux-armv7l/wheel/./deeptoolsintervals/tree
2025-09-08T14:55:38,162   copying build/lib.linux-armv7l-cpython-313/deeptoolsintervals/tree/murmur3.c -> build/bdist.linux-armv7l/wheel/./deeptoolsintervals/tree
2025-09-08T14:55:38,162   copying build/lib.linux-armv7l-cpython-313/deeptoolsintervals/tree/kstring.h -> build/bdist.linux-armv7l/wheel/./deeptoolsintervals/tree
2025-09-08T14:55:38,163   copying build/lib.linux-armv7l-cpython-313/deeptoolsintervals/tree/kseq.h -> build/bdist.linux-armv7l/wheel/./deeptoolsintervals/tree
2025-09-08T14:55:38,163   copying build/lib.linux-armv7l-cpython-313/deeptoolsintervals/tree/hashTable.c -> build/bdist.linux-armv7l/wheel/./deeptoolsintervals/tree
2025-09-08T14:55:38,163   copying build/lib.linux-armv7l-cpython-313/deeptoolsintervals/tree/gtf.h -> build/bdist.linux-armv7l/wheel/./deeptoolsintervals/tree
2025-09-08T14:55:38,164   copying build/lib.linux-armv7l-cpython-313/deeptoolsintervals/tree/gtf.c -> build/bdist.linux-armv7l/wheel/./deeptoolsintervals/tree
2025-09-08T14:55:38,164   copying build/lib.linux-armv7l-cpython-313/deeptoolsintervals/tree/findOverlaps.c -> build/bdist.linux-armv7l/wheel/./deeptoolsintervals/tree
2025-09-08T14:55:38,165   creating build/bdist.linux-armv7l/wheel/deeptoolsintervals/test
2025-09-08T14:55:38,165   copying build/lib.linux-armv7l-cpython-313/deeptoolsintervals/test/strands.bed -> build/bdist.linux-armv7l/wheel/./deeptoolsintervals/test
2025-09-08T14:55:38,166   copying build/lib.linux-armv7l-cpython-313/deeptoolsintervals/test/noOverlaps.bed -> build/bdist.linux-armv7l/wheel/./deeptoolsintervals/test
2025-09-08T14:55:38,166   copying build/lib.linux-armv7l-cpython-313/deeptoolsintervals/test/GRCh38.84.labels.bed -> build/bdist.linux-armv7l/wheel/./deeptoolsintervals/test
2025-09-08T14:55:38,166   copying build/lib.linux-armv7l-cpython-313/deeptoolsintervals/test/GRCh38.84.gtf.gz -> build/bdist.linux-armv7l/wheel/./deeptoolsintervals/test
2025-09-08T14:55:38,167   copying build/lib.linux-armv7l-cpython-313/deeptoolsintervals/test/GRCh38.84.bed6 -> build/bdist.linux-armv7l/wheel/./deeptoolsintervals/test
2025-09-08T14:55:38,167   copying build/lib.linux-armv7l-cpython-313/deeptoolsintervals/test/GRCh38.84.bed2 -> build/bdist.linux-armv7l/wheel/./deeptoolsintervals/test
2025-09-08T14:55:38,167   copying build/lib.linux-armv7l-cpython-313/deeptoolsintervals/test/GRCh38.84.bed12.bz2 -> build/bdist.linux-armv7l/wheel/./deeptoolsintervals/test
2025-09-08T14:55:38,168   copying build/lib.linux-armv7l-cpython-313/deeptoolsintervals/test/GRCh38.84.bed -> build/bdist.linux-armv7l/wheel/./deeptoolsintervals/test
2025-09-08T14:55:38,168   copying build/lib.linux-armv7l-cpython-313/deeptoolsintervals/test/GRCh38.84.2.gtf.gz -> build/bdist.linux-armv7l/wheel/./deeptoolsintervals/test
2025-09-08T14:55:38,169   copying build/lib.linux-armv7l-cpython-313/deeptoolsintervals/__init__.py -> build/bdist.linux-armv7l/wheel/./deeptoolsintervals
2025-09-08T14:55:38,169   copying build/lib.linux-armv7l-cpython-313/deeptoolsintervals/parse.py -> build/bdist.linux-armv7l/wheel/./deeptoolsintervals
2025-09-08T14:55:38,169   copying build/lib.linux-armv7l-cpython-313/deeptoolsintervals/enrichment.py -> build/bdist.linux-armv7l/wheel/./deeptoolsintervals
2025-09-08T14:55:38,170   running install_egg_info
2025-09-08T14:55:38,247   Copying deeptoolsintervals.egg-info to build/bdist.linux-armv7l/wheel/./deeptoolsintervals-0.1.7-py3.13.egg-info
2025-09-08T14:55:38,249   running install_scripts
2025-09-08T14:55:38,299   creating build/bdist.linux-armv7l/wheel/deeptoolsintervals-0.1.7.dist-info/WHEEL
2025-09-08T14:55:38,300   creating '/tmp/pip-wheel-l12uw6kj/deeptoolsintervals-0.1.7-cp313-cp313-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2025-09-08T14:55:38,301   adding 'deeptoolsintervals/__init__.py'
2025-09-08T14:55:38,302   adding 'deeptoolsintervals/enrichment.py'
2025-09-08T14:55:38,305   adding 'deeptoolsintervals/parse.py'
2025-09-08T14:55:38,332   adding 'deeptoolsintervals/tree.cpython-313-arm-linux-gnueabihf.so'
2025-09-08T14:55:38,334   adding 'deeptoolsintervals/test/GRCh38.84.2.gtf.gz'
2025-09-08T14:55:38,334   adding 'deeptoolsintervals/test/GRCh38.84.bed'
2025-09-08T14:55:38,335   adding 'deeptoolsintervals/test/GRCh38.84.bed12.bz2'
2025-09-08T14:55:38,336   adding 'deeptoolsintervals/test/GRCh38.84.bed2'
2025-09-08T14:55:38,336   adding 'deeptoolsintervals/test/GRCh38.84.bed6'
2025-09-08T14:55:38,337   adding 'deeptoolsintervals/test/GRCh38.84.gtf.gz'
2025-09-08T14:55:38,338   adding 'deeptoolsintervals/test/GRCh38.84.labels.bed'
2025-09-08T14:55:38,338   adding 'deeptoolsintervals/test/noOverlaps.bed'
2025-09-08T14:55:38,339   adding 'deeptoolsintervals/test/strands.bed'
2025-09-08T14:55:38,340   adding 'deeptoolsintervals/tree/findOverlaps.c'
2025-09-08T14:55:38,342   adding 'deeptoolsintervals/tree/gtf.c'
2025-09-08T14:55:38,343   adding 'deeptoolsintervals/tree/gtf.h'
2025-09-08T14:55:38,344   adding 'deeptoolsintervals/tree/hashTable.c'
2025-09-08T14:55:38,345   adding 'deeptoolsintervals/tree/kseq.h'
2025-09-08T14:55:38,346   adding 'deeptoolsintervals/tree/kstring.h'
2025-09-08T14:55:38,347   adding 'deeptoolsintervals/tree/murmur3.c'
2025-09-08T14:55:38,348   adding 'deeptoolsintervals/tree/murmur3.h'
2025-09-08T14:55:38,349   adding 'deeptoolsintervals/tree/tree.c'
2025-09-08T14:55:38,350   adding 'deeptoolsintervals/tree/tree.h'
2025-09-08T14:55:38,351   adding 'deeptoolsintervals-0.1.7.dist-info/METADATA'
2025-09-08T14:55:38,352   adding 'deeptoolsintervals-0.1.7.dist-info/WHEEL'
2025-09-08T14:55:38,352   adding 'deeptoolsintervals-0.1.7.dist-info/top_level.txt'
2025-09-08T14:55:38,353   adding 'deeptoolsintervals-0.1.7.dist-info/RECORD'
2025-09-08T14:55:38,353   removing build/bdist.linux-armv7l/wheel
2025-09-08T14:55:38,502   Building wheel for deeptoolsintervals (setup.py): finished with status 'done'
2025-09-08T14:55:38,504   Created wheel for deeptoolsintervals: filename=deeptoolsintervals-0.1.7-cp313-cp313-linux_armv7l.whl size=109588 sha256=0a4400b612160e75acd24acd1d84f03c0243ee6acf01a4a8ea1b5e987593bfca
2025-09-08T14:55:38,505   Stored in directory: /tmp/pip-ephem-wheel-cache-98t9oko4/wheels/19/2c/47/53f87da7ecca9f719cf8db043c547062a59034f70047120096
2025-09-08T14:55:38,513 Successfully built deeptoolsintervals
2025-09-08T14:55:38,514 Removed build tracker: '/tmp/pip-build-tracker-cox7uubd'