2025-06-03T19:51:45,347 Created temporary directory: /tmp/pip-build-tracker-hhuk47rc
2025-06-03T19:51:45,350 Initialized build tracking at /tmp/pip-build-tracker-hhuk47rc
2025-06-03T19:51:45,351 Created build tracker: /tmp/pip-build-tracker-hhuk47rc
2025-06-03T19:51:45,351 Entered build tracker: /tmp/pip-build-tracker-hhuk47rc
2025-06-03T19:51:45,353 Created temporary directory: /tmp/pip-wheel-9fwb91qd
2025-06-03T19:51:45,377 Created temporary directory: /tmp/pip-ephem-wheel-cache-x0_mwwnu
2025-06-03T19:51:45,478 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2025-06-03T19:51:45,482 2 location(s) to search for versions of proteinshake:
2025-06-03T19:51:45,482 * https://pypi.org/simple/proteinshake/
2025-06-03T19:51:45,482 * https://www.piwheels.org/simple/proteinshake/
2025-06-03T19:51:45,483 Fetching project page and analyzing links: https://pypi.org/simple/proteinshake/
2025-06-03T19:51:45,485 Getting page https://pypi.org/simple/proteinshake/
2025-06-03T19:51:45,488 Found index url https://pypi.org/simple/
2025-06-03T19:51:45,827 Fetched page https://pypi.org/simple/proteinshake/ as application/vnd.pypi.simple.v1+json
2025-06-03T19:51:45,834   Skipping link: No binaries permitted for proteinshake: https://files.pythonhosted.org/packages/a5/59/a8fe5ed6dd24b2ae0e1cb8fed33fcef955a43a2a20e95f3842fee0f858cf/proteinshake-0.0.1-py3-none-any.whl (from https://pypi.org/simple/proteinshake/) (requires-python:>=3.7)
2025-06-03T19:51:45,836   Found link https://files.pythonhosted.org/packages/d1/d9/aa225eacb84eceb9ac0f658a924b4b1846eab7dae616ffc619d6ca89e564/proteinshake-0.0.1.tar.gz (from https://pypi.org/simple/proteinshake/) (requires-python:>=3.7), version: 0.0.1
2025-06-03T19:51:45,837   Skipping link: No binaries permitted for proteinshake: https://files.pythonhosted.org/packages/bb/7a/3ebc561a882754ecb77bde6bb92b5039e76fb31c9489bebea6efa159da36/proteinshake-0.0.2-py3-none-any.whl (from https://pypi.org/simple/proteinshake/) (requires-python:>=3.7)
2025-06-03T19:51:45,838   Found link https://files.pythonhosted.org/packages/c9/53/f03b9179a868217082129e53c1d7c6ec25f0515762f1d657d827307a5454/proteinshake-0.0.2.tar.gz (from https://pypi.org/simple/proteinshake/) (requires-python:>=3.7), version: 0.0.2
2025-06-03T19:51:45,840   Skipping link: No binaries permitted for proteinshake: https://files.pythonhosted.org/packages/07/f3/43877c9feb864eb71d82be69d5621c5eba4073502c2f3d71fd902e4096b8/proteinshake-0.0.3-py3-none-any.whl (from https://pypi.org/simple/proteinshake/) (requires-python:>=3.7)
2025-06-03T19:51:45,841   Found link https://files.pythonhosted.org/packages/67/ea/c47a75b89e64b30a2914cff747905a5a2123d88e03c1495ca3bf8a092399/proteinshake-0.0.3.tar.gz (from https://pypi.org/simple/proteinshake/) (requires-python:>=3.7), version: 0.0.3
2025-06-03T19:51:45,843   Skipping link: No binaries permitted for proteinshake: https://files.pythonhosted.org/packages/95/5b/9782a06ae177f359ae1292e39a954387d9453bd0ec76acfff729b9fe421d/proteinshake-0.1.0-py3-none-any.whl (from https://pypi.org/simple/proteinshake/) (requires-python:>=3.7)
2025-06-03T19:51:45,844   Found link https://files.pythonhosted.org/packages/e0/f1/f707e6bb72c0b2ee8db52887640713f9724fdb35d4c193801bc5706f5de3/proteinshake-0.1.0.tar.gz (from https://pypi.org/simple/proteinshake/) (requires-python:>=3.7), version: 0.1.0
2025-06-03T19:51:45,845   Skipping link: No binaries permitted for proteinshake: https://files.pythonhosted.org/packages/52/be/25f55cbfc0d1cc1db86a2b7d55686a7418bcead4a66976fd0960a0781390/proteinshake-0.2.1-py3-none-any.whl (from https://pypi.org/simple/proteinshake/) (requires-python:>=3.7)
2025-06-03T19:51:45,847   Found link https://files.pythonhosted.org/packages/7f/22/9732d068fb9427e5acf886c8c7e5fcb5095728fcbaa8558d0fd854f4eb4d/proteinshake-0.2.1.tar.gz (from https://pypi.org/simple/proteinshake/) (requires-python:>=3.7), version: 0.2.1
2025-06-03T19:51:45,848   Skipping link: No binaries permitted for proteinshake: https://files.pythonhosted.org/packages/79/f9/1520fb086bb98851fa6dfd505559f4ce9a3669500b159e10d53a424f7043/proteinshake-0.3.3-py3-none-any.whl (from https://pypi.org/simple/proteinshake/) (requires-python:>=3.7)
2025-06-03T19:51:45,849   Found link https://files.pythonhosted.org/packages/15/21/2489347d94b9a7a4c0dbb08bf3e2de4e7e71ff814ea604b2f494f4e6c5d8/proteinshake-0.3.3.tar.gz (from https://pypi.org/simple/proteinshake/) (requires-python:>=3.7), version: 0.3.3
2025-06-03T19:51:45,851   Skipping link: No binaries permitted for proteinshake: https://files.pythonhosted.org/packages/3d/3c/a9ab30988a57e8abd37fe0bfcd92d72980e1b9b2b55e21df120eb4e4818a/proteinshake-0.3.7-py3-none-any.whl (from https://pypi.org/simple/proteinshake/) (requires-python:>=3.7)
2025-06-03T19:51:45,851   Found link https://files.pythonhosted.org/packages/a7/5c/a60412a4d0fb8608a89d1c3599fbb123b031568b9159e27925a6f9b5dd04/proteinshake-0.3.7.tar.gz (from https://pypi.org/simple/proteinshake/) (requires-python:>=3.7), version: 0.3.7
2025-06-03T19:51:45,853   Skipping link: No binaries permitted for proteinshake: https://files.pythonhosted.org/packages/eb/04/df102757f20a5f73722d2f9406581400bdc86f6a0753201bcbda1dc33118/proteinshake-0.3.8-py3-none-any.whl (from https://pypi.org/simple/proteinshake/) (requires-python:>=3.7)
2025-06-03T19:51:45,854   Found link https://files.pythonhosted.org/packages/f8/c4/cb58349aeaf80a33b8cd177d045ca8dd36c9b0b1e59d98c79146575bb55c/proteinshake-0.3.8.tar.gz (from https://pypi.org/simple/proteinshake/) (requires-python:>=3.7), version: 0.3.8
2025-06-03T19:51:45,855   Skipping link: No binaries permitted for proteinshake: https://files.pythonhosted.org/packages/01/af/0593993f9d8323bf71a5df53d105f4ed01d49c93781d627707aa761263eb/proteinshake-0.3.9-py3-none-any.whl (from https://pypi.org/simple/proteinshake/) (requires-python:>=3.7)
2025-06-03T19:51:45,856   Found link https://files.pythonhosted.org/packages/01/f3/4ce96d888eabb6aab564caaf0fbd0b1047bf8faa4b8137849b659320b6a0/proteinshake-0.3.9.tar.gz (from https://pypi.org/simple/proteinshake/) (requires-python:>=3.7), version: 0.3.9
2025-06-03T19:51:45,857   Skipping link: No binaries permitted for proteinshake: https://files.pythonhosted.org/packages/e1/0e/6fdc82ab85f0529db584e8a3d1464aa02df2c085f2729c9017ef59edeea1/proteinshake-0.3.11-py3-none-any.whl (from https://pypi.org/simple/proteinshake/) (requires-python:>=3.7)
2025-06-03T19:51:45,859   Found link https://files.pythonhosted.org/packages/69/53/6919d9d8e61d5d543436bc374299011ca3c116ab132f5ce3907b01f21607/proteinshake-0.3.11.tar.gz (from https://pypi.org/simple/proteinshake/) (requires-python:>=3.7), version: 0.3.11
2025-06-03T19:51:45,860   Skipping link: No binaries permitted for proteinshake: https://files.pythonhosted.org/packages/e5/7b/78b291ba18bd967e602e8e7f7431816cbc07625b4974e2172d7c8c0e8915/proteinshake-0.3.12-py3-none-any.whl (from https://pypi.org/simple/proteinshake/) (requires-python:>=3.7)
2025-06-03T19:51:45,861   Found link https://files.pythonhosted.org/packages/ce/29/1958af783d06155fb671c63f56e46b832e90efd139915fa0dab3ba667ae5/proteinshake-0.3.12.tar.gz (from https://pypi.org/simple/proteinshake/) (requires-python:>=3.7), version: 0.3.12
2025-06-03T19:51:45,862   Skipping link: No binaries permitted for proteinshake: https://files.pythonhosted.org/packages/30/c7/0fcb736f144ca938cd1af39dea8943de7131039f8b5c044145959054c786/proteinshake-0.3.13-py3-none-any.whl (from https://pypi.org/simple/proteinshake/) (requires-python:>=3.7)
2025-06-03T19:51:45,864   Found link https://files.pythonhosted.org/packages/c1/25/f1400a19667a8a41e316d8eee03f889c90ccd6082abcf8c9145ca9158c1e/proteinshake-0.3.13.tar.gz (from https://pypi.org/simple/proteinshake/) (requires-python:>=3.7), version: 0.3.13
2025-06-03T19:51:45,865   Skipping link: No binaries permitted for proteinshake: https://files.pythonhosted.org/packages/87/97/d79033bc4af0e0af6b99e3407a5e2f19b39d4c9c26e025e25fea51b72190/proteinshake-0.3.14-py3-none-any.whl (from https://pypi.org/simple/proteinshake/) (requires-python:>=3.7)
2025-06-03T19:51:45,866   Found link https://files.pythonhosted.org/packages/bf/9b/340417a7993be9497c1b669ee6f2dbc8820fc0b7731e0361ae71ac73345b/proteinshake-0.3.14.tar.gz (from https://pypi.org/simple/proteinshake/) (requires-python:>=3.7), version: 0.3.14
2025-06-03T19:51:45,868   Skipping link: No binaries permitted for proteinshake: https://files.pythonhosted.org/packages/20/6c/0dbdd01e307936768ba5312a729aa3e29c672880ee5d5c21cb32959d1a9c/proteinshake-0.3.16-py3-none-any.whl (from https://pypi.org/simple/proteinshake/) (requires-python:>=3.7)
2025-06-03T19:51:45,870   Found link https://files.pythonhosted.org/packages/be/ee/be0675c3d8d1def05490bc2b9d03671edb13693319501a6246e3713e5a7f/proteinshake-0.3.16.tar.gz (from https://pypi.org/simple/proteinshake/) (requires-python:>=3.7), version: 0.3.16
2025-06-03T19:51:45,871 Fetching project page and analyzing links: https://www.piwheels.org/simple/proteinshake/
2025-06-03T19:51:45,872 Getting page https://www.piwheels.org/simple/proteinshake/
2025-06-03T19:51:45,874 Found index url https://www.piwheels.org/simple/
2025-06-03T19:51:46,121 WARNING: Retrying (Retry(total=4, connect=None, read=None, redirect=None, status=None)) after connection broken by 'SSLError(SSLCertVerificationError(1, '[SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed: certificate is not yet valid (_ssl.c:992)'))': /simple/proteinshake/
2025-06-03T19:51:46,922 WARNING: Retrying (Retry(total=3, connect=None, read=None, redirect=None, status=None)) after connection broken by 'SSLError(SSLCertVerificationError(1, '[SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed: certificate is not yet valid (_ssl.c:992)'))': /simple/proteinshake/
2025-06-03T19:51:48,252 WARNING: Retrying (Retry(total=2, connect=None, read=None, redirect=None, status=None)) after connection broken by 'SSLError(SSLCertVerificationError(1, '[SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed: certificate is not yet valid (_ssl.c:992)'))': /simple/proteinshake/
2025-06-03T19:51:50,546 WARNING: Retrying (Retry(total=1, connect=None, read=None, redirect=None, status=None)) after connection broken by 'SSLError(SSLCertVerificationError(1, '[SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed: certificate is not yet valid (_ssl.c:992)'))': /simple/proteinshake/
2025-06-03T19:51:54,830 WARNING: Retrying (Retry(total=0, connect=None, read=None, redirect=None, status=None)) after connection broken by 'SSLError(SSLCertVerificationError(1, '[SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed: certificate is not yet valid (_ssl.c:992)'))': /simple/proteinshake/
2025-06-03T19:51:55,162 Could not fetch URL https://www.piwheels.org/simple/proteinshake/: There was a problem confirming the ssl certificate: HTTPSConnectionPool(host='www.piwheels.org', port=443): Max retries exceeded with url: /simple/proteinshake/ (Caused by SSLError(SSLCertVerificationError(1, '[SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed: certificate is not yet valid (_ssl.c:992)'))) - skipping
2025-06-03T19:51:55,164 Skipping link: not a file: https://www.piwheels.org/simple/proteinshake/
2025-06-03T19:51:55,165 Skipping link: not a file: https://pypi.org/simple/proteinshake/
2025-06-03T19:51:55,197 Given no hashes to check 1 links for project 'proteinshake': discarding no candidates
2025-06-03T19:51:55,200 Collecting proteinshake==0.3.16
2025-06-03T19:51:55,219   Created temporary directory: /tmp/pip-unpack-g_cr893y
2025-06-03T19:51:55,588   Downloading proteinshake-0.3.16.tar.gz (48 kB)
2025-06-03T19:51:55,955   Added proteinshake==0.3.16 from https://files.pythonhosted.org/packages/be/ee/be0675c3d8d1def05490bc2b9d03671edb13693319501a6246e3713e5a7f/proteinshake-0.3.16.tar.gz to build tracker '/tmp/pip-build-tracker-hhuk47rc'
2025-06-03T19:51:55,961   Running setup.py (path:/tmp/pip-wheel-9fwb91qd/proteinshake_f2abe01ba0584d519183b153e18697fb/setup.py) egg_info for package proteinshake
2025-06-03T19:51:55,963   Created temporary directory: /tmp/pip-pip-egg-info-aiq11txi
2025-06-03T19:51:55,964   Preparing metadata (setup.py): started
2025-06-03T19:51:55,966   Running command python setup.py egg_info
2025-06-03T19:51:57,241   /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated.
2025-06-03T19:51:57,241   !!

2025-06-03T19:51:57,244           ********************************************************************************
2025-06-03T19:51:57,245           Please consider removing the following classifiers in favor of a SPDX license expression:

2025-06-03T19:51:57,247           License :: OSI Approved :: BSD License

2025-06-03T19:51:57,249           See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details.
2025-06-03T19:51:57,250           ********************************************************************************

2025-06-03T19:51:57,252   !!
2025-06-03T19:51:57,253     self._finalize_license_expression()
2025-06-03T19:51:58,015   running egg_info
2025-06-03T19:51:58,073   creating /tmp/pip-pip-egg-info-aiq11txi/proteinshake.egg-info
2025-06-03T19:51:58,074   writing /tmp/pip-pip-egg-info-aiq11txi/proteinshake.egg-info/PKG-INFO
2025-06-03T19:51:58,080   writing dependency_links to /tmp/pip-pip-egg-info-aiq11txi/proteinshake.egg-info/dependency_links.txt
2025-06-03T19:51:58,084   writing requirements to /tmp/pip-pip-egg-info-aiq11txi/proteinshake.egg-info/requires.txt
2025-06-03T19:51:58,086   writing top-level names to /tmp/pip-pip-egg-info-aiq11txi/proteinshake.egg-info/top_level.txt
2025-06-03T19:51:58,089   writing manifest file '/tmp/pip-pip-egg-info-aiq11txi/proteinshake.egg-info/SOURCES.txt'
2025-06-03T19:51:58,311   reading manifest file '/tmp/pip-pip-egg-info-aiq11txi/proteinshake.egg-info/SOURCES.txt'
2025-06-03T19:51:58,314   adding license file 'LICENSE'
2025-06-03T19:51:58,321   writing manifest file '/tmp/pip-pip-egg-info-aiq11txi/proteinshake.egg-info/SOURCES.txt'
2025-06-03T19:51:58,576   Preparing metadata (setup.py): finished with status 'done'
2025-06-03T19:51:58,583   Source in /tmp/pip-wheel-9fwb91qd/proteinshake_f2abe01ba0584d519183b153e18697fb has version 0.3.16, which satisfies requirement proteinshake==0.3.16 from https://files.pythonhosted.org/packages/be/ee/be0675c3d8d1def05490bc2b9d03671edb13693319501a6246e3713e5a7f/proteinshake-0.3.16.tar.gz
2025-06-03T19:51:58,585   Removed proteinshake==0.3.16 from https://files.pythonhosted.org/packages/be/ee/be0675c3d8d1def05490bc2b9d03671edb13693319501a6246e3713e5a7f/proteinshake-0.3.16.tar.gz from build tracker '/tmp/pip-build-tracker-hhuk47rc'
2025-06-03T19:51:58,617 Created temporary directory: /tmp/pip-unpack-lh5h_8ar
2025-06-03T19:51:58,619 Created temporary directory: /tmp/pip-unpack-g3fptkz_
2025-06-03T19:51:58,620 Building wheels for collected packages: proteinshake
2025-06-03T19:51:58,627   Created temporary directory: /tmp/pip-wheel-zhd3t6mc
2025-06-03T19:51:58,629   DEPRECATION: Building 'proteinshake' 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 'proteinshake'. Discussion can be found at https://github.com/pypa/pip/issues/6334
2025-06-03T19:51:58,631   Building wheel for proteinshake (setup.py): started
2025-06-03T19:51:58,637   Destination directory: /tmp/pip-wheel-zhd3t6mc
2025-06-03T19:51:58,638   Running command python setup.py bdist_wheel
2025-06-03T19:51:59,694   /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated.
2025-06-03T19:51:59,695   !!

2025-06-03T19:51:59,697           ********************************************************************************
2025-06-03T19:51:59,698           Please consider removing the following classifiers in favor of a SPDX license expression:

2025-06-03T19:51:59,701           License :: OSI Approved :: BSD License

2025-06-03T19:51:59,703           See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details.
2025-06-03T19:51:59,704           ********************************************************************************

2025-06-03T19:51:59,707   !!
2025-06-03T19:51:59,708     self._finalize_license_expression()
2025-06-03T19:52:00,277   running bdist_wheel
2025-06-03T19:52:00,670   running build
2025-06-03T19:52:00,671   running build_py
2025-06-03T19:52:00,738   creating build/lib/tests
2025-06-03T19:52:00,742   copying tests/test_tasks.py -> build/lib/tests
2025-06-03T19:52:00,746   copying tests/test_datasets.py -> build/lib/tests
2025-06-03T19:52:00,749   copying tests/__init__.py -> build/lib/tests
2025-06-03T19:52:00,752   copying tests/test_preprocess.py -> build/lib/tests
2025-06-03T19:52:00,756   copying tests/test_frameworks.py -> build/lib/tests
2025-06-03T19:52:00,760   copying tests/test_transforms.py -> build/lib/tests
2025-06-03T19:52:00,764   creating build/lib/proteinshake
2025-06-03T19:52:00,766   copying proteinshake/__init__.py -> build/lib/proteinshake
2025-06-03T19:52:00,770   creating build/lib/proteinshake/transforms
2025-06-03T19:52:00,771   copying proteinshake/transforms/__init__.py -> build/lib/proteinshake/transforms
2025-06-03T19:52:00,775   copying proteinshake/transforms/transforms.py -> build/lib/proteinshake/transforms
2025-06-03T19:52:00,779   copying proteinshake/transforms/coords.py -> build/lib/proteinshake/transforms
2025-06-03T19:52:00,783   creating build/lib/proteinshake/datasets
2025-06-03T19:52:00,785   copying proteinshake/datasets/enzyme_commission.py -> build/lib/proteinshake/datasets
2025-06-03T19:52:00,789   copying proteinshake/datasets/protein_ligand_decoys.py -> build/lib/proteinshake/datasets
2025-06-03T19:52:00,792   copying proteinshake/datasets/rcsb.py -> build/lib/proteinshake/datasets
2025-06-03T19:52:00,796   copying proteinshake/datasets/alphafold.py -> build/lib/proteinshake/datasets
2025-06-03T19:52:00,800   copying proteinshake/datasets/__init__.py -> build/lib/proteinshake/datasets
2025-06-03T19:52:00,804   copying proteinshake/datasets/gene_ontology.py -> build/lib/proteinshake/datasets
2025-06-03T19:52:00,808   copying proteinshake/datasets/dataset.py -> build/lib/proteinshake/datasets
2025-06-03T19:52:00,813   copying proteinshake/datasets/protein_family.py -> build/lib/proteinshake/datasets
2025-06-03T19:52:00,816   copying proteinshake/datasets/protein_protein_interface.py -> build/lib/proteinshake/datasets
2025-06-03T19:52:00,820   copying proteinshake/datasets/scop.py -> build/lib/proteinshake/datasets
2025-06-03T19:52:00,824   copying proteinshake/datasets/tm_align.py -> build/lib/proteinshake/datasets
2025-06-03T19:52:00,829   copying proteinshake/datasets/protein_ligand_interface.py -> build/lib/proteinshake/datasets
2025-06-03T19:52:00,833   creating build/lib/proteinshake/representations
2025-06-03T19:52:00,835   copying proteinshake/representations/voxel.py -> build/lib/proteinshake/representations
2025-06-03T19:52:00,839   copying proteinshake/representations/point.py -> build/lib/proteinshake/representations
2025-06-03T19:52:00,843   copying proteinshake/representations/__init__.py -> build/lib/proteinshake/representations
2025-06-03T19:52:00,846   copying proteinshake/representations/graph.py -> build/lib/proteinshake/representations
2025-06-03T19:52:00,851   creating build/lib/proteinshake/utils
2025-06-03T19:52:00,852   copying proteinshake/utils/similarity.py -> build/lib/proteinshake/utils
2025-06-03T19:52:00,856   copying proteinshake/utils/__init__.py -> build/lib/proteinshake/utils
2025-06-03T19:52:00,859   copying proteinshake/utils/uniprot.py -> build/lib/proteinshake/utils
2025-06-03T19:52:00,863   copying proteinshake/utils/embeddings.py -> build/lib/proteinshake/utils
2025-06-03T19:52:00,866   copying proteinshake/utils/io.py -> build/lib/proteinshake/utils
2025-06-03T19:52:00,871   creating build/lib/proteinshake/frameworks
2025-06-03T19:52:00,873   copying proteinshake/frameworks/pyg.py -> build/lib/proteinshake/frameworks
2025-06-03T19:52:00,877   copying proteinshake/frameworks/nx.py -> build/lib/proteinshake/frameworks
2025-06-03T19:52:00,881   copying proteinshake/frameworks/__init__.py -> build/lib/proteinshake/frameworks
2025-06-03T19:52:00,884   copying proteinshake/frameworks/dataset.py -> build/lib/proteinshake/frameworks
2025-06-03T19:52:00,888   copying proteinshake/frameworks/np.py -> build/lib/proteinshake/frameworks
2025-06-03T19:52:00,891   copying proteinshake/frameworks/dgl.py -> build/lib/proteinshake/frameworks
2025-06-03T19:52:00,894   copying proteinshake/frameworks/tf.py -> build/lib/proteinshake/frameworks
2025-06-03T19:52:00,898   copying proteinshake/frameworks/torch.py -> build/lib/proteinshake/frameworks
2025-06-03T19:52:00,902   creating build/lib/proteinshake/tasks
2025-06-03T19:52:00,904   copying proteinshake/tasks/pfam_task.py -> build/lib/proteinshake/tasks
2025-06-03T19:52:00,908   copying proteinshake/tasks/virtual_screen.py -> build/lib/proteinshake/tasks
2025-06-03T19:52:00,911   copying proteinshake/tasks/structure_similarity.py -> build/lib/proteinshake/tasks
2025-06-03T19:52:00,915   copying proteinshake/tasks/__init__.py -> build/lib/proteinshake/tasks
2025-06-03T19:52:00,918   copying proteinshake/tasks/gene_ontology.py -> build/lib/proteinshake/tasks
2025-06-03T19:52:00,921   copying proteinshake/tasks/binding_site_detection.py -> build/lib/proteinshake/tasks
2025-06-03T19:52:00,924   copying proteinshake/tasks/dummy.py -> build/lib/proteinshake/tasks
2025-06-03T19:52:00,928   copying proteinshake/tasks/protein_protein_interface.py -> build/lib/proteinshake/tasks
2025-06-03T19:52:00,931   copying proteinshake/tasks/task.py -> build/lib/proteinshake/tasks
2025-06-03T19:52:00,935   copying proteinshake/tasks/ligand_affinity.py -> build/lib/proteinshake/tasks
2025-06-03T19:52:00,940   copying proteinshake/tasks/enzyme_class.py -> build/lib/proteinshake/tasks
2025-06-03T19:52:00,944   copying proteinshake/tasks/structure_search.py -> build/lib/proteinshake/tasks
2025-06-03T19:52:00,949   copying proteinshake/tasks/structural_class.py -> build/lib/proteinshake/tasks
2025-06-03T19:52:00,952   running egg_info
2025-06-03T19:52:01,012   writing proteinshake.egg-info/PKG-INFO
2025-06-03T19:52:01,019   writing dependency_links to proteinshake.egg-info/dependency_links.txt
2025-06-03T19:52:01,023   writing requirements to proteinshake.egg-info/requires.txt
2025-06-03T19:52:01,026   writing top-level names to proteinshake.egg-info/top_level.txt
2025-06-03T19:52:01,114   reading manifest file 'proteinshake.egg-info/SOURCES.txt'
2025-06-03T19:52:01,133   adding license file 'LICENSE'
2025-06-03T19:52:01,140   writing manifest file 'proteinshake.egg-info/SOURCES.txt'
2025-06-03T19:52:01,221   /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:90: SetuptoolsDeprecationWarning: setup.py install is deprecated.
2025-06-03T19:52:01,222   !!

2025-06-03T19:52:01,224           ********************************************************************************
2025-06-03T19:52:01,225           Please avoid running ``setup.py`` directly.
2025-06-03T19:52:01,226           Instead, use pypa/build, pypa/installer or other
2025-06-03T19:52:01,227           standards-based tools.

2025-06-03T19:52:01,229           By 2025-Oct-31, you need to update your project and remove deprecated calls
2025-06-03T19:52:01,230           or your builds will no longer be supported.

2025-06-03T19:52:01,232           See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details.
2025-06-03T19:52:01,233           ********************************************************************************

2025-06-03T19:52:01,235   !!
2025-06-03T19:52:01,236     self.initialize_options()
2025-06-03T19:52:01,301   installing to build/bdist.linux-armv7l/wheel
2025-06-03T19:52:01,317   running install
2025-06-03T19:52:01,368   running install_lib
2025-06-03T19:52:01,467   creating build/bdist.linux-armv7l/wheel
2025-06-03T19:52:01,471   creating build/bdist.linux-armv7l/wheel/tests
2025-06-03T19:52:01,473   copying build/lib/tests/test_tasks.py -> build/bdist.linux-armv7l/wheel/./tests
2025-06-03T19:52:01,477   copying build/lib/tests/test_datasets.py -> build/bdist.linux-armv7l/wheel/./tests
2025-06-03T19:52:01,480   copying build/lib/tests/__init__.py -> build/bdist.linux-armv7l/wheel/./tests
2025-06-03T19:52:01,483   copying build/lib/tests/test_preprocess.py -> build/bdist.linux-armv7l/wheel/./tests
2025-06-03T19:52:01,488   copying build/lib/tests/test_frameworks.py -> build/bdist.linux-armv7l/wheel/./tests
2025-06-03T19:52:01,491   copying build/lib/tests/test_transforms.py -> build/bdist.linux-armv7l/wheel/./tests
2025-06-03T19:52:01,496   creating build/bdist.linux-armv7l/wheel/proteinshake
2025-06-03T19:52:01,499   creating build/bdist.linux-armv7l/wheel/proteinshake/transforms
2025-06-03T19:52:01,501   copying build/lib/proteinshake/transforms/__init__.py -> build/bdist.linux-armv7l/wheel/./proteinshake/transforms
2025-06-03T19:52:01,504   copying build/lib/proteinshake/transforms/transforms.py -> build/bdist.linux-armv7l/wheel/./proteinshake/transforms
2025-06-03T19:52:01,507   copying build/lib/proteinshake/transforms/coords.py -> build/bdist.linux-armv7l/wheel/./proteinshake/transforms
2025-06-03T19:52:01,511   copying build/lib/proteinshake/__init__.py -> build/bdist.linux-armv7l/wheel/./proteinshake
2025-06-03T19:52:01,514   creating build/bdist.linux-armv7l/wheel/proteinshake/datasets
2025-06-03T19:52:01,516   copying build/lib/proteinshake/datasets/enzyme_commission.py -> build/bdist.linux-armv7l/wheel/./proteinshake/datasets
2025-06-03T19:52:01,519   copying build/lib/proteinshake/datasets/protein_ligand_decoys.py -> build/bdist.linux-armv7l/wheel/./proteinshake/datasets
2025-06-03T19:52:01,523   copying build/lib/proteinshake/datasets/rcsb.py -> build/bdist.linux-armv7l/wheel/./proteinshake/datasets
2025-06-03T19:52:01,527   copying build/lib/proteinshake/datasets/alphafold.py -> build/bdist.linux-armv7l/wheel/./proteinshake/datasets
2025-06-03T19:52:01,531   copying build/lib/proteinshake/datasets/__init__.py -> build/bdist.linux-armv7l/wheel/./proteinshake/datasets
2025-06-03T19:52:01,535   copying build/lib/proteinshake/datasets/gene_ontology.py -> build/bdist.linux-armv7l/wheel/./proteinshake/datasets
2025-06-03T19:52:01,538   copying build/lib/proteinshake/datasets/dataset.py -> build/bdist.linux-armv7l/wheel/./proteinshake/datasets
2025-06-03T19:52:01,542   copying build/lib/proteinshake/datasets/protein_family.py -> build/bdist.linux-armv7l/wheel/./proteinshake/datasets
2025-06-03T19:52:01,545   copying build/lib/proteinshake/datasets/protein_protein_interface.py -> build/bdist.linux-armv7l/wheel/./proteinshake/datasets
2025-06-03T19:52:01,549   copying build/lib/proteinshake/datasets/scop.py -> build/bdist.linux-armv7l/wheel/./proteinshake/datasets
2025-06-03T19:52:01,553   copying build/lib/proteinshake/datasets/tm_align.py -> build/bdist.linux-armv7l/wheel/./proteinshake/datasets
2025-06-03T19:52:01,557   copying build/lib/proteinshake/datasets/protein_ligand_interface.py -> build/bdist.linux-armv7l/wheel/./proteinshake/datasets
2025-06-03T19:52:01,562   creating build/bdist.linux-armv7l/wheel/proteinshake/representations
2025-06-03T19:52:01,564   copying build/lib/proteinshake/representations/voxel.py -> build/bdist.linux-armv7l/wheel/./proteinshake/representations
2025-06-03T19:52:01,568   copying build/lib/proteinshake/representations/point.py -> build/bdist.linux-armv7l/wheel/./proteinshake/representations
2025-06-03T19:52:01,572   copying build/lib/proteinshake/representations/__init__.py -> build/bdist.linux-armv7l/wheel/./proteinshake/representations
2025-06-03T19:52:01,575   copying build/lib/proteinshake/representations/graph.py -> build/bdist.linux-armv7l/wheel/./proteinshake/representations
2025-06-03T19:52:01,579   creating build/bdist.linux-armv7l/wheel/proteinshake/utils
2025-06-03T19:52:01,581   copying build/lib/proteinshake/utils/similarity.py -> build/bdist.linux-armv7l/wheel/./proteinshake/utils
2025-06-03T19:52:01,585   copying build/lib/proteinshake/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./proteinshake/utils
2025-06-03T19:52:01,588   copying build/lib/proteinshake/utils/uniprot.py -> build/bdist.linux-armv7l/wheel/./proteinshake/utils
2025-06-03T19:52:01,592   copying build/lib/proteinshake/utils/embeddings.py -> build/bdist.linux-armv7l/wheel/./proteinshake/utils
2025-06-03T19:52:01,595   copying build/lib/proteinshake/utils/io.py -> build/bdist.linux-armv7l/wheel/./proteinshake/utils
2025-06-03T19:52:01,600   creating build/bdist.linux-armv7l/wheel/proteinshake/frameworks
2025-06-03T19:52:01,602   copying build/lib/proteinshake/frameworks/pyg.py -> build/bdist.linux-armv7l/wheel/./proteinshake/frameworks
2025-06-03T19:52:01,605   copying build/lib/proteinshake/frameworks/nx.py -> build/bdist.linux-armv7l/wheel/./proteinshake/frameworks
2025-06-03T19:52:01,609   copying build/lib/proteinshake/frameworks/__init__.py -> build/bdist.linux-armv7l/wheel/./proteinshake/frameworks
2025-06-03T19:52:01,612   copying build/lib/proteinshake/frameworks/dataset.py -> build/bdist.linux-armv7l/wheel/./proteinshake/frameworks
2025-06-03T19:52:01,616   copying build/lib/proteinshake/frameworks/np.py -> build/bdist.linux-armv7l/wheel/./proteinshake/frameworks
2025-06-03T19:52:01,619   copying build/lib/proteinshake/frameworks/dgl.py -> build/bdist.linux-armv7l/wheel/./proteinshake/frameworks
2025-06-03T19:52:01,623   copying build/lib/proteinshake/frameworks/tf.py -> build/bdist.linux-armv7l/wheel/./proteinshake/frameworks
2025-06-03T19:52:01,627   copying build/lib/proteinshake/frameworks/torch.py -> build/bdist.linux-armv7l/wheel/./proteinshake/frameworks
2025-06-03T19:52:01,631   creating build/bdist.linux-armv7l/wheel/proteinshake/tasks
2025-06-03T19:52:01,633   copying build/lib/proteinshake/tasks/pfam_task.py -> build/bdist.linux-armv7l/wheel/./proteinshake/tasks
2025-06-03T19:52:01,637   copying build/lib/proteinshake/tasks/virtual_screen.py -> build/bdist.linux-armv7l/wheel/./proteinshake/tasks
2025-06-03T19:52:01,641   copying build/lib/proteinshake/tasks/structure_similarity.py -> build/bdist.linux-armv7l/wheel/./proteinshake/tasks
2025-06-03T19:52:01,644   copying build/lib/proteinshake/tasks/__init__.py -> build/bdist.linux-armv7l/wheel/./proteinshake/tasks
2025-06-03T19:52:01,648   copying build/lib/proteinshake/tasks/gene_ontology.py -> build/bdist.linux-armv7l/wheel/./proteinshake/tasks
2025-06-03T19:52:01,651   copying build/lib/proteinshake/tasks/binding_site_detection.py -> build/bdist.linux-armv7l/wheel/./proteinshake/tasks
2025-06-03T19:52:01,654   copying build/lib/proteinshake/tasks/dummy.py -> build/bdist.linux-armv7l/wheel/./proteinshake/tasks
2025-06-03T19:52:01,658   copying build/lib/proteinshake/tasks/protein_protein_interface.py -> build/bdist.linux-armv7l/wheel/./proteinshake/tasks
2025-06-03T19:52:01,662   copying build/lib/proteinshake/tasks/task.py -> build/bdist.linux-armv7l/wheel/./proteinshake/tasks
2025-06-03T19:52:01,665   copying build/lib/proteinshake/tasks/ligand_affinity.py -> build/bdist.linux-armv7l/wheel/./proteinshake/tasks
2025-06-03T19:52:01,669   copying build/lib/proteinshake/tasks/enzyme_class.py -> build/bdist.linux-armv7l/wheel/./proteinshake/tasks
2025-06-03T19:52:01,672   copying build/lib/proteinshake/tasks/structure_search.py -> build/bdist.linux-armv7l/wheel/./proteinshake/tasks
2025-06-03T19:52:01,675   copying build/lib/proteinshake/tasks/structural_class.py -> build/bdist.linux-armv7l/wheel/./proteinshake/tasks
2025-06-03T19:52:01,678   running install_egg_info
2025-06-03T19:52:01,756   Copying proteinshake.egg-info to build/bdist.linux-armv7l/wheel/./proteinshake-0.3.16-py3.11.egg-info
2025-06-03T19:52:01,775   running install_scripts
2025-06-03T19:52:01,796   creating build/bdist.linux-armv7l/wheel/proteinshake-0.3.16.dist-info/WHEEL
2025-06-03T19:52:01,801   creating '/tmp/pip-wheel-zhd3t6mc/proteinshake-0.3.16-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2025-06-03T19:52:01,805   adding 'proteinshake/__init__.py'
2025-06-03T19:52:01,808   adding 'proteinshake/datasets/__init__.py'
2025-06-03T19:52:01,811   adding 'proteinshake/datasets/alphafold.py'
2025-06-03T19:52:01,815   adding 'proteinshake/datasets/dataset.py'
2025-06-03T19:52:01,818   adding 'proteinshake/datasets/enzyme_commission.py'
2025-06-03T19:52:01,821   adding 'proteinshake/datasets/gene_ontology.py'
2025-06-03T19:52:01,823   adding 'proteinshake/datasets/protein_family.py'
2025-06-03T19:52:01,826   adding 'proteinshake/datasets/protein_ligand_decoys.py'
2025-06-03T19:52:01,828   adding 'proteinshake/datasets/protein_ligand_interface.py'
2025-06-03T19:52:01,831   adding 'proteinshake/datasets/protein_protein_interface.py'
2025-06-03T19:52:01,833   adding 'proteinshake/datasets/rcsb.py'
2025-06-03T19:52:01,835   adding 'proteinshake/datasets/scop.py'
2025-06-03T19:52:01,837   adding 'proteinshake/datasets/tm_align.py'
2025-06-03T19:52:01,840   adding 'proteinshake/frameworks/__init__.py'
2025-06-03T19:52:01,842   adding 'proteinshake/frameworks/dataset.py'
2025-06-03T19:52:01,843   adding 'proteinshake/frameworks/dgl.py'
2025-06-03T19:52:01,845   adding 'proteinshake/frameworks/np.py'
2025-06-03T19:52:01,847   adding 'proteinshake/frameworks/nx.py'
2025-06-03T19:52:01,849   adding 'proteinshake/frameworks/pyg.py'
2025-06-03T19:52:01,851   adding 'proteinshake/frameworks/tf.py'
2025-06-03T19:52:01,852   adding 'proteinshake/frameworks/torch.py'
2025-06-03T19:52:01,855   adding 'proteinshake/representations/__init__.py'
2025-06-03T19:52:01,857   adding 'proteinshake/representations/graph.py'
2025-06-03T19:52:01,859   adding 'proteinshake/representations/point.py'
2025-06-03T19:52:01,861   adding 'proteinshake/representations/voxel.py'
2025-06-03T19:52:01,864   adding 'proteinshake/tasks/__init__.py'
2025-06-03T19:52:01,866   adding 'proteinshake/tasks/binding_site_detection.py'
2025-06-03T19:52:01,868   adding 'proteinshake/tasks/dummy.py'
2025-06-03T19:52:01,870   adding 'proteinshake/tasks/enzyme_class.py'
2025-06-03T19:52:01,872   adding 'proteinshake/tasks/gene_ontology.py'
2025-06-03T19:52:01,874   adding 'proteinshake/tasks/ligand_affinity.py'
2025-06-03T19:52:01,876   adding 'proteinshake/tasks/pfam_task.py'
2025-06-03T19:52:01,878   adding 'proteinshake/tasks/protein_protein_interface.py'
2025-06-03T19:52:01,880   adding 'proteinshake/tasks/structural_class.py'
2025-06-03T19:52:01,882   adding 'proteinshake/tasks/structure_search.py'
2025-06-03T19:52:01,884   adding 'proteinshake/tasks/structure_similarity.py'
2025-06-03T19:52:01,887   adding 'proteinshake/tasks/task.py'
2025-06-03T19:52:01,889   adding 'proteinshake/tasks/virtual_screen.py'
2025-06-03T19:52:01,892   adding 'proteinshake/transforms/__init__.py'
2025-06-03T19:52:01,894   adding 'proteinshake/transforms/coords.py'
2025-06-03T19:52:01,896   adding 'proteinshake/transforms/transforms.py'
2025-06-03T19:52:01,899   adding 'proteinshake/utils/__init__.py'
2025-06-03T19:52:01,901   adding 'proteinshake/utils/embeddings.py'
2025-06-03T19:52:01,904   adding 'proteinshake/utils/io.py'
2025-06-03T19:52:01,906   adding 'proteinshake/utils/similarity.py'
2025-06-03T19:52:01,908   adding 'proteinshake/utils/uniprot.py'
2025-06-03T19:52:01,912   adding 'proteinshake-0.3.16.dist-info/licenses/LICENSE'
2025-06-03T19:52:01,915   adding 'tests/__init__.py'
2025-06-03T19:52:01,917   adding 'tests/test_datasets.py'
2025-06-03T19:52:01,919   adding 'tests/test_frameworks.py'
2025-06-03T19:52:01,921   adding 'tests/test_preprocess.py'
2025-06-03T19:52:01,924   adding 'tests/test_tasks.py'
2025-06-03T19:52:01,925   adding 'tests/test_transforms.py'
2025-06-03T19:52:01,928   adding 'proteinshake-0.3.16.dist-info/METADATA'
2025-06-03T19:52:01,929   adding 'proteinshake-0.3.16.dist-info/WHEEL'
2025-06-03T19:52:01,931   adding 'proteinshake-0.3.16.dist-info/top_level.txt'
2025-06-03T19:52:01,933   adding 'proteinshake-0.3.16.dist-info/RECORD'
2025-06-03T19:52:01,936   removing build/bdist.linux-armv7l/wheel
2025-06-03T19:52:02,193   Building wheel for proteinshake (setup.py): finished with status 'done'
2025-06-03T19:52:02,198   Created wheel for proteinshake: filename=proteinshake-0.3.16-py3-none-any.whl size=69922 sha256=46375f512ee74c47910687c046d9266a9812de70d636fa2f9c2e426b13dad2b8
2025-06-03T19:52:02,200   Stored in directory: /tmp/pip-ephem-wheel-cache-x0_mwwnu/wheels/bd/b4/7b/b3991ed15b3efb19298a1d5d777f6983c070f605cd8b15363e
2025-06-03T19:52:02,249 Successfully built proteinshake
2025-06-03T19:52:02,258 Removed build tracker: '/tmp/pip-build-tracker-hhuk47rc'