2025-06-09T09:00:26,998 Created temporary directory: /tmp/pip-build-tracker-66v50l7o
2025-06-09T09:00:27,000 Initialized build tracking at /tmp/pip-build-tracker-66v50l7o
2025-06-09T09:00:27,000 Created build tracker: /tmp/pip-build-tracker-66v50l7o
2025-06-09T09:00:27,001 Entered build tracker: /tmp/pip-build-tracker-66v50l7o
2025-06-09T09:00:27,002 Created temporary directory: /tmp/pip-wheel-evgq31wx
2025-06-09T09:00:27,006 Created temporary directory: /tmp/pip-ephem-wheel-cache-qisvt0tk
2025-06-09T09:00:27,054 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2025-06-09T09:00:27,057 2 location(s) to search for versions of cremdock:
2025-06-09T09:00:27,057 * https://pypi.org/simple/cremdock/
2025-06-09T09:00:27,057 * https://www.piwheels.org/simple/cremdock/
2025-06-09T09:00:27,058 Fetching project page and analyzing links: https://pypi.org/simple/cremdock/
2025-06-09T09:00:27,058 Getting page https://pypi.org/simple/cremdock/
2025-06-09T09:00:27,060 Found index url https://pypi.org/simple/
2025-06-09T09:00:27,288 Fetched page https://pypi.org/simple/cremdock/ as application/vnd.pypi.simple.v1+json
2025-06-09T09:00:27,290   Skipping link: No binaries permitted for cremdock: https://files.pythonhosted.org/packages/89/b9/271fd369f350a69f27c1309c5ed7e34beb5c4cff8b56ab3010b09b952e79/cremdock-0.1.0-py3-none-any.whl (from https://pypi.org/simple/cremdock/) (requires-python:>=3.9)
2025-06-09T09:00:27,291   Found link https://files.pythonhosted.org/packages/35/0d/15c0f3a681caf1c13e91357020d309970ca35a5d451a3cf0c5c3f5c9a7b5/cremdock-0.1.0.tar.gz (from https://pypi.org/simple/cremdock/) (requires-python:>=3.9), version: 0.1.0
2025-06-09T09:00:27,291   Skipping link: No binaries permitted for cremdock: https://files.pythonhosted.org/packages/88/5b/52eee1abeaa2d7aaea768ceb92e5abcce5b2e60bf5f8b073d157ad5d13c0/cremdock-0.2.0-py3-none-any.whl (from https://pypi.org/simple/cremdock/) (requires-python:>=3.9)
2025-06-09T09:00:27,292   Found link https://files.pythonhosted.org/packages/5d/fc/30d42c0efd9b05ba088668b722af3d1b7a175baa6a6e779ca436f04209bb/cremdock-0.2.0.tar.gz (from https://pypi.org/simple/cremdock/) (requires-python:>=3.9), version: 0.2.0
2025-06-09T09:00:27,293 Fetching project page and analyzing links: https://www.piwheels.org/simple/cremdock/
2025-06-09T09:00:27,294 Getting page https://www.piwheels.org/simple/cremdock/
2025-06-09T09:00:27,295 Found index url https://www.piwheels.org/simple/
2025-06-09T09:00:27,457 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/cremdock/
2025-06-09T09:00:28,121 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/cremdock/
2025-06-09T09:00:29,278 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/cremdock/
2025-06-09T09:00:31,433 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/cremdock/
2025-06-09T09:00:35,592 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/cremdock/
2025-06-09T09:00:35,757 Could not fetch URL https://www.piwheels.org/simple/cremdock/: There was a problem confirming the ssl certificate: HTTPSConnectionPool(host='www.piwheels.org', port=443): Max retries exceeded with url: /simple/cremdock/ (Caused by SSLError(SSLCertVerificationError(1, '[SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed: certificate is not yet valid (_ssl.c:992)'))) - skipping
2025-06-09T09:00:35,759 Skipping link: not a file: https://www.piwheels.org/simple/cremdock/
2025-06-09T09:00:35,760 Skipping link: not a file: https://pypi.org/simple/cremdock/
2025-06-09T09:00:35,777 Given no hashes to check 1 links for project 'cremdock': discarding no candidates
2025-06-09T09:00:35,779 Collecting cremdock==0.2.0
2025-06-09T09:00:35,781   Created temporary directory: /tmp/pip-unpack-tqmhgqql
2025-06-09T09:00:36,008   Downloading cremdock-0.2.0.tar.gz (29 kB)
2025-06-09T09:00:36,085   Added cremdock==0.2.0 from https://files.pythonhosted.org/packages/5d/fc/30d42c0efd9b05ba088668b722af3d1b7a175baa6a6e779ca436f04209bb/cremdock-0.2.0.tar.gz to build tracker '/tmp/pip-build-tracker-66v50l7o'
2025-06-09T09:00:36,086   Running setup.py (path:/tmp/pip-wheel-evgq31wx/cremdock_190dcb99d33540f6841dd8cb896616d3/setup.py) egg_info for package cremdock
2025-06-09T09:00:36,087   Created temporary directory: /tmp/pip-pip-egg-info-mkvimi9d
2025-06-09T09:00:36,088   Preparing metadata (setup.py): started
2025-06-09T09:00:36,089   Running command python setup.py egg_info
2025-06-09T09:00:36,953   /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated.
2025-06-09T09:00:36,953   !!

2025-06-09T09:00:36,955           ********************************************************************************
2025-06-09T09:00:36,955           Please consider removing the following classifiers in favor of a SPDX license expression:

2025-06-09T09:00:36,956           License :: OSI Approved :: GNU General Public License v3 (GPLv3)

2025-06-09T09:00:36,957           See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details.
2025-06-09T09:00:36,958           ********************************************************************************

2025-06-09T09:00:36,959   !!
2025-06-09T09:00:36,960     self._finalize_license_expression()
2025-06-09T09:00:36,985   running egg_info
2025-06-09T09:00:37,015   creating /tmp/pip-pip-egg-info-mkvimi9d/cremdock.egg-info
2025-06-09T09:00:37,016   writing /tmp/pip-pip-egg-info-mkvimi9d/cremdock.egg-info/PKG-INFO
2025-06-09T09:00:37,022   writing dependency_links to /tmp/pip-pip-egg-info-mkvimi9d/cremdock.egg-info/dependency_links.txt
2025-06-09T09:00:37,024   writing entry points to /tmp/pip-pip-egg-info-mkvimi9d/cremdock.egg-info/entry_points.txt
2025-06-09T09:00:37,028   writing requirements to /tmp/pip-pip-egg-info-mkvimi9d/cremdock.egg-info/requires.txt
2025-06-09T09:00:37,029   writing top-level names to /tmp/pip-pip-egg-info-mkvimi9d/cremdock.egg-info/top_level.txt
2025-06-09T09:00:37,031   writing manifest file '/tmp/pip-pip-egg-info-mkvimi9d/cremdock.egg-info/SOURCES.txt'
2025-06-09T09:00:37,223   reading manifest file '/tmp/pip-pip-egg-info-mkvimi9d/cremdock.egg-info/SOURCES.txt'
2025-06-09T09:00:37,225   adding license file 'LICENSE'
2025-06-09T09:00:37,228   writing manifest file '/tmp/pip-pip-egg-info-mkvimi9d/cremdock.egg-info/SOURCES.txt'
2025-06-09T09:00:37,339   Preparing metadata (setup.py): finished with status 'done'
2025-06-09T09:00:37,343   Source in /tmp/pip-wheel-evgq31wx/cremdock_190dcb99d33540f6841dd8cb896616d3 has version 0.2.0, which satisfies requirement cremdock==0.2.0 from https://files.pythonhosted.org/packages/5d/fc/30d42c0efd9b05ba088668b722af3d1b7a175baa6a6e779ca436f04209bb/cremdock-0.2.0.tar.gz
2025-06-09T09:00:37,344   Removed cremdock==0.2.0 from https://files.pythonhosted.org/packages/5d/fc/30d42c0efd9b05ba088668b722af3d1b7a175baa6a6e779ca436f04209bb/cremdock-0.2.0.tar.gz from build tracker '/tmp/pip-build-tracker-66v50l7o'
2025-06-09T09:00:37,352 Created temporary directory: /tmp/pip-unpack-n8efwz71
2025-06-09T09:00:37,354 Created temporary directory: /tmp/pip-unpack-nzmy_qgv
2025-06-09T09:00:37,354 Building wheels for collected packages: cremdock
2025-06-09T09:00:37,359   Created temporary directory: /tmp/pip-wheel-oroqci24
2025-06-09T09:00:37,360   DEPRECATION: Building 'cremdock' 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 'cremdock'. Discussion can be found at https://github.com/pypa/pip/issues/6334
2025-06-09T09:00:37,362   Building wheel for cremdock (setup.py): started
2025-06-09T09:00:37,363   Destination directory: /tmp/pip-wheel-oroqci24
2025-06-09T09:00:37,363   Running command python setup.py bdist_wheel
2025-06-09T09:00:38,213   /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated.
2025-06-09T09:00:38,213   !!

2025-06-09T09:00:38,214           ********************************************************************************
2025-06-09T09:00:38,215           Please consider removing the following classifiers in favor of a SPDX license expression:

2025-06-09T09:00:38,216           License :: OSI Approved :: GNU General Public License v3 (GPLv3)

2025-06-09T09:00:38,217           See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details.
2025-06-09T09:00:38,217           ********************************************************************************

2025-06-09T09:00:38,218   !!
2025-06-09T09:00:38,219     self._finalize_license_expression()
2025-06-09T09:00:38,219   running bdist_wheel
2025-06-09T09:00:38,368   running build
2025-06-09T09:00:38,369   running build_py
2025-06-09T09:00:38,400   creating build/lib/cremdock
2025-06-09T09:00:38,403   copying cremdock/user_protected_atoms.py -> build/lib/cremdock
2025-06-09T09:00:38,405   copying cremdock/cremdock.py -> build/lib/cremdock
2025-06-09T09:00:38,409   copying cremdock/selection.py -> build/lib/cremdock
2025-06-09T09:00:38,412   copying cremdock/__init__.py -> build/lib/cremdock
2025-06-09T09:00:38,414   copying cremdock/auxiliary.py -> build/lib/cremdock
2025-06-09T09:00:38,415   copying cremdock/ranking.py -> build/lib/cremdock
2025-06-09T09:00:38,418   copying cremdock/arg_types.py -> build/lib/cremdock
2025-06-09T09:00:38,420   copying cremdock/crem_grow.py -> build/lib/cremdock
2025-06-09T09:00:38,423   copying cremdock/database.py -> build/lib/cremdock
2025-06-09T09:00:38,426   copying cremdock/molecules.py -> build/lib/cremdock
2025-06-09T09:00:38,428   creating build/lib/cremdock/scripts
2025-06-09T09:00:38,430   copying cremdock/scripts/__init__.py -> build/lib/cremdock/scripts
2025-06-09T09:00:38,432   copying cremdock/scripts/plif.py -> build/lib/cremdock/scripts
2025-06-09T09:00:38,435   copying cremdock/scripts/arg_types.py -> build/lib/cremdock/scripts
2025-06-09T09:00:38,471   /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:90: SetuptoolsDeprecationWarning: setup.py install is deprecated.
2025-06-09T09:00:38,472   !!

2025-06-09T09:00:38,473           ********************************************************************************
2025-06-09T09:00:38,474           Please avoid running ``setup.py`` directly.
2025-06-09T09:00:38,474           Instead, use pypa/build, pypa/installer or other
2025-06-09T09:00:38,475           standards-based tools.

2025-06-09T09:00:38,476           By 2025-Oct-31, you need to update your project and remove deprecated calls
2025-06-09T09:00:38,476           or your builds will no longer be supported.

2025-06-09T09:00:38,477           See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details.
2025-06-09T09:00:38,478           ********************************************************************************

2025-06-09T09:00:38,479   !!
2025-06-09T09:00:38,480     self.initialize_options()
2025-06-09T09:00:38,501   installing to build/bdist.linux-armv7l/wheel
2025-06-09T09:00:38,502   running install
2025-06-09T09:00:38,526   running install_lib
2025-06-09T09:00:38,556   creating build/bdist.linux-armv7l/wheel
2025-06-09T09:00:38,558   creating build/bdist.linux-armv7l/wheel/cremdock
2025-06-09T09:00:38,560   creating build/bdist.linux-armv7l/wheel/cremdock/scripts
2025-06-09T09:00:38,561   copying build/lib/cremdock/scripts/__init__.py -> build/bdist.linux-armv7l/wheel/./cremdock/scripts
2025-06-09T09:00:38,563   copying build/lib/cremdock/scripts/plif.py -> build/bdist.linux-armv7l/wheel/./cremdock/scripts
2025-06-09T09:00:38,565   copying build/lib/cremdock/scripts/arg_types.py -> build/bdist.linux-armv7l/wheel/./cremdock/scripts
2025-06-09T09:00:38,567   copying build/lib/cremdock/user_protected_atoms.py -> build/bdist.linux-armv7l/wheel/./cremdock
2025-06-09T09:00:38,569   copying build/lib/cremdock/cremdock.py -> build/bdist.linux-armv7l/wheel/./cremdock
2025-06-09T09:00:38,572   copying build/lib/cremdock/selection.py -> build/bdist.linux-armv7l/wheel/./cremdock
2025-06-09T09:00:38,574   copying build/lib/cremdock/__init__.py -> build/bdist.linux-armv7l/wheel/./cremdock
2025-06-09T09:00:38,577   copying build/lib/cremdock/auxiliary.py -> build/bdist.linux-armv7l/wheel/./cremdock
2025-06-09T09:00:38,580   copying build/lib/cremdock/ranking.py -> build/bdist.linux-armv7l/wheel/./cremdock
2025-06-09T09:00:38,583   copying build/lib/cremdock/arg_types.py -> build/bdist.linux-armv7l/wheel/./cremdock
2025-06-09T09:00:38,584   copying build/lib/cremdock/crem_grow.py -> build/bdist.linux-armv7l/wheel/./cremdock
2025-06-09T09:00:38,587   copying build/lib/cremdock/database.py -> build/bdist.linux-armv7l/wheel/./cremdock
2025-06-09T09:00:38,589   copying build/lib/cremdock/molecules.py -> build/bdist.linux-armv7l/wheel/./cremdock
2025-06-09T09:00:38,591   running install_egg_info
2025-06-09T09:00:38,627   running egg_info
2025-06-09T09:00:38,655   writing cremdock.egg-info/PKG-INFO
2025-06-09T09:00:38,661   writing dependency_links to cremdock.egg-info/dependency_links.txt
2025-06-09T09:00:38,663   writing entry points to cremdock.egg-info/entry_points.txt
2025-06-09T09:00:38,665   writing requirements to cremdock.egg-info/requires.txt
2025-06-09T09:00:38,666   writing top-level names to cremdock.egg-info/top_level.txt
2025-06-09T09:00:38,699   reading manifest file 'cremdock.egg-info/SOURCES.txt'
2025-06-09T09:00:38,702   adding license file 'LICENSE'
2025-06-09T09:00:38,705   writing manifest file 'cremdock.egg-info/SOURCES.txt'
2025-06-09T09:00:38,707   Copying cremdock.egg-info to build/bdist.linux-armv7l/wheel/./cremdock-0.2.0-py3.11.egg-info
2025-06-09T09:00:38,719   running install_scripts
2025-06-09T09:00:38,734   creating build/bdist.linux-armv7l/wheel/cremdock-0.2.0.dist-info/WHEEL
2025-06-09T09:00:38,736   creating '/tmp/pip-wheel-oroqci24/cremdock-0.2.0-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2025-06-09T09:00:38,739   adding 'cremdock/__init__.py'
2025-06-09T09:00:38,740   adding 'cremdock/arg_types.py'
2025-06-09T09:00:38,741   adding 'cremdock/auxiliary.py'
2025-06-09T09:00:38,743   adding 'cremdock/crem_grow.py'
2025-06-09T09:00:38,746   adding 'cremdock/cremdock.py'
2025-06-09T09:00:38,748   adding 'cremdock/database.py'
2025-06-09T09:00:38,750   adding 'cremdock/molecules.py'
2025-06-09T09:00:38,752   adding 'cremdock/ranking.py'
2025-06-09T09:00:38,753   adding 'cremdock/selection.py'
2025-06-09T09:00:38,755   adding 'cremdock/user_protected_atoms.py'
2025-06-09T09:00:38,757   adding 'cremdock/scripts/__init__.py'
2025-06-09T09:00:38,758   adding 'cremdock/scripts/arg_types.py'
2025-06-09T09:00:38,759   adding 'cremdock/scripts/plif.py'
2025-06-09T09:00:38,762   adding 'cremdock-0.2.0.dist-info/licenses/LICENSE'
2025-06-09T09:00:38,764   adding 'cremdock-0.2.0.dist-info/METADATA'
2025-06-09T09:00:38,765   adding 'cremdock-0.2.0.dist-info/WHEEL'
2025-06-09T09:00:38,767   adding 'cremdock-0.2.0.dist-info/entry_points.txt'
2025-06-09T09:00:38,768   adding 'cremdock-0.2.0.dist-info/top_level.txt'
2025-06-09T09:00:38,769   adding 'cremdock-0.2.0.dist-info/RECORD'
2025-06-09T09:00:38,771   removing build/bdist.linux-armv7l/wheel
2025-06-09T09:00:38,890   Building wheel for cremdock (setup.py): finished with status 'done'
2025-06-09T09:00:38,893   Created wheel for cremdock: filename=cremdock-0.2.0-py3-none-any.whl size=28893 sha256=235369737e29c0d5eacfdbb2e810d59e248bed90f68496a51d53315a7c978abc
2025-06-09T09:00:38,894   Stored in directory: /tmp/pip-ephem-wheel-cache-qisvt0tk/wheels/a6/55/bf/af51040b6026de6d50a05a1b80dead1568212e2e200d3325da
2025-06-09T09:00:38,907 Successfully built cremdock
2025-06-09T09:00:38,911 Removed build tracker: '/tmp/pip-build-tracker-66v50l7o'