2025-12-12T13:31:59,411 Created temporary directory: /tmp/pip-ephem-wheel-cache-h4p2q4p4
2025-12-12T13:31:59,413 Created temporary directory: /tmp/pip-build-tracker-dimsrz4a
2025-12-12T13:31:59,414 Initialized build tracking at /tmp/pip-build-tracker-dimsrz4a
2025-12-12T13:31:59,414 Created build tracker: /tmp/pip-build-tracker-dimsrz4a
2025-12-12T13:31:59,414 Entered build tracker: /tmp/pip-build-tracker-dimsrz4a
2025-12-12T13:31:59,415 Created temporary directory: /tmp/pip-wheel-xnpmayfn
2025-12-12T13:31:59,418 DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453
2025-12-12T13:31:59,421 Created temporary directory: /tmp/pip-ephem-wheel-cache-2w4xt9zg
2025-12-12T13:31:59,442 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2025-12-12T13:31:59,446 2 location(s) to search for versions of phaselab:
2025-12-12T13:31:59,446 * https://pypi.org/simple/phaselab/
2025-12-12T13:31:59,446 * https://www.piwheels.org/simple/phaselab/
2025-12-12T13:31:59,447 Fetching project page and analyzing links: https://pypi.org/simple/phaselab/
2025-12-12T13:31:59,447 Getting page https://pypi.org/simple/phaselab/
2025-12-12T13:31:59,449 Found index url https://pypi.org/simple
2025-12-12T13:31:59,660 Fetched page https://pypi.org/simple/phaselab/ as application/vnd.pypi.simple.v1+json
2025-12-12T13:31:59,662   Skipping link: No binaries permitted for phaselab: https://files.pythonhosted.org/packages/b6/e2/33bb7425f0acf376512de7b1c27938eae72950196641c388de6eae25cfe1/phaselab-0.1.0-py3-none-any.whl (from https://pypi.org/simple/phaselab/) (requires-python:>=3.9)
2025-12-12T13:31:59,663   Found link https://files.pythonhosted.org/packages/74/38/29a1dde57365217ae417e73c0ad7b6f6bc476f73e1d552cda82d03577f5e/phaselab-0.1.0.tar.gz (from https://pypi.org/simple/phaselab/) (requires-python:>=3.9), version: 0.1.0
2025-12-12T13:31:59,664   Skipping link: No binaries permitted for phaselab: https://files.pythonhosted.org/packages/32/43/303ad89d407e0db6cdf9196a4c09c6bb4b552e490a2518d359c56859335a/phaselab-0.4.0-py3-none-any.whl (from https://pypi.org/simple/phaselab/) (requires-python:>=3.9)
2025-12-12T13:31:59,665   Found link https://files.pythonhosted.org/packages/82/d8/160cd6c66becf17911ce65f77f284742cf39198b2364ec2f8b2e49401eb7/phaselab-0.4.0.tar.gz (from https://pypi.org/simple/phaselab/) (requires-python:>=3.9), version: 0.4.0
2025-12-12T13:31:59,665   Skipping link: No binaries permitted for phaselab: https://files.pythonhosted.org/packages/c2/25/311777db3eeb6f5b631043a9d3643bb00f16ab487de8f5e1b22dc1159677/phaselab-0.5.0-py3-none-any.whl (from https://pypi.org/simple/phaselab/) (requires-python:>=3.9)
2025-12-12T13:31:59,666   Found link https://files.pythonhosted.org/packages/04/df/ede60e1191201d5867f92f65a7de8ba5130f2c1b825e4e038bde987e9aca/phaselab-0.5.0.tar.gz (from https://pypi.org/simple/phaselab/) (requires-python:>=3.9), version: 0.5.0
2025-12-12T13:31:59,667 Fetching project page and analyzing links: https://www.piwheels.org/simple/phaselab/
2025-12-12T13:31:59,668 Getting page https://www.piwheels.org/simple/phaselab/
2025-12-12T13:31:59,669 Found index url https://www.piwheels.org/simple
2025-12-12T13:31:59,870 Fetched page https://www.piwheels.org/simple/phaselab/ as text/html
2025-12-12T13:31:59,872   Skipping link: No binaries permitted for phaselab: https://www.piwheels.org/simple/phaselab/phaselab-0.4.0-py3-none-any.whl#sha256=0a12ecabfa282acc4637fed3689cb6d91f95ed7577c089ba63c9df70459f44e7 (from https://www.piwheels.org/simple/phaselab/) (requires-python:>=3.9)
2025-12-12T13:31:59,873   Skipping link: No binaries permitted for phaselab: https://www.piwheels.org/simple/phaselab/phaselab-0.1.0-py3-none-any.whl#sha256=975b7bb03c3ec5dc0db8728648c0d64e7fcd21cf012765eaeb03b90eb5df8783 (from https://www.piwheels.org/simple/phaselab/) (requires-python:>=3.9)
2025-12-12T13:31:59,873 Skipping link: not a file: https://www.piwheels.org/simple/phaselab/
2025-12-12T13:31:59,874 Skipping link: not a file: https://pypi.org/simple/phaselab/
2025-12-12T13:31:59,893 Given no hashes to check 1 links for project 'phaselab': discarding no candidates
2025-12-12T13:31:59,911 Collecting phaselab==0.5.0
2025-12-12T13:31:59,913   Created temporary directory: /tmp/pip-unpack-yt6t_fit
2025-12-12T13:32:00,046   Downloading phaselab-0.5.0.tar.gz (134 kB)
2025-12-12T13:32:00,275   Added phaselab==0.5.0 from https://files.pythonhosted.org/packages/04/df/ede60e1191201d5867f92f65a7de8ba5130f2c1b825e4e038bde987e9aca/phaselab-0.5.0.tar.gz to build tracker '/tmp/pip-build-tracker-dimsrz4a'
2025-12-12T13:32:00,282   Created temporary directory: /tmp/pip-build-env-zptg7ipp
2025-12-12T13:32:00,287   Installing build dependencies: started
2025-12-12T13:32:00,288   Running command pip subprocess to install build dependencies
2025-12-12T13:32:01,688   Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11)
2025-12-12T13:32:02,339   DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453
2025-12-12T13:32:02,362   Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2025-12-12T13:32:04,146   Collecting setuptools>=61.0
2025-12-12T13:32:04,250     Using cached https://www.piwheels.org/simple/setuptools/setuptools-80.9.0-py3-none-any.whl (1.2 MB)
2025-12-12T13:32:04,536   Collecting wheel
2025-12-12T13:32:04,553     Using cached https://www.piwheels.org/simple/wheel/wheel-0.45.1-py3-none-any.whl (72 kB)
2025-12-12T13:32:07,672   Installing collected packages: wheel, setuptools
2025-12-12T13:32:07,910     Creating /tmp/pip-build-env-zptg7ipp/overlay/local/bin
2025-12-12T13:32:07,912     changing mode of /tmp/pip-build-env-zptg7ipp/overlay/local/bin/wheel to 755
2025-12-12T13:32:11,507   Successfully installed setuptools-80.9.0 wheel-0.45.1
2025-12-12T13:32:11,782   Installing build dependencies: finished with status 'done'
2025-12-12T13:32:11,789   Getting requirements to build wheel: started
2025-12-12T13:32:11,790   Running command Getting requirements to build wheel
2025-12-12T13:32:12,398   /tmp/pip-build-env-zptg7ipp/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsDeprecationWarning: `project.license` as a TOML table is deprecated
2025-12-12T13:32:12,398   !!

2025-12-12T13:32:12,399           ********************************************************************************
2025-12-12T13:32:12,400           Please use a simple string containing a SPDX expression for `project.license`. You can also use `project.license-files`. (Both options available on setuptools>=77.0.0).

2025-12-12T13:32:12,401           By 2026-Feb-18, you need to update your project and remove deprecated calls
2025-12-12T13:32:12,402           or your builds will no longer be supported.

2025-12-12T13:32:12,403           See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details.
2025-12-12T13:32:12,404           ********************************************************************************

2025-12-12T13:32:12,406   !!
2025-12-12T13:32:12,406     corresp(dist, value, root_dir)
2025-12-12T13:32:12,496   /tmp/pip-build-env-zptg7ipp/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:61: SetuptoolsDeprecationWarning: License classifiers are deprecated.
2025-12-12T13:32:12,496   !!

2025-12-12T13:32:12,498           ********************************************************************************
2025-12-12T13:32:12,499           Please consider removing the following classifiers in favor of a SPDX license expression:

2025-12-12T13:32:12,500           License :: OSI Approved :: MIT License

2025-12-12T13:32:12,501           See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details.
2025-12-12T13:32:12,502           ********************************************************************************

2025-12-12T13:32:12,503   !!
2025-12-12T13:32:12,503     dist._finalize_license_expression()
2025-12-12T13:32:12,504   /tmp/pip-build-env-zptg7ipp/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated.
2025-12-12T13:32:12,505   !!

2025-12-12T13:32:12,506           ********************************************************************************
2025-12-12T13:32:12,506           Please consider removing the following classifiers in favor of a SPDX license expression:

2025-12-12T13:32:12,507           License :: OSI Approved :: MIT License

2025-12-12T13:32:12,509           See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details.
2025-12-12T13:32:12,509           ********************************************************************************

2025-12-12T13:32:12,510   !!
2025-12-12T13:32:12,511     self._finalize_license_expression()
2025-12-12T13:32:12,511   running egg_info
2025-12-12T13:32:12,516   writing src/phaselab.egg-info/PKG-INFO
2025-12-12T13:32:12,526   writing dependency_links to src/phaselab.egg-info/dependency_links.txt
2025-12-12T13:32:12,527   writing entry points to src/phaselab.egg-info/entry_points.txt
2025-12-12T13:32:12,533   writing requirements to src/phaselab.egg-info/requires.txt
2025-12-12T13:32:12,536   writing top-level names to src/phaselab.egg-info/top_level.txt
2025-12-12T13:32:12,568   reading manifest file 'src/phaselab.egg-info/SOURCES.txt'
2025-12-12T13:32:12,573   adding license file 'LICENSE'
2025-12-12T13:32:12,578   writing manifest file 'src/phaselab.egg-info/SOURCES.txt'
2025-12-12T13:32:12,675   Getting requirements to build wheel: finished with status 'done'
2025-12-12T13:32:12,679   Created temporary directory: /tmp/pip-modern-metadata-rzqbf3ub
2025-12-12T13:32:12,681   Preparing metadata (pyproject.toml): started
2025-12-12T13:32:12,682   Running command Preparing metadata (pyproject.toml)
2025-12-12T13:32:13,251   /tmp/pip-build-env-zptg7ipp/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsDeprecationWarning: `project.license` as a TOML table is deprecated
2025-12-12T13:32:13,252   !!

2025-12-12T13:32:13,253           ********************************************************************************
2025-12-12T13:32:13,254           Please use a simple string containing a SPDX expression for `project.license`. You can also use `project.license-files`. (Both options available on setuptools>=77.0.0).

2025-12-12T13:32:13,255           By 2026-Feb-18, you need to update your project and remove deprecated calls
2025-12-12T13:32:13,255           or your builds will no longer be supported.

2025-12-12T13:32:13,256           See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details.
2025-12-12T13:32:13,257           ********************************************************************************

2025-12-12T13:32:13,258   !!
2025-12-12T13:32:13,258     corresp(dist, value, root_dir)
2025-12-12T13:32:13,336   /tmp/pip-build-env-zptg7ipp/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:61: SetuptoolsDeprecationWarning: License classifiers are deprecated.
2025-12-12T13:32:13,337   !!

2025-12-12T13:32:13,338           ********************************************************************************
2025-12-12T13:32:13,339           Please consider removing the following classifiers in favor of a SPDX license expression:

2025-12-12T13:32:13,340           License :: OSI Approved :: MIT License

2025-12-12T13:32:13,341           See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details.
2025-12-12T13:32:13,342           ********************************************************************************

2025-12-12T13:32:13,343   !!
2025-12-12T13:32:13,344     dist._finalize_license_expression()
2025-12-12T13:32:13,344   /tmp/pip-build-env-zptg7ipp/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated.
2025-12-12T13:32:13,344   !!

2025-12-12T13:32:13,345           ********************************************************************************
2025-12-12T13:32:13,346           Please consider removing the following classifiers in favor of a SPDX license expression:

2025-12-12T13:32:13,347           License :: OSI Approved :: MIT License

2025-12-12T13:32:13,348           See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details.
2025-12-12T13:32:13,348           ********************************************************************************

2025-12-12T13:32:13,349   !!
2025-12-12T13:32:13,349     self._finalize_license_expression()
2025-12-12T13:32:13,350   running dist_info
2025-12-12T13:32:13,363   creating /tmp/pip-modern-metadata-rzqbf3ub/phaselab.egg-info
2025-12-12T13:32:13,364   writing /tmp/pip-modern-metadata-rzqbf3ub/phaselab.egg-info/PKG-INFO
2025-12-12T13:32:13,374   writing dependency_links to /tmp/pip-modern-metadata-rzqbf3ub/phaselab.egg-info/dependency_links.txt
2025-12-12T13:32:13,376   writing entry points to /tmp/pip-modern-metadata-rzqbf3ub/phaselab.egg-info/entry_points.txt
2025-12-12T13:32:13,381   writing requirements to /tmp/pip-modern-metadata-rzqbf3ub/phaselab.egg-info/requires.txt
2025-12-12T13:32:13,383   writing top-level names to /tmp/pip-modern-metadata-rzqbf3ub/phaselab.egg-info/top_level.txt
2025-12-12T13:32:13,384   writing manifest file '/tmp/pip-modern-metadata-rzqbf3ub/phaselab.egg-info/SOURCES.txt'
2025-12-12T13:32:13,415   reading manifest file '/tmp/pip-modern-metadata-rzqbf3ub/phaselab.egg-info/SOURCES.txt'
2025-12-12T13:32:13,417   adding license file 'LICENSE'
2025-12-12T13:32:13,422   writing manifest file '/tmp/pip-modern-metadata-rzqbf3ub/phaselab.egg-info/SOURCES.txt'
2025-12-12T13:32:13,423   creating '/tmp/pip-modern-metadata-rzqbf3ub/phaselab-0.5.0.dist-info'
2025-12-12T13:32:13,550   Preparing metadata (pyproject.toml): finished with status 'done'
2025-12-12T13:32:13,555   Source in /tmp/pip-wheel-xnpmayfn/phaselab_ffdcc1e64fff4ecc8bfcb26fe2870244 has version 0.5.0, which satisfies requirement phaselab==0.5.0 from https://files.pythonhosted.org/packages/04/df/ede60e1191201d5867f92f65a7de8ba5130f2c1b825e4e038bde987e9aca/phaselab-0.5.0.tar.gz
2025-12-12T13:32:13,556   Removed phaselab==0.5.0 from https://files.pythonhosted.org/packages/04/df/ede60e1191201d5867f92f65a7de8ba5130f2c1b825e4e038bde987e9aca/phaselab-0.5.0.tar.gz from build tracker '/tmp/pip-build-tracker-dimsrz4a'
2025-12-12T13:32:13,564 Created temporary directory: /tmp/pip-unpack-5isyh_mt
2025-12-12T13:32:13,564 Building wheels for collected packages: phaselab
2025-12-12T13:32:13,569   Created temporary directory: /tmp/pip-wheel-7ktniwid
2025-12-12T13:32:13,569   Destination directory: /tmp/pip-wheel-7ktniwid
2025-12-12T13:32:13,571   Building wheel for phaselab (pyproject.toml): started
2025-12-12T13:32:13,572   Running command Building wheel for phaselab (pyproject.toml)
2025-12-12T13:32:14,123   /tmp/pip-build-env-zptg7ipp/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsDeprecationWarning: `project.license` as a TOML table is deprecated
2025-12-12T13:32:14,123   !!

2025-12-12T13:32:14,124           ********************************************************************************
2025-12-12T13:32:14,125           Please use a simple string containing a SPDX expression for `project.license`. You can also use `project.license-files`. (Both options available on setuptools>=77.0.0).

2025-12-12T13:32:14,126           By 2026-Feb-18, you need to update your project and remove deprecated calls
2025-12-12T13:32:14,126           or your builds will no longer be supported.

2025-12-12T13:32:14,128           See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details.
2025-12-12T13:32:14,128           ********************************************************************************

2025-12-12T13:32:14,129   !!
2025-12-12T13:32:14,130     corresp(dist, value, root_dir)
2025-12-12T13:32:14,204   /tmp/pip-build-env-zptg7ipp/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:61: SetuptoolsDeprecationWarning: License classifiers are deprecated.
2025-12-12T13:32:14,205   !!

2025-12-12T13:32:14,205           ********************************************************************************
2025-12-12T13:32:14,206           Please consider removing the following classifiers in favor of a SPDX license expression:

2025-12-12T13:32:14,207           License :: OSI Approved :: MIT License

2025-12-12T13:32:14,208           See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details.
2025-12-12T13:32:14,208           ********************************************************************************

2025-12-12T13:32:14,209   !!
2025-12-12T13:32:14,210     dist._finalize_license_expression()
2025-12-12T13:32:14,210   /tmp/pip-build-env-zptg7ipp/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated.
2025-12-12T13:32:14,211   !!

2025-12-12T13:32:14,212           ********************************************************************************
2025-12-12T13:32:14,212           Please consider removing the following classifiers in favor of a SPDX license expression:

2025-12-12T13:32:14,213           License :: OSI Approved :: MIT License

2025-12-12T13:32:14,214           See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details.
2025-12-12T13:32:14,215           ********************************************************************************

2025-12-12T13:32:14,216   !!
2025-12-12T13:32:14,217     self._finalize_license_expression()
2025-12-12T13:32:14,218   running bdist_wheel
2025-12-12T13:32:14,232   running build
2025-12-12T13:32:14,233   running build_py
2025-12-12T13:32:14,239   creating build/lib/phaselab
2025-12-12T13:32:14,241   copying src/phaselab/__init__.py -> build/lib/phaselab
2025-12-12T13:32:14,243   creating build/lib/phaselab/protein
2025-12-12T13:32:14,244   copying src/phaselab/protein/__init__.py -> build/lib/phaselab/protein
2025-12-12T13:32:14,246   copying src/phaselab/protein/dynamics.py -> build/lib/phaselab/protein
2025-12-12T13:32:14,249   copying src/phaselab/protein/binding.py -> build/lib/phaselab/protein
2025-12-12T13:32:14,251   copying src/phaselab/protein/folding.py -> build/lib/phaselab/protein
2025-12-12T13:32:14,254   creating build/lib/phaselab/circadian
2025-12-12T13:32:14,254   copying src/phaselab/circadian/kuramoto.py -> build/lib/phaselab/circadian
2025-12-12T13:32:14,256   copying src/phaselab/circadian/__init__.py -> build/lib/phaselab/circadian
2025-12-12T13:32:14,258   copying src/phaselab/circadian/multi_tissue.py -> build/lib/phaselab/circadian
2025-12-12T13:32:14,261   copying src/phaselab/circadian/sms_model.py -> build/lib/phaselab/circadian
2025-12-12T13:32:14,263   creating build/lib/phaselab/delivery
2025-12-12T13:32:14,264   copying src/phaselab/delivery/immunogenicity.py -> build/lib/phaselab/delivery
2025-12-12T13:32:14,267   copying src/phaselab/delivery/__init__.py -> build/lib/phaselab/delivery
2025-12-12T13:32:14,269   copying src/phaselab/delivery/aav.py -> build/lib/phaselab/delivery
2025-12-12T13:32:14,272   creating build/lib/phaselab/therapy
2025-12-12T13:32:14,273   copying src/phaselab/therapy/__init__.py -> build/lib/phaselab/therapy
2025-12-12T13:32:14,275   copying src/phaselab/therapy/dosage.py -> build/lib/phaselab/therapy
2025-12-12T13:32:14,277   copying src/phaselab/therapy/efficacy.py -> build/lib/phaselab/therapy
2025-12-12T13:32:14,281   creating build/lib/phaselab/chromatin
2025-12-12T13:32:14,282   copying src/phaselab/chromatin/nucleosome.py -> build/lib/phaselab/chromatin
2025-12-12T13:32:14,284   copying src/phaselab/chromatin/atac_integration.py -> build/lib/phaselab/chromatin
2025-12-12T13:32:14,287   copying src/phaselab/chromatin/accessibility.py -> build/lib/phaselab/chromatin
2025-12-12T13:32:14,289   copying src/phaselab/chromatin/methylation.py -> build/lib/phaselab/chromatin
2025-12-12T13:32:14,291   copying src/phaselab/chromatin/__init__.py -> build/lib/phaselab/chromatin
2025-12-12T13:32:14,293   copying src/phaselab/chromatin/integration.py -> build/lib/phaselab/chromatin
2025-12-12T13:32:14,295   copying src/phaselab/chromatin/tissue_models.py -> build/lib/phaselab/chromatin
2025-12-12T13:32:14,298   creating build/lib/phaselab/targets
2025-12-12T13:32:14,299   copying src/phaselab/targets/config.py -> build/lib/phaselab/targets
2025-12-12T13:32:14,301   copying src/phaselab/targets/__init__.py -> build/lib/phaselab/targets
2025-12-12T13:32:14,303   creating build/lib/phaselab/crispr
2025-12-12T13:32:14,304   copying src/phaselab/crispr/scoring.py -> build/lib/phaselab/crispr
2025-12-12T13:32:14,307   copying src/phaselab/crispr/editors.py -> build/lib/phaselab/crispr
2025-12-12T13:32:14,309   copying src/phaselab/crispr/interference.py -> build/lib/phaselab/crispr
2025-12-12T13:32:14,311   copying src/phaselab/crispr/prime_editing.py -> build/lib/phaselab/crispr
2025-12-12T13:32:14,314   copying src/phaselab/crispr/pam_scan.py -> build/lib/phaselab/crispr
2025-12-12T13:32:14,316   copying src/phaselab/crispr/pipeline.py -> build/lib/phaselab/crispr
2025-12-12T13:32:14,318   copying src/phaselab/crispr/__init__.py -> build/lib/phaselab/crispr
2025-12-12T13:32:14,321   copying src/phaselab/crispr/multiguide.py -> build/lib/phaselab/crispr
2025-12-12T13:32:14,323   copying src/phaselab/crispr/enhancer.py -> build/lib/phaselab/crispr
2025-12-12T13:32:14,326   copying src/phaselab/crispr/knockout.py -> build/lib/phaselab/crispr
2025-12-12T13:32:14,329   copying src/phaselab/crispr/base_editing.py -> build/lib/phaselab/crispr
2025-12-12T13:32:14,332   creating build/lib/phaselab/core
2025-12-12T13:32:14,333   copying src/phaselab/core/hamiltonians.py -> build/lib/phaselab/core
2025-12-12T13:32:14,335   copying src/phaselab/core/__init__.py -> build/lib/phaselab/core
2025-12-12T13:32:14,337   copying src/phaselab/core/constants.py -> build/lib/phaselab/core
2025-12-12T13:32:14,338   copying src/phaselab/core/coherence.py -> build/lib/phaselab/core
2025-12-12T13:32:14,341   creating build/lib/phaselab/io
2025-12-12T13:32:14,342   copying src/phaselab/io/export.py -> build/lib/phaselab/io
2025-12-12T13:32:14,344   copying src/phaselab/io/__init__.py -> build/lib/phaselab/io
2025-12-12T13:32:14,345   copying src/phaselab/io/report.py -> build/lib/phaselab/io
2025-12-12T13:32:14,348   creating build/lib/phaselab/drug
2025-12-12T13:32:14,349   copying src/phaselab/drug/chronotherapy.py -> build/lib/phaselab/drug
2025-12-12T13:32:14,352   copying src/phaselab/drug/variability.py -> build/lib/phaselab/drug
2025-12-12T13:32:14,354   copying src/phaselab/drug/pharmacokinetics.py -> build/lib/phaselab/drug
2025-12-12T13:32:14,357   copying src/phaselab/drug/__init__.py -> build/lib/phaselab/drug
2025-12-12T13:32:14,358   running egg_info
2025-12-12T13:32:14,370   writing src/phaselab.egg-info/PKG-INFO
2025-12-12T13:32:14,379   writing dependency_links to src/phaselab.egg-info/dependency_links.txt
2025-12-12T13:32:14,380   writing entry points to src/phaselab.egg-info/entry_points.txt
2025-12-12T13:32:14,386   writing requirements to src/phaselab.egg-info/requires.txt
2025-12-12T13:32:14,387   writing top-level names to src/phaselab.egg-info/top_level.txt
2025-12-12T13:32:14,406   reading manifest file 'src/phaselab.egg-info/SOURCES.txt'
2025-12-12T13:32:14,411   adding license file 'LICENSE'
2025-12-12T13:32:14,415   writing manifest file 'src/phaselab.egg-info/SOURCES.txt'
2025-12-12T13:32:14,423   copying src/phaselab/targets/SCN2A.yaml -> build/lib/phaselab/targets
2025-12-12T13:32:14,426   copying src/phaselab/targets/PTEN.yaml -> build/lib/phaselab/targets
2025-12-12T13:32:14,428   copying src/phaselab/targets/RAI1.yaml -> build/lib/phaselab/targets
2025-12-12T13:32:14,446   installing to build/bdist.linux-armv7l/wheel
2025-12-12T13:32:14,447   running install
2025-12-12T13:32:14,470   running install_lib
2025-12-12T13:32:14,477   creating build/bdist.linux-armv7l/wheel
2025-12-12T13:32:14,479   creating build/bdist.linux-armv7l/wheel/phaselab
2025-12-12T13:32:14,480   creating build/bdist.linux-armv7l/wheel/phaselab/protein
2025-12-12T13:32:14,482   copying build/lib/phaselab/protein/__init__.py -> build/bdist.linux-armv7l/wheel/./phaselab/protein
2025-12-12T13:32:14,483   copying build/lib/phaselab/protein/dynamics.py -> build/bdist.linux-armv7l/wheel/./phaselab/protein
2025-12-12T13:32:14,486   copying build/lib/phaselab/protein/binding.py -> build/bdist.linux-armv7l/wheel/./phaselab/protein
2025-12-12T13:32:14,488   copying build/lib/phaselab/protein/folding.py -> build/bdist.linux-armv7l/wheel/./phaselab/protein
2025-12-12T13:32:14,491   creating build/bdist.linux-armv7l/wheel/phaselab/circadian
2025-12-12T13:32:14,492   copying build/lib/phaselab/circadian/kuramoto.py -> build/bdist.linux-armv7l/wheel/./phaselab/circadian
2025-12-12T13:32:14,494   copying build/lib/phaselab/circadian/__init__.py -> build/bdist.linux-armv7l/wheel/./phaselab/circadian
2025-12-12T13:32:14,496   copying build/lib/phaselab/circadian/multi_tissue.py -> build/bdist.linux-armv7l/wheel/./phaselab/circadian
2025-12-12T13:32:14,498   copying build/lib/phaselab/circadian/sms_model.py -> build/bdist.linux-armv7l/wheel/./phaselab/circadian
2025-12-12T13:32:14,501   creating build/bdist.linux-armv7l/wheel/phaselab/delivery
2025-12-12T13:32:14,502   copying build/lib/phaselab/delivery/immunogenicity.py -> build/bdist.linux-armv7l/wheel/./phaselab/delivery
2025-12-12T13:32:14,504   copying build/lib/phaselab/delivery/__init__.py -> build/bdist.linux-armv7l/wheel/./phaselab/delivery
2025-12-12T13:32:14,506   copying build/lib/phaselab/delivery/aav.py -> build/bdist.linux-armv7l/wheel/./phaselab/delivery
2025-12-12T13:32:14,509   creating build/bdist.linux-armv7l/wheel/phaselab/therapy
2025-12-12T13:32:14,510   copying build/lib/phaselab/therapy/__init__.py -> build/bdist.linux-armv7l/wheel/./phaselab/therapy
2025-12-12T13:32:14,512   copying build/lib/phaselab/therapy/dosage.py -> build/bdist.linux-armv7l/wheel/./phaselab/therapy
2025-12-12T13:32:14,514   copying build/lib/phaselab/therapy/efficacy.py -> build/bdist.linux-armv7l/wheel/./phaselab/therapy
2025-12-12T13:32:14,517   creating build/bdist.linux-armv7l/wheel/phaselab/chromatin
2025-12-12T13:32:14,518   copying build/lib/phaselab/chromatin/nucleosome.py -> build/bdist.linux-armv7l/wheel/./phaselab/chromatin
2025-12-12T13:32:14,520   copying build/lib/phaselab/chromatin/atac_integration.py -> build/bdist.linux-armv7l/wheel/./phaselab/chromatin
2025-12-12T13:32:14,523   copying build/lib/phaselab/chromatin/accessibility.py -> build/bdist.linux-armv7l/wheel/./phaselab/chromatin
2025-12-12T13:32:14,525   copying build/lib/phaselab/chromatin/methylation.py -> build/bdist.linux-armv7l/wheel/./phaselab/chromatin
2025-12-12T13:32:14,527   copying build/lib/phaselab/chromatin/__init__.py -> build/bdist.linux-armv7l/wheel/./phaselab/chromatin
2025-12-12T13:32:14,529   copying build/lib/phaselab/chromatin/integration.py -> build/bdist.linux-armv7l/wheel/./phaselab/chromatin
2025-12-12T13:32:14,532   copying build/lib/phaselab/chromatin/tissue_models.py -> build/bdist.linux-armv7l/wheel/./phaselab/chromatin
2025-12-12T13:32:14,534   copying build/lib/phaselab/__init__.py -> build/bdist.linux-armv7l/wheel/./phaselab
2025-12-12T13:32:14,536   creating build/bdist.linux-armv7l/wheel/phaselab/targets
2025-12-12T13:32:14,537   copying build/lib/phaselab/targets/SCN2A.yaml -> build/bdist.linux-armv7l/wheel/./phaselab/targets
2025-12-12T13:32:14,539   copying build/lib/phaselab/targets/config.py -> build/bdist.linux-armv7l/wheel/./phaselab/targets
2025-12-12T13:32:14,541   copying build/lib/phaselab/targets/PTEN.yaml -> build/bdist.linux-armv7l/wheel/./phaselab/targets
2025-12-12T13:32:14,543   copying build/lib/phaselab/targets/__init__.py -> build/bdist.linux-armv7l/wheel/./phaselab/targets
2025-12-12T13:32:14,545   copying build/lib/phaselab/targets/RAI1.yaml -> build/bdist.linux-armv7l/wheel/./phaselab/targets
2025-12-12T13:32:14,547   creating build/bdist.linux-armv7l/wheel/phaselab/crispr
2025-12-12T13:32:14,548   copying build/lib/phaselab/crispr/scoring.py -> build/bdist.linux-armv7l/wheel/./phaselab/crispr
2025-12-12T13:32:14,551   copying build/lib/phaselab/crispr/editors.py -> build/bdist.linux-armv7l/wheel/./phaselab/crispr
2025-12-12T13:32:14,553   copying build/lib/phaselab/crispr/interference.py -> build/bdist.linux-armv7l/wheel/./phaselab/crispr
2025-12-12T13:32:14,555   copying build/lib/phaselab/crispr/prime_editing.py -> build/bdist.linux-armv7l/wheel/./phaselab/crispr
2025-12-12T13:32:14,558   copying build/lib/phaselab/crispr/pam_scan.py -> build/bdist.linux-armv7l/wheel/./phaselab/crispr
2025-12-12T13:32:14,560   copying build/lib/phaselab/crispr/pipeline.py -> build/bdist.linux-armv7l/wheel/./phaselab/crispr
2025-12-12T13:32:14,562   copying build/lib/phaselab/crispr/__init__.py -> build/bdist.linux-armv7l/wheel/./phaselab/crispr
2025-12-12T13:32:14,564   copying build/lib/phaselab/crispr/multiguide.py -> build/bdist.linux-armv7l/wheel/./phaselab/crispr
2025-12-12T13:32:14,566   copying build/lib/phaselab/crispr/enhancer.py -> build/bdist.linux-armv7l/wheel/./phaselab/crispr
2025-12-12T13:32:14,569   copying build/lib/phaselab/crispr/knockout.py -> build/bdist.linux-armv7l/wheel/./phaselab/crispr
2025-12-12T13:32:14,571   copying build/lib/phaselab/crispr/base_editing.py -> build/bdist.linux-armv7l/wheel/./phaselab/crispr
2025-12-12T13:32:14,574   creating build/bdist.linux-armv7l/wheel/phaselab/core
2025-12-12T13:32:14,575   copying build/lib/phaselab/core/hamiltonians.py -> build/bdist.linux-armv7l/wheel/./phaselab/core
2025-12-12T13:32:14,578   copying build/lib/phaselab/core/__init__.py -> build/bdist.linux-armv7l/wheel/./phaselab/core
2025-12-12T13:32:14,579   copying build/lib/phaselab/core/constants.py -> build/bdist.linux-armv7l/wheel/./phaselab/core
2025-12-12T13:32:14,581   copying build/lib/phaselab/core/coherence.py -> build/bdist.linux-armv7l/wheel/./phaselab/core
2025-12-12T13:32:14,584   creating build/bdist.linux-armv7l/wheel/phaselab/io
2025-12-12T13:32:14,585   copying build/lib/phaselab/io/export.py -> build/bdist.linux-armv7l/wheel/./phaselab/io
2025-12-12T13:32:14,587   copying build/lib/phaselab/io/__init__.py -> build/bdist.linux-armv7l/wheel/./phaselab/io
2025-12-12T13:32:14,589   copying build/lib/phaselab/io/report.py -> build/bdist.linux-armv7l/wheel/./phaselab/io
2025-12-12T13:32:14,592   creating build/bdist.linux-armv7l/wheel/phaselab/drug
2025-12-12T13:32:14,593   copying build/lib/phaselab/drug/chronotherapy.py -> build/bdist.linux-armv7l/wheel/./phaselab/drug
2025-12-12T13:32:14,595   copying build/lib/phaselab/drug/variability.py -> build/bdist.linux-armv7l/wheel/./phaselab/drug
2025-12-12T13:32:14,598   copying build/lib/phaselab/drug/pharmacokinetics.py -> build/bdist.linux-armv7l/wheel/./phaselab/drug
2025-12-12T13:32:14,600   copying build/lib/phaselab/drug/__init__.py -> build/bdist.linux-armv7l/wheel/./phaselab/drug
2025-12-12T13:32:14,602   running install_egg_info
2025-12-12T13:32:14,607   Copying src/phaselab.egg-info to build/bdist.linux-armv7l/wheel/./phaselab-0.5.0-py3.11.egg-info
2025-12-12T13:32:14,619   running install_scripts
2025-12-12T13:32:14,630   creating build/bdist.linux-armv7l/wheel/phaselab-0.5.0.dist-info/WHEEL
2025-12-12T13:32:14,633   creating '/tmp/pip-wheel-7ktniwid/.tmp-so0kqxm5/phaselab-0.5.0-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2025-12-12T13:32:14,636   adding 'phaselab/__init__.py'
2025-12-12T13:32:14,638   adding 'phaselab/chromatin/__init__.py'
2025-12-12T13:32:14,640   adding 'phaselab/chromatin/accessibility.py'
2025-12-12T13:32:14,643   adding 'phaselab/chromatin/atac_integration.py'
2025-12-12T13:32:14,645   adding 'phaselab/chromatin/integration.py'
2025-12-12T13:32:14,648   adding 'phaselab/chromatin/methylation.py'
2025-12-12T13:32:14,650   adding 'phaselab/chromatin/nucleosome.py'
2025-12-12T13:32:14,652   adding 'phaselab/chromatin/tissue_models.py'
2025-12-12T13:32:14,654   adding 'phaselab/circadian/__init__.py'
2025-12-12T13:32:14,655   adding 'phaselab/circadian/kuramoto.py'
2025-12-12T13:32:14,657   adding 'phaselab/circadian/multi_tissue.py'
2025-12-12T13:32:14,659   adding 'phaselab/circadian/sms_model.py'
2025-12-12T13:32:14,661   adding 'phaselab/core/__init__.py'
2025-12-12T13:32:14,662   adding 'phaselab/core/coherence.py'
2025-12-12T13:32:14,663   adding 'phaselab/core/constants.py'
2025-12-12T13:32:14,665   adding 'phaselab/core/hamiltonians.py'
2025-12-12T13:32:14,667   adding 'phaselab/crispr/__init__.py'
2025-12-12T13:32:14,669   adding 'phaselab/crispr/base_editing.py'
2025-12-12T13:32:14,671   adding 'phaselab/crispr/editors.py'
2025-12-12T13:32:14,674   adding 'phaselab/crispr/enhancer.py'
2025-12-12T13:32:14,676   adding 'phaselab/crispr/interference.py'
2025-12-12T13:32:14,678   adding 'phaselab/crispr/knockout.py'
2025-12-12T13:32:14,681   adding 'phaselab/crispr/multiguide.py'
2025-12-12T13:32:14,682   adding 'phaselab/crispr/pam_scan.py'
2025-12-12T13:32:14,684   adding 'phaselab/crispr/pipeline.py'
2025-12-12T13:32:14,687   adding 'phaselab/crispr/prime_editing.py'
2025-12-12T13:32:14,689   adding 'phaselab/crispr/scoring.py'
2025-12-12T13:32:14,690   adding 'phaselab/delivery/__init__.py'
2025-12-12T13:32:14,693   adding 'phaselab/delivery/aav.py'
2025-12-12T13:32:14,695   adding 'phaselab/delivery/immunogenicity.py'
2025-12-12T13:32:14,697   adding 'phaselab/drug/__init__.py'
2025-12-12T13:32:14,699   adding 'phaselab/drug/chronotherapy.py'
2025-12-12T13:32:14,701   adding 'phaselab/drug/pharmacokinetics.py'
2025-12-12T13:32:14,703   adding 'phaselab/drug/variability.py'
2025-12-12T13:32:14,704   adding 'phaselab/io/__init__.py'
2025-12-12T13:32:14,706   adding 'phaselab/io/export.py'
2025-12-12T13:32:14,708   adding 'phaselab/io/report.py'
2025-12-12T13:32:14,710   adding 'phaselab/protein/__init__.py'
2025-12-12T13:32:14,711   adding 'phaselab/protein/binding.py'
2025-12-12T13:32:14,713   adding 'phaselab/protein/dynamics.py'
2025-12-12T13:32:14,715   adding 'phaselab/protein/folding.py'
2025-12-12T13:32:14,717   adding 'phaselab/targets/PTEN.yaml'
2025-12-12T13:32:14,718   adding 'phaselab/targets/RAI1.yaml'
2025-12-12T13:32:14,719   adding 'phaselab/targets/SCN2A.yaml'
2025-12-12T13:32:14,720   adding 'phaselab/targets/__init__.py'
2025-12-12T13:32:14,722   adding 'phaselab/targets/config.py'
2025-12-12T13:32:14,724   adding 'phaselab/therapy/__init__.py'
2025-12-12T13:32:14,726   adding 'phaselab/therapy/dosage.py'
2025-12-12T13:32:14,728   adding 'phaselab/therapy/efficacy.py'
2025-12-12T13:32:14,731   adding 'phaselab-0.5.0.dist-info/licenses/LICENSE'
2025-12-12T13:32:14,733   adding 'phaselab-0.5.0.dist-info/METADATA'
2025-12-12T13:32:14,734   adding 'phaselab-0.5.0.dist-info/WHEEL'
2025-12-12T13:32:14,735   adding 'phaselab-0.5.0.dist-info/entry_points.txt'
2025-12-12T13:32:14,736   adding 'phaselab-0.5.0.dist-info/top_level.txt'
2025-12-12T13:32:14,737   adding 'phaselab-0.5.0.dist-info/RECORD'
2025-12-12T13:32:14,740   removing build/bdist.linux-armv7l/wheel
2025-12-12T13:32:14,854   Building wheel for phaselab (pyproject.toml): finished with status 'done'
2025-12-12T13:32:14,861   Created wheel for phaselab: filename=phaselab-0.5.0-py3-none-any.whl size=142664 sha256=33fcb6fab88f95025b81925c6e447fc7d46abe9bf29b31e94c33b675955a4e4f
2025-12-12T13:32:14,862   Stored in directory: /tmp/pip-ephem-wheel-cache-2w4xt9zg/wheels/df/c6/a4/a9bff931371fb622a9a6664b0a1d9f0d877219713f547ab8e3
2025-12-12T13:32:14,877 Successfully built phaselab
2025-12-12T13:32:14,883 Removed build tracker: '/tmp/pip-build-tracker-dimsrz4a'