2026-03-04T16:22:57,818 Created temporary directory: /tmp/pip-ephem-wheel-cache-iqkrf991
2026-03-04T16:22:57,820 Created temporary directory: /tmp/pip-build-tracker-xscxlg52
2026-03-04T16:22:57,821 Initialized build tracking at /tmp/pip-build-tracker-xscxlg52
2026-03-04T16:22:57,821 Created build tracker: /tmp/pip-build-tracker-xscxlg52
2026-03-04T16:22:57,822 Entered build tracker: /tmp/pip-build-tracker-xscxlg52
2026-03-04T16:22:57,823 Created temporary directory: /tmp/pip-wheel-yb01h4bo
2026-03-04T16:22:57,825 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
2026-03-04T16:22:57,828 Created temporary directory: /tmp/pip-ephem-wheel-cache-6lq_2z_k
2026-03-04T16:22:57,852 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2026-03-04T16:22:57,856 2 location(s) to search for versions of phynetpy:
2026-03-04T16:22:57,856 * https://pypi.org/simple/phynetpy/
2026-03-04T16:22:57,856 * https://www.piwheels.org/simple/phynetpy/
2026-03-04T16:22:57,857 Fetching project page and analyzing links: https://pypi.org/simple/phynetpy/
2026-03-04T16:22:57,857 Getting page https://pypi.org/simple/phynetpy/
2026-03-04T16:22:57,859 Found index url https://pypi.org/simple
2026-03-04T16:22:58,075 Fetched page https://pypi.org/simple/phynetpy/ as application/vnd.pypi.simple.v1+json
2026-03-04T16:22:58,078   Skipping link: No binaries permitted for phynetpy: https://files.pythonhosted.org/packages/ca/09/330fee700fddd31c7a667cc70c35300e3a4771a3eada01cfd210cffff202/PhyNetPy-0.0.1-py3-none-any.whl (from https://pypi.org/simple/phynetpy/) (requires-python:>=3.8)
2026-03-04T16:22:58,079   Found link https://files.pythonhosted.org/packages/07/c0/6926e821f0eda581cce14244b828941991c1224f468b0e16f77d80f63a8b/PhyNetPy-0.0.3.tar.gz (from https://pypi.org/simple/phynetpy/) (requires-python:>=3.8), version: 0.0.3
2026-03-04T16:22:58,080   Found link https://files.pythonhosted.org/packages/12/5a/4771d05caf1f35a2bed8a225f0d0e5451d92ca18b69b5f38840265b5fd66/PhyNetPy-0.0.7.tar.gz (from https://pypi.org/simple/phynetpy/) (requires-python:>=3.8), version: 0.0.7
2026-03-04T16:22:58,081   Found link https://files.pythonhosted.org/packages/ee/ed/e36b0cbe28e5be4ff209d3761fc9285e484f500538e89d8ef762cdd52f40/PhyNetPy-0.0.8.tar.gz (from https://pypi.org/simple/phynetpy/) (requires-python:>=3.8), version: 0.0.8
2026-03-04T16:22:58,082   Skipping link: No binaries permitted for phynetpy: https://files.pythonhosted.org/packages/84/cb/d3e4aae93b7b081c45816588bcee1e82c94971d3f018cd80e2dfe7cf7e25/phynetpy-0.2.0-py3-none-any.whl (from https://pypi.org/simple/phynetpy/) (requires-python:<4,>=3.8)
2026-03-04T16:22:58,083   Found link https://files.pythonhosted.org/packages/88/ec/0566d2580987848f9e29932b915fc9666baef4250712715554f47054fea1/phynetpy-0.2.0.tar.gz (from https://pypi.org/simple/phynetpy/) (requires-python:<4,>=3.8), version: 0.2.0
2026-03-04T16:22:58,083   Skipping link: No binaries permitted for phynetpy: https://files.pythonhosted.org/packages/dc/52/3ba4d13005377b3ed52911f887c93e88884edf45d4c40aa90c2ac56be03b/phynetpy-0.3.0-py3-none-any.whl (from https://pypi.org/simple/phynetpy/) (requires-python:<4,>=3.8)
2026-03-04T16:22:58,084   Found link https://files.pythonhosted.org/packages/30/3e/7ce7d0f4d874356d6c081b3602feeaa88d9fa30bba6dcc92d246abb06b3e/phynetpy-0.3.0.tar.gz (from https://pypi.org/simple/phynetpy/) (requires-python:<4,>=3.8), version: 0.3.0
2026-03-04T16:22:58,085 Fetching project page and analyzing links: https://www.piwheels.org/simple/phynetpy/
2026-03-04T16:22:58,086 Getting page https://www.piwheels.org/simple/phynetpy/
2026-03-04T16:22:58,087 Found index url https://www.piwheels.org/simple
2026-03-04T16:22:58,246 Fetched page https://www.piwheels.org/simple/phynetpy/ as text/html
2026-03-04T16:22:58,249   Skipping link: No binaries permitted for phynetpy: https://archive1.piwheels.org/simple/phynetpy/phynetpy-0.2.0-py3-none-any.whl#sha256=5da2d5282e26d40fec52bd4989634a1459a84f87d21bde344ebaa8d1163cfa83 (from https://www.piwheels.org/simple/phynetpy/) (requires-python:>=3.8, <4)
2026-03-04T16:22:58,250   Skipping link: No binaries permitted for phynetpy: https://archive1.piwheels.org/simple/phynetpy/PhyNetPy-0.1.0-py3-none-any.whl#sha256=6e28656e552521e811ba9c1c9a7fe9b88ec882d9c1bfb898ea789ca8e45c98c7 (from https://www.piwheels.org/simple/phynetpy/) (requires-python:>=3.8)
2026-03-04T16:22:58,250   Skipping link: No binaries permitted for phynetpy: https://archive1.piwheels.org/simple/phynetpy/PhyNetPy-0.0.8-py3-none-any.whl#sha256=a2de25eda6a0d35c114a9fe90ed21157ecc2e5d5ad8c1fcd602ce24b9ffd22b3 (from https://www.piwheels.org/simple/phynetpy/) (requires-python:>=3.8)
2026-03-04T16:22:58,251   Skipping link: No binaries permitted for phynetpy: https://archive1.piwheels.org/simple/phynetpy/PhyNetPy-0.0.7-py3-none-any.whl#sha256=9b8c80272af518d16582a09c6dbf183f3c50c7bda7481812461144ccbfdb6702 (from https://www.piwheels.org/simple/phynetpy/) (requires-python:>=3.8)
2026-03-04T16:22:58,251   Skipping link: No binaries permitted for phynetpy: https://archive1.piwheels.org/simple/phynetpy/PhyNetPy-0.0.3-py3-none-any.whl#sha256=daaf000f384f301addcda39f19569d5dab0097cdd8603085af86618ab61ab0a2 (from https://www.piwheels.org/simple/phynetpy/) (requires-python:>=3.8)
2026-03-04T16:22:58,252 Skipping link: not a file: https://www.piwheels.org/simple/phynetpy/
2026-03-04T16:22:58,252 Skipping link: not a file: https://pypi.org/simple/phynetpy/
2026-03-04T16:22:58,272 Given no hashes to check 1 links for project 'phynetpy': discarding no candidates
2026-03-04T16:22:58,290 Collecting phynetpy==0.3.0
2026-03-04T16:22:58,292   Created temporary directory: /tmp/pip-unpack-06nzmpdk
2026-03-04T16:22:58,429   Downloading phynetpy-0.3.0.tar.gz (173 kB)
2026-03-04T16:22:58,621   Added phynetpy==0.3.0 from https://files.pythonhosted.org/packages/30/3e/7ce7d0f4d874356d6c081b3602feeaa88d9fa30bba6dcc92d246abb06b3e/phynetpy-0.3.0.tar.gz to build tracker '/tmp/pip-build-tracker-xscxlg52'
2026-03-04T16:22:58,625   Created temporary directory: /tmp/pip-build-env-s_ljwv2r
2026-03-04T16:22:58,629   Installing build dependencies: started
2026-03-04T16:22:58,630   Running command pip subprocess to install build dependencies
2026-03-04T16:22:59,783   Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11)
2026-03-04T16:23:00,326   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
2026-03-04T16:23:00,348   Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2026-03-04T16:23:02,100   Collecting setuptools>=61
2026-03-04T16:23:02,176     Using cached https://www.piwheels.org/simple/setuptools/setuptools-82.0.0-py3-none-any.whl (1.0 MB)
2026-03-04T16:23:02,447   Collecting wheel
2026-03-04T16:23:02,463     Using cached https://www.piwheels.org/simple/wheel/wheel-0.46.3-py3-none-any.whl (30 kB)
2026-03-04T16:23:02,648   Collecting packaging>=24.0
2026-03-04T16:23:02,666     Using cached https://www.piwheels.org/simple/packaging/packaging-26.0-py3-none-any.whl (74 kB)
2026-03-04T16:23:05,585   Installing collected packages: setuptools, packaging, wheel
2026-03-04T16:23:08,985     Creating /tmp/pip-build-env-s_ljwv2r/overlay/local/bin
2026-03-04T16:23:08,988     changing mode of /tmp/pip-build-env-s_ljwv2r/overlay/local/bin/wheel to 755
2026-03-04T16:23:09,009   Successfully installed packaging-26.0 setuptools-82.0.0 wheel-0.46.3
2026-03-04T16:23:09,286   Installing build dependencies: finished with status 'done'
2026-03-04T16:23:09,292   Getting requirements to build wheel: started
2026-03-04T16:23:09,294   Running command Getting requirements to build wheel
2026-03-04T16:23:09,871   /tmp/pip-build-env-s_ljwv2r/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:765: SetuptoolsDeprecationWarning: License classifiers are deprecated.
2026-03-04T16:23:09,872   !!

2026-03-04T16:23:09,873           ********************************************************************************
2026-03-04T16:23:09,874           Please consider removing the following classifiers in favor of a SPDX license expression:

2026-03-04T16:23:09,876           License :: OSI Approved :: MIT License

2026-03-04T16:23:09,878           See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details.
2026-03-04T16:23:09,878           ********************************************************************************

2026-03-04T16:23:09,880   !!
2026-03-04T16:23:09,881     self._finalize_license_expression()
2026-03-04T16:23:09,902   Cython not found - installing pure Python version
2026-03-04T16:23:09,902   For better performance, install Cython: pip install cython
2026-03-04T16:23:09,903   running egg_info
2026-03-04T16:23:09,908   writing phynetpy.egg-info/PKG-INFO
2026-03-04T16:23:09,913   writing dependency_links to phynetpy.egg-info/dependency_links.txt
2026-03-04T16:23:09,916   writing requirements to phynetpy.egg-info/requires.txt
2026-03-04T16:23:09,917   writing top-level names to phynetpy.egg-info/top_level.txt
2026-03-04T16:23:09,951   reading manifest file 'phynetpy.egg-info/SOURCES.txt'
2026-03-04T16:23:09,957   reading manifest template 'MANIFEST.in'
2026-03-04T16:23:10,007   no previously-included directories found matching '.venv'
2026-03-04T16:23:10,008   no previously-included directories found matching '.git'
2026-03-04T16:23:10,009   no previously-included directories found matching '.cursor'
2026-03-04T16:23:10,010   no previously-included directories found matching 'archive'
2026-03-04T16:23:10,011   no previously-included directories found matching 'build'
2026-03-04T16:23:10,012   no previously-included directories found matching 'dist'
2026-03-04T16:23:10,021   no previously-included directories found matching 'tests'
2026-03-04T16:23:10,022   no previously-included directories found matching '1.1'
2026-03-04T16:23:10,023   no previously-included directories found matching 'ABC'
2026-03-04T16:23:10,023   no previously-included directories found matching 'Bayesian'
2026-03-04T16:23:10,024   no previously-included directories found matching 'DEFJ'
2026-03-04T16:23:10,025   no previously-included directories found matching 'DLLS'
2026-03-04T16:23:10,026   no previously-included directories found matching 'Guides'
2026-03-04T16:23:10,027   no previously-included directories found matching 'NexusFiles'
2026-03-04T16:23:10,028   warning: no previously-included files matching '*.pyc' found anywhere in distribution
2026-03-04T16:23:10,028   warning: no previously-included files matching '__pycache__' found anywhere in distribution
2026-03-04T16:23:10,029   warning: no previously-included files matching '*.so' found anywhere in distribution
2026-03-04T16:23:10,030   warning: no previously-included files matching '*.c' found anywhere in distribution
2026-03-04T16:23:10,031   adding license file 'LICENSE'
2026-03-04T16:23:10,031   writing manifest file 'phynetpy.egg-info/SOURCES.txt'
2026-03-04T16:23:10,113   Getting requirements to build wheel: finished with status 'done'
2026-03-04T16:23:10,117   Created temporary directory: /tmp/pip-modern-metadata-1_zy6huy
2026-03-04T16:23:10,121   Preparing metadata (pyproject.toml): started
2026-03-04T16:23:10,123   Running command Preparing metadata (pyproject.toml)
2026-03-04T16:23:10,747   /tmp/pip-build-env-s_ljwv2r/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:765: SetuptoolsDeprecationWarning: License classifiers are deprecated.
2026-03-04T16:23:10,747   !!

2026-03-04T16:23:10,748           ********************************************************************************
2026-03-04T16:23:10,749           Please consider removing the following classifiers in favor of a SPDX license expression:

2026-03-04T16:23:10,750           License :: OSI Approved :: MIT License

2026-03-04T16:23:10,751           See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details.
2026-03-04T16:23:10,751           ********************************************************************************

2026-03-04T16:23:10,753   !!
2026-03-04T16:23:10,754     self._finalize_license_expression()
2026-03-04T16:23:10,771   Cython not found - installing pure Python version
2026-03-04T16:23:10,772   For better performance, install Cython: pip install cython
2026-03-04T16:23:10,772   running dist_info
2026-03-04T16:23:10,782   creating /tmp/pip-modern-metadata-1_zy6huy/phynetpy.egg-info
2026-03-04T16:23:10,783   writing /tmp/pip-modern-metadata-1_zy6huy/phynetpy.egg-info/PKG-INFO
2026-03-04T16:23:10,788   writing dependency_links to /tmp/pip-modern-metadata-1_zy6huy/phynetpy.egg-info/dependency_links.txt
2026-03-04T16:23:10,791   writing requirements to /tmp/pip-modern-metadata-1_zy6huy/phynetpy.egg-info/requires.txt
2026-03-04T16:23:10,792   writing top-level names to /tmp/pip-modern-metadata-1_zy6huy/phynetpy.egg-info/top_level.txt
2026-03-04T16:23:10,794   writing manifest file '/tmp/pip-modern-metadata-1_zy6huy/phynetpy.egg-info/SOURCES.txt'
2026-03-04T16:23:10,819   reading manifest file '/tmp/pip-modern-metadata-1_zy6huy/phynetpy.egg-info/SOURCES.txt'
2026-03-04T16:23:10,821   reading manifest template 'MANIFEST.in'
2026-03-04T16:23:10,845   no previously-included directories found matching '.venv'
2026-03-04T16:23:10,846   no previously-included directories found matching '.git'
2026-03-04T16:23:10,847   no previously-included directories found matching '.cursor'
2026-03-04T16:23:10,847   no previously-included directories found matching 'archive'
2026-03-04T16:23:10,848   no previously-included directories found matching 'build'
2026-03-04T16:23:10,848   no previously-included directories found matching 'dist'
2026-03-04T16:23:10,849   no previously-included directories found matching 'tests'
2026-03-04T16:23:10,850   no previously-included directories found matching 'phynetpy.egg-info'
2026-03-04T16:23:10,851   no previously-included directories found matching '1.1'
2026-03-04T16:23:10,851   no previously-included directories found matching 'ABC'
2026-03-04T16:23:10,852   no previously-included directories found matching 'Bayesian'
2026-03-04T16:23:10,853   no previously-included directories found matching 'DEFJ'
2026-03-04T16:23:10,854   no previously-included directories found matching 'DLLS'
2026-03-04T16:23:10,854   no previously-included directories found matching 'Guides'
2026-03-04T16:23:10,855   no previously-included directories found matching 'NexusFiles'
2026-03-04T16:23:10,856   warning: no previously-included files matching '*.pyc' found anywhere in distribution
2026-03-04T16:23:10,857   warning: no previously-included files matching '__pycache__' found anywhere in distribution
2026-03-04T16:23:10,857   warning: no previously-included files matching '*.so' found anywhere in distribution
2026-03-04T16:23:10,858   warning: no previously-included files matching '*.c' found anywhere in distribution
2026-03-04T16:23:10,859   adding license file 'LICENSE'
2026-03-04T16:23:10,863   writing manifest file '/tmp/pip-modern-metadata-1_zy6huy/phynetpy.egg-info/SOURCES.txt'
2026-03-04T16:23:10,864   creating '/tmp/pip-modern-metadata-1_zy6huy/phynetpy-0.3.0.dist-info'
2026-03-04T16:23:10,986   Preparing metadata (pyproject.toml): finished with status 'done'
2026-03-04T16:23:10,991   Source in /tmp/pip-wheel-yb01h4bo/phynetpy_69223c92ac584a5b84c7917bb487b750 has version 0.3.0, which satisfies requirement phynetpy==0.3.0 from https://files.pythonhosted.org/packages/30/3e/7ce7d0f4d874356d6c081b3602feeaa88d9fa30bba6dcc92d246abb06b3e/phynetpy-0.3.0.tar.gz
2026-03-04T16:23:10,992   Removed phynetpy==0.3.0 from https://files.pythonhosted.org/packages/30/3e/7ce7d0f4d874356d6c081b3602feeaa88d9fa30bba6dcc92d246abb06b3e/phynetpy-0.3.0.tar.gz from build tracker '/tmp/pip-build-tracker-xscxlg52'
2026-03-04T16:23:10,998 Created temporary directory: /tmp/pip-unpack-whf_pz4r
2026-03-04T16:23:10,999 Building wheels for collected packages: phynetpy
2026-03-04T16:23:11,003   Created temporary directory: /tmp/pip-wheel-glqw8yjn
2026-03-04T16:23:11,004   Destination directory: /tmp/pip-wheel-glqw8yjn
2026-03-04T16:23:11,006   Building wheel for phynetpy (pyproject.toml): started
2026-03-04T16:23:11,007   Running command Building wheel for phynetpy (pyproject.toml)
2026-03-04T16:23:11,567   /tmp/pip-build-env-s_ljwv2r/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:765: SetuptoolsDeprecationWarning: License classifiers are deprecated.
2026-03-04T16:23:11,567   !!

2026-03-04T16:23:11,568           ********************************************************************************
2026-03-04T16:23:11,568           Please consider removing the following classifiers in favor of a SPDX license expression:

2026-03-04T16:23:11,570           License :: OSI Approved :: MIT License

2026-03-04T16:23:11,571           See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details.
2026-03-04T16:23:11,571           ********************************************************************************

2026-03-04T16:23:11,572   !!
2026-03-04T16:23:11,573     self._finalize_license_expression()
2026-03-04T16:23:11,590   Cython not found - installing pure Python version
2026-03-04T16:23:11,591   For better performance, install Cython: pip install cython
2026-03-04T16:23:11,591   running bdist_wheel
2026-03-04T16:23:11,617   running build
2026-03-04T16:23:11,618   running build_py
2026-03-04T16:23:11,627   creating build/lib/phynetpy
2026-03-04T16:23:11,630   copying src/MetropolisHastings.py -> build/lib/phynetpy
2026-03-04T16:23:11,632   copying src/Network.py -> build/lib/phynetpy
2026-03-04T16:23:11,637   copying src/Phylo.py -> build/lib/phynetpy
2026-03-04T16:23:11,639   copying src/Newick.py -> build/lib/phynetpy
2026-03-04T16:23:11,641   copying src/GTR.py -> build/lib/phynetpy
2026-03-04T16:23:11,644   copying src/ModelMove.py -> build/lib/phynetpy
2026-03-04T16:23:11,646   copying src/BirthDeath.py -> build/lib/phynetpy
2026-03-04T16:23:11,649   copying src/Matrix.py -> build/lib/phynetpy
2026-03-04T16:23:11,652   copying src/__init__.py -> build/lib/phynetpy
2026-03-04T16:23:11,654   copying src/Logger.py -> build/lib/phynetpy
2026-03-04T16:23:11,655   copying src/Alphabet.py -> build/lib/phynetpy
2026-03-04T16:23:11,658   copying src/ModelGraph.py -> build/lib/phynetpy
2026-03-04T16:23:11,660   copying src/SNPSimulator.py -> build/lib/phynetpy
2026-03-04T16:23:11,663   copying src/graph_core.py -> build/lib/phynetpy
2026-03-04T16:23:11,665   copying src/BiMarkers.py -> build/lib/phynetpy
2026-03-04T16:23:11,668   copying src/GeneTrees.py -> build/lib/phynetpy
2026-03-04T16:23:11,671   copying src/Validation.py -> build/lib/phynetpy
2026-03-04T16:23:11,674   copying src/Traversal.py -> build/lib/phynetpy
2026-03-04T16:23:11,677   copying src/NetworkMoves.py -> build/lib/phynetpy
2026-03-04T16:23:11,679   copying src/GraphUtils.py -> build/lib/phynetpy
2026-03-04T16:23:11,682   copying src/PhyloNet.py -> build/lib/phynetpy
2026-03-04T16:23:11,684   copying src/Executor.py -> build/lib/phynetpy
2026-03-04T16:23:11,687   copying src/Strategy.py -> build/lib/phynetpy
2026-03-04T16:23:11,689   copying src/MSA.py -> build/lib/phynetpy
2026-03-04T16:23:11,692   copying src/ModelFactory.py -> build/lib/phynetpy
2026-03-04T16:23:11,694   copying src/State.py -> build/lib/phynetpy
2026-03-04T16:23:11,696   copying src/IO.py -> build/lib/phynetpy
2026-03-04T16:23:11,699   copying src/Visitor.py -> build/lib/phynetpy
2026-03-04T16:23:11,715   installing to build/bdist.linux-armv7l/wheel
2026-03-04T16:23:11,716   running install
2026-03-04T16:23:11,740   running install_lib
2026-03-04T16:23:11,747   creating build/bdist.linux-armv7l/wheel
2026-03-04T16:23:11,749   creating build/bdist.linux-armv7l/wheel/phynetpy
2026-03-04T16:23:11,751   copying build/lib/phynetpy/MetropolisHastings.py -> build/bdist.linux-armv7l/wheel/./phynetpy
2026-03-04T16:23:11,753   copying build/lib/phynetpy/Network.py -> build/bdist.linux-armv7l/wheel/./phynetpy
2026-03-04T16:23:11,759   copying build/lib/phynetpy/Phylo.py -> build/bdist.linux-armv7l/wheel/./phynetpy
2026-03-04T16:23:11,761   copying build/lib/phynetpy/Newick.py -> build/bdist.linux-armv7l/wheel/./phynetpy
2026-03-04T16:23:11,763   copying build/lib/phynetpy/GTR.py -> build/bdist.linux-armv7l/wheel/./phynetpy
2026-03-04T16:23:11,765   copying build/lib/phynetpy/ModelMove.py -> build/bdist.linux-armv7l/wheel/./phynetpy
2026-03-04T16:23:11,768   copying build/lib/phynetpy/BirthDeath.py -> build/bdist.linux-armv7l/wheel/./phynetpy
2026-03-04T16:23:11,771   copying build/lib/phynetpy/Matrix.py -> build/bdist.linux-armv7l/wheel/./phynetpy
2026-03-04T16:23:11,773   copying build/lib/phynetpy/__init__.py -> build/bdist.linux-armv7l/wheel/./phynetpy
2026-03-04T16:23:11,775   copying build/lib/phynetpy/Logger.py -> build/bdist.linux-armv7l/wheel/./phynetpy
2026-03-04T16:23:11,777   copying build/lib/phynetpy/Alphabet.py -> build/bdist.linux-armv7l/wheel/./phynetpy
2026-03-04T16:23:11,779   copying build/lib/phynetpy/ModelGraph.py -> build/bdist.linux-armv7l/wheel/./phynetpy
2026-03-04T16:23:11,782   copying build/lib/phynetpy/SNPSimulator.py -> build/bdist.linux-armv7l/wheel/./phynetpy
2026-03-04T16:23:11,785   copying build/lib/phynetpy/graph_core.py -> build/bdist.linux-armv7l/wheel/./phynetpy
2026-03-04T16:23:11,786   copying build/lib/phynetpy/BiMarkers.py -> build/bdist.linux-armv7l/wheel/./phynetpy
2026-03-04T16:23:11,790   copying build/lib/phynetpy/GeneTrees.py -> build/bdist.linux-armv7l/wheel/./phynetpy
2026-03-04T16:23:11,792   copying build/lib/phynetpy/Validation.py -> build/bdist.linux-armv7l/wheel/./phynetpy
2026-03-04T16:23:11,795   copying build/lib/phynetpy/Traversal.py -> build/bdist.linux-armv7l/wheel/./phynetpy
2026-03-04T16:23:11,798   copying build/lib/phynetpy/NetworkMoves.py -> build/bdist.linux-armv7l/wheel/./phynetpy
2026-03-04T16:23:11,800   copying build/lib/phynetpy/GraphUtils.py -> build/bdist.linux-armv7l/wheel/./phynetpy
2026-03-04T16:23:11,803   copying build/lib/phynetpy/PhyloNet.py -> build/bdist.linux-armv7l/wheel/./phynetpy
2026-03-04T16:23:11,805   copying build/lib/phynetpy/Executor.py -> build/bdist.linux-armv7l/wheel/./phynetpy
2026-03-04T16:23:11,808   copying build/lib/phynetpy/Strategy.py -> build/bdist.linux-armv7l/wheel/./phynetpy
2026-03-04T16:23:11,810   copying build/lib/phynetpy/MSA.py -> build/bdist.linux-armv7l/wheel/./phynetpy
2026-03-04T16:23:11,813   copying build/lib/phynetpy/ModelFactory.py -> build/bdist.linux-armv7l/wheel/./phynetpy
2026-03-04T16:23:11,815   copying build/lib/phynetpy/State.py -> build/bdist.linux-armv7l/wheel/./phynetpy
2026-03-04T16:23:11,817   copying build/lib/phynetpy/IO.py -> build/bdist.linux-armv7l/wheel/./phynetpy
2026-03-04T16:23:11,821   copying build/lib/phynetpy/Visitor.py -> build/bdist.linux-armv7l/wheel/./phynetpy
2026-03-04T16:23:11,822   running install_egg_info
2026-03-04T16:23:11,842   running egg_info
2026-03-04T16:23:11,847   writing phynetpy.egg-info/PKG-INFO
2026-03-04T16:23:11,852   writing dependency_links to phynetpy.egg-info/dependency_links.txt
2026-03-04T16:23:11,855   writing requirements to phynetpy.egg-info/requires.txt
2026-03-04T16:23:11,856   writing top-level names to phynetpy.egg-info/top_level.txt
2026-03-04T16:23:11,866   reading manifest file 'phynetpy.egg-info/SOURCES.txt'
2026-03-04T16:23:11,869   reading manifest template 'MANIFEST.in'
2026-03-04T16:23:11,893   no previously-included directories found matching '.venv'
2026-03-04T16:23:11,894   no previously-included directories found matching '.git'
2026-03-04T16:23:11,895   no previously-included directories found matching '.cursor'
2026-03-04T16:23:11,895   no previously-included directories found matching 'archive'
2026-03-04T16:23:11,896   no previously-included directories found matching 'build'
2026-03-04T16:23:11,896   no previously-included directories found matching 'dist'
2026-03-04T16:23:11,897   no previously-included directories found matching 'tests'
2026-03-04T16:23:11,898   no previously-included directories found matching '1.1'
2026-03-04T16:23:11,899   no previously-included directories found matching 'ABC'
2026-03-04T16:23:11,899   no previously-included directories found matching 'Bayesian'
2026-03-04T16:23:11,900   no previously-included directories found matching 'DEFJ'
2026-03-04T16:23:11,901   no previously-included directories found matching 'DLLS'
2026-03-04T16:23:11,901   no previously-included directories found matching 'Guides'
2026-03-04T16:23:11,902   no previously-included directories found matching 'NexusFiles'
2026-03-04T16:23:11,903   warning: no previously-included files matching '*.pyc' found anywhere in distribution
2026-03-04T16:23:11,903   warning: no previously-included files matching '__pycache__' found anywhere in distribution
2026-03-04T16:23:11,904   warning: no previously-included files matching '*.so' found anywhere in distribution
2026-03-04T16:23:11,905   warning: no previously-included files matching '*.c' found anywhere in distribution
2026-03-04T16:23:11,906   adding license file 'LICENSE'
2026-03-04T16:23:11,909   writing manifest file 'phynetpy.egg-info/SOURCES.txt'
2026-03-04T16:23:11,911   Copying phynetpy.egg-info to build/bdist.linux-armv7l/wheel/./phynetpy-0.3.0-py3.11.egg-info
2026-03-04T16:23:11,920   running install_scripts
2026-03-04T16:23:11,930   creating build/bdist.linux-armv7l/wheel/phynetpy-0.3.0.dist-info/WHEEL
2026-03-04T16:23:11,933   creating '/tmp/pip-wheel-glqw8yjn/.tmp-6xltgazm/phynetpy-0.3.0-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2026-03-04T16:23:11,936   adding 'phynetpy/Alphabet.py'
2026-03-04T16:23:11,945   adding 'phynetpy/BiMarkers.py'
2026-03-04T16:23:11,949   adding 'phynetpy/BirthDeath.py'
2026-03-04T16:23:11,953   adding 'phynetpy/Executor.py'
2026-03-04T16:23:11,956   adding 'phynetpy/GTR.py'
2026-03-04T16:23:11,960   adding 'phynetpy/GeneTrees.py'
2026-03-04T16:23:11,967   adding 'phynetpy/GraphUtils.py'
2026-03-04T16:23:11,974   adding 'phynetpy/IO.py'
2026-03-04T16:23:11,976   adding 'phynetpy/Logger.py'
2026-03-04T16:23:11,979   adding 'phynetpy/MSA.py'
2026-03-04T16:23:11,981   adding 'phynetpy/Matrix.py'
2026-03-04T16:23:11,983   adding 'phynetpy/MetropolisHastings.py'
2026-03-04T16:23:11,985   adding 'phynetpy/ModelFactory.py'
2026-03-04T16:23:11,987   adding 'phynetpy/ModelGraph.py'
2026-03-04T16:23:11,990   adding 'phynetpy/ModelMove.py'
2026-03-04T16:23:12,008   adding 'phynetpy/Network.py'
2026-03-04T16:23:12,011   adding 'phynetpy/NetworkMoves.py'
2026-03-04T16:23:12,013   adding 'phynetpy/Newick.py'
2026-03-04T16:23:12,014   adding 'phynetpy/Phylo.py'
2026-03-04T16:23:12,015   adding 'phynetpy/PhyloNet.py'
2026-03-04T16:23:12,019   adding 'phynetpy/SNPSimulator.py'
2026-03-04T16:23:12,021   adding 'phynetpy/State.py'
2026-03-04T16:23:12,022   adding 'phynetpy/Strategy.py'
2026-03-04T16:23:12,024   adding 'phynetpy/Traversal.py'
2026-03-04T16:23:12,030   adding 'phynetpy/Validation.py'
2026-03-04T16:23:12,032   adding 'phynetpy/Visitor.py'
2026-03-04T16:23:12,033   adding 'phynetpy/__init__.py'
2026-03-04T16:23:12,034   adding 'phynetpy/graph_core.py'
2026-03-04T16:23:12,037   adding 'phynetpy-0.3.0.dist-info/licenses/LICENSE'
2026-03-04T16:23:12,038   adding 'phynetpy-0.3.0.dist-info/METADATA'
2026-03-04T16:23:12,040   adding 'phynetpy-0.3.0.dist-info/WHEEL'
2026-03-04T16:23:12,040   adding 'phynetpy-0.3.0.dist-info/top_level.txt'
2026-03-04T16:23:12,042   adding 'phynetpy-0.3.0.dist-info/RECORD'
2026-03-04T16:23:12,045   removing build/bdist.linux-armv7l/wheel
2026-03-04T16:23:12,148   Building wheel for phynetpy (pyproject.toml): finished with status 'done'
2026-03-04T16:23:12,156   Created wheel for phynetpy: filename=phynetpy-0.3.0-py3-none-any.whl size=180012 sha256=4e1a7db7eba4f1eccdeef0eb815aae53a6960824dcdb56c26b0cace43b96967b
2026-03-04T16:23:12,158   Stored in directory: /tmp/pip-ephem-wheel-cache-6lq_2z_k/wheels/f1/62/f5/423abff0eaec5f2cda5ee2d68cd285afc06037d7d8807f8db7
2026-03-04T16:23:12,169 Successfully built phynetpy
2026-03-04T16:23:12,177 Removed build tracker: '/tmp/pip-build-tracker-xscxlg52'