2026-03-05T07:21:52,894 Created temporary directory: /tmp/pip-ephem-wheel-cache-6wi0skum 2026-03-05T07:21:52,896 Created temporary directory: /tmp/pip-build-tracker-ftwj8sln 2026-03-05T07:21:52,897 Initialized build tracking at /tmp/pip-build-tracker-ftwj8sln 2026-03-05T07:21:52,897 Created build tracker: /tmp/pip-build-tracker-ftwj8sln 2026-03-05T07:21:52,897 Entered build tracker: /tmp/pip-build-tracker-ftwj8sln 2026-03-05T07:21:52,898 Created temporary directory: /tmp/pip-wheel-9psr52a6 2026-03-05T07:21:52,901 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 2026-03-05T07:21:52,904 Created temporary directory: /tmp/pip-ephem-wheel-cache-q5crt8p1 2026-03-05T07:21:52,925 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-03-05T07:21:52,928 2 location(s) to search for versions of phynetpy: 2026-03-05T07:21:52,928 * https://pypi.org/simple/phynetpy/ 2026-03-05T07:21:52,928 * https://www.piwheels.org/simple/phynetpy/ 2026-03-05T07:21:52,929 Fetching project page and analyzing links: https://pypi.org/simple/phynetpy/ 2026-03-05T07:21:52,930 Getting page https://pypi.org/simple/phynetpy/ 2026-03-05T07:21:52,931 Found index url https://pypi.org/simple 2026-03-05T07:21:53,144 Fetched page https://pypi.org/simple/phynetpy/ as application/vnd.pypi.simple.v1+json 2026-03-05T07:21:53,147 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) 2026-03-05T07:21:53,148 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 2026-03-05T07:21:53,149 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 2026-03-05T07:21:53,150 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 2026-03-05T07:21:53,151 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) 2026-03-05T07:21:53,152 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 2026-03-05T07:21:53,152 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) 2026-03-05T07:21:53,153 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 2026-03-05T07:21:53,154 Skipping link: No binaries permitted for phynetpy: https://files.pythonhosted.org/packages/1e/14/4d0ab3a2cd31661cf090210d170f5f15a6e842ef810e06d19c1afd40ba64/phynetpy-0.3.1-py3-none-any.whl (from https://pypi.org/simple/phynetpy/) (requires-python:<4,>=3.8) 2026-03-05T07:21:53,155 Found link https://files.pythonhosted.org/packages/63/4e/3bab1d32cf649a611497899fa39ec3b6f2ba6cf645dfef655ecf1415c438/phynetpy-0.3.1.tar.gz (from https://pypi.org/simple/phynetpy/) (requires-python:<4,>=3.8), version: 0.3.1 2026-03-05T07:21:53,156 Fetching project page and analyzing links: https://www.piwheels.org/simple/phynetpy/ 2026-03-05T07:21:53,157 Getting page https://www.piwheels.org/simple/phynetpy/ 2026-03-05T07:21:53,158 Found index url https://www.piwheels.org/simple 2026-03-05T07:21:53,319 Fetched page https://www.piwheels.org/simple/phynetpy/ as text/html 2026-03-05T07:21:53,322 Skipping link: No binaries permitted for phynetpy: https://www.piwheels.org/simple/phynetpy/phynetpy-0.3.0-py3-none-any.whl#sha256=4e1a7db7eba4f1eccdeef0eb815aae53a6960824dcdb56c26b0cace43b96967b (from https://www.piwheels.org/simple/phynetpy/) (requires-python:>=3.8, <4) 2026-03-05T07:21:53,323 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) 2026-03-05T07:21:53,323 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) 2026-03-05T07:21:53,324 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) 2026-03-05T07:21:53,324 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) 2026-03-05T07:21:53,325 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) 2026-03-05T07:21:53,325 Skipping link: not a file: https://www.piwheels.org/simple/phynetpy/ 2026-03-05T07:21:53,326 Skipping link: not a file: https://pypi.org/simple/phynetpy/ 2026-03-05T07:21:53,345 Given no hashes to check 1 links for project 'phynetpy': discarding no candidates 2026-03-05T07:21:53,363 Collecting phynetpy==0.3.1 2026-03-05T07:21:53,365 Created temporary directory: /tmp/pip-unpack-z10pvon5 2026-03-05T07:21:53,574 Downloading phynetpy-0.3.1.tar.gz (188 kB) 2026-03-05T07:21:53,757 Added phynetpy==0.3.1 from https://files.pythonhosted.org/packages/63/4e/3bab1d32cf649a611497899fa39ec3b6f2ba6cf645dfef655ecf1415c438/phynetpy-0.3.1.tar.gz to build tracker '/tmp/pip-build-tracker-ftwj8sln' 2026-03-05T07:21:53,762 Created temporary directory: /tmp/pip-build-env-412kwyfn 2026-03-05T07:21:53,766 Installing build dependencies: started 2026-03-05T07:21:53,767 Running command pip subprocess to install build dependencies 2026-03-05T07:21:54,894 Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11) 2026-03-05T07:21:55,442 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 2026-03-05T07:21:55,465 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-03-05T07:21:57,204 Collecting setuptools>=61 2026-03-05T07:21:57,294 Using cached https://www.piwheels.org/simple/setuptools/setuptools-82.0.0-py3-none-any.whl (1.0 MB) 2026-03-05T07:21:57,565 Collecting wheel 2026-03-05T07:21:57,581 Using cached https://www.piwheels.org/simple/wheel/wheel-0.46.3-py3-none-any.whl (30 kB) 2026-03-05T07:21:57,778 Collecting packaging>=24.0 2026-03-05T07:21:57,793 Using cached https://www.piwheels.org/simple/packaging/packaging-26.0-py3-none-any.whl (74 kB) 2026-03-05T07:22:00,744 Installing collected packages: setuptools, packaging, wheel 2026-03-05T07:22:04,132 Creating /tmp/pip-build-env-412kwyfn/overlay/local/bin 2026-03-05T07:22:04,134 changing mode of /tmp/pip-build-env-412kwyfn/overlay/local/bin/wheel to 755 2026-03-05T07:22:04,156 Successfully installed packaging-26.0 setuptools-82.0.0 wheel-0.46.3 2026-03-05T07:22:04,439 Installing build dependencies: finished with status 'done' 2026-03-05T07:22:04,445 Getting requirements to build wheel: started 2026-03-05T07:22:04,446 Running command Getting requirements to build wheel 2026-03-05T07:22:05,022 /tmp/pip-build-env-412kwyfn/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:765: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2026-03-05T07:22:05,022 !! 2026-03-05T07:22:05,023 ******************************************************************************** 2026-03-05T07:22:05,024 Please consider removing the following classifiers in favor of a SPDX license expression: 2026-03-05T07:22:05,024 License :: OSI Approved :: MIT License 2026-03-05T07:22:05,026 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-03-05T07:22:05,026 ******************************************************************************** 2026-03-05T07:22:05,027 !! 2026-03-05T07:22:05,028 self._finalize_license_expression() 2026-03-05T07:22:05,045 Cython not found - installing pure Python version 2026-03-05T07:22:05,046 For better performance, install Cython: pip install cython 2026-03-05T07:22:05,046 running egg_info 2026-03-05T07:22:05,051 writing phynetpy.egg-info/PKG-INFO 2026-03-05T07:22:05,056 writing dependency_links to phynetpy.egg-info/dependency_links.txt 2026-03-05T07:22:05,060 writing requirements to phynetpy.egg-info/requires.txt 2026-03-05T07:22:05,061 writing top-level names to phynetpy.egg-info/top_level.txt 2026-03-05T07:22:05,089 reading manifest file 'phynetpy.egg-info/SOURCES.txt' 2026-03-05T07:22:05,093 reading manifest template 'MANIFEST.in' 2026-03-05T07:22:05,116 no previously-included directories found matching '.venv' 2026-03-05T07:22:05,117 no previously-included directories found matching '.git' 2026-03-05T07:22:05,117 no previously-included directories found matching '.cursor' 2026-03-05T07:22:05,118 no previously-included directories found matching 'archive' 2026-03-05T07:22:05,119 no previously-included directories found matching 'build' 2026-03-05T07:22:05,119 no previously-included directories found matching 'dist' 2026-03-05T07:22:05,120 no previously-included directories found matching 'tests' 2026-03-05T07:22:05,121 no previously-included directories found matching '1.1' 2026-03-05T07:22:05,121 no previously-included directories found matching 'ABC' 2026-03-05T07:22:05,122 no previously-included directories found matching 'Bayesian' 2026-03-05T07:22:05,123 no previously-included directories found matching 'DEFJ' 2026-03-05T07:22:05,123 no previously-included directories found matching 'DLLS' 2026-03-05T07:22:05,124 no previously-included directories found matching 'Guides' 2026-03-05T07:22:05,125 no previously-included directories found matching 'NexusFiles' 2026-03-05T07:22:05,125 warning: no previously-included files matching '*.pyc' found anywhere in distribution 2026-03-05T07:22:05,126 warning: no previously-included files matching '__pycache__' found anywhere in distribution 2026-03-05T07:22:05,127 warning: no previously-included files matching '*.so' found anywhere in distribution 2026-03-05T07:22:05,128 warning: no previously-included files matching '*.c' found anywhere in distribution 2026-03-05T07:22:05,128 adding license file 'LICENSE' 2026-03-05T07:22:05,132 writing manifest file 'phynetpy.egg-info/SOURCES.txt' 2026-03-05T07:22:05,222 Getting requirements to build wheel: finished with status 'done' 2026-03-05T07:22:05,225 Created temporary directory: /tmp/pip-modern-metadata-oes8tzeb 2026-03-05T07:22:05,227 Preparing metadata (pyproject.toml): started 2026-03-05T07:22:05,229 Running command Preparing metadata (pyproject.toml) 2026-03-05T07:22:05,765 /tmp/pip-build-env-412kwyfn/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:765: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2026-03-05T07:22:05,765 !! 2026-03-05T07:22:05,766 ******************************************************************************** 2026-03-05T07:22:05,767 Please consider removing the following classifiers in favor of a SPDX license expression: 2026-03-05T07:22:05,768 License :: OSI Approved :: MIT License 2026-03-05T07:22:05,769 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-03-05T07:22:05,769 ******************************************************************************** 2026-03-05T07:22:05,770 !! 2026-03-05T07:22:05,771 self._finalize_license_expression() 2026-03-05T07:22:05,788 Cython not found - installing pure Python version 2026-03-05T07:22:05,789 For better performance, install Cython: pip install cython 2026-03-05T07:22:05,789 running dist_info 2026-03-05T07:22:05,799 creating /tmp/pip-modern-metadata-oes8tzeb/phynetpy.egg-info 2026-03-05T07:22:05,800 writing /tmp/pip-modern-metadata-oes8tzeb/phynetpy.egg-info/PKG-INFO 2026-03-05T07:22:05,805 writing dependency_links to /tmp/pip-modern-metadata-oes8tzeb/phynetpy.egg-info/dependency_links.txt 2026-03-05T07:22:05,808 writing requirements to /tmp/pip-modern-metadata-oes8tzeb/phynetpy.egg-info/requires.txt 2026-03-05T07:22:05,809 writing top-level names to /tmp/pip-modern-metadata-oes8tzeb/phynetpy.egg-info/top_level.txt 2026-03-05T07:22:05,810 writing manifest file '/tmp/pip-modern-metadata-oes8tzeb/phynetpy.egg-info/SOURCES.txt' 2026-03-05T07:22:05,834 reading manifest file '/tmp/pip-modern-metadata-oes8tzeb/phynetpy.egg-info/SOURCES.txt' 2026-03-05T07:22:05,836 reading manifest template 'MANIFEST.in' 2026-03-05T07:22:05,859 no previously-included directories found matching '.venv' 2026-03-05T07:22:05,860 no previously-included directories found matching '.git' 2026-03-05T07:22:05,860 no previously-included directories found matching '.cursor' 2026-03-05T07:22:05,861 no previously-included directories found matching 'archive' 2026-03-05T07:22:05,862 no previously-included directories found matching 'build' 2026-03-05T07:22:05,862 no previously-included directories found matching 'dist' 2026-03-05T07:22:05,863 no previously-included directories found matching 'tests' 2026-03-05T07:22:05,863 no previously-included directories found matching 'phynetpy.egg-info' 2026-03-05T07:22:05,864 no previously-included directories found matching '1.1' 2026-03-05T07:22:05,865 no previously-included directories found matching 'ABC' 2026-03-05T07:22:05,865 no previously-included directories found matching 'Bayesian' 2026-03-05T07:22:05,866 no previously-included directories found matching 'DEFJ' 2026-03-05T07:22:05,866 no previously-included directories found matching 'DLLS' 2026-03-05T07:22:05,867 no previously-included directories found matching 'Guides' 2026-03-05T07:22:05,867 no previously-included directories found matching 'NexusFiles' 2026-03-05T07:22:05,868 warning: no previously-included files matching '*.pyc' found anywhere in distribution 2026-03-05T07:22:05,869 warning: no previously-included files matching '__pycache__' found anywhere in distribution 2026-03-05T07:22:05,869 warning: no previously-included files matching '*.so' found anywhere in distribution 2026-03-05T07:22:05,870 warning: no previously-included files matching '*.c' found anywhere in distribution 2026-03-05T07:22:05,870 adding license file 'LICENSE' 2026-03-05T07:22:05,873 writing manifest file '/tmp/pip-modern-metadata-oes8tzeb/phynetpy.egg-info/SOURCES.txt' 2026-03-05T07:22:05,874 creating '/tmp/pip-modern-metadata-oes8tzeb/phynetpy-0.3.1.dist-info' 2026-03-05T07:22:05,994 Preparing metadata (pyproject.toml): finished with status 'done' 2026-03-05T07:22:05,999 Source in /tmp/pip-wheel-9psr52a6/phynetpy_c991942c176d43a9988ca75e471aa1e5 has version 0.3.1, which satisfies requirement phynetpy==0.3.1 from https://files.pythonhosted.org/packages/63/4e/3bab1d32cf649a611497899fa39ec3b6f2ba6cf645dfef655ecf1415c438/phynetpy-0.3.1.tar.gz 2026-03-05T07:22:06,000 Removed phynetpy==0.3.1 from https://files.pythonhosted.org/packages/63/4e/3bab1d32cf649a611497899fa39ec3b6f2ba6cf645dfef655ecf1415c438/phynetpy-0.3.1.tar.gz from build tracker '/tmp/pip-build-tracker-ftwj8sln' 2026-03-05T07:22:06,006 Created temporary directory: /tmp/pip-unpack-c7gsr4oh 2026-03-05T07:22:06,006 Building wheels for collected packages: phynetpy 2026-03-05T07:22:06,010 Created temporary directory: /tmp/pip-wheel-zebd7kc5 2026-03-05T07:22:06,011 Destination directory: /tmp/pip-wheel-zebd7kc5 2026-03-05T07:22:06,013 Building wheel for phynetpy (pyproject.toml): started 2026-03-05T07:22:06,014 Running command Building wheel for phynetpy (pyproject.toml) 2026-03-05T07:22:06,544 /tmp/pip-build-env-412kwyfn/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:765: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2026-03-05T07:22:06,544 !! 2026-03-05T07:22:06,545 ******************************************************************************** 2026-03-05T07:22:06,545 Please consider removing the following classifiers in favor of a SPDX license expression: 2026-03-05T07:22:06,547 License :: OSI Approved :: MIT License 2026-03-05T07:22:06,548 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-03-05T07:22:06,548 ******************************************************************************** 2026-03-05T07:22:06,550 !! 2026-03-05T07:22:06,550 self._finalize_license_expression() 2026-03-05T07:22:06,568 Cython not found - installing pure Python version 2026-03-05T07:22:06,568 For better performance, install Cython: pip install cython 2026-03-05T07:22:06,569 running bdist_wheel 2026-03-05T07:22:06,595 running build 2026-03-05T07:22:06,596 running build_py 2026-03-05T07:22:06,605 creating build/lib/phynetpy 2026-03-05T07:22:06,607 copying src/MetropolisHastings.py -> build/lib/phynetpy 2026-03-05T07:22:06,610 copying src/Network.py -> build/lib/phynetpy 2026-03-05T07:22:06,615 copying src/Phylo.py -> build/lib/phynetpy 2026-03-05T07:22:06,617 copying src/Infer_MP_Allop.py -> build/lib/phynetpy 2026-03-05T07:22:06,620 copying src/Newick.py -> build/lib/phynetpy 2026-03-05T07:22:06,622 copying src/GTR.py -> build/lib/phynetpy 2026-03-05T07:22:06,625 copying src/ModelMove.py -> build/lib/phynetpy 2026-03-05T07:22:06,628 copying src/BirthDeath.py -> build/lib/phynetpy 2026-03-05T07:22:06,631 copying src/Matrix.py -> build/lib/phynetpy 2026-03-05T07:22:06,633 copying src/__init__.py -> build/lib/phynetpy 2026-03-05T07:22:06,635 copying src/Logger.py -> build/lib/phynetpy 2026-03-05T07:22:06,637 copying src/Alphabet.py -> build/lib/phynetpy 2026-03-05T07:22:06,640 copying src/ModelGraph.py -> build/lib/phynetpy 2026-03-05T07:22:06,642 copying src/SNPSimulator.py -> build/lib/phynetpy 2026-03-05T07:22:06,645 copying src/graph_core.py -> build/lib/phynetpy 2026-03-05T07:22:06,647 copying src/BiMarkers.py -> build/lib/phynetpy 2026-03-05T07:22:06,650 copying src/GeneTrees.py -> build/lib/phynetpy 2026-03-05T07:22:06,653 copying src/Validation.py -> build/lib/phynetpy 2026-03-05T07:22:06,656 copying src/Traversal.py -> build/lib/phynetpy 2026-03-05T07:22:06,658 copying src/NetworkMoves.py -> build/lib/phynetpy 2026-03-05T07:22:06,661 copying src/GraphUtils.py -> build/lib/phynetpy 2026-03-05T07:22:06,664 copying src/PhyloNet.py -> build/lib/phynetpy 2026-03-05T07:22:06,666 copying src/Executor.py -> build/lib/phynetpy 2026-03-05T07:22:06,669 copying src/Strategy.py -> build/lib/phynetpy 2026-03-05T07:22:06,670 copying src/MSA.py -> build/lib/phynetpy 2026-03-05T07:22:06,673 copying src/ModelFactory.py -> build/lib/phynetpy 2026-03-05T07:22:06,675 copying src/State.py -> build/lib/phynetpy 2026-03-05T07:22:06,677 copying src/IO.py -> build/lib/phynetpy 2026-03-05T07:22:06,680 copying src/Visitor.py -> build/lib/phynetpy 2026-03-05T07:22:06,696 installing to build/bdist.linux-armv7l/wheel 2026-03-05T07:22:06,696 running install 2026-03-05T07:22:06,720 running install_lib 2026-03-05T07:22:06,728 creating build/bdist.linux-armv7l/wheel 2026-03-05T07:22:06,730 creating build/bdist.linux-armv7l/wheel/phynetpy 2026-03-05T07:22:06,731 copying build/lib/phynetpy/MetropolisHastings.py -> build/bdist.linux-armv7l/wheel/./phynetpy 2026-03-05T07:22:06,734 copying build/lib/phynetpy/Network.py -> build/bdist.linux-armv7l/wheel/./phynetpy 2026-03-05T07:22:06,738 copying build/lib/phynetpy/Phylo.py -> build/bdist.linux-armv7l/wheel/./phynetpy 2026-03-05T07:22:06,740 copying build/lib/phynetpy/Infer_MP_Allop.py -> build/bdist.linux-armv7l/wheel/./phynetpy 2026-03-05T07:22:06,743 copying build/lib/phynetpy/Newick.py -> build/bdist.linux-armv7l/wheel/./phynetpy 2026-03-05T07:22:06,745 copying build/lib/phynetpy/GTR.py -> build/bdist.linux-armv7l/wheel/./phynetpy 2026-03-05T07:22:06,748 copying build/lib/phynetpy/ModelMove.py -> build/bdist.linux-armv7l/wheel/./phynetpy 2026-03-05T07:22:06,750 copying build/lib/phynetpy/BirthDeath.py -> build/bdist.linux-armv7l/wheel/./phynetpy 2026-03-05T07:22:06,753 copying build/lib/phynetpy/Matrix.py -> build/bdist.linux-armv7l/wheel/./phynetpy 2026-03-05T07:22:06,755 copying build/lib/phynetpy/__init__.py -> build/bdist.linux-armv7l/wheel/./phynetpy 2026-03-05T07:22:06,757 copying build/lib/phynetpy/Logger.py -> build/bdist.linux-armv7l/wheel/./phynetpy 2026-03-05T07:22:06,759 copying build/lib/phynetpy/Alphabet.py -> build/bdist.linux-armv7l/wheel/./phynetpy 2026-03-05T07:22:06,761 copying build/lib/phynetpy/ModelGraph.py -> build/bdist.linux-armv7l/wheel/./phynetpy 2026-03-05T07:22:06,764 copying build/lib/phynetpy/SNPSimulator.py -> build/bdist.linux-armv7l/wheel/./phynetpy 2026-03-05T07:22:06,767 copying build/lib/phynetpy/graph_core.py -> build/bdist.linux-armv7l/wheel/./phynetpy 2026-03-05T07:22:06,768 copying build/lib/phynetpy/BiMarkers.py -> build/bdist.linux-armv7l/wheel/./phynetpy 2026-03-05T07:22:06,772 copying build/lib/phynetpy/GeneTrees.py -> build/bdist.linux-armv7l/wheel/./phynetpy 2026-03-05T07:22:06,774 copying build/lib/phynetpy/Validation.py -> build/bdist.linux-armv7l/wheel/./phynetpy 2026-03-05T07:22:06,778 copying build/lib/phynetpy/Traversal.py -> build/bdist.linux-armv7l/wheel/./phynetpy 2026-03-05T07:22:06,781 copying build/lib/phynetpy/NetworkMoves.py -> build/bdist.linux-armv7l/wheel/./phynetpy 2026-03-05T07:22:06,783 copying build/lib/phynetpy/GraphUtils.py -> build/bdist.linux-armv7l/wheel/./phynetpy 2026-03-05T07:22:06,787 copying build/lib/phynetpy/PhyloNet.py -> build/bdist.linux-armv7l/wheel/./phynetpy 2026-03-05T07:22:06,789 copying build/lib/phynetpy/Executor.py -> build/bdist.linux-armv7l/wheel/./phynetpy 2026-03-05T07:22:06,792 copying build/lib/phynetpy/Strategy.py -> build/bdist.linux-armv7l/wheel/./phynetpy 2026-03-05T07:22:06,794 copying build/lib/phynetpy/MSA.py -> build/bdist.linux-armv7l/wheel/./phynetpy 2026-03-05T07:22:06,797 copying build/lib/phynetpy/ModelFactory.py -> build/bdist.linux-armv7l/wheel/./phynetpy 2026-03-05T07:22:06,800 copying build/lib/phynetpy/State.py -> build/bdist.linux-armv7l/wheel/./phynetpy 2026-03-05T07:22:06,802 copying build/lib/phynetpy/IO.py -> build/bdist.linux-armv7l/wheel/./phynetpy 2026-03-05T07:22:06,806 copying build/lib/phynetpy/Visitor.py -> build/bdist.linux-armv7l/wheel/./phynetpy 2026-03-05T07:22:06,808 running install_egg_info 2026-03-05T07:22:06,827 running egg_info 2026-03-05T07:22:06,833 writing phynetpy.egg-info/PKG-INFO 2026-03-05T07:22:06,838 writing dependency_links to phynetpy.egg-info/dependency_links.txt 2026-03-05T07:22:06,841 writing requirements to phynetpy.egg-info/requires.txt 2026-03-05T07:22:06,843 writing top-level names to phynetpy.egg-info/top_level.txt 2026-03-05T07:22:06,852 reading manifest file 'phynetpy.egg-info/SOURCES.txt' 2026-03-05T07:22:06,856 reading manifest template 'MANIFEST.in' 2026-03-05T07:22:06,880 no previously-included directories found matching '.venv' 2026-03-05T07:22:06,881 no previously-included directories found matching '.git' 2026-03-05T07:22:06,882 no previously-included directories found matching '.cursor' 2026-03-05T07:22:06,883 no previously-included directories found matching 'archive' 2026-03-05T07:22:06,884 no previously-included directories found matching 'build' 2026-03-05T07:22:06,885 no previously-included directories found matching 'dist' 2026-03-05T07:22:06,886 no previously-included directories found matching 'tests' 2026-03-05T07:22:06,887 no previously-included directories found matching '1.1' 2026-03-05T07:22:06,888 no previously-included directories found matching 'ABC' 2026-03-05T07:22:06,889 no previously-included directories found matching 'Bayesian' 2026-03-05T07:22:06,890 no previously-included directories found matching 'DEFJ' 2026-03-05T07:22:06,891 no previously-included directories found matching 'DLLS' 2026-03-05T07:22:06,892 no previously-included directories found matching 'Guides' 2026-03-05T07:22:06,893 no previously-included directories found matching 'NexusFiles' 2026-03-05T07:22:06,894 warning: no previously-included files matching '*.pyc' found anywhere in distribution 2026-03-05T07:22:06,895 warning: no previously-included files matching '__pycache__' found anywhere in distribution 2026-03-05T07:22:06,897 warning: no previously-included files matching '*.so' found anywhere in distribution 2026-03-05T07:22:06,898 warning: no previously-included files matching '*.c' found anywhere in distribution 2026-03-05T07:22:06,898 adding license file 'LICENSE' 2026-03-05T07:22:06,903 writing manifest file 'phynetpy.egg-info/SOURCES.txt' 2026-03-05T07:22:06,905 Copying phynetpy.egg-info to build/bdist.linux-armv7l/wheel/./phynetpy-0.3.1-py3.11.egg-info 2026-03-05T07:22:06,914 running install_scripts 2026-03-05T07:22:06,924 creating build/bdist.linux-armv7l/wheel/phynetpy-0.3.1.dist-info/WHEEL 2026-03-05T07:22:06,926 creating '/tmp/pip-wheel-zebd7kc5/.tmp-xvt9j_j8/phynetpy-0.3.1-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2026-03-05T07:22:06,930 adding 'phynetpy/Alphabet.py' 2026-03-05T07:22:06,939 adding 'phynetpy/BiMarkers.py' 2026-03-05T07:22:06,943 adding 'phynetpy/BirthDeath.py' 2026-03-05T07:22:06,948 adding 'phynetpy/Executor.py' 2026-03-05T07:22:06,951 adding 'phynetpy/GTR.py' 2026-03-05T07:22:06,956 adding 'phynetpy/GeneTrees.py' 2026-03-05T07:22:06,966 adding 'phynetpy/GraphUtils.py' 2026-03-05T07:22:06,973 adding 'phynetpy/IO.py' 2026-03-05T07:22:06,978 adding 'phynetpy/Infer_MP_Allop.py' 2026-03-05T07:22:06,980 adding 'phynetpy/Logger.py' 2026-03-05T07:22:06,984 adding 'phynetpy/MSA.py' 2026-03-05T07:22:06,986 adding 'phynetpy/Matrix.py' 2026-03-05T07:22:06,989 adding 'phynetpy/MetropolisHastings.py' 2026-03-05T07:22:06,991 adding 'phynetpy/ModelFactory.py' 2026-03-05T07:22:06,993 adding 'phynetpy/ModelGraph.py' 2026-03-05T07:22:06,997 adding 'phynetpy/ModelMove.py' 2026-03-05T07:22:07,015 adding 'phynetpy/Network.py' 2026-03-05T07:22:07,018 adding 'phynetpy/NetworkMoves.py' 2026-03-05T07:22:07,021 adding 'phynetpy/Newick.py' 2026-03-05T07:22:07,022 adding 'phynetpy/Phylo.py' 2026-03-05T07:22:07,024 adding 'phynetpy/PhyloNet.py' 2026-03-05T07:22:07,028 adding 'phynetpy/SNPSimulator.py' 2026-03-05T07:22:07,030 adding 'phynetpy/State.py' 2026-03-05T07:22:07,032 adding 'phynetpy/Strategy.py' 2026-03-05T07:22:07,034 adding 'phynetpy/Traversal.py' 2026-03-05T07:22:07,041 adding 'phynetpy/Validation.py' 2026-03-05T07:22:07,043 adding 'phynetpy/Visitor.py' 2026-03-05T07:22:07,045 adding 'phynetpy/__init__.py' 2026-03-05T07:22:07,046 adding 'phynetpy/graph_core.py' 2026-03-05T07:22:07,049 adding 'phynetpy-0.3.1.dist-info/licenses/LICENSE' 2026-03-05T07:22:07,051 adding 'phynetpy-0.3.1.dist-info/METADATA' 2026-03-05T07:22:07,052 adding 'phynetpy-0.3.1.dist-info/WHEEL' 2026-03-05T07:22:07,053 adding 'phynetpy-0.3.1.dist-info/top_level.txt' 2026-03-05T07:22:07,055 adding 'phynetpy-0.3.1.dist-info/RECORD' 2026-03-05T07:22:07,059 removing build/bdist.linux-armv7l/wheel 2026-03-05T07:22:07,162 Building wheel for phynetpy (pyproject.toml): finished with status 'done' 2026-03-05T07:22:07,171 Created wheel for phynetpy: filename=phynetpy-0.3.1-py3-none-any.whl size=194491 sha256=770e9b9bd69479c461d2c229f9eb623b4580bd680076f05b38f8f88bda24553a 2026-03-05T07:22:07,172 Stored in directory: /tmp/pip-ephem-wheel-cache-q5crt8p1/wheels/a7/23/23/9322d6ba367e527252fe26201f1ee8929a3403c71ba1931b7d 2026-03-05T07:22:07,183 Successfully built phynetpy 2026-03-05T07:22:07,192 Removed build tracker: '/tmp/pip-build-tracker-ftwj8sln'