2023-09-19T16:33:51,712 Created temporary directory: /tmp/pip-build-tracker-0gv5gnd1
2023-09-19T16:33:51,714 Initialized build tracking at /tmp/pip-build-tracker-0gv5gnd1
2023-09-19T16:33:51,714 Created build tracker: /tmp/pip-build-tracker-0gv5gnd1
2023-09-19T16:33:51,715 Entered build tracker: /tmp/pip-build-tracker-0gv5gnd1
2023-09-19T16:33:51,716 Created temporary directory: /tmp/pip-wheel-jd15h5cq
2023-09-19T16:33:51,719 Created temporary directory: /tmp/pip-ephem-wheel-cache-et2_4tfe
2023-09-19T16:33:51,740 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2023-09-19T16:33:51,744 2 location(s) to search for versions of relatepy:
2023-09-19T16:33:51,744 * https://pypi.org/simple/relatepy/
2023-09-19T16:33:51,744 * https://www.piwheels.org/simple/relatepy/
2023-09-19T16:33:51,745 Fetching project page and analyzing links: https://pypi.org/simple/relatepy/
2023-09-19T16:33:51,746 Getting page https://pypi.org/simple/relatepy/
2023-09-19T16:33:51,747 Found index url https://pypi.org/simple/
2023-09-19T16:33:51,999 Fetched page https://pypi.org/simple/relatepy/ as application/vnd.pypi.simple.v1+json
2023-09-19T16:33:52,000   Skipping link: No binaries permitted for relatepy: https://files.pythonhosted.org/packages/d0/c4/80212ceca526a9ed5a3fee283b036ae18feab15d36fd3d77749990c8e2fb/relatepy-0.1.0-cp310-cp310-macosx_12_0_arm64.whl (from https://pypi.org/simple/relatepy/)
2023-09-19T16:33:52,001   Found link https://files.pythonhosted.org/packages/30/80/4ebcea760097c44f2b2740ef4a2546935f652b98eea643f3b81c5cbc1c16/relatepy-0.1.0.tar.gz (from https://pypi.org/simple/relatepy/), version: 0.1.0
2023-09-19T16:33:52,001 Fetching project page and analyzing links: https://www.piwheels.org/simple/relatepy/
2023-09-19T16:33:52,002 Getting page https://www.piwheels.org/simple/relatepy/
2023-09-19T16:33:52,003 Found index url https://www.piwheels.org/simple/
2023-09-19T16:33:52,267 Fetched page https://www.piwheels.org/simple/relatepy/ as text/html
2023-09-19T16:33:52,269   Skipping link: No binaries permitted for relatepy: https://www.piwheels.org/simple/relatepy/relatepy-0.1.0-cp39-cp39-linux_armv7l.whl#sha256=69b8cdd0bc4a450b66b84e90b3adcce0179804ce340c8db3bb93bb8dc78b153c (from https://www.piwheels.org/simple/relatepy/)
2023-09-19T16:33:52,270   Skipping link: No binaries permitted for relatepy: https://www.piwheels.org/simple/relatepy/relatepy-0.1.0-cp39-cp39-linux_armv6l.whl#sha256=69b8cdd0bc4a450b66b84e90b3adcce0179804ce340c8db3bb93bb8dc78b153c (from https://www.piwheels.org/simple/relatepy/)
2023-09-19T16:33:52,270 Skipping link: not a file: https://www.piwheels.org/simple/relatepy/
2023-09-19T16:33:52,271 Skipping link: not a file: https://pypi.org/simple/relatepy/
2023-09-19T16:33:52,289 Given no hashes to check 1 links for project 'relatepy': discarding no candidates
2023-09-19T16:33:52,308 Collecting relatepy==0.1.0
2023-09-19T16:33:52,310   Created temporary directory: /tmp/pip-unpack-oj8jdnmo
2023-09-19T16:33:53,039   Downloading relatepy-0.1.0.tar.gz (8.2 MB)
2023-09-19T16:33:56,230   Added relatepy==0.1.0 from https://files.pythonhosted.org/packages/30/80/4ebcea760097c44f2b2740ef4a2546935f652b98eea643f3b81c5cbc1c16/relatepy-0.1.0.tar.gz to build tracker '/tmp/pip-build-tracker-0gv5gnd1'
2023-09-19T16:33:56,235   Created temporary directory: /tmp/pip-build-env-baa1m4m8
2023-09-19T16:33:56,239   Installing build dependencies: started
2023-09-19T16:33:56,241   Running command pip subprocess to install build dependencies
2023-09-19T16:33:57,389   Using pip 23.2.1 from /usr/local/lib/python3.11/dist-packages/pip (python 3.11)
2023-09-19T16:33:57,883   Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2023-09-19T16:33:58,435   Collecting pyproject-toml==0.0.10
2023-09-19T16:33:58,445     Downloading https://www.piwheels.org/simple/pyproject-toml/pyproject_toml-0.0.10-py3-none-any.whl (6.9 kB)
2023-09-19T16:33:59,831   Collecting cython==3.0.0a11
2023-09-19T16:33:59,845     Downloading https://www.piwheels.org/simple/cython/Cython-3.0.0a11-cp311-cp311-linux_armv7l.whl (6.9 MB)
2023-09-19T16:34:00,493        ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 6.9/6.9 MB 11.0 MB/s eta 0:00:00
2023-09-19T16:34:01,928   Collecting setuptools>=42 (from pyproject-toml==0.0.10)
2023-09-19T16:34:01,929     Obtaining dependency information for setuptools>=42 from https://files.pythonhosted.org/packages/bb/26/7945080113158354380a12ce26873dd6c1ebd88d47f5bc24e2c5bb38c16a/setuptools-68.2.2-py3-none-any.whl.metadata
2023-09-19T16:34:01,935     Using cached setuptools-68.2.2-py3-none-any.whl.metadata (6.3 kB)
2023-09-19T16:34:02,140   Collecting wheel (from pyproject-toml==0.0.10)
2023-09-19T16:34:02,156     Using cached https://www.piwheels.org/simple/wheel/wheel-0.41.2-py3-none-any.whl (64 kB)
2023-09-19T16:34:02,239   Collecting toml (from pyproject-toml==0.0.10)
2023-09-19T16:34:02,254     Using cached https://www.piwheels.org/simple/toml/toml-0.10.2-py2.py3-none-any.whl (16 kB)
2023-09-19T16:34:02,482   Collecting jsonschema (from pyproject-toml==0.0.10)
2023-09-19T16:34:02,501     Using cached https://www.piwheels.org/simple/jsonschema/jsonschema-4.19.0-py3-none-any.whl (83 kB)
2023-09-19T16:34:02,917   Collecting attrs>=22.2.0 (from jsonschema->pyproject-toml==0.0.10)
2023-09-19T16:34:02,933     Using cached https://www.piwheels.org/simple/attrs/attrs-23.1.0-py3-none-any.whl (61 kB)
2023-09-19T16:34:03,034   Collecting jsonschema-specifications>=2023.03.6 (from jsonschema->pyproject-toml==0.0.10)
2023-09-19T16:34:03,048     Using cached https://www.piwheels.org/simple/jsonschema-specifications/jsonschema_specifications-2023.7.1-py3-none-any.whl (17 kB)
2023-09-19T16:34:03,290   Collecting referencing>=0.28.4 (from jsonschema->pyproject-toml==0.0.10)
2023-09-19T16:34:03,310     Using cached https://www.piwheels.org/simple/referencing/referencing-0.30.2-py3-none-any.whl (25 kB)
2023-09-19T16:34:03,939   Collecting rpds-py>=0.7.1 (from jsonschema->pyproject-toml==0.0.10)
2023-09-19T16:34:03,940     Obtaining dependency information for rpds-py>=0.7.1 from https://files.pythonhosted.org/packages/00/65/f10371aaebfe07b866aeba0e9d624624121aaf327f5a1e6af01414875821/rpds_py-0.10.3-cp311-cp311-manylinux_2_17_armv7l.manylinux2014_armv7l.whl.metadata
2023-09-19T16:34:03,945     Using cached rpds_py-0.10.3-cp311-cp311-manylinux_2_17_armv7l.manylinux2014_armv7l.whl.metadata (3.7 kB)
2023-09-19T16:34:04,147   Using cached setuptools-68.2.2-py3-none-any.whl (807 kB)
2023-09-19T16:34:04,183   Using cached rpds_py-0.10.3-cp311-cp311-manylinux_2_17_armv7l.manylinux2014_armv7l.whl (1.2 MB)
2023-09-19T16:34:06,773   Installing collected packages: wheel, toml, setuptools, rpds-py, cython, attrs, referencing, jsonschema-specifications, jsonschema, pyproject-toml
2023-09-19T16:34:07,007     Creating /tmp/pip-build-env-baa1m4m8/overlay/local/bin
2023-09-19T16:34:07,009     changing mode of /tmp/pip-build-env-baa1m4m8/overlay/local/bin/wheel to 755
2023-09-19T16:34:12,853     changing mode of /tmp/pip-build-env-baa1m4m8/overlay/local/bin/cygdb to 755
2023-09-19T16:34:12,855     changing mode of /tmp/pip-build-env-baa1m4m8/overlay/local/bin/cython to 755
2023-09-19T16:34:12,858     changing mode of /tmp/pip-build-env-baa1m4m8/overlay/local/bin/cythonize to 755
2023-09-19T16:34:13,587     changing mode of /tmp/pip-build-env-baa1m4m8/overlay/local/bin/jsonschema to 755
2023-09-19T16:34:13,728   Successfully installed attrs-23.1.0 cython-3.0.0a11 jsonschema-4.19.0 jsonschema-specifications-2023.7.1 pyproject-toml-0.0.10 referencing-0.30.2 rpds-py-0.10.3 setuptools-68.2.2 toml-0.10.2 wheel-0.41.2
2023-09-19T16:34:14,381   Installing build dependencies: finished with status 'done'
2023-09-19T16:34:14,384   Getting requirements to build wheel: started
2023-09-19T16:34:14,385   Running command Getting requirements to build wheel
2023-09-19T16:34:16,059   running egg_info
2023-09-19T16:34:16,065   writing relatepy.egg-info/PKG-INFO
2023-09-19T16:34:16,069   writing dependency_links to relatepy.egg-info/dependency_links.txt
2023-09-19T16:34:16,071   writing requirements to relatepy.egg-info/requires.txt
2023-09-19T16:34:16,072   writing top-level names to relatepy.egg-info/top_level.txt
2023-09-19T16:34:16,120   reading manifest file 'relatepy.egg-info/SOURCES.txt'
2023-09-19T16:34:16,132   writing manifest file 'relatepy.egg-info/SOURCES.txt'
2023-09-19T16:34:16,307   Getting requirements to build wheel: finished with status 'done'
2023-09-19T16:34:16,319   Created temporary directory: /tmp/pip-modern-metadata-f4dftq46
2023-09-19T16:34:16,321   Preparing metadata (pyproject.toml): started
2023-09-19T16:34:16,322   Running command Preparing metadata (pyproject.toml)
2023-09-19T16:34:17,983   running dist_info
2023-09-19T16:34:17,984   /tmp/pip-build-env-baa1m4m8/overlay/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:111: SetuptoolsDeprecationWarning: --egg-base is deprecated for dist_info command. Use --output-dir.
2023-09-19T16:34:17,985   !!

2023-09-19T16:34:17,986           ********************************************************************************

2023-09-19T16:34:17,987           By 2023-Sep-26, you need to update your project and remove deprecated calls
2023-09-19T16:34:17,987           or your builds will no longer be supported.
2023-09-19T16:34:17,988           ********************************************************************************

2023-09-19T16:34:17,989   !!
2023-09-19T16:34:17,989     self.finalize_options()
2023-09-19T16:34:17,992   creating /tmp/pip-modern-metadata-f4dftq46/relatepy.egg-info
2023-09-19T16:34:17,997   writing /tmp/pip-modern-metadata-f4dftq46/relatepy.egg-info/PKG-INFO
2023-09-19T16:34:18,000   writing dependency_links to /tmp/pip-modern-metadata-f4dftq46/relatepy.egg-info/dependency_links.txt
2023-09-19T16:34:18,002   writing requirements to /tmp/pip-modern-metadata-f4dftq46/relatepy.egg-info/requires.txt
2023-09-19T16:34:18,003   writing top-level names to /tmp/pip-modern-metadata-f4dftq46/relatepy.egg-info/top_level.txt
2023-09-19T16:34:18,004   writing manifest file '/tmp/pip-modern-metadata-f4dftq46/relatepy.egg-info/SOURCES.txt'
2023-09-19T16:34:18,048   reading manifest file '/tmp/pip-modern-metadata-f4dftq46/relatepy.egg-info/SOURCES.txt'
2023-09-19T16:34:18,056   writing manifest file '/tmp/pip-modern-metadata-f4dftq46/relatepy.egg-info/SOURCES.txt'
2023-09-19T16:34:18,059   creating '/tmp/pip-modern-metadata-f4dftq46/relatepy-0.1.0.dist-info'
2023-09-19T16:34:18,474   Preparing metadata (pyproject.toml): finished with status 'done'
2023-09-19T16:34:18,479   Source in /tmp/pip-wheel-jd15h5cq/relatepy_7d3f84a05ea143d197464456b666a0ef has version 0.1.0, which satisfies requirement relatepy==0.1.0 from https://files.pythonhosted.org/packages/30/80/4ebcea760097c44f2b2740ef4a2546935f652b98eea643f3b81c5cbc1c16/relatepy-0.1.0.tar.gz
2023-09-19T16:34:18,480   Removed relatepy==0.1.0 from https://files.pythonhosted.org/packages/30/80/4ebcea760097c44f2b2740ef4a2546935f652b98eea643f3b81c5cbc1c16/relatepy-0.1.0.tar.gz from build tracker '/tmp/pip-build-tracker-0gv5gnd1'
2023-09-19T16:34:18,484 Created temporary directory: /tmp/pip-unpack-k_052od9
2023-09-19T16:34:18,485 Created temporary directory: /tmp/pip-unpack-_x8pqwdy
2023-09-19T16:34:18,491 Building wheels for collected packages: relatepy
2023-09-19T16:34:18,495   Created temporary directory: /tmp/pip-wheel-miinnxvt
2023-09-19T16:34:18,496   Destination directory: /tmp/pip-wheel-miinnxvt
2023-09-19T16:34:18,498   Building wheel for relatepy (pyproject.toml): started
2023-09-19T16:34:18,500   Running command Building wheel for relatepy (pyproject.toml)
2023-09-19T16:34:20,045   running bdist_wheel
2023-09-19T16:34:20,070   running build
2023-09-19T16:34:20,071   running build_py
2023-09-19T16:34:20,077   creating build
2023-09-19T16:34:20,077   creating build/lib.linux-armv7l-cpython-311
2023-09-19T16:34:20,078   creating build/lib.linux-armv7l-cpython-311/relatepy
2023-09-19T16:34:20,079   copying relatepy/__init__.py -> build/lib.linux-armv7l-cpython-311/relatepy
2023-09-19T16:34:20,081   copying relatepy/__main__.py -> build/lib.linux-armv7l-cpython-311/relatepy
2023-09-19T16:34:20,083   copying relatepy/data.py -> build/lib.linux-armv7l-cpython-311/relatepy
2023-09-19T16:34:20,085   running egg_info
2023-09-19T16:34:20,090   writing relatepy.egg-info/PKG-INFO
2023-09-19T16:34:20,092   writing dependency_links to relatepy.egg-info/dependency_links.txt
2023-09-19T16:34:20,094   writing requirements to relatepy.egg-info/requires.txt
2023-09-19T16:34:20,095   writing top-level names to relatepy.egg-info/top_level.txt
2023-09-19T16:34:20,122   reading manifest file 'relatepy.egg-info/SOURCES.txt'
2023-09-19T16:34:20,133   writing manifest file 'relatepy.egg-info/SOURCES.txt'
2023-09-19T16:34:20,161   copying relatepy/data.cpp -> build/lib.linux-armv7l-cpython-311/relatepy
2023-09-19T16:34:20,173   copying relatepy/options.cpp -> build/lib.linux-armv7l-cpython-311/relatepy
2023-09-19T16:34:20,176   creating build/lib.linux-armv7l-cpython-311/relate
2023-09-19T16:34:20,176   creating build/lib.linux-armv7l-cpython-311/relate/bin
2023-09-19T16:34:20,178   copying relatepy/../relate/bin/Relate -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/bin
2023-09-19T16:34:20,196   copying relatepy/../relate/bin/RelateCoalescentRate -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/bin
2023-09-19T16:34:20,215   copying relatepy/../relate/bin/RelateExtract -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/bin
2023-09-19T16:34:20,242   copying relatepy/../relate/bin/RelateFileFormats -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/bin
2023-09-19T16:34:20,254   copying relatepy/../relate/bin/RelateMutationRate -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/bin
2023-09-19T16:34:20,269   copying relatepy/../relate/bin/RelateSelection -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/bin
2023-09-19T16:34:20,279   copying relatepy/../relate/bin/RelateTreeView -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/bin
2023-09-19T16:34:20,291   copying relatepy/../relate/bin/Tests -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/bin
2023-09-19T16:34:20,324   copying relatepy/../relate/bin/libUnitTest.a -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/bin
2023-09-19T16:34:20,505   copying relatepy/../relate/bin/libgzstreamShared.dylib -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/bin
2023-09-19T16:34:20,509   copying relatepy/../relate/bin/libgzstreamStatic.a -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/bin
2023-09-19T16:34:20,513   copying relatepy/../relate/bin/libkastoreShared.dylib -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/bin
2023-09-19T16:34:20,517   copying relatepy/../relate/bin/libkastoreStatic.a -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/bin
2023-09-19T16:34:20,520   copying relatepy/../relate/bin/librelateShared.dylib -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/bin
2023-09-19T16:34:20,532   copying relatepy/../relate/bin/librelateStatic.a -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/bin
2023-09-19T16:34:20,643   copying relatepy/../relate/bin/libtskitStatic.a -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/bin
2023-09-19T16:34:20,652   creating build/lib.linux-armv7l-cpython-311/relate/include
2023-09-19T16:34:20,653   creating build/lib.linux-armv7l-cpython-311/relate/include/evaluate
2023-09-19T16:34:20,654   copying relatepy/../relate/include/evaluate/CMakeLists.txt -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/evaluate
2023-09-19T16:34:20,657   creating build/lib.linux-armv7l-cpython-311/relate/include/evaluate/coalescent_rate
2023-09-19T16:34:20,658   copying relatepy/../relate/include/evaluate/coalescent_rate/CoalescentRateForSection.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/evaluate/coalescent_rate
2023-09-19T16:34:20,662   copying relatepy/../relate/include/evaluate/coalescent_rate/FinalizePopulationSize.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/evaluate/coalescent_rate
2023-09-19T16:34:20,665   copying relatepy/../relate/include/evaluate/coalescent_rate/ReEstimateBranchLengths.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/evaluate/coalescent_rate
2023-09-19T16:34:20,669   copying relatepy/../relate/include/evaluate/coalescent_rate/RelateCoalescentRate.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/evaluate/coalescent_rate
2023-09-19T16:34:20,672   copying relatepy/../relate/include/evaluate/coalescent_rate/SummarizeCoalescentRateForGenome.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/evaluate/coalescent_rate
2023-09-19T16:34:20,674   copying relatepy/../relate/include/evaluate/coalescent_rate/coal_tree.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/evaluate/coalescent_rate
2023-09-19T16:34:20,678   copying relatepy/../relate/include/evaluate/coalescent_rate/coal_tree.hpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/evaluate/coalescent_rate
2023-09-19T16:34:20,680   creating build/lib.linux-armv7l-cpython-311/relate/include/evaluate/mutation_rate
2023-09-19T16:34:20,682   copying relatepy/../relate/include/evaluate/mutation_rate/AvgMutationRate.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/evaluate/mutation_rate
2023-09-19T16:34:20,686   copying relatepy/../relate/include/evaluate/mutation_rate/RelateMutationRate.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/evaluate/mutation_rate
2023-09-19T16:34:20,691   creating build/lib.linux-armv7l-cpython-311/relate/include/evaluate/selection
2023-09-19T16:34:20,693   copying relatepy/../relate/include/evaluate/selection/RelateSelection.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/evaluate/selection
2023-09-19T16:34:20,697   creating build/lib.linux-armv7l-cpython-311/relate/include/extract
2023-09-19T16:34:20,698   copying relatepy/../relate/include/extract/AncMutChunks.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/extract
2023-09-19T16:34:20,702   copying relatepy/../relate/include/extract/Annotate.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/extract
2023-09-19T16:34:20,704   copying relatepy/../relate/include/extract/CMakeLists.txt -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/extract
2023-09-19T16:34:20,707   copying relatepy/../relate/include/extract/Convert.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/extract
2023-09-19T16:34:20,710   copying relatepy/../relate/include/extract/CreateAncesTreeFileForSubpopulation.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/extract
2023-09-19T16:34:20,713   copying relatepy/../relate/include/extract/GetTreeOfInterest.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/extract
2023-09-19T16:34:20,715   copying relatepy/../relate/include/extract/RelateExtract.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/extract
2023-09-19T16:34:20,718   copying relatepy/../relate/include/extract/RemoveTreesWithFewMutations.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/extract
2023-09-19T16:34:20,721   creating build/lib.linux-armv7l-cpython-311/relate/include/file_formats
2023-09-19T16:34:20,722   copying relatepy/../relate/include/file_formats/CMakeLists.txt -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/file_formats
2023-09-19T16:34:20,725   copying relatepy/../relate/include/file_formats/ConvertToTreeSequence.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/file_formats
2023-09-19T16:34:20,728   copying relatepy/../relate/include/file_formats/FileFormats.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/file_formats
2023-09-19T16:34:20,731   copying relatepy/../relate/include/file_formats/RelateFileFormats.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/file_formats
2023-09-19T16:34:20,734   creating build/lib.linux-armv7l-cpython-311/relate/include/file_formats/tskit
2023-09-19T16:34:20,735   copying relatepy/../relate/include/file_formats/tskit/CMakeLists.txt -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/file_formats/tskit
2023-09-19T16:34:20,738   copying relatepy/../relate/include/file_formats/tskit/convert.c -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/file_formats/tskit
2023-09-19T16:34:20,742   copying relatepy/../relate/include/file_formats/tskit/convert.h -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/file_formats/tskit
2023-09-19T16:34:20,745   copying relatepy/../relate/include/file_formats/tskit/core.c -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/file_formats/tskit
2023-09-19T16:34:20,748   copying relatepy/../relate/include/file_formats/tskit/core.h -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/file_formats/tskit
2023-09-19T16:34:20,751   copying relatepy/../relate/include/file_formats/tskit/genotypes.c -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/file_formats/tskit
2023-09-19T16:34:20,754   copying relatepy/../relate/include/file_formats/tskit/genotypes.h -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/file_formats/tskit
2023-09-19T16:34:20,757   copying relatepy/../relate/include/file_formats/tskit/kastore.c -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/file_formats/tskit
2023-09-19T16:34:20,760   copying relatepy/../relate/include/file_formats/tskit/kastore.h -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/file_formats/tskit
2023-09-19T16:34:20,763   copying relatepy/../relate/include/file_formats/tskit/stats.c -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/file_formats/tskit
2023-09-19T16:34:20,767   copying relatepy/../relate/include/file_formats/tskit/stats.h -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/file_formats/tskit
2023-09-19T16:34:20,770   copying relatepy/../relate/include/file_formats/tskit/tables.c -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/file_formats/tskit
2023-09-19T16:34:20,777   copying relatepy/../relate/include/file_formats/tskit/tables.h -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/file_formats/tskit
2023-09-19T16:34:20,781   copying relatepy/../relate/include/file_formats/tskit/trees.c -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/file_formats/tskit
2023-09-19T16:34:20,785   copying relatepy/../relate/include/file_formats/tskit/trees.h -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/file_formats/tskit
2023-09-19T16:34:20,788   copying relatepy/../relate/include/file_formats/tskit/tskit.h -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/file_formats/tskit
2023-09-19T16:34:20,790   creating build/lib.linux-armv7l-cpython-311/relate/include/pipeline
2023-09-19T16:34:20,792   copying relatepy/../relate/include/pipeline/BuildTopology.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/pipeline
2023-09-19T16:34:20,795   copying relatepy/../relate/include/pipeline/CMakeLists.txt -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/pipeline
2023-09-19T16:34:20,797   copying relatepy/../relate/include/pipeline/Clean.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/pipeline
2023-09-19T16:34:20,800   copying relatepy/../relate/include/pipeline/CombineSections.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/pipeline
2023-09-19T16:34:20,803   copying relatepy/../relate/include/pipeline/ConvertFromGP.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/pipeline
2023-09-19T16:34:20,806   copying relatepy/../relate/include/pipeline/Finalize.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/pipeline
2023-09-19T16:34:20,808   copying relatepy/../relate/include/pipeline/FindEquivalentBranches.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/pipeline
2023-09-19T16:34:20,811   copying relatepy/../relate/include/pipeline/InferBranchLengths.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/pipeline
2023-09-19T16:34:20,814   copying relatepy/../relate/include/pipeline/MakeChunks.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/pipeline
2023-09-19T16:34:20,817   copying relatepy/../relate/include/pipeline/OptimizeParameters.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/pipeline
2023-09-19T16:34:20,820   copying relatepy/../relate/include/pipeline/Paint.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/pipeline
2023-09-19T16:34:20,823   copying relatepy/../relate/include/pipeline/Relate.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/pipeline
2023-09-19T16:34:20,826   creating build/lib.linux-armv7l-cpython-311/relate/include/src
2023-09-19T16:34:20,827   copying relatepy/../relate/include/src/CMakeLists.txt -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src
2023-09-19T16:34:20,830   copying relatepy/../relate/include/src/anc.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src
2023-09-19T16:34:20,833   copying relatepy/../relate/include/src/anc.hpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src
2023-09-19T16:34:20,836   copying relatepy/../relate/include/src/anc_builder.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src
2023-09-19T16:34:20,840   copying relatepy/../relate/include/src/anc_builder.hpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src
2023-09-19T16:34:20,843   copying relatepy/../relate/include/src/branch_length_estimator.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src
2023-09-19T16:34:20,884   copying relatepy/../relate/include/src/branch_length_estimator.hpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src
2023-09-19T16:34:20,889   copying relatepy/../relate/include/src/collapsed_matrix.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src
2023-09-19T16:34:20,895   copying relatepy/../relate/include/src/collapsed_matrix.hpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src
2023-09-19T16:34:20,903   copying relatepy/../relate/include/src/cxxopts.hpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src
2023-09-19T16:34:20,952   copying relatepy/../relate/include/src/data.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src
2023-09-19T16:34:20,958   copying relatepy/../relate/include/src/data.hpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src
2023-09-19T16:34:20,961   copying relatepy/../relate/include/src/fast_log.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src
2023-09-19T16:34:20,963   copying relatepy/../relate/include/src/fast_log.hpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src
2023-09-19T16:34:20,965   copying relatepy/../relate/include/src/fast_painting.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src
2023-09-19T16:34:20,968   copying relatepy/../relate/include/src/fast_painting.hpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src
2023-09-19T16:34:20,970   copying relatepy/../relate/include/src/filesystem.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src
2023-09-19T16:34:20,972   copying relatepy/../relate/include/src/filesystem.hpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src
2023-09-19T16:34:20,974   copying relatepy/../relate/include/src/mutations.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src
2023-09-19T16:34:20,976   copying relatepy/../relate/include/src/mutations.hpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src
2023-09-19T16:34:20,978   copying relatepy/../relate/include/src/plot.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src
2023-09-19T16:34:20,981   copying relatepy/../relate/include/src/plot.hpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src
2023-09-19T16:34:20,983   copying relatepy/../relate/include/src/sample.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src
2023-09-19T16:34:20,985   copying relatepy/../relate/include/src/sample.hpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src
2023-09-19T16:34:20,988   copying relatepy/../relate/include/src/tree_builder.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src
2023-09-19T16:34:20,992   copying relatepy/../relate/include/src/tree_builder.hpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src
2023-09-19T16:34:20,994   copying relatepy/../relate/include/src/tree_comparer.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src
2023-09-19T16:34:20,997   copying relatepy/../relate/include/src/tree_comparer.hpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src
2023-09-19T16:34:20,999   creating build/lib.linux-armv7l-cpython-311/relate/include/src/gzstream
2023-09-19T16:34:21,000   copying relatepy/../relate/include/src/gzstream/CMakeLists.txt -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src/gzstream
2023-09-19T16:34:21,002   copying relatepy/../relate/include/src/gzstream/COPYING.LIB -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src/gzstream
2023-09-19T16:34:21,005   copying relatepy/../relate/include/src/gzstream/Makefile -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src/gzstream
2023-09-19T16:34:21,007   copying relatepy/../relate/include/src/gzstream/README -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src/gzstream
2023-09-19T16:34:21,009   copying relatepy/../relate/include/src/gzstream/gzstream.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src/gzstream
2023-09-19T16:34:21,011   copying relatepy/../relate/include/src/gzstream/gzstream.hpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src/gzstream
2023-09-19T16:34:21,014   copying relatepy/../relate/include/src/gzstream/gzstream.o -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src/gzstream
2023-09-19T16:34:21,016   copying relatepy/../relate/include/src/gzstream/index.html -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src/gzstream
2023-09-19T16:34:21,019   copying relatepy/../relate/include/src/gzstream/libgzstream.a -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src/gzstream
2023-09-19T16:34:21,022   copying relatepy/../relate/include/src/gzstream/logo.gif -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src/gzstream
2023-09-19T16:34:21,024   copying relatepy/../relate/include/src/gzstream/test_gunzip.C -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src/gzstream
2023-09-19T16:34:21,028   copying relatepy/../relate/include/src/gzstream/test_gzip.C -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src/gzstream
2023-09-19T16:34:21,030   creating build/lib.linux-armv7l-cpython-311/relate/include/src/unused
2023-09-19T16:34:21,031   copying relatepy/../relate/include/src/unused/branch_length_estimator.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src/unused
2023-09-19T16:34:21,036   copying relatepy/../relate/include/src/unused/branch_length_estimator.hpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/src/unused
2023-09-19T16:34:21,039   creating build/lib.linux-armv7l-cpython-311/relate/include/test
2023-09-19T16:34:21,041   copying relatepy/../relate/include/test/CMakeLists.txt -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/test
2023-09-19T16:34:21,044   copying relatepy/../relate/include/test/Tests.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/test
2023-09-19T16:34:21,046   copying relatepy/../relate/include/test/UnitTest.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/test
2023-09-19T16:34:21,049   copying relatepy/../relate/include/test/catch.hpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/test
2023-09-19T16:34:21,066   copying relatepy/../relate/include/test/catch_amalgamated.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/test
2023-09-19T16:34:21,159   copying relatepy/../relate/include/test/catch_amalgamated.hpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/test
2023-09-19T16:34:21,177   copying relatepy/../relate/include/test/test_ancbuilder.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/test
2023-09-19T16:34:21,181   copying relatepy/../relate/include/test/test_applications.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/test
2023-09-19T16:34:21,184   copying relatepy/../relate/include/test/test_log.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/test
2023-09-19T16:34:21,188   copying relatepy/../relate/include/test/test_painting.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/test
2023-09-19T16:34:21,191   copying relatepy/../relate/include/test/test_treebuilder.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/test
2023-09-19T16:34:21,194   creating build/lib.linux-armv7l-cpython-311/relate/include/treeview
2023-09-19T16:34:21,196   copying relatepy/../relate/include/treeview/CMakeLists.txt -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/treeview
2023-09-19T16:34:21,199   copying relatepy/../relate/include/treeview/RelateTreeView.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/treeview
2023-09-19T16:34:21,202   copying relatepy/../relate/include/treeview/Treeview.cpp -> build/lib.linux-armv7l-cpython-311/relatepy/../relate/include/treeview
2023-09-19T16:34:21,208   running build_ext
2023-09-19T16:34:21,217   building 'relatepy.data' extension
2023-09-19T16:34:21,218   creating build/temp.linux-armv7l-cpython-311
2023-09-19T16:34:21,219   creating build/temp.linux-armv7l-cpython-311/relatepy
2023-09-19T16:34:21,221   arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Irelate/include/pipeline -Irelate/include/src -Irelate/include/src/gzstream -I/usr/include/python3.11 -c relatepy/data.cpp -o build/temp.linux-armv7l-cpython-311/relatepy/data.o -std=c++17
2023-09-19T16:34:25,360   In file included from relatepy/data.cpp:1102:
2023-09-19T16:34:25,361   relate/include/pipeline/Paint.cpp: In function ‘int Paint(cxxopts::Options&, int)’:
2023-09-19T16:34:25,361   relate/include/pipeline/Paint.cpp:43:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string<char>::size_type’ {aka ‘unsigned int’} [-Wsign-compare]
2023-09-19T16:34:25,362      43 |                 for(;i < painting.size(); i++){
2023-09-19T16:34:25,362         |                      ~~^~~~~~~~~~~~~~~~~
2023-09-19T16:34:25,363   relate/include/pipeline/Paint.cpp:52:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string<char>::size_type’ {aka ‘unsigned int’} [-Wsign-compare]
2023-09-19T16:34:25,364      52 |                 for(;i < painting.size(); i++){
2023-09-19T16:34:25,365         |                      ~~^~~~~~~~~~~~~~~~~
2023-09-19T16:34:25,378   relate/include/pipeline/Paint.cpp:33:8: warning: unused variable ‘use_transitions’ [-Wunused-variable]
2023-09-19T16:34:25,379      33 |   bool use_transitions = true;
2023-09-19T16:34:25,379         |        ^~~~~~~~~~~~~~~
2023-09-19T16:34:25,851   In file included from relatepy/data.cpp:1103:
2023-09-19T16:34:25,852   relate/include/pipeline/BuildTopology.cpp: In function ‘int BuildTopology(cxxopts::Options&, int, int, int)’:
2023-09-19T16:34:25,853   relate/include/pipeline/BuildTopology.cpp:49:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string<char>::size_type’ {aka ‘unsigned int’} [-Wsign-compare]
2023-09-19T16:34:25,854      49 |                 for(;i < painting.size(); i++){
2023-09-19T16:34:25,855         |                      ~~^~~~~~~~~~~~~~~~~
2023-09-19T16:34:25,857   relate/include/pipeline/BuildTopology.cpp:58:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string<char>::size_type’ {aka ‘unsigned int’} [-Wsign-compare]
2023-09-19T16:34:25,858      58 |                 for(;i < painting.size(); i++){
2023-09-19T16:34:25,860         |                      ~~^~~~~~~~~~~~~~~~~
2023-09-19T16:34:26,565   relatepy/data.cpp: In function ‘PyObject* __pyx_convert_vector_to_py_double(const std::vector<double>&)’:
2023-09-19T16:34:26,566   relatepy/data.cpp:7795:33: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘int’} and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare]
2023-09-19T16:34:26,567    7795 |   for (__pyx_t_5 = 0; __pyx_t_5 < __pyx_t_4; __pyx_t_5+=1) {
2023-09-19T16:34:26,567         |                       ~~~~~~~~~~^~~~~~~~~~~
2023-09-19T16:34:50,219   In file included from /usr/include/c++/12/vector:70,
2023-09-19T16:34:50,219                    from relatepy/data.cpp:1097:
2023-09-19T16:34:50,220   /usr/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]’:
2023-09-19T16:34:50,221   /usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector<double>::iterator’ changed in GCC 7.1
2023-09-19T16:34:50,221     439 |       vector<_Tp, _Alloc>::
2023-09-19T16:34:50,222         |       ^~~~~~~~~~~~~~~~~~~
2023-09-19T16:34:57,004   /usr/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]’:
2023-09-19T16:34:57,005   /usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector<double>::iterator’ changed in GCC 7.1
2023-09-19T16:34:57,098   In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]’,
2023-09-19T16:34:57,098       inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator<double>]’ at /usr/include/c++/12/bits/stl_vector.h:1294:21,
2023-09-19T16:34:57,099       inlined from ‘std::vector<double> __pyx_convert_vector_from_py_double(PyObject*)’ at relatepy/data.cpp:7942:26,
2023-09-19T16:34:57,100       inlined from ‘int __pyx_pf_8relatepy_4data_10RelateData_1r_2__set__(__pyx_obj_8relatepy_4data_RelateData*, PyObject*)’ at relatepy/data.cpp:4623:50,
2023-09-19T16:34:57,100       inlined from ‘int __pyx_pw_8relatepy_4data_10RelateData_1r_3__set__(PyObject*, PyObject*)’ at relatepy/data.cpp:4596:62,
2023-09-19T16:34:57,101       inlined from ‘int __pyx_setprop_8relatepy_4data_10RelateData_r(PyObject*, PyObject*, void*)’ at relatepy/data.cpp:8100:61:
2023-09-19T16:34:57,101   /usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<double*, std::vector<double> >’ changed in GCC 7.1
2023-09-19T16:34:57,102     123 |           _M_realloc_insert(end(), std::forward<_Args>(__args)...);
2023-09-19T16:34:57,103         |           ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2023-09-19T16:34:57,559   In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]’,
2023-09-19T16:34:57,560       inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator<double>]’ at /usr/include/c++/12/bits/stl_vector.h:1294:21,
2023-09-19T16:34:57,560       inlined from ‘int GetBranchLengths(cxxopts::Options&, int, int, int)’ at relate/include/pipeline/InferBranchLengths.cpp:76:22:
2023-09-19T16:34:57,561   /usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<double*, std::vector<double> >’ changed in GCC 7.1
2023-09-19T16:34:57,562     123 |           _M_realloc_insert(end(), std::forward<_Args>(__args)...);
2023-09-19T16:34:57,563         |           ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2023-09-19T16:34:57,563   In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]’,
2023-09-19T16:34:57,564       inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator<double>]’ at /usr/include/c++/12/bits/stl_vector.h:1294:21,
2023-09-19T16:34:57,564       inlined from ‘int GetBranchLengths(cxxopts::Options&, int, int, int)’ at relate/include/pipeline/InferBranchLengths.cpp:92:34:
2023-09-19T16:34:57,565   /usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<double*, std::vector<double> >’ changed in GCC 7.1
2023-09-19T16:34:57,565     123 |           _M_realloc_insert(end(), std::forward<_Args>(__args)...);
2023-09-19T16:34:57,566         |           ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2023-09-19T16:34:57,566   In file included from /usr/include/c++/12/vector:64:
2023-09-19T16:34:57,567   In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]’,
2023-09-19T16:34:57,567       inlined from ‘int GetBranchLengths(cxxopts::Options&, int, int, int)’ at relate/include/pipeline/InferBranchLengths.cpp:88:36:
2023-09-19T16:34:57,568   /usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<double*, std::vector<double> >’ changed in GCC 7.1
2023-09-19T16:34:57,568    1287 |           _M_realloc_insert(end(), __x);
2023-09-19T16:34:57,569         |           ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
2023-09-19T16:35:18,439   arm-linux-gnueabihf-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 build/temp.linux-armv7l-cpython-311/relatepy/data.o -Lrelate/bin -L/usr/lib/arm-linux-gnueabihf -lrelateStatic -lgzstreamStatic -lz -o build/lib.linux-armv7l-cpython-311/relatepy/data.cpython-311-arm-linux-gnueabihf.so -std=c++17
2023-09-19T16:35:19,057   /tmp/pip-build-env-baa1m4m8/overlay/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated.
2023-09-19T16:35:19,058   !!

2023-09-19T16:35:19,059           ********************************************************************************
2023-09-19T16:35:19,059           Please avoid running ``setup.py`` directly.
2023-09-19T16:35:19,060           Instead, use pypa/build, pypa/installer or other
2023-09-19T16:35:19,061           standards-based tools.

2023-09-19T16:35:19,062           See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details.
2023-09-19T16:35:19,063           ********************************************************************************

2023-09-19T16:35:19,064   !!
2023-09-19T16:35:19,065     self.initialize_options()
2023-09-19T16:35:19,066   installing to build/bdist.linux-armv7l/wheel
2023-09-19T16:35:19,067   running install
2023-09-19T16:35:19,091   running install_lib
2023-09-19T16:35:19,097   creating build/bdist.linux-armv7l
2023-09-19T16:35:19,098   creating build/bdist.linux-armv7l/wheel
2023-09-19T16:35:19,100   creating build/bdist.linux-armv7l/wheel/relate
2023-09-19T16:35:19,102   creating build/bdist.linux-armv7l/wheel/relate/bin
2023-09-19T16:35:19,103   copying build/lib.linux-armv7l-cpython-311/relate/bin/libtskitStatic.a -> build/bdist.linux-armv7l/wheel/relate/bin
2023-09-19T16:35:19,112   copying build/lib.linux-armv7l-cpython-311/relate/bin/RelateMutationRate -> build/bdist.linux-armv7l/wheel/relate/bin
2023-09-19T16:35:19,126   copying build/lib.linux-armv7l-cpython-311/relate/bin/libgzstreamStatic.a -> build/bdist.linux-armv7l/wheel/relate/bin
2023-09-19T16:35:19,130   copying build/lib.linux-armv7l-cpython-311/relate/bin/librelateShared.dylib -> build/bdist.linux-armv7l/wheel/relate/bin
2023-09-19T16:35:19,142   copying build/lib.linux-armv7l-cpython-311/relate/bin/RelateCoalescentRate -> build/bdist.linux-armv7l/wheel/relate/bin
2023-09-19T16:35:19,162   copying build/lib.linux-armv7l-cpython-311/relate/bin/Relate -> build/bdist.linux-armv7l/wheel/relate/bin
2023-09-19T16:35:19,179   copying build/lib.linux-armv7l-cpython-311/relate/bin/RelateSelection -> build/bdist.linux-armv7l/wheel/relate/bin
2023-09-19T16:35:19,189   copying build/lib.linux-armv7l-cpython-311/relate/bin/libUnitTest.a -> build/bdist.linux-armv7l/wheel/relate/bin
2023-09-19T16:35:19,382   copying build/lib.linux-armv7l-cpython-311/relate/bin/RelateFileFormats -> build/bdist.linux-armv7l/wheel/relate/bin
2023-09-19T16:35:19,397   copying build/lib.linux-armv7l-cpython-311/relate/bin/RelateExtract -> build/bdist.linux-armv7l/wheel/relate/bin
2023-09-19T16:35:19,413   copying build/lib.linux-armv7l-cpython-311/relate/bin/libkastoreStatic.a -> build/bdist.linux-armv7l/wheel/relate/bin
2023-09-19T16:35:19,416   copying build/lib.linux-armv7l-cpython-311/relate/bin/Tests -> build/bdist.linux-armv7l/wheel/relate/bin
2023-09-19T16:35:19,445   copying build/lib.linux-armv7l-cpython-311/relate/bin/libkastoreShared.dylib -> build/bdist.linux-armv7l/wheel/relate/bin
2023-09-19T16:35:19,448   copying build/lib.linux-armv7l-cpython-311/relate/bin/RelateTreeView -> build/bdist.linux-armv7l/wheel/relate/bin
2023-09-19T16:35:19,461   copying build/lib.linux-armv7l-cpython-311/relate/bin/librelateStatic.a -> build/bdist.linux-armv7l/wheel/relate/bin
2023-09-19T16:35:19,574   copying build/lib.linux-armv7l-cpython-311/relate/bin/libgzstreamShared.dylib -> build/bdist.linux-armv7l/wheel/relate/bin
2023-09-19T16:35:19,578   creating build/bdist.linux-armv7l/wheel/relate/include
2023-09-19T16:35:19,580   creating build/bdist.linux-armv7l/wheel/relate/include/extract
2023-09-19T16:35:19,581   copying build/lib.linux-armv7l-cpython-311/relate/include/extract/RelateExtract.cpp -> build/bdist.linux-armv7l/wheel/relate/include/extract
2023-09-19T16:35:19,584   copying build/lib.linux-armv7l-cpython-311/relate/include/extract/CMakeLists.txt -> build/bdist.linux-armv7l/wheel/relate/include/extract
2023-09-19T16:35:19,586   copying build/lib.linux-armv7l-cpython-311/relate/include/extract/CreateAncesTreeFileForSubpopulation.cpp -> build/bdist.linux-armv7l/wheel/relate/include/extract
2023-09-19T16:35:19,589   copying build/lib.linux-armv7l-cpython-311/relate/include/extract/Convert.cpp -> build/bdist.linux-armv7l/wheel/relate/include/extract
2023-09-19T16:35:19,592   copying build/lib.linux-armv7l-cpython-311/relate/include/extract/AncMutChunks.cpp -> build/bdist.linux-armv7l/wheel/relate/include/extract
2023-09-19T16:35:19,594   copying build/lib.linux-armv7l-cpython-311/relate/include/extract/Annotate.cpp -> build/bdist.linux-armv7l/wheel/relate/include/extract
2023-09-19T16:35:19,597   copying build/lib.linux-armv7l-cpython-311/relate/include/extract/GetTreeOfInterest.cpp -> build/bdist.linux-armv7l/wheel/relate/include/extract
2023-09-19T16:35:19,600   copying build/lib.linux-armv7l-cpython-311/relate/include/extract/RemoveTreesWithFewMutations.cpp -> build/bdist.linux-armv7l/wheel/relate/include/extract
2023-09-19T16:35:19,603   creating build/bdist.linux-armv7l/wheel/relate/include/file_formats
2023-09-19T16:35:19,605   creating build/bdist.linux-armv7l/wheel/relate/include/file_formats/tskit
2023-09-19T16:35:19,607   copying build/lib.linux-armv7l-cpython-311/relate/include/file_formats/tskit/kastore.c -> build/bdist.linux-armv7l/wheel/relate/include/file_formats/tskit
2023-09-19T16:35:19,610   copying build/lib.linux-armv7l-cpython-311/relate/include/file_formats/tskit/tables.c -> build/bdist.linux-armv7l/wheel/relate/include/file_formats/tskit
2023-09-19T16:35:19,616   copying build/lib.linux-armv7l-cpython-311/relate/include/file_formats/tskit/genotypes.h -> build/bdist.linux-armv7l/wheel/relate/include/file_formats/tskit
2023-09-19T16:35:19,619   copying build/lib.linux-armv7l-cpython-311/relate/include/file_formats/tskit/stats.c -> build/bdist.linux-armv7l/wheel/relate/include/file_formats/tskit
2023-09-19T16:35:19,622   copying build/lib.linux-armv7l-cpython-311/relate/include/file_formats/tskit/tskit.h -> build/bdist.linux-armv7l/wheel/relate/include/file_formats/tskit
2023-09-19T16:35:19,624   copying build/lib.linux-armv7l-cpython-311/relate/include/file_formats/tskit/trees.h -> build/bdist.linux-armv7l/wheel/relate/include/file_formats/tskit
2023-09-19T16:35:19,628   copying build/lib.linux-armv7l-cpython-311/relate/include/file_formats/tskit/kastore.h -> build/bdist.linux-armv7l/wheel/relate/include/file_formats/tskit
2023-09-19T16:35:19,631   copying build/lib.linux-armv7l-cpython-311/relate/include/file_formats/tskit/trees.c -> build/bdist.linux-armv7l/wheel/relate/include/file_formats/tskit
2023-09-19T16:35:19,636   copying build/lib.linux-armv7l-cpython-311/relate/include/file_formats/tskit/convert.h -> build/bdist.linux-armv7l/wheel/relate/include/file_formats/tskit
2023-09-19T16:35:19,638   copying build/lib.linux-armv7l-cpython-311/relate/include/file_formats/tskit/CMakeLists.txt -> build/bdist.linux-armv7l/wheel/relate/include/file_formats/tskit
2023-09-19T16:35:19,641   copying build/lib.linux-armv7l-cpython-311/relate/include/file_formats/tskit/convert.c -> build/bdist.linux-armv7l/wheel/relate/include/file_formats/tskit
2023-09-19T16:35:19,644   copying build/lib.linux-armv7l-cpython-311/relate/include/file_formats/tskit/core.h -> build/bdist.linux-armv7l/wheel/relate/include/file_formats/tskit
2023-09-19T16:35:19,647   copying build/lib.linux-armv7l-cpython-311/relate/include/file_formats/tskit/tables.h -> build/bdist.linux-armv7l/wheel/relate/include/file_formats/tskit
2023-09-19T16:35:19,652   copying build/lib.linux-armv7l-cpython-311/relate/include/file_formats/tskit/stats.h -> build/bdist.linux-armv7l/wheel/relate/include/file_formats/tskit
2023-09-19T16:35:19,655   copying build/lib.linux-armv7l-cpython-311/relate/include/file_formats/tskit/core.c -> build/bdist.linux-armv7l/wheel/relate/include/file_formats/tskit
2023-09-19T16:35:19,658   copying build/lib.linux-armv7l-cpython-311/relate/include/file_formats/tskit/genotypes.c -> build/bdist.linux-armv7l/wheel/relate/include/file_formats/tskit
2023-09-19T16:35:19,662   copying build/lib.linux-armv7l-cpython-311/relate/include/file_formats/CMakeLists.txt -> build/bdist.linux-armv7l/wheel/relate/include/file_formats
2023-09-19T16:35:19,664   copying build/lib.linux-armv7l-cpython-311/relate/include/file_formats/FileFormats.cpp -> build/bdist.linux-armv7l/wheel/relate/include/file_formats
2023-09-19T16:35:19,668   copying build/lib.linux-armv7l-cpython-311/relate/include/file_formats/ConvertToTreeSequence.cpp -> build/bdist.linux-armv7l/wheel/relate/include/file_formats
2023-09-19T16:35:19,672   copying build/lib.linux-armv7l-cpython-311/relate/include/file_formats/RelateFileFormats.cpp -> build/bdist.linux-armv7l/wheel/relate/include/file_formats
2023-09-19T16:35:19,675   creating build/bdist.linux-armv7l/wheel/relate/include/src
2023-09-19T16:35:19,677   copying build/lib.linux-armv7l-cpython-311/relate/include/src/tree_builder.cpp -> build/bdist.linux-armv7l/wheel/relate/include/src
2023-09-19T16:35:19,683   copying build/lib.linux-armv7l-cpython-311/relate/include/src/filesystem.cpp -> build/bdist.linux-armv7l/wheel/relate/include/src
2023-09-19T16:35:19,685   copying build/lib.linux-armv7l-cpython-311/relate/include/src/tree_comparer.hpp -> build/bdist.linux-armv7l/wheel/relate/include/src
2023-09-19T16:35:19,688   copying build/lib.linux-armv7l-cpython-311/relate/include/src/plot.cpp -> build/bdist.linux-armv7l/wheel/relate/include/src
2023-09-19T16:35:19,691   copying build/lib.linux-armv7l-cpython-311/relate/include/src/mutations.hpp -> build/bdist.linux-armv7l/wheel/relate/include/src
2023-09-19T16:35:19,693   copying build/lib.linux-armv7l-cpython-311/relate/include/src/anc.cpp -> build/bdist.linux-armv7l/wheel/relate/include/src
2023-09-19T16:35:19,697   copying build/lib.linux-armv7l-cpython-311/relate/include/src/fast_painting.cpp -> build/bdist.linux-armv7l/wheel/relate/include/src
2023-09-19T16:35:19,701   copying build/lib.linux-armv7l-cpython-311/relate/include/src/branch_length_estimator.cpp -> build/bdist.linux-armv7l/wheel/relate/include/src
2023-09-19T16:35:19,707   copying build/lib.linux-armv7l-cpython-311/relate/include/src/cxxopts.hpp -> build/bdist.linux-armv7l/wheel/relate/include/src
2023-09-19T16:35:19,711   copying build/lib.linux-armv7l-cpython-311/relate/include/src/collapsed_matrix.hpp -> build/bdist.linux-armv7l/wheel/relate/include/src
2023-09-19T16:35:19,714   copying build/lib.linux-armv7l-cpython-311/relate/include/src/anc_builder.cpp -> build/bdist.linux-armv7l/wheel/relate/include/src
2023-09-19T16:35:19,717   copying build/lib.linux-armv7l-cpython-311/relate/include/src/sample.hpp -> build/bdist.linux-armv7l/wheel/relate/include/src
2023-09-19T16:35:19,720   copying build/lib.linux-armv7l-cpython-311/relate/include/src/tree_builder.hpp -> build/bdist.linux-armv7l/wheel/relate/include/src
2023-09-19T16:35:19,724   copying build/lib.linux-armv7l-cpython-311/relate/include/src/CMakeLists.txt -> build/bdist.linux-armv7l/wheel/relate/include/src
2023-09-19T16:35:19,726   copying build/lib.linux-armv7l-cpython-311/relate/include/src/sample.cpp -> build/bdist.linux-armv7l/wheel/relate/include/src
2023-09-19T16:35:19,729   creating build/bdist.linux-armv7l/wheel/relate/include/src/gzstream
2023-09-19T16:35:19,730   copying build/lib.linux-armv7l-cpython-311/relate/include/src/gzstream/README -> build/bdist.linux-armv7l/wheel/relate/include/src/gzstream
2023-09-19T16:35:19,732   copying build/lib.linux-armv7l-cpython-311/relate/include/src/gzstream/gzstream.o -> build/bdist.linux-armv7l/wheel/relate/include/src/gzstream
2023-09-19T16:35:19,734   copying build/lib.linux-armv7l-cpython-311/relate/include/src/gzstream/COPYING.LIB -> build/bdist.linux-armv7l/wheel/relate/include/src/gzstream
2023-09-19T16:35:19,737   copying build/lib.linux-armv7l-cpython-311/relate/include/src/gzstream/index.html -> build/bdist.linux-armv7l/wheel/relate/include/src/gzstream
2023-09-19T16:35:19,739   copying build/lib.linux-armv7l-cpython-311/relate/include/src/gzstream/Makefile -> build/bdist.linux-armv7l/wheel/relate/include/src/gzstream
2023-09-19T16:35:19,741   copying build/lib.linux-armv7l-cpython-311/relate/include/src/gzstream/libgzstream.a -> build/bdist.linux-armv7l/wheel/relate/include/src/gzstream
2023-09-19T16:35:19,744   copying build/lib.linux-armv7l-cpython-311/relate/include/src/gzstream/gzstream.cpp -> build/bdist.linux-armv7l/wheel/relate/include/src/gzstream
2023-09-19T16:35:19,746   copying build/lib.linux-armv7l-cpython-311/relate/include/src/gzstream/gzstream.hpp -> build/bdist.linux-armv7l/wheel/relate/include/src/gzstream
2023-09-19T16:35:19,748   copying build/lib.linux-armv7l-cpython-311/relate/include/src/gzstream/CMakeLists.txt -> build/bdist.linux-armv7l/wheel/relate/include/src/gzstream
2023-09-19T16:35:19,750   copying build/lib.linux-armv7l-cpython-311/relate/include/src/gzstream/test_gunzip.C -> build/bdist.linux-armv7l/wheel/relate/include/src/gzstream
2023-09-19T16:35:19,752   copying build/lib.linux-armv7l-cpython-311/relate/include/src/gzstream/test_gzip.C -> build/bdist.linux-armv7l/wheel/relate/include/src/gzstream
2023-09-19T16:35:19,754   copying build/lib.linux-armv7l-cpython-311/relate/include/src/gzstream/logo.gif -> build/bdist.linux-armv7l/wheel/relate/include/src/gzstream
2023-09-19T16:35:19,756   copying build/lib.linux-armv7l-cpython-311/relate/include/src/tree_comparer.cpp -> build/bdist.linux-armv7l/wheel/relate/include/src
2023-09-19T16:35:19,758   copying build/lib.linux-armv7l-cpython-311/relate/include/src/data.cpp -> build/bdist.linux-armv7l/wheel/relate/include/src
2023-09-19T16:35:19,761   copying build/lib.linux-armv7l-cpython-311/relate/include/src/fast_log.cpp -> build/bdist.linux-armv7l/wheel/relate/include/src
2023-09-19T16:35:19,763   copying build/lib.linux-armv7l-cpython-311/relate/include/src/plot.hpp -> build/bdist.linux-armv7l/wheel/relate/include/src
2023-09-19T16:35:19,765   copying build/lib.linux-armv7l-cpython-311/relate/include/src/filesystem.hpp -> build/bdist.linux-armv7l/wheel/relate/include/src
2023-09-19T16:35:19,768   copying build/lib.linux-armv7l-cpython-311/relate/include/src/mutations.cpp -> build/bdist.linux-armv7l/wheel/relate/include/src
2023-09-19T16:35:19,773   copying build/lib.linux-armv7l-cpython-311/relate/include/src/fast_log.hpp -> build/bdist.linux-armv7l/wheel/relate/include/src
2023-09-19T16:35:19,775   copying build/lib.linux-armv7l-cpython-311/relate/include/src/data.hpp -> build/bdist.linux-armv7l/wheel/relate/include/src
2023-09-19T16:35:19,777   copying build/lib.linux-armv7l-cpython-311/relate/include/src/anc_builder.hpp -> build/bdist.linux-armv7l/wheel/relate/include/src
2023-09-19T16:35:19,780   copying build/lib.linux-armv7l-cpython-311/relate/include/src/collapsed_matrix.cpp -> build/bdist.linux-armv7l/wheel/relate/include/src
2023-09-19T16:35:19,782   copying build/lib.linux-armv7l-cpython-311/relate/include/src/fast_painting.hpp -> build/bdist.linux-armv7l/wheel/relate/include/src
2023-09-19T16:35:19,785   creating build/bdist.linux-armv7l/wheel/relate/include/src/unused
2023-09-19T16:35:19,785   copying build/lib.linux-armv7l-cpython-311/relate/include/src/unused/branch_length_estimator.cpp -> build/bdist.linux-armv7l/wheel/relate/include/src/unused
2023-09-19T16:35:19,790   copying build/lib.linux-armv7l-cpython-311/relate/include/src/unused/branch_length_estimator.hpp -> build/bdist.linux-armv7l/wheel/relate/include/src/unused
2023-09-19T16:35:19,792   copying build/lib.linux-armv7l-cpython-311/relate/include/src/branch_length_estimator.hpp -> build/bdist.linux-armv7l/wheel/relate/include/src
2023-09-19T16:35:19,794   copying build/lib.linux-armv7l-cpython-311/relate/include/src/anc.hpp -> build/bdist.linux-armv7l/wheel/relate/include/src
2023-09-19T16:35:19,797   creating build/bdist.linux-armv7l/wheel/relate/include/test
2023-09-19T16:35:19,798   copying build/lib.linux-armv7l-cpython-311/relate/include/test/test_applications.cpp -> build/bdist.linux-armv7l/wheel/relate/include/test
2023-09-19T16:35:19,800   copying build/lib.linux-armv7l-cpython-311/relate/include/test/catch.hpp -> build/bdist.linux-armv7l/wheel/relate/include/test
2023-09-19T16:35:19,808   copying build/lib.linux-armv7l-cpython-311/relate/include/test/catch_amalgamated.cpp -> build/bdist.linux-armv7l/wheel/relate/include/test
2023-09-19T16:35:19,815   copying build/lib.linux-armv7l-cpython-311/relate/include/test/UnitTest.cpp -> build/bdist.linux-armv7l/wheel/relate/include/test
2023-09-19T16:35:19,817   copying build/lib.linux-armv7l-cpython-311/relate/include/test/test_ancbuilder.cpp -> build/bdist.linux-armv7l/wheel/relate/include/test
2023-09-19T16:35:19,819   copying build/lib.linux-armv7l-cpython-311/relate/include/test/Tests.cpp -> build/bdist.linux-armv7l/wheel/relate/include/test
2023-09-19T16:35:19,821   copying build/lib.linux-armv7l-cpython-311/relate/include/test/test_painting.cpp -> build/bdist.linux-armv7l/wheel/relate/include/test
2023-09-19T16:35:19,823   copying build/lib.linux-armv7l-cpython-311/relate/include/test/CMakeLists.txt -> build/bdist.linux-armv7l/wheel/relate/include/test
2023-09-19T16:35:19,825   copying build/lib.linux-armv7l-cpython-311/relate/include/test/catch_amalgamated.hpp -> build/bdist.linux-armv7l/wheel/relate/include/test
2023-09-19T16:35:19,834   copying build/lib.linux-armv7l-cpython-311/relate/include/test/test_treebuilder.cpp -> build/bdist.linux-armv7l/wheel/relate/include/test
2023-09-19T16:35:19,836   copying build/lib.linux-armv7l-cpython-311/relate/include/test/test_log.cpp -> build/bdist.linux-armv7l/wheel/relate/include/test
2023-09-19T16:35:19,838   creating build/bdist.linux-armv7l/wheel/relate/include/treeview
2023-09-19T16:35:19,839   copying build/lib.linux-armv7l-cpython-311/relate/include/treeview/RelateTreeView.cpp -> build/bdist.linux-armv7l/wheel/relate/include/treeview
2023-09-19T16:35:19,842   copying build/lib.linux-armv7l-cpython-311/relate/include/treeview/CMakeLists.txt -> build/bdist.linux-armv7l/wheel/relate/include/treeview
2023-09-19T16:35:19,844   copying build/lib.linux-armv7l-cpython-311/relate/include/treeview/Treeview.cpp -> build/bdist.linux-armv7l/wheel/relate/include/treeview
2023-09-19T16:35:19,847   creating build/bdist.linux-armv7l/wheel/relate/include/evaluate
2023-09-19T16:35:19,849   creating build/bdist.linux-armv7l/wheel/relate/include/evaluate/selection
2023-09-19T16:35:19,850   copying build/lib.linux-armv7l-cpython-311/relate/include/evaluate/selection/RelateSelection.cpp -> build/bdist.linux-armv7l/wheel/relate/include/evaluate/selection
2023-09-19T16:35:19,853   copying build/lib.linux-armv7l-cpython-311/relate/include/evaluate/CMakeLists.txt -> build/bdist.linux-armv7l/wheel/relate/include/evaluate
2023-09-19T16:35:19,855   creating build/bdist.linux-armv7l/wheel/relate/include/evaluate/mutation_rate
2023-09-19T16:35:19,856   copying build/lib.linux-armv7l-cpython-311/relate/include/evaluate/mutation_rate/RelateMutationRate.cpp -> build/bdist.linux-armv7l/wheel/relate/include/evaluate/mutation_rate
2023-09-19T16:35:19,861   copying build/lib.linux-armv7l-cpython-311/relate/include/evaluate/mutation_rate/AvgMutationRate.cpp -> build/bdist.linux-armv7l/wheel/relate/include/evaluate/mutation_rate
2023-09-19T16:35:19,865   creating build/bdist.linux-armv7l/wheel/relate/include/evaluate/coalescent_rate
2023-09-19T16:35:19,866   copying build/lib.linux-armv7l-cpython-311/relate/include/evaluate/coalescent_rate/CoalescentRateForSection.cpp -> build/bdist.linux-armv7l/wheel/relate/include/evaluate/coalescent_rate
2023-09-19T16:35:19,869   copying build/lib.linux-armv7l-cpython-311/relate/include/evaluate/coalescent_rate/coal_tree.cpp -> build/bdist.linux-armv7l/wheel/relate/include/evaluate/coalescent_rate
2023-09-19T16:35:19,872   copying build/lib.linux-armv7l-cpython-311/relate/include/evaluate/coalescent_rate/SummarizeCoalescentRateForGenome.cpp -> build/bdist.linux-armv7l/wheel/relate/include/evaluate/coalescent_rate
2023-09-19T16:35:19,874   copying build/lib.linux-armv7l-cpython-311/relate/include/evaluate/coalescent_rate/FinalizePopulationSize.cpp -> build/bdist.linux-armv7l/wheel/relate/include/evaluate/coalescent_rate
2023-09-19T16:35:19,877   copying build/lib.linux-armv7l-cpython-311/relate/include/evaluate/coalescent_rate/ReEstimateBranchLengths.cpp -> build/bdist.linux-armv7l/wheel/relate/include/evaluate/coalescent_rate
2023-09-19T16:35:19,880   copying build/lib.linux-armv7l-cpython-311/relate/include/evaluate/coalescent_rate/RelateCoalescentRate.cpp -> build/bdist.linux-armv7l/wheel/relate/include/evaluate/coalescent_rate
2023-09-19T16:35:19,882   copying build/lib.linux-armv7l-cpython-311/relate/include/evaluate/coalescent_rate/coal_tree.hpp -> build/bdist.linux-armv7l/wheel/relate/include/evaluate/coalescent_rate
2023-09-19T16:35:19,885   creating build/bdist.linux-armv7l/wheel/relate/include/pipeline
2023-09-19T16:35:19,886   copying build/lib.linux-armv7l-cpython-311/relate/include/pipeline/Clean.cpp -> build/bdist.linux-armv7l/wheel/relate/include/pipeline
2023-09-19T16:35:19,889   copying build/lib.linux-armv7l-cpython-311/relate/include/pipeline/Finalize.cpp -> build/bdist.linux-armv7l/wheel/relate/include/pipeline
2023-09-19T16:35:19,898   copying build/lib.linux-armv7l-cpython-311/relate/include/pipeline/ConvertFromGP.cpp -> build/bdist.linux-armv7l/wheel/relate/include/pipeline
2023-09-19T16:35:19,904   copying build/lib.linux-armv7l-cpython-311/relate/include/pipeline/CMakeLists.txt -> build/bdist.linux-armv7l/wheel/relate/include/pipeline
2023-09-19T16:35:19,907   copying build/lib.linux-armv7l-cpython-311/relate/include/pipeline/Relate.cpp -> build/bdist.linux-armv7l/wheel/relate/include/pipeline
2023-09-19T16:35:19,909   copying build/lib.linux-armv7l-cpython-311/relate/include/pipeline/MakeChunks.cpp -> build/bdist.linux-armv7l/wheel/relate/include/pipeline
2023-09-19T16:35:19,912   copying build/lib.linux-armv7l-cpython-311/relate/include/pipeline/BuildTopology.cpp -> build/bdist.linux-armv7l/wheel/relate/include/pipeline
2023-09-19T16:35:19,914   copying build/lib.linux-armv7l-cpython-311/relate/include/pipeline/CombineSections.cpp -> build/bdist.linux-armv7l/wheel/relate/include/pipeline
2023-09-19T16:35:19,916   copying build/lib.linux-armv7l-cpython-311/relate/include/pipeline/InferBranchLengths.cpp -> build/bdist.linux-armv7l/wheel/relate/include/pipeline
2023-09-19T16:35:19,919   copying build/lib.linux-armv7l-cpython-311/relate/include/pipeline/OptimizeParameters.cpp -> build/bdist.linux-armv7l/wheel/relate/include/pipeline
2023-09-19T16:35:19,921   copying build/lib.linux-armv7l-cpython-311/relate/include/pipeline/Paint.cpp -> build/bdist.linux-armv7l/wheel/relate/include/pipeline
2023-09-19T16:35:19,924   copying build/lib.linux-armv7l-cpython-311/relate/include/pipeline/FindEquivalentBranches.cpp -> build/bdist.linux-armv7l/wheel/relate/include/pipeline
2023-09-19T16:35:19,926   creating build/bdist.linux-armv7l/wheel/relatepy
2023-09-19T16:35:19,927   copying build/lib.linux-armv7l-cpython-311/relatepy/__init__.py -> build/bdist.linux-armv7l/wheel/relatepy
2023-09-19T16:35:19,929   copying build/lib.linux-armv7l-cpython-311/relatepy/__main__.py -> build/bdist.linux-armv7l/wheel/relatepy
2023-09-19T16:35:19,931   copying build/lib.linux-armv7l-cpython-311/relatepy/data.py -> build/bdist.linux-armv7l/wheel/relatepy
2023-09-19T16:35:19,933   copying build/lib.linux-armv7l-cpython-311/relatepy/data.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/relatepy
2023-09-19T16:35:20,015   copying build/lib.linux-armv7l-cpython-311/relatepy/data.cpp -> build/bdist.linux-armv7l/wheel/relatepy
2023-09-19T16:35:20,025   copying build/lib.linux-armv7l-cpython-311/relatepy/options.cpp -> build/bdist.linux-armv7l/wheel/relatepy
2023-09-19T16:35:20,027   running install_egg_info
2023-09-19T16:35:20,033   Copying relatepy.egg-info to build/bdist.linux-armv7l/wheel/relatepy-0.1.0-py3.11.egg-info
2023-09-19T16:35:20,047   running install_scripts
2023-09-19T16:35:20,094   creating build/bdist.linux-armv7l/wheel/relatepy-0.1.0.dist-info/WHEEL
2023-09-19T16:35:20,097   creating '/tmp/pip-wheel-miinnxvt/tmp9plq87cz/relatepy-0.1.0-cp311-cp311-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2023-09-19T16:35:20,223   adding 'relate/bin/Relate'
2023-09-19T16:35:20,355   adding 'relate/bin/RelateCoalescentRate'
2023-09-19T16:35:20,476   adding 'relate/bin/RelateExtract'
2023-09-19T16:35:20,579   adding 'relate/bin/RelateFileFormats'
2023-09-19T16:35:20,697   adding 'relate/bin/RelateMutationRate'
2023-09-19T16:35:20,767   adding 'relate/bin/RelateSelection'
2023-09-19T16:35:20,858   adding 'relate/bin/RelateTreeView'
2023-09-19T16:35:21,060   adding 'relate/bin/Tests'
2023-09-19T16:35:22,364   adding 'relate/bin/libUnitTest.a'
2023-09-19T16:35:22,463   adding 'relate/bin/libgzstreamShared.dylib'
2023-09-19T16:35:22,476   adding 'relate/bin/libgzstreamStatic.a'
2023-09-19T16:35:22,481   adding 'relate/bin/libkastoreShared.dylib'
2023-09-19T16:35:22,488   adding 'relate/bin/libkastoreStatic.a'
2023-09-19T16:35:22,563   adding 'relate/bin/librelateShared.dylib'
2023-09-19T16:35:23,447   adding 'relate/bin/librelateStatic.a'
2023-09-19T16:35:23,572   adding 'relate/bin/libtskitStatic.a'
2023-09-19T16:35:23,578   adding 'relate/include/evaluate/CMakeLists.txt'
2023-09-19T16:35:23,582   adding 'relate/include/evaluate/coalescent_rate/CoalescentRateForSection.cpp'
2023-09-19T16:35:23,585   adding 'relate/include/evaluate/coalescent_rate/FinalizePopulationSize.cpp'
2023-09-19T16:35:23,589   adding 'relate/include/evaluate/coalescent_rate/ReEstimateBranchLengths.cpp'
2023-09-19T16:35:23,591   adding 'relate/include/evaluate/coalescent_rate/RelateCoalescentRate.cpp'
2023-09-19T16:35:23,593   adding 'relate/include/evaluate/coalescent_rate/SummarizeCoalescentRateForGenome.cpp'
2023-09-19T16:35:23,596   adding 'relate/include/evaluate/coalescent_rate/coal_tree.cpp'
2023-09-19T16:35:23,597   adding 'relate/include/evaluate/coalescent_rate/coal_tree.hpp'
2023-09-19T16:35:23,602   adding 'relate/include/evaluate/mutation_rate/AvgMutationRate.cpp'
2023-09-19T16:35:23,611   adding 'relate/include/evaluate/mutation_rate/RelateMutationRate.cpp'
2023-09-19T16:35:23,617   adding 'relate/include/evaluate/selection/RelateSelection.cpp'
2023-09-19T16:35:23,620   adding 'relate/include/extract/AncMutChunks.cpp'
2023-09-19T16:35:23,623   adding 'relate/include/extract/Annotate.cpp'
2023-09-19T16:35:23,625   adding 'relate/include/extract/CMakeLists.txt'
2023-09-19T16:35:23,627   adding 'relate/include/extract/Convert.cpp'
2023-09-19T16:35:23,630   adding 'relate/include/extract/CreateAncesTreeFileForSubpopulation.cpp'
2023-09-19T16:35:23,632   adding 'relate/include/extract/GetTreeOfInterest.cpp'
2023-09-19T16:35:23,634   adding 'relate/include/extract/RelateExtract.cpp'
2023-09-19T16:35:23,636   adding 'relate/include/extract/RemoveTreesWithFewMutations.cpp'
2023-09-19T16:35:23,638   adding 'relate/include/file_formats/CMakeLists.txt'
2023-09-19T16:35:23,641   adding 'relate/include/file_formats/ConvertToTreeSequence.cpp'
2023-09-19T16:35:23,645   adding 'relate/include/file_formats/FileFormats.cpp'
2023-09-19T16:35:23,647   adding 'relate/include/file_formats/RelateFileFormats.cpp'
2023-09-19T16:35:23,649   adding 'relate/include/file_formats/tskit/CMakeLists.txt'
2023-09-19T16:35:23,651   adding 'relate/include/file_formats/tskit/convert.c'
2023-09-19T16:35:23,653   adding 'relate/include/file_formats/tskit/convert.h'
2023-09-19T16:35:23,655   adding 'relate/include/file_formats/tskit/core.c'
2023-09-19T16:35:23,658   adding 'relate/include/file_formats/tskit/core.h'
2023-09-19T16:35:23,661   adding 'relate/include/file_formats/tskit/genotypes.c'
2023-09-19T16:35:23,663   adding 'relate/include/file_formats/tskit/genotypes.h'
2023-09-19T16:35:23,666   adding 'relate/include/file_formats/tskit/kastore.c'
2023-09-19T16:35:23,669   adding 'relate/include/file_formats/tskit/kastore.h'
2023-09-19T16:35:23,671   adding 'relate/include/file_formats/tskit/stats.c'
2023-09-19T16:35:23,673   adding 'relate/include/file_formats/tskit/stats.h'
2023-09-19T16:35:23,690   adding 'relate/include/file_formats/tskit/tables.c'
2023-09-19T16:35:23,702   adding 'relate/include/file_formats/tskit/tables.h'
2023-09-19T16:35:23,711   adding 'relate/include/file_formats/tskit/trees.c'
2023-09-19T16:35:23,715   adding 'relate/include/file_formats/tskit/trees.h'
2023-09-19T16:35:23,719   adding 'relate/include/file_formats/tskit/tskit.h'
2023-09-19T16:35:23,724   adding 'relate/include/pipeline/BuildTopology.cpp'
2023-09-19T16:35:23,726   adding 'relate/include/pipeline/CMakeLists.txt'
2023-09-19T16:35:23,728   adding 'relate/include/pipeline/Clean.cpp'
2023-09-19T16:35:23,731   adding 'relate/include/pipeline/CombineSections.cpp'
2023-09-19T16:35:23,734   adding 'relate/include/pipeline/ConvertFromGP.cpp'
2023-09-19T16:35:23,738   adding 'relate/include/pipeline/Finalize.cpp'
2023-09-19T16:35:23,741   adding 'relate/include/pipeline/FindEquivalentBranches.cpp'
2023-09-19T16:35:23,744   adding 'relate/include/pipeline/InferBranchLengths.cpp'
2023-09-19T16:35:23,746   adding 'relate/include/pipeline/MakeChunks.cpp'
2023-09-19T16:35:23,749   adding 'relate/include/pipeline/OptimizeParameters.cpp'
2023-09-19T16:35:23,753   adding 'relate/include/pipeline/Paint.cpp'
2023-09-19T16:35:23,756   adding 'relate/include/pipeline/Relate.cpp'
2023-09-19T16:35:23,763   adding 'relate/include/src/CMakeLists.txt'
2023-09-19T16:35:23,770   adding 'relate/include/src/anc.cpp'
2023-09-19T16:35:23,775   adding 'relate/include/src/anc.hpp'
2023-09-19T16:35:23,781   adding 'relate/include/src/anc_builder.cpp'
2023-09-19T16:35:23,784   adding 'relate/include/src/anc_builder.hpp'
2023-09-19T16:35:23,795   adding 'relate/include/src/branch_length_estimator.cpp'
2023-09-19T16:35:23,800   adding 'relate/include/src/branch_length_estimator.hpp'
2023-09-19T16:35:23,803   adding 'relate/include/src/collapsed_matrix.cpp'
2023-09-19T16:35:23,806   adding 'relate/include/src/collapsed_matrix.hpp'
2023-09-19T16:35:23,812   adding 'relate/include/src/cxxopts.hpp'
2023-09-19T16:35:23,817   adding 'relate/include/src/data.cpp'
2023-09-19T16:35:23,822   adding 'relate/include/src/data.hpp'
2023-09-19T16:35:23,827   adding 'relate/include/src/fast_log.cpp'
2023-09-19T16:35:23,831   adding 'relate/include/src/fast_log.hpp'
2023-09-19T16:35:23,836   adding 'relate/include/src/fast_painting.cpp'
2023-09-19T16:35:23,838   adding 'relate/include/src/fast_painting.hpp'
2023-09-19T16:35:23,840   adding 'relate/include/src/filesystem.cpp'
2023-09-19T16:35:23,843   adding 'relate/include/src/filesystem.hpp'
2023-09-19T16:35:23,846   adding 'relate/include/src/mutations.cpp'
2023-09-19T16:35:23,849   adding 'relate/include/src/mutations.hpp'
2023-09-19T16:35:23,851   adding 'relate/include/src/plot.cpp'
2023-09-19T16:35:23,853   adding 'relate/include/src/plot.hpp'
2023-09-19T16:35:23,855   adding 'relate/include/src/sample.cpp'
2023-09-19T16:35:23,857   adding 'relate/include/src/sample.hpp'
2023-09-19T16:35:23,867   adding 'relate/include/src/tree_builder.cpp'
2023-09-19T16:35:23,870   adding 'relate/include/src/tree_builder.hpp'
2023-09-19T16:35:23,872   adding 'relate/include/src/tree_comparer.cpp'
2023-09-19T16:35:23,873   adding 'relate/include/src/tree_comparer.hpp'
2023-09-19T16:35:23,876   adding 'relate/include/src/gzstream/CMakeLists.txt'
2023-09-19T16:35:23,881   adding 'relate/include/src/gzstream/COPYING.LIB'
2023-09-19T16:35:23,883   adding 'relate/include/src/gzstream/Makefile'
2023-09-19T16:35:23,884   adding 'relate/include/src/gzstream/README'
2023-09-19T16:35:23,886   adding 'relate/include/src/gzstream/gzstream.cpp'
2023-09-19T16:35:23,887   adding 'relate/include/src/gzstream/gzstream.hpp'
2023-09-19T16:35:23,889   adding 'relate/include/src/gzstream/gzstream.o'
2023-09-19T16:35:23,891   adding 'relate/include/src/gzstream/index.html'
2023-09-19T16:35:23,893   adding 'relate/include/src/gzstream/libgzstream.a'
2023-09-19T16:35:23,895   adding 'relate/include/src/gzstream/logo.gif'
2023-09-19T16:35:23,896   adding 'relate/include/src/gzstream/test_gunzip.C'
2023-09-19T16:35:23,898   adding 'relate/include/src/gzstream/test_gzip.C'
2023-09-19T16:35:23,904   adding 'relate/include/src/unused/branch_length_estimator.cpp'
2023-09-19T16:35:23,906   adding 'relate/include/src/unused/branch_length_estimator.hpp'
2023-09-19T16:35:23,908   adding 'relate/include/test/CMakeLists.txt'
2023-09-19T16:35:23,910   adding 'relate/include/test/Tests.cpp'
2023-09-19T16:35:23,911   adding 'relate/include/test/UnitTest.cpp'
2023-09-19T16:35:23,950   adding 'relate/include/test/catch.hpp'
2023-09-19T16:35:23,988   adding 'relate/include/test/catch_amalgamated.cpp'
2023-09-19T16:35:24,024   adding 'relate/include/test/catch_amalgamated.hpp'
2023-09-19T16:35:24,029   adding 'relate/include/test/test_ancbuilder.cpp'
2023-09-19T16:35:24,030   adding 'relate/include/test/test_applications.cpp'
2023-09-19T16:35:24,031   adding 'relate/include/test/test_log.cpp'
2023-09-19T16:35:24,033   adding 'relate/include/test/test_painting.cpp'
2023-09-19T16:35:24,034   adding 'relate/include/test/test_treebuilder.cpp'
2023-09-19T16:35:24,036   adding 'relate/include/treeview/CMakeLists.txt'
2023-09-19T16:35:24,037   adding 'relate/include/treeview/RelateTreeView.cpp'
2023-09-19T16:35:24,040   adding 'relate/include/treeview/Treeview.cpp'
2023-09-19T16:35:24,042   adding 'relatepy/__init__.py'
2023-09-19T16:35:24,044   adding 'relatepy/__main__.py'
2023-09-19T16:35:24,085   adding 'relatepy/data.cpp'
2023-09-19T16:35:24,927   adding 'relatepy/data.cpython-311-arm-linux-gnueabihf.so'
2023-09-19T16:35:24,968   adding 'relatepy/data.py'
2023-09-19T16:35:24,970   adding 'relatepy/options.cpp'
2023-09-19T16:35:24,972   adding 'relatepy-0.1.0.dist-info/METADATA'
2023-09-19T16:35:24,973   adding 'relatepy-0.1.0.dist-info/WHEEL'
2023-09-19T16:35:24,974   adding 'relatepy-0.1.0.dist-info/top_level.txt'
2023-09-19T16:35:24,976   adding 'relatepy-0.1.0.dist-info/RECORD'
2023-09-19T16:35:25,088   removing build/bdist.linux-armv7l/wheel
2023-09-19T16:35:25,322   Building wheel for relatepy (pyproject.toml): finished with status 'done'
2023-09-19T16:35:25,568   Created wheel for relatepy: filename=relatepy-0.1.0-cp311-cp311-linux_armv7l.whl size=10003700 sha256=421a03211566b28a7ed639d4638ab855cfb47defa6bd605f421f4dff2e234c37
2023-09-19T16:35:25,570   Stored in directory: /tmp/pip-ephem-wheel-cache-et2_4tfe/wheels/9c/43/cf/3fd676c243a04a2bd0c78564bbcca2ac30d4ca504659f4bc68
2023-09-19T16:35:25,586 Successfully built relatepy
2023-09-19T16:35:25,829 Removed build tracker: '/tmp/pip-build-tracker-0gv5gnd1'