2023-09-14T13:27:39,080 Created temporary directory: /tmp/pip-build-tracker-t9thgull
2023-09-14T13:27:39,081 Initialized build tracking at /tmp/pip-build-tracker-t9thgull
2023-09-14T13:27:39,081 Created build tracker: /tmp/pip-build-tracker-t9thgull
2023-09-14T13:27:39,082 Entered build tracker: /tmp/pip-build-tracker-t9thgull
2023-09-14T13:27:39,082 Created temporary directory: /tmp/pip-wheel-dgiteood
2023-09-14T13:27:39,085 Created temporary directory: /tmp/pip-ephem-wheel-cache-rwibi48e
2023-09-14T13:27:39,107 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2023-09-14T13:27:39,110 2 location(s) to search for versions of pyckmeans:
2023-09-14T13:27:39,110 * https://pypi.org/simple/pyckmeans/
2023-09-14T13:27:39,110 * https://www.piwheels.org/simple/pyckmeans/
2023-09-14T13:27:39,111 Fetching project page and analyzing links: https://pypi.org/simple/pyckmeans/
2023-09-14T13:27:39,112 Getting page https://pypi.org/simple/pyckmeans/
2023-09-14T13:27:39,113 Found index url https://pypi.org/simple/
2023-09-14T13:27:39,333 Fetched page https://pypi.org/simple/pyckmeans/ as application/vnd.pypi.simple.v1+json
2023-09-14T13:27:39,349   Skipping link: No binaries permitted for pyckmeans: https://files.pythonhosted.org/packages/b9/de/b88d7cf79a79413b55544b2518298d141dc0ed1eb523c9ad11a36138e898/pyckmeans-0.4.0-cp36-cp36m-win_amd64.whl (from https://pypi.org/simple/pyckmeans/) (requires-python:>=3.6)
2023-09-14T13:27:39,350   Skipping link: No binaries permitted for pyckmeans: https://files.pythonhosted.org/packages/57/d5/5da769497ad168ee6529d7694269c441b3ab416b92bb9f41256be2d26b43/pyckmeans-0.4.0-cp37-cp37m-win_amd64.whl (from https://pypi.org/simple/pyckmeans/) (requires-python:>=3.6)
2023-09-14T13:27:39,350   Skipping link: No binaries permitted for pyckmeans: https://files.pythonhosted.org/packages/d8/05/6aa2b5a06f19176e9207ebd22ce4d4a6667a8c606fd49dc1eba29afd8e0e/pyckmeans-0.4.0-cp38-cp38-win_amd64.whl (from https://pypi.org/simple/pyckmeans/) (requires-python:>=3.6)
2023-09-14T13:27:39,351   Skipping link: No binaries permitted for pyckmeans: https://files.pythonhosted.org/packages/28/62/743350f8f49afc793a2e91ab4523a7445ff6fa24bd2048197179df2e99de/pyckmeans-0.4.0-cp39-cp39-win_amd64.whl (from https://pypi.org/simple/pyckmeans/) (requires-python:>=3.6)
2023-09-14T13:27:39,352   Found link https://files.pythonhosted.org/packages/78/97/a48f8178873dcdcdab83fbcc419e3c80ebd8cc7128b24bc16c5b6294e9c0/pyckmeans-0.4.0.tar.gz (from https://pypi.org/simple/pyckmeans/) (requires-python:>=3.6), version: 0.4.0
2023-09-14T13:27:39,353   Skipping link: No binaries permitted for pyckmeans: https://files.pythonhosted.org/packages/83/f7/9bef4342f20a1bad591d43bfe81132594cb3c2a970194243dac4f4aac2c2/pyckmeans-0.5.0-cp36-cp36m-win_amd64.whl (from https://pypi.org/simple/pyckmeans/) (requires-python:>=3.6)
2023-09-14T13:27:39,353   Skipping link: No binaries permitted for pyckmeans: https://files.pythonhosted.org/packages/b6/63/6d4ec459f0fe9a3701e34f8c1d0a7508691f9a11b626fb619e7f7ace2b0d/pyckmeans-0.5.0-cp37-cp37m-win_amd64.whl (from https://pypi.org/simple/pyckmeans/) (requires-python:>=3.6)
2023-09-14T13:27:39,354   Skipping link: No binaries permitted for pyckmeans: https://files.pythonhosted.org/packages/29/96/022e5cd2da35200b47f4eb6be702b6c9ebe565056b2e3282caca13c46d71/pyckmeans-0.5.0-cp38-cp38-win_amd64.whl (from https://pypi.org/simple/pyckmeans/) (requires-python:>=3.6)
2023-09-14T13:27:39,355   Skipping link: No binaries permitted for pyckmeans: https://files.pythonhosted.org/packages/78/e2/0cd85235fadff92995027121701789d834648654346d146dae672a0d88a7/pyckmeans-0.5.0-cp39-cp39-win_amd64.whl (from https://pypi.org/simple/pyckmeans/) (requires-python:>=3.6)
2023-09-14T13:27:39,356   Found link https://files.pythonhosted.org/packages/09/52/c44e7ae21dedb7303be86860b235681d8920546c43350be71c82557f5dba/pyckmeans-0.5.0.tar.gz (from https://pypi.org/simple/pyckmeans/) (requires-python:>=3.6), version: 0.5.0
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2023-09-14T13:27:39,357   Skipping link: No binaries permitted for pyckmeans: https://files.pythonhosted.org/packages/31/32/553ccffbd908bb6842ff8c932756b418698042e1c94eaf38100fbdf3dd96/pyckmeans-0.6.0-cp37-cp37m-win_amd64.whl (from https://pypi.org/simple/pyckmeans/) (requires-python:>=3.6)
2023-09-14T13:27:39,358   Skipping link: No binaries permitted for pyckmeans: https://files.pythonhosted.org/packages/ef/ce/5d6de11a933c49b3c2e485b28e4ae91ec65bdb30d9d809bd68b289a55e1c/pyckmeans-0.6.0-cp38-cp38-win_amd64.whl (from https://pypi.org/simple/pyckmeans/) (requires-python:>=3.6)
2023-09-14T13:27:39,358   Skipping link: No binaries permitted for pyckmeans: https://files.pythonhosted.org/packages/b5/a8/04c6c8ddc29443c8052a2578592fd54ae63aa8b7c7675bd1dcf9bab5c325/pyckmeans-0.6.0-cp39-cp39-win_amd64.whl (from https://pypi.org/simple/pyckmeans/) (requires-python:>=3.6)
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2023-09-14T13:27:39,360   Skipping link: No binaries permitted for pyckmeans: https://files.pythonhosted.org/packages/96/f9/d0c5cd3d2c23f4eda290c14c6c0e5aefd46f58a80f8cca602af70a3fd767/pyckmeans-0.6.1-cp36-cp36m-win_amd64.whl (from https://pypi.org/simple/pyckmeans/) (requires-python:>=3.6)
2023-09-14T13:27:39,361   Skipping link: No binaries permitted for pyckmeans: https://files.pythonhosted.org/packages/ef/a0/3bfe70379e9897e7a19758d6b1179af010b8501050db6574e701916a1d90/pyckmeans-0.6.1-cp37-cp37m-macosx_10_14_x86_64.whl (from https://pypi.org/simple/pyckmeans/) (requires-python:>=3.6)
2023-09-14T13:27:39,361   Skipping link: No binaries permitted for pyckmeans: https://files.pythonhosted.org/packages/09/3f/5f920b3406eff6893dad0b2be11a827064f484c744e8b6c261a9fe56e086/pyckmeans-0.6.1-cp37-cp37m-win_amd64.whl (from https://pypi.org/simple/pyckmeans/) (requires-python:>=3.6)
2023-09-14T13:27:39,362   Skipping link: No binaries permitted for pyckmeans: https://files.pythonhosted.org/packages/ce/56/a8bafed96f0be6e2af64501801f387a5fc26127170f99152c1ab2bc9c211/pyckmeans-0.6.1-cp38-cp38-macosx_10_14_x86_64.whl (from https://pypi.org/simple/pyckmeans/) (requires-python:>=3.6)
2023-09-14T13:27:39,363   Skipping link: No binaries permitted for pyckmeans: https://files.pythonhosted.org/packages/57/56/6760810822af255d2cd9763177543695a88b0f9dc042bde9407c38533e07/pyckmeans-0.6.1-cp38-cp38-win_amd64.whl (from https://pypi.org/simple/pyckmeans/) (requires-python:>=3.6)
2023-09-14T13:27:39,363   Skipping link: No binaries permitted for pyckmeans: https://files.pythonhosted.org/packages/43/26/b8e716fcb2a96010fd04061ab2787efd32ec99314339344e070db0bf4ac1/pyckmeans-0.6.1-cp39-cp39-macosx_10_14_x86_64.whl (from https://pypi.org/simple/pyckmeans/) (requires-python:>=3.6)
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2023-09-14T13:27:39,365   Found link https://files.pythonhosted.org/packages/6a/d6/406f57ed2c6e4b627e7d00a9204712c59ed91d60f621d4bd490ce53958f3/pyckmeans-0.6.1.tar.gz (from https://pypi.org/simple/pyckmeans/) (requires-python:>=3.6), version: 0.6.1
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2023-09-14T13:27:39,366   Skipping link: No binaries permitted for pyckmeans: https://files.pythonhosted.org/packages/fe/00/b14a57cec4da2fccffad89c2c9d1909c76b8ba7aaba31b9b81e0cebbfe46/pyckmeans-0.8.0-cp36-cp36m-win_amd64.whl (from https://pypi.org/simple/pyckmeans/) (requires-python:>=3.6)
2023-09-14T13:27:39,367   Skipping link: No binaries permitted for pyckmeans: https://files.pythonhosted.org/packages/e2/21/0962e892ef24ef9b86872033d2d18d072bd6782b674b7d1386c7215c384a/pyckmeans-0.8.0-cp37-cp37m-macosx_10_14_x86_64.whl (from https://pypi.org/simple/pyckmeans/) (requires-python:>=3.6)
2023-09-14T13:27:39,367   Skipping link: No binaries permitted for pyckmeans: https://files.pythonhosted.org/packages/ce/e5/4c3a9ac1e68afd848f4fa9a8264b8db583a98142fe1c4acd28935b156bfc/pyckmeans-0.8.0-cp37-cp37m-win_amd64.whl (from https://pypi.org/simple/pyckmeans/) (requires-python:>=3.6)
2023-09-14T13:27:39,368   Skipping link: No binaries permitted for pyckmeans: https://files.pythonhosted.org/packages/c4/b8/250a329203c4017c83e3b99dfcb8ecc6ce7c97c6100973914c7881d43ae6/pyckmeans-0.8.0-cp38-cp38-macosx_10_14_x86_64.whl (from https://pypi.org/simple/pyckmeans/) (requires-python:>=3.6)
2023-09-14T13:27:39,368   Skipping link: No binaries permitted for pyckmeans: https://files.pythonhosted.org/packages/be/a8/65a40e13b7b860dc7df7937b365cc70259e700fe83500808df8b919d1eba/pyckmeans-0.8.0-cp38-cp38-win_amd64.whl (from https://pypi.org/simple/pyckmeans/) (requires-python:>=3.6)
2023-09-14T13:27:39,369   Skipping link: No binaries permitted for pyckmeans: https://files.pythonhosted.org/packages/81/10/86a16f70893eb1cf303fe66b36e7a957824f1124a77ffa0ffc6b7228120e/pyckmeans-0.8.0-cp39-cp39-macosx_10_14_x86_64.whl (from https://pypi.org/simple/pyckmeans/) (requires-python:>=3.6)
2023-09-14T13:27:39,369   Skipping link: No binaries permitted for pyckmeans: https://files.pythonhosted.org/packages/ba/82/cc2fe56f2fcb73ad57ecdff17bc79974db79d1a4bbfedfe1416782346761/pyckmeans-0.8.0-cp39-cp39-win_amd64.whl (from https://pypi.org/simple/pyckmeans/) (requires-python:>=3.6)
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2023-09-14T13:27:39,372   Skipping link: No binaries permitted for pyckmeans: https://files.pythonhosted.org/packages/4a/cc/07ad2b5b03c4e69418cd4301aaa4a65a5483b52d167edaf76e5e9f904746/pyckmeans-0.8.1-cp37-cp37m-macosx_10_14_x86_64.whl (from https://pypi.org/simple/pyckmeans/) (requires-python:>=3.6)
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2023-09-14T13:27:39,373   Skipping link: No binaries permitted for pyckmeans: https://files.pythonhosted.org/packages/4c/a2/09f4fd2a0365aea5e1a983ddbe270e75a178063e747057766005cf1e073b/pyckmeans-0.8.1-cp38-cp38-macosx_10_14_x86_64.whl (from https://pypi.org/simple/pyckmeans/) (requires-python:>=3.6)
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2023-09-14T13:27:39,901   Skipping link: No binaries permitted for pyckmeans: https://www.piwheels.org/simple/pyckmeans/pyckmeans-0.6.0-cp37-cp37m-linux_armv7l.whl#sha256=cb53b9cdf6bd087dee0318d6d4dff8bcec1bfb55674d4ddbab113a3162cc4fbb (from https://www.piwheels.org/simple/pyckmeans/) (requires-python:>=3.6)
2023-09-14T13:27:39,902   Skipping link: No binaries permitted for pyckmeans: https://www.piwheels.org/simple/pyckmeans/pyckmeans-0.6.0-cp37-cp37m-linux_armv6l.whl#sha256=cb53b9cdf6bd087dee0318d6d4dff8bcec1bfb55674d4ddbab113a3162cc4fbb (from https://www.piwheels.org/simple/pyckmeans/) (requires-python:>=3.6)
2023-09-14T13:27:39,903   Skipping link: No binaries permitted for pyckmeans: https://www.piwheels.org/simple/pyckmeans/pyckmeans-0.5.0-cp39-cp39-linux_armv7l.whl#sha256=b5bf4c06bbe6ead399f5345b74127e1f531f408e40fef9b7ea62f52514136a02 (from https://www.piwheels.org/simple/pyckmeans/) (requires-python:>=3.6)
2023-09-14T13:27:39,903   Skipping link: No binaries permitted for pyckmeans: https://www.piwheels.org/simple/pyckmeans/pyckmeans-0.5.0-cp39-cp39-linux_armv6l.whl#sha256=b5bf4c06bbe6ead399f5345b74127e1f531f408e40fef9b7ea62f52514136a02 (from https://www.piwheels.org/simple/pyckmeans/) (requires-python:>=3.6)
2023-09-14T13:27:39,904   Skipping link: No binaries permitted for pyckmeans: https://www.piwheels.org/simple/pyckmeans/pyckmeans-0.5.0-cp37-cp37m-linux_armv7l.whl#sha256=2c63a4c49c60988e501b29a42a9bc6a18226b39af3af371d790cd0222c59fc78 (from https://www.piwheels.org/simple/pyckmeans/) (requires-python:>=3.6)
2023-09-14T13:27:39,904   Skipping link: No binaries permitted for pyckmeans: https://www.piwheels.org/simple/pyckmeans/pyckmeans-0.5.0-cp37-cp37m-linux_armv6l.whl#sha256=2c63a4c49c60988e501b29a42a9bc6a18226b39af3af371d790cd0222c59fc78 (from https://www.piwheels.org/simple/pyckmeans/) (requires-python:>=3.6)
2023-09-14T13:27:39,905   Skipping link: No binaries permitted for pyckmeans: https://www.piwheels.org/simple/pyckmeans/pyckmeans-0.4.0-cp39-cp39-linux_armv7l.whl#sha256=0e412147006636ef292af891010598fa650941f952b974cb293175a25a706fdb (from https://www.piwheels.org/simple/pyckmeans/) (requires-python:>=3.6)
2023-09-14T13:27:39,906   Skipping link: No binaries permitted for pyckmeans: https://www.piwheels.org/simple/pyckmeans/pyckmeans-0.4.0-cp39-cp39-linux_armv6l.whl#sha256=0e412147006636ef292af891010598fa650941f952b974cb293175a25a706fdb (from https://www.piwheels.org/simple/pyckmeans/) (requires-python:>=3.6)
2023-09-14T13:27:39,906   Skipping link: No binaries permitted for pyckmeans: https://www.piwheels.org/simple/pyckmeans/pyckmeans-0.4.0-cp37-cp37m-linux_armv7l.whl#sha256=3ce14a9d9c6d38292fa0b21ae357dea7cf25fe1d2bab349e5f21cc18cd9c1aa9 (from https://www.piwheels.org/simple/pyckmeans/) (requires-python:>=3.6)
2023-09-14T13:27:39,907   Skipping link: No binaries permitted for pyckmeans: https://www.piwheels.org/simple/pyckmeans/pyckmeans-0.4.0-cp37-cp37m-linux_armv6l.whl#sha256=3ce14a9d9c6d38292fa0b21ae357dea7cf25fe1d2bab349e5f21cc18cd9c1aa9 (from https://www.piwheels.org/simple/pyckmeans/) (requires-python:>=3.6)
2023-09-14T13:27:39,907 Skipping link: not a file: https://www.piwheels.org/simple/pyckmeans/
2023-09-14T13:27:39,908 Skipping link: not a file: https://pypi.org/simple/pyckmeans/
2023-09-14T13:27:39,926 Given no hashes to check 1 links for project 'pyckmeans': discarding no candidates
2023-09-14T13:27:39,944 Collecting pyckmeans==0.4.0
2023-09-14T13:27:39,947   Created temporary directory: /tmp/pip-unpack-4_9tj7yw
2023-09-14T13:27:40,268   Downloading pyckmeans-0.4.0.tar.gz (32 kB)
2023-09-14T13:27:40,343   Added pyckmeans==0.4.0 from https://files.pythonhosted.org/packages/78/97/a48f8178873dcdcdab83fbcc419e3c80ebd8cc7128b24bc16c5b6294e9c0/pyckmeans-0.4.0.tar.gz to build tracker '/tmp/pip-build-tracker-t9thgull'
2023-09-14T13:27:40,345   Running setup.py (path:/tmp/pip-wheel-dgiteood/pyckmeans_081a8fcca3224bfe92ff6f0043e1165d/setup.py) egg_info for package pyckmeans
2023-09-14T13:27:40,346   Created temporary directory: /tmp/pip-pip-egg-info-6y8eu2h_
2023-09-14T13:27:40,347   Preparing metadata (setup.py): started
2023-09-14T13:27:40,348   Running command python setup.py egg_info
2023-09-14T13:27:41,444   running egg_info
2023-09-14T13:27:41,446   creating /tmp/pip-pip-egg-info-6y8eu2h_/pyckmeans.egg-info
2023-09-14T13:27:41,470   writing /tmp/pip-pip-egg-info-6y8eu2h_/pyckmeans.egg-info/PKG-INFO
2023-09-14T13:27:41,473   writing dependency_links to /tmp/pip-pip-egg-info-6y8eu2h_/pyckmeans.egg-info/dependency_links.txt
2023-09-14T13:27:41,475   writing requirements to /tmp/pip-pip-egg-info-6y8eu2h_/pyckmeans.egg-info/requires.txt
2023-09-14T13:27:41,476   writing top-level names to /tmp/pip-pip-egg-info-6y8eu2h_/pyckmeans.egg-info/top_level.txt
2023-09-14T13:27:41,478   writing manifest file '/tmp/pip-pip-egg-info-6y8eu2h_/pyckmeans.egg-info/SOURCES.txt'
2023-09-14T13:27:41,557   reading manifest file '/tmp/pip-pip-egg-info-6y8eu2h_/pyckmeans.egg-info/SOURCES.txt'
2023-09-14T13:27:41,561   writing manifest file '/tmp/pip-pip-egg-info-6y8eu2h_/pyckmeans.egg-info/SOURCES.txt'
2023-09-14T13:27:41,669   Preparing metadata (setup.py): finished with status 'done'
2023-09-14T13:27:41,673   Source in /tmp/pip-wheel-dgiteood/pyckmeans_081a8fcca3224bfe92ff6f0043e1165d has version 0.4.0, which satisfies requirement pyckmeans==0.4.0 from https://files.pythonhosted.org/packages/78/97/a48f8178873dcdcdab83fbcc419e3c80ebd8cc7128b24bc16c5b6294e9c0/pyckmeans-0.4.0.tar.gz
2023-09-14T13:27:41,674   Removed pyckmeans==0.4.0 from https://files.pythonhosted.org/packages/78/97/a48f8178873dcdcdab83fbcc419e3c80ebd8cc7128b24bc16c5b6294e9c0/pyckmeans-0.4.0.tar.gz from build tracker '/tmp/pip-build-tracker-t9thgull'
2023-09-14T13:27:41,679 Created temporary directory: /tmp/pip-unpack-sr02khgv
2023-09-14T13:27:41,680 Created temporary directory: /tmp/pip-unpack-x8nj4n8o
2023-09-14T13:27:41,688 Building wheels for collected packages: pyckmeans
2023-09-14T13:27:41,692   Created temporary directory: /tmp/pip-wheel-mctb122m
2023-09-14T13:27:41,693   Building wheel for pyckmeans (setup.py): started
2023-09-14T13:27:41,694   Destination directory: /tmp/pip-wheel-mctb122m
2023-09-14T13:27:41,695   Running command python setup.py bdist_wheel
2023-09-14T13:27:42,698   running bdist_wheel
2023-09-14T13:27:42,768   running build
2023-09-14T13:27:42,768   running build_py
2023-09-14T13:27:42,794   creating build
2023-09-14T13:27:42,795   creating build/lib.linux-armv7l-cpython-311
2023-09-14T13:27:42,796   creating build/lib.linux-armv7l-cpython-311/pyckmeans
2023-09-14T13:27:42,797   copying pyckmeans/__init__.py -> build/lib.linux-armv7l-cpython-311/pyckmeans
2023-09-14T13:27:42,799   creating build/lib.linux-armv7l-cpython-311/pyckmeans/distance
2023-09-14T13:27:42,800   copying pyckmeans/distance/__init__.py -> build/lib.linux-armv7l-cpython-311/pyckmeans/distance
2023-09-14T13:27:42,803   copying pyckmeans/distance/c_interop.py -> build/lib.linux-armv7l-cpython-311/pyckmeans/distance
2023-09-14T13:27:42,806   creating build/lib.linux-armv7l-cpython-311/pyckmeans/utils
2023-09-14T13:27:42,808   copying pyckmeans/utils/plotting.py -> build/lib.linux-armv7l-cpython-311/pyckmeans/utils
2023-09-14T13:27:42,811   copying pyckmeans/utils/__init__.py -> build/lib.linux-armv7l-cpython-311/pyckmeans/utils
2023-09-14T13:27:42,814   copying pyckmeans/utils/progressbar.py -> build/lib.linux-armv7l-cpython-311/pyckmeans/utils
2023-09-14T13:27:42,816   creating build/lib.linux-armv7l-cpython-311/pyckmeans/ordination
2023-09-14T13:27:42,818   copying pyckmeans/ordination/__init__.py -> build/lib.linux-armv7l-cpython-311/pyckmeans/ordination
2023-09-14T13:27:42,822   creating build/lib.linux-armv7l-cpython-311/pyckmeans/ordering
2023-09-14T13:27:42,824   copying pyckmeans/ordering/__init__.py -> build/lib.linux-armv7l-cpython-311/pyckmeans/ordering
2023-09-14T13:27:42,830   creating build/lib.linux-armv7l-cpython-311/pyckmeans/io
2023-09-14T13:27:42,832   copying pyckmeans/io/__init__.py -> build/lib.linux-armv7l-cpython-311/pyckmeans/io
2023-09-14T13:27:42,837   copying pyckmeans/io/nucleotide_alignment.py -> build/lib.linux-armv7l-cpython-311/pyckmeans/io
2023-09-14T13:27:42,843   copying pyckmeans/io/c_interop.py -> build/lib.linux-armv7l-cpython-311/pyckmeans/io
2023-09-14T13:27:42,847   copying pyckmeans/io/phylip.py -> build/lib.linux-armv7l-cpython-311/pyckmeans/io
2023-09-14T13:27:42,852   copying pyckmeans/io/fasta.py -> build/lib.linux-armv7l-cpython-311/pyckmeans/io
2023-09-14T13:27:42,855   copying pyckmeans/io/csv.py -> build/lib.linux-armv7l-cpython-311/pyckmeans/io
2023-09-14T13:27:42,858   creating build/lib.linux-armv7l-cpython-311/pyckmeans/core
2023-09-14T13:27:42,860   copying pyckmeans/core/multickmeans.py -> build/lib.linux-armv7l-cpython-311/pyckmeans/core
2023-09-14T13:27:42,864   copying pyckmeans/core/__init__.py -> build/lib.linux-armv7l-cpython-311/pyckmeans/core
2023-09-14T13:27:42,866   copying pyckmeans/core/ckmeans.py -> build/lib.linux-armv7l-cpython-311/pyckmeans/core
2023-09-14T13:27:42,870   copying pyckmeans/core/wecr.py -> build/lib.linux-armv7l-cpython-311/pyckmeans/core
2023-09-14T13:27:42,874   creating build/lib.linux-armv7l-cpython-311/pyckmeans/knee
2023-09-14T13:27:42,876   copying pyckmeans/knee/__init__.py -> build/lib.linux-armv7l-cpython-311/pyckmeans/knee
2023-09-14T13:27:42,888   running build_ext
2023-09-14T13:27:42,897   building 'pyckmeans.distance.lib.distance' extension
2023-09-14T13:27:42,898   creating build/temp.linux-armv7l-cpython-311
2023-09-14T13:27:42,900   creating build/temp.linux-armv7l-cpython-311/pyckmeans
2023-09-14T13:27:42,902   creating build/temp.linux-armv7l-cpython-311/pyckmeans/distance
2023-09-14T13:27:42,905   creating build/temp.linux-armv7l-cpython-311/pyckmeans/distance/src
2023-09-14T13:27:42,908   arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/usr/include/python3.11 -c pyckmeans/distance/src/distance.cpp -o build/temp.linux-armv7l-cpython-311/pyckmeans/distance/src/distance.o
2023-09-14T13:27:44,431   pyckmeans/distance/src/distance.cpp: In function ‘std::vector<bool> completeDeletionSites(uint8_t*, int, int)’:
2023-09-14T13:27:44,432   pyckmeans/distance/src/distance.cpp:107:26: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare]
2023-09-14T13:27:44,433     107 |     for (size_t i = 0; i < m; ++i) {
2023-09-14T13:27:44,433         |                        ~~^~~
2023-09-14T13:27:44,434   pyckmeans/distance/src/distance.cpp:109:30: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare]
2023-09-14T13:27:44,434     109 |         for (size_t j = 0; j < n; ++j) {
2023-09-14T13:27:44,435         |                            ~~^~~
2023-09-14T13:27:44,435   pyckmeans/distance/src/distance.cpp: In function ‘void pDistance(uint8_t*, int, int, bool, double*)’:
2023-09-14T13:27:44,436   pyckmeans/distance/src/distance.cpp:133:34: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare]
2023-09-14T13:27:44,436     133 |         for (size_t i_a = 0; i_a < (n - 1); ++i_a) {
2023-09-14T13:27:44,437         |                              ~~~~^~~~~~~~~
2023-09-14T13:27:44,438   pyckmeans/distance/src/distance.cpp:134:46: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare]
2023-09-14T13:27:44,438     134 |             for (size_t i_b = (i_a + 1); i_b < n; ++i_b) {
2023-09-14T13:27:44,438         |                                          ~~~~^~~
2023-09-14T13:27:44,439   pyckmeans/distance/src/distance.cpp:138:38: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare]
2023-09-14T13:27:44,440     138 |                 for (size_t j = 0; j < m; ++j) {
2023-09-14T13:27:44,440         |                                    ~~^~~
2023-09-14T13:27:44,441   pyckmeans/distance/src/distance.cpp:163:34: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare]
2023-09-14T13:27:44,442     163 |         for (size_t i_a = 0; i_a < (n - 1); ++i_a) {
2023-09-14T13:27:44,442         |                              ~~~~^~~~~~~~~
2023-09-14T13:27:44,443   pyckmeans/distance/src/distance.cpp:164:46: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare]
2023-09-14T13:27:44,444     164 |             for (size_t i_b = (i_a + 1); i_b < n; ++i_b) {
2023-09-14T13:27:44,444         |                                          ~~~~^~~
2023-09-14T13:27:44,445   pyckmeans/distance/src/distance.cpp:168:38: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare]
2023-09-14T13:27:44,446     168 |                 for (size_t j = 0; j < m; ++j) {
2023-09-14T13:27:44,446         |                                    ~~^~~
2023-09-14T13:27:44,447   pyckmeans/distance/src/distance.cpp: In function ‘void jcDistance(uint8_t*, int, int, bool, double*)’:
2023-09-14T13:27:44,448   pyckmeans/distance/src/distance.cpp:202:26: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare]
2023-09-14T13:27:44,448     202 |     for (size_t i = 0; i < n; ++i) {
2023-09-14T13:27:44,449         |                        ~~^~~
2023-09-14T13:27:44,450   pyckmeans/distance/src/distance.cpp:203:30: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare]
2023-09-14T13:27:44,450     203 |         for (size_t j = 0; j < n; ++j) {
2023-09-14T13:27:44,451         |                            ~~^~~
2023-09-14T13:27:44,452   pyckmeans/distance/src/distance.cpp: In function ‘void k2pDistance(uint8_t*, int, int, bool, double*)’:
2023-09-14T13:27:44,453   pyckmeans/distance/src/distance.cpp:221:34: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare]
2023-09-14T13:27:44,454     221 |         for (size_t i_a = 0; i_a < (n - 1); ++i_a) {
2023-09-14T13:27:44,454         |                              ~~~~^~~~~~~~~
2023-09-14T13:27:44,455   pyckmeans/distance/src/distance.cpp:222:46: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare]
2023-09-14T13:27:44,455     222 |             for (size_t i_b = (i_a + 1); i_b < n; ++i_b) {
2023-09-14T13:27:44,456         |                                          ~~~~^~~
2023-09-14T13:27:44,456   pyckmeans/distance/src/distance.cpp:227:38: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare]
2023-09-14T13:27:44,457     227 |                 for (size_t j = 0; j < m; ++j) {
2023-09-14T13:27:44,457         |                                    ~~^~~
2023-09-14T13:27:44,458   pyckmeans/distance/src/distance.cpp:263:34: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare]
2023-09-14T13:27:44,458     263 |         for (size_t i_a = 0; i_a < (n - 1); ++i_a) {
2023-09-14T13:27:44,459         |                              ~~~~^~~~~~~~~
2023-09-14T13:27:44,459   pyckmeans/distance/src/distance.cpp:264:46: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare]
2023-09-14T13:27:44,460     264 |             for (size_t i_b = (i_a + 1); i_b < n; ++i_b) {
2023-09-14T13:27:44,460         |                                          ~~~~^~~
2023-09-14T13:27:44,461   pyckmeans/distance/src/distance.cpp:269:38: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare]
2023-09-14T13:27:44,462     269 |                 for (size_t j = 0; j < m; ++j) {
2023-09-14T13:27:44,463         |                                    ~~^~~
2023-09-14T13:27:45,376   creating build/lib.linux-armv7l-cpython-311/pyckmeans/distance/lib
2023-09-14T13:27:45,376   arm-linux-gnueabihf-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 build/temp.linux-armv7l-cpython-311/pyckmeans/distance/src/distance.o -L/usr/lib/arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-311/pyckmeans/distance/lib/distance.so
2023-09-14T13:27:45,607   building 'pyckmeans.io.lib.nucencode' extension
2023-09-14T13:27:45,608   creating build/temp.linux-armv7l-cpython-311/pyckmeans/io
2023-09-14T13:27:45,608   creating build/temp.linux-armv7l-cpython-311/pyckmeans/io/src
2023-09-14T13:27:45,609   arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/usr/include/python3.11 -c pyckmeans/io/src/nucencode.cpp -o build/temp.linux-armv7l-cpython-311/pyckmeans/io/src/nucencode.o
2023-09-14T13:27:45,682   pyckmeans/io/src/nucencode.cpp: In function ‘void encodeNucleotides(uint8_t*, int, int)’:
2023-09-14T13:27:45,682   pyckmeans/io/src/nucencode.cpp:73:26: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare]
2023-09-14T13:27:45,683      73 |     for (size_t i = 0; i < n; i++) {
2023-09-14T13:27:45,684         |                        ~~^~~
2023-09-14T13:27:45,685   pyckmeans/io/src/nucencode.cpp:74:30: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare]
2023-09-14T13:27:45,685      74 |         for (size_t j = 0; j < m; j++) {
2023-09-14T13:27:45,686         |                            ~~^~~
2023-09-14T13:27:45,687   pyckmeans/io/src/nucencode.cpp: In function ‘void encodeNucleotides_uint32(uint32_t*, int, int, uint8_t*)’:
2023-09-14T13:27:45,687   pyckmeans/io/src/nucencode.cpp:86:26: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare]
2023-09-14T13:27:45,688      86 |     for (size_t i = 0; i < n; i++) {
2023-09-14T13:27:45,689         |                        ~~^~~
2023-09-14T13:27:45,689   pyckmeans/io/src/nucencode.cpp:87:30: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare]
2023-09-14T13:27:45,690      87 |         for (size_t j = 0; j < m; j++) {
2023-09-14T13:27:45,690         |                            ~~^~~
2023-09-14T13:27:45,764   creating build/lib.linux-armv7l-cpython-311/pyckmeans/io/lib
2023-09-14T13:27:45,764   arm-linux-gnueabihf-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 build/temp.linux-armv7l-cpython-311/pyckmeans/io/src/nucencode.o -L/usr/lib/arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-311/pyckmeans/io/lib/nucencode.so
2023-09-14T13:27:45,903   /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated.
2023-09-14T13:27:45,904   !!

2023-09-14T13:27:45,905           ********************************************************************************
2023-09-14T13:27:45,905           Please avoid running ``setup.py`` directly.
2023-09-14T13:27:45,906           Instead, use pypa/build, pypa/installer or other
2023-09-14T13:27:45,906           standards-based tools.

2023-09-14T13:27:45,907           See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details.
2023-09-14T13:27:45,907           ********************************************************************************

2023-09-14T13:27:45,909   !!
2023-09-14T13:27:45,909     self.initialize_options()
2023-09-14T13:27:45,927   installing to build/bdist.linux-armv7l/wheel
2023-09-14T13:27:45,928   running install
2023-09-14T13:27:45,952   running install_lib
2023-09-14T13:27:45,976   creating build/bdist.linux-armv7l
2023-09-14T13:27:45,977   creating build/bdist.linux-armv7l/wheel
2023-09-14T13:27:45,978   creating build/bdist.linux-armv7l/wheel/pyckmeans
2023-09-14T13:27:45,979   creating build/bdist.linux-armv7l/wheel/pyckmeans/distance
2023-09-14T13:27:45,980   copying build/lib.linux-armv7l-cpython-311/pyckmeans/distance/__init__.py -> build/bdist.linux-armv7l/wheel/pyckmeans/distance
2023-09-14T13:27:45,983   copying build/lib.linux-armv7l-cpython-311/pyckmeans/distance/c_interop.py -> build/bdist.linux-armv7l/wheel/pyckmeans/distance
2023-09-14T13:27:45,985   creating build/bdist.linux-armv7l/wheel/pyckmeans/distance/lib
2023-09-14T13:27:45,986   copying build/lib.linux-armv7l-cpython-311/pyckmeans/distance/lib/distance.so -> build/bdist.linux-armv7l/wheel/pyckmeans/distance/lib
2023-09-14T13:27:45,990   creating build/bdist.linux-armv7l/wheel/pyckmeans/utils
2023-09-14T13:27:45,991   copying build/lib.linux-armv7l-cpython-311/pyckmeans/utils/plotting.py -> build/bdist.linux-armv7l/wheel/pyckmeans/utils
2023-09-14T13:27:45,993   copying build/lib.linux-armv7l-cpython-311/pyckmeans/utils/__init__.py -> build/bdist.linux-armv7l/wheel/pyckmeans/utils
2023-09-14T13:27:45,995   copying build/lib.linux-armv7l-cpython-311/pyckmeans/utils/progressbar.py -> build/bdist.linux-armv7l/wheel/pyckmeans/utils
2023-09-14T13:27:45,998   creating build/bdist.linux-armv7l/wheel/pyckmeans/ordination
2023-09-14T13:27:45,998   copying build/lib.linux-armv7l-cpython-311/pyckmeans/ordination/__init__.py -> build/bdist.linux-armv7l/wheel/pyckmeans/ordination
2023-09-14T13:27:46,001   copying build/lib.linux-armv7l-cpython-311/pyckmeans/__init__.py -> build/bdist.linux-armv7l/wheel/pyckmeans
2023-09-14T13:27:46,004   creating build/bdist.linux-armv7l/wheel/pyckmeans/ordering
2023-09-14T13:27:46,005   copying build/lib.linux-armv7l-cpython-311/pyckmeans/ordering/__init__.py -> build/bdist.linux-armv7l/wheel/pyckmeans/ordering
2023-09-14T13:27:46,009   creating build/bdist.linux-armv7l/wheel/pyckmeans/io
2023-09-14T13:27:46,011   copying build/lib.linux-armv7l-cpython-311/pyckmeans/io/__init__.py -> build/bdist.linux-armv7l/wheel/pyckmeans/io
2023-09-14T13:27:46,015   copying build/lib.linux-armv7l-cpython-311/pyckmeans/io/nucleotide_alignment.py -> build/bdist.linux-armv7l/wheel/pyckmeans/io
2023-09-14T13:27:46,020   copying build/lib.linux-armv7l-cpython-311/pyckmeans/io/c_interop.py -> build/bdist.linux-armv7l/wheel/pyckmeans/io
2023-09-14T13:27:46,024   copying build/lib.linux-armv7l-cpython-311/pyckmeans/io/phylip.py -> build/bdist.linux-armv7l/wheel/pyckmeans/io
2023-09-14T13:27:46,028   copying build/lib.linux-armv7l-cpython-311/pyckmeans/io/fasta.py -> build/bdist.linux-armv7l/wheel/pyckmeans/io
2023-09-14T13:27:46,030   copying build/lib.linux-armv7l-cpython-311/pyckmeans/io/csv.py -> build/bdist.linux-armv7l/wheel/pyckmeans/io
2023-09-14T13:27:46,032   creating build/bdist.linux-armv7l/wheel/pyckmeans/io/lib
2023-09-14T13:27:46,033   copying build/lib.linux-armv7l-cpython-311/pyckmeans/io/lib/nucencode.so -> build/bdist.linux-armv7l/wheel/pyckmeans/io/lib
2023-09-14T13:27:46,036   creating build/bdist.linux-armv7l/wheel/pyckmeans/core
2023-09-14T13:27:46,037   copying build/lib.linux-armv7l-cpython-311/pyckmeans/core/multickmeans.py -> build/bdist.linux-armv7l/wheel/pyckmeans/core
2023-09-14T13:27:46,039   copying build/lib.linux-armv7l-cpython-311/pyckmeans/core/__init__.py -> build/bdist.linux-armv7l/wheel/pyckmeans/core
2023-09-14T13:27:46,041   copying build/lib.linux-armv7l-cpython-311/pyckmeans/core/ckmeans.py -> build/bdist.linux-armv7l/wheel/pyckmeans/core
2023-09-14T13:27:46,043   copying build/lib.linux-armv7l-cpython-311/pyckmeans/core/wecr.py -> build/bdist.linux-armv7l/wheel/pyckmeans/core
2023-09-14T13:27:46,046   creating build/bdist.linux-armv7l/wheel/pyckmeans/knee
2023-09-14T13:27:46,047   copying build/lib.linux-armv7l-cpython-311/pyckmeans/knee/__init__.py -> build/bdist.linux-armv7l/wheel/pyckmeans/knee
2023-09-14T13:27:46,049   running install_egg_info
2023-09-14T13:27:46,109   running egg_info
2023-09-14T13:27:46,132   writing pyckmeans.egg-info/PKG-INFO
2023-09-14T13:27:46,135   writing dependency_links to pyckmeans.egg-info/dependency_links.txt
2023-09-14T13:27:46,137   writing requirements to pyckmeans.egg-info/requires.txt
2023-09-14T13:27:46,138   writing top-level names to pyckmeans.egg-info/top_level.txt
2023-09-14T13:27:46,168   reading manifest file 'pyckmeans.egg-info/SOURCES.txt'
2023-09-14T13:27:46,173   writing manifest file 'pyckmeans.egg-info/SOURCES.txt'
2023-09-14T13:27:46,174   Copying pyckmeans.egg-info to build/bdist.linux-armv7l/wheel/pyckmeans-0.4.0-py3.11.egg-info
2023-09-14T13:27:46,183   running install_scripts
2023-09-14T13:27:46,234   creating build/bdist.linux-armv7l/wheel/pyckmeans-0.4.0.dist-info/WHEEL
2023-09-14T13:27:46,236   creating '/tmp/pip-wheel-mctb122m/pyckmeans-0.4.0-cp311-cp311-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2023-09-14T13:27:46,239   adding 'pyckmeans/__init__.py'
2023-09-14T13:27:46,240   adding 'pyckmeans/core/__init__.py'
2023-09-14T13:27:46,243   adding 'pyckmeans/core/ckmeans.py'
2023-09-14T13:27:46,245   adding 'pyckmeans/core/multickmeans.py'
2023-09-14T13:27:46,247   adding 'pyckmeans/core/wecr.py'
2023-09-14T13:27:46,249   adding 'pyckmeans/distance/__init__.py'
2023-09-14T13:27:46,250   adding 'pyckmeans/distance/c_interop.py'
2023-09-14T13:27:46,266   adding 'pyckmeans/distance/lib/distance.so'
2023-09-14T13:27:46,268   adding 'pyckmeans/io/__init__.py'
2023-09-14T13:27:46,270   adding 'pyckmeans/io/c_interop.py'
2023-09-14T13:27:46,271   adding 'pyckmeans/io/csv.py'
2023-09-14T13:27:46,272   adding 'pyckmeans/io/fasta.py'
2023-09-14T13:27:46,274   adding 'pyckmeans/io/nucleotide_alignment.py'
2023-09-14T13:27:46,276   adding 'pyckmeans/io/phylip.py'
2023-09-14T13:27:46,279   adding 'pyckmeans/io/lib/nucencode.so'
2023-09-14T13:27:46,281   adding 'pyckmeans/knee/__init__.py'
2023-09-14T13:27:46,283   adding 'pyckmeans/ordering/__init__.py'
2023-09-14T13:27:46,286   adding 'pyckmeans/ordination/__init__.py'
2023-09-14T13:27:46,288   adding 'pyckmeans/utils/__init__.py'
2023-09-14T13:27:46,289   adding 'pyckmeans/utils/plotting.py'
2023-09-14T13:27:46,291   adding 'pyckmeans/utils/progressbar.py'
2023-09-14T13:27:46,292   adding 'pyckmeans-0.4.0.dist-info/METADATA'
2023-09-14T13:27:46,293   adding 'pyckmeans-0.4.0.dist-info/WHEEL'
2023-09-14T13:27:46,294   adding 'pyckmeans-0.4.0.dist-info/top_level.txt'
2023-09-14T13:27:46,295   adding 'pyckmeans-0.4.0.dist-info/RECORD'
2023-09-14T13:27:46,297   removing build/bdist.linux-armv7l/wheel
2023-09-14T13:27:46,419   Building wheel for pyckmeans (setup.py): finished with status 'done'
2023-09-14T13:27:46,422   Created wheel for pyckmeans: filename=pyckmeans-0.4.0-cp311-cp311-linux_armv7l.whl size=74565 sha256=8c9f8d52d596b22328726ae44433c3ac78b42c98885711457fc27390b49e2965
2023-09-14T13:27:46,423   Stored in directory: /tmp/pip-ephem-wheel-cache-rwibi48e/wheels/2c/7b/18/b1c27ff3fac1a30d15d018421a6f4199c06142d1641d742e30
2023-09-14T13:27:46,432 Successfully built pyckmeans
2023-09-14T13:27:46,437 Removed build tracker: '/tmp/pip-build-tracker-t9thgull'