2025-09-08T20:13:10,106 Created temporary directory: /tmp/pip-build-tracker-zf8kvwnl
2025-09-08T20:13:10,107 Initialized build tracking at /tmp/pip-build-tracker-zf8kvwnl
2025-09-08T20:13:10,107 Created build tracker: /tmp/pip-build-tracker-zf8kvwnl
2025-09-08T20:13:10,107 Entered build tracker: /tmp/pip-build-tracker-zf8kvwnl
2025-09-08T20:13:10,108 Created temporary directory: /tmp/pip-wheel-tt70x7o0
2025-09-08T20:13:10,111 Created temporary directory: /tmp/pip-ephem-wheel-cache-2zh44qka
2025-09-08T20:13:10,169 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2025-09-08T20:13:10,172 2 location(s) to search for versions of gmxapi:
2025-09-08T20:13:10,172 * https://pypi.org/simple/gmxapi/
2025-09-08T20:13:10,172 * https://www.piwheels.org/simple/gmxapi/
2025-09-08T20:13:10,172 Fetching project page and analyzing links: https://pypi.org/simple/gmxapi/
2025-09-08T20:13:10,172 Getting page https://pypi.org/simple/gmxapi/
2025-09-08T20:13:10,173 Found index url https://pypi.org/simple/
2025-09-08T20:13:10,322 Fetched page https://pypi.org/simple/gmxapi/ as application/vnd.pypi.simple.v1+json
2025-09-08T20:13:10,332   Found link https://files.pythonhosted.org/packages/cd/cd/0bb15bf7da9444e00504d10b00254dcb8d69191488751d450870fe8aa6ee/gmxapi-0.0.0.tar.gz (from https://pypi.org/simple/gmxapi/), version: 0.0.0
2025-09-08T20:13:10,334   Found link https://files.pythonhosted.org/packages/2a/32/1d652d48b6c1a458afe840c143ca3d260d406ecd897385c026caa8ef2467/gmxapi-0.0.8.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.5, <4), version: 0.0.8
2025-09-08T20:13:10,334   Found link https://files.pythonhosted.org/packages/90/65/f5a14187604d42cc7b0784b35e7b77509faf7d5b810684a3107520cb97aa/gmxapi-0.0.8.1.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.5, <4), version: 0.0.8.1
2025-09-08T20:13:10,335   Found link https://files.pythonhosted.org/packages/57/c1/8ca87fe32716028e4835cd8b89c548d53c153ac68d3fd6b815cc31ccf736/gmxapi-0.0.8.2.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.5, <4), version: 0.0.8.2
2025-09-08T20:13:10,335   Found link https://files.pythonhosted.org/packages/e3/98/8130ddf03f380c4287815011ad34321b377e84b0bb508ba1be99c71e2bc7/gmxapi-0.1.0.dev3.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.5, <4), version: 0.1.0.dev3
2025-09-08T20:13:10,336   Found link https://files.pythonhosted.org/packages/ff/c9/3c2977fd741dfc27e29acc0bbf5faa397afe6165e8f196fdad4cbb1031f9/gmxapi-0.1.0b1.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.5, <4), version: 0.1.0b1
2025-09-08T20:13:10,337   Link requires a different Python (3.13.5 not in: '>=3.5, <3.9'): https://files.pythonhosted.org/packages/1b/44/43f5b0a3f684e468a525147b8a22d8a368f10185cdde159f0c4711647595/gmxapi-0.1.0b2.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.5, <3.9)
2025-09-08T20:13:10,337   Skipping link: 0.1.0b2 Requires-Python >=3.5, <3.9: https://files.pythonhosted.org/packages/1b/44/43f5b0a3f684e468a525147b8a22d8a368f10185cdde159f0c4711647595/gmxapi-0.1.0b2.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.5, <3.9)
2025-09-08T20:13:10,338   Link requires a different Python (3.13.5 not in: '>=3.5, <3.9'): https://files.pythonhosted.org/packages/63/36/a14e9eec6329c36504b02533c85dae9410e22ea90f25098b8edfbb76ecad/gmxapi-0.1.0.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.5, <3.9)
2025-09-08T20:13:10,338   Skipping link: 0.1.0 Requires-Python >=3.5, <3.9: https://files.pythonhosted.org/packages/63/36/a14e9eec6329c36504b02533c85dae9410e22ea90f25098b8edfbb76ecad/gmxapi-0.1.0.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.5, <3.9)
2025-09-08T20:13:10,339   Link requires a different Python (3.13.5 not in: '>=3.5, <3.9'): https://files.pythonhosted.org/packages/6e/c7/ad26d9706474e43ef1a7589397cc2080cebd9deca48efdaaee956c43d8b7/gmxapi-0.1.0.1.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.5, <3.9)
2025-09-08T20:13:10,339   Skipping link: 0.1.0.1 Requires-Python >=3.5, <3.9: https://files.pythonhosted.org/packages/6e/c7/ad26d9706474e43ef1a7589397cc2080cebd9deca48efdaaee956c43d8b7/gmxapi-0.1.0.1.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.5, <3.9)
2025-09-08T20:13:10,339   Link requires a different Python (3.13.5 not in: '>=3.5, <3.9'): https://files.pythonhosted.org/packages/9d/83/1302bd19ca28d35999b92548f5f5e9764701e29bba27164cf158d5b26ea9/gmxapi-0.2.0a1.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.5, <3.9)
2025-09-08T20:13:10,339   Skipping link: 0.2.0a1 Requires-Python >=3.5, <3.9: https://files.pythonhosted.org/packages/9d/83/1302bd19ca28d35999b92548f5f5e9764701e29bba27164cf158d5b26ea9/gmxapi-0.2.0a1.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.5, <3.9)
2025-09-08T20:13:10,341   Found link https://files.pythonhosted.org/packages/38/78/c91f81ebc09f8d2f3f88fdac260db9d58431ec29d821dd82539c2ba9f3fa/gmxapi-0.2.0rc1.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.6), version: 0.2.0rc1
2025-09-08T20:13:10,341   Found link https://files.pythonhosted.org/packages/ee/6c/3b566ec5becbf6b5093ac3a4c88f8ae7e7ad233347210401d73898713068/gmxapi-0.2.0.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.6), version: 0.2.0
2025-09-08T20:13:10,342   Found link https://files.pythonhosted.org/packages/be/58/c68c322213b361be4e03c0c9a88d888f6fde823e624259cdfe0e60bbf4d5/gmxapi-0.2.1b1.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.6), version: 0.2.1b1
2025-09-08T20:13:10,342   Found link https://files.pythonhosted.org/packages/d7/03/e898017c6b034180031d33df74d107531a145836b6b5b5f95c6cbee1799e/gmxapi-0.2.1.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.6), version: 0.2.1
2025-09-08T20:13:10,343   Found link https://files.pythonhosted.org/packages/14/1c/c42a00fcb462cbfc79ae7f239cbebb792caec3fa087240ad53bf4c499a3c/gmxapi-0.2.2.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.6), version: 0.2.2
2025-09-08T20:13:10,343   Found link https://files.pythonhosted.org/packages/80/d9/ca02f16ac6cb16a1ce0b4531cdaa68a13431c0c1f31710e271daccb78ace/gmxapi-0.2.2.1.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.6), version: 0.2.2.1
2025-09-08T20:13:10,344   Found link https://files.pythonhosted.org/packages/f2/dc/85b772f6bce5a82ba2b4ccbbc848f37ec4555669a7790d53ebf307395652/gmxapi-0.2.3.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.6), version: 0.2.3
2025-09-08T20:13:10,344   Found link https://files.pythonhosted.org/packages/6e/35/07c3850ee5faa610f81b4eea4cb5c72e187acd006a7db8d46e4f092b7daf/gmxapi-0.2.3.post2.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.6), version: 0.2.3.post2
2025-09-08T20:13:10,344   Found link https://files.pythonhosted.org/packages/3a/29/8d14b6862e02c9875010819ce7a9f93341758527ef05b026ae4cbb98737b/gmxapi-0.3.0a4.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.7), version: 0.3.0a4
2025-09-08T20:13:10,344   Found link https://files.pythonhosted.org/packages/3a/18/16c1116b79c6df164f26d0cfcbe27fe5925df039ff2e4e29043ba6594fe0/gmxapi-0.3.0b1.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.7), version: 0.3.0b1
2025-09-08T20:13:10,345   Found link https://files.pythonhosted.org/packages/d6/0a/320a441a320b2255b0c2157a99eadbe3f09aaffe406c014d001a10af6ba6/gmxapi-0.3.0b2.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.7), version: 0.3.0b2
2025-09-08T20:13:10,345   Found link https://files.pythonhosted.org/packages/82/4a/0f5fb4c880fc1149dadfdedc3fb240c64eb177bca78584ba6d6bb4dddf86/gmxapi-0.3.0b3.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.7), version: 0.3.0b3
2025-09-08T20:13:10,345   Found link https://files.pythonhosted.org/packages/f7/b8/fa7398536b18f6bb2fc80fa98ace1072b91049b7ba5c14eac997d230d23b/gmxapi-0.3.0b5.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.7), version: 0.3.0b5
2025-09-08T20:13:10,345   Found link https://files.pythonhosted.org/packages/c9/c7/6f759a4564361125bbf5f9e212c5efa319a6044d0cee334c66955ba19832/gmxapi-0.3.0b6.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.7), version: 0.3.0b6
2025-09-08T20:13:10,345   Found link https://files.pythonhosted.org/packages/6d/d0/aff56836ac25a84606ea49d55326722ed8ef5a318f804a1d4963215d2b7a/gmxapi-0.3.0.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.7), version: 0.3.0
2025-09-08T20:13:10,346   Found link https://files.pythonhosted.org/packages/ed/7c/bac5230039c0ee5534158bf2155b22aa2d39fcf8cd3f67177dfd35532668/gmxapi-0.3.1.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.7), version: 0.3.1
2025-09-08T20:13:10,346   Found link https://files.pythonhosted.org/packages/f6/8b/e588b915d26e6c7569fceeed8fd3c81afc6235b17284b0267a3c95251da4/gmxapi-0.3.2.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.7), version: 0.3.2
2025-09-08T20:13:10,346   Found link https://files.pythonhosted.org/packages/a9/49/a9f9c251f3da271177da7f5b9d367726dd65f0c03ffc38bd3fb428560a9b/gmxapi-0.3.2.post1.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.7), version: 0.3.2.post1
2025-09-08T20:13:10,346   Found link https://files.pythonhosted.org/packages/e2/b7/08e9d61e3597d28bd94b55cef1eed3303602878142ed58e8b863d34730c3/gmxapi-0.4.0b2.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.7), version: 0.4.0b2
2025-09-08T20:13:10,346   Found link https://files.pythonhosted.org/packages/02/b4/a357b4f3e66c416ed25e12a36e589fa7efd6ef3aba96e7bbaa82fe9f2744/gmxapi-0.4.0rc1.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.7), version: 0.4.0rc1
2025-09-08T20:13:10,347   Found link https://files.pythonhosted.org/packages/5b/f2/36277b6db4f9a3ab3ddbb13d0faf7bd25ddb9da735bc4154ca4598c5e48d/gmxapi-0.4.0rc2.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.7), version: 0.4.0rc2
2025-09-08T20:13:10,347   Found link https://files.pythonhosted.org/packages/4d/f9/12d6e204f1d7fa466dd6093ea3c575f34d527605ec369795f261d02827e0/gmxapi-0.4.0.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.7), version: 0.4.0
2025-09-08T20:13:10,347   Found link https://files.pythonhosted.org/packages/96/d2/fecfa126eca62f87bc100834ca7fe856ead4b5e50553c27be6ee9395c550/gmxapi-0.4.1.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.7), version: 0.4.1
2025-09-08T20:13:10,347   Found link https://files.pythonhosted.org/packages/11/49/9d7e072de7918c28d02dd39c2ab83d0c3cd1176acd0bf8d2f9d18c4fa0aa/gmxapi-0.4.2.tar.gz (from https://pypi.org/simple/gmxapi/) (requires-python:>=3.7), version: 0.4.2
2025-09-08T20:13:10,347 Fetching project page and analyzing links: https://www.piwheels.org/simple/gmxapi/
2025-09-08T20:13:10,348 Getting page https://www.piwheels.org/simple/gmxapi/
2025-09-08T20:13:10,348 Found index url https://www.piwheels.org/simple/
2025-09-08T20:13:10,438 Fetched page https://www.piwheels.org/simple/gmxapi/ as text/html
2025-09-08T20:13:10,439   Skipping link: No binaries permitted for gmxapi: https://archive1.piwheels.org/simple/gmxapi/gmxapi-0.0.0-py3-none-any.whl#sha256=ec43d04b4a3fd5aa04bc73e1fdd264ae37a31bf392ef9dfd3e9bbf316a1147c0 (from https://www.piwheels.org/simple/gmxapi/)
2025-09-08T20:13:10,439 Skipping link: not a file: https://www.piwheels.org/simple/gmxapi/
2025-09-08T20:13:10,439 Skipping link: not a file: https://pypi.org/simple/gmxapi/
2025-09-08T20:13:10,464 Given no hashes to check 1 links for project 'gmxapi': discarding no candidates
2025-09-08T20:13:10,466 Collecting gmxapi==0.1.0.dev3
2025-09-08T20:13:10,467   Created temporary directory: /tmp/pip-unpack-hu3el_nw
2025-09-08T20:13:10,718   Downloading gmxapi-0.1.0.dev3.tar.gz (278 kB)
2025-09-08T20:13:10,827   Added gmxapi==0.1.0.dev3 from https://files.pythonhosted.org/packages/e3/98/8130ddf03f380c4287815011ad34321b377e84b0bb508ba1be99c71e2bc7/gmxapi-0.1.0.dev3.tar.gz to build tracker '/tmp/pip-build-tracker-zf8kvwnl'
2025-09-08T20:13:10,829   Running setup.py (path:/tmp/pip-wheel-tt70x7o0/gmxapi_096a2bf4514b42f69a4ab6e65f38fad4/setup.py) egg_info for package gmxapi
2025-09-08T20:13:10,829   Created temporary directory: /tmp/pip-pip-egg-info-i37o1ga2
2025-09-08T20:13:10,829   Preparing metadata (setup.py): started
2025-09-08T20:13:10,830   Running command python setup.py egg_info
2025-09-08T20:13:12,035   /usr/local/lib/python3.13/dist-packages/setuptools/__init__.py:92: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated.
2025-09-08T20:13:12,035   !!

2025-09-08T20:13:12,035           ********************************************************************************
2025-09-08T20:13:12,035           Requirements should be satisfied by a PEP 517 installer.
2025-09-08T20:13:12,035           If you are using pip, you can try `pip install --use-pep517`.

2025-09-08T20:13:12,036           By 2025-Oct-31, you need to update your project and remove deprecated calls
2025-09-08T20:13:12,036           or your builds will no longer be supported.
2025-09-08T20:13:12,036           ********************************************************************************

2025-09-08T20:13:12,036   !!
2025-09-08T20:13:12,036     dist.fetch_build_eggs(dist.setup_requires)
2025-09-08T20:13:12,309   running egg_info
2025-09-08T20:13:12,383   creating /tmp/pip-pip-egg-info-i37o1ga2/gmxapi.egg-info
2025-09-08T20:13:12,383   writing /tmp/pip-pip-egg-info-i37o1ga2/gmxapi.egg-info/PKG-INFO
2025-09-08T20:13:12,384   writing dependency_links to /tmp/pip-pip-egg-info-i37o1ga2/gmxapi.egg-info/dependency_links.txt
2025-09-08T20:13:12,385   writing top-level names to /tmp/pip-pip-egg-info-i37o1ga2/gmxapi.egg-info/top_level.txt
2025-09-08T20:13:12,385   writing manifest file '/tmp/pip-pip-egg-info-i37o1ga2/gmxapi.egg-info/SOURCES.txt'
2025-09-08T20:13:12,462   reading manifest file '/tmp/pip-pip-egg-info-i37o1ga2/gmxapi.egg-info/SOURCES.txt'
2025-09-08T20:13:12,466   writing manifest file '/tmp/pip-pip-egg-info-i37o1ga2/gmxapi.egg-info/SOURCES.txt'
2025-09-08T20:13:12,581   Preparing metadata (setup.py): finished with status 'done'
2025-09-08T20:13:12,586   Source in /tmp/pip-wheel-tt70x7o0/gmxapi_096a2bf4514b42f69a4ab6e65f38fad4 has version 0.1.0.dev3, which satisfies requirement gmxapi==0.1.0.dev3 from https://files.pythonhosted.org/packages/e3/98/8130ddf03f380c4287815011ad34321b377e84b0bb508ba1be99c71e2bc7/gmxapi-0.1.0.dev3.tar.gz
2025-09-08T20:13:12,586   Removed gmxapi==0.1.0.dev3 from https://files.pythonhosted.org/packages/e3/98/8130ddf03f380c4287815011ad34321b377e84b0bb508ba1be99c71e2bc7/gmxapi-0.1.0.dev3.tar.gz from build tracker '/tmp/pip-build-tracker-zf8kvwnl'
2025-09-08T20:13:12,590 Created temporary directory: /tmp/pip-unpack-6z8rs0m7
2025-09-08T20:13:12,590 Created temporary directory: /tmp/pip-unpack-vdlfl1ij
2025-09-08T20:13:12,590 Building wheels for collected packages: gmxapi
2025-09-08T20:13:12,592   Created temporary directory: /tmp/pip-wheel-azyevorw
2025-09-08T20:13:12,592   DEPRECATION: Building 'gmxapi' using the legacy setup.py bdist_wheel mechanism, which will be removed in a future version. pip 25.3 will enforce this behaviour change. A possible replacement is to use the standardized build interface by setting the `--use-pep517` option, (possibly combined with `--no-build-isolation`), or adding a `pyproject.toml` file to the source tree of 'gmxapi'. Discussion can be found at https://github.com/pypa/pip/issues/6334
2025-09-08T20:13:12,593   Building wheel for gmxapi (setup.py): started
2025-09-08T20:13:12,594   Destination directory: /tmp/pip-wheel-azyevorw
2025-09-08T20:13:12,594   Running command python setup.py bdist_wheel


2025-09-08T20:13:14,879   --------------------------------------------------------------------------------
2025-09-08T20:13:14,879   -- Trying 'Ninja' generator
2025-09-08T20:13:14,879   --------------------------------
2025-09-08T20:13:14,879   ---------------------------
2025-09-08T20:13:14,879   ----------------------
2025-09-08T20:13:14,880   -----------------
2025-09-08T20:13:14,880   ------------
2025-09-08T20:13:14,880   -------
2025-09-08T20:13:14,880   --
2025-09-08T20:13:14,926   CMake Deprecation Warning at CMakeLists.txt:1 (cmake_minimum_required):
2025-09-08T20:13:14,926     Compatibility with CMake < 3.10 will be removed from a future version of
2025-09-08T20:13:14,927     CMake.

2025-09-08T20:13:14,927     Update the VERSION argument <min> value.  Or, use the <min>...<max> syntax
2025-09-08T20:13:14,927     to tell CMake that the project requires at least <min> but has been updated
2025-09-08T20:13:14,927     to work with policies introduced by <max> or earlier.

2025-09-08T20:13:14,927   Not searching for unused variables given on the command line.

2025-09-08T20:13:15,217   -- The C compiler identification is GNU 14.2.0
2025-09-08T20:13:15,263   -- Detecting C compiler ABI info
2025-09-08T20:13:15,535   -- Detecting C compiler ABI info - done
2025-09-08T20:13:15,599   -- Check for working C compiler: /usr/bin/cc - skipped
2025-09-08T20:13:15,601   -- Detecting C compile features
2025-09-08T20:13:15,603   -- Detecting C compile features - done
2025-09-08T20:13:15,978   -- The CXX compiler identification is GNU 14.2.0
2025-09-08T20:13:16,019   -- Detecting CXX compiler ABI info
2025-09-08T20:13:16,351   -- Detecting CXX compiler ABI info - done
2025-09-08T20:13:16,418   -- Check for working CXX compiler: /usr/bin/c++ - skipped
2025-09-08T20:13:16,420   -- Detecting CXX compile features
2025-09-08T20:13:16,424   -- Detecting CXX compile features - done
2025-09-08T20:13:16,469   -- Configuring done (1.5s)
2025-09-08T20:13:16,502   -- Generating done (0.0s)
2025-09-08T20:13:16,504   -- Build files have been written to: /tmp/pip-wheel-tt70x7o0/gmxapi_096a2bf4514b42f69a4ab6e65f38fad4/_cmake_test_compile/build
2025-09-08T20:13:16,520   --
2025-09-08T20:13:16,520   -------
2025-09-08T20:13:16,520   ------------
2025-09-08T20:13:16,520   -----------------
2025-09-08T20:13:16,520   ----------------------
2025-09-08T20:13:16,520   ---------------------------
2025-09-08T20:13:16,520   --------------------------------
2025-09-08T20:13:16,521   -- Trying 'Ninja' generator - success
2025-09-08T20:13:16,521   --------------------------------------------------------------------------------

2025-09-08T20:13:16,748   Configuring Project
2025-09-08T20:13:16,748     Working directory:
2025-09-08T20:13:16,748       /tmp/pip-wheel-tt70x7o0/gmxapi_096a2bf4514b42f69a4ab6e65f38fad4/_skbuild/linux-armv7l-3.13/cmake-build
2025-09-08T20:13:16,748     Command:
2025-09-08T20:13:16,748       /usr/bin/cmake /tmp/pip-wheel-tt70x7o0/gmxapi_096a2bf4514b42f69a4ab6e65f38fad4 -G Ninja --no-warn-unused-cli -DCMAKE_INSTALL_PREFIX:PATH=/tmp/pip-wheel-tt70x7o0/gmxapi_096a2bf4514b42f69a4ab6e65f38fad4/_skbuild/linux-armv7l-3.13/cmake-install -DPYTHON_VERSION_STRING:STRING=3.13.5 -DSKBUILD:INTERNAL=TRUE -DCMAKE_MODULE_PATH:PATH=/usr/local/lib/python3.13/dist-packages/skbuild/resources/cmake -DPYTHON_EXECUTABLE:PATH=/usr/bin/python3 -DPYTHON_INCLUDE_DIR:PATH=/usr/include/python3.13 -DPYTHON_LIBRARY:PATH=/usr/lib/arm-linux-gnueabihf/libpython3.13.so -DPython_EXECUTABLE:PATH=/usr/bin/python3 -DPython_ROOT_DIR:PATH=/usr -DPython_FIND_REGISTRY:STRING=NEVER -DPython_INCLUDE_DIR:PATH=/usr/include/python3.13 -DPython_NumPy_INCLUDE_DIRS:PATH=/usr/local/lib/python3.13/dist-packages/numpy/_core/include -DPython3_EXECUTABLE:PATH=/usr/bin/python3 -DPython3_ROOT_DIR:PATH=/usr -DPython3_FIND_REGISTRY:STRING=NEVER -DPython3_INCLUDE_DIR:PATH=/usr/include/python3.13 -DPython3_NumPy_INCLUDE_DIRS:PATH=/usr/local/lib/python3.13/dist-packages/numpy/_core/include -DCMAKE_OSX_DEPLOYMENT_TARGET:STRING=10.9 -DCMAKE_OSX_ARCHITECTURES:STRING=x86_64 -DCMAKE_BUILD_TYPE:STRING=Release

2025-09-08T20:13:16,789   CMake Deprecation Warning at CMakeLists.txt:41 (cmake_minimum_required):
2025-09-08T20:13:16,790     Compatibility with CMake < 3.10 will be removed from a future version of
2025-09-08T20:13:16,790     CMake.

2025-09-08T20:13:16,790     Update the VERSION argument <min> value.  Or, use the <min>...<max> syntax
2025-09-08T20:13:16,790     to tell CMake that the project requires at least <min> but has been updated
2025-09-08T20:13:16,790     to work with policies introduced by <max> or earlier.

2025-09-08T20:13:16,790   Not searching for unused variables given on the command line.

2025-09-08T20:13:17,050   -- The C compiler identification is GNU 14.2.0
2025-09-08T20:13:17,352   -- The CXX compiler identification is GNU 14.2.0
2025-09-08T20:13:17,397   -- Detecting C compiler ABI info
2025-09-08T20:13:17,664   -- Detecting C compiler ABI info - done
2025-09-08T20:13:17,730   -- Check for working C compiler: /usr/bin/cc - skipped
2025-09-08T20:13:17,732   -- Detecting C compile features
2025-09-08T20:13:17,734   -- Detecting C compile features - done
2025-09-08T20:13:17,817   -- Detecting CXX compiler ABI info
2025-09-08T20:13:18,143   -- Detecting CXX compiler ABI info - done
2025-09-08T20:13:18,214   -- Check for working CXX compiler: /usr/bin/c++ - skipped
2025-09-08T20:13:18,215   -- Detecting CXX compile features
2025-09-08T20:13:18,220   -- Detecting CXX compile features - done
2025-09-08T20:13:18,290   CMake Error at CMakeLists.txt:73 (find_package):
2025-09-08T20:13:18,291     Could not find a package configuration file provided by "gmxapi" (requested
2025-09-08T20:13:18,291     version 0.0.8) with any of the following names:

2025-09-08T20:13:18,291       gmxapiConfig.cmake
2025-09-08T20:13:18,291       gmxapi-config.cmake

2025-09-08T20:13:18,292     Add the installation prefix of "gmxapi" to CMAKE_PREFIX_PATH or set
2025-09-08T20:13:18,292     "gmxapi_DIR" to a directory containing one of the above files.  If "gmxapi"
2025-09-08T20:13:18,292     provides a separate development package or SDK, be sure it has been
2025-09-08T20:13:18,292     installed.


2025-09-08T20:13:18,293   -- Configuring incomplete, errors occurred!
2025-09-08T20:13:18,309   Traceback (most recent call last):
2025-09-08T20:13:18,312     File "/usr/local/lib/python3.13/dist-packages/skbuild/setuptools_wrap.py", line 660, in setup
2025-09-08T20:13:18,313       env = cmkr.configure(
2025-09-08T20:13:18,313           cmake_args,
2025-09-08T20:13:18,313       ...<3 lines>...
2025-09-08T20:13:18,313           languages=cmake_languages,
2025-09-08T20:13:18,313       )
2025-09-08T20:13:18,313     File "/usr/local/lib/python3.13/dist-packages/skbuild/cmaker.py", line 354, in configure
2025-09-08T20:13:18,313       raise SKBuildError(msg)

2025-09-08T20:13:18,314   An error occurred while configuring with CMake.
2025-09-08T20:13:18,314     Command:
2025-09-08T20:13:18,314       /usr/bin/cmake /tmp/pip-wheel-tt70x7o0/gmxapi_096a2bf4514b42f69a4ab6e65f38fad4 -G Ninja --no-warn-unused-cli -DCMAKE_INSTALL_PREFIX:PATH=/tmp/pip-wheel-tt70x7o0/gmxapi_096a2bf4514b42f69a4ab6e65f38fad4/_skbuild/linux-armv7l-3.13/cmake-install -DPYTHON_VERSION_STRING:STRING=3.13.5 -DSKBUILD:INTERNAL=TRUE -DCMAKE_MODULE_PATH:PATH=/usr/local/lib/python3.13/dist-packages/skbuild/resources/cmake -DPYTHON_EXECUTABLE:PATH=/usr/bin/python3 -DPYTHON_INCLUDE_DIR:PATH=/usr/include/python3.13 -DPYTHON_LIBRARY:PATH=/usr/lib/arm-linux-gnueabihf/libpython3.13.so -DPython_EXECUTABLE:PATH=/usr/bin/python3 -DPython_ROOT_DIR:PATH=/usr -DPython_FIND_REGISTRY:STRING=NEVER -DPython_INCLUDE_DIR:PATH=/usr/include/python3.13 -DPython_NumPy_INCLUDE_DIRS:PATH=/usr/local/lib/python3.13/dist-packages/numpy/_core/include -DPython3_EXECUTABLE:PATH=/usr/bin/python3 -DPython3_ROOT_DIR:PATH=/usr -DPython3_FIND_REGISTRY:STRING=NEVER -DPython3_INCLUDE_DIR:PATH=/usr/include/python3.13 -DPython3_NumPy_INCLUDE_DIRS:PATH=/usr/local/lib/python3.13/dist-packages/numpy/_core/include -DCMAKE_OSX_DEPLOYMENT_TARGET:STRING=10.9 -DCMAKE_OSX_ARCHITECTURES:STRING=x86_64 -DCMAKE_BUILD_TYPE:STRING=Release
2025-09-08T20:13:18,314     Source directory:
2025-09-08T20:13:18,314       /tmp/pip-wheel-tt70x7o0/gmxapi_096a2bf4514b42f69a4ab6e65f38fad4
2025-09-08T20:13:18,314     Working directory:
2025-09-08T20:13:18,314       /tmp/pip-wheel-tt70x7o0/gmxapi_096a2bf4514b42f69a4ab6e65f38fad4/_skbuild/linux-armv7l-3.13/cmake-build
2025-09-08T20:13:18,314   Please see CMake's output for more information.

2025-09-08T20:13:18,457   ERROR: python setup.py bdist_wheel exited with 1
2025-09-08T20:13:18,468   [bold magenta]full command[/]: [blue]/usr/bin/python3 -u -c '
2025-09-08T20:13:18,468   exec(compile('"'"''"'"''"'"'
2025-09-08T20:13:18,468   # This is <pip-setuptools-caller> -- a caller that pip uses to run setup.py
2025-09-08T20:13:18,468   #
2025-09-08T20:13:18,468   # - It imports setuptools before invoking setup.py, to enable projects that directly
2025-09-08T20:13:18,468   #   import from `distutils.core` to work with newer packaging standards.
2025-09-08T20:13:18,468   # - It provides a clear error message when setuptools is not installed.
2025-09-08T20:13:18,468   # - It sets `sys.argv[0]` to the underlying `setup.py`, when invoking `setup.py` so
2025-09-08T20:13:18,468   #   setuptools doesn'"'"'t think the script is `-c`. This avoids the following warning:
2025-09-08T20:13:18,468   #     manifest_maker: standard file '"'"'-c'"'"' not found".
2025-09-08T20:13:18,468   # - It generates a shim setup.py, for handling setup.cfg-only projects.
2025-09-08T20:13:18,468   import os, sys, tokenize, traceback
2025-09-08T20:13:18,468   
2025-09-08T20:13:18,468   try:
2025-09-08T20:13:18,468       import setuptools
2025-09-08T20:13:18,468   except ImportError:
2025-09-08T20:13:18,468       print(
2025-09-08T20:13:18,468           "ERROR: Can not execute `setup.py` since setuptools failed to import in "
2025-09-08T20:13:18,468           "the build environment with exception:",
2025-09-08T20:13:18,468           file=sys.stderr,
2025-09-08T20:13:18,468       )
2025-09-08T20:13:18,468       traceback.print_exc()
2025-09-08T20:13:18,468       sys.exit(1)
2025-09-08T20:13:18,468   
2025-09-08T20:13:18,468   __file__ = %r
2025-09-08T20:13:18,468   sys.argv[0] = __file__
2025-09-08T20:13:18,468   
2025-09-08T20:13:18,468   if os.path.exists(__file__):
2025-09-08T20:13:18,468       filename = __file__
2025-09-08T20:13:18,468       with tokenize.open(__file__) as f:
2025-09-08T20:13:18,468           setup_py_code = f.read()
2025-09-08T20:13:18,468   else:
2025-09-08T20:13:18,468       filename = "<auto-generated setuptools caller>"
2025-09-08T20:13:18,468       setup_py_code = "from setuptools import setup; setup()"
2025-09-08T20:13:18,468   
2025-09-08T20:13:18,468   exec(compile(setup_py_code, filename, "exec"))
2025-09-08T20:13:18,468   '"'"''"'"''"'"' % ('"'"'/tmp/pip-wheel-tt70x7o0/gmxapi_096a2bf4514b42f69a4ab6e65f38fad4/setup.py'"'"',), "<pip-setuptools-caller>", "exec"))' bdist_wheel -d /tmp/pip-wheel-azyevorw[/]
2025-09-08T20:13:18,468   [bold magenta]cwd[/]: /tmp/pip-wheel-tt70x7o0/gmxapi_096a2bf4514b42f69a4ab6e65f38fad4/
2025-09-08T20:13:18,469   Building wheel for gmxapi (setup.py): finished with status 'error'
2025-09-08T20:13:18,469   ERROR: Failed building wheel for gmxapi
2025-09-08T20:13:18,470   Running setup.py clean for gmxapi
2025-09-08T20:13:18,471   Running command python setup.py clean
2025-09-08T20:13:19,630   /usr/local/lib/python3.13/dist-packages/setuptools/__init__.py:92: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated.
2025-09-08T20:13:19,630   !!

2025-09-08T20:13:19,630           ********************************************************************************
2025-09-08T20:13:19,631           Requirements should be satisfied by a PEP 517 installer.
2025-09-08T20:13:19,631           If you are using pip, you can try `pip install --use-pep517`.

2025-09-08T20:13:19,631           By 2025-Oct-31, you need to update your project and remove deprecated calls
2025-09-08T20:13:19,631           or your builds will no longer be supported.
2025-09-08T20:13:19,631           ********************************************************************************

2025-09-08T20:13:19,631   !!
2025-09-08T20:13:19,631     dist.fetch_build_eggs(dist.setup_requires)
2025-09-08T20:13:19,911   running clean
2025-09-08T20:13:19,911   '_skbuild/linux-armv7l-3.13/setuptools/lib' does not exist -- can't clean it
2025-09-08T20:13:19,911   '_skbuild/linux-armv7l-3.13/setuptools/bdist.linux-armv7l' does not exist -- can't clean it
2025-09-08T20:13:19,911   '_skbuild/linux-armv7l-3.13/setuptools/scripts-3.13' does not exist -- can't clean it
2025-09-08T20:13:19,911   removing '_skbuild/linux-armv7l-3.13/setuptools'
2025-09-08T20:13:19,912   removing '_skbuild/linux-armv7l-3.13/cmake-install'
2025-09-08T20:13:19,912   removing '_skbuild/linux-armv7l-3.13/cmake-build'
2025-09-08T20:13:19,912   removing '_skbuild/linux-armv7l-3.13'
2025-09-08T20:13:20,026 Failed to build gmxapi
2025-09-08T20:13:20,027 ERROR: Failed to build one or more wheels
2025-09-08T20:13:20,028 Exception information:
2025-09-08T20:13:20,028 Traceback (most recent call last):
2025-09-08T20:13:20,028   File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 105, in _run_wrapper
2025-09-08T20:13:20,028     status = _inner_run()
2025-09-08T20:13:20,028   File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 96, in _inner_run
2025-09-08T20:13:20,028     return self.run(options, args)
2025-09-08T20:13:20,028            ~~~~~~~~^^^^^^^^^^^^^^^
2025-09-08T20:13:20,028   File "/usr/lib/python3/dist-packages/pip/_internal/cli/req_command.py", line 68, in wrapper
2025-09-08T20:13:20,028     return func(self, options, args)
2025-09-08T20:13:20,028   File "/usr/lib/python3/dist-packages/pip/_internal/commands/wheel.py", line 180, in run
2025-09-08T20:13:20,028     raise CommandError("Failed to build one or more wheels")
2025-09-08T20:13:20,028 pip._internal.exceptions.CommandError: Failed to build one or more wheels
2025-09-08T20:13:20,032 Removed build tracker: '/tmp/pip-build-tracker-zf8kvwnl'