2026-02-09T20:23:24,919 Created temporary directory: /tmp/pip-ephem-wheel-cache-b__ek619
2026-02-09T20:23:24,921 Created temporary directory: /tmp/pip-build-tracker-mz2liq0g
2026-02-09T20:23:24,921 Initialized build tracking at /tmp/pip-build-tracker-mz2liq0g
2026-02-09T20:23:24,922 Created build tracker: /tmp/pip-build-tracker-mz2liq0g
2026-02-09T20:23:24,922 Entered build tracker: /tmp/pip-build-tracker-mz2liq0g
2026-02-09T20:23:24,923 Created temporary directory: /tmp/pip-wheel-ip0j_pqb
2026-02-09T20:23:24,926 DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453
2026-02-09T20:23:24,928 Created temporary directory: /tmp/pip-ephem-wheel-cache-rm_n0su2
2026-02-09T20:23:24,950 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2026-02-09T20:23:24,953 2 location(s) to search for versions of pyinfernal:
2026-02-09T20:23:24,953 * https://pypi.org/simple/pyinfernal/
2026-02-09T20:23:24,953 * https://www.piwheels.org/simple/pyinfernal/
2026-02-09T20:23:24,954 Fetching project page and analyzing links: https://pypi.org/simple/pyinfernal/
2026-02-09T20:23:24,955 Getting page https://pypi.org/simple/pyinfernal/
2026-02-09T20:23:24,957 Found index url https://pypi.org/simple
2026-02-09T20:23:25,178 Fetched page https://pypi.org/simple/pyinfernal/ as application/vnd.pypi.simple.v1+json
2026-02-09T20:23:25,182   Found link https://files.pythonhosted.org/packages/31/a0/6bf7427ebc462adbc514bb08156bec2aaaafe0fbf0451963395ee90396f8/pyinfernal-0.1.0.dev1.tar.gz (from https://pypi.org/simple/pyinfernal/) (requires-python:>=3.7), version: 0.1.0.dev1
2026-02-09T20:23:25,183   Found link https://files.pythonhosted.org/packages/0e/3d/a84bbd14073b5c86e0aa953db9d52b695c7174d18bc999d97936bb6185ef/pyinfernal-0.1.0a2.tar.gz (from https://pypi.org/simple/pyinfernal/) (requires-python:>=3.7), version: 0.1.0a2
2026-02-09T20:23:25,184   Skipping link: No binaries permitted for pyinfernal: https://files.pythonhosted.org/packages/bf/5f/584cc0ab37ac0b5a84b6d23eb33a4231d689094942cb20f6374ddb7cb201/pyinfernal-0.1.0-cp310-cp310-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (from https://pypi.org/simple/pyinfernal/) (requires-python:>=3.7)
2026-02-09T20:23:25,184   Skipping link: No binaries permitted for pyinfernal: https://files.pythonhosted.org/packages/8c/36/9fd1b69e75631ae2d458c7ab785274b57d85962d069c845188fffb125a2b/pyinfernal-0.1.0-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (from https://pypi.org/simple/pyinfernal/) (requires-python:>=3.7)
2026-02-09T20:23:25,185   Skipping link: No binaries permitted for pyinfernal: https://files.pythonhosted.org/packages/71/d9/f7c239ee6ace98b14231128c170ac27dc23b10aa0e5610b7c12e402ec848/pyinfernal-0.1.0-cp312-abi3-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (from https://pypi.org/simple/pyinfernal/) (requires-python:>=3.7)
2026-02-09T20:23:25,186   Skipping link: No binaries permitted for pyinfernal: https://files.pythonhosted.org/packages/5f/a6/928048d02cd4454ef342a39abf87aae3c8bd85766cae2645a2062538ac63/pyinfernal-0.1.0-cp314-cp314t-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (from https://pypi.org/simple/pyinfernal/) (requires-python:>=3.7)
2026-02-09T20:23:25,186   Skipping link: No binaries permitted for pyinfernal: https://files.pythonhosted.org/packages/c3/e6/ea37886a2a2f02d0749170ea19bc381997b37fdd7b57839719aaeb8e7458/pyinfernal-0.1.0-cp38-cp38-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (from https://pypi.org/simple/pyinfernal/) (requires-python:>=3.7)
2026-02-09T20:23:25,187   Skipping link: No binaries permitted for pyinfernal: https://files.pythonhosted.org/packages/51/ae/26ef3e48dfdcc1e25efbbc140e25006c0ae5a9a6772c7132d895e1a400dc/pyinfernal-0.1.0-cp39-cp39-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (from https://pypi.org/simple/pyinfernal/) (requires-python:>=3.7)
2026-02-09T20:23:25,188   Found link https://files.pythonhosted.org/packages/8f/76/7f5d68284fdf09776b12ce0a892f55e1204ae576b72f46bba17dd0a7adc1/pyinfernal-0.1.0.tar.gz (from https://pypi.org/simple/pyinfernal/) (requires-python:>=3.7), version: 0.1.0
2026-02-09T20:23:25,189 Fetching project page and analyzing links: https://www.piwheels.org/simple/pyinfernal/
2026-02-09T20:23:25,189 Getting page https://www.piwheels.org/simple/pyinfernal/
2026-02-09T20:23:25,190 Found index url https://www.piwheels.org/simple
2026-02-09T20:23:25,352 Fetched page https://www.piwheels.org/simple/pyinfernal/ as text/html
2026-02-09T20:23:25,355   Skipping link: No binaries permitted for pyinfernal: https://www.piwheels.org/simple/pyinfernal/pyinfernal-0.1.0.dev1-cp313-cp313-linux_armv6l.whl#sha256=e8f82d698afea0aac958c17ff07114022aa9ae0af8047d941c03f5532198d7bf (from https://www.piwheels.org/simple/pyinfernal/) (requires-python:>=3.7)
2026-02-09T20:23:25,355   Skipping link: No binaries permitted for pyinfernal: https://www.piwheels.org/simple/pyinfernal/pyinfernal-0.1.0.dev1-cp313-cp313-linux_armv7l.whl#sha256=e8f82d698afea0aac958c17ff07114022aa9ae0af8047d941c03f5532198d7bf (from https://www.piwheels.org/simple/pyinfernal/) (requires-python:>=3.7)
2026-02-09T20:23:25,356   Skipping link: No binaries permitted for pyinfernal: https://www.piwheels.org/simple/pyinfernal/pyinfernal-0.1.0.dev1-cp39-cp39-linux_armv6l.whl#sha256=1f14857dce1388dfcb08daec8f93171772e4bf60fb08d64547915376a62c3861 (from https://www.piwheels.org/simple/pyinfernal/) (requires-python:>=3.7)
2026-02-09T20:23:25,356   Skipping link: No binaries permitted for pyinfernal: https://www.piwheels.org/simple/pyinfernal/pyinfernal-0.1.0.dev1-cp39-cp39-linux_armv7l.whl#sha256=1f14857dce1388dfcb08daec8f93171772e4bf60fb08d64547915376a62c3861 (from https://www.piwheels.org/simple/pyinfernal/) (requires-python:>=3.7)
2026-02-09T20:23:25,357 Skipping link: not a file: https://www.piwheels.org/simple/pyinfernal/
2026-02-09T20:23:25,357 Skipping link: not a file: https://pypi.org/simple/pyinfernal/
2026-02-09T20:23:25,376 Given no hashes to check 1 links for project 'pyinfernal': discarding no candidates
2026-02-09T20:23:25,394 Collecting pyinfernal==0.1.0
2026-02-09T20:23:25,396   Created temporary directory: /tmp/pip-unpack-7chvu2me
2026-02-09T20:23:25,530   Downloading pyinfernal-0.1.0.tar.gz (4.7 MB)
2026-02-09T20:23:28,215   Added pyinfernal==0.1.0 from https://files.pythonhosted.org/packages/8f/76/7f5d68284fdf09776b12ce0a892f55e1204ae576b72f46bba17dd0a7adc1/pyinfernal-0.1.0.tar.gz to build tracker '/tmp/pip-build-tracker-mz2liq0g'
2026-02-09T20:23:28,224   Created temporary directory: /tmp/pip-build-env-4cmt4r5l
2026-02-09T20:23:28,228   Installing build dependencies: started
2026-02-09T20:23:28,230   Running command pip subprocess to install build dependencies
2026-02-09T20:23:29,400   Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11)
2026-02-09T20:23:30,016   DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453
2026-02-09T20:23:30,040   Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2026-02-09T20:23:30,545   Collecting scikit-build-core>=0.11
2026-02-09T20:23:30,573     Using cached https://www.piwheels.org/simple/scikit-build-core/scikit_build_core-0.11.6-py3-none-any.whl (185 kB)
2026-02-09T20:23:32,698   Collecting cython>=3.0
2026-02-09T20:23:33,581     Using cached https://www.piwheels.org/simple/cython/cython-3.2.4-cp311-cp311-linux_armv7l.whl (11.1 MB)
2026-02-09T20:23:34,471   Collecting pyhmmer~=0.12.0
2026-02-09T20:23:34,482     Downloading https://www.piwheels.org/simple/pyhmmer/pyhmmer-0.12.0-cp311-cp311-linux_armv7l.whl (4.1 MB)
2026-02-09T20:23:34,766        ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 4.1/4.1 MB 14.7 MB/s eta 0:00:00
2026-02-09T20:23:35,194   Collecting packaging>=23.2
2026-02-09T20:23:35,211     Using cached https://www.piwheels.org/simple/packaging/packaging-26.0-py3-none-any.whl (74 kB)
2026-02-09T20:23:35,331   Collecting pathspec>=0.10.1
2026-02-09T20:23:35,337     Using cached pathspec-1.0.4-py3-none-any.whl (55 kB)
2026-02-09T20:23:36,487   Collecting psutil<8.0,>=5.0
2026-02-09T20:23:36,669     Using cached https://archive1.piwheels.org/simple/psutil/psutil-6.0.0-cp311-abi3-linux_armv7l.whl (285 kB)
2026-02-09T20:23:39,577   Installing collected packages: psutil, pathspec, packaging, cython, scikit-build-core, pyhmmer
2026-02-09T20:23:44,536     Creating /tmp/pip-build-env-4cmt4r5l/overlay/local/bin
2026-02-09T20:23:44,538     changing mode of /tmp/pip-build-env-4cmt4r5l/overlay/local/bin/cygdb to 755
2026-02-09T20:23:44,541     changing mode of /tmp/pip-build-env-4cmt4r5l/overlay/local/bin/cython to 755
2026-02-09T20:23:44,543     changing mode of /tmp/pip-build-env-4cmt4r5l/overlay/local/bin/cythonize to 755
2026-02-09T20:23:46,683   Successfully installed cython-3.2.4 packaging-26.0 pathspec-1.0.4 psutil-6.0.0 pyhmmer-0.12.0 scikit-build-core-0.11.6
2026-02-09T20:23:47,099   Installing build dependencies: finished with status 'done'
2026-02-09T20:23:47,106   Getting requirements to build wheel: started
2026-02-09T20:23:47,107   Running command Getting requirements to build wheel
2026-02-09T20:23:47,711   Getting requirements to build wheel: finished with status 'done'
2026-02-09T20:23:47,714   Created temporary directory: /tmp/pip-modern-metadata-_76kxp8b
2026-02-09T20:23:47,717   Preparing metadata (pyproject.toml): started
2026-02-09T20:23:47,718   Running command Preparing metadata (pyproject.toml)
2026-02-09T20:23:48,387   2026-02-09 20:23:48,387 - scikit_build_core - WARNING - Unknown keys in top-level of pyproject.toml: tool.mypy-pyinfernal.tests.*
2026-02-09T20:23:48,438   *** scikit-build-core 0.11.6 using CMake 3.25.1 (metadata_wheel)
2026-02-09T20:23:48,539   Preparing metadata (pyproject.toml): finished with status 'done'
2026-02-09T20:23:48,544   Source in /tmp/pip-wheel-ip0j_pqb/pyinfernal_eeb77e473957424eb3b9de350fce525b has version 0.1.0, which satisfies requirement pyinfernal==0.1.0 from https://files.pythonhosted.org/packages/8f/76/7f5d68284fdf09776b12ce0a892f55e1204ae576b72f46bba17dd0a7adc1/pyinfernal-0.1.0.tar.gz
2026-02-09T20:23:48,545   Removed pyinfernal==0.1.0 from https://files.pythonhosted.org/packages/8f/76/7f5d68284fdf09776b12ce0a892f55e1204ae576b72f46bba17dd0a7adc1/pyinfernal-0.1.0.tar.gz from build tracker '/tmp/pip-build-tracker-mz2liq0g'
2026-02-09T20:23:48,551 Created temporary directory: /tmp/pip-unpack-776ezli4
2026-02-09T20:23:48,552 Building wheels for collected packages: pyinfernal
2026-02-09T20:23:48,556   Created temporary directory: /tmp/pip-wheel-0kqy79k_
2026-02-09T20:23:48,557   Destination directory: /tmp/pip-wheel-0kqy79k_
2026-02-09T20:23:48,559   Building wheel for pyinfernal (pyproject.toml): started
2026-02-09T20:23:48,560   Running command Building wheel for pyinfernal (pyproject.toml)
2026-02-09T20:23:49,473   2026-02-09 20:23:49,473 - scikit_build_core - WARNING - Unknown keys in top-level of pyproject.toml: tool.mypy-pyinfernal.tests.*
2026-02-09T20:23:49,522   *** scikit-build-core 0.11.6 using CMake 3.25.1 (wheel)
2026-02-09T20:23:49,547   *** Configuring CMake...
2026-02-09T20:23:49,757   loading initial cache file build/Release/CMakeInit.txt
2026-02-09T20:23:50,023   -- The C compiler identification is GNU 12.2.0
2026-02-09T20:23:50,077   -- Detecting C compiler ABI info
2026-02-09T20:23:50,361   -- Detecting C compiler ABI info - done
2026-02-09T20:23:50,399   -- Check for working C compiler: /usr/bin/arm-linux-gnueabihf-gcc - skipped
2026-02-09T20:23:50,401   -- Detecting C compile features
2026-02-09T20:23:50,404   -- Detecting C compile features - done
2026-02-09T20:23:50,422   -- Installing shared libraries to pyinfernal.libs
2026-02-09T20:23:50,433   -- Looking for alloca.h
2026-02-09T20:23:50,698   -- Looking for alloca.h - found
2026-02-09T20:23:51,642   -- Found Python: /usr/bin/python3 (found version "3.11.2") found components: Interpreter Development.Module
2026-02-09T20:23:51,645   -- Looking for PyInterpreterState_GetID
2026-02-09T20:23:52,192   -- Looking for PyInterpreterState_GetID - not found
2026-02-09T20:23:52,195   -- Building in latest API mode for Python: 3.11
2026-02-09T20:23:52,197   -- Linking to libinfernal
2026-02-09T20:23:52,199   -- Configuring done
2026-02-09T20:23:52,265   -- Generating done
2026-02-09T20:23:52,316   -- Build files have been written to: /tmp/pip-wheel-ip0j_pqb/pyinfernal_eeb77e473957424eb3b9de350fce525b/build/Release
2026-02-09T20:23:52,349   *** Building project with Ninja...
2026-02-09T20:23:52,419   ninja: error: 'src/infernal/DEPENDS_EXPLICIT_ONLY', needed by '/tmp/pip-wheel-ip0j_pqb/pyinfernal_eeb77e473957424eb3b9de350fce525b/build/Release/src/infernal/cm.c', missing and no known rule to make it

2026-02-09T20:23:52,438   *** CMake build failed
2026-02-09T20:23:52,535   ERROR: [present-rich] Building wheel for pyinfernal (pyproject.toml) exited with 1
2026-02-09T20:23:52,548   [bold magenta]full command[/]: [blue]/usr/bin/python3 /usr/lib/python3/dist-packages/pip/_vendor/pyproject_hooks/_in_process/_in_process.py build_wheel /tmp/tmpvyvo1gve[/]
2026-02-09T20:23:52,548   [bold magenta]cwd[/]: /tmp/pip-wheel-ip0j_pqb/pyinfernal_eeb77e473957424eb3b9de350fce525b
2026-02-09T20:23:52,549   Building wheel for pyinfernal (pyproject.toml): finished with status 'error'
2026-02-09T20:23:52,551   ERROR: Failed building wheel for pyinfernal
2026-02-09T20:23:52,553 Failed to build pyinfernal
2026-02-09T20:23:52,554 ERROR: Failed to build one or more wheels
2026-02-09T20:23:52,556 Exception information:
2026-02-09T20:23:52,556 Traceback (most recent call last):
2026-02-09T20:23:52,556   File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 160, in exc_logging_wrapper
2026-02-09T20:23:52,556     status = run_func(*args)
2026-02-09T20:23:52,556              ^^^^^^^^^^^^^^^
2026-02-09T20:23:52,556   File "/usr/lib/python3/dist-packages/pip/_internal/cli/req_command.py", line 247, in wrapper
2026-02-09T20:23:52,556     return func(self, options, args)
2026-02-09T20:23:52,556            ^^^^^^^^^^^^^^^^^^^^^^^^^
2026-02-09T20:23:52,556   File "/usr/lib/python3/dist-packages/pip/_internal/commands/wheel.py", line 201, in run
2026-02-09T20:23:52,556     raise CommandError("Failed to build one or more wheels")
2026-02-09T20:23:52,556 pip._internal.exceptions.CommandError: Failed to build one or more wheels
2026-02-09T20:23:52,559 Removed build tracker: '/tmp/pip-build-tracker-mz2liq0g'