2024-03-20T11:19:57,244 Created temporary directory: /tmp/pip-build-tracker-4ii0hzgr 2024-03-20T11:19:57,246 Initialized build tracking at /tmp/pip-build-tracker-4ii0hzgr 2024-03-20T11:19:57,247 Created build tracker: /tmp/pip-build-tracker-4ii0hzgr 2024-03-20T11:19:57,247 Entered build tracker: /tmp/pip-build-tracker-4ii0hzgr 2024-03-20T11:19:57,248 Created temporary directory: /tmp/pip-wheel-2w_6qziy 2024-03-20T11:19:57,251 Created temporary directory: /tmp/pip-ephem-wheel-cache-5ptqmy84 2024-03-20T11:19:57,278 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2024-03-20T11:19:57,281 2 location(s) to search for versions of moleculekit: 2024-03-20T11:19:57,281 * https://pypi.org/simple/moleculekit/ 2024-03-20T11:19:57,281 * https://www.piwheels.org/simple/moleculekit/ 2024-03-20T11:19:57,282 Fetching project page and analyzing links: https://pypi.org/simple/moleculekit/ 2024-03-20T11:19:57,283 Getting page https://pypi.org/simple/moleculekit/ 2024-03-20T11:19:57,285 Found index url https://pypi.org/simple/ 2024-03-20T11:19:57,518 Fetched page https://pypi.org/simple/moleculekit/ as application/vnd.pypi.simple.v1+json 2024-03-20T11:19:57,559 Skipping link: No binaries permitted for moleculekit: https://files.pythonhosted.org/packages/91/e6/25b6853357dfef8a4026325e420d8213d34c17c078a2f13b60cbb6213ea3/moleculekit-0.1.4-py3-none-any.whl (from https://pypi.org/simple/moleculekit/) 2024-03-20T11:19:57,560 Found link https://files.pythonhosted.org/packages/13/0f/a200e8e7632d3a521cfc7c15fa4d0270802efce40f98ac5a5cae58385b7e/moleculekit-0.1.4.tar.gz (from https://pypi.org/simple/moleculekit/), version: 0.1.4 2024-03-20T11:19:57,561 Skipping link: No binaries permitted for moleculekit: https://files.pythonhosted.org/packages/9f/a5/eac32fcb2e9ff0d30298aa4cec8e152c95d675c4dd1a1a5d7676986d4d75/moleculekit-0.1.5-py3-none-any.whl (from https://pypi.org/simple/moleculekit/) 2024-03-20T11:19:57,561 Found link 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https://www.piwheels.org/simple/moleculekit/moleculekit-0.1.4-py3-none-any.whl#sha256=5784491ff294e145a00311f8239aaa0b92c12605db0508ee3e10469b80d4cadd (from https://www.piwheels.org/simple/moleculekit/) 2024-03-20T11:19:58,646 Skipping link: not a file: https://www.piwheels.org/simple/moleculekit/ 2024-03-20T11:19:58,647 Skipping link: not a file: https://pypi.org/simple/moleculekit/ 2024-03-20T11:19:58,687 Given no hashes to check 1 links for project 'moleculekit': discarding no candidates 2024-03-20T11:19:58,706 Collecting moleculekit==1.8.27 2024-03-20T11:19:58,708 Created temporary directory: /tmp/pip-unpack-6_3ku27_ 2024-03-20T11:19:58,941 Downloading moleculekit-1.8.27.tar.gz (6.8 MB) 2024-03-20T11:20:02,284 Added moleculekit==1.8.27 from https://files.pythonhosted.org/packages/0e/be/42a9eff89e9e0c3bc08940ead6c991f366ce109bb75ece11cc3b2996d001/moleculekit-1.8.27.tar.gz to build tracker '/tmp/pip-build-tracker-4ii0hzgr' 2024-03-20T11:20:02,298 Created temporary directory: /tmp/pip-build-env-an60d6di 2024-03-20T11:20:02,304 Installing build dependencies: started 2024-03-20T11:20:02,306 Running command pip subprocess to install build dependencies 2024-03-20T11:20:03,475 Using pip 24.0 from /usr/local/lib/python3.11/dist-packages/pip (python 3.11) 2024-03-20T11:20:04,014 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2024-03-20T11:20:05,890 Collecting setuptools 2024-03-20T11:20:07,666 Using cached https://www.piwheels.org/simple/setuptools/setuptools-69.2.0-py3-none-any.whl (821 kB) 2024-03-20T11:20:08,410 Link requires a different Python (3.11.2 not in: '>=3.7,<3.11'): https://files.pythonhosted.org/packages/3a/be/650f9c091ef71cb01d735775d554e068752d3ff63d7943b26316dc401749/numpy-1.21.2.zip (from https://pypi.org/simple/numpy/) (requires-python:>=3.7,<3.11) 2024-03-20T11:20:08,413 Link requires a different Python (3.11.2 not in: '>=3.7,<3.11'): https://files.pythonhosted.org/packages/5f/d6/ad58ded26556eaeaa8c971e08b6466f17c4ac4d786cd3d800e26ce59cc01/numpy-1.21.3.zip (from https://pypi.org/simple/numpy/) (requires-python:>=3.7,<3.11) 2024-03-20T11:20:08,417 Link requires a different Python (3.11.2 not in: '>=3.7,<3.11'): https://files.pythonhosted.org/packages/fb/48/b0708ebd7718a8933f0d3937513ef8ef2f4f04529f1f66ca86d873043921/numpy-1.21.4.zip (from https://pypi.org/simple/numpy/) (requires-python:>=3.7,<3.11) 2024-03-20T11:20:08,420 Link requires a different Python (3.11.2 not in: '>=3.7,<3.11'): https://files.pythonhosted.org/packages/c2/a8/a924a09492bdfee8c2ec3094d0a13f2799800b4fdc9c890738aeeb12c72e/numpy-1.21.5.zip (from https://pypi.org/simple/numpy/) (requires-python:>=3.7,<3.11) 2024-03-20T11:20:08,423 Link requires a different Python (3.11.2 not in: '>=3.7,<3.11'): https://files.pythonhosted.org/packages/45/b7/de7b8e67f2232c26af57c205aaad29fe17754f793404f59c8a730c7a191a/numpy-1.21.6.zip (from https://pypi.org/simple/numpy/) (requires-python:>=3.7,<3.11) 2024-03-20T11:20:08,702 Collecting numpy>=1.18.5 2024-03-20T11:20:08,718 Using cached https://www.piwheels.org/simple/numpy/numpy-1.26.4-cp311-cp311-linux_armv7l.whl (5.6 MB) 2024-03-20T11:20:10,437 Collecting Cython>=0.29.21 2024-03-20T11:20:10,453 Using cached https://www.piwheels.org/simple/cython/Cython-3.0.9-cp311-cp311-linux_armv7l.whl (11.7 MB) 2024-03-20T11:20:11,228 Collecting toml 2024-03-20T11:20:11,246 Using cached https://www.piwheels.org/simple/toml/toml-0.10.2-py2.py3-none-any.whl (16 kB) 2024-03-20T11:20:11,357 Collecting versioneer==0.28 (from versioneer[toml]==0.28) 2024-03-20T11:20:11,384 Using cached https://www.piwheels.org/simple/versioneer/versioneer-0.28-py3-none-any.whl (45 kB) 2024-03-20T11:20:14,014 Installing collected packages: versioneer, toml, setuptools, numpy, Cython 2024-03-20T11:20:14,050 Creating /tmp/pip-build-env-an60d6di/overlay/local/bin 2024-03-20T11:20:14,052 changing mode of /tmp/pip-build-env-an60d6di/overlay/local/bin/versioneer to 755 2024-03-20T11:20:25,647 changing mode of /tmp/pip-build-env-an60d6di/overlay/local/bin/f2py to 755 2024-03-20T11:20:29,771 changing mode of /tmp/pip-build-env-an60d6di/overlay/local/bin/cygdb to 755 2024-03-20T11:20:29,773 changing mode of /tmp/pip-build-env-an60d6di/overlay/local/bin/cython to 755 2024-03-20T11:20:29,776 changing mode of /tmp/pip-build-env-an60d6di/overlay/local/bin/cythonize to 755 2024-03-20T11:20:29,822 Successfully installed Cython-3.0.9 numpy-1.26.4 setuptools-69.2.0 toml-0.10.2 versioneer-0.28 2024-03-20T11:20:30,569 Installing build dependencies: finished with status 'done' 2024-03-20T11:20:30,576 Getting requirements to build wheel: started 2024-03-20T11:20:30,578 Running command Getting requirements to build wheel 2024-03-20T11:21:06,775 warning: moleculekit/wrapping/wrapping.pyx:47:4: Unreachable code 2024-03-20T11:21:15,321 Compiling moleculekit/interactions/hbonds/hbonds.pyx because it depends on /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/Cython/Includes/libcpp/vector.pxd. 2024-03-20T11:21:15,323 Compiling moleculekit/interactions/pipi/pipi.pyx because it depends on /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/Cython/Includes/libcpp/vector.pxd. 2024-03-20T11:21:15,324 Compiling moleculekit/interactions/cationpi/cationpi.pyx because it depends on /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/Cython/Includes/libcpp/vector.pxd. 2024-03-20T11:21:15,324 Compiling moleculekit/interactions/sigmahole/sigmahole.pyx because it depends on /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/Cython/Includes/libcpp/vector.pxd. 2024-03-20T11:21:15,325 Compiling moleculekit/wrapping/wrapping.pyx because it depends on /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/Cython/Includes/libcpp/vector.pxd. 2024-03-20T11:21:15,326 Compiling moleculekit/bondguesser_utils/bondguesser_utils.pyx because it depends on /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/Cython/Includes/libcpp/vector.pxd. 2024-03-20T11:21:15,326 Compiling moleculekit/atomselect_utils/atomselect_utils.pyx because it depends on /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/Cython/Includes/libcpp/vector.pxd. 2024-03-20T11:21:15,327 Compiling moleculekit/distance_utils/distance_utils.pyx because it depends on /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/Cython/Includes/libcpp/vector.pxd. 2024-03-20T11:21:15,328 Compiling moleculekit/occupancy_utils/occupancy_utils.pyx because it depends on /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/Cython/Includes/libcpp/vector.pxd. 2024-03-20T11:21:15,329 Compiling moleculekit/cython_utils/cython_utils.pyx because it depends on /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/Cython/Includes/libcpp/vector.pxd. 2024-03-20T11:21:15,329 Compiling moleculekit/fileformats/xtc/xtc.pyx because it depends on /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/Cython/Includes/libc/string.pxd. 2024-03-20T11:21:15,330 Compiling moleculekit/fileformats/xtc/trr.pyx because it depends on /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/Cython/Includes/libc/string.pxd. 2024-03-20T11:21:15,330 Compiling moleculekit/fileformats/dcd/dcd.pyx because it depends on /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/Cython/Includes/libc/string.pxd. 2024-03-20T11:21:15,331 Compiling moleculekit/fileformats/binpos/binpos.pyx because it depends on /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/Cython/Includes/libc/string.pxd. 2024-03-20T11:21:15,331 Compiling moleculekit/tmalign/tmalign_util.pyx because it depends on /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/Cython/Includes/libcpp/vector.pxd. 2024-03-20T11:21:15,332 [ 1/15] Cythonizing moleculekit/atomselect_utils/atomselect_utils.pyx 2024-03-20T11:21:15,333 [ 2/15] Cythonizing moleculekit/bondguesser_utils/bondguesser_utils.pyx 2024-03-20T11:21:15,333 [ 3/15] Cythonizing moleculekit/cython_utils/cython_utils.pyx 2024-03-20T11:21:15,334 [ 4/15] Cythonizing moleculekit/distance_utils/distance_utils.pyx 2024-03-20T11:21:15,334 [ 5/15] Cythonizing moleculekit/fileformats/dcd/dcd.pyx 2024-03-20T11:21:15,335 [ 6/15] Cythonizing moleculekit/interactions/cationpi/cationpi.pyx 2024-03-20T11:21:15,335 [ 7/15] Cythonizing moleculekit/interactions/hbonds/hbonds.pyx 2024-03-20T11:21:15,336 [ 8/15] Cythonizing moleculekit/interactions/pipi/pipi.pyx 2024-03-20T11:21:15,337 [ 9/15] Cythonizing moleculekit/interactions/sigmahole/sigmahole.pyx 2024-03-20T11:21:15,338 [10/15] Cythonizing moleculekit/occupancy_utils/occupancy_utils.pyx 2024-03-20T11:21:15,338 [11/15] Cythonizing moleculekit/tmalign/tmalign_util.pyx 2024-03-20T11:21:15,339 [12/15] Cythonizing moleculekit/wrapping/wrapping.pyx 2024-03-20T11:21:15,340 [13/15] Cythonizing moleculekit/fileformats/binpos/binpos.pyx 2024-03-20T11:21:15,341 [14/15] Cythonizing moleculekit/fileformats/xtc/trr.pyx 2024-03-20T11:21:15,342 [15/15] Cythonizing moleculekit/fileformats/xtc/xtc.pyx 2024-03-20T11:21:15,618 running egg_info 2024-03-20T11:21:15,624 writing moleculekit.egg-info/PKG-INFO 2024-03-20T11:21:15,627 writing dependency_links to moleculekit.egg-info/dependency_links.txt 2024-03-20T11:21:15,630 writing requirements to moleculekit.egg-info/requires.txt 2024-03-20T11:21:15,631 writing top-level names to moleculekit.egg-info/top_level.txt 2024-03-20T11:21:15,660 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 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be automatically included in the manifest: the path must be relative 2024-03-20T11:21:15,666 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:15,666 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:15,667 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:15,668 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:15,668 dependency 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be automatically included in the manifest: the path must be relative 2024-03-20T11:21:15,676 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:15,676 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:15,677 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:15,677 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:15,678 dependency 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2024-03-20T11:21:16,025 writing manifest file 'moleculekit.egg-info/SOURCES.txt' 2024-03-20T11:21:17,696 Getting requirements to build wheel: finished with status 'done' 2024-03-20T11:21:17,710 Installing backend dependencies: started 2024-03-20T11:21:17,711 Running command pip subprocess to install backend dependencies 2024-03-20T11:21:19,016 Using pip 24.0 from /usr/local/lib/python3.11/dist-packages/pip (python 3.11) 2024-03-20T11:21:19,596 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2024-03-20T11:21:20,108 Collecting wheel 2024-03-20T11:21:22,834 Using cached https://www.piwheels.org/simple/wheel/wheel-0.43.0-py3-none-any.whl (65 kB) 2024-03-20T11:21:25,150 Installing collected packages: wheel 2024-03-20T11:21:25,385 Creating /tmp/pip-build-env-an60d6di/normal/local/bin 2024-03-20T11:21:25,388 changing mode of /tmp/pip-build-env-an60d6di/normal/local/bin/wheel to 755 2024-03-20T11:21:25,401 Successfully installed wheel-0.43.0 2024-03-20T11:21:25,932 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be automatically included in the manifest: the path must be relative 2024-03-20T11:21:28,448 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:28,449 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:28,449 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:28,450 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:28,450 dependency 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be automatically included in the manifest: the path must be relative 2024-03-20T11:21:28,453 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:28,453 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:28,454 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:28,454 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:28,455 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:28,456 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:28,456 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:28,457 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:28,457 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:28,458 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:28,458 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:28,459 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:28,459 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:28,460 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:28,460 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:28,461 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:28,461 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:28,462 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:28,462 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:28,463 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:28,463 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:28,464 reading manifest file '/tmp/pip-modern-metadata-2882rws0/moleculekit.egg-info/SOURCES.txt' 2024-03-20T11:21:28,464 reading manifest template 'MANIFEST.in' 2024-03-20T11:21:29,047 no previously-included directories found matching 'moleculekit/test-data' 2024-03-20T11:21:29,048 no previously-included directories found matching 'moleculekit/tests' 2024-03-20T11:21:29,049 no previously-included directories found matching 'package' 2024-03-20T11:21:29,050 adding license file 'LICENSE' 2024-03-20T11:21:29,062 writing manifest file '/tmp/pip-modern-metadata-2882rws0/moleculekit.egg-info/SOURCES.txt' 2024-03-20T11:21:29,070 creating '/tmp/pip-modern-metadata-2882rws0/moleculekit-1.8.27.dist-info' 2024-03-20T11:21:29,324 Preparing metadata (pyproject.toml): finished with status 'done' 2024-03-20T11:21:29,331 Source in /tmp/pip-wheel-2w_6qziy/moleculekit_4f679926d5c345eeb24a0226561e95fa has version 1.8.27, which satisfies requirement moleculekit==1.8.27 from https://files.pythonhosted.org/packages/0e/be/42a9eff89e9e0c3bc08940ead6c991f366ce109bb75ece11cc3b2996d001/moleculekit-1.8.27.tar.gz 2024-03-20T11:21:29,332 Removed moleculekit==1.8.27 from https://files.pythonhosted.org/packages/0e/be/42a9eff89e9e0c3bc08940ead6c991f366ce109bb75ece11cc3b2996d001/moleculekit-1.8.27.tar.gz from build tracker '/tmp/pip-build-tracker-4ii0hzgr' 2024-03-20T11:21:29,340 Created temporary directory: /tmp/pip-unpack-1w5h3ec9 2024-03-20T11:21:29,342 Created temporary directory: /tmp/pip-unpack-spilmcow 2024-03-20T11:21:29,354 Building wheels for collected packages: moleculekit 2024-03-20T11:21:29,360 Created temporary directory: /tmp/pip-wheel-g1iwkvsj 2024-03-20T11:21:29,361 Destination directory: /tmp/pip-wheel-g1iwkvsj 2024-03-20T11:21:29,363 Building wheel for moleculekit (pyproject.toml): started 2024-03-20T11:21:29,365 Running command Building wheel for moleculekit (pyproject.toml) 2024-03-20T11:21:31,672 running bdist_wheel 2024-03-20T11:21:31,687 running build 2024-03-20T11:21:31,688 running build_py 2024-03-20T11:21:31,695 creating build 2024-03-20T11:21:31,695 creating build/lib.linux-armv7l-cpython-311 2024-03-20T11:21:31,696 creating build/lib.linux-armv7l-cpython-311/moleculekit 2024-03-20T11:21:31,697 copying moleculekit/vmdgraphics.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2024-03-20T11:21:31,700 copying moleculekit/home.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2024-03-20T11:21:31,702 copying moleculekit/align.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2024-03-20T11:21:31,704 copying moleculekit/config.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2024-03-20T11:21:31,706 copying moleculekit/readers.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2024-03-20T11:21:31,712 copying moleculekit/viewer.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2024-03-20T11:21:31,714 copying moleculekit/version.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2024-03-20T11:21:31,715 copying moleculekit/periodictable.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2024-03-20T11:21:31,718 copying moleculekit/_version.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2024-03-20T11:21:31,719 copying moleculekit/opm.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2024-03-20T11:21:31,722 copying moleculekit/rdkitintegration.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2024-03-20T11:21:31,723 copying moleculekit/__init__.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2024-03-20T11:21:31,725 copying moleculekit/molecule.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2024-03-20T11:21:31,732 copying moleculekit/dihedral.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2024-03-20T11:21:31,734 copying moleculekit/distance.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2024-03-20T11:21:31,736 copying moleculekit/writers.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2024-03-20T11:21:31,739 copying moleculekit/vmdviewer.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2024-03-20T11:21:31,742 copying moleculekit/bondguesser.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2024-03-20T11:21:31,744 copying moleculekit/pymolgraphics.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2024-03-20T11:21:31,746 copying moleculekit/util.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2024-03-20T11:21:31,749 copying moleculekit/rcsb.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2024-03-20T11:21:31,751 creating build/lib.linux-armv7l-cpython-311/moleculekit/tools 2024-03-20T11:21:31,752 copying moleculekit/tools/moleculechecks.py -> build/lib.linux-armv7l-cpython-311/moleculekit/tools 2024-03-20T11:21:31,755 copying moleculekit/tools/autosegment.py -> build/lib.linux-armv7l-cpython-311/moleculekit/tools 2024-03-20T11:21:31,757 copying moleculekit/tools/graphalignment.py -> build/lib.linux-armv7l-cpython-311/moleculekit/tools 2024-03-20T11:21:31,759 copying moleculekit/tools/detect.py -> build/lib.linux-armv7l-cpython-311/moleculekit/tools 2024-03-20T11:21:31,762 copying moleculekit/tools/hhblitsprofile.py -> build/lib.linux-armv7l-cpython-311/moleculekit/tools 2024-03-20T11:21:31,764 copying moleculekit/tools/preparation.py -> build/lib.linux-armv7l-cpython-311/moleculekit/tools 2024-03-20T11:21:31,768 copying moleculekit/tools/modelling.py -> build/lib.linux-armv7l-cpython-311/moleculekit/tools 2024-03-20T11:21:31,770 copying moleculekit/tools/__init__.py -> build/lib.linux-armv7l-cpython-311/moleculekit/tools 2024-03-20T11:21:31,772 copying moleculekit/tools/atomtyper.py -> build/lib.linux-armv7l-cpython-311/moleculekit/tools 2024-03-20T11:21:31,774 copying moleculekit/tools/docking.py -> build/lib.linux-armv7l-cpython-311/moleculekit/tools 2024-03-20T11:21:31,776 copying moleculekit/tools/preparation_customres.py -> build/lib.linux-armv7l-cpython-311/moleculekit/tools 2024-03-20T11:21:31,779 copying moleculekit/tools/sequencestructuralalignment.py -> build/lib.linux-armv7l-cpython-311/moleculekit/tools 2024-03-20T11:21:31,781 copying moleculekit/tools/voxeldescriptors.py -> build/lib.linux-armv7l-cpython-311/moleculekit/tools 2024-03-20T11:21:31,785 copying moleculekit/tools/crystalpacking.py -> build/lib.linux-armv7l-cpython-311/moleculekit/tools 2024-03-20T11:21:31,789 creating build/lib.linux-armv7l-cpython-311/moleculekit/smallmol 2024-03-20T11:21:31,790 copying moleculekit/smallmol/smallmol.py -> build/lib.linux-armv7l-cpython-311/moleculekit/smallmol 2024-03-20T11:21:31,793 copying moleculekit/smallmol/__init__.py -> build/lib.linux-armv7l-cpython-311/moleculekit/smallmol 2024-03-20T11:21:31,794 copying moleculekit/smallmol/test_smallmol.py -> build/lib.linux-armv7l-cpython-311/moleculekit/smallmol 2024-03-20T11:21:31,797 copying moleculekit/smallmol/smallmollib.py -> build/lib.linux-armv7l-cpython-311/moleculekit/smallmol 2024-03-20T11:21:31,799 copying moleculekit/smallmol/test_smallmollib.py -> build/lib.linux-armv7l-cpython-311/moleculekit/smallmol 2024-03-20T11:21:31,801 copying moleculekit/smallmol/util.py -> build/lib.linux-armv7l-cpython-311/moleculekit/smallmol 2024-03-20T11:21:31,804 creating build/lib.linux-armv7l-cpython-311/moleculekit/projections 2024-03-20T11:21:31,805 copying moleculekit/projections/metricplumed2.py -> build/lib.linux-armv7l-cpython-311/moleculekit/projections 2024-03-20T11:21:31,808 copying moleculekit/projections/metricshell.py -> build/lib.linux-armv7l-cpython-311/moleculekit/projections 2024-03-20T11:21:31,810 copying moleculekit/projections/metricgyration.py -> build/lib.linux-armv7l-cpython-311/moleculekit/projections 2024-03-20T11:21:31,812 copying moleculekit/projections/metrictmscore.py -> build/lib.linux-armv7l-cpython-311/moleculekit/projections 2024-03-20T11:21:31,814 copying moleculekit/projections/__init__.py -> build/lib.linux-armv7l-cpython-311/moleculekit/projections 2024-03-20T11:21:31,816 copying moleculekit/projections/metricdistance.py -> build/lib.linux-armv7l-cpython-311/moleculekit/projections 2024-03-20T11:21:31,819 copying moleculekit/projections/metricsasa.py -> build/lib.linux-armv7l-cpython-311/moleculekit/projections 2024-03-20T11:21:31,822 copying moleculekit/projections/metricsecondarystructure.py -> build/lib.linux-armv7l-cpython-311/moleculekit/projections 2024-03-20T11:21:31,824 copying moleculekit/projections/projection.py -> build/lib.linux-armv7l-cpython-311/moleculekit/projections 2024-03-20T11:21:31,826 copying moleculekit/projections/metricfluctuation.py -> build/lib.linux-armv7l-cpython-311/moleculekit/projections 2024-03-20T11:21:31,829 copying moleculekit/projections/metricrmsd.py -> build/lib.linux-armv7l-cpython-311/moleculekit/projections 2024-03-20T11:21:31,831 copying moleculekit/projections/metriccoordinate.py -> build/lib.linux-armv7l-cpython-311/moleculekit/projections 2024-03-20T11:21:31,834 copying moleculekit/projections/metricdihedral.py -> build/lib.linux-armv7l-cpython-311/moleculekit/projections 2024-03-20T11:21:31,837 copying moleculekit/projections/util.py -> build/lib.linux-armv7l-cpython-311/moleculekit/projections 2024-03-20T11:21:31,839 copying moleculekit/projections/metricsphericalcoordinate.py -> build/lib.linux-armv7l-cpython-311/moleculekit/projections 2024-03-20T11:21:31,842 creating build/lib.linux-armv7l-cpython-311/moleculekit/fileformats 2024-03-20T11:21:31,843 copying moleculekit/fileformats/netcdf.py -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats 2024-03-20T11:21:31,847 copying moleculekit/fileformats/__init__.py -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats 2024-03-20T11:21:31,848 copying moleculekit/fileformats/utils.py -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats 2024-03-20T11:21:31,851 creating build/lib.linux-armv7l-cpython-311/moleculekit/ply 2024-03-20T11:21:31,852 copying moleculekit/ply/lex.py -> build/lib.linux-armv7l-cpython-311/moleculekit/ply 2024-03-20T11:21:31,855 copying moleculekit/ply/__init__.py -> build/lib.linux-armv7l-cpython-311/moleculekit/ply 2024-03-20T11:21:31,857 copying moleculekit/ply/yacc.py -> build/lib.linux-armv7l-cpython-311/moleculekit/ply 2024-03-20T11:21:31,862 creating build/lib.linux-armv7l-cpython-311/moleculekit/interactions 2024-03-20T11:21:31,862 copying moleculekit/interactions/__init__.py -> build/lib.linux-armv7l-cpython-311/moleculekit/interactions 2024-03-20T11:21:31,864 copying moleculekit/interactions/interactions.py -> build/lib.linux-armv7l-cpython-311/moleculekit/interactions 2024-03-20T11:21:31,867 creating build/lib.linux-armv7l-cpython-311/moleculekit/atomselect 2024-03-20T11:21:31,868 copying moleculekit/atomselect/languageparser.py -> build/lib.linux-armv7l-cpython-311/moleculekit/atomselect 2024-03-20T11:21:31,871 copying moleculekit/atomselect/__init__.py -> build/lib.linux-armv7l-cpython-311/moleculekit/atomselect 2024-03-20T11:21:31,872 copying moleculekit/atomselect/atomselect.py -> build/lib.linux-armv7l-cpython-311/moleculekit/atomselect 2024-03-20T11:21:31,875 copying moleculekit/atomselect/analyze.py -> build/lib.linux-armv7l-cpython-311/moleculekit/atomselect 2024-03-20T11:21:31,877 creating build/lib.linux-armv7l-cpython-311/moleculekit/pdbx 2024-03-20T11:21:31,878 copying moleculekit/pdbx/__init__.py -> build/lib.linux-armv7l-cpython-311/moleculekit/pdbx 2024-03-20T11:21:31,880 creating build/lib.linux-armv7l-cpython-311/moleculekit/tools/obabel_tools 2024-03-20T11:21:31,881 copying moleculekit/tools/obabel_tools/__init__.py -> build/lib.linux-armv7l-cpython-311/moleculekit/tools/obabel_tools 2024-03-20T11:21:31,883 copying moleculekit/tools/obabel_tools/obabel_cli.py -> build/lib.linux-armv7l-cpython-311/moleculekit/tools/obabel_tools 2024-03-20T11:21:31,885 creating build/lib.linux-armv7l-cpython-311/moleculekit/smallmol/tools 2024-03-20T11:21:31,886 copying moleculekit/smallmol/tools/restrainedembed.py -> build/lib.linux-armv7l-cpython-311/moleculekit/smallmol/tools 2024-03-20T11:21:31,888 copying moleculekit/smallmol/tools/clustering.py -> build/lib.linux-armv7l-cpython-311/moleculekit/smallmol/tools 2024-03-20T11:21:31,890 copying moleculekit/smallmol/tools/__init__.py -> build/lib.linux-armv7l-cpython-311/moleculekit/smallmol/tools 2024-03-20T11:21:31,892 copying moleculekit/smallmol/tools/test_tools.py -> build/lib.linux-armv7l-cpython-311/moleculekit/smallmol/tools 2024-03-20T11:21:31,895 creating build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/reader 2024-03-20T11:21:31,896 copying moleculekit/pdbx/reader/PdbxReader.py -> build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/reader 2024-03-20T11:21:31,899 copying moleculekit/pdbx/reader/PdbxParser.py -> build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/reader 2024-03-20T11:21:31,902 copying moleculekit/pdbx/reader/__init__.py -> build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/reader 2024-03-20T11:21:31,904 copying moleculekit/pdbx/reader/PdbxContainers.py -> build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/reader 2024-03-20T11:21:31,907 creating build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/tests 2024-03-20T11:21:31,909 copying moleculekit/pdbx/tests/PdbxReaderTests.py -> build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/tests 2024-03-20T11:21:31,911 copying moleculekit/pdbx/tests/PdbxReadWriteTests.py -> build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/tests 2024-03-20T11:21:31,913 copying moleculekit/pdbx/tests/__init__.py -> build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/tests 2024-03-20T11:21:31,915 copying moleculekit/pdbx/tests/PdbxWriterTests.py -> build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/tests 2024-03-20T11:21:31,918 creating build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/writer 2024-03-20T11:21:31,919 copying moleculekit/pdbx/writer/__init__.py -> build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/writer 2024-03-20T11:21:31,920 copying moleculekit/pdbx/writer/PdbxWriter.py -> build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/writer 2024-03-20T11:21:31,922 running egg_info 2024-03-20T11:21:31,927 writing moleculekit.egg-info/PKG-INFO 2024-03-20T11:21:31,930 writing dependency_links to moleculekit.egg-info/dependency_links.txt 2024-03-20T11:21:31,932 writing requirements to moleculekit.egg-info/requires.txt 2024-03-20T11:21:31,933 writing top-level names to moleculekit.egg-info/top_level.txt 2024-03-20T11:21:31,949 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,950 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,950 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,951 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,951 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,952 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,952 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,953 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,953 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,954 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,955 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,955 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,956 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,956 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,957 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,958 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,959 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,959 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,960 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,960 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,961 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,961 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,962 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,962 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,963 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,963 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,964 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,965 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,966 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,966 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,967 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,968 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,968 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,969 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,969 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,970 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,971 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,971 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,972 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,972 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,973 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,973 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,974 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,974 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,975 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,975 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,976 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,977 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,977 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,978 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,978 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,979 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,980 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,981 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,981 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,982 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,982 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,983 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,983 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,984 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,984 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,985 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,985 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,986 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,986 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,987 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,987 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,988 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,988 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,989 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,990 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,990 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,991 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,992 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,992 dependency /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-03-20T11:21:31,993 reading manifest file 'moleculekit.egg-info/SOURCES.txt' 2024-03-20T11:21:31,993 reading manifest template 'MANIFEST.in' 2024-03-20T11:21:32,252 no previously-included directories found matching 'moleculekit/test-data' 2024-03-20T11:21:32,253 no previously-included directories found matching 'moleculekit/tests' 2024-03-20T11:21:32,254 no previously-included directories found matching 'package' 2024-03-20T11:21:32,254 adding license file 'LICENSE' 2024-03-20T11:21:32,269 writing manifest file 'moleculekit.egg-info/SOURCES.txt' 2024-03-20T11:21:32,279 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'moleculekit.atomselect_utils' is absent from the `packages` configuration. 2024-03-20T11:21:32,279 !! 2024-03-20T11:21:32,281 ******************************************************************************** 2024-03-20T11:21:32,281 ############################ 2024-03-20T11:21:32,282 # Package would be ignored # 2024-03-20T11:21:32,283 ############################ 2024-03-20T11:21:32,283 Python recognizes 'moleculekit.atomselect_utils' as an importable package[^1], 2024-03-20T11:21:32,284 but it is absent from setuptools' `packages` configuration. 2024-03-20T11:21:32,285 This leads to an ambiguous overall configuration. If you want to distribute this 2024-03-20T11:21:32,286 package, please make sure that 'moleculekit.atomselect_utils' is explicitly added 2024-03-20T11:21:32,286 to the `packages` configuration field. 2024-03-20T11:21:32,287 Alternatively, you can also rely on setuptools' discovery methods 2024-03-20T11:21:32,288 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-03-20T11:21:32,288 instead of `find_packages(...)`/`find:`). 2024-03-20T11:21:32,289 You can read more about "package discovery" on setuptools documentation page: 2024-03-20T11:21:32,290 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-03-20T11:21:32,291 If you don't want 'moleculekit.atomselect_utils' to be distributed and are 2024-03-20T11:21:32,292 already explicitly excluding 'moleculekit.atomselect_utils' via 2024-03-20T11:21:32,292 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-03-20T11:21:32,293 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-03-20T11:21:32,293 combination with a more fine grained `package-data` configuration. 2024-03-20T11:21:32,295 You can read more about "package data files" on setuptools documentation page: 2024-03-20T11:21:32,296 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-03-20T11:21:32,297 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-03-20T11:21:32,298 even if it does not contain any `.py` files. 2024-03-20T11:21:32,299 On the other hand, currently there is no concept of package data 2024-03-20T11:21:32,300 directory, all directories are treated like packages. 2024-03-20T11:21:32,300 ******************************************************************************** 2024-03-20T11:21:32,301 !! 2024-03-20T11:21:32,301 check.warn(importable) 2024-03-20T11:21:32,302 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'moleculekit.bondguesser_utils' is absent from the `packages` configuration. 2024-03-20T11:21:32,302 !! 2024-03-20T11:21:32,303 ******************************************************************************** 2024-03-20T11:21:32,303 ############################ 2024-03-20T11:21:32,304 # Package would be ignored # 2024-03-20T11:21:32,304 ############################ 2024-03-20T11:21:32,305 Python recognizes 'moleculekit.bondguesser_utils' as an importable package[^1], 2024-03-20T11:21:32,305 but it is absent from setuptools' `packages` configuration. 2024-03-20T11:21:32,306 This leads to an ambiguous overall configuration. If you want to distribute this 2024-03-20T11:21:32,307 package, please make sure that 'moleculekit.bondguesser_utils' is explicitly added 2024-03-20T11:21:32,307 to the `packages` configuration field. 2024-03-20T11:21:32,308 Alternatively, you can also rely on setuptools' discovery methods 2024-03-20T11:21:32,308 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-03-20T11:21:32,309 instead of `find_packages(...)`/`find:`). 2024-03-20T11:21:32,310 You can read more about "package discovery" on setuptools documentation page: 2024-03-20T11:21:32,312 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-03-20T11:21:32,313 If you don't want 'moleculekit.bondguesser_utils' to be distributed and are 2024-03-20T11:21:32,314 already explicitly excluding 'moleculekit.bondguesser_utils' via 2024-03-20T11:21:32,314 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-03-20T11:21:32,315 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-03-20T11:21:32,316 combination with a more fine grained `package-data` configuration. 2024-03-20T11:21:32,317 You can read more about "package data files" on setuptools documentation page: 2024-03-20T11:21:32,318 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-03-20T11:21:32,320 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-03-20T11:21:32,321 even if it does not contain any `.py` files. 2024-03-20T11:21:32,321 On the other hand, currently there is no concept of package data 2024-03-20T11:21:32,322 directory, all directories are treated like packages. 2024-03-20T11:21:32,322 ******************************************************************************** 2024-03-20T11:21:32,324 !! 2024-03-20T11:21:32,324 check.warn(importable) 2024-03-20T11:21:32,325 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'moleculekit.cython_utils' is absent from the `packages` configuration. 2024-03-20T11:21:32,325 !! 2024-03-20T11:21:32,327 ******************************************************************************** 2024-03-20T11:21:32,327 ############################ 2024-03-20T11:21:32,328 # Package would be ignored # 2024-03-20T11:21:32,329 ############################ 2024-03-20T11:21:32,330 Python recognizes 'moleculekit.cython_utils' as an importable package[^1], 2024-03-20T11:21:32,330 but it is absent from setuptools' `packages` configuration. 2024-03-20T11:21:32,332 This leads to an ambiguous overall configuration. If you want to distribute this 2024-03-20T11:21:32,332 package, please make sure that 'moleculekit.cython_utils' is explicitly added 2024-03-20T11:21:32,333 to the `packages` configuration field. 2024-03-20T11:21:32,334 Alternatively, you can also rely on setuptools' discovery methods 2024-03-20T11:21:32,334 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-03-20T11:21:32,335 instead of `find_packages(...)`/`find:`). 2024-03-20T11:21:32,336 You can read more about "package discovery" on setuptools documentation page: 2024-03-20T11:21:32,337 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-03-20T11:21:32,338 If you don't want 'moleculekit.cython_utils' to be distributed and are 2024-03-20T11:21:32,338 already explicitly excluding 'moleculekit.cython_utils' via 2024-03-20T11:21:32,339 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-03-20T11:21:32,339 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-03-20T11:21:32,340 combination with a more fine grained `package-data` configuration. 2024-03-20T11:21:32,341 You can read more about "package data files" on setuptools documentation page: 2024-03-20T11:21:32,342 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-03-20T11:21:32,343 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-03-20T11:21:32,344 even if it does not contain any `.py` files. 2024-03-20T11:21:32,344 On the other hand, currently there is no concept of package data 2024-03-20T11:21:32,345 directory, all directories are treated like packages. 2024-03-20T11:21:32,345 ******************************************************************************** 2024-03-20T11:21:32,346 !! 2024-03-20T11:21:32,347 check.warn(importable) 2024-03-20T11:21:32,347 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'moleculekit.distance_utils' is absent from the `packages` configuration. 2024-03-20T11:21:32,348 !! 2024-03-20T11:21:32,349 ******************************************************************************** 2024-03-20T11:21:32,350 ############################ 2024-03-20T11:21:32,351 # Package would be ignored # 2024-03-20T11:21:32,351 ############################ 2024-03-20T11:21:32,352 Python recognizes 'moleculekit.distance_utils' as an importable package[^1], 2024-03-20T11:21:32,353 but it is absent from setuptools' `packages` configuration. 2024-03-20T11:21:32,354 This leads to an ambiguous overall configuration. If you want to distribute this 2024-03-20T11:21:32,355 package, please make sure that 'moleculekit.distance_utils' is explicitly added 2024-03-20T11:21:32,355 to the `packages` configuration field. 2024-03-20T11:21:32,356 Alternatively, you can also rely on setuptools' discovery methods 2024-03-20T11:21:32,357 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-03-20T11:21:32,358 instead of `find_packages(...)`/`find:`). 2024-03-20T11:21:32,359 You can read more about "package discovery" on setuptools documentation page: 2024-03-20T11:21:32,360 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-03-20T11:21:32,361 If you don't want 'moleculekit.distance_utils' to be distributed and are 2024-03-20T11:21:32,362 already explicitly excluding 'moleculekit.distance_utils' via 2024-03-20T11:21:32,363 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-03-20T11:21:32,363 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-03-20T11:21:32,364 combination with a more fine grained `package-data` configuration. 2024-03-20T11:21:32,366 You can read more about "package data files" on setuptools documentation page: 2024-03-20T11:21:32,367 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-03-20T11:21:32,368 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-03-20T11:21:32,369 even if it does not contain any `.py` files. 2024-03-20T11:21:32,369 On the other hand, currently there is no concept of package data 2024-03-20T11:21:32,370 directory, all directories are treated like packages. 2024-03-20T11:21:32,370 ******************************************************************************** 2024-03-20T11:21:32,371 !! 2024-03-20T11:21:32,372 check.warn(importable) 2024-03-20T11:21:32,372 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'moleculekit.fileformats.binpos' is absent from the `packages` configuration. 2024-03-20T11:21:32,373 !! 2024-03-20T11:21:32,374 ******************************************************************************** 2024-03-20T11:21:32,374 ############################ 2024-03-20T11:21:32,375 # Package would be ignored # 2024-03-20T11:21:32,375 ############################ 2024-03-20T11:21:32,376 Python recognizes 'moleculekit.fileformats.binpos' as an importable package[^1], 2024-03-20T11:21:32,376 but it is absent from setuptools' `packages` configuration. 2024-03-20T11:21:32,377 This leads to an ambiguous overall configuration. If you want to distribute this 2024-03-20T11:21:32,378 package, please make sure that 'moleculekit.fileformats.binpos' is explicitly added 2024-03-20T11:21:32,379 to the `packages` configuration field. 2024-03-20T11:21:32,380 Alternatively, you can also rely on setuptools' discovery methods 2024-03-20T11:21:32,380 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-03-20T11:21:32,381 instead of `find_packages(...)`/`find:`). 2024-03-20T11:21:32,382 You can read more about "package discovery" on setuptools documentation page: 2024-03-20T11:21:32,384 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-03-20T11:21:32,385 If you don't want 'moleculekit.fileformats.binpos' to be distributed and are 2024-03-20T11:21:32,385 already explicitly excluding 'moleculekit.fileformats.binpos' via 2024-03-20T11:21:32,386 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-03-20T11:21:32,386 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-03-20T11:21:32,387 combination with a more fine grained `package-data` configuration. 2024-03-20T11:21:32,388 You can read more about "package data files" on setuptools documentation page: 2024-03-20T11:21:32,389 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-03-20T11:21:32,391 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-03-20T11:21:32,392 even if it does not contain any `.py` files. 2024-03-20T11:21:32,392 On the other hand, currently there is no concept of package data 2024-03-20T11:21:32,393 directory, all directories are treated like packages. 2024-03-20T11:21:32,394 ******************************************************************************** 2024-03-20T11:21:32,395 !! 2024-03-20T11:21:32,396 check.warn(importable) 2024-03-20T11:21:32,396 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'moleculekit.fileformats.binpos.include' is absent from the `packages` configuration. 2024-03-20T11:21:32,397 !! 2024-03-20T11:21:32,399 ******************************************************************************** 2024-03-20T11:21:32,399 ############################ 2024-03-20T11:21:32,400 # Package would be ignored # 2024-03-20T11:21:32,400 ############################ 2024-03-20T11:21:32,401 Python recognizes 'moleculekit.fileformats.binpos.include' as an importable package[^1], 2024-03-20T11:21:32,401 but it is absent from setuptools' `packages` configuration. 2024-03-20T11:21:32,403 This leads to an ambiguous overall configuration. If you want to distribute this 2024-03-20T11:21:32,403 package, please make sure that 'moleculekit.fileformats.binpos.include' is explicitly added 2024-03-20T11:21:32,404 to the `packages` configuration field. 2024-03-20T11:21:32,405 Alternatively, you can also rely on setuptools' discovery methods 2024-03-20T11:21:32,405 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-03-20T11:21:32,406 instead of `find_packages(...)`/`find:`). 2024-03-20T11:21:32,407 You can read more about "package discovery" on setuptools documentation page: 2024-03-20T11:21:32,408 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-03-20T11:21:32,409 If you don't want 'moleculekit.fileformats.binpos.include' to be distributed and are 2024-03-20T11:21:32,409 already explicitly excluding 'moleculekit.fileformats.binpos.include' via 2024-03-20T11:21:32,410 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-03-20T11:21:32,410 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-03-20T11:21:32,411 combination with a more fine grained `package-data` configuration. 2024-03-20T11:21:32,412 You can read more about "package data files" on setuptools documentation page: 2024-03-20T11:21:32,413 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-03-20T11:21:32,415 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-03-20T11:21:32,416 even if it does not contain any `.py` files. 2024-03-20T11:21:32,416 On the other hand, currently there is no concept of package data 2024-03-20T11:21:32,417 directory, all directories are treated like packages. 2024-03-20T11:21:32,417 ******************************************************************************** 2024-03-20T11:21:32,419 !! 2024-03-20T11:21:32,419 check.warn(importable) 2024-03-20T11:21:32,420 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'moleculekit.fileformats.binpos.src' is absent from the `packages` configuration. 2024-03-20T11:21:32,420 !! 2024-03-20T11:21:32,421 ******************************************************************************** 2024-03-20T11:21:32,422 ############################ 2024-03-20T11:21:32,422 # Package would be ignored # 2024-03-20T11:21:32,423 ############################ 2024-03-20T11:21:32,424 Python recognizes 'moleculekit.fileformats.binpos.src' as an importable package[^1], 2024-03-20T11:21:32,424 but it is absent from setuptools' `packages` configuration. 2024-03-20T11:21:32,425 This leads to an ambiguous overall configuration. If you want to distribute this 2024-03-20T11:21:32,426 package, please make sure that 'moleculekit.fileformats.binpos.src' is explicitly added 2024-03-20T11:21:32,426 to the `packages` configuration field. 2024-03-20T11:21:32,427 Alternatively, you can also rely on setuptools' discovery methods 2024-03-20T11:21:32,428 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-03-20T11:21:32,429 instead of `find_packages(...)`/`find:`). 2024-03-20T11:21:32,430 You can read more about "package discovery" on setuptools documentation page: 2024-03-20T11:21:32,431 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-03-20T11:21:32,432 If you don't want 'moleculekit.fileformats.binpos.src' to be distributed and are 2024-03-20T11:21:32,432 already explicitly excluding 'moleculekit.fileformats.binpos.src' via 2024-03-20T11:21:32,432 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-03-20T11:21:32,433 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-03-20T11:21:32,433 combination with a more fine grained `package-data` configuration. 2024-03-20T11:21:32,434 You can read more about "package data files" on setuptools documentation page: 2024-03-20T11:21:32,435 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-03-20T11:21:32,436 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-03-20T11:21:32,436 even if it does not contain any `.py` files. 2024-03-20T11:21:32,436 On the other hand, currently there is no concept of package data 2024-03-20T11:21:32,437 directory, all directories are treated like packages. 2024-03-20T11:21:32,437 ******************************************************************************** 2024-03-20T11:21:32,438 !! 2024-03-20T11:21:32,438 check.warn(importable) 2024-03-20T11:21:32,439 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'moleculekit.fileformats.dcd' is absent from the `packages` configuration. 2024-03-20T11:21:32,439 !! 2024-03-20T11:21:32,440 ******************************************************************************** 2024-03-20T11:21:32,441 ############################ 2024-03-20T11:21:32,441 # Package would be ignored # 2024-03-20T11:21:32,442 ############################ 2024-03-20T11:21:32,443 Python recognizes 'moleculekit.fileformats.dcd' as an importable package[^1], 2024-03-20T11:21:32,443 but it is absent from setuptools' `packages` configuration. 2024-03-20T11:21:32,444 This leads to an ambiguous overall configuration. If you want to distribute this 2024-03-20T11:21:32,445 package, please make sure that 'moleculekit.fileformats.dcd' is explicitly added 2024-03-20T11:21:32,446 to the `packages` configuration field. 2024-03-20T11:21:32,447 Alternatively, you can also rely on setuptools' discovery methods 2024-03-20T11:21:32,447 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-03-20T11:21:32,448 instead of `find_packages(...)`/`find:`). 2024-03-20T11:21:32,449 You can read more about "package discovery" on setuptools documentation page: 2024-03-20T11:21:32,450 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-03-20T11:21:32,451 If you don't want 'moleculekit.fileformats.dcd' to be distributed and are 2024-03-20T11:21:32,451 already explicitly excluding 'moleculekit.fileformats.dcd' via 2024-03-20T11:21:32,452 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-03-20T11:21:32,452 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-03-20T11:21:32,453 combination with a more fine grained `package-data` configuration. 2024-03-20T11:21:32,454 You can read more about "package data files" on setuptools documentation page: 2024-03-20T11:21:32,455 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-03-20T11:21:32,457 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-03-20T11:21:32,457 even if it does not contain any `.py` files. 2024-03-20T11:21:32,458 On the other hand, currently there is no concept of package data 2024-03-20T11:21:32,458 directory, all directories are treated like packages. 2024-03-20T11:21:32,459 ******************************************************************************** 2024-03-20T11:21:32,460 !! 2024-03-20T11:21:32,460 check.warn(importable) 2024-03-20T11:21:32,460 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'moleculekit.fileformats.dcd.include' is absent from the `packages` configuration. 2024-03-20T11:21:32,461 !! 2024-03-20T11:21:32,462 ******************************************************************************** 2024-03-20T11:21:32,462 ############################ 2024-03-20T11:21:32,463 # Package would be ignored # 2024-03-20T11:21:32,463 ############################ 2024-03-20T11:21:32,464 Python recognizes 'moleculekit.fileformats.dcd.include' as an importable package[^1], 2024-03-20T11:21:32,464 but it is absent from setuptools' `packages` configuration. 2024-03-20T11:21:32,465 This leads to an ambiguous overall configuration. If you want to distribute this 2024-03-20T11:21:32,465 package, please make sure that 'moleculekit.fileformats.dcd.include' is explicitly added 2024-03-20T11:21:32,466 to the `packages` configuration field. 2024-03-20T11:21:32,466 Alternatively, you can also rely on setuptools' discovery methods 2024-03-20T11:21:32,467 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-03-20T11:21:32,467 instead of `find_packages(...)`/`find:`). 2024-03-20T11:21:32,468 You can read more about "package discovery" on setuptools documentation page: 2024-03-20T11:21:32,469 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-03-20T11:21:32,470 If you don't want 'moleculekit.fileformats.dcd.include' to be distributed and are 2024-03-20T11:21:32,471 already explicitly excluding 'moleculekit.fileformats.dcd.include' via 2024-03-20T11:21:32,471 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-03-20T11:21:32,472 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-03-20T11:21:32,473 combination with a more fine grained `package-data` configuration. 2024-03-20T11:21:32,474 You can read more about "package data files" on setuptools documentation page: 2024-03-20T11:21:32,475 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-03-20T11:21:32,477 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-03-20T11:21:32,477 even if it does not contain any `.py` files. 2024-03-20T11:21:32,478 On the other hand, currently there is no concept of package data 2024-03-20T11:21:32,478 directory, all directories are treated like packages. 2024-03-20T11:21:32,479 ******************************************************************************** 2024-03-20T11:21:32,480 !! 2024-03-20T11:21:32,481 check.warn(importable) 2024-03-20T11:21:32,481 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'moleculekit.fileformats.dcd.src' is absent from the `packages` configuration. 2024-03-20T11:21:32,482 !! 2024-03-20T11:21:32,483 ******************************************************************************** 2024-03-20T11:21:32,484 ############################ 2024-03-20T11:21:32,484 # Package would be ignored # 2024-03-20T11:21:32,485 ############################ 2024-03-20T11:21:32,485 Python recognizes 'moleculekit.fileformats.dcd.src' as an importable package[^1], 2024-03-20T11:21:32,486 but it is absent from setuptools' `packages` configuration. 2024-03-20T11:21:32,487 This leads to an ambiguous overall configuration. If you want to distribute this 2024-03-20T11:21:32,488 package, please make sure that 'moleculekit.fileformats.dcd.src' is explicitly added 2024-03-20T11:21:32,488 to the `packages` configuration field. 2024-03-20T11:21:32,489 Alternatively, you can also rely on setuptools' discovery methods 2024-03-20T11:21:32,490 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-03-20T11:21:32,490 instead of `find_packages(...)`/`find:`). 2024-03-20T11:21:32,491 You can read more about "package discovery" on setuptools documentation page: 2024-03-20T11:21:32,492 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-03-20T11:21:32,493 If you don't want 'moleculekit.fileformats.dcd.src' to be distributed and are 2024-03-20T11:21:32,494 already explicitly excluding 'moleculekit.fileformats.dcd.src' via 2024-03-20T11:21:32,494 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-03-20T11:21:32,495 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-03-20T11:21:32,495 combination with a more fine grained `package-data` configuration. 2024-03-20T11:21:32,496 You can read more about "package data files" on setuptools documentation page: 2024-03-20T11:21:32,497 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-03-20T11:21:32,499 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-03-20T11:21:32,499 even if it does not contain any `.py` files. 2024-03-20T11:21:32,500 On the other hand, currently there is no concept of package data 2024-03-20T11:21:32,501 directory, all directories are treated like packages. 2024-03-20T11:21:32,501 ******************************************************************************** 2024-03-20T11:21:32,503 !! 2024-03-20T11:21:32,503 check.warn(importable) 2024-03-20T11:21:32,504 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'moleculekit.fileformats.xtc' is absent from the `packages` configuration. 2024-03-20T11:21:32,505 !! 2024-03-20T11:21:32,510 ******************************************************************************** 2024-03-20T11:21:32,515 ############################ 2024-03-20T11:21:32,528 # Package would be ignored # 2024-03-20T11:21:32,528 ############################ 2024-03-20T11:21:32,529 Python recognizes 'moleculekit.fileformats.xtc' as an importable package[^1], 2024-03-20T11:21:32,530 but it is absent from setuptools' `packages` configuration. 2024-03-20T11:21:32,531 This leads to an ambiguous overall configuration. If you want to distribute this 2024-03-20T11:21:32,531 package, please make sure that 'moleculekit.fileformats.xtc' is explicitly added 2024-03-20T11:21:32,532 to the `packages` configuration field. 2024-03-20T11:21:32,533 Alternatively, you can also rely on setuptools' discovery methods 2024-03-20T11:21:32,534 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-03-20T11:21:32,534 instead of `find_packages(...)`/`find:`). 2024-03-20T11:21:32,535 You can read more about "package discovery" on setuptools documentation page: 2024-03-20T11:21:32,537 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-03-20T11:21:32,538 If you don't want 'moleculekit.fileformats.xtc' to be distributed and are 2024-03-20T11:21:32,539 already explicitly excluding 'moleculekit.fileformats.xtc' via 2024-03-20T11:21:32,539 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-03-20T11:21:32,540 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-03-20T11:21:32,543 combination with a more fine grained `package-data` configuration. 2024-03-20T11:21:32,563 You can read more about "package data files" on setuptools documentation page: 2024-03-20T11:21:32,563 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-03-20T11:21:32,565 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-03-20T11:21:32,565 even if it does not contain any `.py` files. 2024-03-20T11:21:32,565 On the other hand, currently there is no concept of package data 2024-03-20T11:21:32,566 directory, all directories are treated like packages. 2024-03-20T11:21:32,566 ******************************************************************************** 2024-03-20T11:21:32,567 !! 2024-03-20T11:21:32,568 check.warn(importable) 2024-03-20T11:21:32,568 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'moleculekit.fileformats.xtc.include' is absent from the `packages` configuration. 2024-03-20T11:21:32,568 !! 2024-03-20T11:21:32,569 ******************************************************************************** 2024-03-20T11:21:32,570 ############################ 2024-03-20T11:21:32,570 # Package would be ignored # 2024-03-20T11:21:32,571 ############################ 2024-03-20T11:21:32,571 Python recognizes 'moleculekit.fileformats.xtc.include' as an importable package[^1], 2024-03-20T11:21:32,572 but it is absent from setuptools' `packages` configuration. 2024-03-20T11:21:32,573 This leads to an ambiguous overall configuration. If you want to distribute this 2024-03-20T11:21:32,573 package, please make sure that 'moleculekit.fileformats.xtc.include' is explicitly added 2024-03-20T11:21:32,577 to the `packages` configuration field. 2024-03-20T11:21:32,591 Alternatively, you can also rely on setuptools' discovery methods 2024-03-20T11:21:32,591 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-03-20T11:21:32,592 instead of `find_packages(...)`/`find:`). 2024-03-20T11:21:32,593 You can read more about "package discovery" on setuptools documentation page: 2024-03-20T11:21:32,594 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-03-20T11:21:32,595 If you don't want 'moleculekit.fileformats.xtc.include' to be distributed and are 2024-03-20T11:21:32,595 already explicitly excluding 'moleculekit.fileformats.xtc.include' via 2024-03-20T11:21:32,596 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-03-20T11:21:32,596 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-03-20T11:21:32,597 combination with a more fine grained `package-data` configuration. 2024-03-20T11:21:32,598 You can read more about "package data files" on setuptools documentation page: 2024-03-20T11:21:32,599 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-03-20T11:21:32,601 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-03-20T11:21:32,601 even if it does not contain any `.py` files. 2024-03-20T11:21:32,602 On the other hand, currently there is no concept of package data 2024-03-20T11:21:32,603 directory, all directories are treated like packages. 2024-03-20T11:21:32,603 ******************************************************************************** 2024-03-20T11:21:32,605 !! 2024-03-20T11:21:32,608 check.warn(importable) 2024-03-20T11:21:32,611 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'moleculekit.fileformats.xtc.src' is absent from the `packages` configuration. 2024-03-20T11:21:32,616 !! 2024-03-20T11:21:32,625 ******************************************************************************** 2024-03-20T11:21:32,625 ############################ 2024-03-20T11:21:32,626 # Package would be ignored # 2024-03-20T11:21:32,626 ############################ 2024-03-20T11:21:32,627 Python recognizes 'moleculekit.fileformats.xtc.src' as an importable package[^1], 2024-03-20T11:21:32,627 but it is absent from setuptools' `packages` configuration. 2024-03-20T11:21:32,628 This leads to an ambiguous overall configuration. If you want to distribute this 2024-03-20T11:21:32,628 package, please make sure that 'moleculekit.fileformats.xtc.src' is explicitly added 2024-03-20T11:21:32,629 to the `packages` configuration field. 2024-03-20T11:21:32,630 Alternatively, you can also rely on setuptools' discovery methods 2024-03-20T11:21:32,630 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-03-20T11:21:32,631 instead of `find_packages(...)`/`find:`). 2024-03-20T11:21:32,632 You can read more about "package discovery" on setuptools documentation page: 2024-03-20T11:21:32,633 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-03-20T11:21:32,634 If you don't want 'moleculekit.fileformats.xtc.src' to be distributed and are 2024-03-20T11:21:32,634 already explicitly excluding 'moleculekit.fileformats.xtc.src' via 2024-03-20T11:21:32,634 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-03-20T11:21:32,635 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-03-20T11:21:32,639 combination with a more fine grained `package-data` configuration. 2024-03-20T11:21:32,648 You can read more about "package data files" on setuptools documentation page: 2024-03-20T11:21:32,655 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-03-20T11:21:32,658 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-03-20T11:21:32,658 even if it does not contain any `.py` files. 2024-03-20T11:21:32,659 On the other hand, currently there is no concept of package data 2024-03-20T11:21:32,659 directory, all directories are treated like packages. 2024-03-20T11:21:32,660 ******************************************************************************** 2024-03-20T11:21:32,661 !! 2024-03-20T11:21:32,662 check.warn(importable) 2024-03-20T11:21:32,663 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'moleculekit.interactions.cationpi' is absent from the `packages` configuration. 2024-03-20T11:21:32,664 !! 2024-03-20T11:21:32,665 ******************************************************************************** 2024-03-20T11:21:32,665 ############################ 2024-03-20T11:21:32,666 # Package would be ignored # 2024-03-20T11:21:32,666 ############################ 2024-03-20T11:21:32,667 Python recognizes 'moleculekit.interactions.cationpi' as an importable package[^1], 2024-03-20T11:21:32,668 but it is absent from setuptools' `packages` configuration. 2024-03-20T11:21:32,669 This leads to an ambiguous overall configuration. If you want to distribute this 2024-03-20T11:21:32,670 package, please make sure that 'moleculekit.interactions.cationpi' is explicitly added 2024-03-20T11:21:32,670 to the `packages` configuration field. 2024-03-20T11:21:32,672 Alternatively, you can also rely on setuptools' discovery methods 2024-03-20T11:21:32,672 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-03-20T11:21:32,673 instead of `find_packages(...)`/`find:`). 2024-03-20T11:21:32,674 You can read more about "package discovery" on setuptools documentation page: 2024-03-20T11:21:32,675 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-03-20T11:21:32,676 If you don't want 'moleculekit.interactions.cationpi' to be distributed and are 2024-03-20T11:21:32,677 already explicitly excluding 'moleculekit.interactions.cationpi' via 2024-03-20T11:21:32,677 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-03-20T11:21:32,678 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-03-20T11:21:32,678 combination with a more fine grained `package-data` configuration. 2024-03-20T11:21:32,679 You can read more about "package data files" on setuptools documentation page: 2024-03-20T11:21:32,680 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-03-20T11:21:32,681 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-03-20T11:21:32,682 even if it does not contain any `.py` files. 2024-03-20T11:21:32,682 On the other hand, currently there is no concept of package data 2024-03-20T11:21:32,683 directory, all directories are treated like packages. 2024-03-20T11:21:32,684 ******************************************************************************** 2024-03-20T11:21:32,685 !! 2024-03-20T11:21:32,685 check.warn(importable) 2024-03-20T11:21:32,686 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'moleculekit.interactions.hbonds' is absent from the `packages` configuration. 2024-03-20T11:21:32,686 !! 2024-03-20T11:21:32,687 ******************************************************************************** 2024-03-20T11:21:32,688 ############################ 2024-03-20T11:21:32,689 # Package would be ignored # 2024-03-20T11:21:32,689 ############################ 2024-03-20T11:21:32,690 Python recognizes 'moleculekit.interactions.hbonds' as an importable package[^1], 2024-03-20T11:21:32,690 but it is absent from setuptools' `packages` configuration. 2024-03-20T11:21:32,692 This leads to an ambiguous overall configuration. If you want to distribute this 2024-03-20T11:21:32,692 package, please make sure that 'moleculekit.interactions.hbonds' is explicitly added 2024-03-20T11:21:32,693 to the `packages` configuration field. 2024-03-20T11:21:32,694 Alternatively, you can also rely on setuptools' discovery methods 2024-03-20T11:21:32,695 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-03-20T11:21:32,695 instead of `find_packages(...)`/`find:`). 2024-03-20T11:21:32,697 You can read more about "package discovery" on setuptools documentation page: 2024-03-20T11:21:32,698 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-03-20T11:21:32,699 If you don't want 'moleculekit.interactions.hbonds' to be distributed and are 2024-03-20T11:21:32,700 already explicitly excluding 'moleculekit.interactions.hbonds' via 2024-03-20T11:21:32,700 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-03-20T11:21:32,701 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-03-20T11:21:32,701 combination with a more fine grained `package-data` configuration. 2024-03-20T11:21:32,703 You can read more about "package data files" on setuptools documentation page: 2024-03-20T11:21:32,704 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-03-20T11:21:32,707 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-03-20T11:21:32,707 even if it does not contain any `.py` files. 2024-03-20T11:21:32,708 On the other hand, currently there is no concept of package data 2024-03-20T11:21:32,709 directory, all directories are treated like packages. 2024-03-20T11:21:32,709 ******************************************************************************** 2024-03-20T11:21:32,710 !! 2024-03-20T11:21:32,711 check.warn(importable) 2024-03-20T11:21:32,711 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'moleculekit.interactions.pipi' is absent from the `packages` configuration. 2024-03-20T11:21:32,712 !! 2024-03-20T11:21:32,713 ******************************************************************************** 2024-03-20T11:21:32,713 ############################ 2024-03-20T11:21:32,714 # Package would be ignored # 2024-03-20T11:21:32,714 ############################ 2024-03-20T11:21:32,715 Python recognizes 'moleculekit.interactions.pipi' as an importable package[^1], 2024-03-20T11:21:32,715 but it is absent from setuptools' `packages` configuration. 2024-03-20T11:21:32,716 This leads to an ambiguous overall configuration. If you want to distribute this 2024-03-20T11:21:32,717 package, please make sure that 'moleculekit.interactions.pipi' is explicitly added 2024-03-20T11:21:32,717 to the `packages` configuration field. 2024-03-20T11:21:32,718 Alternatively, you can also rely on setuptools' discovery methods 2024-03-20T11:21:32,719 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-03-20T11:21:32,719 instead of `find_packages(...)`/`find:`). 2024-03-20T11:21:32,720 You can read more about "package discovery" on setuptools documentation page: 2024-03-20T11:21:32,722 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-03-20T11:21:32,723 If you don't want 'moleculekit.interactions.pipi' to be distributed and are 2024-03-20T11:21:32,724 already explicitly excluding 'moleculekit.interactions.pipi' via 2024-03-20T11:21:32,724 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-03-20T11:21:32,725 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-03-20T11:21:32,725 combination with a more fine grained `package-data` configuration. 2024-03-20T11:21:32,727 You can read more about "package data files" on setuptools documentation page: 2024-03-20T11:21:32,728 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-03-20T11:21:32,730 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-03-20T11:21:32,731 even if it does not contain any `.py` files. 2024-03-20T11:21:32,731 On the other hand, currently there is no concept of package data 2024-03-20T11:21:32,732 directory, all directories are treated like packages. 2024-03-20T11:21:32,732 ******************************************************************************** 2024-03-20T11:21:32,734 !! 2024-03-20T11:21:32,734 check.warn(importable) 2024-03-20T11:21:32,735 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'moleculekit.interactions.sigmahole' is absent from the `packages` configuration. 2024-03-20T11:21:32,735 !! 2024-03-20T11:21:32,736 ******************************************************************************** 2024-03-20T11:21:32,737 ############################ 2024-03-20T11:21:32,738 # Package would be ignored # 2024-03-20T11:21:32,738 ############################ 2024-03-20T11:21:32,739 Python recognizes 'moleculekit.interactions.sigmahole' as an importable package[^1], 2024-03-20T11:21:32,740 but it is absent from setuptools' `packages` configuration. 2024-03-20T11:21:32,741 This leads to an ambiguous overall configuration. If you want to distribute this 2024-03-20T11:21:32,742 package, please make sure that 'moleculekit.interactions.sigmahole' is explicitly added 2024-03-20T11:21:32,742 to the `packages` configuration field. 2024-03-20T11:21:32,744 Alternatively, you can also rely on setuptools' discovery methods 2024-03-20T11:21:32,767 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-03-20T11:21:32,790 instead of `find_packages(...)`/`find:`). 2024-03-20T11:21:32,850 You can read more about "package discovery" on setuptools documentation page: 2024-03-20T11:21:32,906 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-03-20T11:21:32,963 If you don't want 'moleculekit.interactions.sigmahole' to be distributed and are 2024-03-20T11:21:32,965 already explicitly excluding 'moleculekit.interactions.sigmahole' via 2024-03-20T11:21:32,965 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-03-20T11:21:32,965 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-03-20T11:21:32,966 combination with a more fine grained `package-data` configuration. 2024-03-20T11:21:32,967 You can read more about "package data files" on setuptools documentation page: 2024-03-20T11:21:32,967 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-03-20T11:21:32,969 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-03-20T11:21:32,969 even if it does not contain any `.py` files. 2024-03-20T11:21:32,970 On the other hand, currently there is no concept of package data 2024-03-20T11:21:32,971 directory, all directories are treated like packages. 2024-03-20T11:21:32,972 ******************************************************************************** 2024-03-20T11:21:32,974 !! 2024-03-20T11:21:32,975 check.warn(importable) 2024-03-20T11:21:32,975 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'moleculekit.occupancy_utils' is absent from the `packages` configuration. 2024-03-20T11:21:32,976 !! 2024-03-20T11:21:32,978 ******************************************************************************** 2024-03-20T11:21:32,979 ############################ 2024-03-20T11:21:32,979 # Package would be ignored # 2024-03-20T11:21:32,980 ############################ 2024-03-20T11:21:32,981 Python recognizes 'moleculekit.occupancy_utils' as an importable package[^1], 2024-03-20T11:21:32,981 but it is absent from setuptools' `packages` configuration. 2024-03-20T11:21:32,983 This leads to an ambiguous overall configuration. If you want to distribute this 2024-03-20T11:21:32,983 package, please make sure that 'moleculekit.occupancy_utils' is explicitly added 2024-03-20T11:21:32,984 to the `packages` configuration field. 2024-03-20T11:21:32,985 Alternatively, you can also rely on setuptools' discovery methods 2024-03-20T11:21:32,986 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-03-20T11:21:32,987 instead of `find_packages(...)`/`find:`). 2024-03-20T11:21:32,988 You can read more about "package discovery" on setuptools documentation page: 2024-03-20T11:21:32,989 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-03-20T11:21:32,991 If you don't want 'moleculekit.occupancy_utils' to be distributed and are 2024-03-20T11:21:32,991 already explicitly excluding 'moleculekit.occupancy_utils' via 2024-03-20T11:21:32,992 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-03-20T11:21:32,993 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-03-20T11:21:32,994 combination with a more fine grained `package-data` configuration. 2024-03-20T11:21:32,995 You can read more about "package data files" on setuptools documentation page: 2024-03-20T11:21:32,996 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-03-20T11:21:32,998 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-03-20T11:21:32,998 even if it does not contain any `.py` files. 2024-03-20T11:21:32,999 On the other hand, currently there is no concept of package data 2024-03-20T11:21:33,000 directory, all directories are treated like packages. 2024-03-20T11:21:33,000 ******************************************************************************** 2024-03-20T11:21:33,002 !! 2024-03-20T11:21:33,002 check.warn(importable) 2024-03-20T11:21:33,003 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'moleculekit.share' is absent from the `packages` configuration. 2024-03-20T11:21:33,003 !! 2024-03-20T11:21:33,005 ******************************************************************************** 2024-03-20T11:21:33,005 ############################ 2024-03-20T11:21:33,006 # Package would be ignored # 2024-03-20T11:21:33,006 ############################ 2024-03-20T11:21:33,007 Python recognizes 'moleculekit.share' as an importable package[^1], 2024-03-20T11:21:33,008 but it is absent from setuptools' `packages` configuration. 2024-03-20T11:21:33,009 This leads to an ambiguous overall configuration. If you want to distribute this 2024-03-20T11:21:33,010 package, please make sure that 'moleculekit.share' is explicitly added 2024-03-20T11:21:33,010 to the `packages` configuration field. 2024-03-20T11:21:33,011 Alternatively, you can also rely on setuptools' discovery methods 2024-03-20T11:21:33,012 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-03-20T11:21:33,012 instead of `find_packages(...)`/`find:`). 2024-03-20T11:21:33,014 You can read more about "package discovery" on setuptools documentation page: 2024-03-20T11:21:33,015 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-03-20T11:21:33,016 If you don't want 'moleculekit.share' to be distributed and are 2024-03-20T11:21:33,017 already explicitly excluding 'moleculekit.share' via 2024-03-20T11:21:33,018 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-03-20T11:21:33,019 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-03-20T11:21:33,019 combination with a more fine grained `package-data` configuration. 2024-03-20T11:21:33,021 You can read more about "package data files" on setuptools documentation page: 2024-03-20T11:21:33,022 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-03-20T11:21:33,025 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-03-20T11:21:33,025 even if it does not contain any `.py` files. 2024-03-20T11:21:33,027 On the other hand, currently there is no concept of package data 2024-03-20T11:21:33,027 directory, all directories are treated like packages. 2024-03-20T11:21:33,028 ******************************************************************************** 2024-03-20T11:21:33,030 !! 2024-03-20T11:21:33,031 check.warn(importable) 2024-03-20T11:21:33,032 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'moleculekit.share.atomselect' is absent from the `packages` configuration. 2024-03-20T11:21:33,033 !! 2024-03-20T11:21:33,034 ******************************************************************************** 2024-03-20T11:21:33,035 ############################ 2024-03-20T11:21:33,036 # Package would be ignored # 2024-03-20T11:21:33,036 ############################ 2024-03-20T11:21:33,036 Python recognizes 'moleculekit.share.atomselect' as an importable package[^1], 2024-03-20T11:21:33,037 but it is absent from setuptools' `packages` configuration. 2024-03-20T11:21:33,038 This leads to an ambiguous overall configuration. If you want to distribute this 2024-03-20T11:21:33,038 package, please make sure that 'moleculekit.share.atomselect' is explicitly added 2024-03-20T11:21:33,039 to the `packages` configuration field. 2024-03-20T11:21:33,040 Alternatively, you can also rely on setuptools' discovery methods 2024-03-20T11:21:33,040 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-03-20T11:21:33,041 instead of `find_packages(...)`/`find:`). 2024-03-20T11:21:33,042 You can read more about "package discovery" on setuptools documentation page: 2024-03-20T11:21:33,043 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-03-20T11:21:33,044 If you don't want 'moleculekit.share.atomselect' to be distributed and are 2024-03-20T11:21:33,045 already explicitly excluding 'moleculekit.share.atomselect' via 2024-03-20T11:21:33,046 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-03-20T11:21:33,046 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-03-20T11:21:33,047 combination with a more fine grained `package-data` configuration. 2024-03-20T11:21:33,048 You can read more about "package data files" on setuptools documentation page: 2024-03-20T11:21:33,050 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-03-20T11:21:33,051 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-03-20T11:21:33,052 even if it does not contain any `.py` files. 2024-03-20T11:21:33,053 On the other hand, currently there is no concept of package data 2024-03-20T11:21:33,054 directory, all directories are treated like packages. 2024-03-20T11:21:33,054 ******************************************************************************** 2024-03-20T11:21:33,055 !! 2024-03-20T11:21:33,056 check.warn(importable) 2024-03-20T11:21:33,057 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'moleculekit.share.pdb2pqr.residues' is absent from the `packages` configuration. 2024-03-20T11:21:33,057 !! 2024-03-20T11:21:33,059 ******************************************************************************** 2024-03-20T11:21:33,059 ############################ 2024-03-20T11:21:33,060 # Package would be ignored # 2024-03-20T11:21:33,061 ############################ 2024-03-20T11:21:33,062 Python recognizes 'moleculekit.share.pdb2pqr.residues' as an importable package[^1], 2024-03-20T11:21:33,062 but it is absent from setuptools' `packages` configuration. 2024-03-20T11:21:33,064 This leads to an ambiguous overall configuration. If you want to distribute this 2024-03-20T11:21:33,064 package, please make sure that 'moleculekit.share.pdb2pqr.residues' is explicitly added 2024-03-20T11:21:33,065 to the `packages` configuration field. 2024-03-20T11:21:33,066 Alternatively, you can also rely on setuptools' discovery methods 2024-03-20T11:21:33,067 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-03-20T11:21:33,068 instead of `find_packages(...)`/`find:`). 2024-03-20T11:21:33,069 You can read more about "package discovery" on setuptools documentation page: 2024-03-20T11:21:33,071 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-03-20T11:21:33,072 If you don't want 'moleculekit.share.pdb2pqr.residues' to be distributed and are 2024-03-20T11:21:33,072 already explicitly excluding 'moleculekit.share.pdb2pqr.residues' via 2024-03-20T11:21:33,073 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-03-20T11:21:33,074 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-03-20T11:21:33,074 combination with a more fine grained `package-data` configuration. 2024-03-20T11:21:33,076 You can read more about "package data files" on setuptools documentation page: 2024-03-20T11:21:33,076 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-03-20T11:21:33,078 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-03-20T11:21:33,079 even if it does not contain any `.py` files. 2024-03-20T11:21:33,079 On the other hand, currently there is no concept of package data 2024-03-20T11:21:33,080 directory, all directories are treated like packages. 2024-03-20T11:21:33,081 ******************************************************************************** 2024-03-20T11:21:33,082 !! 2024-03-20T11:21:33,083 check.warn(importable) 2024-03-20T11:21:33,084 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'moleculekit.tmalign' is absent from the `packages` configuration. 2024-03-20T11:21:33,084 !! 2024-03-20T11:21:33,085 ******************************************************************************** 2024-03-20T11:21:33,087 ############################ 2024-03-20T11:21:33,087 # Package would be ignored # 2024-03-20T11:21:33,088 ############################ 2024-03-20T11:21:33,088 Python recognizes 'moleculekit.tmalign' as an importable package[^1], 2024-03-20T11:21:33,089 but it is absent from setuptools' `packages` configuration. 2024-03-20T11:21:33,090 This leads to an ambiguous overall configuration. If you want to distribute this 2024-03-20T11:21:33,091 package, please make sure that 'moleculekit.tmalign' is explicitly added 2024-03-20T11:21:33,092 to the `packages` configuration field. 2024-03-20T11:21:33,093 Alternatively, you can also rely on setuptools' discovery methods 2024-03-20T11:21:33,094 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-03-20T11:21:33,095 instead of `find_packages(...)`/`find:`). 2024-03-20T11:21:33,096 You can read more about "package discovery" on setuptools documentation page: 2024-03-20T11:21:33,097 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-03-20T11:21:33,099 If you don't want 'moleculekit.tmalign' to be distributed and are 2024-03-20T11:21:33,099 already explicitly excluding 'moleculekit.tmalign' via 2024-03-20T11:21:33,100 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-03-20T11:21:33,101 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-03-20T11:21:33,102 combination with a more fine grained `package-data` configuration. 2024-03-20T11:21:33,103 You can read more about "package data files" on setuptools documentation page: 2024-03-20T11:21:33,104 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-03-20T11:21:33,105 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-03-20T11:21:33,106 even if it does not contain any `.py` files. 2024-03-20T11:21:33,107 On the other hand, currently there is no concept of package data 2024-03-20T11:21:33,107 directory, all directories are treated like packages. 2024-03-20T11:21:33,108 ******************************************************************************** 2024-03-20T11:21:33,109 !! 2024-03-20T11:21:33,110 check.warn(importable) 2024-03-20T11:21:33,111 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'moleculekit.tmalign.include' is absent from the `packages` configuration. 2024-03-20T11:21:33,111 !! 2024-03-20T11:21:33,112 ******************************************************************************** 2024-03-20T11:21:33,113 ############################ 2024-03-20T11:21:33,114 # Package would be ignored # 2024-03-20T11:21:33,114 ############################ 2024-03-20T11:21:33,115 Python recognizes 'moleculekit.tmalign.include' as an importable package[^1], 2024-03-20T11:21:33,115 but it is absent from setuptools' `packages` configuration. 2024-03-20T11:21:33,116 This leads to an ambiguous overall configuration. If you want to distribute this 2024-03-20T11:21:33,117 package, please make sure that 'moleculekit.tmalign.include' is explicitly added 2024-03-20T11:21:33,118 to the `packages` configuration field. 2024-03-20T11:21:33,119 Alternatively, you can also rely on setuptools' discovery methods 2024-03-20T11:21:33,119 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-03-20T11:21:33,120 instead of `find_packages(...)`/`find:`). 2024-03-20T11:21:33,121 You can read more about "package discovery" on setuptools documentation page: 2024-03-20T11:21:33,122 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-03-20T11:21:33,124 If you don't want 'moleculekit.tmalign.include' to be distributed and are 2024-03-20T11:21:33,124 already explicitly excluding 'moleculekit.tmalign.include' via 2024-03-20T11:21:33,125 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-03-20T11:21:33,125 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-03-20T11:21:33,126 combination with a more fine grained `package-data` configuration. 2024-03-20T11:21:33,127 You can read more about "package data files" on setuptools documentation page: 2024-03-20T11:21:33,129 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-03-20T11:21:33,130 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-03-20T11:21:33,131 even if it does not contain any `.py` files. 2024-03-20T11:21:33,132 On the other hand, currently there is no concept of package data 2024-03-20T11:21:33,132 directory, all directories are treated like packages. 2024-03-20T11:21:33,133 ******************************************************************************** 2024-03-20T11:21:33,134 !! 2024-03-20T11:21:33,135 check.warn(importable) 2024-03-20T11:21:33,135 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'moleculekit.tmalign.src' is absent from the `packages` configuration. 2024-03-20T11:21:33,136 !! 2024-03-20T11:21:33,138 ******************************************************************************** 2024-03-20T11:21:33,138 ############################ 2024-03-20T11:21:33,139 # Package would be ignored # 2024-03-20T11:21:33,139 ############################ 2024-03-20T11:21:33,140 Python recognizes 'moleculekit.tmalign.src' as an importable package[^1], 2024-03-20T11:21:33,141 but it is absent from setuptools' `packages` configuration. 2024-03-20T11:21:33,142 This leads to an ambiguous overall configuration. If you want to distribute this 2024-03-20T11:21:33,143 package, please make sure that 'moleculekit.tmalign.src' is explicitly added 2024-03-20T11:21:33,143 to the `packages` configuration field. 2024-03-20T11:21:33,145 Alternatively, you can also rely on setuptools' discovery methods 2024-03-20T11:21:33,145 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-03-20T11:21:33,146 instead of `find_packages(...)`/`find:`). 2024-03-20T11:21:33,147 You can read more about "package discovery" on setuptools documentation page: 2024-03-20T11:21:33,148 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-03-20T11:21:33,149 If you don't want 'moleculekit.tmalign.src' to be distributed and are 2024-03-20T11:21:33,149 already explicitly excluding 'moleculekit.tmalign.src' via 2024-03-20T11:21:33,150 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-03-20T11:21:33,151 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-03-20T11:21:33,151 combination with a more fine grained `package-data` configuration. 2024-03-20T11:21:33,152 You can read more about "package data files" on setuptools documentation page: 2024-03-20T11:21:33,153 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-03-20T11:21:33,155 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-03-20T11:21:33,156 even if it does not contain any `.py` files. 2024-03-20T11:21:33,156 On the other hand, currently there is no concept of package data 2024-03-20T11:21:33,157 directory, all directories are treated like packages. 2024-03-20T11:21:33,157 ******************************************************************************** 2024-03-20T11:21:33,159 !! 2024-03-20T11:21:33,159 check.warn(importable) 2024-03-20T11:21:33,160 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'moleculekit.wrapping' is absent from the `packages` configuration. 2024-03-20T11:21:33,161 !! 2024-03-20T11:21:33,162 ******************************************************************************** 2024-03-20T11:21:33,163 ############################ 2024-03-20T11:21:33,163 # Package would be ignored # 2024-03-20T11:21:33,164 ############################ 2024-03-20T11:21:33,164 Python recognizes 'moleculekit.wrapping' as an importable package[^1], 2024-03-20T11:21:33,165 but it is absent from setuptools' `packages` configuration. 2024-03-20T11:21:33,166 This leads to an ambiguous overall configuration. If you want to distribute this 2024-03-20T11:21:33,167 package, please make sure that 'moleculekit.wrapping' is explicitly added 2024-03-20T11:21:33,167 to the `packages` configuration field. 2024-03-20T11:21:33,169 Alternatively, you can also rely on setuptools' discovery methods 2024-03-20T11:21:33,169 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-03-20T11:21:33,170 instead of `find_packages(...)`/`find:`). 2024-03-20T11:21:33,171 You can read more about "package discovery" on setuptools documentation page: 2024-03-20T11:21:33,172 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-03-20T11:21:33,174 If you don't want 'moleculekit.wrapping' to be distributed and are 2024-03-20T11:21:33,174 already explicitly excluding 'moleculekit.wrapping' via 2024-03-20T11:21:33,175 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-03-20T11:21:33,176 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-03-20T11:21:33,176 combination with a more fine grained `package-data` configuration. 2024-03-20T11:21:33,178 You can read more about "package data files" on setuptools documentation page: 2024-03-20T11:21:33,179 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-03-20T11:21:33,180 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-03-20T11:21:33,181 even if it does not contain any `.py` files. 2024-03-20T11:21:33,181 On the other hand, currently there is no concept of package data 2024-03-20T11:21:33,182 directory, all directories are treated like packages. 2024-03-20T11:21:33,182 ******************************************************************************** 2024-03-20T11:21:33,183 !! 2024-03-20T11:21:33,184 check.warn(importable) 2024-03-20T11:21:33,184 copying moleculekit/logging.ini -> build/lib.linux-armv7l-cpython-311/moleculekit 2024-03-20T11:21:33,185 copying moleculekit/vmd_wrapper -> build/lib.linux-armv7l-cpython-311/moleculekit 2024-03-20T11:21:33,185 creating build/lib.linux-armv7l-cpython-311/moleculekit/atomselect_utils 2024-03-20T11:21:33,186 copying moleculekit/atomselect_utils/atomselect_utils.cpp -> build/lib.linux-armv7l-cpython-311/moleculekit/atomselect_utils 2024-03-20T11:21:33,187 copying moleculekit/atomselect_utils/atomselect_utils.pyx -> build/lib.linux-armv7l-cpython-311/moleculekit/atomselect_utils 2024-03-20T11:21:33,187 creating build/lib.linux-armv7l-cpython-311/moleculekit/bondguesser_utils 2024-03-20T11:21:33,188 copying moleculekit/bondguesser_utils/bondguesser_utils.cpp -> build/lib.linux-armv7l-cpython-311/moleculekit/bondguesser_utils 2024-03-20T11:21:33,188 copying moleculekit/bondguesser_utils/bondguesser_utils.pyx -> build/lib.linux-armv7l-cpython-311/moleculekit/bondguesser_utils 2024-03-20T11:21:33,189 creating build/lib.linux-armv7l-cpython-311/moleculekit/cython_utils 2024-03-20T11:21:33,189 copying moleculekit/cython_utils/cython_utils.cpp -> build/lib.linux-armv7l-cpython-311/moleculekit/cython_utils 2024-03-20T11:21:33,190 copying moleculekit/cython_utils/cython_utils.pyx -> build/lib.linux-armv7l-cpython-311/moleculekit/cython_utils 2024-03-20T11:21:33,191 creating build/lib.linux-armv7l-cpython-311/moleculekit/distance_utils 2024-03-20T11:21:33,191 copying moleculekit/distance_utils/distance_utils.cpp -> build/lib.linux-armv7l-cpython-311/moleculekit/distance_utils 2024-03-20T11:21:33,192 copying moleculekit/distance_utils/distance_utils.pyx -> build/lib.linux-armv7l-cpython-311/moleculekit/distance_utils 2024-03-20T11:21:33,193 creating build/lib.linux-armv7l-cpython-311/moleculekit/occupancy_utils 2024-03-20T11:21:33,193 copying moleculekit/occupancy_utils/occupancy_utils.cpp -> build/lib.linux-armv7l-cpython-311/moleculekit/occupancy_utils 2024-03-20T11:21:33,194 copying moleculekit/occupancy_utils/occupancy_utils.pyx -> build/lib.linux-armv7l-cpython-311/moleculekit/occupancy_utils 2024-03-20T11:21:33,195 creating build/lib.linux-armv7l-cpython-311/moleculekit/share 2024-03-20T11:21:33,195 copying moleculekit/share/ALA.cif -> build/lib.linux-armv7l-cpython-311/moleculekit/share 2024-03-20T11:21:33,196 copying moleculekit/share/backbone.cif -> build/lib.linux-armv7l-cpython-311/moleculekit/share 2024-03-20T11:21:33,197 copying moleculekit/share/opm_sequences.json -> build/lib.linux-armv7l-cpython-311/moleculekit/share 2024-03-20T11:21:33,197 creating build/lib.linux-armv7l-cpython-311/moleculekit/share/atomselect 2024-03-20T11:21:33,198 copying moleculekit/share/atomselect/atomselect.json -> build/lib.linux-armv7l-cpython-311/moleculekit/share/atomselect 2024-03-20T11:21:33,199 creating build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr 2024-03-20T11:21:33,200 creating build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,200 copying moleculekit/share/pdb2pqr/residues/.gitkeep -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,201 copying moleculekit/share/pdb2pqr/residues/004.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,201 copying moleculekit/share/pdb2pqr/residues/004.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,202 copying moleculekit/share/pdb2pqr/residues/03Y.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,203 copying moleculekit/share/pdb2pqr/residues/03Y.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,203 copying moleculekit/share/pdb2pqr/residues/0A1.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,204 copying moleculekit/share/pdb2pqr/residues/0A1.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,204 copying moleculekit/share/pdb2pqr/residues/0AF.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,205 copying moleculekit/share/pdb2pqr/residues/0AF.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,205 copying moleculekit/share/pdb2pqr/residues/0BN.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,206 copying moleculekit/share/pdb2pqr/residues/0BN.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,207 copying moleculekit/share/pdb2pqr/residues/1MH.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,207 copying moleculekit/share/pdb2pqr/residues/1MH.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,208 copying moleculekit/share/pdb2pqr/residues/2AS.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,208 copying moleculekit/share/pdb2pqr/residues/2AS.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,209 copying moleculekit/share/pdb2pqr/residues/2GX.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,210 copying moleculekit/share/pdb2pqr/residues/2GX.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,210 copying moleculekit/share/pdb2pqr/residues/2ML.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,211 copying moleculekit/share/pdb2pqr/residues/2ML.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,212 copying moleculekit/share/pdb2pqr/residues/2MR.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,212 copying moleculekit/share/pdb2pqr/residues/2MR.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,213 copying moleculekit/share/pdb2pqr/residues/4IN.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,213 copying moleculekit/share/pdb2pqr/residues/4IN.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,214 copying moleculekit/share/pdb2pqr/residues/4PH.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,214 copying moleculekit/share/pdb2pqr/residues/4PH.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,215 copying moleculekit/share/pdb2pqr/residues/4PQ.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,215 copying moleculekit/share/pdb2pqr/residues/4PQ.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,216 copying moleculekit/share/pdb2pqr/residues/5JP.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,216 copying moleculekit/share/pdb2pqr/residues/5JP.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,217 copying moleculekit/share/pdb2pqr/residues/AA4.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,217 copying moleculekit/share/pdb2pqr/residues/AA4.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,218 copying moleculekit/share/pdb2pqr/residues/ABA.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,219 copying moleculekit/share/pdb2pqr/residues/ABA.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,219 copying moleculekit/share/pdb2pqr/residues/AHP.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,220 copying moleculekit/share/pdb2pqr/residues/AHP.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,220 copying moleculekit/share/pdb2pqr/residues/ALC.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,221 copying moleculekit/share/pdb2pqr/residues/ALC.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,221 copying moleculekit/share/pdb2pqr/residues/ALN.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,222 copying moleculekit/share/pdb2pqr/residues/ALN.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,222 copying moleculekit/share/pdb2pqr/residues/ALY.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,223 copying moleculekit/share/pdb2pqr/residues/ALY.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,223 copying moleculekit/share/pdb2pqr/residues/APD.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,224 copying moleculekit/share/pdb2pqr/residues/APD.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,224 copying moleculekit/share/pdb2pqr/residues/BB8.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,225 copying moleculekit/share/pdb2pqr/residues/BB8.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,225 copying moleculekit/share/pdb2pqr/residues/BCS.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,226 copying moleculekit/share/pdb2pqr/residues/BCS.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,226 copying moleculekit/share/pdb2pqr/residues/BTK.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,227 copying moleculekit/share/pdb2pqr/residues/BTK.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,227 copying moleculekit/share/pdb2pqr/residues/CCS.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,228 copying moleculekit/share/pdb2pqr/residues/CCS.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,228 copying moleculekit/share/pdb2pqr/residues/CGU.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,229 copying moleculekit/share/pdb2pqr/residues/CGU.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,229 copying moleculekit/share/pdb2pqr/residues/CSA.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,230 copying moleculekit/share/pdb2pqr/residues/CSA.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,230 copying moleculekit/share/pdb2pqr/residues/CSO.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,231 copying moleculekit/share/pdb2pqr/residues/CSO.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,231 copying moleculekit/share/pdb2pqr/residues/CSP.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,232 copying moleculekit/share/pdb2pqr/residues/CSP.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,233 copying moleculekit/share/pdb2pqr/residues/CSS.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,233 copying moleculekit/share/pdb2pqr/residues/CSS.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,234 copying moleculekit/share/pdb2pqr/residues/D4P.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,234 copying moleculekit/share/pdb2pqr/residues/D4P.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,235 copying moleculekit/share/pdb2pqr/residues/DA2.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,235 copying moleculekit/share/pdb2pqr/residues/DA2.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,236 copying moleculekit/share/pdb2pqr/residues/DAB.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,236 copying moleculekit/share/pdb2pqr/residues/DAB.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,240 copying moleculekit/share/pdb2pqr/residues/DAH.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,241 copying moleculekit/share/pdb2pqr/residues/DAH.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,241 copying moleculekit/share/pdb2pqr/residues/DPP.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,242 copying moleculekit/share/pdb2pqr/residues/DPP.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,242 copying moleculekit/share/pdb2pqr/residues/ESC.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,243 copying moleculekit/share/pdb2pqr/residues/ESC.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,243 copying moleculekit/share/pdb2pqr/residues/FGL.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,244 copying moleculekit/share/pdb2pqr/residues/FGL.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,244 copying moleculekit/share/pdb2pqr/residues/GHG.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,245 copying moleculekit/share/pdb2pqr/residues/GHG.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,245 copying moleculekit/share/pdb2pqr/residues/GME.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,246 copying moleculekit/share/pdb2pqr/residues/GME.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,246 copying moleculekit/share/pdb2pqr/residues/GNC.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,247 copying moleculekit/share/pdb2pqr/residues/GNC.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,247 copying moleculekit/share/pdb2pqr/residues/HHK.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,248 copying moleculekit/share/pdb2pqr/residues/HHK.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,248 copying moleculekit/share/pdb2pqr/residues/HLU.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,249 copying moleculekit/share/pdb2pqr/residues/HLU.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,250 copying moleculekit/share/pdb2pqr/residues/HLX.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,250 copying moleculekit/share/pdb2pqr/residues/HLX.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,251 copying moleculekit/share/pdb2pqr/residues/HOX.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,252 copying moleculekit/share/pdb2pqr/residues/HOX.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,252 copying moleculekit/share/pdb2pqr/residues/HPE.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,252 copying moleculekit/share/pdb2pqr/residues/HPE.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,253 copying moleculekit/share/pdb2pqr/residues/HQA.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,253 copying moleculekit/share/pdb2pqr/residues/HQA.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,256 copying moleculekit/share/pdb2pqr/residues/HTR.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,258 copying moleculekit/share/pdb2pqr/residues/HTR.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,260 copying moleculekit/share/pdb2pqr/residues/HYP.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,262 copying moleculekit/share/pdb2pqr/residues/HYP.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,264 copying moleculekit/share/pdb2pqr/residues/I2M.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,266 copying moleculekit/share/pdb2pqr/residues/I2M.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,268 copying moleculekit/share/pdb2pqr/residues/IGL.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,270 copying moleculekit/share/pdb2pqr/residues/IGL.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,272 copying moleculekit/share/pdb2pqr/residues/IIL.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,274 copying moleculekit/share/pdb2pqr/residues/IIL.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,276 copying moleculekit/share/pdb2pqr/residues/IML.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,279 copying moleculekit/share/pdb2pqr/residues/IML.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,281 copying moleculekit/share/pdb2pqr/residues/KYN.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,283 copying moleculekit/share/pdb2pqr/residues/KYN.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,286 copying moleculekit/share/pdb2pqr/residues/LME.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,288 copying moleculekit/share/pdb2pqr/residues/LME.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,290 copying moleculekit/share/pdb2pqr/residues/LMQ.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,292 copying moleculekit/share/pdb2pqr/residues/LMQ.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,295 copying moleculekit/share/pdb2pqr/residues/LYZ.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,297 copying moleculekit/share/pdb2pqr/residues/LYZ.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,299 copying moleculekit/share/pdb2pqr/residues/M3L.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,304 copying moleculekit/share/pdb2pqr/residues/M3L.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,307 copying moleculekit/share/pdb2pqr/residues/ME0.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,309 copying moleculekit/share/pdb2pqr/residues/ME0.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,311 copying moleculekit/share/pdb2pqr/residues/MEA.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,314 copying moleculekit/share/pdb2pqr/residues/MEA.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,316 copying moleculekit/share/pdb2pqr/residues/MEN.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,318 copying moleculekit/share/pdb2pqr/residues/MEN.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,321 copying moleculekit/share/pdb2pqr/residues/MEQ.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,323 copying moleculekit/share/pdb2pqr/residues/MEQ.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,326 copying moleculekit/share/pdb2pqr/residues/MLE.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,328 copying moleculekit/share/pdb2pqr/residues/MLE.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,330 copying moleculekit/share/pdb2pqr/residues/MLY.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,332 copying moleculekit/share/pdb2pqr/residues/MLY.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,334 copying moleculekit/share/pdb2pqr/residues/MLZ.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,337 copying moleculekit/share/pdb2pqr/residues/MLZ.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,339 copying moleculekit/share/pdb2pqr/residues/MME.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,341 copying moleculekit/share/pdb2pqr/residues/MME.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,344 copying moleculekit/share/pdb2pqr/residues/MMO.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,346 copying moleculekit/share/pdb2pqr/residues/MMO.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,348 copying moleculekit/share/pdb2pqr/residues/MVA.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,350 copying moleculekit/share/pdb2pqr/residues/MVA.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,353 copying moleculekit/share/pdb2pqr/residues/NAL.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,356 copying moleculekit/share/pdb2pqr/residues/NAL.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,358 copying moleculekit/share/pdb2pqr/residues/NCY.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,360 copying moleculekit/share/pdb2pqr/residues/NCY.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,363 copying moleculekit/share/pdb2pqr/residues/NLE.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,365 copying moleculekit/share/pdb2pqr/residues/NLE.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,367 copying moleculekit/share/pdb2pqr/residues/NVA.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,369 copying moleculekit/share/pdb2pqr/residues/NVA.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,371 copying moleculekit/share/pdb2pqr/residues/NZC.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,372 copying moleculekit/share/pdb2pqr/residues/NZC.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,374 copying moleculekit/share/pdb2pqr/residues/OCY.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,376 copying moleculekit/share/pdb2pqr/residues/OCY.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,379 copying moleculekit/share/pdb2pqr/residues/OMX.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,380 copying moleculekit/share/pdb2pqr/residues/OMX.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,383 copying moleculekit/share/pdb2pqr/residues/ONL.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,385 copying moleculekit/share/pdb2pqr/residues/ONL.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,387 copying moleculekit/share/pdb2pqr/residues/ORM.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,389 copying moleculekit/share/pdb2pqr/residues/ORM.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,391 copying moleculekit/share/pdb2pqr/residues/P1L.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,393 copying moleculekit/share/pdb2pqr/residues/P1L.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,396 copying moleculekit/share/pdb2pqr/residues/PCA.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,398 copying moleculekit/share/pdb2pqr/residues/PCA.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,400 copying moleculekit/share/pdb2pqr/residues/PRK.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,402 copying moleculekit/share/pdb2pqr/residues/PRK.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,405 copying moleculekit/share/pdb2pqr/residues/PTR.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,407 copying moleculekit/share/pdb2pqr/residues/PTR.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,409 copying moleculekit/share/pdb2pqr/residues/SEP.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,411 copying moleculekit/share/pdb2pqr/residues/SEP.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,413 copying moleculekit/share/pdb2pqr/residues/TPO.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,415 copying moleculekit/share/pdb2pqr/residues/TPO.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,417 copying moleculekit/share/pdb2pqr/residues/TRO.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,419 copying moleculekit/share/pdb2pqr/residues/TRO.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,421 copying moleculekit/share/pdb2pqr/residues/TY2.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,423 copying moleculekit/share/pdb2pqr/residues/TY2.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,425 copying moleculekit/share/pdb2pqr/residues/TYQ.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,427 copying moleculekit/share/pdb2pqr/residues/TYQ.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,430 copying moleculekit/share/pdb2pqr/residues/YCM.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,432 copying moleculekit/share/pdb2pqr/residues/YCM.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,434 copying moleculekit/share/pdb2pqr/residues/YNM.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,436 copying moleculekit/share/pdb2pqr/residues/YNM.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2024-03-20T11:21:33,438 creating build/lib.linux-armv7l-cpython-311/moleculekit/tmalign 2024-03-20T11:21:33,438 copying moleculekit/tmalign/tmalign_util.cpp -> build/lib.linux-armv7l-cpython-311/moleculekit/tmalign 2024-03-20T11:21:33,461 copying moleculekit/tmalign/tmalign_util.pyx -> build/lib.linux-armv7l-cpython-311/moleculekit/tmalign 2024-03-20T11:21:33,463 copying moleculekit/tmalign/tmalignlib.pxd -> build/lib.linux-armv7l-cpython-311/moleculekit/tmalign 2024-03-20T11:21:33,465 creating build/lib.linux-armv7l-cpython-311/moleculekit/tmalign/include 2024-03-20T11:21:33,465 copying moleculekit/tmalign/include/TMAlign.h -> build/lib.linux-armv7l-cpython-311/moleculekit/tmalign/include 2024-03-20T11:21:33,468 creating build/lib.linux-armv7l-cpython-311/moleculekit/tmalign/src 2024-03-20T11:21:33,468 copying moleculekit/tmalign/src/TMAlign.cpp -> build/lib.linux-armv7l-cpython-311/moleculekit/tmalign/src 2024-03-20T11:21:33,475 creating build/lib.linux-armv7l-cpython-311/moleculekit/wrapping 2024-03-20T11:21:33,476 copying moleculekit/wrapping/wrapping.cpp -> build/lib.linux-armv7l-cpython-311/moleculekit/wrapping 2024-03-20T11:21:33,507 copying moleculekit/wrapping/wrapping.pyx -> build/lib.linux-armv7l-cpython-311/moleculekit/wrapping 2024-03-20T11:21:33,510 creating build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/binpos 2024-03-20T11:21:33,511 copying moleculekit/fileformats/binpos/binpos.c -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/binpos 2024-03-20T11:21:33,528 copying moleculekit/fileformats/binpos/binpos.pyx -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/binpos 2024-03-20T11:21:33,531 copying moleculekit/fileformats/binpos/binposlib.pxd -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/binpos 2024-03-20T11:21:33,533 creating build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/binpos/include 2024-03-20T11:21:33,534 copying moleculekit/fileformats/binpos/include/binposplugin.h -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/binpos/include 2024-03-20T11:21:33,536 copying moleculekit/fileformats/binpos/include/largefiles.h -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/binpos/include 2024-03-20T11:21:33,538 copying moleculekit/fileformats/binpos/include/molfile_plugin.h -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/binpos/include 2024-03-20T11:21:33,542 creating build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/binpos/src 2024-03-20T11:21:33,543 copying moleculekit/fileformats/binpos/src/binposplugin.c -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/binpos/src 2024-03-20T11:21:33,545 creating build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/dcd 2024-03-20T11:21:33,546 copying moleculekit/fileformats/dcd/dcd.c -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/dcd 2024-03-20T11:21:33,596 copying moleculekit/fileformats/dcd/dcd.pyx -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/dcd 2024-03-20T11:21:33,599 copying moleculekit/fileformats/dcd/dcdlib.pxd -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/dcd 2024-03-20T11:21:33,601 creating build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/dcd/include 2024-03-20T11:21:33,602 copying moleculekit/fileformats/dcd/include/dcdplugin.h -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/dcd/include 2024-03-20T11:21:33,604 copying moleculekit/fileformats/dcd/include/endianswap.h -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/dcd/include 2024-03-20T11:21:33,606 copying moleculekit/fileformats/dcd/include/fastio.h -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/dcd/include 2024-03-20T11:21:33,609 copying moleculekit/fileformats/dcd/include/largefiles.h -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/dcd/include 2024-03-20T11:21:33,611 copying moleculekit/fileformats/dcd/include/molfile_plugin.h -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/dcd/include 2024-03-20T11:21:33,615 creating build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/dcd/src 2024-03-20T11:21:33,616 copying moleculekit/fileformats/dcd/src/dcdplugin.c -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/dcd/src 2024-03-20T11:21:33,620 creating build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc 2024-03-20T11:21:33,621 copying moleculekit/fileformats/xtc/trr.c -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc 2024-03-20T11:21:33,733 copying moleculekit/fileformats/xtc/trr.pyx -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc 2024-03-20T11:21:33,736 copying moleculekit/fileformats/xtc/trrlib.pxd -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc 2024-03-20T11:21:33,739 copying moleculekit/fileformats/xtc/xdrlib.pxd -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc 2024-03-20T11:21:33,741 copying moleculekit/fileformats/xtc/xtc.cpp -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc 2024-03-20T11:21:33,801 copying moleculekit/fileformats/xtc/xtc.pyx -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc 2024-03-20T11:21:33,803 copying moleculekit/fileformats/xtc/xtclib.pxd -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc 2024-03-20T11:21:33,805 creating build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/include 2024-03-20T11:21:33,805 copying moleculekit/fileformats/xtc/include/trr_header.h -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/include 2024-03-20T11:21:33,808 copying moleculekit/fileformats/xtc/include/xdr_seek.h -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/include 2024-03-20T11:21:33,810 copying moleculekit/fileformats/xtc/include/xdrfile.h -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/include 2024-03-20T11:21:33,814 copying moleculekit/fileformats/xtc/include/xdrfile_trr.h -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/include 2024-03-20T11:21:33,817 copying moleculekit/fileformats/xtc/include/xdrfile_xtc.h -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/include 2024-03-20T11:21:33,819 copying moleculekit/fileformats/xtc/include/xtc.h -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/include 2024-03-20T11:21:33,822 creating build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/src 2024-03-20T11:21:33,823 copying moleculekit/fileformats/xtc/src/xdr_seek.c -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/src 2024-03-20T11:21:33,825 copying moleculekit/fileformats/xtc/src/xdrfile.cpp -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/src 2024-03-20T11:21:33,830 copying moleculekit/fileformats/xtc/src/xdrfile_trr.c -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/src 2024-03-20T11:21:33,833 copying moleculekit/fileformats/xtc/src/xdrfile_xtc.cpp -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/src 2024-03-20T11:21:33,835 copying moleculekit/fileformats/xtc/src/xtc.cpp -> build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/src 2024-03-20T11:21:33,838 creating build/lib.linux-armv7l-cpython-311/moleculekit/interactions/cationpi 2024-03-20T11:21:33,839 copying moleculekit/interactions/cationpi/cationpi.cpp -> build/lib.linux-armv7l-cpython-311/moleculekit/interactions/cationpi 2024-03-20T11:21:33,874 copying moleculekit/interactions/cationpi/cationpi.pyx -> build/lib.linux-armv7l-cpython-311/moleculekit/interactions/cationpi 2024-03-20T11:21:33,877 creating build/lib.linux-armv7l-cpython-311/moleculekit/interactions/hbonds 2024-03-20T11:21:33,878 copying moleculekit/interactions/hbonds/hbonds.cpp -> build/lib.linux-armv7l-cpython-311/moleculekit/interactions/hbonds 2024-03-20T11:21:33,906 copying moleculekit/interactions/hbonds/hbonds.pyx -> build/lib.linux-armv7l-cpython-311/moleculekit/interactions/hbonds 2024-03-20T11:21:33,909 creating build/lib.linux-armv7l-cpython-311/moleculekit/interactions/pipi 2024-03-20T11:21:33,910 copying moleculekit/interactions/pipi/pipi.cpp -> build/lib.linux-armv7l-cpython-311/moleculekit/interactions/pipi 2024-03-20T11:21:33,947 copying moleculekit/interactions/pipi/pipi.pyx -> build/lib.linux-armv7l-cpython-311/moleculekit/interactions/pipi 2024-03-20T11:21:33,950 creating build/lib.linux-armv7l-cpython-311/moleculekit/interactions/sigmahole 2024-03-20T11:21:33,951 copying moleculekit/interactions/sigmahole/sigmahole.cpp -> build/lib.linux-armv7l-cpython-311/moleculekit/interactions/sigmahole 2024-03-20T11:21:34,027 copying moleculekit/interactions/sigmahole/sigmahole.pyx -> build/lib.linux-armv7l-cpython-311/moleculekit/interactions/sigmahole 2024-03-20T11:21:34,043 UPDATING build/lib.linux-armv7l-cpython-311/moleculekit/_version.py 2024-03-20T11:21:34,044 set build/lib.linux-armv7l-cpython-311/moleculekit/_version.py to '1.8.27' 2024-03-20T11:21:34,044 running build_ext 2024-03-20T11:21:34,058 building 'moleculekit.interactions.hbonds' extension 2024-03-20T11:21:34,059 creating build/temp.linux-armv7l-cpython-311 2024-03-20T11:21:34,060 creating build/temp.linux-armv7l-cpython-311/moleculekit 2024-03-20T11:21:34,060 creating build/temp.linux-armv7l-cpython-311/moleculekit/interactions 2024-03-20T11:21:34,061 creating build/temp.linux-armv7l-cpython-311/moleculekit/interactions/hbonds 2024-03-20T11:21:34,063 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c moleculekit/interactions/hbonds/hbonds.cpp -o build/temp.linux-armv7l-cpython-311/moleculekit/interactions/hbonds/hbonds.o -O3 2024-03-20T11:21:34,437 In file included from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2024-03-20T11:21:34,437 from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-03-20T11:21:34,438 from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-03-20T11:21:34,439 from moleculekit/interactions/hbonds/hbonds.cpp:1235: 2024-03-20T11:21:34,439 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-03-20T11:21:34,440 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-03-20T11:21:34,441 | ^~~~~~~ 2024-03-20T11:22:02,008 In function ‘PyObject* __pyx_pf_11moleculekit_12interactions_6hbonds_calculate(PyObject*, PyArrayObject*, PyArrayObject*, PyArrayObject*, PyArrayObject*, PyArrayObject*, PyArrayObject*, float, float, bool, bool)’, 2024-03-20T11:22:02,008 inlined from ‘PyObject* __pyx_pw_11moleculekit_12interactions_6hbonds_1calculate(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’ at moleculekit/interactions/hbonds/hbonds.cpp:19959:68: 2024-03-20T11:22:02,009 moleculekit/interactions/hbonds/hbonds.cpp:20989:52: warning: ‘__pyx_v_d_idx_h’ may be used uninitialized [-Wmaybe-uninitialized] 2024-03-20T11:22:02,010 20989 | (__pyx_v_results[__pyx_v_f]).push_back(__pyx_v_d_idx_h); 2024-03-20T11:22:02,010 | ^~~~~~~~~~~~~~~ 2024-03-20T11:22:02,011 moleculekit/interactions/hbonds/hbonds.cpp: In function ‘PyObject* __pyx_pw_11moleculekit_12interactions_6hbonds_1calculate(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’: 2024-03-20T11:22:02,012 moleculekit/interactions/hbonds/hbonds.cpp:20002:57: note: ‘__pyx_v_d_idx_h’ was declared here 2024-03-20T11:22:02,012 20002 | __pyx_t_11moleculekit_12interactions_6hbonds_UINT32_t __pyx_v_d_idx_h; 2024-03-20T11:22:02,013 | ^~~~~~~~~~~~~~~ 2024-03-20T11:22:05,246 arm-linux-gnueabihf-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 build/temp.linux-armv7l-cpython-311/moleculekit/interactions/hbonds/hbonds.o -L/usr/lib/arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-311/moleculekit/interactions/hbonds.cpython-311-arm-linux-gnueabihf.so 2024-03-20T11:22:05,561 building 'moleculekit.interactions.pipi' extension 2024-03-20T11:22:05,561 creating build/temp.linux-armv7l-cpython-311/moleculekit/interactions/pipi 2024-03-20T11:22:05,562 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c moleculekit/interactions/pipi/pipi.cpp -o build/temp.linux-armv7l-cpython-311/moleculekit/interactions/pipi/pipi.o -O3 2024-03-20T11:22:05,875 In file included from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2024-03-20T11:22:05,876 from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-03-20T11:22:05,877 from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-03-20T11:22:05,878 from moleculekit/interactions/pipi/pipi.cpp:1235: 2024-03-20T11:22:05,878 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-03-20T11:22:05,879 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-03-20T11:22:05,879 | ^~~~~~~ 2024-03-20T11:22:39,000 arm-linux-gnueabihf-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 build/temp.linux-armv7l-cpython-311/moleculekit/interactions/pipi/pipi.o -L/usr/lib/arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-311/moleculekit/interactions/pipi.cpython-311-arm-linux-gnueabihf.so 2024-03-20T11:22:39,296 building 'moleculekit.interactions.cationpi' extension 2024-03-20T11:22:39,296 creating build/temp.linux-armv7l-cpython-311/moleculekit/interactions/cationpi 2024-03-20T11:22:39,297 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c moleculekit/interactions/cationpi/cationpi.cpp -o build/temp.linux-armv7l-cpython-311/moleculekit/interactions/cationpi/cationpi.o -O3 2024-03-20T11:22:39,612 In file included from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2024-03-20T11:22:39,613 from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-03-20T11:22:39,613 from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-03-20T11:22:39,614 from moleculekit/interactions/cationpi/cationpi.cpp:1235: 2024-03-20T11:22:39,614 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-03-20T11:22:39,615 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-03-20T11:22:39,615 | ^~~~~~~ 2024-03-20T11:23:12,040 arm-linux-gnueabihf-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 build/temp.linux-armv7l-cpython-311/moleculekit/interactions/cationpi/cationpi.o -L/usr/lib/arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-311/moleculekit/interactions/cationpi.cpython-311-arm-linux-gnueabihf.so 2024-03-20T11:23:12,340 building 'moleculekit.interactions.sigmahole' extension 2024-03-20T11:23:12,340 creating build/temp.linux-armv7l-cpython-311/moleculekit/interactions/sigmahole 2024-03-20T11:23:12,341 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c moleculekit/interactions/sigmahole/sigmahole.cpp -o build/temp.linux-armv7l-cpython-311/moleculekit/interactions/sigmahole/sigmahole.o -O3 2024-03-20T11:23:12,647 In file included from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2024-03-20T11:23:12,648 from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-03-20T11:23:12,648 from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-03-20T11:23:12,649 from moleculekit/interactions/sigmahole/sigmahole.cpp:1235: 2024-03-20T11:23:12,649 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-03-20T11:23:12,650 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-03-20T11:23:12,651 | ^~~~~~~ 2024-03-20T11:23:45,003 arm-linux-gnueabihf-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 build/temp.linux-armv7l-cpython-311/moleculekit/interactions/sigmahole/sigmahole.o -L/usr/lib/arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-311/moleculekit/interactions/sigmahole.cpython-311-arm-linux-gnueabihf.so 2024-03-20T11:23:45,345 building 'moleculekit.wrapping' extension 2024-03-20T11:23:45,346 creating build/temp.linux-armv7l-cpython-311/moleculekit/wrapping 2024-03-20T11:23:45,347 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c moleculekit/wrapping/wrapping.cpp -o build/temp.linux-armv7l-cpython-311/moleculekit/wrapping/wrapping.o -O3 2024-03-20T11:23:45,693 In file included from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2024-03-20T11:23:45,694 from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-03-20T11:23:45,696 from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-03-20T11:23:45,696 from moleculekit/wrapping/wrapping.cpp:1235: 2024-03-20T11:23:45,697 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-03-20T11:23:45,698 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-03-20T11:23:45,698 | ^~~~~~~ 2024-03-20T11:24:16,289 arm-linux-gnueabihf-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 build/temp.linux-armv7l-cpython-311/moleculekit/wrapping/wrapping.o -L/usr/lib/arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-311/moleculekit/wrapping.cpython-311-arm-linux-gnueabihf.so 2024-03-20T11:24:16,504 building 'moleculekit.bondguesser_utils' extension 2024-03-20T11:24:16,505 creating build/temp.linux-armv7l-cpython-311/moleculekit/bondguesser_utils 2024-03-20T11:24:16,506 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c moleculekit/bondguesser_utils/bondguesser_utils.cpp -o build/temp.linux-armv7l-cpython-311/moleculekit/bondguesser_utils/bondguesser_utils.o -O3 2024-03-20T11:24:16,816 In file included from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2024-03-20T11:24:16,817 from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-03-20T11:24:16,818 from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-03-20T11:24:16,818 from moleculekit/bondguesser_utils/bondguesser_utils.cpp:1235: 2024-03-20T11:24:16,819 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-03-20T11:24:16,820 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-03-20T11:24:16,820 | ^~~~~~~ 2024-03-20T11:24:19,124 moleculekit/bondguesser_utils/bondguesser_utils.cpp: In function ‘PyObject* __pyx_pf_11moleculekit_17bondguesser_utils_make_grid_neighborlist_nonperiodic(PyObject*, __Pyx_memviewslice, __pyx_t_11moleculekit_17bondguesser_utils_UINT32_t, __pyx_t_11moleculekit_17bondguesser_utils_UINT32_t, __pyx_t_11moleculekit_17bondguesser_utils_UINT32_t)’: 2024-03-20T11:24:19,125 moleculekit/bondguesser_utils/bondguesser_utils.cpp:19771:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘__pyx_t_11moleculekit_17bondguesser_utils_UINT32_t’ {aka ‘long unsigned int’} [-Wsign-compare] 2024-03-20T11:24:19,126 19771 | for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_2; __pyx_t_3+=1) { 2024-03-20T11:24:19,126 | ~~~~~~~~~~^~~~~~~~~~~ 2024-03-20T11:24:19,127 moleculekit/bondguesser_utils/bondguesser_utils.cpp:19783:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘__pyx_t_11moleculekit_17bondguesser_utils_UINT32_t’ {aka ‘long unsigned int’} [-Wsign-compare] 2024-03-20T11:24:19,128 19783 | for (__pyx_t_6 = 0; __pyx_t_6 < __pyx_t_5; __pyx_t_6+=1) { 2024-03-20T11:24:19,128 | ~~~~~~~~~~^~~~~~~~~~~ 2024-03-20T11:24:19,129 moleculekit/bondguesser_utils/bondguesser_utils.cpp:19795:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘__pyx_t_11moleculekit_17bondguesser_utils_UINT32_t’ {aka ‘long unsigned int’} [-Wsign-compare] 2024-03-20T11:24:19,130 19795 | for (__pyx_t_9 = 0; __pyx_t_9 < __pyx_t_8; __pyx_t_9+=1) { 2024-03-20T11:24:19,131 | ~~~~~~~~~~^~~~~~~~~~~ 2024-03-20T11:24:19,131 moleculekit/bondguesser_utils/bondguesser_utils.cpp:19834:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2024-03-20T11:24:19,132 19834 | __pyx_t_12 = (__pyx_v_xi < (__pyx_v_xboxes - 1)); 2024-03-20T11:24:19,132 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2024-03-20T11:24:19,133 moleculekit/bondguesser_utils/bondguesser_utils.cpp:19873:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2024-03-20T11:24:19,133 19873 | __pyx_t_12 = (__pyx_v_yi < (__pyx_v_yboxes - 1)); 2024-03-20T11:24:19,134 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2024-03-20T11:24:19,135 moleculekit/bondguesser_utils/bondguesser_utils.cpp:19912:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2024-03-20T11:24:19,135 19912 | __pyx_t_12 = (__pyx_v_zi < (__pyx_v_zboxes - 1)); 2024-03-20T11:24:19,136 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2024-03-20T11:24:19,136 moleculekit/bondguesser_utils/bondguesser_utils.cpp:19951:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2024-03-20T11:24:19,137 19951 | __pyx_t_13 = (__pyx_v_xi < (__pyx_v_xboxes - 1)); 2024-03-20T11:24:19,138 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2024-03-20T11:24:19,139 moleculekit/bondguesser_utils/bondguesser_utils.cpp:19957:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2024-03-20T11:24:19,139 19957 | __pyx_t_13 = (__pyx_v_yi < (__pyx_v_yboxes - 1)); 2024-03-20T11:24:19,140 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2024-03-20T11:24:19,141 moleculekit/bondguesser_utils/bondguesser_utils.cpp:19998:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2024-03-20T11:24:19,142 19998 | __pyx_t_13 = (__pyx_v_xi < (__pyx_v_xboxes - 1)); 2024-03-20T11:24:19,142 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2024-03-20T11:24:19,143 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20004:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2024-03-20T11:24:19,144 20004 | __pyx_t_13 = (__pyx_v_zi < (__pyx_v_zboxes - 1)); 2024-03-20T11:24:19,144 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2024-03-20T11:24:19,145 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20045:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2024-03-20T11:24:19,146 20045 | __pyx_t_13 = (__pyx_v_yi < (__pyx_v_yboxes - 1)); 2024-03-20T11:24:19,146 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2024-03-20T11:24:19,147 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20051:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2024-03-20T11:24:19,148 20051 | __pyx_t_13 = (__pyx_v_zi < (__pyx_v_zboxes - 1)); 2024-03-20T11:24:19,149 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2024-03-20T11:24:19,149 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20092:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2024-03-20T11:24:19,150 20092 | __pyx_t_13 = (__pyx_v_xi < (__pyx_v_xboxes - 1)); 2024-03-20T11:24:19,151 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2024-03-20T11:24:19,152 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20145:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2024-03-20T11:24:19,152 20145 | __pyx_t_13 = (__pyx_v_zi < (__pyx_v_zboxes - 1)); 2024-03-20T11:24:19,153 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2024-03-20T11:24:19,153 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20192:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2024-03-20T11:24:19,154 20192 | __pyx_t_13 = (__pyx_v_zi < (__pyx_v_zboxes - 1)); 2024-03-20T11:24:19,155 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2024-03-20T11:24:19,155 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20233:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2024-03-20T11:24:19,156 20233 | __pyx_t_13 = (__pyx_v_xi < (__pyx_v_xboxes - 1)); 2024-03-20T11:24:19,156 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2024-03-20T11:24:19,157 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20239:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2024-03-20T11:24:19,158 20239 | __pyx_t_13 = (__pyx_v_yi < (__pyx_v_yboxes - 1)); 2024-03-20T11:24:19,158 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2024-03-20T11:24:19,159 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20245:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2024-03-20T11:24:19,159 20245 | __pyx_t_13 = (__pyx_v_zi < (__pyx_v_zboxes - 1)); 2024-03-20T11:24:19,160 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2024-03-20T11:24:19,161 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20292:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2024-03-20T11:24:19,162 20292 | __pyx_t_13 = (__pyx_v_yi < (__pyx_v_yboxes - 1)); 2024-03-20T11:24:19,162 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2024-03-20T11:24:19,163 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20298:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2024-03-20T11:24:19,164 20298 | __pyx_t_13 = (__pyx_v_zi < (__pyx_v_zboxes - 1)); 2024-03-20T11:24:19,164 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2024-03-20T11:24:19,165 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20339:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2024-03-20T11:24:19,166 20339 | __pyx_t_13 = (__pyx_v_xi < (__pyx_v_xboxes - 1)); 2024-03-20T11:24:19,167 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2024-03-20T11:24:19,167 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20351:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2024-03-20T11:24:19,168 20351 | __pyx_t_13 = (__pyx_v_zi < (__pyx_v_zboxes - 1)); 2024-03-20T11:24:19,169 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2024-03-20T11:24:19,169 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20404:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2024-03-20T11:24:19,170 20404 | __pyx_t_13 = (__pyx_v_zi < (__pyx_v_zboxes - 1)); 2024-03-20T11:24:19,171 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2024-03-20T11:24:19,172 moleculekit/bondguesser_utils/bondguesser_utils.cpp: In function ‘PyObject* __pyx_pf_11moleculekit_17bondguesser_utils_2grid_bonds(PyObject*, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, float, int, __Pyx_memviewslice, __Pyx_memviewslice)’: 2024-03-20T11:24:19,173 moleculekit/bondguesser_utils/bondguesser_utils.cpp:21026:37: warning: comparison of integer expressions of different signedness: ‘__pyx_t_11moleculekit_17bondguesser_utils_UINT32_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 2024-03-20T11:24:19,173 21026 | __pyx_t_6 = (__pyx_v_boxneigh == __pyx_v_n_boxes); 2024-03-20T11:24:19,174 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ 2024-03-20T11:24:19,174 moleculekit/bondguesser_utils/bondguesser_utils.cpp:21063:37: warning: comparison of integer expressions of different signedness: ‘__pyx_t_11moleculekit_17bondguesser_utils_UINT32_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 2024-03-20T11:24:19,175 21063 | __pyx_t_6 = (__pyx_v_boxneigh == __pyx_v_boxidx); 2024-03-20T11:24:19,175 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 2024-03-20T11:24:45,773 arm-linux-gnueabihf-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 build/temp.linux-armv7l-cpython-311/moleculekit/bondguesser_utils/bondguesser_utils.o -L/usr/lib/arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-311/moleculekit/bondguesser_utils.cpython-311-arm-linux-gnueabihf.so 2024-03-20T11:24:46,088 building 'moleculekit.atomselect_utils' extension 2024-03-20T11:24:46,089 creating build/temp.linux-armv7l-cpython-311/moleculekit/atomselect_utils 2024-03-20T11:24:46,090 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c moleculekit/atomselect_utils/atomselect_utils.cpp -o build/temp.linux-armv7l-cpython-311/moleculekit/atomselect_utils/atomselect_utils.o -O3 2024-03-20T11:24:46,408 In file included from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2024-03-20T11:24:46,409 from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-03-20T11:24:46,410 from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-03-20T11:24:46,410 from moleculekit/atomselect_utils/atomselect_utils.cpp:1252: 2024-03-20T11:24:46,411 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-03-20T11:24:46,412 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-03-20T11:24:46,412 | ^~~~~~~ 2024-03-20T11:24:48,924 moleculekit/atomselect_utils/atomselect_utils.cpp: In function ‘bool __pyx_f_11moleculekit_16atomselect_utils__find_connected_subfragment(int, int, const char*, const char*, const char*, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, std::vector >&, __Pyx_memviewslice, std::vector >&, std::vector >&, std::vector >&)’: 2024-03-20T11:24:48,925 moleculekit/atomselect_utils/atomselect_utils.cpp:23225:161: warning: comparison of integer expressions of different signedness: ‘__pyx_t_11moleculekit_16atomselect_utils_UINT32_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 2024-03-20T11:24:48,926 23225 | __pyx_t_3 = ((*((__pyx_t_11moleculekit_16atomselect_utils_UINT32_t *) ( /* dim=0 */ (__pyx_v_uq_resid.data + __pyx_t_2 * __pyx_v_uq_resid.strides[0]) ))) != __pyx_v_resnum); 2024-03-20T11:24:48,926 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 2024-03-20T11:24:48,932 moleculekit/atomselect_utils/atomselect_utils.cpp: In function ‘bool __pyx_f_11moleculekit_16atomselect_utils__find_subfragments(int, std::vector >&, std::vector >&, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, std::vector >&, __Pyx_memviewslice, std::vector >&)’: 2024-03-20T11:24:48,932 moleculekit/atomselect_utils/atomselect_utils.cpp:23477:163: warning: comparison of integer expressions of different signedness: ‘__pyx_t_11moleculekit_16atomselect_utils_UINT32_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 2024-03-20T11:24:48,933 23477 | __pyx_t_6 = ((*((__pyx_t_11moleculekit_16atomselect_utils_UINT32_t *) ( /* dim=0 */ (__pyx_v_uq_resid.data + __pyx_t_5 * __pyx_v_uq_resid.strides[0]) ))) != __pyx_v_i); 2024-03-20T11:24:48,934 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2024-03-20T11:24:48,939 moleculekit/atomselect_utils/atomselect_utils.cpp: In function ‘bool __pyx_f_11moleculekit_16atomselect_utils__find_subfragments_topologically(int, std::vector >&, std::vector >&, __Pyx_memviewslice, __Pyx_memviewslice, __Pyx_memviewslice, std::vector >&, __Pyx_memviewslice, std::vector >&)’: 2024-03-20T11:24:48,940 moleculekit/atomselect_utils/atomselect_utils.cpp:23744:163: warning: comparison of integer expressions of different signedness: ‘__pyx_t_11moleculekit_16atomselect_utils_UINT32_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 2024-03-20T11:24:48,941 23744 | __pyx_t_6 = ((*((__pyx_t_11moleculekit_16atomselect_utils_UINT32_t *) ( /* dim=0 */ (__pyx_v_uq_resid.data + __pyx_t_5 * __pyx_v_uq_resid.strides[0]) ))) != __pyx_v_i); 2024-03-20T11:24:48,941 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2024-03-20T11:25:23,335 arm-linux-gnueabihf-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 build/temp.linux-armv7l-cpython-311/moleculekit/atomselect_utils/atomselect_utils.o -L/usr/lib/arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-311/moleculekit/atomselect_utils.cpython-311-arm-linux-gnueabihf.so 2024-03-20T11:25:23,632 building 'moleculekit.distance_utils' extension 2024-03-20T11:25:23,633 creating build/temp.linux-armv7l-cpython-311/moleculekit/distance_utils 2024-03-20T11:25:23,634 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c moleculekit/distance_utils/distance_utils.cpp -o build/temp.linux-armv7l-cpython-311/moleculekit/distance_utils/distance_utils.o -O3 2024-03-20T11:25:23,983 In file included from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2024-03-20T11:25:23,984 from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-03-20T11:25:23,985 from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-03-20T11:25:23,985 from moleculekit/distance_utils/distance_utils.cpp:1235: 2024-03-20T11:25:23,987 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-03-20T11:25:23,988 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-03-20T11:25:23,990 | ^~~~~~~ 2024-03-20T11:25:26,396 moleculekit/distance_utils/distance_utils.cpp: In function ‘PyObject* __pyx_pf_11moleculekit_14distance_utils_2get_collisions(PyObject*, __Pyx_memviewslice, __Pyx_memviewslice, float)’: 2024-03-20T11:25:26,397 moleculekit/distance_utils/distance_utils.cpp:21329:33: warning: comparison of integer expressions of different signedness: ‘__pyx_t_11moleculekit_14distance_utils_UINT32_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 2024-03-20T11:25:26,397 21329 | for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_2; __pyx_t_3+=1) { 2024-03-20T11:25:26,398 | ~~~~~~~~~~^~~~~~~~~~~ 2024-03-20T11:25:26,398 moleculekit/distance_utils/distance_utils.cpp:21341:35: warning: comparison of integer expressions of different signedness: ‘__pyx_t_11moleculekit_14distance_utils_UINT32_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 2024-03-20T11:25:26,399 21341 | for (__pyx_t_6 = 0; __pyx_t_6 < __pyx_t_5; __pyx_t_6+=1) { 2024-03-20T11:25:26,399 | ~~~~~~~~~~^~~~~~~~~~~ 2024-03-20T11:26:03,746 arm-linux-gnueabihf-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 build/temp.linux-armv7l-cpython-311/moleculekit/distance_utils/distance_utils.o -L/usr/lib/arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-311/moleculekit/distance_utils.cpython-311-arm-linux-gnueabihf.so 2024-03-20T11:26:04,048 building 'moleculekit.occupancy_utils' extension 2024-03-20T11:26:04,048 creating build/temp.linux-armv7l-cpython-311/moleculekit/occupancy_utils 2024-03-20T11:26:04,049 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c moleculekit/occupancy_utils/occupancy_utils.cpp -o build/temp.linux-armv7l-cpython-311/moleculekit/occupancy_utils/occupancy_utils.o -O3 2024-03-20T11:26:04,390 In file included from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2024-03-20T11:26:04,390 from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-03-20T11:26:04,391 from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-03-20T11:26:04,392 from moleculekit/occupancy_utils/occupancy_utils.cpp:1235: 2024-03-20T11:26:04,392 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-03-20T11:26:04,393 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-03-20T11:26:04,393 | ^~~~~~~ 2024-03-20T11:26:31,707 arm-linux-gnueabihf-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 build/temp.linux-armv7l-cpython-311/moleculekit/occupancy_utils/occupancy_utils.o -L/usr/lib/arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-311/moleculekit/occupancy_utils.cpython-311-arm-linux-gnueabihf.so 2024-03-20T11:26:31,901 building 'moleculekit.cython_utils' extension 2024-03-20T11:26:31,901 creating build/temp.linux-armv7l-cpython-311/moleculekit/cython_utils 2024-03-20T11:26:31,902 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c moleculekit/cython_utils/cython_utils.cpp -o build/temp.linux-armv7l-cpython-311/moleculekit/cython_utils/cython_utils.o -O3 2024-03-20T11:26:32,208 In file included from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2024-03-20T11:26:32,209 from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-03-20T11:26:32,210 from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-03-20T11:26:32,210 from moleculekit/cython_utils/cython_utils.cpp:1235: 2024-03-20T11:26:32,211 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-03-20T11:26:32,211 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-03-20T11:26:32,212 | ^~~~~~~ 2024-03-20T11:27:02,274 arm-linux-gnueabihf-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 build/temp.linux-armv7l-cpython-311/moleculekit/cython_utils/cython_utils.o -L/usr/lib/arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-311/moleculekit/cython_utils.cpython-311-arm-linux-gnueabihf.so 2024-03-20T11:27:02,558 building 'moleculekit.xtc' extension 2024-03-20T11:27:02,558 creating build/temp.linux-armv7l-cpython-311/moleculekit/fileformats 2024-03-20T11:27:02,559 creating build/temp.linux-armv7l-cpython-311/moleculekit/fileformats/xtc 2024-03-20T11:27:02,560 creating build/temp.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/src 2024-03-20T11:27:02,561 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Imoleculekit/fileformats/xtc -Imoleculekit/fileformats/xtc/include/ -Imoleculekit/fileformats/xtc/ -I/tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c moleculekit/fileformats/xtc/src/xdrfile.cpp -o build/temp.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/src/xdrfile.o 2024-03-20T11:27:03,481 moleculekit/fileformats/xtc/src/xdrfile.cpp:66:9: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2024-03-20T11:27:03,482 66 | "OK", 2024-03-20T11:27:03,483 | ^~~~ 2024-03-20T11:27:03,484 moleculekit/fileformats/xtc/src/xdrfile.cpp:67:9: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2024-03-20T11:27:03,484 67 | "Header", 2024-03-20T11:27:03,485 | ^~~~~~~~ 2024-03-20T11:27:03,486 moleculekit/fileformats/xtc/src/xdrfile.cpp:68:9: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2024-03-20T11:27:03,487 68 | "String", 2024-03-20T11:27:03,488 | ^~~~~~~~ 2024-03-20T11:27:03,489 moleculekit/fileformats/xtc/src/xdrfile.cpp:69:9: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2024-03-20T11:27:03,489 69 | "Double", 2024-03-20T11:27:03,490 | ^~~~~~~~ 2024-03-20T11:27:03,493 moleculekit/fileformats/xtc/src/xdrfile.cpp:70:9: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2024-03-20T11:27:03,494 70 | "Integer", 2024-03-20T11:27:03,495 | ^~~~~~~~~ 2024-03-20T11:27:03,499 moleculekit/fileformats/xtc/src/xdrfile.cpp:71:9: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2024-03-20T11:27:03,500 71 | "Float", 2024-03-20T11:27:03,501 | ^~~~~~~ 2024-03-20T11:27:03,501 moleculekit/fileformats/xtc/src/xdrfile.cpp:72:9: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2024-03-20T11:27:03,502 72 | "Unsigned integer", 2024-03-20T11:27:03,503 | ^~~~~~~~~~~~~~~~~~ 2024-03-20T11:27:03,504 moleculekit/fileformats/xtc/src/xdrfile.cpp:73:9: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2024-03-20T11:27:03,505 73 | "Compressed 3D coordinate", 2024-03-20T11:27:03,505 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-03-20T11:27:03,506 moleculekit/fileformats/xtc/src/xdrfile.cpp:74:9: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2024-03-20T11:27:03,507 74 | "Closing file", 2024-03-20T11:27:03,508 | ^~~~~~~~~~~~~~ 2024-03-20T11:27:03,508 moleculekit/fileformats/xtc/src/xdrfile.cpp:75:9: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2024-03-20T11:27:03,509 75 | "Magic number", 2024-03-20T11:27:03,510 | ^~~~~~~~~~~~~~ 2024-03-20T11:27:03,511 moleculekit/fileformats/xtc/src/xdrfile.cpp:76:9: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2024-03-20T11:27:03,512 76 | "Not enough memory", 2024-03-20T11:27:03,512 | ^~~~~~~~~~~~~~~~~~~ 2024-03-20T11:27:03,513 moleculekit/fileformats/xtc/src/xdrfile.cpp:77:9: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2024-03-20T11:27:03,514 77 | "End of file", 2024-03-20T11:27:03,515 | ^~~~~~~~~~~~~ 2024-03-20T11:27:03,515 moleculekit/fileformats/xtc/src/xdrfile.cpp:78:9: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2024-03-20T11:27:03,516 78 | "File not found" 2024-03-20T11:27:03,517 | ^~~~~~~~~~~~~~~~ 2024-03-20T11:27:03,517 moleculekit/fileformats/xtc/src/xdrfile.cpp: In function ‘int sizeofint(int)’: 2024-03-20T11:27:03,518 moleculekit/fileformats/xtc/src/xdrfile.cpp:459:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-03-20T11:27:03,519 459 | while (size >= num && num_of_bits < 32) 2024-03-20T11:27:03,520 | ~~~~~^~~~~~ 2024-03-20T11:27:03,521 moleculekit/fileformats/xtc/src/xdrfile.cpp: In function ‘int sizeofints(int, unsigned int*)’: 2024-03-20T11:27:03,525 moleculekit/fileformats/xtc/src/xdrfile.cpp:505:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-03-20T11:27:03,526 505 | while (bytes[num_of_bytes] >= num) 2024-03-20T11:27:03,527 | ~~~~~~~~~~~~~~~~~~~~^~~~~~ 2024-03-20T11:27:03,527 moleculekit/fileformats/xtc/src/xdrfile.cpp: In function ‘void encodeints(int*, int, int, unsigned int*, unsigned int*)’: 2024-03-20T11:27:03,528 moleculekit/fileformats/xtc/src/xdrfile.cpp:614:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-03-20T11:27:03,529 614 | if (num_of_bits >= num_of_bytes * 8) 2024-03-20T11:27:03,529 | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ 2024-03-20T11:27:03,530 moleculekit/fileformats/xtc/src/xdrfile.cpp:616:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-03-20T11:27:03,531 616 | for (i = 0; i < num_of_bytes; i++) 2024-03-20T11:27:03,532 | ~~^~~~~~~~~~~~~~ 2024-03-20T11:27:03,533 moleculekit/fileformats/xtc/src/xdrfile.cpp:624:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-03-20T11:27:03,533 624 | for (i = 0; i < num_of_bytes-1; i++) 2024-03-20T11:27:03,534 | ~~^~~~~~~~~~~~~~~~ 2024-03-20T11:27:03,535 moleculekit/fileformats/xtc/src/xdrfile.cpp: In function ‘int decodebits(int*, int)’: 2024-03-20T11:27:03,536 moleculekit/fileformats/xtc/src/xdrfile.cpp:664:30: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-03-20T11:27:03,537 664 | if (lastbits < num_of_bits) 2024-03-20T11:27:03,538 | ~~~~~~~~~^~~~~~~~~~~~~ 2024-03-20T11:27:03,538 moleculekit/fileformats/xtc/src/xdrfile.cpp: In function ‘int xdrfile_decompress_coord_float(float*, int*, float*, XDRFILE*)’: 2024-03-20T11:27:03,539 moleculekit/fileformats/xtc/src/xdrfile.cpp:785:17: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-03-20T11:27:03,539 785 | if(size3>xfp->buf1size) 2024-03-20T11:27:03,540 | ~~~~~^~~~~~~~~~~~~~ 2024-03-20T11:27:03,541 moleculekit/fileformats/xtc/src/xdrfile.cpp:842:26: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-03-20T11:27:03,541 842 | maxidx = (LASTIDX= size3 ) { return -1; } 2024-03-20T11:27:03,544 | ~~~~~~~~~^~~~~~~~ 2024-03-20T11:27:03,545 moleculekit/fileformats/xtc/src/xdrfile.cpp:935:45: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-03-20T11:27:03,546 935 | if(countmjh >= size3 ) { return -1; } 2024-03-20T11:27:03,546 | ~~~~~~~~~^~~~~~~~ 2024-03-20T11:27:03,547 moleculekit/fileformats/xtc/src/xdrfile.cpp:938:45: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-03-20T11:27:03,548 938 | if(countmjh >= size3 ) { return -1; } 2024-03-20T11:27:03,549 | ~~~~~~~~~^~~~~~~~ 2024-03-20T11:27:03,549 moleculekit/fileformats/xtc/src/xdrfile.cpp:945:45: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-03-20T11:27:03,557 945 | if(countmjh >= size3 ) { return -1; } 2024-03-20T11:27:03,558 | ~~~~~~~~~^~~~~~~~ 2024-03-20T11:27:03,559 moleculekit/fileformats/xtc/src/xdrfile.cpp:948:45: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-03-20T11:27:03,559 948 | if(countmjh >= size3 ) { return -1; } 2024-03-20T11:27:03,561 | ~~~~~~~~~^~~~~~~~ 2024-03-20T11:27:03,562 moleculekit/fileformats/xtc/src/xdrfile.cpp:951:45: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-03-20T11:27:03,562 951 | if(countmjh >= size3 ) { return -1; } 2024-03-20T11:27:03,563 | ~~~~~~~~~^~~~~~~~ 2024-03-20T11:27:03,564 moleculekit/fileformats/xtc/src/xdrfile.cpp:756:24: warning: variable ‘minidx’ set but not used [-Wunused-but-set-variable] 2024-03-20T11:27:03,565 756 | int smallidx, minidx, maxidx; 2024-03-20T11:27:03,566 | ^~~~~~ 2024-03-20T11:27:03,567 moleculekit/fileformats/xtc/src/xdrfile.cpp:759:32: warning: variable ‘larger’ set but not used [-Wunused-but-set-variable] 2024-03-20T11:27:03,567 759 | int smallnum, smaller, larger, i, is_smaller, run; 2024-03-20T11:27:03,568 | ^~~~~~ 2024-03-20T11:27:03,569 moleculekit/fileformats/xtc/src/xdrfile.cpp:763:13: warning: unused variable ‘errval’ [-Wunused-variable] 2024-03-20T11:27:03,570 763 | int errval=1; 2024-03-20T11:27:03,571 | ^~~~~~ 2024-03-20T11:27:03,572 moleculekit/fileformats/xtc/src/xdrfile.cpp: In function ‘int xdrfile_compress_coord_float(float*, int, float, XDRFILE*)’: 2024-03-20T11:27:03,573 moleculekit/fileformats/xtc/src/xdrfile.cpp:1011:17: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-03-20T11:27:03,573 1011 | if(size3>xfp->buf1size) 2024-03-20T11:27:03,574 | ~~~~~^~~~~~~~~~~~~~ 2024-03-20T11:27:03,575 moleculekit/fileformats/xtc/src/xdrfile.cpp:1068:41: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-03-20T11:27:03,575 1068 | countmjh++; if( countmjh> size3) { return -1; } 2024-03-20T11:27:03,576 | ~~~~~~~~^~~~~~~ 2024-03-20T11:27:03,577 moleculekit/fileformats/xtc/src/xdrfile.cpp:1084:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-03-20T11:27:03,578 1084 | countmjh++; if( countmjh> size3) { return -1; } 2024-03-20T11:27:03,578 | ~~~~~~~~^~~~~~~ 2024-03-20T11:27:03,579 moleculekit/fileformats/xtc/src/xdrfile.cpp:1098:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-03-20T11:27:03,580 1098 | countmjh++; if( countmjh> size3) { return -1; } 2024-03-20T11:27:03,581 | ~~~~~~~~^~~~~~~ 2024-03-20T11:27:03,581 moleculekit/fileformats/xtc/src/xdrfile.cpp:1137:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-03-20T11:27:03,582 1137 | while (smallidx < LASTIDX && magicints[smallidx] < mindiff) 2024-03-20T11:27:03,583 | ^ 2024-03-20T11:27:03,584 moleculekit/fileformats/xtc/src/xdrfile.cpp:1143:26: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-03-20T11:27:03,585 1143 | maxidx = (LASTIDXxfp->buf1size) 2024-03-20T11:27:03,593 | ~~~~~^~~~~~~~~~~~~~ 2024-03-20T11:27:03,594 moleculekit/fileformats/xtc/src/xdrfile.cpp:1377:26: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-03-20T11:27:03,595 1377 | maxidx = (LASTIDXxfp->buf1size) { 2024-03-20T11:27:03,605 | ~~~~~^~~~~~~~~~~~~~ 2024-03-20T11:27:03,606 moleculekit/fileformats/xtc/src/xdrfile.cpp:1628:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-03-20T11:27:03,606 1628 | while (smallidx < LASTIDX && magicints[smallidx] < mindiff) { 2024-03-20T11:27:03,607 | ^ 2024-03-20T11:27:03,608 moleculekit/fileformats/xtc/src/xdrfile.cpp:1633:26: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-03-20T11:27:03,608 1633 | maxidx = (LASTIDX= num && num_of_bits < 32) 2024-03-20T11:27:34,310 | ~~~~~^~~~~~ 2024-03-20T11:27:34,310 moleculekit/fileformats/xtc/src/xdrfile.cpp: In function ‘int sizeofints(int, unsigned int*)’: 2024-03-20T11:27:34,311 moleculekit/fileformats/xtc/src/xdrfile.cpp:505:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-03-20T11:27:34,311 505 | while (bytes[num_of_bytes] >= num) 2024-03-20T11:27:34,312 | ~~~~~~~~~~~~~~~~~~~~^~~~~~ 2024-03-20T11:27:34,313 moleculekit/fileformats/xtc/src/xdrfile.cpp: In function ‘void encodeints(int*, int, int, unsigned int*, unsigned int*)’: 2024-03-20T11:27:34,313 moleculekit/fileformats/xtc/src/xdrfile.cpp:614:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-03-20T11:27:34,314 614 | if (num_of_bits >= num_of_bytes * 8) 2024-03-20T11:27:34,314 | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ 2024-03-20T11:27:34,315 moleculekit/fileformats/xtc/src/xdrfile.cpp:616:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-03-20T11:27:34,316 616 | for (i = 0; i < num_of_bytes; i++) 2024-03-20T11:27:34,317 | ~~^~~~~~~~~~~~~~ 2024-03-20T11:27:34,317 moleculekit/fileformats/xtc/src/xdrfile.cpp:624:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-03-20T11:27:34,318 624 | for (i = 0; i < num_of_bytes-1; i++) 2024-03-20T11:27:34,319 | ~~^~~~~~~~~~~~~~~~ 2024-03-20T11:27:34,320 moleculekit/fileformats/xtc/src/xdrfile.cpp: In function ‘int decodebits(int*, int)’: 2024-03-20T11:27:34,320 moleculekit/fileformats/xtc/src/xdrfile.cpp:664:30: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-03-20T11:27:34,321 664 | if (lastbits < num_of_bits) 2024-03-20T11:27:34,322 | ~~~~~~~~~^~~~~~~~~~~~~ 2024-03-20T11:27:34,322 moleculekit/fileformats/xtc/src/xdrfile.cpp: In function ‘int xdrfile_decompress_coord_float(float*, int*, float*, XDRFILE*)’: 2024-03-20T11:27:34,323 moleculekit/fileformats/xtc/src/xdrfile.cpp:785:17: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-03-20T11:27:34,324 785 | if(size3>xfp->buf1size) 2024-03-20T11:27:34,324 | ~~~~~^~~~~~~~~~~~~~ 2024-03-20T11:27:34,325 moleculekit/fileformats/xtc/src/xdrfile.cpp:842:26: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-03-20T11:27:34,326 842 | maxidx = (LASTIDX= size3 ) { return -1; } 2024-03-20T11:27:34,329 | ~~~~~~~~~^~~~~~~~ 2024-03-20T11:27:34,329 moleculekit/fileformats/xtc/src/xdrfile.cpp:935:45: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-03-20T11:27:34,330 935 | if(countmjh >= size3 ) { return -1; } 2024-03-20T11:27:34,330 | ~~~~~~~~~^~~~~~~~ 2024-03-20T11:27:34,331 moleculekit/fileformats/xtc/src/xdrfile.cpp:938:45: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-03-20T11:27:34,331 938 | if(countmjh >= size3 ) { return -1; } 2024-03-20T11:27:34,332 | ~~~~~~~~~^~~~~~~~ 2024-03-20T11:27:34,332 moleculekit/fileformats/xtc/src/xdrfile.cpp:945:45: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-03-20T11:27:34,333 945 | if(countmjh >= size3 ) { return -1; } 2024-03-20T11:27:34,334 | ~~~~~~~~~^~~~~~~~ 2024-03-20T11:27:34,334 moleculekit/fileformats/xtc/src/xdrfile.cpp:948:45: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-03-20T11:27:34,335 948 | if(countmjh >= size3 ) { return -1; } 2024-03-20T11:27:34,335 | ~~~~~~~~~^~~~~~~~ 2024-03-20T11:27:34,336 moleculekit/fileformats/xtc/src/xdrfile.cpp:951:45: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-03-20T11:27:34,337 951 | if(countmjh >= size3 ) { return -1; } 2024-03-20T11:27:34,338 | ~~~~~~~~~^~~~~~~~ 2024-03-20T11:27:34,338 moleculekit/fileformats/xtc/src/xdrfile.cpp:756:24: warning: variable ‘minidx’ set but not used [-Wunused-but-set-variable] 2024-03-20T11:27:34,339 756 | int smallidx, minidx, maxidx; 2024-03-20T11:27:34,340 | ^~~~~~ 2024-03-20T11:27:34,341 moleculekit/fileformats/xtc/src/xdrfile.cpp:759:32: warning: variable ‘larger’ set but not used [-Wunused-but-set-variable] 2024-03-20T11:27:34,342 759 | int smallnum, smaller, larger, i, is_smaller, run; 2024-03-20T11:27:34,343 | ^~~~~~ 2024-03-20T11:27:34,344 moleculekit/fileformats/xtc/src/xdrfile.cpp:763:13: warning: unused variable ‘errval’ [-Wunused-variable] 2024-03-20T11:27:34,344 763 | int errval=1; 2024-03-20T11:27:34,345 | ^~~~~~ 2024-03-20T11:27:34,346 moleculekit/fileformats/xtc/src/xdrfile.cpp: In function ‘int xdrfile_compress_coord_float(float*, int, float, XDRFILE*)’: 2024-03-20T11:27:34,347 moleculekit/fileformats/xtc/src/xdrfile.cpp:1011:17: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-03-20T11:27:34,348 1011 | if(size3>xfp->buf1size) 2024-03-20T11:27:34,349 | ~~~~~^~~~~~~~~~~~~~ 2024-03-20T11:27:34,349 moleculekit/fileformats/xtc/src/xdrfile.cpp:1068:41: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-03-20T11:27:34,350 1068 | countmjh++; if( countmjh> size3) { return -1; } 2024-03-20T11:27:34,351 | ~~~~~~~~^~~~~~~ 2024-03-20T11:27:34,352 moleculekit/fileformats/xtc/src/xdrfile.cpp:1084:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-03-20T11:27:34,352 1084 | countmjh++; if( countmjh> size3) { return -1; } 2024-03-20T11:27:34,354 | ~~~~~~~~^~~~~~~ 2024-03-20T11:27:34,354 moleculekit/fileformats/xtc/src/xdrfile.cpp:1098:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-03-20T11:27:34,355 1098 | countmjh++; if( countmjh> size3) { return -1; } 2024-03-20T11:27:34,355 | ~~~~~~~~^~~~~~~ 2024-03-20T11:27:34,356 moleculekit/fileformats/xtc/src/xdrfile.cpp:1137:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-03-20T11:27:34,356 1137 | while (smallidx < LASTIDX && magicints[smallidx] < mindiff) 2024-03-20T11:27:34,357 | ^ 2024-03-20T11:27:34,357 moleculekit/fileformats/xtc/src/xdrfile.cpp:1143:26: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-03-20T11:27:34,358 1143 | maxidx = (LASTIDXxfp->buf1size) 2024-03-20T11:27:34,364 | ~~~~~^~~~~~~~~~~~~~ 2024-03-20T11:27:34,365 moleculekit/fileformats/xtc/src/xdrfile.cpp:1377:26: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-03-20T11:27:34,366 1377 | maxidx = (LASTIDXxfp->buf1size) { 2024-03-20T11:27:34,376 | ~~~~~^~~~~~~~~~~~~~ 2024-03-20T11:27:34,377 moleculekit/fileformats/xtc/src/xdrfile.cpp:1628:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-03-20T11:27:34,377 1628 | while (smallidx < LASTIDX && magicints[smallidx] < mindiff) { 2024-03-20T11:27:34,378 | ^ 2024-03-20T11:27:34,378 moleculekit/fileformats/xtc/src/xdrfile.cpp:1633:26: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-03-20T11:27:34,379 1633 | maxidx = (LASTIDX= __pyx_pybuffernd_forces.diminfo[2].shape)) __pyx_t_4 = 2; 2024-03-20T11:28:14,397 | ^ 2024-03-20T11:28:14,407 moleculekit/fileformats/xtc/trr.c:10061:21: note: ‘__pyx_pybuffernd_forces.diminfo[2].shape’ was declared here 2024-03-20T11:28:14,408 10061 | __Pyx_LocalBuf_ND __pyx_pybuffernd_forces; 2024-03-20T11:28:14,408 | ^~~~~~~~~~~~~~~~~~~~~~~ 2024-03-20T11:28:14,419 moleculekit/fileformats/xtc/trr.c:11525:19: warning: ‘__pyx_pybuffernd_forces.diminfo[1].shape’ may be used uninitialized [-Wmaybe-uninitialized] 2024-03-20T11:28:14,420 11525 | } else if (unlikely(__pyx_t_30 >= __pyx_pybuffernd_forces.diminfo[1].shape)) __pyx_t_4 = 1; 2024-03-20T11:28:14,420 | ^ 2024-03-20T11:28:14,430 moleculekit/fileformats/xtc/trr.c:10061:21: note: ‘__pyx_pybuffernd_forces.diminfo[1].shape’ was declared here 2024-03-20T11:28:14,431 10061 | __Pyx_LocalBuf_ND __pyx_pybuffernd_forces; 2024-03-20T11:28:14,431 | ^~~~~~~~~~~~~~~~~~~~~~~ 2024-03-20T11:28:14,433 moleculekit/fileformats/xtc/trr.c:2479:95: warning: ‘__pyx_pybuffernd_forces.diminfo[0].strides’ may be used uninitialized [-Wmaybe-uninitialized] 2024-03-20T11:28:14,434 2479 | #define __Pyx_BufPtrCContig3d(type, buf, i0, s0, i1, s1, i2, s2) ((type)((char*)buf + i0 * s0 + i1 * s1) + i2) 2024-03-20T11:28:14,435 | ^ 2024-03-20T11:28:14,444 moleculekit/fileformats/xtc/trr.c:10061:21: note: ‘__pyx_pybuffernd_forces.diminfo[0].strides’ was declared here 2024-03-20T11:28:14,445 10061 | __Pyx_LocalBuf_ND __pyx_pybuffernd_forces; 2024-03-20T11:28:14,445 | ^~~~~~~~~~~~~~~~~~~~~~~ 2024-03-20T11:28:14,456 moleculekit/fileformats/xtc/trr.c:11519:59: warning: ‘__pyx_pybuffernd_forces.diminfo[0].shape’ may be used uninitialized [-Wmaybe-uninitialized] 2024-03-20T11:28:14,457 11519 | __pyx_t_28 += __pyx_pybuffernd_forces.diminfo[0].shape; 2024-03-20T11:28:14,458 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ 2024-03-20T11:28:14,467 moleculekit/fileformats/xtc/trr.c:10061:21: note: ‘__pyx_pybuffernd_forces.diminfo[0].shape’ was declared here 2024-03-20T11:28:14,468 10061 | __Pyx_LocalBuf_ND __pyx_pybuffernd_forces; 2024-03-20T11:28:14,469 | ^~~~~~~~~~~~~~~~~~~~~~~ 2024-03-20T11:28:14,479 moleculekit/fileformats/xtc/trr.c:11472:19: warning: ‘__pyx_pybuffernd_vel.diminfo[2].shape’ may be used uninitialized [-Wmaybe-uninitialized] 2024-03-20T11:28:14,480 11472 | } else if (unlikely(__pyx_t_30 >= __pyx_pybuffernd_vel.diminfo[2].shape)) __pyx_t_4 = 2; 2024-03-20T11:28:14,480 | ^ 2024-03-20T11:28:14,489 moleculekit/fileformats/xtc/trr.c:10077:21: note: ‘__pyx_pybuffernd_vel.diminfo[2].shape’ was declared here 2024-03-20T11:28:14,490 10077 | __Pyx_LocalBuf_ND __pyx_pybuffernd_vel; 2024-03-20T11:28:14,491 | ^~~~~~~~~~~~~~~~~~~~ 2024-03-20T11:28:14,720 moleculekit/fileformats/xtc/trr.c:11468:19: warning: ‘__pyx_pybuffernd_vel.diminfo[1].shape’ may be used uninitialized [-Wmaybe-uninitialized] 2024-03-20T11:28:14,720 11468 | } else if (unlikely(__pyx_t_29 >= __pyx_pybuffernd_vel.diminfo[1].shape)) __pyx_t_4 = 1; 2024-03-20T11:28:14,721 | ^ 2024-03-20T11:28:14,722 moleculekit/fileformats/xtc/trr.c:10077:21: note: ‘__pyx_pybuffernd_vel.diminfo[1].shape’ was declared here 2024-03-20T11:28:14,722 10077 | __Pyx_LocalBuf_ND __pyx_pybuffernd_vel; 2024-03-20T11:28:14,723 | ^~~~~~~~~~~~~~~~~~~~ 2024-03-20T11:28:14,724 moleculekit/fileformats/xtc/trr.c:2479:95: warning: ‘__pyx_pybuffernd_vel.diminfo[0].strides’ may be used uninitialized [-Wmaybe-uninitialized] 2024-03-20T11:28:14,724 2479 | #define __Pyx_BufPtrCContig3d(type, buf, i0, s0, i1, s1, i2, s2) ((type)((char*)buf + i0 * s0 + i1 * s1) + i2) 2024-03-20T11:28:14,725 | ^ 2024-03-20T11:28:14,726 moleculekit/fileformats/xtc/trr.c:10077:21: note: ‘__pyx_pybuffernd_vel.diminfo[0].strides’ was declared here 2024-03-20T11:28:14,726 10077 | __Pyx_LocalBuf_ND __pyx_pybuffernd_vel; 2024-03-20T11:28:14,726 | ^~~~~~~~~~~~~~~~~~~~ 2024-03-20T11:28:14,727 moleculekit/fileformats/xtc/trr.c:11462:56: warning: ‘__pyx_pybuffernd_vel.diminfo[0].shape’ may be used uninitialized [-Wmaybe-uninitialized] 2024-03-20T11:28:14,727 11462 | __pyx_t_28 += __pyx_pybuffernd_vel.diminfo[0].shape; 2024-03-20T11:28:14,728 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ 2024-03-20T11:28:14,728 moleculekit/fileformats/xtc/trr.c:10077:21: note: ‘__pyx_pybuffernd_vel.diminfo[0].shape’ was declared here 2024-03-20T11:28:14,729 10077 | __Pyx_LocalBuf_ND __pyx_pybuffernd_vel; 2024-03-20T11:28:14,730 | ^~~~~~~~~~~~~~~~~~~~ 2024-03-20T11:28:14,730 moleculekit/fileformats/xtc/trr.c:11861:17: warning: ‘__pyx_pybuffernd_xyz_buffer.diminfo[1].shape’ may be used uninitialized [-Wmaybe-uninitialized] 2024-03-20T11:28:14,731 11861 | } else if (unlikely(__pyx_t_29 >= __pyx_pybuffernd_xyz_buffer.diminfo[1].shape)) __pyx_t_4 = 1; 2024-03-20T11:28:14,732 | ^ 2024-03-20T11:28:14,732 moleculekit/fileformats/xtc/trr.c:10083:21: note: ‘__pyx_pybuffernd_xyz_buffer.diminfo[1].shape’ was declared here 2024-03-20T11:28:14,733 10083 | __Pyx_LocalBuf_ND __pyx_pybuffernd_xyz_buffer; 2024-03-20T11:28:14,733 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-03-20T11:28:14,734 moleculekit/fileformats/xtc/trr.c:11857:17: warning: ‘__pyx_pybuffernd_xyz_buffer.diminfo[0].shape’ may be used uninitialized [-Wmaybe-uninitialized] 2024-03-20T11:28:14,735 11857 | } else if (unlikely(__pyx_t_30 >= __pyx_pybuffernd_xyz_buffer.diminfo[0].shape)) __pyx_t_4 = 0; 2024-03-20T11:28:14,735 | ^ 2024-03-20T11:28:14,736 moleculekit/fileformats/xtc/trr.c:10083:21: note: ‘__pyx_pybuffernd_xyz_buffer.diminfo[0].shape’ was declared here 2024-03-20T11:28:14,737 10083 | __Pyx_LocalBuf_ND __pyx_pybuffernd_xyz_buffer; 2024-03-20T11:28:14,738 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-03-20T11:28:14,739 moleculekit/fileformats/xtc/trr.c:11702:19: warning: ‘__pyx_pybuffernd_vel_buffer.diminfo[1].shape’ may be used uninitialized [-Wmaybe-uninitialized] 2024-03-20T11:28:14,739 11702 | } else if (unlikely(__pyx_t_35 >= __pyx_pybuffernd_vel_buffer.diminfo[1].shape)) __pyx_t_4 = 1; 2024-03-20T11:28:14,740 | ^ 2024-03-20T11:28:14,740 moleculekit/fileformats/xtc/trr.c:10079:21: note: ‘__pyx_pybuffernd_vel_buffer.diminfo[1].shape’ was declared here 2024-03-20T11:28:14,741 10079 | __Pyx_LocalBuf_ND __pyx_pybuffernd_vel_buffer; 2024-03-20T11:28:14,742 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-03-20T11:28:14,742 moleculekit/fileformats/xtc/trr.c:11698:19: warning: ‘__pyx_pybuffernd_vel_buffer.diminfo[0].shape’ may be used uninitialized [-Wmaybe-uninitialized] 2024-03-20T11:28:14,743 11698 | } else if (unlikely(__pyx_t_36 >= __pyx_pybuffernd_vel_buffer.diminfo[0].shape)) __pyx_t_4 = 0; 2024-03-20T11:28:14,743 | ^ 2024-03-20T11:28:14,744 moleculekit/fileformats/xtc/trr.c:10079:21: note: ‘__pyx_pybuffernd_vel_buffer.diminfo[0].shape’ was declared here 2024-03-20T11:28:14,745 10079 | __Pyx_LocalBuf_ND __pyx_pybuffernd_vel_buffer; 2024-03-20T11:28:14,745 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-03-20T11:28:14,746 moleculekit/fileformats/xtc/trr.c:11754:19: warning: ‘__pyx_pybuffernd_forces_buffer.diminfo[1].shape’ may be used uninitialized [-Wmaybe-uninitialized] 2024-03-20T11:28:14,746 11754 | } else if (unlikely(__pyx_t_36 >= __pyx_pybuffernd_forces_buffer.diminfo[1].shape)) __pyx_t_4 = 1; 2024-03-20T11:28:14,747 | ^ 2024-03-20T11:28:14,748 moleculekit/fileformats/xtc/trr.c:10063:21: note: ‘__pyx_pybuffernd_forces_buffer.diminfo[1].shape’ was declared here 2024-03-20T11:28:14,748 10063 | __Pyx_LocalBuf_ND __pyx_pybuffernd_forces_buffer; 2024-03-20T11:28:14,749 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-03-20T11:28:14,750 moleculekit/fileformats/xtc/trr.c:11750:19: warning: ‘__pyx_pybuffernd_forces_buffer.diminfo[0].shape’ may be used uninitialized [-Wmaybe-uninitialized] 2024-03-20T11:28:14,751 11750 | } else if (unlikely(__pyx_t_35 >= __pyx_pybuffernd_forces_buffer.diminfo[0].shape)) __pyx_t_4 = 0; 2024-03-20T11:28:14,751 | ^ 2024-03-20T11:28:14,752 moleculekit/fileformats/xtc/trr.c:10063:21: note: ‘__pyx_pybuffernd_forces_buffer.diminfo[0].shape’ was declared here 2024-03-20T11:28:14,753 10063 | __Pyx_LocalBuf_ND __pyx_pybuffernd_forces_buffer; 2024-03-20T11:28:14,753 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-03-20T11:28:21,537 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 build/temp.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/src/xdr_seek.o build/temp.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/src/xdrfile.o build/temp.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/src/xdrfile_trr.o build/temp.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/trr.o -L/usr/lib/arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-311/moleculekit/trr.cpython-311-arm-linux-gnueabihf.so 2024-03-20T11:28:21,700 building 'moleculekit.dcd' extension 2024-03-20T11:28:21,701 creating build/temp.linux-armv7l-cpython-311/moleculekit/fileformats/dcd 2024-03-20T11:28:21,701 creating build/temp.linux-armv7l-cpython-311/moleculekit/fileformats/dcd/src 2024-03-20T11:28:21,703 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Imoleculekit/fileformats/dcd -Imoleculekit/fileformats/dcd/include/ -Imoleculekit/fileformats/dcd/ -I/tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c moleculekit/fileformats/dcd/dcd.c -o build/temp.linux-armv7l-cpython-311/moleculekit/fileformats/dcd/dcd.o 2024-03-20T11:28:22,323 In file included from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2024-03-20T11:28:22,324 from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-03-20T11:28:22,325 from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-03-20T11:28:22,325 from moleculekit/fileformats/dcd/dcd.c:1226: 2024-03-20T11:28:22,325 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-03-20T11:28:22,326 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-03-20T11:28:22,326 | ^~~~~~~ 2024-03-20T11:28:23,612 In file included from moleculekit/fileformats/dcd/include/dcdplugin.h:1, 2024-03-20T11:28:23,612 from moleculekit/fileformats/dcd/dcd.c:1232: 2024-03-20T11:28:23,613 moleculekit/fileformats/dcd/include/fastio.h:474:12: warning: ‘fio_write_str’ defined but not used [-Wunused-function] 2024-03-20T11:28:23,614 474 | static int fio_write_str(fio_fd fd, const char *str) { 2024-03-20T11:28:23,614 | ^~~~~~~~~~~~~ 2024-03-20T11:28:23,615 moleculekit/fileformats/dcd/include/fastio.h:470:12: warning: ‘fio_read_int32’ defined but not used [-Wunused-function] 2024-03-20T11:28:23,615 470 | static int fio_read_int32(fio_fd fd, int *i) { 2024-03-20T11:28:23,616 | ^~~~~~~~~~~~~~ 2024-03-20T11:28:23,616 moleculekit/fileformats/dcd/include/fastio.h:466:12: warning: ‘fio_write_int32’ defined but not used [-Wunused-function] 2024-03-20T11:28:23,617 466 | static int fio_write_int32(fio_fd fd, int i) { 2024-03-20T11:28:23,617 | ^~~~~~~~~~~~~~~ 2024-03-20T11:28:23,618 moleculekit/fileformats/dcd/include/fastio.h:457:19: warning: ‘fio_ftell’ defined but not used [-Wunused-function] 2024-03-20T11:28:23,619 457 | static fio_size_t fio_ftell(fio_fd fd) { 2024-03-20T11:28:23,619 | ^~~~~~~~~ 2024-03-20T11:28:23,620 moleculekit/fileformats/dcd/include/fastio.h:450:19: warning: ‘fio_fseek’ defined but not used [-Wunused-function] 2024-03-20T11:28:23,621 450 | static fio_size_t fio_fseek(fio_fd fd, fio_size_t offset, int whence) { 2024-03-20T11:28:23,621 | ^~~~~~~~~ 2024-03-20T11:28:23,622 moleculekit/fileformats/dcd/include/fastio.h:415:19: warning: ‘fio_readv’ defined but not used [-Wunused-function] 2024-03-20T11:28:23,623 415 | static fio_size_t fio_readv(fio_fd fd, const fio_iovec * iov, int iovcnt) { 2024-03-20T11:28:23,624 | ^~~~~~~~~ 2024-03-20T11:28:23,625 moleculekit/fileformats/dcd/include/fastio.h:394:12: warning: ‘fio_fclose’ defined but not used [-Wunused-function] 2024-03-20T11:28:23,626 394 | static int fio_fclose(fio_fd fd) { 2024-03-20T11:28:23,627 | ^~~~~~~~~~ 2024-03-20T11:28:23,628 moleculekit/fileformats/dcd/include/fastio.h:366:12: warning: ‘fio_open’ defined but not used [-Wunused-function] 2024-03-20T11:28:23,628 366 | static int fio_open(const char *filename, int mode, fio_fd *fd) { 2024-03-20T11:28:23,629 | ^~~~~~~~ 2024-03-20T11:28:38,029 moleculekit/fileformats/dcd/dcd.c: In function ‘__pyx_pf_11moleculekit_3dcd_17DCDTrajectoryFile_18read’: 2024-03-20T11:28:38,030 moleculekit/fileformats/dcd/dcd.c:1128:40: warning: ‘__pyx_v_i’ may be used uninitialized [-Wmaybe-uninitialized] 2024-03-20T11:28:38,031 1128 | #define PyInt_FromLong PyLong_FromLong 2024-03-20T11:28:38,031 | ^~~~~~~~~~~~~~~ 2024-03-20T11:28:38,038 moleculekit/fileformats/dcd/dcd.c:7992:7: note: ‘__pyx_v_i’ was declared here 2024-03-20T11:28:38,039 7992 | int __pyx_v_i; 2024-03-20T11:28:38,040 | ^~~~~~~~~ 2024-03-20T11:28:41,471 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Imoleculekit/fileformats/dcd -Imoleculekit/fileformats/dcd/include/ -Imoleculekit/fileformats/dcd/ -I/tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c moleculekit/fileformats/dcd/src/dcdplugin.c -o build/temp.linux-armv7l-cpython-311/moleculekit/fileformats/dcd/src/dcdplugin.o 2024-03-20T11:28:41,695 moleculekit/fileformats/dcd/src/dcdplugin.c: In function ‘read_dcdheader’: 2024-03-20T11:28:41,696 moleculekit/fileformats/dcd/src/dcdplugin.c:150:55: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-03-20T11:28:41,697 150 | else if (input_integer[0] == 84 && input_integer[1] == dcdcordmagic) 2024-03-20T11:28:41,697 | ^~ 2024-03-20T11:28:41,698 moleculekit/fileformats/dcd/src/dcdplugin.c:173:54: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-03-20T11:28:41,698 173 | if (input_integer[0] == 84 && input_integer[1] == dcdcordmagic) 2024-03-20T11:28:41,699 | ^~ 2024-03-20T11:28:41,699 moleculekit/fileformats/dcd/src/dcdplugin.c:194:26: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-03-20T11:28:41,700 194 | if (input_integer[0] != dcdcordmagic) 2024-03-20T11:28:41,700 | ^~ 2024-03-20T11:28:41,702 moleculekit/fileformats/dcd/src/dcdplugin.c:409:47: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-03-20T11:28:41,703 409 | if ((input_integer[0] + input_integer[1]) != ((*N) - (*NAMNF)) * 4) 2024-03-20T11:28:41,703 | ^~ 2024-03-20T11:28:41,704 moleculekit/fileformats/dcd/src/dcdplugin.c:428:47: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-03-20T11:28:41,704 428 | if ((input_integer[0] + input_integer[1]) != ((*N) - (*NAMNF)) * 4) 2024-03-20T11:28:41,705 | ^~ 2024-03-20T11:28:41,708 moleculekit/fileformats/dcd/src/dcdplugin.c: In function ‘read_dcdstep’: 2024-03-20T11:28:41,709 moleculekit/fileformats/dcd/src/dcdplugin.c:651:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-03-20T11:28:41,709 651 | if (tmpbuf[i] != sizeof(float) * N) 2024-03-20T11:28:41,710 | ^~ 2024-03-20T11:28:41,711 moleculekit/fileformats/dcd/src/dcdplugin.c:659:49: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-03-20T11:28:41,711 659 | if ((tmpbuf[2 * i] + tmpbuf[2 * i + 1]) != sizeof(float) * N) 2024-03-20T11:28:41,712 | ^~ 2024-03-20T11:28:41,737 In file included from moleculekit/fileformats/dcd/src/dcdplugin.c:55: 2024-03-20T11:28:41,738 moleculekit/fileformats/dcd/include/endianswap.h: At top level: 2024-03-20T11:28:41,739 moleculekit/fileformats/dcd/include/endianswap.h:96:13: warning: ‘swap2_aligned’ defined but not used [-Wunused-function] 2024-03-20T11:28:41,739 96 | static void swap2_aligned(void *v, long ndata) { 2024-03-20T11:28:41,740 | ^~~~~~~~~~~~~ 2024-03-20T11:28:41,741 moleculekit/fileformats/dcd/include/endianswap.h:32:13: warning: ‘swap2_unaligned’ defined but not used [-Wunused-function] 2024-03-20T11:28:41,742 32 | static void swap2_unaligned(void *v, long ndata) { 2024-03-20T11:28:41,742 | ^~~~~~~~~~~~~~~ 2024-03-20T11:28:41,743 In file included from moleculekit/fileformats/dcd/src/dcdplugin.c:46: 2024-03-20T11:28:41,743 moleculekit/fileformats/dcd/include/fastio.h:474:12: warning: ‘fio_write_str’ defined but not used [-Wunused-function] 2024-03-20T11:28:41,744 474 | static int fio_write_str(fio_fd fd, const char *str) { 2024-03-20T11:28:41,744 | ^~~~~~~~~~~~~ 2024-03-20T11:28:41,745 moleculekit/fileformats/dcd/include/fastio.h:470:12: warning: ‘fio_read_int32’ defined but not used [-Wunused-function] 2024-03-20T11:28:41,745 470 | static int fio_read_int32(fio_fd fd, int *i) { 2024-03-20T11:28:41,746 | ^~~~~~~~~~~~~~ 2024-03-20T11:28:43,020 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 build/temp.linux-armv7l-cpython-311/moleculekit/fileformats/dcd/dcd.o build/temp.linux-armv7l-cpython-311/moleculekit/fileformats/dcd/src/dcdplugin.o -L/usr/lib/arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-311/moleculekit/dcd.cpython-311-arm-linux-gnueabihf.so 2024-03-20T11:28:43,154 building 'moleculekit.binpos' extension 2024-03-20T11:28:43,155 creating build/temp.linux-armv7l-cpython-311/moleculekit/fileformats/binpos 2024-03-20T11:28:43,156 creating build/temp.linux-armv7l-cpython-311/moleculekit/fileformats/binpos/src 2024-03-20T11:28:43,157 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Imoleculekit/fileformats/binpos -Imoleculekit/fileformats/binpos/include/ -Imoleculekit/fileformats/binpos/ -I/tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c moleculekit/fileformats/binpos/binpos.c -o build/temp.linux-armv7l-cpython-311/moleculekit/fileformats/binpos/binpos.o 2024-03-20T11:28:43,558 In file included from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2024-03-20T11:28:43,559 from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-03-20T11:28:43,559 from /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-03-20T11:28:43,560 from moleculekit/fileformats/binpos/binpos.c:1226: 2024-03-20T11:28:43,560 /tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-03-20T11:28:43,561 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-03-20T11:28:43,562 | ^~~~~~~ 2024-03-20T11:28:58,104 In function ‘__pyx_pf_11moleculekit_6binpos_20BINPOSTrajectoryFile_6_read’, 2024-03-20T11:28:58,105 inlined from ‘__pyx_pw_11moleculekit_6binpos_20BINPOSTrajectoryFile_7_read’ at moleculekit/fileformats/binpos/binpos.c:7474:13: 2024-03-20T11:28:58,112 moleculekit/fileformats/binpos/binpos.c:8015:6: warning: ‘__pyx_v_status’ may be used uninitialized [-Wmaybe-uninitialized] 2024-03-20T11:28:58,112 8015 | if (__pyx_t_1) { 2024-03-20T11:28:58,113 | ^ 2024-03-20T11:28:58,114 moleculekit/fileformats/binpos/binpos.c: In function ‘__pyx_pw_11moleculekit_6binpos_20BINPOSTrajectoryFile_7_read’: 2024-03-20T11:28:58,119 moleculekit/fileformats/binpos/binpos.c:7492:7: note: ‘__pyx_v_status’ was declared here 2024-03-20T11:28:58,119 7492 | int __pyx_v_status; 2024-03-20T11:28:58,120 | ^~~~~~~~~~~~~~ 2024-03-20T11:28:58,121 moleculekit/fileformats/binpos/binpos.c:1128:40: warning: ‘__pyx_v_i’ may be used uninitialized [-Wmaybe-uninitialized] 2024-03-20T11:28:58,122 1128 | #define PyInt_FromLong PyLong_FromLong 2024-03-20T11:28:58,123 | ^~~~~~~~~~~~~~~ 2024-03-20T11:28:58,127 moleculekit/fileformats/binpos/binpos.c:7489:7: note: ‘__pyx_v_i’ was declared here 2024-03-20T11:28:58,128 7489 | int __pyx_v_i; 2024-03-20T11:28:58,128 | ^~~~~~~~~ 2024-03-20T11:29:01,814 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Imoleculekit/fileformats/binpos -Imoleculekit/fileformats/binpos/include/ -Imoleculekit/fileformats/binpos/ -I/tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c moleculekit/fileformats/binpos/src/binposplugin.c -o build/temp.linux-armv7l-cpython-311/moleculekit/fileformats/binpos/src/binposplugin.o 2024-03-20T11:29:02,150 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 build/temp.linux-armv7l-cpython-311/moleculekit/fileformats/binpos/binpos.o build/temp.linux-armv7l-cpython-311/moleculekit/fileformats/binpos/src/binposplugin.o -L/usr/lib/arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-311/moleculekit/binpos.cpython-311-arm-linux-gnueabihf.so 2024-03-20T11:29:02,281 building 'moleculekit.tmalign' extension 2024-03-20T11:29:02,282 creating build/temp.linux-armv7l-cpython-311/moleculekit/tmalign 2024-03-20T11:29:02,283 creating build/temp.linux-armv7l-cpython-311/moleculekit/tmalign/src 2024-03-20T11:29:02,284 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Imoleculekit/tmalign -Imoleculekit/tmalign/include/ -Imoleculekit/tmalign/ -I/tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c moleculekit/tmalign/src/TMAlign.cpp -o build/temp.linux-armv7l-cpython-311/moleculekit/tmalign/src/TMAlign.o -w 2024-03-20T11:29:36,406 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Imoleculekit/tmalign -Imoleculekit/tmalign/include/ -Imoleculekit/tmalign/ -I/tmp/pip-build-env-an60d6di/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c moleculekit/tmalign/tmalign_util.cpp -o build/temp.linux-armv7l-cpython-311/moleculekit/tmalign/tmalign_util.o -w 2024-03-20T11:29:59,453 In file included from /usr/include/c++/12/vector:70, 2024-03-20T11:29:59,453 from moleculekit/tmalign/tmalign_util.cpp:1250: 2024-03-20T11:29:59,454 /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]’: 2024-03-20T11:29:59,454 /usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2024-03-20T11:29:59,455 439 | vector<_Tp, _Alloc>:: 2024-03-20T11:29:59,456 | ^~~~~~~~~~~~~~~~~~~ 2024-03-20T11:30:00,256 In file included from /usr/include/c++/12/vector:64: 2024-03-20T11:30:00,256 In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, 2024-03-20T11:30:00,257 inlined from ‘PyObject* __pyx_pf_11moleculekit_7tmalign_tmalign(PyObject*, __Pyx_memviewslice, __Pyx_memviewslice, std::string, std::string)’ at moleculekit/tmalign/tmalign_util.cpp:20749:32, 2024-03-20T11:30:00,258 inlined from ‘PyObject* __pyx_pw_11moleculekit_7tmalign_1tmalign(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’ at moleculekit/tmalign/tmalign_util.cpp:20234:52: 2024-03-20T11:30:00,259 /usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2024-03-20T11:30:00,259 1287 | _M_realloc_insert(end(), __x); 2024-03-20T11:30:00,260 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2024-03-20T11:30:00,261 In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, 2024-03-20T11:30:00,262 inlined from ‘PyObject* __pyx_pf_11moleculekit_7tmalign_tmalign(PyObject*, __Pyx_memviewslice, __Pyx_memviewslice, std::string, std::string)’ at moleculekit/tmalign/tmalign_util.cpp:20763:33, 2024-03-20T11:30:00,263 inlined from ‘PyObject* __pyx_pw_11moleculekit_7tmalign_1tmalign(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’ at moleculekit/tmalign/tmalign_util.cpp:20234:52: 2024-03-20T11:30:00,264 /usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2024-03-20T11:30:00,264 1287 | _M_realloc_insert(end(), __x); 2024-03-20T11:30:00,265 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2024-03-20T11:30:00,266 In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, 2024-03-20T11:30:00,266 inlined from ‘PyObject* __pyx_pf_11moleculekit_7tmalign_tmalign(PyObject*, __Pyx_memviewslice, __Pyx_memviewslice, std::string, std::string)’ at moleculekit/tmalign/tmalign_util.cpp:20848:34, 2024-03-20T11:30:00,267 inlined from ‘PyObject* __pyx_pw_11moleculekit_7tmalign_1tmalign(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’ at moleculekit/tmalign/tmalign_util.cpp:20234:52: 2024-03-20T11:30:00,267 /usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2024-03-20T11:30:00,268 1287 | _M_realloc_insert(end(), __x); 2024-03-20T11:30:00,269 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2024-03-20T11:30:03,776 arm-linux-gnueabihf-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 build/temp.linux-armv7l-cpython-311/moleculekit/tmalign/src/TMAlign.o build/temp.linux-armv7l-cpython-311/moleculekit/tmalign/tmalign_util.o -L/usr/lib/arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-311/moleculekit/tmalign.cpython-311-arm-linux-gnueabihf.so 2024-03-20T11:30:04,289 UPDATING build/lib.linux-armv7l-cpython-311/moleculekit/_version.py 2024-03-20T11:30:04,290 set build/lib.linux-armv7l-cpython-311/moleculekit/_version.py to '1.8.27' 2024-03-20T11:30:04,290 installing to build/bdist.linux-armv7l/wheel 2024-03-20T11:30:04,291 running install 2024-03-20T11:30:04,314 running install_lib 2024-03-20T11:30:04,321 creating build/bdist.linux-armv7l 2024-03-20T11:30:04,322 creating build/bdist.linux-armv7l/wheel 2024-03-20T11:30:04,326 creating build/bdist.linux-armv7l/wheel/moleculekit 2024-03-20T11:30:04,329 creating build/bdist.linux-armv7l/wheel/moleculekit/tools 2024-03-20T11:30:04,332 copying build/lib.linux-armv7l-cpython-311/moleculekit/tools/moleculechecks.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2024-03-20T11:30:04,336 copying build/lib.linux-armv7l-cpython-311/moleculekit/tools/autosegment.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2024-03-20T11:30:04,339 copying build/lib.linux-armv7l-cpython-311/moleculekit/tools/graphalignment.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2024-03-20T11:30:04,344 copying build/lib.linux-armv7l-cpython-311/moleculekit/tools/detect.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2024-03-20T11:30:04,348 copying build/lib.linux-armv7l-cpython-311/moleculekit/tools/hhblitsprofile.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2024-03-20T11:30:04,353 creating build/bdist.linux-armv7l/wheel/moleculekit/tools/obabel_tools 2024-03-20T11:30:04,354 copying build/lib.linux-armv7l-cpython-311/moleculekit/tools/obabel_tools/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools/obabel_tools 2024-03-20T11:30:04,357 copying build/lib.linux-armv7l-cpython-311/moleculekit/tools/obabel_tools/obabel_cli.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools/obabel_tools 2024-03-20T11:30:04,359 copying build/lib.linux-armv7l-cpython-311/moleculekit/tools/preparation.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2024-03-20T11:30:04,364 copying build/lib.linux-armv7l-cpython-311/moleculekit/tools/modelling.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2024-03-20T11:30:04,367 copying build/lib.linux-armv7l-cpython-311/moleculekit/tools/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2024-03-20T11:30:04,370 copying build/lib.linux-armv7l-cpython-311/moleculekit/tools/atomtyper.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2024-03-20T11:30:04,373 copying build/lib.linux-armv7l-cpython-311/moleculekit/tools/docking.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2024-03-20T11:30:04,377 copying build/lib.linux-armv7l-cpython-311/moleculekit/tools/preparation_customres.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2024-03-20T11:30:04,380 copying build/lib.linux-armv7l-cpython-311/moleculekit/tools/sequencestructuralalignment.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2024-03-20T11:30:04,383 copying build/lib.linux-armv7l-cpython-311/moleculekit/tools/voxeldescriptors.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2024-03-20T11:30:04,387 copying build/lib.linux-armv7l-cpython-311/moleculekit/tools/crystalpacking.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2024-03-20T11:30:04,392 creating build/bdist.linux-armv7l/wheel/moleculekit/wrapping 2024-03-20T11:30:04,394 copying build/lib.linux-armv7l-cpython-311/moleculekit/wrapping/wrapping.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/wrapping 2024-03-20T11:30:04,398 copying build/lib.linux-armv7l-cpython-311/moleculekit/wrapping/wrapping.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/wrapping 2024-03-20T11:30:04,435 creating build/bdist.linux-armv7l/wheel/moleculekit/smallmol 2024-03-20T11:30:04,437 creating build/bdist.linux-armv7l/wheel/moleculekit/smallmol/tools 2024-03-20T11:30:04,439 copying build/lib.linux-armv7l-cpython-311/moleculekit/smallmol/tools/restrainedembed.py -> build/bdist.linux-armv7l/wheel/moleculekit/smallmol/tools 2024-03-20T11:30:04,441 copying build/lib.linux-armv7l-cpython-311/moleculekit/smallmol/tools/clustering.py -> build/bdist.linux-armv7l/wheel/moleculekit/smallmol/tools 2024-03-20T11:30:04,445 copying build/lib.linux-armv7l-cpython-311/moleculekit/smallmol/tools/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/smallmol/tools 2024-03-20T11:30:04,447 copying build/lib.linux-armv7l-cpython-311/moleculekit/smallmol/tools/test_tools.py -> build/bdist.linux-armv7l/wheel/moleculekit/smallmol/tools 2024-03-20T11:30:04,450 copying build/lib.linux-armv7l-cpython-311/moleculekit/smallmol/smallmol.py -> build/bdist.linux-armv7l/wheel/moleculekit/smallmol 2024-03-20T11:30:04,454 copying build/lib.linux-armv7l-cpython-311/moleculekit/smallmol/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/smallmol 2024-03-20T11:30:04,456 copying build/lib.linux-armv7l-cpython-311/moleculekit/smallmol/test_smallmol.py -> build/bdist.linux-armv7l/wheel/moleculekit/smallmol 2024-03-20T11:30:04,460 copying build/lib.linux-armv7l-cpython-311/moleculekit/smallmol/smallmollib.py -> build/bdist.linux-armv7l/wheel/moleculekit/smallmol 2024-03-20T11:30:04,464 copying build/lib.linux-armv7l-cpython-311/moleculekit/smallmol/test_smallmollib.py -> build/bdist.linux-armv7l/wheel/moleculekit/smallmol 2024-03-20T11:30:04,467 copying build/lib.linux-armv7l-cpython-311/moleculekit/smallmol/util.py -> build/bdist.linux-armv7l/wheel/moleculekit/smallmol 2024-03-20T11:30:04,471 copying build/lib.linux-armv7l-cpython-311/moleculekit/binpos.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit 2024-03-20T11:30:04,490 copying build/lib.linux-armv7l-cpython-311/moleculekit/trr.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit 2024-03-20T11:30:04,530 copying build/lib.linux-armv7l-cpython-311/moleculekit/vmdgraphics.py -> build/bdist.linux-armv7l/wheel/moleculekit 2024-03-20T11:30:04,533 copying build/lib.linux-armv7l-cpython-311/moleculekit/cython_utils.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit 2024-03-20T11:30:04,575 copying build/lib.linux-armv7l-cpython-311/moleculekit/home.py -> build/bdist.linux-armv7l/wheel/moleculekit 2024-03-20T11:30:04,578 copying build/lib.linux-armv7l-cpython-311/moleculekit/align.py -> build/bdist.linux-armv7l/wheel/moleculekit 2024-03-20T11:30:04,581 copying build/lib.linux-armv7l-cpython-311/moleculekit/tmalign.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit 2024-03-20T11:30:04,677 creating build/bdist.linux-armv7l/wheel/moleculekit/projections 2024-03-20T11:30:04,679 copying build/lib.linux-armv7l-cpython-311/moleculekit/projections/metricplumed2.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2024-03-20T11:30:04,684 copying build/lib.linux-armv7l-cpython-311/moleculekit/projections/metricshell.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2024-03-20T11:30:04,688 copying build/lib.linux-armv7l-cpython-311/moleculekit/projections/metricgyration.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2024-03-20T11:30:04,692 copying build/lib.linux-armv7l-cpython-311/moleculekit/projections/metrictmscore.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2024-03-20T11:30:04,696 copying build/lib.linux-armv7l-cpython-311/moleculekit/projections/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2024-03-20T11:30:04,698 copying build/lib.linux-armv7l-cpython-311/moleculekit/projections/metricdistance.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2024-03-20T11:30:04,703 copying build/lib.linux-armv7l-cpython-311/moleculekit/projections/metricsasa.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2024-03-20T11:30:04,708 copying build/lib.linux-armv7l-cpython-311/moleculekit/projections/metricsecondarystructure.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2024-03-20T11:30:04,712 copying build/lib.linux-armv7l-cpython-311/moleculekit/projections/projection.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2024-03-20T11:30:04,715 copying build/lib.linux-armv7l-cpython-311/moleculekit/projections/metricfluctuation.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2024-03-20T11:30:04,720 copying build/lib.linux-armv7l-cpython-311/moleculekit/projections/metricrmsd.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2024-03-20T11:30:04,725 copying build/lib.linux-armv7l-cpython-311/moleculekit/projections/metriccoordinate.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2024-03-20T11:30:04,729 copying build/lib.linux-armv7l-cpython-311/moleculekit/projections/metricdihedral.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2024-03-20T11:30:04,735 copying build/lib.linux-armv7l-cpython-311/moleculekit/projections/util.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2024-03-20T11:30:04,740 copying build/lib.linux-armv7l-cpython-311/moleculekit/projections/metricsphericalcoordinate.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2024-03-20T11:30:04,751 copying build/lib.linux-armv7l-cpython-311/moleculekit/wrapping.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit 2024-03-20T11:30:04,812 copying build/lib.linux-armv7l-cpython-311/moleculekit/config.py -> build/bdist.linux-armv7l/wheel/moleculekit 2024-03-20T11:30:04,816 creating build/bdist.linux-armv7l/wheel/moleculekit/share 2024-03-20T11:30:04,817 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/ALA.cif -> build/bdist.linux-armv7l/wheel/moleculekit/share 2024-03-20T11:30:04,822 creating build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr 2024-03-20T11:30:04,826 creating build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,828 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/LME.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,831 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/ABA.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,833 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/CSO.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,835 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/YCM.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,837 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/HQA.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,840 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/2AS.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,842 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/ALC.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,846 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/HPE.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,848 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MEA.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,850 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/APD.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,853 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/2MR.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,856 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/NCY.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,858 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/CGU.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,861 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/004.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,864 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MLY.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,867 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/2GX.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,870 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/AHP.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,874 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/GHG.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,877 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/KYN.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,880 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/OCY.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,887 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/IGL.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,890 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/2ML.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,893 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/HHK.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,896 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/HTR.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,899 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/0AF.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,902 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/DAH.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,905 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/NZC.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,907 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/APD.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,911 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/I2M.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,914 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/CSA.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,917 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/I2M.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,920 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/IML.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,923 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/ORM.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,926 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MLE.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,929 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/KYN.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,932 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MEA.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,934 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/BTK.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,937 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/D4P.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,940 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/LYZ.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,942 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/ORM.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,945 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/HQA.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,949 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/5JP.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,953 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/SEP.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,958 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/CSP.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,962 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/DPP.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,964 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MME.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,967 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/ESC.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,969 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/TRO.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,971 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/IGL.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,974 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/004.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,976 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/AA4.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,978 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/PRK.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,981 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/GHG.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,983 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MMO.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,986 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/ME0.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,990 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/1MH.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,993 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/AA4.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:04,997 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/AHP.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,000 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/03Y.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,003 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/HOX.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,005 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/PTR.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,007 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/5JP.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,010 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/IIL.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,013 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/OMX.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,016 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/ME0.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,019 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/CGU.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,022 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/4PQ.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,025 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/DAB.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,028 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/LYZ.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,031 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/TY2.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,034 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/0A1.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,036 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/2ML.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,039 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MVA.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,041 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/BCS.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,043 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/2GX.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,046 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MLY.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,049 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/ALN.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,051 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/YNM.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,054 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/HYP.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,057 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/4IN.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,066 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/HTR.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,069 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/0A1.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,072 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MLZ.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,075 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/SEP.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,078 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/CSS.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,080 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/TYQ.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,083 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/HYP.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,085 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/OCY.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,087 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/BB8.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,090 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/LMQ.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,092 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/GNC.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,096 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/NVA.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,098 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/OMX.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,100 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/FGL.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,102 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/CSO.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,104 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/4PH.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,106 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/P1L.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,108 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/HPE.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,111 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/D4P.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,113 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/DPP.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,116 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/HOX.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,118 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/DA2.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,120 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/0AF.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,123 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/GME.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,125 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/TRO.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,127 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/HLX.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,130 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/DAB.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,132 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/PTR.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,135 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/HLX.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,137 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/HHK.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,140 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/.gitkeep -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,142 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MMO.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,145 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/4PH.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,147 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/0BN.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,149 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/CCS.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,152 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/03Y.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,155 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/ONL.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,157 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/NLE.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,159 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/PCA.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,162 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/NLE.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,165 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/0BN.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,168 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/2AS.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,171 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MLE.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,174 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MEQ.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,178 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/ALC.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,181 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/ABA.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,184 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/M3L.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,188 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/TY2.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,191 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/CSS.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,194 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/BTK.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,197 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/ALN.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,200 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/NAL.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,204 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/PCA.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,207 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/IIL.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,211 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/4IN.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,214 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/FGL.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,216 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/TPO.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,219 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/BCS.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,222 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/NVA.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,224 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/ESC.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,227 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/LME.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,230 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MVA.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,232 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/CSP.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,234 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/CCS.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,236 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/TYQ.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,244 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/GME.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,247 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/ALY.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,250 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MEQ.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,253 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/LMQ.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,257 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/YCM.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,259 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/NCY.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,261 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/DA2.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,265 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MEN.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,267 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MME.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,270 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/NAL.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,273 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/P1L.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,276 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/NZC.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,279 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/BB8.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,282 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/HLU.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,284 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/M3L.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,287 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/HLU.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,290 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/TPO.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,294 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/GNC.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,297 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/ALY.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,300 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/ONL.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,304 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/1MH.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,306 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/IML.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,309 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MLZ.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,311 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/CSA.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,314 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/4PQ.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,317 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/DAH.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,320 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/PRK.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,323 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/YNM.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,326 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/2MR.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,329 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MEN.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2024-03-20T11:30:05,332 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/opm_sequences.json -> build/bdist.linux-armv7l/wheel/moleculekit/share 2024-03-20T11:30:07,808 creating build/bdist.linux-armv7l/wheel/moleculekit/share/atomselect 2024-03-20T11:30:07,809 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/atomselect/atomselect.json -> build/bdist.linux-armv7l/wheel/moleculekit/share/atomselect 2024-03-20T11:30:07,812 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/backbone.cif -> build/bdist.linux-armv7l/wheel/moleculekit/share 2024-03-20T11:30:07,816 creating build/bdist.linux-armv7l/wheel/moleculekit/fileformats 2024-03-20T11:30:07,817 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/netcdf.py -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats 2024-03-20T11:30:07,822 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats 2024-03-20T11:30:07,824 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/utils.py -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats 2024-03-20T11:30:07,827 creating build/bdist.linux-armv7l/wheel/moleculekit/fileformats/xtc 2024-03-20T11:30:07,833 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/trrlib.pxd -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats/xtc 2024-03-20T11:30:07,837 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/xdrlib.pxd -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats/xtc 2024-03-20T11:30:07,841 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/xtc.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats/xtc 2024-03-20T11:30:07,844 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/trr.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats/xtc 2024-03-20T11:30:07,850 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/trr.c -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats/xtc 2024-03-20T11:30:07,900 creating build/bdist.linux-armv7l/wheel/moleculekit/fileformats/xtc/src 2024-03-20T11:30:07,901 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/src/xdrfile.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats/xtc/src 2024-03-20T11:30:07,907 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/src/xdr_seek.c -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats/xtc/src 2024-03-20T11:30:07,911 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/src/xdrfile_xtc.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats/xtc/src 2024-03-20T11:30:07,914 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/src/xtc.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats/xtc/src 2024-03-20T11:30:07,917 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/src/xdrfile_trr.c -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats/xtc/src 2024-03-20T11:30:07,921 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/xtc.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats/xtc 2024-03-20T11:30:07,955 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/xtclib.pxd -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats/xtc 2024-03-20T11:30:07,962 creating build/bdist.linux-armv7l/wheel/moleculekit/fileformats/xtc/include 2024-03-20T11:30:07,963 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/include/xdrfile_xtc.h -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats/xtc/include 2024-03-20T11:30:07,967 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/include/xtc.h -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats/xtc/include 2024-03-20T11:30:07,970 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/include/xdrfile_trr.h -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats/xtc/include 2024-03-20T11:30:07,973 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/include/xdrfile.h -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats/xtc/include 2024-03-20T11:30:07,977 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/include/trr_header.h -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats/xtc/include 2024-03-20T11:30:07,980 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/xtc/include/xdr_seek.h -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats/xtc/include 2024-03-20T11:30:07,983 creating build/bdist.linux-armv7l/wheel/moleculekit/fileformats/binpos 2024-03-20T11:30:07,985 creating build/bdist.linux-armv7l/wheel/moleculekit/fileformats/binpos/src 2024-03-20T11:30:07,986 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/binpos/src/binposplugin.c -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats/binpos/src 2024-03-20T11:30:07,989 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/binpos/binpos.c -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats/binpos 2024-03-20T11:30:08,015 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/binpos/binpos.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats/binpos 2024-03-20T11:30:08,021 creating build/bdist.linux-armv7l/wheel/moleculekit/fileformats/binpos/include 2024-03-20T11:30:08,023 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/binpos/include/molfile_plugin.h -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats/binpos/include 2024-03-20T11:30:08,028 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/binpos/include/largefiles.h -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats/binpos/include 2024-03-20T11:30:08,031 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/binpos/include/binposplugin.h -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats/binpos/include 2024-03-20T11:30:08,034 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/binpos/binposlib.pxd -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats/binpos 2024-03-20T11:30:08,038 creating build/bdist.linux-armv7l/wheel/moleculekit/fileformats/dcd 2024-03-20T11:30:08,040 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/dcd/dcdlib.pxd -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats/dcd 2024-03-20T11:30:08,044 creating build/bdist.linux-armv7l/wheel/moleculekit/fileformats/dcd/src 2024-03-20T11:30:08,045 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/dcd/src/dcdplugin.c -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats/dcd/src 2024-03-20T11:30:08,052 creating build/bdist.linux-armv7l/wheel/moleculekit/fileformats/dcd/include 2024-03-20T11:30:08,054 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/dcd/include/dcdplugin.h -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats/dcd/include 2024-03-20T11:30:08,057 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/dcd/include/molfile_plugin.h -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats/dcd/include 2024-03-20T11:30:08,061 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/dcd/include/fastio.h -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats/dcd/include 2024-03-20T11:30:08,064 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/dcd/include/largefiles.h -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats/dcd/include 2024-03-20T11:30:08,068 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/dcd/include/endianswap.h -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats/dcd/include 2024-03-20T11:30:08,071 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/dcd/dcd.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats/dcd 2024-03-20T11:30:08,075 copying build/lib.linux-armv7l-cpython-311/moleculekit/fileformats/dcd/dcd.c -> build/bdist.linux-armv7l/wheel/moleculekit/fileformats/dcd 2024-03-20T11:30:08,102 copying build/lib.linux-armv7l-cpython-311/moleculekit/readers.py -> build/bdist.linux-armv7l/wheel/moleculekit 2024-03-20T11:30:08,110 copying build/lib.linux-armv7l-cpython-311/moleculekit/viewer.py -> build/bdist.linux-armv7l/wheel/moleculekit 2024-03-20T11:30:08,114 copying build/lib.linux-armv7l-cpython-311/moleculekit/version.py -> build/bdist.linux-armv7l/wheel/moleculekit 2024-03-20T11:30:08,117 copying build/lib.linux-armv7l-cpython-311/moleculekit/periodictable.py -> build/bdist.linux-armv7l/wheel/moleculekit 2024-03-20T11:30:08,121 copying build/lib.linux-armv7l-cpython-311/moleculekit/vmd_wrapper -> build/bdist.linux-armv7l/wheel/moleculekit 2024-03-20T11:30:08,126 copying build/lib.linux-armv7l-cpython-311/moleculekit/_version.py -> build/bdist.linux-armv7l/wheel/moleculekit 2024-03-20T11:30:08,131 creating build/bdist.linux-armv7l/wheel/moleculekit/tmalign 2024-03-20T11:30:08,133 copying build/lib.linux-armv7l-cpython-311/moleculekit/tmalign/tmalignlib.pxd -> build/bdist.linux-armv7l/wheel/moleculekit/tmalign 2024-03-20T11:30:08,137 creating build/bdist.linux-armv7l/wheel/moleculekit/tmalign/src 2024-03-20T11:30:08,139 copying build/lib.linux-armv7l-cpython-311/moleculekit/tmalign/src/TMAlign.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/tmalign/src 2024-03-20T11:30:08,148 copying build/lib.linux-armv7l-cpython-311/moleculekit/tmalign/tmalign_util.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/tmalign 2024-03-20T11:30:08,181 copying build/lib.linux-armv7l-cpython-311/moleculekit/tmalign/tmalign_util.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/tmalign 2024-03-20T11:30:08,184 creating build/bdist.linux-armv7l/wheel/moleculekit/tmalign/include 2024-03-20T11:30:08,188 copying build/lib.linux-armv7l-cpython-311/moleculekit/tmalign/include/TMAlign.h -> build/bdist.linux-armv7l/wheel/moleculekit/tmalign/include 2024-03-20T11:30:08,191 copying build/lib.linux-armv7l-cpython-311/moleculekit/opm.py -> build/bdist.linux-armv7l/wheel/moleculekit 2024-03-20T11:30:08,195 copying build/lib.linux-armv7l-cpython-311/moleculekit/rdkitintegration.py -> build/bdist.linux-armv7l/wheel/moleculekit 2024-03-20T11:30:08,198 creating build/bdist.linux-armv7l/wheel/moleculekit/distance_utils 2024-03-20T11:30:08,199 copying build/lib.linux-armv7l-cpython-311/moleculekit/distance_utils/distance_utils.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/distance_utils 2024-03-20T11:30:08,203 copying build/lib.linux-armv7l-cpython-311/moleculekit/distance_utils/distance_utils.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/distance_utils 2024-03-20T11:30:08,259 copying build/lib.linux-armv7l-cpython-311/moleculekit/dcd.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit 2024-03-20T11:30:08,370 copying build/lib.linux-armv7l-cpython-311/moleculekit/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit 2024-03-20T11:30:08,373 copying build/lib.linux-armv7l-cpython-311/moleculekit/molecule.py -> build/bdist.linux-armv7l/wheel/moleculekit 2024-03-20T11:30:08,381 creating build/bdist.linux-armv7l/wheel/moleculekit/ply 2024-03-20T11:30:08,382 copying build/lib.linux-armv7l-cpython-311/moleculekit/ply/lex.py -> build/bdist.linux-armv7l/wheel/moleculekit/ply 2024-03-20T11:30:08,388 copying build/lib.linux-armv7l-cpython-311/moleculekit/ply/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/ply 2024-03-20T11:30:08,391 copying build/lib.linux-armv7l-cpython-311/moleculekit/ply/yacc.py -> build/bdist.linux-armv7l/wheel/moleculekit/ply 2024-03-20T11:30:08,399 creating build/bdist.linux-armv7l/wheel/moleculekit/bondguesser_utils 2024-03-20T11:30:08,400 copying build/lib.linux-armv7l-cpython-311/moleculekit/bondguesser_utils/bondguesser_utils.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/bondguesser_utils 2024-03-20T11:30:08,408 copying build/lib.linux-armv7l-cpython-311/moleculekit/bondguesser_utils/bondguesser_utils.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/bondguesser_utils 2024-03-20T11:30:08,468 creating build/bdist.linux-armv7l/wheel/moleculekit/interactions 2024-03-20T11:30:08,475 creating build/bdist.linux-armv7l/wheel/moleculekit/interactions/sigmahole 2024-03-20T11:30:08,477 copying build/lib.linux-armv7l-cpython-311/moleculekit/interactions/sigmahole/sigmahole.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/interactions/sigmahole 2024-03-20T11:30:08,483 copying build/lib.linux-armv7l-cpython-311/moleculekit/interactions/sigmahole/sigmahole.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/interactions/sigmahole 2024-03-20T11:30:08,528 copying build/lib.linux-armv7l-cpython-311/moleculekit/interactions/cationpi.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit/interactions 2024-03-20T11:30:08,583 copying build/lib.linux-armv7l-cpython-311/moleculekit/interactions/hbonds.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit/interactions 2024-03-20T11:30:08,623 creating build/bdist.linux-armv7l/wheel/moleculekit/interactions/cationpi 2024-03-20T11:30:08,625 copying build/lib.linux-armv7l-cpython-311/moleculekit/interactions/cationpi/cationpi.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/interactions/cationpi 2024-03-20T11:30:08,672 copying build/lib.linux-armv7l-cpython-311/moleculekit/interactions/cationpi/cationpi.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/interactions/cationpi 2024-03-20T11:30:08,676 copying build/lib.linux-armv7l-cpython-311/moleculekit/interactions/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/interactions 2024-03-20T11:30:08,678 copying build/lib.linux-armv7l-cpython-311/moleculekit/interactions/interactions.py -> build/bdist.linux-armv7l/wheel/moleculekit/interactions 2024-03-20T11:30:08,685 copying build/lib.linux-armv7l-cpython-311/moleculekit/interactions/pipi.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit/interactions 2024-03-20T11:30:08,721 creating build/bdist.linux-armv7l/wheel/moleculekit/interactions/pipi 2024-03-20T11:30:08,723 copying build/lib.linux-armv7l-cpython-311/moleculekit/interactions/pipi/pipi.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/interactions/pipi 2024-03-20T11:30:08,758 copying build/lib.linux-armv7l-cpython-311/moleculekit/interactions/pipi/pipi.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/interactions/pipi 2024-03-20T11:30:08,761 creating build/bdist.linux-armv7l/wheel/moleculekit/interactions/hbonds 2024-03-20T11:30:08,762 copying build/lib.linux-armv7l-cpython-311/moleculekit/interactions/hbonds/hbonds.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/interactions/hbonds 2024-03-20T11:30:08,766 copying build/lib.linux-armv7l-cpython-311/moleculekit/interactions/hbonds/hbonds.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/interactions/hbonds 2024-03-20T11:30:08,798 copying build/lib.linux-armv7l-cpython-311/moleculekit/interactions/sigmahole.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit/interactions 2024-03-20T11:30:08,873 copying build/lib.linux-armv7l-cpython-311/moleculekit/distance_utils.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit 2024-03-20T11:30:08,922 copying build/lib.linux-armv7l-cpython-311/moleculekit/atomselect_utils.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit 2024-03-20T11:30:08,955 creating build/bdist.linux-armv7l/wheel/moleculekit/occupancy_utils 2024-03-20T11:30:08,957 copying build/lib.linux-armv7l-cpython-311/moleculekit/occupancy_utils/occupancy_utils.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/occupancy_utils 2024-03-20T11:30:08,959 copying build/lib.linux-armv7l-cpython-311/moleculekit/occupancy_utils/occupancy_utils.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/occupancy_utils 2024-03-20T11:30:08,985 copying build/lib.linux-armv7l-cpython-311/moleculekit/bondguesser_utils.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit 2024-03-20T11:30:09,012 creating build/bdist.linux-armv7l/wheel/moleculekit/cython_utils 2024-03-20T11:30:09,013 copying build/lib.linux-armv7l-cpython-311/moleculekit/cython_utils/cython_utils.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/cython_utils 2024-03-20T11:30:09,042 copying build/lib.linux-armv7l-cpython-311/moleculekit/cython_utils/cython_utils.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/cython_utils 2024-03-20T11:30:09,046 creating build/bdist.linux-armv7l/wheel/moleculekit/atomselect 2024-03-20T11:30:09,048 copying build/lib.linux-armv7l-cpython-311/moleculekit/atomselect/languageparser.py -> build/bdist.linux-armv7l/wheel/moleculekit/atomselect 2024-03-20T11:30:09,051 copying build/lib.linux-armv7l-cpython-311/moleculekit/atomselect/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/atomselect 2024-03-20T11:30:09,053 copying build/lib.linux-armv7l-cpython-311/moleculekit/atomselect/atomselect.py -> build/bdist.linux-armv7l/wheel/moleculekit/atomselect 2024-03-20T11:30:09,057 copying build/lib.linux-armv7l-cpython-311/moleculekit/atomselect/analyze.py -> build/bdist.linux-armv7l/wheel/moleculekit/atomselect 2024-03-20T11:30:09,060 creating build/bdist.linux-armv7l/wheel/moleculekit/pdbx 2024-03-20T11:30:09,062 creating build/bdist.linux-armv7l/wheel/moleculekit/pdbx/reader 2024-03-20T11:30:09,064 copying build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/reader/PdbxReader.py -> build/bdist.linux-armv7l/wheel/moleculekit/pdbx/reader 2024-03-20T11:30:09,067 copying build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/reader/PdbxParser.py -> build/bdist.linux-armv7l/wheel/moleculekit/pdbx/reader 2024-03-20T11:30:09,070 copying build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/reader/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/pdbx/reader 2024-03-20T11:30:09,072 copying build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/reader/PdbxContainers.py -> build/bdist.linux-armv7l/wheel/moleculekit/pdbx/reader 2024-03-20T11:30:09,076 creating build/bdist.linux-armv7l/wheel/moleculekit/pdbx/tests 2024-03-20T11:30:09,077 copying build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/tests/PdbxReaderTests.py -> build/bdist.linux-armv7l/wheel/moleculekit/pdbx/tests 2024-03-20T11:30:09,080 copying build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/tests/PdbxReadWriteTests.py -> build/bdist.linux-armv7l/wheel/moleculekit/pdbx/tests 2024-03-20T11:30:09,083 copying build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/tests/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/pdbx/tests 2024-03-20T11:30:09,084 copying build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/tests/PdbxWriterTests.py -> build/bdist.linux-armv7l/wheel/moleculekit/pdbx/tests 2024-03-20T11:30:09,087 copying build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/pdbx 2024-03-20T11:30:09,089 creating build/bdist.linux-armv7l/wheel/moleculekit/pdbx/writer 2024-03-20T11:30:09,090 copying build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/writer/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/pdbx/writer 2024-03-20T11:30:09,091 copying build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/writer/PdbxWriter.py -> build/bdist.linux-armv7l/wheel/moleculekit/pdbx/writer 2024-03-20T11:30:09,094 copying build/lib.linux-armv7l-cpython-311/moleculekit/dihedral.py -> build/bdist.linux-armv7l/wheel/moleculekit 2024-03-20T11:30:09,097 copying build/lib.linux-armv7l-cpython-311/moleculekit/distance.py -> build/bdist.linux-armv7l/wheel/moleculekit 2024-03-20T11:30:09,099 copying build/lib.linux-armv7l-cpython-311/moleculekit/logging.ini -> build/bdist.linux-armv7l/wheel/moleculekit 2024-03-20T11:30:09,101 copying build/lib.linux-armv7l-cpython-311/moleculekit/writers.py -> build/bdist.linux-armv7l/wheel/moleculekit 2024-03-20T11:30:09,105 copying build/lib.linux-armv7l-cpython-311/moleculekit/xtc.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit 2024-03-20T11:30:09,132 copying build/lib.linux-armv7l-cpython-311/moleculekit/vmdviewer.py -> build/bdist.linux-armv7l/wheel/moleculekit 2024-03-20T11:30:09,136 copying build/lib.linux-armv7l-cpython-311/moleculekit/bondguesser.py -> build/bdist.linux-armv7l/wheel/moleculekit 2024-03-20T11:30:09,140 creating build/bdist.linux-armv7l/wheel/moleculekit/atomselect_utils 2024-03-20T11:30:09,142 copying build/lib.linux-armv7l-cpython-311/moleculekit/atomselect_utils/atomselect_utils.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/atomselect_utils 2024-03-20T11:30:09,146 copying build/lib.linux-armv7l-cpython-311/moleculekit/atomselect_utils/atomselect_utils.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/atomselect_utils 2024-03-20T11:30:09,182 copying build/lib.linux-armv7l-cpython-311/moleculekit/occupancy_utils.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit 2024-03-20T11:30:09,211 copying build/lib.linux-armv7l-cpython-311/moleculekit/pymolgraphics.py -> build/bdist.linux-armv7l/wheel/moleculekit 2024-03-20T11:30:09,214 copying build/lib.linux-armv7l-cpython-311/moleculekit/util.py -> build/bdist.linux-armv7l/wheel/moleculekit 2024-03-20T11:30:09,217 copying build/lib.linux-armv7l-cpython-311/moleculekit/rcsb.py -> build/bdist.linux-armv7l/wheel/moleculekit 2024-03-20T11:30:09,219 running install_egg_info 2024-03-20T11:30:09,225 Copying moleculekit.egg-info to build/bdist.linux-armv7l/wheel/moleculekit-1.8.27-py3.11.egg-info 2024-03-20T11:30:09,245 running install_scripts 2024-03-20T11:30:09,299 creating build/bdist.linux-armv7l/wheel/moleculekit-1.8.27.dist-info/WHEEL 2024-03-20T11:30:09,303 creating '/tmp/pip-wheel-g1iwkvsj/.tmp-sc2m6dn0/moleculekit-1.8.27-cp311-cp311-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2024-03-20T11:30:09,306 adding 'moleculekit/__init__.py' 2024-03-20T11:30:09,308 adding 'moleculekit/_version.py' 2024-03-20T11:30:09,310 adding 'moleculekit/align.py' 2024-03-20T11:30:09,687 adding 'moleculekit/atomselect_utils.cpython-311-arm-linux-gnueabihf.so' 2024-03-20T11:30:09,846 adding 'moleculekit/binpos.cpython-311-arm-linux-gnueabihf.so' 2024-03-20T11:30:09,852 adding 'moleculekit/bondguesser.py' 2024-03-20T11:30:10,096 adding 'moleculekit/bondguesser_utils.cpython-311-arm-linux-gnueabihf.so' 2024-03-20T11:30:10,105 adding 'moleculekit/config.py' 2024-03-20T11:30:10,389 adding 'moleculekit/cython_utils.cpython-311-arm-linux-gnueabihf.so' 2024-03-20T11:30:10,786 adding 'moleculekit/dcd.cpython-311-arm-linux-gnueabihf.so' 2024-03-20T11:30:10,799 adding 'moleculekit/dihedral.py' 2024-03-20T11:30:10,810 adding 'moleculekit/distance.py' 2024-03-20T11:30:11,127 adding 'moleculekit/distance_utils.cpython-311-arm-linux-gnueabihf.so' 2024-03-20T11:30:11,139 adding 'moleculekit/home.py' 2024-03-20T11:30:11,141 adding 'moleculekit/logging.ini' 2024-03-20T11:30:11,155 adding 'moleculekit/molecule.py' 2024-03-20T11:30:11,384 adding 'moleculekit/occupancy_utils.cpython-311-arm-linux-gnueabihf.so' 2024-03-20T11:30:11,393 adding 'moleculekit/opm.py' 2024-03-20T11:30:11,396 adding 'moleculekit/periodictable.py' 2024-03-20T11:30:11,398 adding 'moleculekit/pymolgraphics.py' 2024-03-20T11:30:11,400 adding 'moleculekit/rcsb.py' 2024-03-20T11:30:11,402 adding 'moleculekit/rdkitintegration.py' 2024-03-20T11:30:11,415 adding 'moleculekit/readers.py' 2024-03-20T11:30:12,012 adding 'moleculekit/tmalign.cpython-311-arm-linux-gnueabihf.so' 2024-03-20T11:30:12,315 adding 'moleculekit/trr.cpython-311-arm-linux-gnueabihf.so' 2024-03-20T11:30:12,327 adding 'moleculekit/util.py' 2024-03-20T11:30:12,330 adding 'moleculekit/version.py' 2024-03-20T11:30:12,332 adding 'moleculekit/viewer.py' 2024-03-20T11:30:12,334 adding 'moleculekit/vmd_wrapper' 2024-03-20T11:30:12,336 adding 'moleculekit/vmdgraphics.py' 2024-03-20T11:30:12,339 adding 'moleculekit/vmdviewer.py' 2024-03-20T11:30:12,592 adding 'moleculekit/wrapping.cpython-311-arm-linux-gnueabihf.so' 2024-03-20T11:30:12,607 adding 'moleculekit/writers.py' 2024-03-20T11:30:12,868 adding 'moleculekit/xtc.cpython-311-arm-linux-gnueabihf.so' 2024-03-20T11:30:12,879 adding 'moleculekit/atomselect/__init__.py' 2024-03-20T11:30:12,880 adding 'moleculekit/atomselect/analyze.py' 2024-03-20T11:30:12,883 adding 'moleculekit/atomselect/atomselect.py' 2024-03-20T11:30:12,886 adding 'moleculekit/atomselect/languageparser.py' 2024-03-20T11:30:12,990 adding 'moleculekit/atomselect_utils/atomselect_utils.cpp' 2024-03-20T11:30:13,002 adding 'moleculekit/atomselect_utils/atomselect_utils.pyx' 2024-03-20T11:30:13,093 adding 'moleculekit/bondguesser_utils/bondguesser_utils.cpp' 2024-03-20T11:30:13,103 adding 'moleculekit/bondguesser_utils/bondguesser_utils.pyx' 2024-03-20T11:30:13,191 adding 'moleculekit/cython_utils/cython_utils.cpp' 2024-03-20T11:30:13,201 adding 'moleculekit/cython_utils/cython_utils.pyx' 2024-03-20T11:30:13,304 adding 'moleculekit/distance_utils/distance_utils.cpp' 2024-03-20T11:30:13,316 adding 'moleculekit/distance_utils/distance_utils.pyx' 2024-03-20T11:30:13,320 adding 'moleculekit/fileformats/__init__.py' 2024-03-20T11:30:13,326 adding 'moleculekit/fileformats/netcdf.py' 2024-03-20T11:30:13,328 adding 'moleculekit/fileformats/utils.py' 2024-03-20T11:30:13,390 adding 'moleculekit/fileformats/binpos/binpos.c' 2024-03-20T11:30:13,397 adding 'moleculekit/fileformats/binpos/binpos.pyx' 2024-03-20T11:30:13,399 adding 'moleculekit/fileformats/binpos/binposlib.pxd' 2024-03-20T11:30:13,402 adding 'moleculekit/fileformats/binpos/include/binposplugin.h' 2024-03-20T11:30:13,404 adding 'moleculekit/fileformats/binpos/include/largefiles.h' 2024-03-20T11:30:13,409 adding 'moleculekit/fileformats/binpos/include/molfile_plugin.h' 2024-03-20T11:30:13,412 adding 'moleculekit/fileformats/binpos/src/binposplugin.c' 2024-03-20T11:30:13,475 adding 'moleculekit/fileformats/dcd/dcd.c' 2024-03-20T11:30:13,484 adding 'moleculekit/fileformats/dcd/dcd.pyx' 2024-03-20T11:30:13,486 adding 'moleculekit/fileformats/dcd/dcdlib.pxd' 2024-03-20T11:30:13,488 adding 'moleculekit/fileformats/dcd/include/dcdplugin.h' 2024-03-20T11:30:13,490 adding 'moleculekit/fileformats/dcd/include/endianswap.h' 2024-03-20T11:30:13,492 adding 'moleculekit/fileformats/dcd/include/fastio.h' 2024-03-20T11:30:13,494 adding 'moleculekit/fileformats/dcd/include/largefiles.h' 2024-03-20T11:30:13,500 adding 'moleculekit/fileformats/dcd/include/molfile_plugin.h' 2024-03-20T11:30:13,505 adding 'moleculekit/fileformats/dcd/src/dcdplugin.c' 2024-03-20T11:30:13,600 adding 'moleculekit/fileformats/xtc/trr.c' 2024-03-20T11:30:13,612 adding 'moleculekit/fileformats/xtc/trr.pyx' 2024-03-20T11:30:13,614 adding 'moleculekit/fileformats/xtc/trrlib.pxd' 2024-03-20T11:30:13,615 adding 'moleculekit/fileformats/xtc/xdrlib.pxd' 2024-03-20T11:30:13,705 adding 'moleculekit/fileformats/xtc/xtc.cpp' 2024-03-20T11:30:13,714 adding 'moleculekit/fileformats/xtc/xtc.pyx' 2024-03-20T11:30:13,716 adding 'moleculekit/fileformats/xtc/xtclib.pxd' 2024-03-20T11:30:13,718 adding 'moleculekit/fileformats/xtc/include/trr_header.h' 2024-03-20T11:30:13,719 adding 'moleculekit/fileformats/xtc/include/xdr_seek.h' 2024-03-20T11:30:13,722 adding 'moleculekit/fileformats/xtc/include/xdrfile.h' 2024-03-20T11:30:13,724 adding 'moleculekit/fileformats/xtc/include/xdrfile_trr.h' 2024-03-20T11:30:13,726 adding 'moleculekit/fileformats/xtc/include/xdrfile_xtc.h' 2024-03-20T11:30:13,728 adding 'moleculekit/fileformats/xtc/include/xtc.h' 2024-03-20T11:30:13,730 adding 'moleculekit/fileformats/xtc/src/xdr_seek.c' 2024-03-20T11:30:13,737 adding 'moleculekit/fileformats/xtc/src/xdrfile.cpp' 2024-03-20T11:30:13,740 adding 'moleculekit/fileformats/xtc/src/xdrfile_trr.c' 2024-03-20T11:30:13,742 adding 'moleculekit/fileformats/xtc/src/xdrfile_xtc.cpp' 2024-03-20T11:30:13,745 adding 'moleculekit/fileformats/xtc/src/xtc.cpp' 2024-03-20T11:30:13,747 adding 'moleculekit/interactions/__init__.py' 2024-03-20T11:30:14,028 adding 'moleculekit/interactions/cationpi.cpython-311-arm-linux-gnueabihf.so' 2024-03-20T11:30:14,294 adding 'moleculekit/interactions/hbonds.cpython-311-arm-linux-gnueabihf.so' 2024-03-20T11:30:14,306 adding 'moleculekit/interactions/interactions.py' 2024-03-20T11:30:14,583 adding 'moleculekit/interactions/pipi.cpython-311-arm-linux-gnueabihf.so' 2024-03-20T11:30:14,866 adding 'moleculekit/interactions/sigmahole.cpython-311-arm-linux-gnueabihf.so' 2024-03-20T11:30:14,966 adding 'moleculekit/interactions/cationpi/cationpi.cpp' 2024-03-20T11:30:14,976 adding 'moleculekit/interactions/cationpi/cationpi.pyx' 2024-03-20T11:30:15,067 adding 'moleculekit/interactions/hbonds/hbonds.cpp' 2024-03-20T11:30:15,076 adding 'moleculekit/interactions/hbonds/hbonds.pyx' 2024-03-20T11:30:15,168 adding 'moleculekit/interactions/pipi/pipi.cpp' 2024-03-20T11:30:15,177 adding 'moleculekit/interactions/pipi/pipi.pyx' 2024-03-20T11:30:15,268 adding 'moleculekit/interactions/sigmahole/sigmahole.cpp' 2024-03-20T11:30:15,278 adding 'moleculekit/interactions/sigmahole/sigmahole.pyx' 2024-03-20T11:30:15,365 adding 'moleculekit/occupancy_utils/occupancy_utils.cpp' 2024-03-20T11:30:15,374 adding 'moleculekit/occupancy_utils/occupancy_utils.pyx' 2024-03-20T11:30:15,376 adding 'moleculekit/pdbx/__init__.py' 2024-03-20T11:30:15,380 adding 'moleculekit/pdbx/reader/PdbxContainers.py' 2024-03-20T11:30:15,384 adding 'moleculekit/pdbx/reader/PdbxParser.py' 2024-03-20T11:30:15,387 adding 'moleculekit/pdbx/reader/PdbxReader.py' 2024-03-20T11:30:15,389 adding 'moleculekit/pdbx/reader/__init__.py' 2024-03-20T11:30:15,392 adding 'moleculekit/pdbx/tests/PdbxReadWriteTests.py' 2024-03-20T11:30:15,394 adding 'moleculekit/pdbx/tests/PdbxReaderTests.py' 2024-03-20T11:30:15,395 adding 'moleculekit/pdbx/tests/PdbxWriterTests.py' 2024-03-20T11:30:15,397 adding 'moleculekit/pdbx/tests/__init__.py' 2024-03-20T11:30:15,401 adding 'moleculekit/pdbx/writer/PdbxWriter.py' 2024-03-20T11:30:15,403 adding 'moleculekit/pdbx/writer/__init__.py' 2024-03-20T11:30:15,405 adding 'moleculekit/ply/__init__.py' 2024-03-20T11:30:15,410 adding 'moleculekit/ply/lex.py' 2024-03-20T11:30:15,422 adding 'moleculekit/ply/yacc.py' 2024-03-20T11:30:15,425 adding 'moleculekit/projections/__init__.py' 2024-03-20T11:30:15,427 adding 'moleculekit/projections/metriccoordinate.py' 2024-03-20T11:30:15,431 adding 'moleculekit/projections/metricdihedral.py' 2024-03-20T11:30:15,435 adding 'moleculekit/projections/metricdistance.py' 2024-03-20T11:30:15,438 adding 'moleculekit/projections/metricfluctuation.py' 2024-03-20T11:30:15,440 adding 'moleculekit/projections/metricgyration.py' 2024-03-20T11:30:15,444 adding 'moleculekit/projections/metricplumed2.py' 2024-03-20T11:30:15,446 adding 'moleculekit/projections/metricrmsd.py' 2024-03-20T11:30:15,449 adding 'moleculekit/projections/metricsasa.py' 2024-03-20T11:30:15,451 adding 'moleculekit/projections/metricsecondarystructure.py' 2024-03-20T11:30:15,453 adding 'moleculekit/projections/metricshell.py' 2024-03-20T11:30:15,455 adding 'moleculekit/projections/metricsphericalcoordinate.py' 2024-03-20T11:30:15,457 adding 'moleculekit/projections/metrictmscore.py' 2024-03-20T11:30:15,459 adding 'moleculekit/projections/projection.py' 2024-03-20T11:30:15,461 adding 'moleculekit/projections/util.py' 2024-03-20T11:30:15,464 adding 'moleculekit/share/ALA.cif' 2024-03-20T11:30:15,465 adding 'moleculekit/share/backbone.cif' 2024-03-20T11:30:16,767 adding 'moleculekit/share/opm_sequences.json' 2024-03-20T11:30:16,852 adding 'moleculekit/share/atomselect/atomselect.json' 2024-03-20T11:30:16,859 adding 'moleculekit/share/pdb2pqr/residues/.gitkeep' 2024-03-20T11:30:16,861 adding 'moleculekit/share/pdb2pqr/residues/004.dat' 2024-03-20T11:30:16,862 adding 'moleculekit/share/pdb2pqr/residues/004.xml' 2024-03-20T11:30:16,864 adding 'moleculekit/share/pdb2pqr/residues/03Y.dat' 2024-03-20T11:30:16,866 adding 'moleculekit/share/pdb2pqr/residues/03Y.xml' 2024-03-20T11:30:16,868 adding 'moleculekit/share/pdb2pqr/residues/0A1.dat' 2024-03-20T11:30:16,869 adding 'moleculekit/share/pdb2pqr/residues/0A1.xml' 2024-03-20T11:30:16,871 adding 'moleculekit/share/pdb2pqr/residues/0AF.dat' 2024-03-20T11:30:16,872 adding 'moleculekit/share/pdb2pqr/residues/0AF.xml' 2024-03-20T11:30:16,873 adding 'moleculekit/share/pdb2pqr/residues/0BN.dat' 2024-03-20T11:30:16,875 adding 'moleculekit/share/pdb2pqr/residues/0BN.xml' 2024-03-20T11:30:16,877 adding 'moleculekit/share/pdb2pqr/residues/1MH.dat' 2024-03-20T11:30:16,878 adding 'moleculekit/share/pdb2pqr/residues/1MH.xml' 2024-03-20T11:30:16,879 adding 'moleculekit/share/pdb2pqr/residues/2AS.dat' 2024-03-20T11:30:16,881 adding 'moleculekit/share/pdb2pqr/residues/2AS.xml' 2024-03-20T11:30:16,883 adding 'moleculekit/share/pdb2pqr/residues/2GX.dat' 2024-03-20T11:30:16,884 adding 'moleculekit/share/pdb2pqr/residues/2GX.xml' 2024-03-20T11:30:16,886 adding 'moleculekit/share/pdb2pqr/residues/2ML.dat' 2024-03-20T11:30:16,887 adding 'moleculekit/share/pdb2pqr/residues/2ML.xml' 2024-03-20T11:30:16,889 adding 'moleculekit/share/pdb2pqr/residues/2MR.dat' 2024-03-20T11:30:16,890 adding 'moleculekit/share/pdb2pqr/residues/2MR.xml' 2024-03-20T11:30:16,892 adding 'moleculekit/share/pdb2pqr/residues/4IN.dat' 2024-03-20T11:30:16,893 adding 'moleculekit/share/pdb2pqr/residues/4IN.xml' 2024-03-20T11:30:16,895 adding 'moleculekit/share/pdb2pqr/residues/4PH.dat' 2024-03-20T11:30:16,896 adding 'moleculekit/share/pdb2pqr/residues/4PH.xml' 2024-03-20T11:30:16,898 adding 'moleculekit/share/pdb2pqr/residues/4PQ.dat' 2024-03-20T11:30:16,899 adding 'moleculekit/share/pdb2pqr/residues/4PQ.xml' 2024-03-20T11:30:16,901 adding 'moleculekit/share/pdb2pqr/residues/5JP.dat' 2024-03-20T11:30:16,902 adding 'moleculekit/share/pdb2pqr/residues/5JP.xml' 2024-03-20T11:30:16,904 adding 'moleculekit/share/pdb2pqr/residues/AA4.dat' 2024-03-20T11:30:16,905 adding 'moleculekit/share/pdb2pqr/residues/AA4.xml' 2024-03-20T11:30:16,906 adding 'moleculekit/share/pdb2pqr/residues/ABA.dat' 2024-03-20T11:30:16,908 adding 'moleculekit/share/pdb2pqr/residues/ABA.xml' 2024-03-20T11:30:16,909 adding 'moleculekit/share/pdb2pqr/residues/AHP.dat' 2024-03-20T11:30:16,911 adding 'moleculekit/share/pdb2pqr/residues/AHP.xml' 2024-03-20T11:30:16,913 adding 'moleculekit/share/pdb2pqr/residues/ALC.dat' 2024-03-20T11:30:16,914 adding 'moleculekit/share/pdb2pqr/residues/ALC.xml' 2024-03-20T11:30:16,916 adding 'moleculekit/share/pdb2pqr/residues/ALN.dat' 2024-03-20T11:30:16,917 adding 'moleculekit/share/pdb2pqr/residues/ALN.xml' 2024-03-20T11:30:16,919 adding 'moleculekit/share/pdb2pqr/residues/ALY.dat' 2024-03-20T11:30:16,920 adding 'moleculekit/share/pdb2pqr/residues/ALY.xml' 2024-03-20T11:30:16,922 adding 'moleculekit/share/pdb2pqr/residues/APD.dat' 2024-03-20T11:30:16,923 adding 'moleculekit/share/pdb2pqr/residues/APD.xml' 2024-03-20T11:30:16,925 adding 'moleculekit/share/pdb2pqr/residues/BB8.dat' 2024-03-20T11:30:16,926 adding 'moleculekit/share/pdb2pqr/residues/BB8.xml' 2024-03-20T11:30:16,928 adding 'moleculekit/share/pdb2pqr/residues/BCS.dat' 2024-03-20T11:30:16,929 adding 'moleculekit/share/pdb2pqr/residues/BCS.xml' 2024-03-20T11:30:16,931 adding 'moleculekit/share/pdb2pqr/residues/BTK.dat' 2024-03-20T11:30:16,932 adding 'moleculekit/share/pdb2pqr/residues/BTK.xml' 2024-03-20T11:30:16,934 adding 'moleculekit/share/pdb2pqr/residues/CCS.dat' 2024-03-20T11:30:16,935 adding 'moleculekit/share/pdb2pqr/residues/CCS.xml' 2024-03-20T11:30:16,937 adding 'moleculekit/share/pdb2pqr/residues/CGU.dat' 2024-03-20T11:30:16,938 adding 'moleculekit/share/pdb2pqr/residues/CGU.xml' 2024-03-20T11:30:16,939 adding 'moleculekit/share/pdb2pqr/residues/CSA.dat' 2024-03-20T11:30:16,941 adding 'moleculekit/share/pdb2pqr/residues/CSA.xml' 2024-03-20T11:30:16,943 adding 'moleculekit/share/pdb2pqr/residues/CSO.dat' 2024-03-20T11:30:16,944 adding 'moleculekit/share/pdb2pqr/residues/CSO.xml' 2024-03-20T11:30:16,946 adding 'moleculekit/share/pdb2pqr/residues/CSP.dat' 2024-03-20T11:30:16,948 adding 'moleculekit/share/pdb2pqr/residues/CSP.xml' 2024-03-20T11:30:16,950 adding 'moleculekit/share/pdb2pqr/residues/CSS.dat' 2024-03-20T11:30:16,951 adding 'moleculekit/share/pdb2pqr/residues/CSS.xml' 2024-03-20T11:30:16,953 adding 'moleculekit/share/pdb2pqr/residues/D4P.dat' 2024-03-20T11:30:16,955 adding 'moleculekit/share/pdb2pqr/residues/D4P.xml' 2024-03-20T11:30:16,958 adding 'moleculekit/share/pdb2pqr/residues/DA2.dat' 2024-03-20T11:30:16,959 adding 'moleculekit/share/pdb2pqr/residues/DA2.xml' 2024-03-20T11:30:16,961 adding 'moleculekit/share/pdb2pqr/residues/DAB.dat' 2024-03-20T11:30:16,962 adding 'moleculekit/share/pdb2pqr/residues/DAB.xml' 2024-03-20T11:30:16,964 adding 'moleculekit/share/pdb2pqr/residues/DAH.dat' 2024-03-20T11:30:16,966 adding 'moleculekit/share/pdb2pqr/residues/DAH.xml' 2024-03-20T11:30:16,967 adding 'moleculekit/share/pdb2pqr/residues/DPP.dat' 2024-03-20T11:30:16,969 adding 'moleculekit/share/pdb2pqr/residues/DPP.xml' 2024-03-20T11:30:16,970 adding 'moleculekit/share/pdb2pqr/residues/ESC.dat' 2024-03-20T11:30:16,972 adding 'moleculekit/share/pdb2pqr/residues/ESC.xml' 2024-03-20T11:30:16,973 adding 'moleculekit/share/pdb2pqr/residues/FGL.dat' 2024-03-20T11:30:16,975 adding 'moleculekit/share/pdb2pqr/residues/FGL.xml' 2024-03-20T11:30:16,976 adding 'moleculekit/share/pdb2pqr/residues/GHG.dat' 2024-03-20T11:30:16,978 adding 'moleculekit/share/pdb2pqr/residues/GHG.xml' 2024-03-20T11:30:16,979 adding 'moleculekit/share/pdb2pqr/residues/GME.dat' 2024-03-20T11:30:16,981 adding 'moleculekit/share/pdb2pqr/residues/GME.xml' 2024-03-20T11:30:16,982 adding 'moleculekit/share/pdb2pqr/residues/GNC.dat' 2024-03-20T11:30:16,983 adding 'moleculekit/share/pdb2pqr/residues/GNC.xml' 2024-03-20T11:30:16,985 adding 'moleculekit/share/pdb2pqr/residues/HHK.dat' 2024-03-20T11:30:16,986 adding 'moleculekit/share/pdb2pqr/residues/HHK.xml' 2024-03-20T11:30:16,988 adding 'moleculekit/share/pdb2pqr/residues/HLU.dat' 2024-03-20T11:30:16,990 adding 'moleculekit/share/pdb2pqr/residues/HLU.xml' 2024-03-20T11:30:16,991 adding 'moleculekit/share/pdb2pqr/residues/HLX.dat' 2024-03-20T11:30:16,993 adding 'moleculekit/share/pdb2pqr/residues/HLX.xml' 2024-03-20T11:30:16,994 adding 'moleculekit/share/pdb2pqr/residues/HOX.dat' 2024-03-20T11:30:16,996 adding 'moleculekit/share/pdb2pqr/residues/HOX.xml' 2024-03-20T11:30:16,997 adding 'moleculekit/share/pdb2pqr/residues/HPE.dat' 2024-03-20T11:30:16,999 adding 'moleculekit/share/pdb2pqr/residues/HPE.xml' 2024-03-20T11:30:17,000 adding 'moleculekit/share/pdb2pqr/residues/HQA.dat' 2024-03-20T11:30:17,001 adding 'moleculekit/share/pdb2pqr/residues/HQA.xml' 2024-03-20T11:30:17,003 adding 'moleculekit/share/pdb2pqr/residues/HTR.dat' 2024-03-20T11:30:17,004 adding 'moleculekit/share/pdb2pqr/residues/HTR.xml' 2024-03-20T11:30:17,005 adding 'moleculekit/share/pdb2pqr/residues/HYP.dat' 2024-03-20T11:30:17,006 adding 'moleculekit/share/pdb2pqr/residues/HYP.xml' 2024-03-20T11:30:17,007 adding 'moleculekit/share/pdb2pqr/residues/I2M.dat' 2024-03-20T11:30:17,009 adding 'moleculekit/share/pdb2pqr/residues/I2M.xml' 2024-03-20T11:30:17,010 adding 'moleculekit/share/pdb2pqr/residues/IGL.dat' 2024-03-20T11:30:17,012 adding 'moleculekit/share/pdb2pqr/residues/IGL.xml' 2024-03-20T11:30:17,013 adding 'moleculekit/share/pdb2pqr/residues/IIL.dat' 2024-03-20T11:30:17,014 adding 'moleculekit/share/pdb2pqr/residues/IIL.xml' 2024-03-20T11:30:17,016 adding 'moleculekit/share/pdb2pqr/residues/IML.dat' 2024-03-20T11:30:17,017 adding 'moleculekit/share/pdb2pqr/residues/IML.xml' 2024-03-20T11:30:17,018 adding 'moleculekit/share/pdb2pqr/residues/KYN.dat' 2024-03-20T11:30:17,020 adding 'moleculekit/share/pdb2pqr/residues/KYN.xml' 2024-03-20T11:30:17,021 adding 'moleculekit/share/pdb2pqr/residues/LME.dat' 2024-03-20T11:30:17,022 adding 'moleculekit/share/pdb2pqr/residues/LME.xml' 2024-03-20T11:30:17,023 adding 'moleculekit/share/pdb2pqr/residues/LMQ.dat' 2024-03-20T11:30:17,025 adding 'moleculekit/share/pdb2pqr/residues/LMQ.xml' 2024-03-20T11:30:17,026 adding 'moleculekit/share/pdb2pqr/residues/LYZ.dat' 2024-03-20T11:30:17,028 adding 'moleculekit/share/pdb2pqr/residues/LYZ.xml' 2024-03-20T11:30:17,029 adding 'moleculekit/share/pdb2pqr/residues/M3L.dat' 2024-03-20T11:30:17,031 adding 'moleculekit/share/pdb2pqr/residues/M3L.xml' 2024-03-20T11:30:17,032 adding 'moleculekit/share/pdb2pqr/residues/ME0.dat' 2024-03-20T11:30:17,033 adding 'moleculekit/share/pdb2pqr/residues/ME0.xml' 2024-03-20T11:30:17,034 adding 'moleculekit/share/pdb2pqr/residues/MEA.dat' 2024-03-20T11:30:17,036 adding 'moleculekit/share/pdb2pqr/residues/MEA.xml' 2024-03-20T11:30:17,037 adding 'moleculekit/share/pdb2pqr/residues/MEN.dat' 2024-03-20T11:30:17,038 adding 'moleculekit/share/pdb2pqr/residues/MEN.xml' 2024-03-20T11:30:17,039 adding 'moleculekit/share/pdb2pqr/residues/MEQ.dat' 2024-03-20T11:30:17,041 adding 'moleculekit/share/pdb2pqr/residues/MEQ.xml' 2024-03-20T11:30:17,042 adding 'moleculekit/share/pdb2pqr/residues/MLE.dat' 2024-03-20T11:30:17,043 adding 'moleculekit/share/pdb2pqr/residues/MLE.xml' 2024-03-20T11:30:17,044 adding 'moleculekit/share/pdb2pqr/residues/MLY.dat' 2024-03-20T11:30:17,046 adding 'moleculekit/share/pdb2pqr/residues/MLY.xml' 2024-03-20T11:30:17,047 adding 'moleculekit/share/pdb2pqr/residues/MLZ.dat' 2024-03-20T11:30:17,049 adding 'moleculekit/share/pdb2pqr/residues/MLZ.xml' 2024-03-20T11:30:17,050 adding 'moleculekit/share/pdb2pqr/residues/MME.dat' 2024-03-20T11:30:17,051 adding 'moleculekit/share/pdb2pqr/residues/MME.xml' 2024-03-20T11:30:17,052 adding 'moleculekit/share/pdb2pqr/residues/MMO.dat' 2024-03-20T11:30:17,053 adding 'moleculekit/share/pdb2pqr/residues/MMO.xml' 2024-03-20T11:30:17,054 adding 'moleculekit/share/pdb2pqr/residues/MVA.dat' 2024-03-20T11:30:17,056 adding 'moleculekit/share/pdb2pqr/residues/MVA.xml' 2024-03-20T11:30:17,057 adding 'moleculekit/share/pdb2pqr/residues/NAL.dat' 2024-03-20T11:30:17,058 adding 'moleculekit/share/pdb2pqr/residues/NAL.xml' 2024-03-20T11:30:17,059 adding 'moleculekit/share/pdb2pqr/residues/NCY.dat' 2024-03-20T11:30:17,061 adding 'moleculekit/share/pdb2pqr/residues/NCY.xml' 2024-03-20T11:30:17,062 adding 'moleculekit/share/pdb2pqr/residues/NLE.dat' 2024-03-20T11:30:17,063 adding 'moleculekit/share/pdb2pqr/residues/NLE.xml' 2024-03-20T11:30:17,064 adding 'moleculekit/share/pdb2pqr/residues/NVA.dat' 2024-03-20T11:30:17,066 adding 'moleculekit/share/pdb2pqr/residues/NVA.xml' 2024-03-20T11:30:17,067 adding 'moleculekit/share/pdb2pqr/residues/NZC.dat' 2024-03-20T11:30:17,069 adding 'moleculekit/share/pdb2pqr/residues/NZC.xml' 2024-03-20T11:30:17,070 adding 'moleculekit/share/pdb2pqr/residues/OCY.dat' 2024-03-20T11:30:17,072 adding 'moleculekit/share/pdb2pqr/residues/OCY.xml' 2024-03-20T11:30:17,073 adding 'moleculekit/share/pdb2pqr/residues/OMX.dat' 2024-03-20T11:30:17,074 adding 'moleculekit/share/pdb2pqr/residues/OMX.xml' 2024-03-20T11:30:17,075 adding 'moleculekit/share/pdb2pqr/residues/ONL.dat' 2024-03-20T11:30:17,077 adding 'moleculekit/share/pdb2pqr/residues/ONL.xml' 2024-03-20T11:30:17,078 adding 'moleculekit/share/pdb2pqr/residues/ORM.dat' 2024-03-20T11:30:17,079 adding 'moleculekit/share/pdb2pqr/residues/ORM.xml' 2024-03-20T11:30:17,080 adding 'moleculekit/share/pdb2pqr/residues/P1L.dat' 2024-03-20T11:30:17,082 adding 'moleculekit/share/pdb2pqr/residues/P1L.xml' 2024-03-20T11:30:17,083 adding 'moleculekit/share/pdb2pqr/residues/PCA.dat' 2024-03-20T11:30:17,085 adding 'moleculekit/share/pdb2pqr/residues/PCA.xml' 2024-03-20T11:30:17,086 adding 'moleculekit/share/pdb2pqr/residues/PRK.dat' 2024-03-20T11:30:17,087 adding 'moleculekit/share/pdb2pqr/residues/PRK.xml' 2024-03-20T11:30:17,088 adding 'moleculekit/share/pdb2pqr/residues/PTR.dat' 2024-03-20T11:30:17,090 adding 'moleculekit/share/pdb2pqr/residues/PTR.xml' 2024-03-20T11:30:17,091 adding 'moleculekit/share/pdb2pqr/residues/SEP.dat' 2024-03-20T11:30:17,092 adding 'moleculekit/share/pdb2pqr/residues/SEP.xml' 2024-03-20T11:30:17,094 adding 'moleculekit/share/pdb2pqr/residues/TPO.dat' 2024-03-20T11:30:17,095 adding 'moleculekit/share/pdb2pqr/residues/TPO.xml' 2024-03-20T11:30:17,096 adding 'moleculekit/share/pdb2pqr/residues/TRO.dat' 2024-03-20T11:30:17,098 adding 'moleculekit/share/pdb2pqr/residues/TRO.xml' 2024-03-20T11:30:17,099 adding 'moleculekit/share/pdb2pqr/residues/TY2.dat' 2024-03-20T11:30:17,100 adding 'moleculekit/share/pdb2pqr/residues/TY2.xml' 2024-03-20T11:30:17,102 adding 'moleculekit/share/pdb2pqr/residues/TYQ.dat' 2024-03-20T11:30:17,103 adding 'moleculekit/share/pdb2pqr/residues/TYQ.xml' 2024-03-20T11:30:17,105 adding 'moleculekit/share/pdb2pqr/residues/YCM.dat' 2024-03-20T11:30:17,106 adding 'moleculekit/share/pdb2pqr/residues/YCM.xml' 2024-03-20T11:30:17,107 adding 'moleculekit/share/pdb2pqr/residues/YNM.dat' 2024-03-20T11:30:17,109 adding 'moleculekit/share/pdb2pqr/residues/YNM.xml' 2024-03-20T11:30:17,111 adding 'moleculekit/smallmol/__init__.py' 2024-03-20T11:30:17,117 adding 'moleculekit/smallmol/smallmol.py' 2024-03-20T11:30:17,119 adding 'moleculekit/smallmol/smallmollib.py' 2024-03-20T11:30:17,121 adding 'moleculekit/smallmol/test_smallmol.py' 2024-03-20T11:30:17,123 adding 'moleculekit/smallmol/test_smallmollib.py' 2024-03-20T11:30:17,125 adding 'moleculekit/smallmol/util.py' 2024-03-20T11:30:17,127 adding 'moleculekit/smallmol/tools/__init__.py' 2024-03-20T11:30:17,129 adding 'moleculekit/smallmol/tools/clustering.py' 2024-03-20T11:30:17,130 adding 'moleculekit/smallmol/tools/restrainedembed.py' 2024-03-20T11:30:17,132 adding 'moleculekit/smallmol/tools/test_tools.py' 2024-03-20T11:30:17,221 adding 'moleculekit/tmalign/tmalign_util.cpp' 2024-03-20T11:30:17,230 adding 'moleculekit/tmalign/tmalign_util.pyx' 2024-03-20T11:30:17,231 adding 'moleculekit/tmalign/tmalignlib.pxd' 2024-03-20T11:30:17,233 adding 'moleculekit/tmalign/include/TMAlign.h' 2024-03-20T11:30:17,250 adding 'moleculekit/tmalign/src/TMAlign.cpp' 2024-03-20T11:30:17,254 adding 'moleculekit/tools/__init__.py' 2024-03-20T11:30:17,256 adding 'moleculekit/tools/atomtyper.py' 2024-03-20T11:30:17,258 adding 'moleculekit/tools/autosegment.py' 2024-03-20T11:30:17,260 adding 'moleculekit/tools/crystalpacking.py' 2024-03-20T11:30:17,264 adding 'moleculekit/tools/detect.py' 2024-03-20T11:30:17,266 adding 'moleculekit/tools/docking.py' 2024-03-20T11:30:17,268 adding 'moleculekit/tools/graphalignment.py' 2024-03-20T11:30:17,269 adding 'moleculekit/tools/hhblitsprofile.py' 2024-03-20T11:30:17,271 adding 'moleculekit/tools/modelling.py' 2024-03-20T11:30:17,273 adding 'moleculekit/tools/moleculechecks.py' 2024-03-20T11:30:17,279 adding 'moleculekit/tools/preparation.py' 2024-03-20T11:30:17,282 adding 'moleculekit/tools/preparation_customres.py' 2024-03-20T11:30:17,284 adding 'moleculekit/tools/sequencestructuralalignment.py' 2024-03-20T11:30:17,286 adding 'moleculekit/tools/voxeldescriptors.py' 2024-03-20T11:30:17,288 adding 'moleculekit/tools/obabel_tools/__init__.py' 2024-03-20T11:30:17,290 adding 'moleculekit/tools/obabel_tools/obabel_cli.py' 2024-03-20T11:30:17,381 adding 'moleculekit/wrapping/wrapping.cpp' 2024-03-20T11:30:17,390 adding 'moleculekit/wrapping/wrapping.pyx' 2024-03-20T11:30:17,393 adding 'moleculekit-1.8.27.dist-info/LICENSE' 2024-03-20T11:30:17,395 adding 'moleculekit-1.8.27.dist-info/METADATA' 2024-03-20T11:30:17,396 adding 'moleculekit-1.8.27.dist-info/WHEEL' 2024-03-20T11:30:17,397 adding 'moleculekit-1.8.27.dist-info/top_level.txt' 2024-03-20T11:30:17,402 adding 'moleculekit-1.8.27.dist-info/RECORD' 2024-03-20T11:30:18,009 removing build/bdist.linux-armv7l/wheel 2024-03-20T11:30:18,355 Building wheel for moleculekit (pyproject.toml): finished with status 'done' 2024-03-20T11:30:18,671 Created wheel for moleculekit: filename=moleculekit-1.8.27-cp311-cp311-linux_armv7l.whl size=15271454 sha256=8a573033f33f4f16ba75cf9a05329b6842b25a3947b5cfd1a5c439e7a837fa1a 2024-03-20T11:30:18,672 Stored in directory: /tmp/pip-ephem-wheel-cache-5ptqmy84/wheels/92/16/f8/523e0712cbcf7310fa7d64f02a95deb8e6923a15e9384546e4 2024-03-20T11:30:18,698 Successfully built moleculekit 2024-03-20T11:30:19,290 Removed build tracker: '/tmp/pip-build-tracker-4ii0hzgr'