2023-09-28T21:52:04,741 Created temporary directory: /tmp/pip-build-tracker-nz9wj7er 2023-09-28T21:52:04,743 Initialized build tracking at /tmp/pip-build-tracker-nz9wj7er 2023-09-28T21:52:04,743 Created build tracker: /tmp/pip-build-tracker-nz9wj7er 2023-09-28T21:52:04,743 Entered build tracker: /tmp/pip-build-tracker-nz9wj7er 2023-09-28T21:52:04,744 Created temporary directory: /tmp/pip-wheel-balz080j 2023-09-28T21:52:04,747 Created temporary directory: /tmp/pip-ephem-wheel-cache-ytjgmjf1 2023-09-28T21:52:04,769 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2023-09-28T21:52:04,773 2 location(s) to search for versions of moleculekit: 2023-09-28T21:52:04,773 * https://pypi.org/simple/moleculekit/ 2023-09-28T21:52:04,773 * https://www.piwheels.org/simple/moleculekit/ 2023-09-28T21:52:04,774 Fetching project page and analyzing links: https://pypi.org/simple/moleculekit/ 2023-09-28T21:52:04,774 Getting page https://pypi.org/simple/moleculekit/ 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links for project 'moleculekit': discarding no candidates 2023-09-28T21:52:05,611 Collecting moleculekit==1.7.12 2023-09-28T21:52:05,613 Created temporary directory: /tmp/pip-unpack-t0m7s9jg 2023-09-28T21:52:06,704 Downloading moleculekit-1.7.12.tar.gz (6.2 MB) 2023-09-28T21:52:09,453 Added moleculekit==1.7.12 from https://files.pythonhosted.org/packages/37/05/3105db0d4a63b49d0f4534b5e9d6a488b96b83b3aac621224338f3a6aa6b/moleculekit-1.7.12.tar.gz to build tracker '/tmp/pip-build-tracker-nz9wj7er' 2023-09-28T21:52:09,461 Created temporary directory: /tmp/pip-build-env-wncjl7eg 2023-09-28T21:52:09,466 Installing build dependencies: started 2023-09-28T21:52:09,467 Running command pip subprocess to install build dependencies 2023-09-28T21:52:12,624 Using pip 23.2.1 from /usr/local/lib/python3.11/dist-packages/pip (python 3.11) 2023-09-28T21:52:14,536 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2023-09-28T21:52:16,077 Collecting setuptools 2023-09-28T21:52:16,143 Using cached https://www.piwheels.org/simple/setuptools/setuptools-68.2.2-py3-none-any.whl (807 kB) 2023-09-28T21:52:16,884 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) 2023-09-28T21:52:16,892 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) 2023-09-28T21:52:16,898 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) 2023-09-28T21:52:16,905 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) 2023-09-28T21:52:16,912 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) 2023-09-28T21:52:17,297 Collecting numpy>=1.18.5 2023-09-28T21:52:18,188 Using cached https://www.piwheels.org/simple/numpy/numpy-1.25.2-cp311-cp311-linux_armv7l.whl (12.5 MB) 2023-09-28T21:52:19,914 Collecting Cython>=0.29.21 2023-09-28T21:52:20,753 Using cached https://www.piwheels.org/simple/cython/Cython-3.0.2-cp311-cp311-linux_armv7l.whl (11.7 MB) 2023-09-28T21:52:21,151 Collecting toml 2023-09-28T21:52:21,167 Using cached https://www.piwheels.org/simple/toml/toml-0.10.2-py2.py3-none-any.whl (16 kB) 2023-09-28T21:52:21,343 Collecting versioneer[toml]==0.28 2023-09-28T21:52:21,362 Using cached https://www.piwheels.org/simple/versioneer/versioneer-0.28-py3-none-any.whl (45 kB) 2023-09-28T21:52:23,977 Installing collected packages: versioneer, toml, setuptools, numpy, Cython 2023-09-28T21:52:24,012 Creating /tmp/pip-build-env-wncjl7eg/overlay/local/bin 2023-09-28T21:52:24,014 changing mode of /tmp/pip-build-env-wncjl7eg/overlay/local/bin/versioneer to 755 2023-09-28T21:52:35,027 changing mode of /tmp/pip-build-env-wncjl7eg/overlay/local/bin/f2py to 755 2023-09-28T21:52:35,029 changing mode of /tmp/pip-build-env-wncjl7eg/overlay/local/bin/f2py3 to 755 2023-09-28T21:52:35,031 changing mode of /tmp/pip-build-env-wncjl7eg/overlay/local/bin/f2py3.11 to 755 2023-09-28T21:52:38,528 changing mode of /tmp/pip-build-env-wncjl7eg/overlay/local/bin/cygdb to 755 2023-09-28T21:52:38,530 changing mode of /tmp/pip-build-env-wncjl7eg/overlay/local/bin/cython to 755 2023-09-28T21:52:38,533 changing mode of /tmp/pip-build-env-wncjl7eg/overlay/local/bin/cythonize to 755 2023-09-28T21:52:38,578 Successfully installed Cython-3.0.2 numpy-1.25.2 setuptools-68.2.2 toml-0.10.2 versioneer-0.28 2023-09-28T21:52:39,283 Installing build dependencies: finished with status 'done' 2023-09-28T21:52:39,286 Getting requirements to build wheel: started 2023-09-28T21:52:39,287 Running command Getting requirements to build wheel 2023-09-28T21:53:14,282 Compiling moleculekit/interactions/hbonds/hbonds.pyx because it depends on /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/Cython/Includes/libcpp/vector.pxd. 2023-09-28T21:53:14,283 Compiling moleculekit/interactions/pipi/pipi.pyx because it depends on /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/Cython/Includes/libcpp/vector.pxd. 2023-09-28T21:53:14,283 Compiling moleculekit/interactions/cationpi/cationpi.pyx because it depends on /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/Cython/Includes/libcpp/vector.pxd. 2023-09-28T21:53:14,284 Compiling moleculekit/interactions/sigmahole/sigmahole.pyx because it depends on /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/Cython/Includes/libcpp/vector.pxd. 2023-09-28T21:53:14,284 Compiling moleculekit/wrapping/wrapping.pyx because it depends on /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/Cython/Includes/libcpp/vector.pxd. 2023-09-28T21:53:14,285 Compiling moleculekit/bondguesser_utils/bondguesser_utils.pyx because it depends on /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/Cython/Includes/libcpp/vector.pxd. 2023-09-28T21:53:14,285 Compiling moleculekit/atomselect_utils/atomselect_utils.pyx because it depends on /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/Cython/Includes/libcpp/vector.pxd. 2023-09-28T21:53:14,286 Compiling moleculekit/distance_utils/distance_utils.pyx because it depends on /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/Cython/Includes/libcpp/vector.pxd. 2023-09-28T21:53:14,286 Compiling moleculekit/occupancy_utils/occupancy_utils.pyx because it depends on /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/Cython/Includes/libcpp/vector.pxd. 2023-09-28T21:53:14,287 Compiling moleculekit/xtc_utils/xtc.pyx because it depends on /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/Cython/Includes/libc/string.pxd. 2023-09-28T21:53:14,287 Compiling moleculekit/tmalign/tmalign_util.pyx because it depends on /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/Cython/Includes/libcpp/vector.pxd. 2023-09-28T21:53:14,288 [ 1/11] Cythonizing moleculekit/atomselect_utils/atomselect_utils.pyx 2023-09-28T21:53:14,289 [ 2/11] Cythonizing moleculekit/bondguesser_utils/bondguesser_utils.pyx 2023-09-28T21:53:14,289 [ 3/11] Cythonizing moleculekit/distance_utils/distance_utils.pyx 2023-09-28T21:53:14,290 [ 4/11] Cythonizing moleculekit/interactions/cationpi/cationpi.pyx 2023-09-28T21:53:14,291 [ 5/11] Cythonizing moleculekit/interactions/hbonds/hbonds.pyx 2023-09-28T21:53:14,291 [ 6/11] Cythonizing moleculekit/interactions/pipi/pipi.pyx 2023-09-28T21:53:14,292 [ 7/11] Cythonizing moleculekit/interactions/sigmahole/sigmahole.pyx 2023-09-28T21:53:14,292 [ 8/11] Cythonizing moleculekit/occupancy_utils/occupancy_utils.pyx 2023-09-28T21:53:14,293 [ 9/11] Cythonizing moleculekit/tmalign/tmalign_util.pyx 2023-09-28T21:53:14,293 [10/11] Cythonizing moleculekit/wrapping/wrapping.pyx 2023-09-28T21:53:14,294 [11/11] Cythonizing moleculekit/xtc_utils/xtc.pyx 2023-09-28T21:53:14,548 running egg_info 2023-09-28T21:53:14,554 writing moleculekit.egg-info/PKG-INFO 2023-09-28T21:53:14,557 writing dependency_links to moleculekit.egg-info/dependency_links.txt 2023-09-28T21:53:14,559 writing requirements to moleculekit.egg-info/requires.txt 2023-09-28T21:53:14,560 writing top-level names to moleculekit.egg-info/top_level.txt 2023-09-28T21:53:14,582 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:14,582 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:14,583 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:14,584 dependency /tmp/pip-build-env-wncjl7eg/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 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requirements to build wheel: finished with status 'done' 2023-09-28T21:53:16,058 Installing backend dependencies: started 2023-09-28T21:53:16,059 Running command pip subprocess to install backend dependencies 2023-09-28T21:53:17,282 Using pip 23.2.1 from /usr/local/lib/python3.11/dist-packages/pip (python 3.11) 2023-09-28T21:53:17,821 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2023-09-28T21:53:18,321 Collecting wheel 2023-09-28T21:53:18,340 Using cached https://www.piwheels.org/simple/wheel/wheel-0.41.2-py3-none-any.whl (64 kB) 2023-09-28T21:53:20,551 Installing collected packages: wheel 2023-09-28T21:53:20,774 Creating /tmp/pip-build-env-wncjl7eg/normal/local/bin 2023-09-28T21:53:20,776 changing mode of /tmp/pip-build-env-wncjl7eg/normal/local/bin/wheel to 755 2023-09-28T21:53:20,787 Successfully installed wheel-0.41.2 2023-09-28T21:53:21,309 Installing backend dependencies: finished with status 'done' 2023-09-28T21:53:21,311 Created temporary directory: /tmp/pip-modern-metadata-07_x3j59 2023-09-28T21:53:21,313 Preparing metadata (pyproject.toml): started 2023-09-28T21:53:21,314 Running command Preparing metadata (pyproject.toml) 2023-09-28T21:53:23,561 running dist_info 2023-09-28T21:53:23,563 creating /tmp/pip-modern-metadata-07_x3j59/moleculekit.egg-info 2023-09-28T21:53:23,568 writing /tmp/pip-modern-metadata-07_x3j59/moleculekit.egg-info/PKG-INFO 2023-09-28T21:53:23,572 writing dependency_links to /tmp/pip-modern-metadata-07_x3j59/moleculekit.egg-info/dependency_links.txt 2023-09-28T21:53:23,574 writing requirements to /tmp/pip-modern-metadata-07_x3j59/moleculekit.egg-info/requires.txt 2023-09-28T21:53:23,575 writing top-level names to /tmp/pip-modern-metadata-07_x3j59/moleculekit.egg-info/top_level.txt 2023-09-28T21:53:23,576 writing manifest file '/tmp/pip-modern-metadata-07_x3j59/moleculekit.egg-info/SOURCES.txt' 2023-09-28T21:53:23,598 dependency 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be automatically included in the manifest: the path must be relative 2023-09-28T21:53:23,619 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:23,620 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:23,620 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:23,621 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:23,621 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:23,622 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:23,622 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:23,623 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:23,623 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:23,623 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:23,624 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:23,624 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:23,625 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:23,625 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:23,625 reading manifest file '/tmp/pip-modern-metadata-07_x3j59/moleculekit.egg-info/SOURCES.txt' 2023-09-28T21:53:23,626 reading manifest template 'MANIFEST.in' 2023-09-28T21:53:23,842 no previously-included directories found matching 'moleculekit/test-data' 2023-09-28T21:53:23,842 no previously-included directories found matching 'moleculekit/tests' 2023-09-28T21:53:23,843 no previously-included directories found matching 'package' 2023-09-28T21:53:23,844 adding license file 'LICENSE' 2023-09-28T21:53:23,854 writing manifest file '/tmp/pip-modern-metadata-07_x3j59/moleculekit.egg-info/SOURCES.txt' 2023-09-28T21:53:23,861 creating '/tmp/pip-modern-metadata-07_x3j59/moleculekit-1.7.12.dist-info' 2023-09-28T21:53:24,089 Preparing metadata (pyproject.toml): finished with status 'done' 2023-09-28T21:53:24,093 Source in /tmp/pip-wheel-balz080j/moleculekit_cc4b7598ade54d30a4f8e99e5386d504 has version 1.7.12, which satisfies requirement moleculekit==1.7.12 from https://files.pythonhosted.org/packages/37/05/3105db0d4a63b49d0f4534b5e9d6a488b96b83b3aac621224338f3a6aa6b/moleculekit-1.7.12.tar.gz 2023-09-28T21:53:24,094 Removed moleculekit==1.7.12 from https://files.pythonhosted.org/packages/37/05/3105db0d4a63b49d0f4534b5e9d6a488b96b83b3aac621224338f3a6aa6b/moleculekit-1.7.12.tar.gz from build tracker '/tmp/pip-build-tracker-nz9wj7er' 2023-09-28T21:53:24,099 Created temporary directory: /tmp/pip-unpack-fyqqly0x 2023-09-28T21:53:24,100 Created temporary directory: /tmp/pip-unpack-u_jbxll1 2023-09-28T21:53:24,108 Building wheels for collected packages: moleculekit 2023-09-28T21:53:24,112 Created temporary directory: /tmp/pip-wheel-9juz4l0x 2023-09-28T21:53:24,113 Destination directory: /tmp/pip-wheel-9juz4l0x 2023-09-28T21:53:24,115 Building wheel for moleculekit (pyproject.toml): started 2023-09-28T21:53:24,116 Running command Building wheel for moleculekit (pyproject.toml) 2023-09-28T21:53:26,246 running bdist_wheel 2023-09-28T21:53:26,261 running build 2023-09-28T21:53:26,262 running build_py 2023-09-28T21:53:26,269 creating build 2023-09-28T21:53:26,269 creating build/lib.linux-armv7l-cpython-311 2023-09-28T21:53:26,270 creating build/lib.linux-armv7l-cpython-311/moleculekit 2023-09-28T21:53:26,271 copying moleculekit/viewer.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2023-09-28T21:53:26,274 copying moleculekit/align.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2023-09-28T21:53:26,276 copying moleculekit/distance.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2023-09-28T21:53:26,278 copying moleculekit/version.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2023-09-28T21:53:26,279 copying moleculekit/__init__.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2023-09-28T21:53:26,281 copying moleculekit/_version.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2023-09-28T21:53:26,283 copying moleculekit/dihedral.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2023-09-28T21:53:26,284 copying moleculekit/vmdgraphics.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2023-09-28T21:53:26,287 copying moleculekit/writers.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2023-09-28T21:53:26,290 copying moleculekit/rcsb.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2023-09-28T21:53:26,292 copying moleculekit/vmdviewer.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2023-09-28T21:53:26,294 copying moleculekit/opm.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2023-09-28T21:53:26,296 copying moleculekit/bondguesser.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2023-09-28T21:53:26,298 copying moleculekit/pymolgraphics.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2023-09-28T21:53:26,300 copying moleculekit/config.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2023-09-28T21:53:26,302 copying moleculekit/util.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2023-09-28T21:53:26,304 copying moleculekit/readers.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2023-09-28T21:53:26,308 copying moleculekit/rdkitintegration.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2023-09-28T21:53:26,310 copying moleculekit/periodictable.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2023-09-28T21:53:26,313 copying moleculekit/molecule.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2023-09-28T21:53:26,319 copying moleculekit/home.py -> build/lib.linux-armv7l-cpython-311/moleculekit 2023-09-28T21:53:26,321 creating build/lib.linux-armv7l-cpython-311/moleculekit/interactions 2023-09-28T21:53:26,322 copying moleculekit/interactions/__init__.py -> build/lib.linux-armv7l-cpython-311/moleculekit/interactions 2023-09-28T21:53:26,324 copying moleculekit/interactions/interactions.py -> build/lib.linux-armv7l-cpython-311/moleculekit/interactions 2023-09-28T21:53:26,328 creating build/lib.linux-armv7l-cpython-311/moleculekit/projections 2023-09-28T21:53:26,329 copying moleculekit/projections/metricdistance.py -> build/lib.linux-armv7l-cpython-311/moleculekit/projections 2023-09-28T21:53:26,332 copying moleculekit/projections/metriccoordinate.py -> build/lib.linux-armv7l-cpython-311/moleculekit/projections 2023-09-28T21:53:26,334 copying moleculekit/projections/metricsasa.py -> build/lib.linux-armv7l-cpython-311/moleculekit/projections 2023-09-28T21:53:26,337 copying moleculekit/projections/metricrmsd.py -> build/lib.linux-armv7l-cpython-311/moleculekit/projections 2023-09-28T21:53:26,339 copying moleculekit/projections/__init__.py -> build/lib.linux-armv7l-cpython-311/moleculekit/projections 2023-09-28T21:53:26,340 copying moleculekit/projections/metricfluctuation.py -> build/lib.linux-armv7l-cpython-311/moleculekit/projections 2023-09-28T21:53:26,343 copying moleculekit/projections/metricshell.py -> build/lib.linux-armv7l-cpython-311/moleculekit/projections 2023-09-28T21:53:26,345 copying moleculekit/projections/projection.py -> build/lib.linux-armv7l-cpython-311/moleculekit/projections 2023-09-28T21:53:26,346 copying moleculekit/projections/metricsphericalcoordinate.py -> build/lib.linux-armv7l-cpython-311/moleculekit/projections 2023-09-28T21:53:26,349 copying moleculekit/projections/metricdihedral.py -> build/lib.linux-armv7l-cpython-311/moleculekit/projections 2023-09-28T21:53:26,352 copying moleculekit/projections/metricsecondarystructure.py -> build/lib.linux-armv7l-cpython-311/moleculekit/projections 2023-09-28T21:53:26,354 copying moleculekit/projections/metricplumed2.py -> build/lib.linux-armv7l-cpython-311/moleculekit/projections 2023-09-28T21:53:26,357 copying moleculekit/projections/util.py -> build/lib.linux-armv7l-cpython-311/moleculekit/projections 2023-09-28T21:53:26,359 copying moleculekit/projections/metrictmscore.py -> build/lib.linux-armv7l-cpython-311/moleculekit/projections 2023-09-28T21:53:26,361 copying moleculekit/projections/metricgyration.py -> build/lib.linux-armv7l-cpython-311/moleculekit/projections 2023-09-28T21:53:26,363 creating build/lib.linux-armv7l-cpython-311/moleculekit/ply 2023-09-28T21:53:26,364 copying moleculekit/ply/__init__.py -> build/lib.linux-armv7l-cpython-311/moleculekit/ply 2023-09-28T21:53:26,366 copying moleculekit/ply/yacc.py -> build/lib.linux-armv7l-cpython-311/moleculekit/ply 2023-09-28T21:53:26,370 copying moleculekit/ply/lex.py -> build/lib.linux-armv7l-cpython-311/moleculekit/ply 2023-09-28T21:53:26,373 creating build/lib.linux-armv7l-cpython-311/moleculekit/pdbx 2023-09-28T21:53:26,373 copying moleculekit/pdbx/__init__.py -> build/lib.linux-armv7l-cpython-311/moleculekit/pdbx 2023-09-28T21:53:26,376 creating build/lib.linux-armv7l-cpython-311/moleculekit/smallmol 2023-09-28T21:53:26,376 copying moleculekit/smallmol/__init__.py -> build/lib.linux-armv7l-cpython-311/moleculekit/smallmol 2023-09-28T21:53:26,378 copying moleculekit/smallmol/test_smallmollib.py -> build/lib.linux-armv7l-cpython-311/moleculekit/smallmol 2023-09-28T21:53:26,380 copying moleculekit/smallmol/test_smallmol.py -> build/lib.linux-armv7l-cpython-311/moleculekit/smallmol 2023-09-28T21:53:26,383 copying moleculekit/smallmol/smallmol.py -> build/lib.linux-armv7l-cpython-311/moleculekit/smallmol 2023-09-28T21:53:26,385 copying moleculekit/smallmol/smallmollib.py -> build/lib.linux-armv7l-cpython-311/moleculekit/smallmol 2023-09-28T21:53:26,388 copying moleculekit/smallmol/util.py -> build/lib.linux-armv7l-cpython-311/moleculekit/smallmol 2023-09-28T21:53:26,391 creating build/lib.linux-armv7l-cpython-311/moleculekit/atomselect 2023-09-28T21:53:26,392 copying moleculekit/atomselect/__init__.py -> build/lib.linux-armv7l-cpython-311/moleculekit/atomselect 2023-09-28T21:53:26,393 copying moleculekit/atomselect/analyze.py -> build/lib.linux-armv7l-cpython-311/moleculekit/atomselect 2023-09-28T21:53:26,396 copying moleculekit/atomselect/languageparser.py -> build/lib.linux-armv7l-cpython-311/moleculekit/atomselect 2023-09-28T21:53:26,398 copying moleculekit/atomselect/atomselect.py -> build/lib.linux-armv7l-cpython-311/moleculekit/atomselect 2023-09-28T21:53:26,401 creating build/lib.linux-armv7l-cpython-311/moleculekit/tools 2023-09-28T21:53:26,402 copying moleculekit/tools/docking.py -> build/lib.linux-armv7l-cpython-311/moleculekit/tools 2023-09-28T21:53:26,405 copying moleculekit/tools/graphalignment.py -> build/lib.linux-armv7l-cpython-311/moleculekit/tools 2023-09-28T21:53:26,407 copying moleculekit/tools/detect.py -> build/lib.linux-armv7l-cpython-311/moleculekit/tools 2023-09-28T21:53:26,409 copying moleculekit/tools/__init__.py -> build/lib.linux-armv7l-cpython-311/moleculekit/tools 2023-09-28T21:53:26,411 copying moleculekit/tools/preparation_customres.py -> build/lib.linux-armv7l-cpython-311/moleculekit/tools 2023-09-28T21:53:26,414 copying moleculekit/tools/moleculechecks.py -> build/lib.linux-armv7l-cpython-311/moleculekit/tools 2023-09-28T21:53:26,416 copying moleculekit/tools/voxeldescriptors.py -> build/lib.linux-armv7l-cpython-311/moleculekit/tools 2023-09-28T21:53:26,418 copying moleculekit/tools/sequencestructuralalignment.py -> build/lib.linux-armv7l-cpython-311/moleculekit/tools 2023-09-28T21:53:26,421 copying moleculekit/tools/crystalpacking.py -> build/lib.linux-armv7l-cpython-311/moleculekit/tools 2023-09-28T21:53:26,423 copying moleculekit/tools/hhblitsprofile.py -> build/lib.linux-armv7l-cpython-311/moleculekit/tools 2023-09-28T21:53:26,425 copying moleculekit/tools/autosegment.py -> build/lib.linux-armv7l-cpython-311/moleculekit/tools 2023-09-28T21:53:26,427 copying moleculekit/tools/atomtyper.py -> build/lib.linux-armv7l-cpython-311/moleculekit/tools 2023-09-28T21:53:26,429 copying moleculekit/tools/preparation.py -> build/lib.linux-armv7l-cpython-311/moleculekit/tools 2023-09-28T21:53:26,433 creating build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/tests 2023-09-28T21:53:26,434 copying moleculekit/pdbx/tests/PdbxWriterTests.py -> build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/tests 2023-09-28T21:53:26,436 copying moleculekit/pdbx/tests/__init__.py -> build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/tests 2023-09-28T21:53:26,438 copying moleculekit/pdbx/tests/PdbxReadWriteTests.py -> build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/tests 2023-09-28T21:53:26,440 copying moleculekit/pdbx/tests/PdbxReaderTests.py -> build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/tests 2023-09-28T21:53:26,442 creating build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/reader 2023-09-28T21:53:26,443 copying moleculekit/pdbx/reader/PdbxReader.py -> build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/reader 2023-09-28T21:53:26,446 copying moleculekit/pdbx/reader/__init__.py -> build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/reader 2023-09-28T21:53:26,447 copying moleculekit/pdbx/reader/PdbxParser.py -> build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/reader 2023-09-28T21:53:26,450 copying moleculekit/pdbx/reader/PdbxContainers.py -> build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/reader 2023-09-28T21:53:26,453 creating build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/writer 2023-09-28T21:53:26,454 copying moleculekit/pdbx/writer/__init__.py -> build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/writer 2023-09-28T21:53:26,456 copying moleculekit/pdbx/writer/PdbxWriter.py -> build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/writer 2023-09-28T21:53:26,458 creating build/lib.linux-armv7l-cpython-311/moleculekit/smallmol/tools 2023-09-28T21:53:26,459 copying moleculekit/smallmol/tools/__init__.py -> build/lib.linux-armv7l-cpython-311/moleculekit/smallmol/tools 2023-09-28T21:53:26,461 copying moleculekit/smallmol/tools/test_tools.py -> build/lib.linux-armv7l-cpython-311/moleculekit/smallmol/tools 2023-09-28T21:53:26,463 copying moleculekit/smallmol/tools/restrainedembed.py -> build/lib.linux-armv7l-cpython-311/moleculekit/smallmol/tools 2023-09-28T21:53:26,465 copying moleculekit/smallmol/tools/clustering.py -> build/lib.linux-armv7l-cpython-311/moleculekit/smallmol/tools 2023-09-28T21:53:26,468 creating build/lib.linux-armv7l-cpython-311/moleculekit/tools/obabel_tools 2023-09-28T21:53:26,469 copying moleculekit/tools/obabel_tools/__init__.py -> build/lib.linux-armv7l-cpython-311/moleculekit/tools/obabel_tools 2023-09-28T21:53:26,471 copying moleculekit/tools/obabel_tools/obabel_cli.py -> build/lib.linux-armv7l-cpython-311/moleculekit/tools/obabel_tools 2023-09-28T21:53:26,472 running egg_info 2023-09-28T21:53:26,477 writing moleculekit.egg-info/PKG-INFO 2023-09-28T21:53:26,480 writing dependency_links to moleculekit.egg-info/dependency_links.txt 2023-09-28T21:53:26,481 writing requirements to moleculekit.egg-info/requires.txt 2023-09-28T21:53:26,482 writing top-level names to moleculekit.egg-info/top_level.txt 2023-09-28T21:53:26,494 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,495 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,495 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,496 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,497 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,497 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,497 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,498 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,498 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,499 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,499 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,500 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,501 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,501 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,502 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,503 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,503 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,504 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,504 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,505 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,506 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,506 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,507 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,507 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,508 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,508 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,509 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,509 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,509 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,510 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,510 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,511 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,512 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,512 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,513 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,513 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,514 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,514 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,515 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,515 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,516 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,517 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,517 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,518 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,518 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,519 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,519 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,520 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,520 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,521 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,521 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,522 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,522 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,523 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,523 dependency /tmp/pip-build-env-wncjl7eg/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 2023-09-28T21:53:26,524 reading manifest file 'moleculekit.egg-info/SOURCES.txt' 2023-09-28T21:53:26,524 reading manifest template 'MANIFEST.in' 2023-09-28T21:53:26,734 no previously-included directories found matching 'moleculekit/test-data' 2023-09-28T21:53:26,735 no previously-included directories found matching 'moleculekit/tests' 2023-09-28T21:53:26,736 no previously-included directories found matching 'package' 2023-09-28T21:53:26,737 adding license file 'LICENSE' 2023-09-28T21:53:26,750 writing manifest file 'moleculekit.egg-info/SOURCES.txt' 2023-09-28T21:53:26,759 /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.atomselect_utils' is absent from the `packages` configuration. 2023-09-28T21:53:26,759 !! 2023-09-28T21:53:26,760 ******************************************************************************** 2023-09-28T21:53:26,761 ############################ 2023-09-28T21:53:26,761 # Package would be ignored # 2023-09-28T21:53:26,762 ############################ 2023-09-28T21:53:26,762 Python recognizes 'moleculekit.atomselect_utils' as an importable package[^1], 2023-09-28T21:53:26,763 but it is absent from setuptools' `packages` configuration. 2023-09-28T21:53:26,764 This leads to an ambiguous overall configuration. If you want to distribute this 2023-09-28T21:53:26,764 package, please make sure that 'moleculekit.atomselect_utils' is explicitly added 2023-09-28T21:53:26,764 to the `packages` configuration field. 2023-09-28T21:53:26,765 Alternatively, you can also rely on setuptools' discovery methods 2023-09-28T21:53:26,766 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-09-28T21:53:26,766 instead of `find_packages(...)`/`find:`). 2023-09-28T21:53:26,767 You can read more about "package discovery" on setuptools documentation page: 2023-09-28T21:53:26,768 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-09-28T21:53:26,769 If you don't want 'moleculekit.atomselect_utils' to be distributed and are 2023-09-28T21:53:26,770 already explicitly excluding 'moleculekit.atomselect_utils' via 2023-09-28T21:53:26,770 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-09-28T21:53:26,771 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-09-28T21:53:26,772 combination with a more fine grained `package-data` configuration. 2023-09-28T21:53:26,773 You can read more about "package data files" on setuptools documentation page: 2023-09-28T21:53:26,774 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-09-28T21:53:26,776 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-09-28T21:53:26,776 even if it does not contain any `.py` files. 2023-09-28T21:53:26,777 On the other hand, currently there is no concept of package data 2023-09-28T21:53:26,778 directory, all directories are treated like packages. 2023-09-28T21:53:26,778 ******************************************************************************** 2023-09-28T21:53:26,779 !! 2023-09-28T21:53:26,780 check.warn(importable) 2023-09-28T21:53:26,780 /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.bondguesser_utils' is absent from the `packages` configuration. 2023-09-28T21:53:26,781 !! 2023-09-28T21:53:26,782 ******************************************************************************** 2023-09-28T21:53:26,783 ############################ 2023-09-28T21:53:26,783 # Package would be ignored # 2023-09-28T21:53:26,784 ############################ 2023-09-28T21:53:26,784 Python recognizes 'moleculekit.bondguesser_utils' as an importable package[^1], 2023-09-28T21:53:26,785 but it is absent from setuptools' `packages` configuration. 2023-09-28T21:53:26,786 This leads to an ambiguous overall configuration. If you want to distribute this 2023-09-28T21:53:26,787 package, please make sure that 'moleculekit.bondguesser_utils' is explicitly added 2023-09-28T21:53:26,787 to the `packages` configuration field. 2023-09-28T21:53:26,789 Alternatively, you can also rely on setuptools' discovery methods 2023-09-28T21:53:26,789 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-09-28T21:53:26,790 instead of `find_packages(...)`/`find:`). 2023-09-28T21:53:26,791 You can read more about "package discovery" on setuptools documentation page: 2023-09-28T21:53:26,791 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-09-28T21:53:26,792 If you don't want 'moleculekit.bondguesser_utils' to be distributed and are 2023-09-28T21:53:26,793 already explicitly excluding 'moleculekit.bondguesser_utils' via 2023-09-28T21:53:26,793 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-09-28T21:53:26,793 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-09-28T21:53:26,794 combination with a more fine grained `package-data` configuration. 2023-09-28T21:53:26,794 You can read more about "package data files" on setuptools documentation page: 2023-09-28T21:53:26,795 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-09-28T21:53:26,796 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-09-28T21:53:26,797 even if it does not contain any `.py` files. 2023-09-28T21:53:26,797 On the other hand, currently there is no concept of package data 2023-09-28T21:53:26,797 directory, all directories are treated like packages. 2023-09-28T21:53:26,798 ******************************************************************************** 2023-09-28T21:53:26,799 !! 2023-09-28T21:53:26,800 check.warn(importable) 2023-09-28T21:53:26,800 /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.distance_utils' is absent from the `packages` configuration. 2023-09-28T21:53:26,801 !! 2023-09-28T21:53:26,802 ******************************************************************************** 2023-09-28T21:53:26,802 ############################ 2023-09-28T21:53:26,803 # Package would be ignored # 2023-09-28T21:53:26,803 ############################ 2023-09-28T21:53:26,804 Python recognizes 'moleculekit.distance_utils' as an importable package[^1], 2023-09-28T21:53:26,805 but it is absent from setuptools' `packages` configuration. 2023-09-28T21:53:26,806 This leads to an ambiguous overall configuration. If you want to distribute this 2023-09-28T21:53:26,806 package, please make sure that 'moleculekit.distance_utils' is explicitly added 2023-09-28T21:53:26,807 to the `packages` configuration field. 2023-09-28T21:53:26,808 Alternatively, you can also rely on setuptools' discovery methods 2023-09-28T21:53:26,808 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-09-28T21:53:26,809 instead of `find_packages(...)`/`find:`). 2023-09-28T21:53:26,810 You can read more about "package discovery" on setuptools documentation page: 2023-09-28T21:53:26,811 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-09-28T21:53:26,812 If you don't want 'moleculekit.distance_utils' to be distributed and are 2023-09-28T21:53:26,813 already explicitly excluding 'moleculekit.distance_utils' via 2023-09-28T21:53:26,813 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-09-28T21:53:26,814 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-09-28T21:53:26,814 combination with a more fine grained `package-data` configuration. 2023-09-28T21:53:26,816 You can read more about "package data files" on setuptools documentation page: 2023-09-28T21:53:26,818 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-09-28T21:53:26,819 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-09-28T21:53:26,820 even if it does not contain any `.py` files. 2023-09-28T21:53:26,822 On the other hand, currently there is no concept of package data 2023-09-28T21:53:26,823 directory, all directories are treated like packages. 2023-09-28T21:53:26,827 ******************************************************************************** 2023-09-28T21:53:26,834 !! 2023-09-28T21:53:26,835 check.warn(importable) 2023-09-28T21:53:26,836 /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.interactions.cationpi' is absent from the `packages` configuration. 2023-09-28T21:53:26,836 !! 2023-09-28T21:53:26,838 ******************************************************************************** 2023-09-28T21:53:26,838 ############################ 2023-09-28T21:53:26,838 # Package would be ignored # 2023-09-28T21:53:26,839 ############################ 2023-09-28T21:53:26,839 Python recognizes 'moleculekit.interactions.cationpi' as an importable package[^1], 2023-09-28T21:53:26,840 but it is absent from setuptools' `packages` configuration. 2023-09-28T21:53:26,841 This leads to an ambiguous overall configuration. If you want to distribute this 2023-09-28T21:53:26,841 package, please make sure that 'moleculekit.interactions.cationpi' is explicitly added 2023-09-28T21:53:26,842 to the `packages` configuration field. 2023-09-28T21:53:26,843 Alternatively, you can also rely on setuptools' discovery methods 2023-09-28T21:53:26,843 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-09-28T21:53:26,844 instead of `find_packages(...)`/`find:`). 2023-09-28T21:53:26,845 You can read more about "package discovery" on setuptools documentation page: 2023-09-28T21:53:26,847 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-09-28T21:53:26,848 If you don't want 'moleculekit.interactions.cationpi' to be distributed and are 2023-09-28T21:53:26,849 already explicitly excluding 'moleculekit.interactions.cationpi' via 2023-09-28T21:53:26,849 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-09-28T21:53:26,850 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-09-28T21:53:26,850 combination with a more fine grained `package-data` configuration. 2023-09-28T21:53:26,857 You can read more about "package data files" on setuptools documentation page: 2023-09-28T21:53:26,861 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-09-28T21:53:26,863 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-09-28T21:53:26,864 even if it does not contain any `.py` files. 2023-09-28T21:53:26,864 On the other hand, currently there is no concept of package data 2023-09-28T21:53:26,865 directory, all directories are treated like packages. 2023-09-28T21:53:26,866 ******************************************************************************** 2023-09-28T21:53:26,867 !! 2023-09-28T21:53:26,867 check.warn(importable) 2023-09-28T21:53:26,868 /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.interactions.hbonds' is absent from the `packages` configuration. 2023-09-28T21:53:26,868 !! 2023-09-28T21:53:26,869 ******************************************************************************** 2023-09-28T21:53:26,870 ############################ 2023-09-28T21:53:26,871 # Package would be ignored # 2023-09-28T21:53:26,872 ############################ 2023-09-28T21:53:26,872 Python recognizes 'moleculekit.interactions.hbonds' as an importable package[^1], 2023-09-28T21:53:26,873 but it is absent from setuptools' `packages` configuration. 2023-09-28T21:53:26,874 This leads to an ambiguous overall configuration. If you want to distribute this 2023-09-28T21:53:26,874 package, please make sure that 'moleculekit.interactions.hbonds' is explicitly added 2023-09-28T21:53:26,875 to the `packages` configuration field. 2023-09-28T21:53:26,876 Alternatively, you can also rely on setuptools' discovery methods 2023-09-28T21:53:26,880 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-09-28T21:53:26,883 instead of `find_packages(...)`/`find:`). 2023-09-28T21:53:26,889 You can read more about "package discovery" on setuptools documentation page: 2023-09-28T21:53:26,892 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-09-28T21:53:26,893 If you don't want 'moleculekit.interactions.hbonds' to be distributed and are 2023-09-28T21:53:26,893 already explicitly excluding 'moleculekit.interactions.hbonds' via 2023-09-28T21:53:26,894 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-09-28T21:53:26,894 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-09-28T21:53:26,895 combination with a more fine grained `package-data` configuration. 2023-09-28T21:53:26,896 You can read more about "package data files" on setuptools documentation page: 2023-09-28T21:53:26,897 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-09-28T21:53:26,898 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-09-28T21:53:26,899 even if it does not contain any `.py` files. 2023-09-28T21:53:26,899 On the other hand, currently there is no concept of package data 2023-09-28T21:53:26,900 directory, all directories are treated like packages. 2023-09-28T21:53:26,901 ******************************************************************************** 2023-09-28T21:53:26,902 !! 2023-09-28T21:53:26,903 check.warn(importable) 2023-09-28T21:53:26,904 /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.interactions.pipi' is absent from the `packages` configuration. 2023-09-28T21:53:26,908 !! 2023-09-28T21:53:26,920 ******************************************************************************** 2023-09-28T21:53:26,920 ############################ 2023-09-28T21:53:26,921 # Package would be ignored # 2023-09-28T21:53:26,921 ############################ 2023-09-28T21:53:26,922 Python recognizes 'moleculekit.interactions.pipi' as an importable package[^1], 2023-09-28T21:53:26,923 but it is absent from setuptools' `packages` configuration. 2023-09-28T21:53:26,924 This leads to an ambiguous overall configuration. If you want to distribute this 2023-09-28T21:53:26,924 package, please make sure that 'moleculekit.interactions.pipi' is explicitly added 2023-09-28T21:53:26,925 to the `packages` configuration field. 2023-09-28T21:53:26,926 Alternatively, you can also rely on setuptools' discovery methods 2023-09-28T21:53:26,926 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-09-28T21:53:26,927 instead of `find_packages(...)`/`find:`). 2023-09-28T21:53:26,928 You can read more about "package discovery" on setuptools documentation page: 2023-09-28T21:53:26,929 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-09-28T21:53:26,931 If you don't want 'moleculekit.interactions.pipi' to be distributed and are 2023-09-28T21:53:26,932 already explicitly excluding 'moleculekit.interactions.pipi' via 2023-09-28T21:53:26,932 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-09-28T21:53:26,932 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-09-28T21:53:26,933 combination with a more fine grained `package-data` configuration. 2023-09-28T21:53:26,934 You can read more about "package data files" on setuptools documentation page: 2023-09-28T21:53:26,935 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-09-28T21:53:26,939 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-09-28T21:53:26,939 even if it does not contain any `.py` files. 2023-09-28T21:53:26,939 On the other hand, currently there is no concept of package data 2023-09-28T21:53:26,940 directory, all directories are treated like packages. 2023-09-28T21:53:26,940 ******************************************************************************** 2023-09-28T21:53:26,941 !! 2023-09-28T21:53:26,942 check.warn(importable) 2023-09-28T21:53:26,942 /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.interactions.sigmahole' is absent from the `packages` configuration. 2023-09-28T21:53:26,943 !! 2023-09-28T21:53:26,943 ******************************************************************************** 2023-09-28T21:53:26,944 ############################ 2023-09-28T21:53:26,945 # Package would be ignored # 2023-09-28T21:53:26,945 ############################ 2023-09-28T21:53:26,946 Python recognizes 'moleculekit.interactions.sigmahole' as an importable package[^1], 2023-09-28T21:53:26,947 but it is absent from setuptools' `packages` configuration. 2023-09-28T21:53:26,948 This leads to an ambiguous overall configuration. If you want to distribute this 2023-09-28T21:53:26,949 package, please make sure that 'moleculekit.interactions.sigmahole' is explicitly added 2023-09-28T21:53:26,949 to the `packages` configuration field. 2023-09-28T21:53:26,950 Alternatively, you can also rely on setuptools' discovery methods 2023-09-28T21:53:26,951 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-09-28T21:53:26,952 instead of `find_packages(...)`/`find:`). 2023-09-28T21:53:26,953 You can read more about "package discovery" on setuptools documentation page: 2023-09-28T21:53:26,954 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-09-28T21:53:26,955 If you don't want 'moleculekit.interactions.sigmahole' to be distributed and are 2023-09-28T21:53:26,956 already explicitly excluding 'moleculekit.interactions.sigmahole' via 2023-09-28T21:53:26,956 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-09-28T21:53:26,957 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-09-28T21:53:26,957 combination with a more fine grained `package-data` configuration. 2023-09-28T21:53:26,959 You can read more about "package data files" on setuptools documentation page: 2023-09-28T21:53:26,960 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-09-28T21:53:26,962 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-09-28T21:53:26,962 even if it does not contain any `.py` files. 2023-09-28T21:53:26,963 On the other hand, currently there is no concept of package data 2023-09-28T21:53:26,963 directory, all directories are treated like packages. 2023-09-28T21:53:26,964 ******************************************************************************** 2023-09-28T21:53:26,966 !! 2023-09-28T21:53:26,966 check.warn(importable) 2023-09-28T21:53:26,966 /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.occupancy_utils' is absent from the `packages` configuration. 2023-09-28T21:53:26,967 !! 2023-09-28T21:53:26,968 ******************************************************************************** 2023-09-28T21:53:26,968 ############################ 2023-09-28T21:53:26,969 # Package would be ignored # 2023-09-28T21:53:26,969 ############################ 2023-09-28T21:53:26,969 Python recognizes 'moleculekit.occupancy_utils' as an importable package[^1], 2023-09-28T21:53:26,970 but it is absent from setuptools' `packages` configuration. 2023-09-28T21:53:26,971 This leads to an ambiguous overall configuration. If you want to distribute this 2023-09-28T21:53:26,971 package, please make sure that 'moleculekit.occupancy_utils' is explicitly added 2023-09-28T21:53:26,972 to the `packages` configuration field. 2023-09-28T21:53:26,972 Alternatively, you can also rely on setuptools' discovery methods 2023-09-28T21:53:26,973 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-09-28T21:53:26,973 instead of `find_packages(...)`/`find:`). 2023-09-28T21:53:26,974 You can read more about "package discovery" on setuptools documentation page: 2023-09-28T21:53:26,975 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-09-28T21:53:26,976 If you don't want 'moleculekit.occupancy_utils' to be distributed and are 2023-09-28T21:53:26,977 already explicitly excluding 'moleculekit.occupancy_utils' via 2023-09-28T21:53:26,977 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-09-28T21:53:26,978 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-09-28T21:53:26,978 combination with a more fine grained `package-data` configuration. 2023-09-28T21:53:26,979 You can read more about "package data files" on setuptools documentation page: 2023-09-28T21:53:26,981 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-09-28T21:53:26,982 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-09-28T21:53:26,983 even if it does not contain any `.py` files. 2023-09-28T21:53:26,984 On the other hand, currently there is no concept of package data 2023-09-28T21:53:26,984 directory, all directories are treated like packages. 2023-09-28T21:53:26,985 ******************************************************************************** 2023-09-28T21:53:26,986 !! 2023-09-28T21:53:26,987 check.warn(importable) 2023-09-28T21:53:26,987 /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.share' is absent from the `packages` configuration. 2023-09-28T21:53:26,988 !! 2023-09-28T21:53:26,989 ******************************************************************************** 2023-09-28T21:53:26,990 ############################ 2023-09-28T21:53:26,990 # Package would be ignored # 2023-09-28T21:53:26,991 ############################ 2023-09-28T21:53:26,991 Python recognizes 'moleculekit.share' as an importable package[^1], 2023-09-28T21:53:26,992 but it is absent from setuptools' `packages` configuration. 2023-09-28T21:53:26,993 This leads to an ambiguous overall configuration. If you want to distribute this 2023-09-28T21:53:26,994 package, please make sure that 'moleculekit.share' is explicitly added 2023-09-28T21:53:27,003 to the `packages` configuration field. 2023-09-28T21:53:27,057 Alternatively, you can also rely on setuptools' discovery methods 2023-09-28T21:53:27,105 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-09-28T21:53:27,125 instead of `find_packages(...)`/`find:`). 2023-09-28T21:53:27,126 You can read more about "package discovery" on setuptools documentation page: 2023-09-28T21:53:27,132 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-09-28T21:53:27,132 If you don't want 'moleculekit.share' to be distributed and are 2023-09-28T21:53:27,133 already explicitly excluding 'moleculekit.share' via 2023-09-28T21:53:27,133 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-09-28T21:53:27,134 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-09-28T21:53:27,134 combination with a more fine grained `package-data` configuration. 2023-09-28T21:53:27,136 You can read more about "package data files" on setuptools documentation page: 2023-09-28T21:53:27,136 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-09-28T21:53:27,138 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-09-28T21:53:27,139 even if it does not contain any `.py` files. 2023-09-28T21:53:27,139 On the other hand, currently there is no concept of package data 2023-09-28T21:53:27,140 directory, all directories are treated like packages. 2023-09-28T21:53:27,140 ******************************************************************************** 2023-09-28T21:53:27,141 !! 2023-09-28T21:53:27,142 check.warn(importable) 2023-09-28T21:53:27,142 /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.share.atomselect' is absent from the `packages` configuration. 2023-09-28T21:53:27,143 !! 2023-09-28T21:53:27,144 ******************************************************************************** 2023-09-28T21:53:27,144 ############################ 2023-09-28T21:53:27,145 # Package would be ignored # 2023-09-28T21:53:27,146 ############################ 2023-09-28T21:53:27,146 Python recognizes 'moleculekit.share.atomselect' as an importable package[^1], 2023-09-28T21:53:27,147 but it is absent from setuptools' `packages` configuration. 2023-09-28T21:53:27,148 This leads to an ambiguous overall configuration. If you want to distribute this 2023-09-28T21:53:27,149 package, please make sure that 'moleculekit.share.atomselect' is explicitly added 2023-09-28T21:53:27,149 to the `packages` configuration field. 2023-09-28T21:53:27,150 Alternatively, you can also rely on setuptools' discovery methods 2023-09-28T21:53:27,151 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-09-28T21:53:27,151 instead of `find_packages(...)`/`find:`). 2023-09-28T21:53:27,153 You can read more about "package discovery" on setuptools documentation page: 2023-09-28T21:53:27,154 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-09-28T21:53:27,155 If you don't want 'moleculekit.share.atomselect' to be distributed and are 2023-09-28T21:53:27,155 already explicitly excluding 'moleculekit.share.atomselect' via 2023-09-28T21:53:27,155 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-09-28T21:53:27,156 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-09-28T21:53:27,156 combination with a more fine grained `package-data` configuration. 2023-09-28T21:53:27,157 You can read more about "package data files" on setuptools documentation page: 2023-09-28T21:53:27,158 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-09-28T21:53:27,160 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-09-28T21:53:27,161 even if it does not contain any `.py` files. 2023-09-28T21:53:27,161 On the other hand, currently there is no concept of package data 2023-09-28T21:53:27,162 directory, all directories are treated like packages. 2023-09-28T21:53:27,162 ******************************************************************************** 2023-09-28T21:53:27,163 !! 2023-09-28T21:53:27,163 check.warn(importable) 2023-09-28T21:53:27,164 /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.share.pdb2pqr.residues' is absent from the `packages` configuration. 2023-09-28T21:53:27,164 !! 2023-09-28T21:53:27,165 ******************************************************************************** 2023-09-28T21:53:27,165 ############################ 2023-09-28T21:53:27,166 # Package would be ignored # 2023-09-28T21:53:27,166 ############################ 2023-09-28T21:53:27,167 Python recognizes 'moleculekit.share.pdb2pqr.residues' as an importable package[^1], 2023-09-28T21:53:27,167 but it is absent from setuptools' `packages` configuration. 2023-09-28T21:53:27,168 This leads to an ambiguous overall configuration. If you want to distribute this 2023-09-28T21:53:27,169 package, please make sure that 'moleculekit.share.pdb2pqr.residues' is explicitly added 2023-09-28T21:53:27,169 to the `packages` configuration field. 2023-09-28T21:53:27,170 Alternatively, you can also rely on setuptools' discovery methods 2023-09-28T21:53:27,170 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-09-28T21:53:27,171 instead of `find_packages(...)`/`find:`). 2023-09-28T21:53:27,172 You can read more about "package discovery" on setuptools documentation page: 2023-09-28T21:53:27,173 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-09-28T21:53:27,174 If you don't want 'moleculekit.share.pdb2pqr.residues' to be distributed and are 2023-09-28T21:53:27,175 already explicitly excluding 'moleculekit.share.pdb2pqr.residues' via 2023-09-28T21:53:27,175 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-09-28T21:53:27,176 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-09-28T21:53:27,176 combination with a more fine grained `package-data` configuration. 2023-09-28T21:53:27,177 You can read more about "package data files" on setuptools documentation page: 2023-09-28T21:53:27,178 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-09-28T21:53:27,180 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-09-28T21:53:27,180 even if it does not contain any `.py` files. 2023-09-28T21:53:27,181 On the other hand, currently there is no concept of package data 2023-09-28T21:53:27,181 directory, all directories are treated like packages. 2023-09-28T21:53:27,182 ******************************************************************************** 2023-09-28T21:53:27,183 !! 2023-09-28T21:53:27,183 check.warn(importable) 2023-09-28T21:53:27,184 /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.tmalign' is absent from the `packages` configuration. 2023-09-28T21:53:27,184 !! 2023-09-28T21:53:27,185 ******************************************************************************** 2023-09-28T21:53:27,186 ############################ 2023-09-28T21:53:27,186 # Package would be ignored # 2023-09-28T21:53:27,187 ############################ 2023-09-28T21:53:27,187 Python recognizes 'moleculekit.tmalign' as an importable package[^1], 2023-09-28T21:53:27,188 but it is absent from setuptools' `packages` configuration. 2023-09-28T21:53:27,189 This leads to an ambiguous overall configuration. If you want to distribute this 2023-09-28T21:53:27,189 package, please make sure that 'moleculekit.tmalign' is explicitly added 2023-09-28T21:53:27,190 to the `packages` configuration field. 2023-09-28T21:53:27,191 Alternatively, you can also rely on setuptools' discovery methods 2023-09-28T21:53:27,191 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-09-28T21:53:27,191 instead of `find_packages(...)`/`find:`). 2023-09-28T21:53:27,192 You can read more about "package discovery" on setuptools documentation page: 2023-09-28T21:53:27,193 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-09-28T21:53:27,194 If you don't want 'moleculekit.tmalign' to be distributed and are 2023-09-28T21:53:27,194 already explicitly excluding 'moleculekit.tmalign' via 2023-09-28T21:53:27,195 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-09-28T21:53:27,195 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-09-28T21:53:27,196 combination with a more fine grained `package-data` configuration. 2023-09-28T21:53:27,196 You can read more about "package data files" on setuptools documentation page: 2023-09-28T21:53:27,197 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-09-28T21:53:27,199 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-09-28T21:53:27,199 even if it does not contain any `.py` files. 2023-09-28T21:53:27,199 On the other hand, currently there is no concept of package data 2023-09-28T21:53:27,200 directory, all directories are treated like packages. 2023-09-28T21:53:27,201 ******************************************************************************** 2023-09-28T21:53:27,202 !! 2023-09-28T21:53:27,202 check.warn(importable) 2023-09-28T21:53:27,203 /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.tmalign.include' is absent from the `packages` configuration. 2023-09-28T21:53:27,203 !! 2023-09-28T21:53:27,204 ******************************************************************************** 2023-09-28T21:53:27,204 ############################ 2023-09-28T21:53:27,205 # Package would be ignored # 2023-09-28T21:53:27,205 ############################ 2023-09-28T21:53:27,206 Python recognizes 'moleculekit.tmalign.include' as an importable package[^1], 2023-09-28T21:53:27,206 but it is absent from setuptools' `packages` configuration. 2023-09-28T21:53:27,207 This leads to an ambiguous overall configuration. If you want to distribute this 2023-09-28T21:53:27,208 package, please make sure that 'moleculekit.tmalign.include' is explicitly added 2023-09-28T21:53:27,208 to the `packages` configuration field. 2023-09-28T21:53:27,209 Alternatively, you can also rely on setuptools' discovery methods 2023-09-28T21:53:27,210 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-09-28T21:53:27,210 instead of `find_packages(...)`/`find:`). 2023-09-28T21:53:27,211 You can read more about "package discovery" on setuptools documentation page: 2023-09-28T21:53:27,212 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-09-28T21:53:27,213 If you don't want 'moleculekit.tmalign.include' to be distributed and are 2023-09-28T21:53:27,214 already explicitly excluding 'moleculekit.tmalign.include' via 2023-09-28T21:53:27,214 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-09-28T21:53:27,215 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-09-28T21:53:27,215 combination with a more fine grained `package-data` configuration. 2023-09-28T21:53:27,216 You can read more about "package data files" on setuptools documentation page: 2023-09-28T21:53:27,217 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-09-28T21:53:27,218 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-09-28T21:53:27,218 even if it does not contain any `.py` files. 2023-09-28T21:53:27,219 On the other hand, currently there is no concept of package data 2023-09-28T21:53:27,219 directory, all directories are treated like packages. 2023-09-28T21:53:27,220 ******************************************************************************** 2023-09-28T21:53:27,220 !! 2023-09-28T21:53:27,221 check.warn(importable) 2023-09-28T21:53:27,221 /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.tmalign.src' is absent from the `packages` configuration. 2023-09-28T21:53:27,222 !! 2023-09-28T21:53:27,222 ******************************************************************************** 2023-09-28T21:53:27,223 ############################ 2023-09-28T21:53:27,223 # Package would be ignored # 2023-09-28T21:53:27,224 ############################ 2023-09-28T21:53:27,224 Python recognizes 'moleculekit.tmalign.src' as an importable package[^1], 2023-09-28T21:53:27,224 but it is absent from setuptools' `packages` configuration. 2023-09-28T21:53:27,225 This leads to an ambiguous overall configuration. If you want to distribute this 2023-09-28T21:53:27,226 package, please make sure that 'moleculekit.tmalign.src' is explicitly added 2023-09-28T21:53:27,226 to the `packages` configuration field. 2023-09-28T21:53:27,227 Alternatively, you can also rely on setuptools' discovery methods 2023-09-28T21:53:27,228 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-09-28T21:53:27,228 instead of `find_packages(...)`/`find:`). 2023-09-28T21:53:27,229 You can read more about "package discovery" on setuptools documentation page: 2023-09-28T21:53:27,230 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-09-28T21:53:27,231 If you don't want 'moleculekit.tmalign.src' to be distributed and are 2023-09-28T21:53:27,232 already explicitly excluding 'moleculekit.tmalign.src' via 2023-09-28T21:53:27,232 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-09-28T21:53:27,233 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-09-28T21:53:27,233 combination with a more fine grained `package-data` configuration. 2023-09-28T21:53:27,234 You can read more about "package data files" on setuptools documentation page: 2023-09-28T21:53:27,235 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-09-28T21:53:27,237 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-09-28T21:53:27,237 even if it does not contain any `.py` files. 2023-09-28T21:53:27,237 On the other hand, currently there is no concept of package data 2023-09-28T21:53:27,238 directory, all directories are treated like packages. 2023-09-28T21:53:27,238 ******************************************************************************** 2023-09-28T21:53:27,239 !! 2023-09-28T21:53:27,240 check.warn(importable) 2023-09-28T21:53:27,240 /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.wrapping' is absent from the `packages` configuration. 2023-09-28T21:53:27,241 !! 2023-09-28T21:53:27,242 ******************************************************************************** 2023-09-28T21:53:27,242 ############################ 2023-09-28T21:53:27,243 # Package would be ignored # 2023-09-28T21:53:27,243 ############################ 2023-09-28T21:53:27,244 Python recognizes 'moleculekit.wrapping' as an importable package[^1], 2023-09-28T21:53:27,244 but it is absent from setuptools' `packages` configuration. 2023-09-28T21:53:27,245 This leads to an ambiguous overall configuration. If you want to distribute this 2023-09-28T21:53:27,245 package, please make sure that 'moleculekit.wrapping' is explicitly added 2023-09-28T21:53:27,246 to the `packages` configuration field. 2023-09-28T21:53:27,246 Alternatively, you can also rely on setuptools' discovery methods 2023-09-28T21:53:27,247 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-09-28T21:53:27,247 instead of `find_packages(...)`/`find:`). 2023-09-28T21:53:27,248 You can read more about "package discovery" on setuptools documentation page: 2023-09-28T21:53:27,249 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-09-28T21:53:27,250 If you don't want 'moleculekit.wrapping' to be distributed and are 2023-09-28T21:53:27,250 already explicitly excluding 'moleculekit.wrapping' via 2023-09-28T21:53:27,250 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-09-28T21:53:27,251 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-09-28T21:53:27,252 combination with a more fine grained `package-data` configuration. 2023-09-28T21:53:27,252 You can read more about "package data files" on setuptools documentation page: 2023-09-28T21:53:27,253 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-09-28T21:53:27,255 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-09-28T21:53:27,255 even if it does not contain any `.py` files. 2023-09-28T21:53:27,256 On the other hand, currently there is no concept of package data 2023-09-28T21:53:27,256 directory, all directories are treated like packages. 2023-09-28T21:53:27,257 ******************************************************************************** 2023-09-28T21:53:27,258 !! 2023-09-28T21:53:27,258 check.warn(importable) 2023-09-28T21:53:27,259 /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.xtc_utils' is absent from the `packages` configuration. 2023-09-28T21:53:27,259 !! 2023-09-28T21:53:27,260 ******************************************************************************** 2023-09-28T21:53:27,260 ############################ 2023-09-28T21:53:27,261 # Package would be ignored # 2023-09-28T21:53:27,261 ############################ 2023-09-28T21:53:27,262 Python recognizes 'moleculekit.xtc_utils' as an importable package[^1], 2023-09-28T21:53:27,263 but it is absent from setuptools' `packages` configuration. 2023-09-28T21:53:27,263 This leads to an ambiguous overall configuration. If you want to distribute this 2023-09-28T21:53:27,264 package, please make sure that 'moleculekit.xtc_utils' is explicitly added 2023-09-28T21:53:27,264 to the `packages` configuration field. 2023-09-28T21:53:27,265 Alternatively, you can also rely on setuptools' discovery methods 2023-09-28T21:53:27,266 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-09-28T21:53:27,266 instead of `find_packages(...)`/`find:`). 2023-09-28T21:53:27,267 You can read more about "package discovery" on setuptools documentation page: 2023-09-28T21:53:27,268 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-09-28T21:53:27,269 If you don't want 'moleculekit.xtc_utils' to be distributed and are 2023-09-28T21:53:27,269 already explicitly excluding 'moleculekit.xtc_utils' via 2023-09-28T21:53:27,270 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-09-28T21:53:27,270 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-09-28T21:53:27,271 combination with a more fine grained `package-data` configuration. 2023-09-28T21:53:27,271 You can read more about "package data files" on setuptools documentation page: 2023-09-28T21:53:27,272 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-09-28T21:53:27,273 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-09-28T21:53:27,274 even if it does not contain any `.py` files. 2023-09-28T21:53:27,274 On the other hand, currently there is no concept of package data 2023-09-28T21:53:27,274 directory, all directories are treated like packages. 2023-09-28T21:53:27,275 ******************************************************************************** 2023-09-28T21:53:27,276 !! 2023-09-28T21:53:27,276 check.warn(importable) 2023-09-28T21:53:27,276 /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.xtc_utils.include' is absent from the `packages` configuration. 2023-09-28T21:53:27,277 !! 2023-09-28T21:53:27,278 ******************************************************************************** 2023-09-28T21:53:27,278 ############################ 2023-09-28T21:53:27,279 # Package would be ignored # 2023-09-28T21:53:27,279 ############################ 2023-09-28T21:53:27,280 Python recognizes 'moleculekit.xtc_utils.include' as an importable package[^1], 2023-09-28T21:53:27,280 but it is absent from setuptools' `packages` configuration. 2023-09-28T21:53:27,281 This leads to an ambiguous overall configuration. If you want to distribute this 2023-09-28T21:53:27,282 package, please make sure that 'moleculekit.xtc_utils.include' is explicitly added 2023-09-28T21:53:27,282 to the `packages` configuration field. 2023-09-28T21:53:27,283 Alternatively, you can also rely on setuptools' discovery methods 2023-09-28T21:53:27,283 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-09-28T21:53:27,284 instead of `find_packages(...)`/`find:`). 2023-09-28T21:53:27,285 You can read more about "package discovery" on setuptools documentation page: 2023-09-28T21:53:27,286 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-09-28T21:53:27,287 If you don't want 'moleculekit.xtc_utils.include' to be distributed and are 2023-09-28T21:53:27,287 already explicitly excluding 'moleculekit.xtc_utils.include' via 2023-09-28T21:53:27,288 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-09-28T21:53:27,288 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-09-28T21:53:27,289 combination with a more fine grained `package-data` configuration. 2023-09-28T21:53:27,290 You can read more about "package data files" on setuptools documentation page: 2023-09-28T21:53:27,291 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-09-28T21:53:27,292 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-09-28T21:53:27,293 even if it does not contain any `.py` files. 2023-09-28T21:53:27,293 On the other hand, currently there is no concept of package data 2023-09-28T21:53:27,294 directory, all directories are treated like packages. 2023-09-28T21:53:27,294 ******************************************************************************** 2023-09-28T21:53:27,295 !! 2023-09-28T21:53:27,296 check.warn(importable) 2023-09-28T21:53:27,296 /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.xtc_utils.src' is absent from the `packages` configuration. 2023-09-28T21:53:27,296 !! 2023-09-28T21:53:27,297 ******************************************************************************** 2023-09-28T21:53:27,297 ############################ 2023-09-28T21:53:27,298 # Package would be ignored # 2023-09-28T21:53:27,298 ############################ 2023-09-28T21:53:27,299 Python recognizes 'moleculekit.xtc_utils.src' as an importable package[^1], 2023-09-28T21:53:27,299 but it is absent from setuptools' `packages` configuration. 2023-09-28T21:53:27,300 This leads to an ambiguous overall configuration. If you want to distribute this 2023-09-28T21:53:27,300 package, please make sure that 'moleculekit.xtc_utils.src' is explicitly added 2023-09-28T21:53:27,301 to the `packages` configuration field. 2023-09-28T21:53:27,302 Alternatively, you can also rely on setuptools' discovery methods 2023-09-28T21:53:27,302 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-09-28T21:53:27,303 instead of `find_packages(...)`/`find:`). 2023-09-28T21:53:27,304 You can read more about "package discovery" on setuptools documentation page: 2023-09-28T21:53:27,305 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-09-28T21:53:27,305 If you don't want 'moleculekit.xtc_utils.src' to be distributed and are 2023-09-28T21:53:27,306 already explicitly excluding 'moleculekit.xtc_utils.src' via 2023-09-28T21:53:27,306 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-09-28T21:53:27,307 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-09-28T21:53:27,307 combination with a more fine grained `package-data` configuration. 2023-09-28T21:53:27,308 You can read more about "package data files" on setuptools documentation page: 2023-09-28T21:53:27,309 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-09-28T21:53:27,311 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-09-28T21:53:27,311 even if it does not contain any `.py` files. 2023-09-28T21:53:27,312 On the other hand, currently there is no concept of package data 2023-09-28T21:53:27,312 directory, all directories are treated like packages. 2023-09-28T21:53:27,313 ******************************************************************************** 2023-09-28T21:53:27,314 !! 2023-09-28T21:53:27,314 check.warn(importable) 2023-09-28T21:53:27,315 copying moleculekit/logging.ini -> build/lib.linux-armv7l-cpython-311/moleculekit 2023-09-28T21:53:27,315 copying moleculekit/vmd_wrapper -> build/lib.linux-armv7l-cpython-311/moleculekit 2023-09-28T21:53:27,316 creating build/lib.linux-armv7l-cpython-311/moleculekit/atomselect_utils 2023-09-28T21:53:27,316 copying moleculekit/atomselect_utils/atomselect_utils.cpp -> build/lib.linux-armv7l-cpython-311/moleculekit/atomselect_utils 2023-09-28T21:53:27,317 copying moleculekit/atomselect_utils/atomselect_utils.pyx -> build/lib.linux-armv7l-cpython-311/moleculekit/atomselect_utils 2023-09-28T21:53:27,317 creating build/lib.linux-armv7l-cpython-311/moleculekit/bondguesser_utils 2023-09-28T21:53:27,318 copying moleculekit/bondguesser_utils/bondguesser_utils.cpp -> build/lib.linux-armv7l-cpython-311/moleculekit/bondguesser_utils 2023-09-28T21:53:27,318 copying moleculekit/bondguesser_utils/bondguesser_utils.pyx -> build/lib.linux-armv7l-cpython-311/moleculekit/bondguesser_utils 2023-09-28T21:53:27,319 creating build/lib.linux-armv7l-cpython-311/moleculekit/distance_utils 2023-09-28T21:53:27,319 copying moleculekit/distance_utils/distance_utils.cpp -> build/lib.linux-armv7l-cpython-311/moleculekit/distance_utils 2023-09-28T21:53:27,320 copying moleculekit/distance_utils/distance_utils.pyx -> build/lib.linux-armv7l-cpython-311/moleculekit/distance_utils 2023-09-28T21:53:27,320 creating build/lib.linux-armv7l-cpython-311/moleculekit/occupancy_utils 2023-09-28T21:53:27,321 copying moleculekit/occupancy_utils/occupancy_utils.cpp -> build/lib.linux-armv7l-cpython-311/moleculekit/occupancy_utils 2023-09-28T21:53:27,321 copying moleculekit/occupancy_utils/occupancy_utils.pyx -> build/lib.linux-armv7l-cpython-311/moleculekit/occupancy_utils 2023-09-28T21:53:27,321 creating build/lib.linux-armv7l-cpython-311/moleculekit/share 2023-09-28T21:53:27,322 copying moleculekit/share/ALA.cif -> build/lib.linux-armv7l-cpython-311/moleculekit/share 2023-09-28T21:53:27,322 copying moleculekit/share/backbone.cif -> build/lib.linux-armv7l-cpython-311/moleculekit/share 2023-09-28T21:53:27,323 copying moleculekit/share/opm_sequences.json -> build/lib.linux-armv7l-cpython-311/moleculekit/share 2023-09-28T21:53:27,323 creating build/lib.linux-armv7l-cpython-311/moleculekit/share/atomselect 2023-09-28T21:53:27,323 copying moleculekit/share/atomselect/atomselect.json -> build/lib.linux-armv7l-cpython-311/moleculekit/share/atomselect 2023-09-28T21:53:27,324 creating build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr 2023-09-28T21:53:27,324 creating build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,325 copying moleculekit/share/pdb2pqr/residues/.gitkeep -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,325 copying moleculekit/share/pdb2pqr/residues/004.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,326 copying moleculekit/share/pdb2pqr/residues/004.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,326 copying moleculekit/share/pdb2pqr/residues/03Y.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,326 copying moleculekit/share/pdb2pqr/residues/03Y.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,327 copying moleculekit/share/pdb2pqr/residues/0A1.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,327 copying moleculekit/share/pdb2pqr/residues/0A1.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,328 copying moleculekit/share/pdb2pqr/residues/0AF.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,328 copying moleculekit/share/pdb2pqr/residues/0AF.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,329 copying moleculekit/share/pdb2pqr/residues/0BN.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,329 copying moleculekit/share/pdb2pqr/residues/0BN.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,330 copying moleculekit/share/pdb2pqr/residues/1MH.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,330 copying moleculekit/share/pdb2pqr/residues/1MH.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,331 copying moleculekit/share/pdb2pqr/residues/2AS.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,331 copying moleculekit/share/pdb2pqr/residues/2AS.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,332 copying moleculekit/share/pdb2pqr/residues/2GX.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,332 copying moleculekit/share/pdb2pqr/residues/2GX.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,333 copying moleculekit/share/pdb2pqr/residues/2ML.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,333 copying moleculekit/share/pdb2pqr/residues/2ML.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,334 copying moleculekit/share/pdb2pqr/residues/2MR.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,334 copying moleculekit/share/pdb2pqr/residues/2MR.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,334 copying moleculekit/share/pdb2pqr/residues/4IN.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,335 copying moleculekit/share/pdb2pqr/residues/4IN.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,335 copying moleculekit/share/pdb2pqr/residues/4PH.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,336 copying moleculekit/share/pdb2pqr/residues/4PH.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,336 copying moleculekit/share/pdb2pqr/residues/4PQ.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,337 copying moleculekit/share/pdb2pqr/residues/4PQ.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,337 copying moleculekit/share/pdb2pqr/residues/5JP.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,338 copying moleculekit/share/pdb2pqr/residues/5JP.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,338 copying moleculekit/share/pdb2pqr/residues/AA4.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,339 copying moleculekit/share/pdb2pqr/residues/AA4.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,339 copying moleculekit/share/pdb2pqr/residues/ABA.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,340 copying moleculekit/share/pdb2pqr/residues/ABA.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,340 copying moleculekit/share/pdb2pqr/residues/AHP.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,341 copying moleculekit/share/pdb2pqr/residues/AHP.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,341 copying moleculekit/share/pdb2pqr/residues/ALC.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,342 copying moleculekit/share/pdb2pqr/residues/ALC.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,342 copying moleculekit/share/pdb2pqr/residues/ALN.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,343 copying moleculekit/share/pdb2pqr/residues/ALN.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,343 copying moleculekit/share/pdb2pqr/residues/ALY.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,344 copying moleculekit/share/pdb2pqr/residues/ALY.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,344 copying moleculekit/share/pdb2pqr/residues/APD.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,345 copying moleculekit/share/pdb2pqr/residues/APD.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,345 copying moleculekit/share/pdb2pqr/residues/BB8.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,346 copying moleculekit/share/pdb2pqr/residues/BB8.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,346 copying moleculekit/share/pdb2pqr/residues/BCS.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,346 copying moleculekit/share/pdb2pqr/residues/BCS.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,347 copying moleculekit/share/pdb2pqr/residues/BTK.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,347 copying moleculekit/share/pdb2pqr/residues/BTK.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,348 copying moleculekit/share/pdb2pqr/residues/CCS.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,348 copying moleculekit/share/pdb2pqr/residues/CCS.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,348 copying moleculekit/share/pdb2pqr/residues/CGU.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,349 copying moleculekit/share/pdb2pqr/residues/CGU.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,349 copying moleculekit/share/pdb2pqr/residues/CSA.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,350 copying moleculekit/share/pdb2pqr/residues/CSA.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,350 copying moleculekit/share/pdb2pqr/residues/CSO.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,351 copying moleculekit/share/pdb2pqr/residues/CSO.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,351 copying moleculekit/share/pdb2pqr/residues/CSP.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,352 copying moleculekit/share/pdb2pqr/residues/CSP.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,352 copying moleculekit/share/pdb2pqr/residues/CSS.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,353 copying moleculekit/share/pdb2pqr/residues/CSS.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,353 copying moleculekit/share/pdb2pqr/residues/D4P.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,354 copying moleculekit/share/pdb2pqr/residues/D4P.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,354 copying moleculekit/share/pdb2pqr/residues/DA2.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,355 copying moleculekit/share/pdb2pqr/residues/DA2.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,355 copying moleculekit/share/pdb2pqr/residues/DAB.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,356 copying moleculekit/share/pdb2pqr/residues/DAB.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,356 copying moleculekit/share/pdb2pqr/residues/DAH.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,357 copying moleculekit/share/pdb2pqr/residues/DAH.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,357 copying moleculekit/share/pdb2pqr/residues/DPP.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,358 copying moleculekit/share/pdb2pqr/residues/DPP.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,358 copying moleculekit/share/pdb2pqr/residues/ESC.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,359 copying moleculekit/share/pdb2pqr/residues/ESC.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,359 copying moleculekit/share/pdb2pqr/residues/FGL.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,360 copying moleculekit/share/pdb2pqr/residues/FGL.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,360 copying moleculekit/share/pdb2pqr/residues/GHG.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,361 copying moleculekit/share/pdb2pqr/residues/GHG.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,361 copying moleculekit/share/pdb2pqr/residues/GME.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,362 copying moleculekit/share/pdb2pqr/residues/GME.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,362 copying moleculekit/share/pdb2pqr/residues/GNC.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,362 copying moleculekit/share/pdb2pqr/residues/GNC.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,363 copying moleculekit/share/pdb2pqr/residues/HHK.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,363 copying moleculekit/share/pdb2pqr/residues/HHK.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,364 copying moleculekit/share/pdb2pqr/residues/HLU.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,365 copying moleculekit/share/pdb2pqr/residues/HLU.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,365 copying moleculekit/share/pdb2pqr/residues/HLX.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,365 copying moleculekit/share/pdb2pqr/residues/HLX.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,366 copying moleculekit/share/pdb2pqr/residues/HOX.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,366 copying moleculekit/share/pdb2pqr/residues/HOX.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,367 copying moleculekit/share/pdb2pqr/residues/HPE.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,367 copying moleculekit/share/pdb2pqr/residues/HPE.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,368 copying moleculekit/share/pdb2pqr/residues/HQA.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,368 copying moleculekit/share/pdb2pqr/residues/HQA.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,369 copying moleculekit/share/pdb2pqr/residues/HTR.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,369 copying moleculekit/share/pdb2pqr/residues/HTR.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,371 copying moleculekit/share/pdb2pqr/residues/HYP.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,373 copying moleculekit/share/pdb2pqr/residues/HYP.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,375 copying moleculekit/share/pdb2pqr/residues/I2M.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,377 copying moleculekit/share/pdb2pqr/residues/I2M.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,379 copying moleculekit/share/pdb2pqr/residues/IGL.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,381 copying moleculekit/share/pdb2pqr/residues/IGL.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,383 copying moleculekit/share/pdb2pqr/residues/IIL.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,385 copying moleculekit/share/pdb2pqr/residues/IIL.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,387 copying moleculekit/share/pdb2pqr/residues/IML.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,389 copying moleculekit/share/pdb2pqr/residues/IML.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,391 copying moleculekit/share/pdb2pqr/residues/KYN.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,393 copying moleculekit/share/pdb2pqr/residues/KYN.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,395 copying moleculekit/share/pdb2pqr/residues/LME.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,397 copying moleculekit/share/pdb2pqr/residues/LME.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,399 copying moleculekit/share/pdb2pqr/residues/LMQ.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,401 copying moleculekit/share/pdb2pqr/residues/LMQ.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,403 copying moleculekit/share/pdb2pqr/residues/LYZ.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,407 copying moleculekit/share/pdb2pqr/residues/LYZ.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,409 copying moleculekit/share/pdb2pqr/residues/M3L.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,411 copying moleculekit/share/pdb2pqr/residues/M3L.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,414 copying moleculekit/share/pdb2pqr/residues/ME0.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,416 copying moleculekit/share/pdb2pqr/residues/ME0.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,418 copying moleculekit/share/pdb2pqr/residues/MEA.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,420 copying moleculekit/share/pdb2pqr/residues/MEA.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,422 copying moleculekit/share/pdb2pqr/residues/MEN.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,424 copying moleculekit/share/pdb2pqr/residues/MEN.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,426 copying moleculekit/share/pdb2pqr/residues/MEQ.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,428 copying moleculekit/share/pdb2pqr/residues/MEQ.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,430 copying moleculekit/share/pdb2pqr/residues/MLE.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,432 copying moleculekit/share/pdb2pqr/residues/MLE.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,434 copying moleculekit/share/pdb2pqr/residues/MLY.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,436 copying moleculekit/share/pdb2pqr/residues/MLY.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,439 copying moleculekit/share/pdb2pqr/residues/MLZ.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,441 copying moleculekit/share/pdb2pqr/residues/MLZ.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,443 copying moleculekit/share/pdb2pqr/residues/MME.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,444 copying moleculekit/share/pdb2pqr/residues/MME.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,446 copying moleculekit/share/pdb2pqr/residues/MMO.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,448 copying moleculekit/share/pdb2pqr/residues/MMO.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,450 copying moleculekit/share/pdb2pqr/residues/MVA.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,452 copying moleculekit/share/pdb2pqr/residues/MVA.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,454 copying moleculekit/share/pdb2pqr/residues/NAL.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,456 copying moleculekit/share/pdb2pqr/residues/NAL.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,458 copying moleculekit/share/pdb2pqr/residues/NCY.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,460 copying moleculekit/share/pdb2pqr/residues/NCY.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,463 copying moleculekit/share/pdb2pqr/residues/NLE.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,464 copying moleculekit/share/pdb2pqr/residues/NLE.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,467 copying moleculekit/share/pdb2pqr/residues/NVA.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,469 copying moleculekit/share/pdb2pqr/residues/NVA.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,471 copying moleculekit/share/pdb2pqr/residues/NZC.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,473 copying moleculekit/share/pdb2pqr/residues/NZC.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,475 copying moleculekit/share/pdb2pqr/residues/OCY.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,477 copying moleculekit/share/pdb2pqr/residues/OCY.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,479 copying moleculekit/share/pdb2pqr/residues/OMX.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,482 copying moleculekit/share/pdb2pqr/residues/OMX.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,484 copying moleculekit/share/pdb2pqr/residues/ONL.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,486 copying moleculekit/share/pdb2pqr/residues/ONL.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,488 copying moleculekit/share/pdb2pqr/residues/ORM.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,490 copying moleculekit/share/pdb2pqr/residues/ORM.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,492 copying moleculekit/share/pdb2pqr/residues/P1L.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,494 copying moleculekit/share/pdb2pqr/residues/P1L.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,496 copying moleculekit/share/pdb2pqr/residues/PCA.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,498 copying moleculekit/share/pdb2pqr/residues/PCA.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,500 copying moleculekit/share/pdb2pqr/residues/PRK.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,502 copying moleculekit/share/pdb2pqr/residues/PRK.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,504 copying moleculekit/share/pdb2pqr/residues/PTR.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,506 copying moleculekit/share/pdb2pqr/residues/PTR.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,508 copying moleculekit/share/pdb2pqr/residues/SEP.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,510 copying moleculekit/share/pdb2pqr/residues/SEP.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,512 copying moleculekit/share/pdb2pqr/residues/TPO.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,514 copying moleculekit/share/pdb2pqr/residues/TPO.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,516 copying moleculekit/share/pdb2pqr/residues/TRO.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,518 copying moleculekit/share/pdb2pqr/residues/TRO.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,520 copying moleculekit/share/pdb2pqr/residues/TY2.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,522 copying moleculekit/share/pdb2pqr/residues/TY2.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,524 copying moleculekit/share/pdb2pqr/residues/TYQ.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,526 copying moleculekit/share/pdb2pqr/residues/TYQ.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,528 copying moleculekit/share/pdb2pqr/residues/YCM.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,531 copying moleculekit/share/pdb2pqr/residues/YCM.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,533 copying moleculekit/share/pdb2pqr/residues/YNM.dat -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,535 copying moleculekit/share/pdb2pqr/residues/YNM.xml -> build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues 2023-09-28T21:53:27,537 creating build/lib.linux-armv7l-cpython-311/moleculekit/tmalign 2023-09-28T21:53:27,538 copying moleculekit/tmalign/tmalign_util.cpp -> build/lib.linux-armv7l-cpython-311/moleculekit/tmalign 2023-09-28T21:53:27,561 copying moleculekit/tmalign/tmalign_util.pyx -> build/lib.linux-armv7l-cpython-311/moleculekit/tmalign 2023-09-28T21:53:27,564 copying moleculekit/tmalign/tmalignlib.pxd -> build/lib.linux-armv7l-cpython-311/moleculekit/tmalign 2023-09-28T21:53:27,566 creating build/lib.linux-armv7l-cpython-311/moleculekit/tmalign/include 2023-09-28T21:53:27,567 copying moleculekit/tmalign/include/TMAlign.h -> build/lib.linux-armv7l-cpython-311/moleculekit/tmalign/include 2023-09-28T21:53:27,569 creating build/lib.linux-armv7l-cpython-311/moleculekit/tmalign/src 2023-09-28T21:53:27,570 copying moleculekit/tmalign/src/TMAlign.cpp -> build/lib.linux-armv7l-cpython-311/moleculekit/tmalign/src 2023-09-28T21:53:27,576 creating build/lib.linux-armv7l-cpython-311/moleculekit/wrapping 2023-09-28T21:53:27,577 copying moleculekit/wrapping/wrapping.cpp -> build/lib.linux-armv7l-cpython-311/moleculekit/wrapping 2023-09-28T21:53:27,596 copying moleculekit/wrapping/wrapping.pyx -> build/lib.linux-armv7l-cpython-311/moleculekit/wrapping 2023-09-28T21:53:27,598 creating build/lib.linux-armv7l-cpython-311/moleculekit/xtc_utils 2023-09-28T21:53:27,599 copying moleculekit/xtc_utils/xtc.cpp -> build/lib.linux-armv7l-cpython-311/moleculekit/xtc_utils 2023-09-28T21:53:27,622 copying moleculekit/xtc_utils/xtc.pyx -> build/lib.linux-armv7l-cpython-311/moleculekit/xtc_utils 2023-09-28T21:53:27,623 copying moleculekit/xtc_utils/xtclib.pxd -> build/lib.linux-armv7l-cpython-311/moleculekit/xtc_utils 2023-09-28T21:53:27,625 creating build/lib.linux-armv7l-cpython-311/moleculekit/xtc_utils/include 2023-09-28T21:53:27,626 copying moleculekit/xtc_utils/include/xdrfile.h -> build/lib.linux-armv7l-cpython-311/moleculekit/xtc_utils/include 2023-09-28T21:53:27,629 copying moleculekit/xtc_utils/include/xdrfile_xtc.h -> build/lib.linux-armv7l-cpython-311/moleculekit/xtc_utils/include 2023-09-28T21:53:27,630 copying moleculekit/xtc_utils/include/xtc.h -> build/lib.linux-armv7l-cpython-311/moleculekit/xtc_utils/include 2023-09-28T21:53:27,633 creating build/lib.linux-armv7l-cpython-311/moleculekit/xtc_utils/src 2023-09-28T21:53:27,633 copying moleculekit/xtc_utils/src/xdrfile.cpp -> build/lib.linux-armv7l-cpython-311/moleculekit/xtc_utils/src 2023-09-28T21:53:27,637 copying moleculekit/xtc_utils/src/xdrfile_xtc.cpp -> build/lib.linux-armv7l-cpython-311/moleculekit/xtc_utils/src 2023-09-28T21:53:27,639 copying moleculekit/xtc_utils/src/xtc.cpp -> build/lib.linux-armv7l-cpython-311/moleculekit/xtc_utils/src 2023-09-28T21:53:27,642 creating build/lib.linux-armv7l-cpython-311/moleculekit/interactions/cationpi 2023-09-28T21:53:27,643 copying moleculekit/interactions/cationpi/cationpi.cpp -> build/lib.linux-armv7l-cpython-311/moleculekit/interactions/cationpi 2023-09-28T21:53:27,663 copying moleculekit/interactions/cationpi/cationpi.pyx -> build/lib.linux-armv7l-cpython-311/moleculekit/interactions/cationpi 2023-09-28T21:53:27,666 creating build/lib.linux-armv7l-cpython-311/moleculekit/interactions/hbonds 2023-09-28T21:53:27,667 copying moleculekit/interactions/hbonds/hbonds.cpp -> build/lib.linux-armv7l-cpython-311/moleculekit/interactions/hbonds 2023-09-28T21:53:27,688 copying moleculekit/interactions/hbonds/hbonds.pyx -> build/lib.linux-armv7l-cpython-311/moleculekit/interactions/hbonds 2023-09-28T21:53:27,690 creating build/lib.linux-armv7l-cpython-311/moleculekit/interactions/pipi 2023-09-28T21:53:27,691 copying moleculekit/interactions/pipi/pipi.cpp -> build/lib.linux-armv7l-cpython-311/moleculekit/interactions/pipi 2023-09-28T21:53:27,712 copying moleculekit/interactions/pipi/pipi.pyx -> build/lib.linux-armv7l-cpython-311/moleculekit/interactions/pipi 2023-09-28T21:53:27,714 creating build/lib.linux-armv7l-cpython-311/moleculekit/interactions/sigmahole 2023-09-28T21:53:27,715 copying moleculekit/interactions/sigmahole/sigmahole.cpp -> build/lib.linux-armv7l-cpython-311/moleculekit/interactions/sigmahole 2023-09-28T21:53:27,734 copying moleculekit/interactions/sigmahole/sigmahole.pyx -> build/lib.linux-armv7l-cpython-311/moleculekit/interactions/sigmahole 2023-09-28T21:53:27,744 UPDATING build/lib.linux-armv7l-cpython-311/moleculekit/_version.py 2023-09-28T21:53:27,745 set build/lib.linux-armv7l-cpython-311/moleculekit/_version.py to '1.7.12' 2023-09-28T21:53:27,745 running build_ext 2023-09-28T21:53:27,755 building 'moleculekit.interactions.hbonds' extension 2023-09-28T21:53:27,756 creating build/temp.linux-armv7l-cpython-311 2023-09-28T21:53:27,756 creating build/temp.linux-armv7l-cpython-311/moleculekit 2023-09-28T21:53:27,756 creating build/temp.linux-armv7l-cpython-311/moleculekit/interactions 2023-09-28T21:53:27,757 creating build/temp.linux-armv7l-cpython-311/moleculekit/interactions/hbonds 2023-09-28T21:53:27,758 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-wncjl7eg/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 2023-09-28T21:53:28,079 In file included from /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2023-09-28T21:53:28,080 from /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2023-09-28T21:53:28,080 from /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2023-09-28T21:53:28,081 from moleculekit/interactions/hbonds/hbonds.cpp:1192: 2023-09-28T21:53:28,081 /tmp/pip-build-env-wncjl7eg/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] 2023-09-28T21:53:28,082 17 | #warning "Using deprecated NumPy API, disable it with " \ 2023-09-28T21:53:28,082 | ^~~~~~~ 2023-09-28T21:53:58,453 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 2023-09-28T21:53:58,742 building 'moleculekit.interactions.pipi' extension 2023-09-28T21:53:58,742 creating build/temp.linux-armv7l-cpython-311/moleculekit/interactions/pipi 2023-09-28T21:53:58,743 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-wncjl7eg/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 2023-09-28T21:53:59,046 In file included from /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2023-09-28T21:53:59,046 from /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2023-09-28T21:53:59,047 from /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2023-09-28T21:53:59,048 from moleculekit/interactions/pipi/pipi.cpp:1192: 2023-09-28T21:53:59,048 /tmp/pip-build-env-wncjl7eg/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] 2023-09-28T21:53:59,049 17 | #warning "Using deprecated NumPy API, disable it with " \ 2023-09-28T21:53:59,049 | ^~~~~~~ 2023-09-28T21:54:31,572 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 2023-09-28T21:54:31,853 building 'moleculekit.interactions.cationpi' extension 2023-09-28T21:54:31,853 creating build/temp.linux-armv7l-cpython-311/moleculekit/interactions/cationpi 2023-09-28T21:54:31,854 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-wncjl7eg/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 2023-09-28T21:54:32,174 In file included from /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2023-09-28T21:54:32,174 from /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2023-09-28T21:54:32,175 from /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2023-09-28T21:54:32,176 from moleculekit/interactions/cationpi/cationpi.cpp:1192: 2023-09-28T21:54:32,176 /tmp/pip-build-env-wncjl7eg/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] 2023-09-28T21:54:32,177 17 | #warning "Using deprecated NumPy API, disable it with " \ 2023-09-28T21:54:32,178 | ^~~~~~~ 2023-09-28T21:55:06,583 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 2023-09-28T21:55:06,868 building 'moleculekit.interactions.sigmahole' extension 2023-09-28T21:55:06,868 creating build/temp.linux-armv7l-cpython-311/moleculekit/interactions/sigmahole 2023-09-28T21:55:06,869 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-wncjl7eg/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 2023-09-28T21:55:07,194 In file included from /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2023-09-28T21:55:07,194 from /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2023-09-28T21:55:07,195 from /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2023-09-28T21:55:07,196 from moleculekit/interactions/sigmahole/sigmahole.cpp:1192: 2023-09-28T21:55:07,196 /tmp/pip-build-env-wncjl7eg/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] 2023-09-28T21:55:07,197 17 | #warning "Using deprecated NumPy API, disable it with " \ 2023-09-28T21:55:07,197 | ^~~~~~~ 2023-09-28T21:55:39,010 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 2023-09-28T21:55:39,295 building 'moleculekit.wrapping' extension 2023-09-28T21:55:39,296 creating build/temp.linux-armv7l-cpython-311/moleculekit/wrapping 2023-09-28T21:55:39,296 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-wncjl7eg/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 2023-09-28T21:55:39,605 In file included from /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2023-09-28T21:55:39,606 from /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2023-09-28T21:55:39,606 from /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2023-09-28T21:55:39,607 from moleculekit/wrapping/wrapping.cpp:1192: 2023-09-28T21:55:39,607 /tmp/pip-build-env-wncjl7eg/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] 2023-09-28T21:55:39,607 17 | #warning "Using deprecated NumPy API, disable it with " \ 2023-09-28T21:55:39,608 | ^~~~~~~ 2023-09-28T21:56:07,731 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 2023-09-28T21:56:07,917 building 'moleculekit.bondguesser_utils' extension 2023-09-28T21:56:07,917 creating build/temp.linux-armv7l-cpython-311/moleculekit/bondguesser_utils 2023-09-28T21:56:07,918 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-wncjl7eg/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 2023-09-28T21:56:08,219 In file included from /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2023-09-28T21:56:08,219 from /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2023-09-28T21:56:08,220 from /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2023-09-28T21:56:08,221 from moleculekit/bondguesser_utils/bondguesser_utils.cpp:1192: 2023-09-28T21:56:08,221 /tmp/pip-build-env-wncjl7eg/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] 2023-09-28T21:56:08,222 17 | #warning "Using deprecated NumPy API, disable it with " \ 2023-09-28T21:56:08,222 | ^~~~~~~ 2023-09-28T21:56:10,498 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)’: 2023-09-28T21:56:10,499 moleculekit/bondguesser_utils/bondguesser_utils.cpp:19831:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘__pyx_t_11moleculekit_17bondguesser_utils_UINT32_t’ {aka ‘long unsigned int’} [-Wsign-compare] 2023-09-28T21:56:10,500 19831 | for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_2; __pyx_t_3+=1) { 2023-09-28T21:56:10,500 | ~~~~~~~~~~^~~~~~~~~~~ 2023-09-28T21:56:10,501 moleculekit/bondguesser_utils/bondguesser_utils.cpp:19843:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘__pyx_t_11moleculekit_17bondguesser_utils_UINT32_t’ {aka ‘long unsigned int’} [-Wsign-compare] 2023-09-28T21:56:10,502 19843 | for (__pyx_t_6 = 0; __pyx_t_6 < __pyx_t_5; __pyx_t_6+=1) { 2023-09-28T21:56:10,503 | ~~~~~~~~~~^~~~~~~~~~~ 2023-09-28T21:56:10,503 moleculekit/bondguesser_utils/bondguesser_utils.cpp:19855:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘__pyx_t_11moleculekit_17bondguesser_utils_UINT32_t’ {aka ‘long unsigned int’} [-Wsign-compare] 2023-09-28T21:56:10,504 19855 | for (__pyx_t_9 = 0; __pyx_t_9 < __pyx_t_8; __pyx_t_9+=1) { 2023-09-28T21:56:10,504 | ~~~~~~~~~~^~~~~~~~~~~ 2023-09-28T21:56:10,504 moleculekit/bondguesser_utils/bondguesser_utils.cpp:19894:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-09-28T21:56:10,505 19894 | __pyx_t_12 = (__pyx_v_xi < (__pyx_v_xboxes - 1)); 2023-09-28T21:56:10,505 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-09-28T21:56:10,506 moleculekit/bondguesser_utils/bondguesser_utils.cpp:19933:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-09-28T21:56:10,506 19933 | __pyx_t_12 = (__pyx_v_yi < (__pyx_v_yboxes - 1)); 2023-09-28T21:56:10,507 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-09-28T21:56:10,507 moleculekit/bondguesser_utils/bondguesser_utils.cpp:19972:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-09-28T21:56:10,508 19972 | __pyx_t_12 = (__pyx_v_zi < (__pyx_v_zboxes - 1)); 2023-09-28T21:56:10,508 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-09-28T21:56:10,509 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20011:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-09-28T21:56:10,510 20011 | __pyx_t_13 = (__pyx_v_xi < (__pyx_v_xboxes - 1)); 2023-09-28T21:56:10,511 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-09-28T21:56:10,511 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20017:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-09-28T21:56:10,512 20017 | __pyx_t_13 = (__pyx_v_yi < (__pyx_v_yboxes - 1)); 2023-09-28T21:56:10,513 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-09-28T21:56:10,513 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20058:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-09-28T21:56:10,514 20058 | __pyx_t_13 = (__pyx_v_xi < (__pyx_v_xboxes - 1)); 2023-09-28T21:56:10,515 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-09-28T21:56:10,515 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20064:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-09-28T21:56:10,516 20064 | __pyx_t_13 = (__pyx_v_zi < (__pyx_v_zboxes - 1)); 2023-09-28T21:56:10,516 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-09-28T21:56:10,517 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20105:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-09-28T21:56:10,518 20105 | __pyx_t_13 = (__pyx_v_yi < (__pyx_v_yboxes - 1)); 2023-09-28T21:56:10,518 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-09-28T21:56:10,519 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20111:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-09-28T21:56:10,520 20111 | __pyx_t_13 = (__pyx_v_zi < (__pyx_v_zboxes - 1)); 2023-09-28T21:56:10,521 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-09-28T21:56:10,521 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20152:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-09-28T21:56:10,522 20152 | __pyx_t_13 = (__pyx_v_xi < (__pyx_v_xboxes - 1)); 2023-09-28T21:56:10,522 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-09-28T21:56:10,523 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20205:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-09-28T21:56:10,523 20205 | __pyx_t_13 = (__pyx_v_zi < (__pyx_v_zboxes - 1)); 2023-09-28T21:56:10,524 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-09-28T21:56:10,524 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20252:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-09-28T21:56:10,525 20252 | __pyx_t_13 = (__pyx_v_zi < (__pyx_v_zboxes - 1)); 2023-09-28T21:56:10,525 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-09-28T21:56:10,526 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20293:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-09-28T21:56:10,526 20293 | __pyx_t_13 = (__pyx_v_xi < (__pyx_v_xboxes - 1)); 2023-09-28T21:56:10,527 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-09-28T21:56:10,527 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20299:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-09-28T21:56:10,528 20299 | __pyx_t_13 = (__pyx_v_yi < (__pyx_v_yboxes - 1)); 2023-09-28T21:56:10,529 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-09-28T21:56:10,529 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20305:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-09-28T21:56:10,530 20305 | __pyx_t_13 = (__pyx_v_zi < (__pyx_v_zboxes - 1)); 2023-09-28T21:56:10,531 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-09-28T21:56:10,532 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20352:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-09-28T21:56:10,532 20352 | __pyx_t_13 = (__pyx_v_yi < (__pyx_v_yboxes - 1)); 2023-09-28T21:56:10,533 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-09-28T21:56:10,534 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20358:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-09-28T21:56:10,534 20358 | __pyx_t_13 = (__pyx_v_zi < (__pyx_v_zboxes - 1)); 2023-09-28T21:56:10,535 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-09-28T21:56:10,536 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20399:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-09-28T21:56:10,536 20399 | __pyx_t_13 = (__pyx_v_xi < (__pyx_v_xboxes - 1)); 2023-09-28T21:56:10,537 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-09-28T21:56:10,538 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20411:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-09-28T21:56:10,538 20411 | __pyx_t_13 = (__pyx_v_zi < (__pyx_v_zboxes - 1)); 2023-09-28T21:56:10,539 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-09-28T21:56:10,540 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20464:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-09-28T21:56:10,540 20464 | __pyx_t_13 = (__pyx_v_zi < (__pyx_v_zboxes - 1)); 2023-09-28T21:56:10,541 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-09-28T21:56:10,563 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)’: 2023-09-28T21:56:10,564 moleculekit/bondguesser_utils/bondguesser_utils.cpp:21089:37: warning: comparison of integer expressions of different signedness: ‘__pyx_t_11moleculekit_17bondguesser_utils_UINT32_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 2023-09-28T21:56:10,564 21089 | __pyx_t_6 = (__pyx_v_boxneigh == __pyx_v_n_boxes); 2023-09-28T21:56:10,565 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ 2023-09-28T21:56:10,565 moleculekit/bondguesser_utils/bondguesser_utils.cpp:21126:37: warning: comparison of integer expressions of different signedness: ‘__pyx_t_11moleculekit_17bondguesser_utils_UINT32_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 2023-09-28T21:56:10,566 21126 | __pyx_t_6 = (__pyx_v_boxneigh == __pyx_v_boxidx); 2023-09-28T21:56:10,566 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 2023-09-28T21:56:37,040 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 2023-09-28T21:56:37,310 building 'moleculekit.atomselect_utils' extension 2023-09-28T21:56:37,311 creating build/temp.linux-armv7l-cpython-311/moleculekit/atomselect_utils 2023-09-28T21:56:37,312 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-wncjl7eg/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 2023-09-28T21:56:37,648 In file included from /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2023-09-28T21:56:37,649 from /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2023-09-28T21:56:37,650 from /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2023-09-28T21:56:37,650 from moleculekit/atomselect_utils/atomselect_utils.cpp:1209: 2023-09-28T21:56:37,651 /tmp/pip-build-env-wncjl7eg/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] 2023-09-28T21:56:37,651 17 | #warning "Using deprecated NumPy API, disable it with " \ 2023-09-28T21:56:37,652 | ^~~~~~~ 2023-09-28T21:56:40,178 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 >&)’: 2023-09-28T21:56:40,179 moleculekit/atomselect_utils/atomselect_utils.cpp:23820:161: warning: comparison of integer expressions of different signedness: ‘__pyx_t_11moleculekit_16atomselect_utils_UINT32_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 2023-09-28T21:56:40,180 23820 | __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); 2023-09-28T21:56:40,180 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 2023-09-28T21:56:40,187 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 >&)’: 2023-09-28T21:56:40,187 moleculekit/atomselect_utils/atomselect_utils.cpp:24075:163: warning: comparison of integer expressions of different signedness: ‘__pyx_t_11moleculekit_16atomselect_utils_UINT32_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 2023-09-28T21:56:40,188 24075 | __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); 2023-09-28T21:56:40,188 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2023-09-28T21:56:40,195 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 >&)’: 2023-09-28T21:56:40,195 moleculekit/atomselect_utils/atomselect_utils.cpp:24345:163: warning: comparison of integer expressions of different signedness: ‘__pyx_t_11moleculekit_16atomselect_utils_UINT32_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 2023-09-28T21:56:40,196 24345 | __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); 2023-09-28T21:56:40,197 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2023-09-28T21:57:14,708 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 2023-09-28T21:57:15,001 building 'moleculekit.distance_utils' extension 2023-09-28T21:57:15,002 creating build/temp.linux-armv7l-cpython-311/moleculekit/distance_utils 2023-09-28T21:57:15,002 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-wncjl7eg/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 2023-09-28T21:57:15,305 In file included from /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2023-09-28T21:57:15,306 from /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2023-09-28T21:57:15,307 from /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2023-09-28T21:57:15,308 from moleculekit/distance_utils/distance_utils.cpp:1192: 2023-09-28T21:57:15,308 /tmp/pip-build-env-wncjl7eg/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] 2023-09-28T21:57:15,309 17 | #warning "Using deprecated NumPy API, disable it with " \ 2023-09-28T21:57:15,309 | ^~~~~~~ 2023-09-28T21:57:52,193 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 2023-09-28T21:57:52,483 building 'moleculekit.occupancy_utils' extension 2023-09-28T21:57:52,483 creating build/temp.linux-armv7l-cpython-311/moleculekit/occupancy_utils 2023-09-28T21:57:52,484 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-wncjl7eg/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 2023-09-28T21:57:52,801 In file included from /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2023-09-28T21:57:52,802 from /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2023-09-28T21:57:52,803 from /tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2023-09-28T21:57:52,803 from moleculekit/occupancy_utils/occupancy_utils.cpp:1192: 2023-09-28T21:57:52,804 /tmp/pip-build-env-wncjl7eg/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] 2023-09-28T21:57:52,805 17 | #warning "Using deprecated NumPy API, disable it with " \ 2023-09-28T21:57:52,805 | ^~~~~~~ 2023-09-28T21:58:20,114 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 2023-09-28T21:58:20,307 building 'moleculekit.xtc' extension 2023-09-28T21:58:20,308 creating build/temp.linux-armv7l-cpython-311/moleculekit/xtc_utils 2023-09-28T21:58:20,308 creating build/temp.linux-armv7l-cpython-311/moleculekit/xtc_utils/src 2023-09-28T21:58:20,310 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Imoleculekit/xtc_utils -Imoleculekit/xtc_utils/include/ -Imoleculekit/xtc_utils/ -I/tmp/pip-build-env-wncjl7eg/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c moleculekit/xtc_utils/src/xdrfile.cpp -o build/temp.linux-armv7l-cpython-311/moleculekit/xtc_utils/src/xdrfile.o 2023-09-28T21:58:20,957 moleculekit/xtc_utils/src/xdrfile.cpp:66:9: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-09-28T21:58:20,957 66 | "OK", 2023-09-28T21:58:20,958 | ^~~~ 2023-09-28T21:58:20,959 moleculekit/xtc_utils/src/xdrfile.cpp:67:9: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-09-28T21:58:20,960 67 | "Header", 2023-09-28T21:58:20,961 | ^~~~~~~~ 2023-09-28T21:58:20,961 moleculekit/xtc_utils/src/xdrfile.cpp:68:9: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-09-28T21:58:20,962 68 | "String", 2023-09-28T21:58:20,963 | ^~~~~~~~ 2023-09-28T21:58:20,963 moleculekit/xtc_utils/src/xdrfile.cpp:69:9: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-09-28T21:58:20,964 69 | "Double", 2023-09-28T21:58:20,964 | ^~~~~~~~ 2023-09-28T21:58:20,965 moleculekit/xtc_utils/src/xdrfile.cpp:70:9: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-09-28T21:58:20,966 70 | "Integer", 2023-09-28T21:58:20,966 | ^~~~~~~~~ 2023-09-28T21:58:20,967 moleculekit/xtc_utils/src/xdrfile.cpp:71:9: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-09-28T21:58:20,967 71 | "Float", 2023-09-28T21:58:20,968 | ^~~~~~~ 2023-09-28T21:58:20,968 moleculekit/xtc_utils/src/xdrfile.cpp:72:9: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-09-28T21:58:20,969 72 | "Unsigned integer", 2023-09-28T21:58:20,970 | ^~~~~~~~~~~~~~~~~~ 2023-09-28T21:58:20,970 moleculekit/xtc_utils/src/xdrfile.cpp:73:9: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-09-28T21:58:20,971 73 | "Compressed 3D coordinate", 2023-09-28T21:58:20,971 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-28T21:58:20,972 moleculekit/xtc_utils/src/xdrfile.cpp:74:9: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-09-28T21:58:20,973 74 | "Closing file", 2023-09-28T21:58:20,974 | ^~~~~~~~~~~~~~ 2023-09-28T21:58:20,975 moleculekit/xtc_utils/src/xdrfile.cpp:75:9: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-09-28T21:58:20,975 75 | "Magic number", 2023-09-28T21:58:20,976 | ^~~~~~~~~~~~~~ 2023-09-28T21:58:20,976 moleculekit/xtc_utils/src/xdrfile.cpp:76:9: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-09-28T21:58:20,977 76 | "Not enough memory", 2023-09-28T21:58:20,978 | ^~~~~~~~~~~~~~~~~~~ 2023-09-28T21:58:20,978 moleculekit/xtc_utils/src/xdrfile.cpp:77:9: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-09-28T21:58:20,979 77 | "End of file", 2023-09-28T21:58:20,980 | ^~~~~~~~~~~~~ 2023-09-28T21:58:20,981 moleculekit/xtc_utils/src/xdrfile.cpp:78:9: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-09-28T21:58:20,981 78 | "File not found" 2023-09-28T21:58:20,982 | ^~~~~~~~~~~~~~~~ 2023-09-28T21:58:20,983 moleculekit/xtc_utils/src/xdrfile.cpp: In function ‘int sizeofint(int)’: 2023-09-28T21:58:20,983 moleculekit/xtc_utils/src/xdrfile.cpp:459:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-09-28T21:58:20,984 459 | while (size >= num && num_of_bits < 32) 2023-09-28T21:58:20,985 | ~~~~~^~~~~~ 2023-09-28T21:58:20,985 moleculekit/xtc_utils/src/xdrfile.cpp: In function ‘int sizeofints(int, unsigned int*)’: 2023-09-28T21:58:20,986 moleculekit/xtc_utils/src/xdrfile.cpp:505:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2023-09-28T21:58:20,987 505 | while (bytes[num_of_bytes] >= num) 2023-09-28T21:58:20,988 | ~~~~~~~~~~~~~~~~~~~~^~~~~~ 2023-09-28T21:58:20,989 moleculekit/xtc_utils/src/xdrfile.cpp: In function ‘void encodeints(int*, int, int, unsigned int*, unsigned int*)’: 2023-09-28T21:58:20,989 moleculekit/xtc_utils/src/xdrfile.cpp:614:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-09-28T21:58:20,990 614 | if (num_of_bits >= num_of_bytes * 8) 2023-09-28T21:58:20,991 | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ 2023-09-28T21:58:20,991 moleculekit/xtc_utils/src/xdrfile.cpp:616:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-09-28T21:58:20,992 616 | for (i = 0; i < num_of_bytes; i++) 2023-09-28T21:58:20,993 | ~~^~~~~~~~~~~~~~ 2023-09-28T21:58:20,993 moleculekit/xtc_utils/src/xdrfile.cpp:624:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-09-28T21:58:20,994 624 | for (i = 0; i < num_of_bytes-1; i++) 2023-09-28T21:58:20,994 | ~~^~~~~~~~~~~~~~~~ 2023-09-28T21:58:20,995 moleculekit/xtc_utils/src/xdrfile.cpp: In function ‘int decodebits(int*, int)’: 2023-09-28T21:58:20,995 moleculekit/xtc_utils/src/xdrfile.cpp:664:30: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2023-09-28T21:58:20,996 664 | if (lastbits < num_of_bits) 2023-09-28T21:58:20,996 | ~~~~~~~~~^~~~~~~~~~~~~ 2023-09-28T21:58:20,997 moleculekit/xtc_utils/src/xdrfile.cpp: In function ‘int xdrfile_decompress_coord_float(float*, int*, float*, XDRFILE*)’: 2023-09-28T21:58:20,997 moleculekit/xtc_utils/src/xdrfile.cpp:785:17: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2023-09-28T21:58:20,998 785 | if(size3>xfp->buf1size) 2023-09-28T21:58:20,999 | ~~~~~^~~~~~~~~~~~~~ 2023-09-28T21:58:20,999 moleculekit/xtc_utils/src/xdrfile.cpp:842:26: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2023-09-28T21:58:21,000 842 | maxidx = (LASTIDX= size3 ) { return -1; } 2023-09-28T21:58:21,003 | ~~~~~~~~~^~~~~~~~ 2023-09-28T21:58:21,004 moleculekit/xtc_utils/src/xdrfile.cpp:935:45: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-09-28T21:58:21,005 935 | if(countmjh >= size3 ) { return -1; } 2023-09-28T21:58:21,005 | ~~~~~~~~~^~~~~~~~ 2023-09-28T21:58:21,006 moleculekit/xtc_utils/src/xdrfile.cpp:938:45: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-09-28T21:58:21,007 938 | if(countmjh >= size3 ) { return -1; } 2023-09-28T21:58:21,007 | ~~~~~~~~~^~~~~~~~ 2023-09-28T21:58:21,008 moleculekit/xtc_utils/src/xdrfile.cpp:945:45: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-09-28T21:58:21,009 945 | if(countmjh >= size3 ) { return -1; } 2023-09-28T21:58:21,009 | ~~~~~~~~~^~~~~~~~ 2023-09-28T21:58:21,010 moleculekit/xtc_utils/src/xdrfile.cpp:948:45: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-09-28T21:58:21,011 948 | if(countmjh >= size3 ) { return -1; } 2023-09-28T21:58:21,012 | ~~~~~~~~~^~~~~~~~ 2023-09-28T21:58:21,013 moleculekit/xtc_utils/src/xdrfile.cpp:951:45: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-09-28T21:58:21,013 951 | if(countmjh >= size3 ) { return -1; } 2023-09-28T21:58:21,014 | ~~~~~~~~~^~~~~~~~ 2023-09-28T21:58:21,014 moleculekit/xtc_utils/src/xdrfile.cpp:756:24: warning: variable ‘minidx’ set but not used [-Wunused-but-set-variable] 2023-09-28T21:58:21,015 756 | int smallidx, minidx, maxidx; 2023-09-28T21:58:21,015 | ^~~~~~ 2023-09-28T21:58:21,016 moleculekit/xtc_utils/src/xdrfile.cpp:759:32: warning: variable ‘larger’ set but not used [-Wunused-but-set-variable] 2023-09-28T21:58:21,017 759 | int smallnum, smaller, larger, i, is_smaller, run; 2023-09-28T21:58:21,017 | ^~~~~~ 2023-09-28T21:58:21,018 moleculekit/xtc_utils/src/xdrfile.cpp:763:13: warning: unused variable ‘errval’ [-Wunused-variable] 2023-09-28T21:58:21,018 763 | int errval=1; 2023-09-28T21:58:21,019 | ^~~~~~ 2023-09-28T21:58:21,020 moleculekit/xtc_utils/src/xdrfile.cpp: In function ‘int xdrfile_compress_coord_float(float*, int, float, XDRFILE*)’: 2023-09-28T21:58:21,020 moleculekit/xtc_utils/src/xdrfile.cpp:1011:17: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2023-09-28T21:58:21,021 1011 | if(size3>xfp->buf1size) 2023-09-28T21:58:21,022 | ~~~~~^~~~~~~~~~~~~~ 2023-09-28T21:58:21,022 moleculekit/xtc_utils/src/xdrfile.cpp:1068:41: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-09-28T21:58:21,023 1068 | countmjh++; if( countmjh> size3) { return -1; } 2023-09-28T21:58:21,024 | ~~~~~~~~^~~~~~~ 2023-09-28T21:58:21,025 moleculekit/xtc_utils/src/xdrfile.cpp:1084:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-09-28T21:58:21,025 1084 | countmjh++; if( countmjh> size3) { return -1; } 2023-09-28T21:58:21,026 | ~~~~~~~~^~~~~~~ 2023-09-28T21:58:21,027 moleculekit/xtc_utils/src/xdrfile.cpp:1098:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-09-28T21:58:21,028 1098 | countmjh++; if( countmjh> size3) { return -1; } 2023-09-28T21:58:21,029 | ~~~~~~~~^~~~~~~ 2023-09-28T21:58:21,029 moleculekit/xtc_utils/src/xdrfile.cpp:1137:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-09-28T21:58:21,030 1137 | while (smallidx < LASTIDX && magicints[smallidx] < mindiff) 2023-09-28T21:58:21,031 | ^ 2023-09-28T21:58:21,031 moleculekit/xtc_utils/src/xdrfile.cpp:1143:26: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2023-09-28T21:58:21,032 1143 | maxidx = (LASTIDXxfp->buf1size) 2023-09-28T21:58:21,040 | ~~~~~^~~~~~~~~~~~~~ 2023-09-28T21:58:21,041 moleculekit/xtc_utils/src/xdrfile.cpp:1377:26: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2023-09-28T21:58:21,042 1377 | maxidx = (LASTIDXxfp->buf1size) { 2023-09-28T21:58:21,056 | ~~~~~^~~~~~~~~~~~~~ 2023-09-28T21:58:21,057 moleculekit/xtc_utils/src/xdrfile.cpp:1628:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-09-28T21:58:21,058 1628 | while (smallidx < LASTIDX && magicints[smallidx] < mindiff) { 2023-09-28T21:58:21,059 | ^ 2023-09-28T21:58:21,060 moleculekit/xtc_utils/src/xdrfile.cpp:1633:26: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2023-09-28T21:58:21,060 1633 | maxidx = (LASTIDX::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: 2023-09-28T21:59:47,843 /usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2023-09-28T21:59:47,844 439 | vector<_Tp, _Alloc>:: 2023-09-28T21:59:47,845 | ^~~~~~~~~~~~~~~~~~~ 2023-09-28T21:59:48,645 In file included from /usr/include/c++/12/vector:64: 2023-09-28T21:59:48,646 In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, 2023-09-28T21:59:48,647 inlined from ‘PyObject* __pyx_pf_11moleculekit_7tmalign_tmalign(PyObject*, __Pyx_memviewslice, __Pyx_memviewslice, std::string, std::string)’ at moleculekit/tmalign/tmalign_util.cpp:20812:32, 2023-09-28T21:59:48,647 inlined from ‘PyObject* __pyx_pw_11moleculekit_7tmalign_1tmalign(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’ at moleculekit/tmalign/tmalign_util.cpp:20297:52: 2023-09-28T21:59:48,648 /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 2023-09-28T21:59:48,649 1287 | _M_realloc_insert(end(), __x); 2023-09-28T21:59:48,650 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2023-09-28T21:59:48,651 In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, 2023-09-28T21:59:48,651 inlined from ‘PyObject* __pyx_pf_11moleculekit_7tmalign_tmalign(PyObject*, __Pyx_memviewslice, __Pyx_memviewslice, std::string, std::string)’ at moleculekit/tmalign/tmalign_util.cpp:20826:33, 2023-09-28T21:59:48,652 inlined from ‘PyObject* __pyx_pw_11moleculekit_7tmalign_1tmalign(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’ at moleculekit/tmalign/tmalign_util.cpp:20297:52: 2023-09-28T21:59:48,652 /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 2023-09-28T21:59:48,653 1287 | _M_realloc_insert(end(), __x); 2023-09-28T21:59:48,654 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2023-09-28T21:59:48,654 In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, 2023-09-28T21:59:48,655 inlined from ‘PyObject* __pyx_pf_11moleculekit_7tmalign_tmalign(PyObject*, __Pyx_memviewslice, __Pyx_memviewslice, std::string, std::string)’ at moleculekit/tmalign/tmalign_util.cpp:20911:34, 2023-09-28T21:59:48,656 inlined from ‘PyObject* __pyx_pw_11moleculekit_7tmalign_1tmalign(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’ at moleculekit/tmalign/tmalign_util.cpp:20297:52: 2023-09-28T21:59:48,657 /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 2023-09-28T21:59:48,657 1287 | _M_realloc_insert(end(), __x); 2023-09-28T21:59:48,658 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2023-09-28T21:59:50,997 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 2023-09-28T21:59:51,382 UPDATING build/lib.linux-armv7l-cpython-311/moleculekit/_version.py 2023-09-28T21:59:51,383 set build/lib.linux-armv7l-cpython-311/moleculekit/_version.py to '1.7.12' 2023-09-28T21:59:51,383 installing to build/bdist.linux-armv7l/wheel 2023-09-28T21:59:51,384 running install 2023-09-28T21:59:51,408 running install_lib 2023-09-28T21:59:51,414 creating build/bdist.linux-armv7l 2023-09-28T21:59:51,415 creating build/bdist.linux-armv7l/wheel 2023-09-28T21:59:51,418 creating build/bdist.linux-armv7l/wheel/moleculekit 2023-09-28T21:59:51,419 creating build/bdist.linux-armv7l/wheel/moleculekit/wrapping 2023-09-28T21:59:51,421 copying build/lib.linux-armv7l-cpython-311/moleculekit/wrapping/wrapping.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/wrapping 2023-09-28T21:59:51,423 copying build/lib.linux-armv7l-cpython-311/moleculekit/wrapping/wrapping.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/wrapping 2023-09-28T21:59:51,443 copying build/lib.linux-armv7l-cpython-311/moleculekit/viewer.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-09-28T21:59:51,446 creating build/bdist.linux-armv7l/wheel/moleculekit/interactions 2023-09-28T21:59:51,447 creating build/bdist.linux-armv7l/wheel/moleculekit/interactions/hbonds 2023-09-28T21:59:51,448 copying build/lib.linux-armv7l-cpython-311/moleculekit/interactions/hbonds/hbonds.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/interactions/hbonds 2023-09-28T21:59:51,468 copying build/lib.linux-armv7l-cpython-311/moleculekit/interactions/hbonds/hbonds.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/interactions/hbonds 2023-09-28T21:59:51,470 creating build/bdist.linux-armv7l/wheel/moleculekit/interactions/pipi 2023-09-28T21:59:51,471 copying build/lib.linux-armv7l-cpython-311/moleculekit/interactions/pipi/pipi.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/interactions/pipi 2023-09-28T21:59:51,474 copying build/lib.linux-armv7l-cpython-311/moleculekit/interactions/pipi/pipi.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/interactions/pipi 2023-09-28T21:59:51,493 copying build/lib.linux-armv7l-cpython-311/moleculekit/interactions/cationpi.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit/interactions 2023-09-28T21:59:51,515 copying build/lib.linux-armv7l-cpython-311/moleculekit/interactions/pipi.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit/interactions 2023-09-28T21:59:51,537 copying build/lib.linux-armv7l-cpython-311/moleculekit/interactions/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/interactions 2023-09-28T21:59:51,539 copying build/lib.linux-armv7l-cpython-311/moleculekit/interactions/sigmahole.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit/interactions 2023-09-28T21:59:51,564 copying build/lib.linux-armv7l-cpython-311/moleculekit/interactions/hbonds.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit/interactions 2023-09-28T21:59:51,588 creating build/bdist.linux-armv7l/wheel/moleculekit/interactions/sigmahole 2023-09-28T21:59:51,590 copying build/lib.linux-armv7l-cpython-311/moleculekit/interactions/sigmahole/sigmahole.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/interactions/sigmahole 2023-09-28T21:59:51,592 copying build/lib.linux-armv7l-cpython-311/moleculekit/interactions/sigmahole/sigmahole.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/interactions/sigmahole 2023-09-28T21:59:51,617 copying build/lib.linux-armv7l-cpython-311/moleculekit/interactions/interactions.py -> build/bdist.linux-armv7l/wheel/moleculekit/interactions 2023-09-28T21:59:51,620 creating build/bdist.linux-armv7l/wheel/moleculekit/interactions/cationpi 2023-09-28T21:59:51,621 copying build/lib.linux-armv7l-cpython-311/moleculekit/interactions/cationpi/cationpi.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/interactions/cationpi 2023-09-28T21:59:51,639 copying build/lib.linux-armv7l-cpython-311/moleculekit/interactions/cationpi/cationpi.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/interactions/cationpi 2023-09-28T21:59:51,643 creating build/bdist.linux-armv7l/wheel/moleculekit/projections 2023-09-28T21:59:51,645 copying build/lib.linux-armv7l-cpython-311/moleculekit/projections/metricdistance.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2023-09-28T21:59:51,648 copying build/lib.linux-armv7l-cpython-311/moleculekit/projections/metriccoordinate.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2023-09-28T21:59:51,651 copying build/lib.linux-armv7l-cpython-311/moleculekit/projections/metricsasa.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2023-09-28T21:59:51,653 copying build/lib.linux-armv7l-cpython-311/moleculekit/projections/metricrmsd.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2023-09-28T21:59:51,656 copying build/lib.linux-armv7l-cpython-311/moleculekit/projections/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2023-09-28T21:59:51,658 copying build/lib.linux-armv7l-cpython-311/moleculekit/projections/metricfluctuation.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2023-09-28T21:59:51,661 copying build/lib.linux-armv7l-cpython-311/moleculekit/projections/metricshell.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2023-09-28T21:59:51,664 copying build/lib.linux-armv7l-cpython-311/moleculekit/projections/projection.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2023-09-28T21:59:51,666 copying build/lib.linux-armv7l-cpython-311/moleculekit/projections/metricsphericalcoordinate.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2023-09-28T21:59:51,669 copying build/lib.linux-armv7l-cpython-311/moleculekit/projections/metricdihedral.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2023-09-28T21:59:51,672 copying build/lib.linux-armv7l-cpython-311/moleculekit/projections/metricsecondarystructure.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2023-09-28T21:59:51,675 copying build/lib.linux-armv7l-cpython-311/moleculekit/projections/metricplumed2.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2023-09-28T21:59:51,678 copying build/lib.linux-armv7l-cpython-311/moleculekit/projections/util.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2023-09-28T21:59:51,680 copying build/lib.linux-armv7l-cpython-311/moleculekit/projections/metrictmscore.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2023-09-28T21:59:51,682 copying build/lib.linux-armv7l-cpython-311/moleculekit/projections/metricgyration.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2023-09-28T21:59:51,685 copying build/lib.linux-armv7l-cpython-311/moleculekit/align.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-09-28T21:59:51,687 creating build/bdist.linux-armv7l/wheel/moleculekit/ply 2023-09-28T21:59:51,688 copying build/lib.linux-armv7l-cpython-311/moleculekit/ply/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/ply 2023-09-28T21:59:51,690 copying build/lib.linux-armv7l-cpython-311/moleculekit/ply/yacc.py -> build/bdist.linux-armv7l/wheel/moleculekit/ply 2023-09-28T21:59:51,694 copying build/lib.linux-armv7l-cpython-311/moleculekit/ply/lex.py -> build/bdist.linux-armv7l/wheel/moleculekit/ply 2023-09-28T21:59:51,697 copying build/lib.linux-armv7l-cpython-311/moleculekit/distance.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-09-28T21:59:51,699 copying build/lib.linux-armv7l-cpython-311/moleculekit/version.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-09-28T21:59:51,701 creating build/bdist.linux-armv7l/wheel/moleculekit/pdbx 2023-09-28T21:59:51,702 creating build/bdist.linux-armv7l/wheel/moleculekit/pdbx/tests 2023-09-28T21:59:51,703 copying build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/tests/PdbxWriterTests.py -> build/bdist.linux-armv7l/wheel/moleculekit/pdbx/tests 2023-09-28T21:59:51,706 copying build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/tests/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/pdbx/tests 2023-09-28T21:59:51,707 copying build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/tests/PdbxReadWriteTests.py -> build/bdist.linux-armv7l/wheel/moleculekit/pdbx/tests 2023-09-28T21:59:51,709 copying build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/tests/PdbxReaderTests.py -> build/bdist.linux-armv7l/wheel/moleculekit/pdbx/tests 2023-09-28T21:59:51,712 creating build/bdist.linux-armv7l/wheel/moleculekit/pdbx/reader 2023-09-28T21:59:51,713 copying build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/reader/PdbxReader.py -> build/bdist.linux-armv7l/wheel/moleculekit/pdbx/reader 2023-09-28T21:59:51,716 copying build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/reader/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/pdbx/reader 2023-09-28T21:59:51,717 copying build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/reader/PdbxParser.py -> build/bdist.linux-armv7l/wheel/moleculekit/pdbx/reader 2023-09-28T21:59:51,720 copying build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/reader/PdbxContainers.py -> build/bdist.linux-armv7l/wheel/moleculekit/pdbx/reader 2023-09-28T21:59:51,723 copying build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/pdbx 2023-09-28T21:59:51,725 creating build/bdist.linux-armv7l/wheel/moleculekit/pdbx/writer 2023-09-28T21:59:51,726 copying build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/writer/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/pdbx/writer 2023-09-28T21:59:51,728 copying build/lib.linux-armv7l-cpython-311/moleculekit/pdbx/writer/PdbxWriter.py -> build/bdist.linux-armv7l/wheel/moleculekit/pdbx/writer 2023-09-28T21:59:51,730 copying build/lib.linux-armv7l-cpython-311/moleculekit/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-09-28T21:59:51,732 copying build/lib.linux-armv7l-cpython-311/moleculekit/_version.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-09-28T21:59:51,735 creating build/bdist.linux-armv7l/wheel/moleculekit/smallmol 2023-09-28T21:59:51,735 copying build/lib.linux-armv7l-cpython-311/moleculekit/smallmol/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/smallmol 2023-09-28T21:59:51,738 copying build/lib.linux-armv7l-cpython-311/moleculekit/smallmol/test_smallmollib.py -> build/bdist.linux-armv7l/wheel/moleculekit/smallmol 2023-09-28T21:59:51,740 copying build/lib.linux-armv7l-cpython-311/moleculekit/smallmol/test_smallmol.py -> build/bdist.linux-armv7l/wheel/moleculekit/smallmol 2023-09-28T21:59:51,742 copying build/lib.linux-armv7l-cpython-311/moleculekit/smallmol/smallmol.py -> build/bdist.linux-armv7l/wheel/moleculekit/smallmol 2023-09-28T21:59:51,745 copying build/lib.linux-armv7l-cpython-311/moleculekit/smallmol/smallmollib.py -> build/bdist.linux-armv7l/wheel/moleculekit/smallmol 2023-09-28T21:59:51,748 copying build/lib.linux-armv7l-cpython-311/moleculekit/smallmol/util.py -> build/bdist.linux-armv7l/wheel/moleculekit/smallmol 2023-09-28T21:59:51,751 creating build/bdist.linux-armv7l/wheel/moleculekit/smallmol/tools 2023-09-28T21:59:51,752 copying build/lib.linux-armv7l-cpython-311/moleculekit/smallmol/tools/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/smallmol/tools 2023-09-28T21:59:51,754 copying build/lib.linux-armv7l-cpython-311/moleculekit/smallmol/tools/test_tools.py -> build/bdist.linux-armv7l/wheel/moleculekit/smallmol/tools 2023-09-28T21:59:51,756 copying build/lib.linux-armv7l-cpython-311/moleculekit/smallmol/tools/restrainedembed.py -> build/bdist.linux-armv7l/wheel/moleculekit/smallmol/tools 2023-09-28T21:59:51,758 copying build/lib.linux-armv7l-cpython-311/moleculekit/smallmol/tools/clustering.py -> build/bdist.linux-armv7l/wheel/moleculekit/smallmol/tools 2023-09-28T21:59:51,760 copying build/lib.linux-armv7l-cpython-311/moleculekit/dihedral.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-09-28T21:59:51,762 copying build/lib.linux-armv7l-cpython-311/moleculekit/vmdgraphics.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-09-28T21:59:51,765 copying build/lib.linux-armv7l-cpython-311/moleculekit/writers.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-09-28T21:59:51,768 copying build/lib.linux-armv7l-cpython-311/moleculekit/tmalign.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit 2023-09-28T21:59:51,813 copying build/lib.linux-armv7l-cpython-311/moleculekit/rcsb.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-09-28T21:59:51,815 copying build/lib.linux-armv7l-cpython-311/moleculekit/distance_utils.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit 2023-09-28T21:59:51,837 creating build/bdist.linux-armv7l/wheel/moleculekit/bondguesser_utils 2023-09-28T21:59:51,838 copying build/lib.linux-armv7l-cpython-311/moleculekit/bondguesser_utils/bondguesser_utils.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/bondguesser_utils 2023-09-28T21:59:51,840 copying build/lib.linux-armv7l-cpython-311/moleculekit/bondguesser_utils/bondguesser_utils.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/bondguesser_utils 2023-09-28T21:59:51,862 copying build/lib.linux-armv7l-cpython-311/moleculekit/bondguesser_utils.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit 2023-09-28T21:59:51,881 creating build/bdist.linux-armv7l/wheel/moleculekit/atomselect_utils 2023-09-28T21:59:51,882 copying build/lib.linux-armv7l-cpython-311/moleculekit/atomselect_utils/atomselect_utils.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/atomselect_utils 2023-09-28T21:59:51,905 copying build/lib.linux-armv7l-cpython-311/moleculekit/atomselect_utils/atomselect_utils.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/atomselect_utils 2023-09-28T21:59:51,908 copying build/lib.linux-armv7l-cpython-311/moleculekit/xtc.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit 2023-09-28T21:59:51,927 copying build/lib.linux-armv7l-cpython-311/moleculekit/vmdviewer.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-09-28T21:59:51,929 copying build/lib.linux-armv7l-cpython-311/moleculekit/logging.ini -> build/bdist.linux-armv7l/wheel/moleculekit 2023-09-28T21:59:51,931 copying build/lib.linux-armv7l-cpython-311/moleculekit/opm.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-09-28T21:59:51,933 copying build/lib.linux-armv7l-cpython-311/moleculekit/wrapping.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit 2023-09-28T21:59:51,953 copying build/lib.linux-armv7l-cpython-311/moleculekit/bondguesser.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-09-28T21:59:51,955 creating build/bdist.linux-armv7l/wheel/moleculekit/tmalign 2023-09-28T21:59:51,957 creating build/bdist.linux-armv7l/wheel/moleculekit/tmalign/src 2023-09-28T21:59:51,958 copying build/lib.linux-armv7l-cpython-311/moleculekit/tmalign/src/TMAlign.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/tmalign/src 2023-09-28T21:59:51,963 copying build/lib.linux-armv7l-cpython-311/moleculekit/tmalign/tmalign_util.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/tmalign 2023-09-28T21:59:51,966 copying build/lib.linux-armv7l-cpython-311/moleculekit/tmalign/tmalignlib.pxd -> build/bdist.linux-armv7l/wheel/moleculekit/tmalign 2023-09-28T21:59:51,967 copying build/lib.linux-armv7l-cpython-311/moleculekit/tmalign/tmalign_util.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/tmalign 2023-09-28T21:59:51,987 creating build/bdist.linux-armv7l/wheel/moleculekit/tmalign/include 2023-09-28T21:59:51,988 copying build/lib.linux-armv7l-cpython-311/moleculekit/tmalign/include/TMAlign.h -> build/bdist.linux-armv7l/wheel/moleculekit/tmalign/include 2023-09-28T21:59:51,990 creating build/bdist.linux-armv7l/wheel/moleculekit/xtc_utils 2023-09-28T21:59:51,991 creating build/bdist.linux-armv7l/wheel/moleculekit/xtc_utils/src 2023-09-28T21:59:51,993 copying build/lib.linux-armv7l-cpython-311/moleculekit/xtc_utils/src/xdrfile_xtc.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/xtc_utils/src 2023-09-28T21:59:51,995 copying build/lib.linux-armv7l-cpython-311/moleculekit/xtc_utils/src/xdrfile.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/xtc_utils/src 2023-09-28T21:59:51,998 copying build/lib.linux-armv7l-cpython-311/moleculekit/xtc_utils/src/xtc.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/xtc_utils/src 2023-09-28T21:59:52,001 copying build/lib.linux-armv7l-cpython-311/moleculekit/xtc_utils/xtclib.pxd -> build/bdist.linux-armv7l/wheel/moleculekit/xtc_utils 2023-09-28T21:59:52,002 copying build/lib.linux-armv7l-cpython-311/moleculekit/xtc_utils/xtc.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/xtc_utils 2023-09-28T21:59:52,004 copying build/lib.linux-armv7l-cpython-311/moleculekit/xtc_utils/xtc.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/xtc_utils 2023-09-28T21:59:52,025 creating build/bdist.linux-armv7l/wheel/moleculekit/xtc_utils/include 2023-09-28T21:59:52,026 copying build/lib.linux-armv7l-cpython-311/moleculekit/xtc_utils/include/xdrfile.h -> build/bdist.linux-armv7l/wheel/moleculekit/xtc_utils/include 2023-09-28T21:59:52,030 copying build/lib.linux-armv7l-cpython-311/moleculekit/xtc_utils/include/xdrfile_xtc.h -> build/bdist.linux-armv7l/wheel/moleculekit/xtc_utils/include 2023-09-28T21:59:52,032 copying build/lib.linux-armv7l-cpython-311/moleculekit/xtc_utils/include/xtc.h -> build/bdist.linux-armv7l/wheel/moleculekit/xtc_utils/include 2023-09-28T21:59:52,035 creating build/bdist.linux-armv7l/wheel/moleculekit/atomselect 2023-09-28T21:59:52,035 copying build/lib.linux-armv7l-cpython-311/moleculekit/atomselect/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/atomselect 2023-09-28T21:59:52,037 copying build/lib.linux-armv7l-cpython-311/moleculekit/atomselect/analyze.py -> build/bdist.linux-armv7l/wheel/moleculekit/atomselect 2023-09-28T21:59:52,040 copying build/lib.linux-armv7l-cpython-311/moleculekit/atomselect/languageparser.py -> build/bdist.linux-armv7l/wheel/moleculekit/atomselect 2023-09-28T21:59:52,042 copying build/lib.linux-armv7l-cpython-311/moleculekit/atomselect/atomselect.py -> build/bdist.linux-armv7l/wheel/moleculekit/atomselect 2023-09-28T21:59:52,045 creating build/bdist.linux-armv7l/wheel/moleculekit/share 2023-09-28T21:59:52,046 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/ALA.cif -> build/bdist.linux-armv7l/wheel/moleculekit/share 2023-09-28T21:59:52,049 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/backbone.cif -> build/bdist.linux-armv7l/wheel/moleculekit/share 2023-09-28T21:59:52,051 creating build/bdist.linux-armv7l/wheel/moleculekit/share/atomselect 2023-09-28T21:59:52,052 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/atomselect/atomselect.json -> build/bdist.linux-armv7l/wheel/moleculekit/share/atomselect 2023-09-28T21:59:52,055 creating build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr 2023-09-28T21:59:52,058 creating build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,059 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/.gitkeep -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,061 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/HHK.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,063 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/DA2.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,065 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/2MR.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,067 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/0A1.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,069 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MMO.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,071 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MMO.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,072 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/IIL.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,074 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/CGU.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,076 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/TY2.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,078 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/YCM.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,080 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/ONL.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,082 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MEA.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,084 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/2AS.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,085 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/2GX.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,087 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/BTK.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,089 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/CSS.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,091 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/ME0.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,093 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/NZC.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,095 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/DPP.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,096 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/TY2.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,098 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/ESC.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,100 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/NCY.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,102 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/LYZ.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,104 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/0AF.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,106 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/0BN.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,108 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MLZ.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,110 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/TPO.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,111 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/DAH.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,113 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/CSO.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,116 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/CCS.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,118 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/IIL.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,120 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/PCA.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,122 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/CCS.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,123 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/NAL.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,125 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/DAB.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,127 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/GHG.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,129 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/GME.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,130 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/4PH.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,132 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/CSP.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,134 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/ABA.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,136 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/HHK.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,138 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/4PQ.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,140 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/03Y.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,142 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/HYP.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,144 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/GHG.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,146 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/GNC.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,148 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/APD.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,150 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/PTR.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,152 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/M3L.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,154 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/HTR.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,156 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/CGU.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,157 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MVA.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,159 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MME.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,161 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/NVA.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,164 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/DAB.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,165 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/03Y.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,167 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/HLX.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,169 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/2GX.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,171 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/NVA.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,173 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/AA4.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,175 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/HYP.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,176 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/ALN.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,178 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/0AF.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,180 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/ONL.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,182 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/004.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,184 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/FGL.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,186 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/GME.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,188 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/BB8.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,189 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/GNC.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,191 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/LMQ.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,193 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/NLE.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,195 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/AHP.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,197 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/4IN.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,198 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/AHP.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,200 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/FGL.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,202 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/OMX.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,203 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/LYZ.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,205 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/4PQ.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,207 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MEQ.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,209 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/5JP.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,211 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/NCY.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,213 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/DPP.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,214 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/TRO.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,216 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/YCM.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,218 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/CSO.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,220 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/P1L.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,222 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/M3L.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,224 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/PTR.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,226 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/SEP.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,228 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/0A1.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,230 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/1MH.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,232 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/ABA.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,234 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/ALY.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,235 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/CSA.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,237 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/IGL.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,239 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/KYN.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,240 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MLE.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,242 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/TRO.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,244 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MEN.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,246 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MLY.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,248 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MME.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,250 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/DA2.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,252 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/HQA.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,254 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/CSS.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,255 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/I2M.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,257 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/CSA.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,259 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/ESC.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,261 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/YNM.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,262 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/LME.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,264 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/ALC.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,266 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/CSP.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,268 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/1MH.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,270 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/HPE.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,272 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/004.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,274 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MEN.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,276 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/TYQ.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,278 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/IGL.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,279 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/HLU.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,281 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/ORM.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,283 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MLY.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,285 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/I2M.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,287 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/PCA.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,289 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/HPE.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,290 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/BCS.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,292 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/TYQ.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,294 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/ME0.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,295 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/2AS.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,297 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/AA4.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,299 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/ORM.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,301 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MLE.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,303 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/HOX.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,305 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MEQ.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,307 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/LMQ.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,309 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/D4P.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,310 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/HLX.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,313 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/0BN.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,315 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/P1L.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,317 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/SEP.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:52,318 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/2MR.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:53,233 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/TPO.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:53,695 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/NLE.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:53,881 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/ALC.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:53,944 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/PRK.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:54,054 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/2ML.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:54,062 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/IML.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:54,071 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/IML.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:54,078 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/APD.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:54,089 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MVA.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:54,097 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/BB8.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:54,104 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/OCY.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:54,110 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/ALN.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:54,114 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/OCY.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:54,118 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/4PH.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:54,122 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/HQA.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:54,126 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/4IN.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:54,131 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MLZ.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:54,135 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/2ML.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:54,143 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/HTR.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:54,147 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/ALY.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:54,151 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/MEA.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:54,155 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/D4P.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:54,158 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/NZC.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:54,161 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/NAL.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:54,163 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/HLU.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:54,165 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/KYN.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:54,167 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/HOX.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:54,169 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/PRK.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:54,171 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/DAH.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:54,174 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/BCS.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:54,176 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/BTK.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:54,178 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/LME.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:54,180 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/OMX.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:54,182 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/YNM.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:54,184 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/pdb2pqr/residues/5JP.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-09-28T21:59:54,186 copying build/lib.linux-armv7l-cpython-311/moleculekit/share/opm_sequences.json -> build/bdist.linux-armv7l/wheel/moleculekit/share 2023-09-28T21:59:55,236 copying build/lib.linux-armv7l-cpython-311/moleculekit/pymolgraphics.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-09-28T21:59:55,241 creating build/bdist.linux-armv7l/wheel/moleculekit/distance_utils 2023-09-28T21:59:55,243 copying build/lib.linux-armv7l-cpython-311/moleculekit/distance_utils/distance_utils.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/distance_utils 2023-09-28T21:59:55,290 copying build/lib.linux-armv7l-cpython-311/moleculekit/distance_utils/distance_utils.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/distance_utils 2023-09-28T21:59:55,294 copying build/lib.linux-armv7l-cpython-311/moleculekit/config.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-09-28T21:59:55,297 copying build/lib.linux-armv7l-cpython-311/moleculekit/atomselect_utils.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit 2023-09-28T21:59:55,332 copying build/lib.linux-armv7l-cpython-311/moleculekit/util.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-09-28T21:59:55,335 copying build/lib.linux-armv7l-cpython-311/moleculekit/vmd_wrapper -> build/bdist.linux-armv7l/wheel/moleculekit 2023-09-28T21:59:55,338 creating build/bdist.linux-armv7l/wheel/moleculekit/occupancy_utils 2023-09-28T21:59:55,339 copying build/lib.linux-armv7l-cpython-311/moleculekit/occupancy_utils/occupancy_utils.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/occupancy_utils 2023-09-28T21:59:55,360 copying build/lib.linux-armv7l-cpython-311/moleculekit/occupancy_utils/occupancy_utils.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/occupancy_utils 2023-09-28T21:59:55,363 copying build/lib.linux-armv7l-cpython-311/moleculekit/readers.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-09-28T21:59:55,367 copying build/lib.linux-armv7l-cpython-311/moleculekit/rdkitintegration.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-09-28T21:59:55,370 creating build/bdist.linux-armv7l/wheel/moleculekit/tools 2023-09-28T21:59:55,371 copying build/lib.linux-armv7l-cpython-311/moleculekit/tools/docking.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2023-09-28T21:59:55,373 copying build/lib.linux-armv7l-cpython-311/moleculekit/tools/graphalignment.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2023-09-28T21:59:55,376 copying build/lib.linux-armv7l-cpython-311/moleculekit/tools/detect.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2023-09-28T21:59:55,378 copying build/lib.linux-armv7l-cpython-311/moleculekit/tools/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2023-09-28T21:59:55,380 copying build/lib.linux-armv7l-cpython-311/moleculekit/tools/preparation_customres.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2023-09-28T21:59:55,383 copying build/lib.linux-armv7l-cpython-311/moleculekit/tools/moleculechecks.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2023-09-28T21:59:55,385 copying build/lib.linux-armv7l-cpython-311/moleculekit/tools/voxeldescriptors.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2023-09-28T21:59:55,388 copying build/lib.linux-armv7l-cpython-311/moleculekit/tools/sequencestructuralalignment.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2023-09-28T21:59:55,391 copying build/lib.linux-armv7l-cpython-311/moleculekit/tools/crystalpacking.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2023-09-28T21:59:55,393 copying build/lib.linux-armv7l-cpython-311/moleculekit/tools/hhblitsprofile.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2023-09-28T21:59:55,395 copying build/lib.linux-armv7l-cpython-311/moleculekit/tools/autosegment.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2023-09-28T21:59:55,398 creating build/bdist.linux-armv7l/wheel/moleculekit/tools/obabel_tools 2023-09-28T21:59:55,399 copying build/lib.linux-armv7l-cpython-311/moleculekit/tools/obabel_tools/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools/obabel_tools 2023-09-28T21:59:55,401 copying build/lib.linux-armv7l-cpython-311/moleculekit/tools/obabel_tools/obabel_cli.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools/obabel_tools 2023-09-28T21:59:55,404 copying build/lib.linux-armv7l-cpython-311/moleculekit/tools/atomtyper.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2023-09-28T21:59:55,406 copying build/lib.linux-armv7l-cpython-311/moleculekit/tools/preparation.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2023-09-28T21:59:55,410 copying build/lib.linux-armv7l-cpython-311/moleculekit/periodictable.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-09-28T21:59:55,413 copying build/lib.linux-armv7l-cpython-311/moleculekit/occupancy_utils.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit 2023-09-28T21:59:55,435 copying build/lib.linux-armv7l-cpython-311/moleculekit/molecule.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-09-28T21:59:55,440 copying build/lib.linux-armv7l-cpython-311/moleculekit/home.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-09-28T21:59:55,443 running install_egg_info 2023-09-28T21:59:55,449 Copying moleculekit.egg-info to build/bdist.linux-armv7l/wheel/moleculekit-1.7.12-py3.11.egg-info 2023-09-28T21:59:55,463 running install_scripts 2023-09-28T21:59:55,515 creating build/bdist.linux-armv7l/wheel/moleculekit-1.7.12.dist-info/WHEEL 2023-09-28T21:59:55,518 creating '/tmp/pip-wheel-9juz4l0x/.tmp-bcvaiye9/moleculekit-1.7.12-cp311-cp311-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2023-09-28T21:59:55,521 adding 'moleculekit/__init__.py' 2023-09-28T21:59:55,523 adding 'moleculekit/_version.py' 2023-09-28T21:59:55,525 adding 'moleculekit/align.py' 2023-09-28T21:59:55,855 adding 'moleculekit/atomselect_utils.cpython-311-arm-linux-gnueabihf.so' 2023-09-28T21:59:55,870 adding 'moleculekit/bondguesser.py' 2023-09-28T21:59:56,119 adding 'moleculekit/bondguesser_utils.cpython-311-arm-linux-gnueabihf.so' 2023-09-28T21:59:56,130 adding 'moleculekit/config.py' 2023-09-28T21:59:56,132 adding 'moleculekit/dihedral.py' 2023-09-28T21:59:56,134 adding 'moleculekit/distance.py' 2023-09-28T21:59:56,439 adding 'moleculekit/distance_utils.cpython-311-arm-linux-gnueabihf.so' 2023-09-28T21:59:56,452 adding 'moleculekit/home.py' 2023-09-28T21:59:56,454 adding 'moleculekit/logging.ini' 2023-09-28T21:59:56,467 adding 'moleculekit/molecule.py' 2023-09-28T21:59:56,699 adding 'moleculekit/occupancy_utils.cpython-311-arm-linux-gnueabihf.so' 2023-09-28T21:59:56,710 adding 'moleculekit/opm.py' 2023-09-28T21:59:56,713 adding 'moleculekit/periodictable.py' 2023-09-28T21:59:56,714 adding 'moleculekit/pymolgraphics.py' 2023-09-28T21:59:56,716 adding 'moleculekit/rcsb.py' 2023-09-28T21:59:56,718 adding 'moleculekit/rdkitintegration.py' 2023-09-28T21:59:56,730 adding 'moleculekit/readers.py' 2023-09-28T21:59:57,336 adding 'moleculekit/tmalign.cpython-311-arm-linux-gnueabihf.so' 2023-09-28T21:59:57,363 adding 'moleculekit/util.py' 2023-09-28T21:59:57,365 adding 'moleculekit/version.py' 2023-09-28T21:59:57,367 adding 'moleculekit/viewer.py' 2023-09-28T21:59:57,368 adding 'moleculekit/vmd_wrapper' 2023-09-28T21:59:57,371 adding 'moleculekit/vmdgraphics.py' 2023-09-28T21:59:57,373 adding 'moleculekit/vmdviewer.py' 2023-09-28T21:59:57,615 adding 'moleculekit/wrapping.cpython-311-arm-linux-gnueabihf.so' 2023-09-28T21:59:57,630 adding 'moleculekit/writers.py' 2023-09-28T21:59:57,894 adding 'moleculekit/xtc.cpython-311-arm-linux-gnueabihf.so' 2023-09-28T21:59:57,905 adding 'moleculekit/atomselect/__init__.py' 2023-09-28T21:59:57,907 adding 'moleculekit/atomselect/analyze.py' 2023-09-28T21:59:57,910 adding 'moleculekit/atomselect/atomselect.py' 2023-09-28T21:59:57,912 adding 'moleculekit/atomselect/languageparser.py' 2023-09-28T21:59:58,017 adding 'moleculekit/atomselect_utils/atomselect_utils.cpp' 2023-09-28T21:59:58,031 adding 'moleculekit/atomselect_utils/atomselect_utils.pyx' 2023-09-28T21:59:58,123 adding 'moleculekit/bondguesser_utils/bondguesser_utils.cpp' 2023-09-28T21:59:58,134 adding 'moleculekit/bondguesser_utils/bondguesser_utils.pyx' 2023-09-28T21:59:58,233 adding 'moleculekit/distance_utils/distance_utils.cpp' 2023-09-28T21:59:58,246 adding 'moleculekit/distance_utils/distance_utils.pyx' 2023-09-28T21:59:58,248 adding 'moleculekit/interactions/__init__.py' 2023-09-28T21:59:58,532 adding 'moleculekit/interactions/cationpi.cpython-311-arm-linux-gnueabihf.so' 2023-09-28T21:59:58,806 adding 'moleculekit/interactions/hbonds.cpython-311-arm-linux-gnueabihf.so' 2023-09-28T21:59:58,819 adding 'moleculekit/interactions/interactions.py' 2023-09-28T21:59:59,099 adding 'moleculekit/interactions/pipi.cpython-311-arm-linux-gnueabihf.so' 2023-09-28T21:59:59,390 adding 'moleculekit/interactions/sigmahole.cpython-311-arm-linux-gnueabihf.so' 2023-09-28T21:59:59,493 adding 'moleculekit/interactions/cationpi/cationpi.cpp' 2023-09-28T21:59:59,505 adding 'moleculekit/interactions/cationpi/cationpi.pyx' 2023-09-28T21:59:59,596 adding 'moleculekit/interactions/hbonds/hbonds.cpp' 2023-09-28T21:59:59,608 adding 'moleculekit/interactions/hbonds/hbonds.pyx' 2023-09-28T21:59:59,701 adding 'moleculekit/interactions/pipi/pipi.cpp' 2023-09-28T21:59:59,713 adding 'moleculekit/interactions/pipi/pipi.pyx' 2023-09-28T21:59:59,805 adding 'moleculekit/interactions/sigmahole/sigmahole.cpp' 2023-09-28T21:59:59,817 adding 'moleculekit/interactions/sigmahole/sigmahole.pyx' 2023-09-28T21:59:59,906 adding 'moleculekit/occupancy_utils/occupancy_utils.cpp' 2023-09-28T21:59:59,917 adding 'moleculekit/occupancy_utils/occupancy_utils.pyx' 2023-09-28T21:59:59,919 adding 'moleculekit/pdbx/__init__.py' 2023-09-28T21:59:59,923 adding 'moleculekit/pdbx/reader/PdbxContainers.py' 2023-09-28T21:59:59,926 adding 'moleculekit/pdbx/reader/PdbxParser.py' 2023-09-28T21:59:59,929 adding 'moleculekit/pdbx/reader/PdbxReader.py' 2023-09-28T21:59:59,931 adding 'moleculekit/pdbx/reader/__init__.py' 2023-09-28T21:59:59,933 adding 'moleculekit/pdbx/tests/PdbxReadWriteTests.py' 2023-09-28T21:59:59,935 adding 'moleculekit/pdbx/tests/PdbxReaderTests.py' 2023-09-28T21:59:59,937 adding 'moleculekit/pdbx/tests/PdbxWriterTests.py' 2023-09-28T21:59:59,938 adding 'moleculekit/pdbx/tests/__init__.py' 2023-09-28T21:59:59,940 adding 'moleculekit/pdbx/writer/PdbxWriter.py' 2023-09-28T21:59:59,942 adding 'moleculekit/pdbx/writer/__init__.py' 2023-09-28T21:59:59,943 adding 'moleculekit/ply/__init__.py' 2023-09-28T21:59:59,947 adding 'moleculekit/ply/lex.py' 2023-09-28T21:59:59,959 adding 'moleculekit/ply/yacc.py' 2023-09-28T21:59:59,961 adding 'moleculekit/projections/__init__.py' 2023-09-28T21:59:59,963 adding 'moleculekit/projections/metriccoordinate.py' 2023-09-28T21:59:59,967 adding 'moleculekit/projections/metricdihedral.py' 2023-09-28T21:59:59,971 adding 'moleculekit/projections/metricdistance.py' 2023-09-28T21:59:59,973 adding 'moleculekit/projections/metricfluctuation.py' 2023-09-28T21:59:59,974 adding 'moleculekit/projections/metricgyration.py' 2023-09-28T21:59:59,978 adding 'moleculekit/projections/metricplumed2.py' 2023-09-28T21:59:59,980 adding 'moleculekit/projections/metricrmsd.py' 2023-09-28T21:59:59,982 adding 'moleculekit/projections/metricsasa.py' 2023-09-28T21:59:59,984 adding 'moleculekit/projections/metricsecondarystructure.py' 2023-09-28T21:59:59,985 adding 'moleculekit/projections/metricshell.py' 2023-09-28T21:59:59,987 adding 'moleculekit/projections/metricsphericalcoordinate.py' 2023-09-28T21:59:59,988 adding 'moleculekit/projections/metrictmscore.py' 2023-09-28T21:59:59,990 adding 'moleculekit/projections/projection.py' 2023-09-28T21:59:59,991 adding 'moleculekit/projections/util.py' 2023-09-28T21:59:59,993 adding 'moleculekit/share/ALA.cif' 2023-09-28T21:59:59,995 adding 'moleculekit/share/backbone.cif' 2023-09-28T22:00:01,298 adding 'moleculekit/share/opm_sequences.json' 2023-09-28T22:00:01,628 adding 'moleculekit/share/atomselect/atomselect.json' 2023-09-28T22:00:01,840 adding 'moleculekit/share/pdb2pqr/residues/.gitkeep' 2023-09-28T22:00:01,842 adding 'moleculekit/share/pdb2pqr/residues/004.dat' 2023-09-28T22:00:01,845 adding 'moleculekit/share/pdb2pqr/residues/004.xml' 2023-09-28T22:00:01,847 adding 'moleculekit/share/pdb2pqr/residues/03Y.dat' 2023-09-28T22:00:01,848 adding 'moleculekit/share/pdb2pqr/residues/03Y.xml' 2023-09-28T22:00:01,850 adding 'moleculekit/share/pdb2pqr/residues/0A1.dat' 2023-09-28T22:00:01,852 adding 'moleculekit/share/pdb2pqr/residues/0A1.xml' 2023-09-28T22:00:01,853 adding 'moleculekit/share/pdb2pqr/residues/0AF.dat' 2023-09-28T22:00:01,854 adding 'moleculekit/share/pdb2pqr/residues/0AF.xml' 2023-09-28T22:00:01,856 adding 'moleculekit/share/pdb2pqr/residues/0BN.dat' 2023-09-28T22:00:01,857 adding 'moleculekit/share/pdb2pqr/residues/0BN.xml' 2023-09-28T22:00:01,859 adding 'moleculekit/share/pdb2pqr/residues/1MH.dat' 2023-09-28T22:00:01,861 adding 'moleculekit/share/pdb2pqr/residues/1MH.xml' 2023-09-28T22:00:01,862 adding 'moleculekit/share/pdb2pqr/residues/2AS.dat' 2023-09-28T22:00:01,863 adding 'moleculekit/share/pdb2pqr/residues/2AS.xml' 2023-09-28T22:00:01,865 adding 'moleculekit/share/pdb2pqr/residues/2GX.dat' 2023-09-28T22:00:01,866 adding 'moleculekit/share/pdb2pqr/residues/2GX.xml' 2023-09-28T22:00:01,869 adding 'moleculekit/share/pdb2pqr/residues/2ML.dat' 2023-09-28T22:00:01,872 adding 'moleculekit/share/pdb2pqr/residues/2ML.xml' 2023-09-28T22:00:01,875 adding 'moleculekit/share/pdb2pqr/residues/2MR.dat' 2023-09-28T22:00:01,878 adding 'moleculekit/share/pdb2pqr/residues/2MR.xml' 2023-09-28T22:00:01,879 adding 'moleculekit/share/pdb2pqr/residues/4IN.dat' 2023-09-28T22:00:01,881 adding 'moleculekit/share/pdb2pqr/residues/4IN.xml' 2023-09-28T22:00:01,883 adding 'moleculekit/share/pdb2pqr/residues/4PH.dat' 2023-09-28T22:00:01,886 adding 'moleculekit/share/pdb2pqr/residues/4PH.xml' 2023-09-28T22:00:01,887 adding 'moleculekit/share/pdb2pqr/residues/4PQ.dat' 2023-09-28T22:00:01,890 adding 'moleculekit/share/pdb2pqr/residues/4PQ.xml' 2023-09-28T22:00:01,891 adding 'moleculekit/share/pdb2pqr/residues/5JP.dat' 2023-09-28T22:00:01,894 adding 'moleculekit/share/pdb2pqr/residues/5JP.xml' 2023-09-28T22:00:01,896 adding 'moleculekit/share/pdb2pqr/residues/AA4.dat' 2023-09-28T22:00:01,899 adding 'moleculekit/share/pdb2pqr/residues/AA4.xml' 2023-09-28T22:00:01,901 adding 'moleculekit/share/pdb2pqr/residues/ABA.dat' 2023-09-28T22:00:01,903 adding 'moleculekit/share/pdb2pqr/residues/ABA.xml' 2023-09-28T22:00:01,904 adding 'moleculekit/share/pdb2pqr/residues/AHP.dat' 2023-09-28T22:00:01,906 adding 'moleculekit/share/pdb2pqr/residues/AHP.xml' 2023-09-28T22:00:01,907 adding 'moleculekit/share/pdb2pqr/residues/ALC.dat' 2023-09-28T22:00:01,909 adding 'moleculekit/share/pdb2pqr/residues/ALC.xml' 2023-09-28T22:00:01,910 adding 'moleculekit/share/pdb2pqr/residues/ALN.dat' 2023-09-28T22:00:01,912 adding 'moleculekit/share/pdb2pqr/residues/ALN.xml' 2023-09-28T22:00:01,913 adding 'moleculekit/share/pdb2pqr/residues/ALY.dat' 2023-09-28T22:00:01,915 adding 'moleculekit/share/pdb2pqr/residues/ALY.xml' 2023-09-28T22:00:01,917 adding 'moleculekit/share/pdb2pqr/residues/APD.dat' 2023-09-28T22:00:01,919 adding 'moleculekit/share/pdb2pqr/residues/APD.xml' 2023-09-28T22:00:01,920 adding 'moleculekit/share/pdb2pqr/residues/BB8.dat' 2023-09-28T22:00:01,921 adding 'moleculekit/share/pdb2pqr/residues/BB8.xml' 2023-09-28T22:00:01,923 adding 'moleculekit/share/pdb2pqr/residues/BCS.dat' 2023-09-28T22:00:01,925 adding 'moleculekit/share/pdb2pqr/residues/BCS.xml' 2023-09-28T22:00:01,926 adding 'moleculekit/share/pdb2pqr/residues/BTK.dat' 2023-09-28T22:00:01,927 adding 'moleculekit/share/pdb2pqr/residues/BTK.xml' 2023-09-28T22:00:01,929 adding 'moleculekit/share/pdb2pqr/residues/CCS.dat' 2023-09-28T22:00:01,930 adding 'moleculekit/share/pdb2pqr/residues/CCS.xml' 2023-09-28T22:00:01,932 adding 'moleculekit/share/pdb2pqr/residues/CGU.dat' 2023-09-28T22:00:01,933 adding 'moleculekit/share/pdb2pqr/residues/CGU.xml' 2023-09-28T22:00:01,934 adding 'moleculekit/share/pdb2pqr/residues/CSA.dat' 2023-09-28T22:00:01,936 adding 'moleculekit/share/pdb2pqr/residues/CSA.xml' 2023-09-28T22:00:01,937 adding 'moleculekit/share/pdb2pqr/residues/CSO.dat' 2023-09-28T22:00:01,939 adding 'moleculekit/share/pdb2pqr/residues/CSO.xml' 2023-09-28T22:00:01,941 adding 'moleculekit/share/pdb2pqr/residues/CSP.dat' 2023-09-28T22:00:01,942 adding 'moleculekit/share/pdb2pqr/residues/CSP.xml' 2023-09-28T22:00:01,944 adding 'moleculekit/share/pdb2pqr/residues/CSS.dat' 2023-09-28T22:00:01,945 adding 'moleculekit/share/pdb2pqr/residues/CSS.xml' 2023-09-28T22:00:01,946 adding 'moleculekit/share/pdb2pqr/residues/D4P.dat' 2023-09-28T22:00:01,948 adding 'moleculekit/share/pdb2pqr/residues/D4P.xml' 2023-09-28T22:00:01,950 adding 'moleculekit/share/pdb2pqr/residues/DA2.dat' 2023-09-28T22:00:01,953 adding 'moleculekit/share/pdb2pqr/residues/DA2.xml' 2023-09-28T22:00:01,955 adding 'moleculekit/share/pdb2pqr/residues/DAB.dat' 2023-09-28T22:00:01,956 adding 'moleculekit/share/pdb2pqr/residues/DAB.xml' 2023-09-28T22:00:01,958 adding 'moleculekit/share/pdb2pqr/residues/DAH.dat' 2023-09-28T22:00:01,959 adding 'moleculekit/share/pdb2pqr/residues/DAH.xml' 2023-09-28T22:00:01,961 adding 'moleculekit/share/pdb2pqr/residues/DPP.dat' 2023-09-28T22:00:01,962 adding 'moleculekit/share/pdb2pqr/residues/DPP.xml' 2023-09-28T22:00:01,963 adding 'moleculekit/share/pdb2pqr/residues/ESC.dat' 2023-09-28T22:00:01,965 adding 'moleculekit/share/pdb2pqr/residues/ESC.xml' 2023-09-28T22:00:01,966 adding 'moleculekit/share/pdb2pqr/residues/FGL.dat' 2023-09-28T22:00:01,967 adding 'moleculekit/share/pdb2pqr/residues/FGL.xml' 2023-09-28T22:00:01,971 adding 'moleculekit/share/pdb2pqr/residues/GHG.dat' 2023-09-28T22:00:01,971 adding 'moleculekit/share/pdb2pqr/residues/GHG.xml' 2023-09-28T22:00:01,972 adding 'moleculekit/share/pdb2pqr/residues/GME.dat' 2023-09-28T22:00:01,973 adding 'moleculekit/share/pdb2pqr/residues/GME.xml' 2023-09-28T22:00:01,974 adding 'moleculekit/share/pdb2pqr/residues/GNC.dat' 2023-09-28T22:00:01,976 adding 'moleculekit/share/pdb2pqr/residues/GNC.xml' 2023-09-28T22:00:01,978 adding 'moleculekit/share/pdb2pqr/residues/HHK.dat' 2023-09-28T22:00:01,980 adding 'moleculekit/share/pdb2pqr/residues/HHK.xml' 2023-09-28T22:00:01,982 adding 'moleculekit/share/pdb2pqr/residues/HLU.dat' 2023-09-28T22:00:01,986 adding 'moleculekit/share/pdb2pqr/residues/HLU.xml' 2023-09-28T22:00:01,988 adding 'moleculekit/share/pdb2pqr/residues/HLX.dat' 2023-09-28T22:00:01,990 adding 'moleculekit/share/pdb2pqr/residues/HLX.xml' 2023-09-28T22:00:01,992 adding 'moleculekit/share/pdb2pqr/residues/HOX.dat' 2023-09-28T22:00:01,994 adding 'moleculekit/share/pdb2pqr/residues/HOX.xml' 2023-09-28T22:00:01,995 adding 'moleculekit/share/pdb2pqr/residues/HPE.dat' 2023-09-28T22:00:01,996 adding 'moleculekit/share/pdb2pqr/residues/HPE.xml' 2023-09-28T22:00:01,998 adding 'moleculekit/share/pdb2pqr/residues/HQA.dat' 2023-09-28T22:00:02,000 adding 'moleculekit/share/pdb2pqr/residues/HQA.xml' 2023-09-28T22:00:02,003 adding 'moleculekit/share/pdb2pqr/residues/HTR.dat' 2023-09-28T22:00:02,004 adding 'moleculekit/share/pdb2pqr/residues/HTR.xml' 2023-09-28T22:00:02,006 adding 'moleculekit/share/pdb2pqr/residues/HYP.dat' 2023-09-28T22:00:02,007 adding 'moleculekit/share/pdb2pqr/residues/HYP.xml' 2023-09-28T22:00:02,009 adding 'moleculekit/share/pdb2pqr/residues/I2M.dat' 2023-09-28T22:00:02,012 adding 'moleculekit/share/pdb2pqr/residues/I2M.xml' 2023-09-28T22:00:02,014 adding 'moleculekit/share/pdb2pqr/residues/IGL.dat' 2023-09-28T22:00:02,015 adding 'moleculekit/share/pdb2pqr/residues/IGL.xml' 2023-09-28T22:00:02,018 adding 'moleculekit/share/pdb2pqr/residues/IIL.dat' 2023-09-28T22:00:02,021 adding 'moleculekit/share/pdb2pqr/residues/IIL.xml' 2023-09-28T22:00:02,023 adding 'moleculekit/share/pdb2pqr/residues/IML.dat' 2023-09-28T22:00:02,025 adding 'moleculekit/share/pdb2pqr/residues/IML.xml' 2023-09-28T22:00:02,027 adding 'moleculekit/share/pdb2pqr/residues/KYN.dat' 2023-09-28T22:00:02,028 adding 'moleculekit/share/pdb2pqr/residues/KYN.xml' 2023-09-28T22:00:02,030 adding 'moleculekit/share/pdb2pqr/residues/LME.dat' 2023-09-28T22:00:02,031 adding 'moleculekit/share/pdb2pqr/residues/LME.xml' 2023-09-28T22:00:02,033 adding 'moleculekit/share/pdb2pqr/residues/LMQ.dat' 2023-09-28T22:00:02,035 adding 'moleculekit/share/pdb2pqr/residues/LMQ.xml' 2023-09-28T22:00:02,037 adding 'moleculekit/share/pdb2pqr/residues/LYZ.dat' 2023-09-28T22:00:02,039 adding 'moleculekit/share/pdb2pqr/residues/LYZ.xml' 2023-09-28T22:00:02,040 adding 'moleculekit/share/pdb2pqr/residues/M3L.dat' 2023-09-28T22:00:02,042 adding 'moleculekit/share/pdb2pqr/residues/M3L.xml' 2023-09-28T22:00:02,043 adding 'moleculekit/share/pdb2pqr/residues/ME0.dat' 2023-09-28T22:00:02,044 adding 'moleculekit/share/pdb2pqr/residues/ME0.xml' 2023-09-28T22:00:02,046 adding 'moleculekit/share/pdb2pqr/residues/MEA.dat' 2023-09-28T22:00:02,047 adding 'moleculekit/share/pdb2pqr/residues/MEA.xml' 2023-09-28T22:00:02,049 adding 'moleculekit/share/pdb2pqr/residues/MEN.dat' 2023-09-28T22:00:02,051 adding 'moleculekit/share/pdb2pqr/residues/MEN.xml' 2023-09-28T22:00:02,052 adding 'moleculekit/share/pdb2pqr/residues/MEQ.dat' 2023-09-28T22:00:02,054 adding 'moleculekit/share/pdb2pqr/residues/MEQ.xml' 2023-09-28T22:00:02,055 adding 'moleculekit/share/pdb2pqr/residues/MLE.dat' 2023-09-28T22:00:02,057 adding 'moleculekit/share/pdb2pqr/residues/MLE.xml' 2023-09-28T22:00:02,059 adding 'moleculekit/share/pdb2pqr/residues/MLY.dat' 2023-09-28T22:00:02,060 adding 'moleculekit/share/pdb2pqr/residues/MLY.xml' 2023-09-28T22:00:02,062 adding 'moleculekit/share/pdb2pqr/residues/MLZ.dat' 2023-09-28T22:00:02,064 adding 'moleculekit/share/pdb2pqr/residues/MLZ.xml' 2023-09-28T22:00:02,065 adding 'moleculekit/share/pdb2pqr/residues/MME.dat' 2023-09-28T22:00:02,066 adding 'moleculekit/share/pdb2pqr/residues/MME.xml' 2023-09-28T22:00:02,068 adding 'moleculekit/share/pdb2pqr/residues/MMO.dat' 2023-09-28T22:00:02,070 adding 'moleculekit/share/pdb2pqr/residues/MMO.xml' 2023-09-28T22:00:02,071 adding 'moleculekit/share/pdb2pqr/residues/MVA.dat' 2023-09-28T22:00:02,073 adding 'moleculekit/share/pdb2pqr/residues/MVA.xml' 2023-09-28T22:00:02,074 adding 'moleculekit/share/pdb2pqr/residues/NAL.dat' 2023-09-28T22:00:02,076 adding 'moleculekit/share/pdb2pqr/residues/NAL.xml' 2023-09-28T22:00:02,077 adding 'moleculekit/share/pdb2pqr/residues/NCY.dat' 2023-09-28T22:00:02,079 adding 'moleculekit/share/pdb2pqr/residues/NCY.xml' 2023-09-28T22:00:02,080 adding 'moleculekit/share/pdb2pqr/residues/NLE.dat' 2023-09-28T22:00:02,082 adding 'moleculekit/share/pdb2pqr/residues/NLE.xml' 2023-09-28T22:00:02,083 adding 'moleculekit/share/pdb2pqr/residues/NVA.dat' 2023-09-28T22:00:02,084 adding 'moleculekit/share/pdb2pqr/residues/NVA.xml' 2023-09-28T22:00:02,086 adding 'moleculekit/share/pdb2pqr/residues/NZC.dat' 2023-09-28T22:00:02,088 adding 'moleculekit/share/pdb2pqr/residues/NZC.xml' 2023-09-28T22:00:02,089 adding 'moleculekit/share/pdb2pqr/residues/OCY.dat' 2023-09-28T22:00:02,090 adding 'moleculekit/share/pdb2pqr/residues/OCY.xml' 2023-09-28T22:00:02,096 adding 'moleculekit/share/pdb2pqr/residues/OMX.dat' 2023-09-28T22:00:02,098 adding 'moleculekit/share/pdb2pqr/residues/OMX.xml' 2023-09-28T22:00:02,099 adding 'moleculekit/share/pdb2pqr/residues/ONL.dat' 2023-09-28T22:00:02,101 adding 'moleculekit/share/pdb2pqr/residues/ONL.xml' 2023-09-28T22:00:02,102 adding 'moleculekit/share/pdb2pqr/residues/ORM.dat' 2023-09-28T22:00:02,104 adding 'moleculekit/share/pdb2pqr/residues/ORM.xml' 2023-09-28T22:00:02,105 adding 'moleculekit/share/pdb2pqr/residues/P1L.dat' 2023-09-28T22:00:02,107 adding 'moleculekit/share/pdb2pqr/residues/P1L.xml' 2023-09-28T22:00:02,109 adding 'moleculekit/share/pdb2pqr/residues/PCA.dat' 2023-09-28T22:00:02,111 adding 'moleculekit/share/pdb2pqr/residues/PCA.xml' 2023-09-28T22:00:02,112 adding 'moleculekit/share/pdb2pqr/residues/PRK.dat' 2023-09-28T22:00:02,114 adding 'moleculekit/share/pdb2pqr/residues/PRK.xml' 2023-09-28T22:00:02,115 adding 'moleculekit/share/pdb2pqr/residues/PTR.dat' 2023-09-28T22:00:02,117 adding 'moleculekit/share/pdb2pqr/residues/PTR.xml' 2023-09-28T22:00:02,118 adding 'moleculekit/share/pdb2pqr/residues/SEP.dat' 2023-09-28T22:00:02,120 adding 'moleculekit/share/pdb2pqr/residues/SEP.xml' 2023-09-28T22:00:02,122 adding 'moleculekit/share/pdb2pqr/residues/TPO.dat' 2023-09-28T22:00:02,123 adding 'moleculekit/share/pdb2pqr/residues/TPO.xml' 2023-09-28T22:00:02,125 adding 'moleculekit/share/pdb2pqr/residues/TRO.dat' 2023-09-28T22:00:02,126 adding 'moleculekit/share/pdb2pqr/residues/TRO.xml' 2023-09-28T22:00:02,128 adding 'moleculekit/share/pdb2pqr/residues/TY2.dat' 2023-09-28T22:00:02,130 adding 'moleculekit/share/pdb2pqr/residues/TY2.xml' 2023-09-28T22:00:02,131 adding 'moleculekit/share/pdb2pqr/residues/TYQ.dat' 2023-09-28T22:00:02,133 adding 'moleculekit/share/pdb2pqr/residues/TYQ.xml' 2023-09-28T22:00:02,135 adding 'moleculekit/share/pdb2pqr/residues/YCM.dat' 2023-09-28T22:00:02,136 adding 'moleculekit/share/pdb2pqr/residues/YCM.xml' 2023-09-28T22:00:02,138 adding 'moleculekit/share/pdb2pqr/residues/YNM.dat' 2023-09-28T22:00:02,140 adding 'moleculekit/share/pdb2pqr/residues/YNM.xml' 2023-09-28T22:00:02,142 adding 'moleculekit/smallmol/__init__.py' 2023-09-28T22:00:02,148 adding 'moleculekit/smallmol/smallmol.py' 2023-09-28T22:00:02,151 adding 'moleculekit/smallmol/smallmollib.py' 2023-09-28T22:00:02,154 adding 'moleculekit/smallmol/test_smallmol.py' 2023-09-28T22:00:02,157 adding 'moleculekit/smallmol/test_smallmollib.py' 2023-09-28T22:00:02,159 adding 'moleculekit/smallmol/util.py' 2023-09-28T22:00:02,163 adding 'moleculekit/smallmol/tools/__init__.py' 2023-09-28T22:00:02,165 adding 'moleculekit/smallmol/tools/clustering.py' 2023-09-28T22:00:02,167 adding 'moleculekit/smallmol/tools/restrainedembed.py' 2023-09-28T22:00:02,169 adding 'moleculekit/smallmol/tools/test_tools.py' 2023-09-28T22:00:02,259 adding 'moleculekit/tmalign/tmalign_util.cpp' 2023-09-28T22:00:02,271 adding 'moleculekit/tmalign/tmalign_util.pyx' 2023-09-28T22:00:02,272 adding 'moleculekit/tmalign/tmalignlib.pxd' 2023-09-28T22:00:02,275 adding 'moleculekit/tmalign/include/TMAlign.h' 2023-09-28T22:00:02,293 adding 'moleculekit/tmalign/src/TMAlign.cpp' 2023-09-28T22:00:02,297 adding 'moleculekit/tools/__init__.py' 2023-09-28T22:00:02,299 adding 'moleculekit/tools/atomtyper.py' 2023-09-28T22:00:02,302 adding 'moleculekit/tools/autosegment.py' 2023-09-28T22:00:02,305 adding 'moleculekit/tools/crystalpacking.py' 2023-09-28T22:00:02,308 adding 'moleculekit/tools/detect.py' 2023-09-28T22:00:02,311 adding 'moleculekit/tools/docking.py' 2023-09-28T22:00:02,313 adding 'moleculekit/tools/graphalignment.py' 2023-09-28T22:00:02,316 adding 'moleculekit/tools/hhblitsprofile.py' 2023-09-28T22:00:02,318 adding 'moleculekit/tools/moleculechecks.py' 2023-09-28T22:00:02,324 adding 'moleculekit/tools/preparation.py' 2023-09-28T22:00:02,327 adding 'moleculekit/tools/preparation_customres.py' 2023-09-28T22:00:02,330 adding 'moleculekit/tools/sequencestructuralalignment.py' 2023-09-28T22:00:02,333 adding 'moleculekit/tools/voxeldescriptors.py' 2023-09-28T22:00:02,335 adding 'moleculekit/tools/obabel_tools/__init__.py' 2023-09-28T22:00:02,337 adding 'moleculekit/tools/obabel_tools/obabel_cli.py' 2023-09-28T22:00:02,432 adding 'moleculekit/wrapping/wrapping.cpp' 2023-09-28T22:00:03,239 adding 'moleculekit/wrapping/wrapping.pyx' 2023-09-28T22:00:03,918 adding 'moleculekit/xtc_utils/xtc.cpp' 2023-09-28T22:00:03,929 adding 'moleculekit/xtc_utils/xtc.pyx' 2023-09-28T22:00:03,930 adding 'moleculekit/xtc_utils/xtclib.pxd' 2023-09-28T22:00:03,933 adding 'moleculekit/xtc_utils/include/xdrfile.h' 2023-09-28T22:00:03,935 adding 'moleculekit/xtc_utils/include/xdrfile_xtc.h' 2023-09-28T22:00:03,936 adding 'moleculekit/xtc_utils/include/xtc.h' 2023-09-28T22:00:03,944 adding 'moleculekit/xtc_utils/src/xdrfile.cpp' 2023-09-28T22:00:03,946 adding 'moleculekit/xtc_utils/src/xdrfile_xtc.cpp' 2023-09-28T22:00:03,948 adding 'moleculekit/xtc_utils/src/xtc.cpp' 2023-09-28T22:00:03,950 adding 'moleculekit-1.7.12.dist-info/LICENSE' 2023-09-28T22:00:03,952 adding 'moleculekit-1.7.12.dist-info/METADATA' 2023-09-28T22:00:03,953 adding 'moleculekit-1.7.12.dist-info/WHEEL' 2023-09-28T22:00:03,954 adding 'moleculekit-1.7.12.dist-info/top_level.txt' 2023-09-28T22:00:03,958 adding 'moleculekit-1.7.12.dist-info/RECORD' 2023-09-28T22:00:04,107 removing build/bdist.linux-armv7l/wheel 2023-09-28T22:00:04,500 Building wheel for moleculekit (pyproject.toml): finished with status 'done' 2023-09-28T22:00:04,957 Created wheel for moleculekit: filename=moleculekit-1.7.12-cp311-cp311-linux_armv7l.whl size=12837756 sha256=353e02925d0653a2d5a2c081631d08e23f3201d97e2e5770509deb27cfab4c86 2023-09-28T22:00:04,958 Stored in directory: /tmp/pip-ephem-wheel-cache-ytjgmjf1/wheels/81/28/4b/c1490d304d0f45fdbaa207655665ea5fe0d7db127e49aa50ba 2023-09-28T22:00:04,983 Successfully built moleculekit 2023-09-28T22:00:06,079 Removed build tracker: '/tmp/pip-build-tracker-nz9wj7er'