2023-10-03T13:16:43,893 Created temporary directory: /tmp/pip-build-tracker-ci_5zeig 2023-10-03T13:16:43,895 Initialized build tracking at /tmp/pip-build-tracker-ci_5zeig 2023-10-03T13:16:43,895 Created build tracker: /tmp/pip-build-tracker-ci_5zeig 2023-10-03T13:16:43,895 Entered build tracker: /tmp/pip-build-tracker-ci_5zeig 2023-10-03T13:16:43,896 Created temporary directory: /tmp/pip-wheel-ad6bkqq2 2023-10-03T13:16:43,900 Created temporary directory: /tmp/pip-ephem-wheel-cache-6inlhsyf 2023-10-03T13:16:43,923 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2023-10-03T13:16:43,927 2 location(s) to search for versions of moleculekit: 2023-10-03T13:16:43,927 * https://pypi.org/simple/moleculekit/ 2023-10-03T13:16:43,927 * https://www.piwheels.org/simple/moleculekit/ 2023-10-03T13:16:43,928 Fetching project page and analyzing links: https://pypi.org/simple/moleculekit/ 2023-10-03T13:16:43,928 Getting page https://pypi.org/simple/moleculekit/ 2023-10-03T13:16:43,929 Found index url https://pypi.org/simple/ 2023-10-03T13:16:44,067 Fetched page https://pypi.org/simple/moleculekit/ as application/vnd.pypi.simple.v1+json 2023-10-03T13:16:44,105 Skipping link: No binaries permitted for moleculekit: https://files.pythonhosted.org/packages/91/e6/25b6853357dfef8a4026325e420d8213d34c17c078a2f13b60cbb6213ea3/moleculekit-0.1.4-py3-none-any.whl (from https://pypi.org/simple/moleculekit/) 2023-10-03T13:16:44,105 Found link https://files.pythonhosted.org/packages/13/0f/a200e8e7632d3a521cfc7c15fa4d0270802efce40f98ac5a5cae58385b7e/moleculekit-0.1.4.tar.gz (from https://pypi.org/simple/moleculekit/), version: 0.1.4 2023-10-03T13:16:44,105 Skipping link: No binaries permitted for moleculekit: https://files.pythonhosted.org/packages/9f/a5/eac32fcb2e9ff0d30298aa4cec8e152c95d675c4dd1a1a5d7676986d4d75/moleculekit-0.1.5-py3-none-any.whl (from https://pypi.org/simple/moleculekit/) 2023-10-03T13:16:44,106 Found link 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https://www.piwheels.org/simple/moleculekit/moleculekit-0.1.5-py3-none-any.whl#sha256=2f111e31b3f90e63ca0154c528585208b8bd41a065aa0078325683f4b36eacec (from https://www.piwheels.org/simple/moleculekit/) 2023-10-03T13:16:44,355 Skipping link: No binaries permitted for moleculekit: https://www.piwheels.org/simple/moleculekit/moleculekit-0.1.4-py3-none-any.whl#sha256=5784491ff294e145a00311f8239aaa0b92c12605db0508ee3e10469b80d4cadd (from https://www.piwheels.org/simple/moleculekit/) 2023-10-03T13:16:44,355 Skipping link: not a file: https://www.piwheels.org/simple/moleculekit/ 2023-10-03T13:16:44,355 Skipping link: not a file: https://pypi.org/simple/moleculekit/ 2023-10-03T13:16:44,396 Given no hashes to check 1 links for project 'moleculekit': discarding no candidates 2023-10-03T13:16:44,412 Collecting moleculekit==1.7.10 2023-10-03T13:16:44,414 Created temporary directory: /tmp/pip-unpack-razj_k2s 2023-10-03T13:16:44,802 Downloading moleculekit-1.7.10.tar.gz (6.2 MB) 2023-10-03T13:16:47,433 Added moleculekit==1.7.10 from https://files.pythonhosted.org/packages/0e/fd/650680f6dcf164b179c8a334c56fc7ba97d71519330f03bdc485307b6a0d/moleculekit-1.7.10.tar.gz to build tracker '/tmp/pip-build-tracker-ci_5zeig' 2023-10-03T13:16:47,442 Created temporary directory: /tmp/pip-build-env-u675rfx0 2023-10-03T13:16:47,451 Installing build dependencies: started 2023-10-03T13:16:47,452 Running command pip subprocess to install build dependencies 2023-10-03T13:16:49,190 Using pip 23.2.1 from /usr/local/lib/python3.9/dist-packages/pip (python 3.9) 2023-10-03T13:16:49,964 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2023-10-03T13:16:51,584 Collecting setuptools 2023-10-03T13:16:51,656 Using cached https://www.piwheels.org/simple/setuptools/setuptools-68.2.2-py3-none-any.whl (807 kB) 2023-10-03T13:16:53,017 Collecting numpy>=1.18.5 2023-10-03T13:16:53,898 Using cached https://www.piwheels.org/simple/numpy/numpy-1.25.2-cp39-cp39-linux_armv7l.whl (12.5 MB) 2023-10-03T13:16:55,941 Collecting Cython>=0.29.21 2023-10-03T13:16:56,694 Using cached https://www.piwheels.org/simple/cython/Cython-3.0.2-cp39-cp39-linux_armv7l.whl (10.7 MB) 2023-10-03T13:16:57,060 Collecting toml 2023-10-03T13:16:57,074 Downloading https://www.piwheels.org/simple/toml/toml-0.10.2-py2.py3-none-any.whl (16 kB) 2023-10-03T13:16:57,186 Collecting versioneer[toml]==0.28 2023-10-03T13:16:57,199 Downloading https://www.piwheels.org/simple/versioneer/versioneer-0.28-py3-none-any.whl (45 kB) 2023-10-03T13:16:57,218 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 45.3/45.3 kB 4.1 MB/s eta 0:00:00 2023-10-03T13:16:57,349 Collecting tomli (from versioneer[toml]==0.28) 2023-10-03T13:16:57,365 Using cached https://www.piwheels.org/simple/tomli/tomli-2.0.1-py3-none-any.whl (12 kB) 2023-10-03T13:16:59,123 Installing collected packages: versioneer, tomli, toml, setuptools, numpy, Cython 2023-10-03T13:16:59,158 Creating /tmp/pip-build-env-u675rfx0/overlay/bin 2023-10-03T13:16:59,160 changing mode of /tmp/pip-build-env-u675rfx0/overlay/bin/versioneer to 755 2023-10-03T13:17:09,557 changing mode of /tmp/pip-build-env-u675rfx0/overlay/bin/f2py to 755 2023-10-03T13:17:09,559 changing mode of /tmp/pip-build-env-u675rfx0/overlay/bin/f2py3 to 755 2023-10-03T13:17:09,561 changing mode of /tmp/pip-build-env-u675rfx0/overlay/bin/f2py3.9 to 755 2023-10-03T13:17:13,799 changing mode of /tmp/pip-build-env-u675rfx0/overlay/bin/cygdb to 755 2023-10-03T13:17:13,802 changing mode of /tmp/pip-build-env-u675rfx0/overlay/bin/cython to 755 2023-10-03T13:17:13,804 changing mode of /tmp/pip-build-env-u675rfx0/overlay/bin/cythonize to 755 2023-10-03T13:17:13,830 ERROR: pip's dependency resolver does not currently take into account all the packages that are installed. This behaviour is the source of the following dependency conflicts. 2023-10-03T13:17:13,831 scipy 1.8.1 requires numpy<1.25.0,>=1.17.3, but you have numpy 1.25.2 which is incompatible. 2023-10-03T13:17:13,832 Successfully installed Cython-3.0.2 numpy-1.25.2 setuptools-68.2.2 toml-0.10.2 tomli-2.0.1 versioneer-0.28 2023-10-03T13:17:14,434 Installing build dependencies: finished with status 'done' 2023-10-03T13:17:14,439 Getting requirements to build wheel: started 2023-10-03T13:17:14,440 Running command Getting requirements to build wheel 2023-10-03T13:17:53,485 Compiling moleculekit/interactions/hbonds/hbonds.pyx because it depends on /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/Cython/Includes/libcpp/vector.pxd. 2023-10-03T13:17:53,486 Compiling moleculekit/interactions/pipi/pipi.pyx because it depends on /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/Cython/Includes/libcpp/vector.pxd. 2023-10-03T13:17:53,486 Compiling moleculekit/interactions/cationpi/cationpi.pyx because it depends on /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/Cython/Includes/libcpp/vector.pxd. 2023-10-03T13:17:53,486 Compiling moleculekit/interactions/sigmahole/sigmahole.pyx because it depends on /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/Cython/Includes/libcpp/vector.pxd. 2023-10-03T13:17:53,486 Compiling moleculekit/wrapping/wrapping.pyx because it depends on /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/Cython/Includes/libcpp/vector.pxd. 2023-10-03T13:17:53,486 Compiling moleculekit/bondguesser_utils/bondguesser_utils.pyx because it depends on /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/Cython/Includes/libcpp/vector.pxd. 2023-10-03T13:17:53,487 Compiling moleculekit/atomselect_utils/atomselect_utils.pyx because it depends on /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/Cython/Includes/libcpp/vector.pxd. 2023-10-03T13:17:53,487 Compiling moleculekit/distance_utils/distance_utils.pyx because it depends on /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/Cython/Includes/libcpp/vector.pxd. 2023-10-03T13:17:53,487 Compiling moleculekit/occupancy_utils/occupancy_utils.pyx because it depends on /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/Cython/Includes/libcpp/vector.pxd. 2023-10-03T13:17:53,487 Compiling moleculekit/xtc_utils/xtc.pyx because it depends on /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/Cython/Includes/libc/string.pxd. 2023-10-03T13:17:53,487 Compiling moleculekit/tmalign/tmalign_util.pyx because it depends on /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/Cython/Includes/libcpp/vector.pxd. 2023-10-03T13:17:53,487 [ 1/11] Cythonizing moleculekit/atomselect_utils/atomselect_utils.pyx 2023-10-03T13:17:53,487 [ 2/11] Cythonizing moleculekit/bondguesser_utils/bondguesser_utils.pyx 2023-10-03T13:17:53,488 [ 3/11] Cythonizing moleculekit/distance_utils/distance_utils.pyx 2023-10-03T13:17:53,488 [ 4/11] Cythonizing moleculekit/interactions/cationpi/cationpi.pyx 2023-10-03T13:17:53,488 [ 5/11] Cythonizing moleculekit/interactions/hbonds/hbonds.pyx 2023-10-03T13:17:53,488 [ 6/11] Cythonizing moleculekit/interactions/pipi/pipi.pyx 2023-10-03T13:17:53,488 [ 7/11] Cythonizing moleculekit/interactions/sigmahole/sigmahole.pyx 2023-10-03T13:17:53,488 [ 8/11] Cythonizing moleculekit/occupancy_utils/occupancy_utils.pyx 2023-10-03T13:17:53,488 [ 9/11] Cythonizing moleculekit/tmalign/tmalign_util.pyx 2023-10-03T13:17:53,488 [10/11] Cythonizing moleculekit/wrapping/wrapping.pyx 2023-10-03T13:17:53,489 [11/11] Cythonizing moleculekit/xtc_utils/xtc.pyx 2023-10-03T13:17:53,775 running egg_info 2023-10-03T13:17:53,782 writing moleculekit.egg-info/PKG-INFO 2023-10-03T13:17:53,785 writing dependency_links to moleculekit.egg-info/dependency_links.txt 2023-10-03T13:17:53,787 writing requirements to moleculekit.egg-info/requires.txt 2023-10-03T13:17:53,789 writing top-level names to moleculekit.egg-info/top_level.txt 2023-10-03T13:17:53,813 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,814 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,814 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,814 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,814 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,814 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,814 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,814 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,815 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,815 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,815 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,815 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,815 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,815 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,815 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,816 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,816 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,816 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,816 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,816 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,816 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,816 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,817 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,817 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,817 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,817 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,817 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,817 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,817 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,817 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,818 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,818 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,818 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,818 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,818 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,818 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,818 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,818 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,819 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,819 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,819 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,819 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,819 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,819 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,819 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,820 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,820 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,820 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,820 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,820 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,820 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,821 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,821 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,821 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,821 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:17:53,829 reading manifest file 'moleculekit.egg-info/SOURCES.txt' 2023-10-03T13:17:53,866 reading manifest template 'MANIFEST.in' 2023-10-03T13:17:54,356 no previously-included directories found matching 'moleculekit/test-data' 2023-10-03T13:17:54,357 no previously-included directories found matching 'moleculekit/tests' 2023-10-03T13:17:54,358 no previously-included directories found matching 'package' 2023-10-03T13:17:54,359 adding license file 'LICENSE' 2023-10-03T13:17:54,376 writing manifest file 'moleculekit.egg-info/SOURCES.txt' 2023-10-03T13:17:55,314 Getting requirements to build wheel: finished with status 'done' 2023-10-03T13:17:55,329 Installing backend dependencies: started 2023-10-03T13:17:55,330 Running command pip subprocess to install backend dependencies 2023-10-03T13:17:56,587 Using pip 23.2.1 from /usr/local/lib/python3.9/dist-packages/pip (python 3.9) 2023-10-03T13:17:57,168 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2023-10-03T13:17:58,573 Collecting wheel 2023-10-03T13:17:58,592 Using cached https://www.piwheels.org/simple/wheel/wheel-0.41.2-py3-none-any.whl (64 kB) 2023-10-03T13:17:59,963 Installing collected packages: wheel 2023-10-03T13:18:00,186 Creating /tmp/pip-build-env-u675rfx0/normal/bin 2023-10-03T13:18:00,188 changing mode of /tmp/pip-build-env-u675rfx0/normal/bin/wheel to 755 2023-10-03T13:18:00,201 Successfully installed wheel-0.41.2 2023-10-03T13:18:00,598 Installing backend dependencies: finished with status 'done' 2023-10-03T13:18:00,600 Created temporary directory: /tmp/pip-modern-metadata-avdc4eqy 2023-10-03T13:18:00,603 Preparing metadata (pyproject.toml): started 2023-10-03T13:18:00,604 Running command Preparing metadata (pyproject.toml) 2023-10-03T13:18:02,976 running dist_info 2023-10-03T13:18:02,977 creating /tmp/pip-modern-metadata-avdc4eqy/moleculekit.egg-info 2023-10-03T13:18:02,983 writing /tmp/pip-modern-metadata-avdc4eqy/moleculekit.egg-info/PKG-INFO 2023-10-03T13:18:02,988 writing dependency_links to /tmp/pip-modern-metadata-avdc4eqy/moleculekit.egg-info/dependency_links.txt 2023-10-03T13:18:02,990 writing requirements to /tmp/pip-modern-metadata-avdc4eqy/moleculekit.egg-info/requires.txt 2023-10-03T13:18:02,991 writing top-level names to /tmp/pip-modern-metadata-avdc4eqy/moleculekit.egg-info/top_level.txt 2023-10-03T13:18:02,992 writing manifest file '/tmp/pip-modern-metadata-avdc4eqy/moleculekit.egg-info/SOURCES.txt' 2023-10-03T13:18:03,017 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,017 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,018 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,018 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,018 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,018 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,018 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,018 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,018 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,019 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,019 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,019 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,019 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,019 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,019 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,019 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,020 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,020 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,020 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,020 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,020 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,020 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,020 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,020 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,021 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,021 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,021 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,021 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,021 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,021 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,021 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,021 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,022 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,022 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,022 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,022 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,022 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,022 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,022 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,022 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,023 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,023 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,023 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,023 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,023 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,023 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,023 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,023 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,024 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,024 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,024 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,024 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,024 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,024 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,024 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:03,031 reading manifest file '/tmp/pip-modern-metadata-avdc4eqy/moleculekit.egg-info/SOURCES.txt' 2023-10-03T13:18:03,033 reading manifest template 'MANIFEST.in' 2023-10-03T13:18:03,260 no previously-included directories found matching 'moleculekit/test-data' 2023-10-03T13:18:03,261 no previously-included directories found matching 'moleculekit/tests' 2023-10-03T13:18:03,262 no previously-included directories found matching 'package' 2023-10-03T13:18:03,262 adding license file 'LICENSE' 2023-10-03T13:18:03,274 writing manifest file '/tmp/pip-modern-metadata-avdc4eqy/moleculekit.egg-info/SOURCES.txt' 2023-10-03T13:18:03,282 creating '/tmp/pip-modern-metadata-avdc4eqy/moleculekit-1.7.10.dist-info' 2023-10-03T13:18:03,475 Preparing metadata (pyproject.toml): finished with status 'done' 2023-10-03T13:18:03,481 Source in /tmp/pip-wheel-ad6bkqq2/moleculekit_4e0bf886f1b04be5af614711ebc42bc0 has version 1.7.10, which satisfies requirement moleculekit==1.7.10 from https://files.pythonhosted.org/packages/0e/fd/650680f6dcf164b179c8a334c56fc7ba97d71519330f03bdc485307b6a0d/moleculekit-1.7.10.tar.gz 2023-10-03T13:18:03,482 Removed moleculekit==1.7.10 from https://files.pythonhosted.org/packages/0e/fd/650680f6dcf164b179c8a334c56fc7ba97d71519330f03bdc485307b6a0d/moleculekit-1.7.10.tar.gz from build tracker '/tmp/pip-build-tracker-ci_5zeig' 2023-10-03T13:18:03,488 Created temporary directory: /tmp/pip-unpack-t0_1p66_ 2023-10-03T13:18:03,489 Created temporary directory: /tmp/pip-unpack-045yg6el 2023-10-03T13:18:03,497 Building wheels for collected packages: moleculekit 2023-10-03T13:18:03,501 Created temporary directory: /tmp/pip-wheel-ri2qgpgl 2023-10-03T13:18:03,501 Destination directory: /tmp/pip-wheel-ri2qgpgl 2023-10-03T13:18:03,503 Building wheel for moleculekit (pyproject.toml): started 2023-10-03T13:18:03,504 Running command Building wheel for moleculekit (pyproject.toml) 2023-10-03T13:18:05,980 running bdist_wheel 2023-10-03T13:18:05,997 running build 2023-10-03T13:18:05,997 running build_py 2023-10-03T13:18:06,005 creating build 2023-10-03T13:18:06,005 creating build/lib.linux-armv7l-cpython-39 2023-10-03T13:18:06,006 creating build/lib.linux-armv7l-cpython-39/moleculekit 2023-10-03T13:18:06,007 copying moleculekit/home.py -> build/lib.linux-armv7l-cpython-39/moleculekit 2023-10-03T13:18:06,009 copying moleculekit/opm.py -> build/lib.linux-armv7l-cpython-39/moleculekit 2023-10-03T13:18:06,011 copying moleculekit/align.py -> build/lib.linux-armv7l-cpython-39/moleculekit 2023-10-03T13:18:06,013 copying moleculekit/pymolgraphics.py -> build/lib.linux-armv7l-cpython-39/moleculekit 2023-10-03T13:18:06,014 copying moleculekit/vmdgraphics.py -> build/lib.linux-armv7l-cpython-39/moleculekit 2023-10-03T13:18:06,017 copying moleculekit/writers.py -> build/lib.linux-armv7l-cpython-39/moleculekit 2023-10-03T13:18:06,019 copying moleculekit/readers.py -> build/lib.linux-armv7l-cpython-39/moleculekit 2023-10-03T13:18:06,024 copying moleculekit/molecule.py -> build/lib.linux-armv7l-cpython-39/moleculekit 2023-10-03T13:18:06,028 copying moleculekit/util.py -> build/lib.linux-armv7l-cpython-39/moleculekit 2023-10-03T13:18:06,030 copying moleculekit/version.py -> build/lib.linux-armv7l-cpython-39/moleculekit 2023-10-03T13:18:06,032 copying moleculekit/distance.py -> build/lib.linux-armv7l-cpython-39/moleculekit 2023-10-03T13:18:06,033 copying moleculekit/bondguesser.py -> build/lib.linux-armv7l-cpython-39/moleculekit 2023-10-03T13:18:06,036 copying moleculekit/_version.py -> build/lib.linux-armv7l-cpython-39/moleculekit 2023-10-03T13:18:06,037 copying moleculekit/__init__.py -> build/lib.linux-armv7l-cpython-39/moleculekit 2023-10-03T13:18:06,039 copying moleculekit/config.py -> build/lib.linux-armv7l-cpython-39/moleculekit 2023-10-03T13:18:06,040 copying moleculekit/vmdviewer.py -> build/lib.linux-armv7l-cpython-39/moleculekit 2023-10-03T13:18:06,042 copying moleculekit/rcsb.py -> build/lib.linux-armv7l-cpython-39/moleculekit 2023-10-03T13:18:06,044 copying moleculekit/periodictable.py -> build/lib.linux-armv7l-cpython-39/moleculekit 2023-10-03T13:18:06,046 copying moleculekit/rdkitintegration.py -> build/lib.linux-armv7l-cpython-39/moleculekit 2023-10-03T13:18:06,048 copying moleculekit/viewer.py -> build/lib.linux-armv7l-cpython-39/moleculekit 2023-10-03T13:18:06,050 copying moleculekit/dihedral.py -> build/lib.linux-armv7l-cpython-39/moleculekit 2023-10-03T13:18:06,053 creating build/lib.linux-armv7l-cpython-39/moleculekit/tools 2023-10-03T13:18:06,054 copying moleculekit/tools/autosegment.py -> build/lib.linux-armv7l-cpython-39/moleculekit/tools 2023-10-03T13:18:06,056 copying moleculekit/tools/sequencestructuralalignment.py -> build/lib.linux-armv7l-cpython-39/moleculekit/tools 2023-10-03T13:18:06,058 copying moleculekit/tools/preparation_customres.py -> build/lib.linux-armv7l-cpython-39/moleculekit/tools 2023-10-03T13:18:06,061 copying moleculekit/tools/docking.py -> build/lib.linux-armv7l-cpython-39/moleculekit/tools 2023-10-03T13:18:06,063 copying moleculekit/tools/atomtyper.py -> build/lib.linux-armv7l-cpython-39/moleculekit/tools 2023-10-03T13:18:06,065 copying moleculekit/tools/graphalignment.py -> build/lib.linux-armv7l-cpython-39/moleculekit/tools 2023-10-03T13:18:06,068 copying moleculekit/tools/detect.py -> build/lib.linux-armv7l-cpython-39/moleculekit/tools 2023-10-03T13:18:06,070 copying moleculekit/tools/hhblitsprofile.py -> build/lib.linux-armv7l-cpython-39/moleculekit/tools 2023-10-03T13:18:06,072 copying moleculekit/tools/__init__.py -> build/lib.linux-armv7l-cpython-39/moleculekit/tools 2023-10-03T13:18:06,073 copying moleculekit/tools/voxeldescriptors.py -> build/lib.linux-armv7l-cpython-39/moleculekit/tools 2023-10-03T13:18:06,076 copying moleculekit/tools/moleculechecks.py -> build/lib.linux-armv7l-cpython-39/moleculekit/tools 2023-10-03T13:18:06,078 copying moleculekit/tools/crystalpacking.py -> build/lib.linux-armv7l-cpython-39/moleculekit/tools 2023-10-03T13:18:06,080 copying moleculekit/tools/preparation.py -> build/lib.linux-armv7l-cpython-39/moleculekit/tools 2023-10-03T13:18:06,084 creating build/lib.linux-armv7l-cpython-39/moleculekit/interactions 2023-10-03T13:18:06,085 copying moleculekit/interactions/__init__.py -> build/lib.linux-armv7l-cpython-39/moleculekit/interactions 2023-10-03T13:18:06,087 copying moleculekit/interactions/interactions.py -> build/lib.linux-armv7l-cpython-39/moleculekit/interactions 2023-10-03T13:18:06,090 creating build/lib.linux-armv7l-cpython-39/moleculekit/atomselect 2023-10-03T13:18:06,091 copying moleculekit/atomselect/atomselect.py -> build/lib.linux-armv7l-cpython-39/moleculekit/atomselect 2023-10-03T13:18:06,094 copying moleculekit/atomselect/languageparser.py -> build/lib.linux-armv7l-cpython-39/moleculekit/atomselect 2023-10-03T13:18:06,096 copying moleculekit/atomselect/__init__.py -> build/lib.linux-armv7l-cpython-39/moleculekit/atomselect 2023-10-03T13:18:06,097 copying moleculekit/atomselect/analyze.py -> build/lib.linux-armv7l-cpython-39/moleculekit/atomselect 2023-10-03T13:18:06,100 creating build/lib.linux-armv7l-cpython-39/moleculekit/ply 2023-10-03T13:18:06,101 copying moleculekit/ply/yacc.py -> build/lib.linux-armv7l-cpython-39/moleculekit/ply 2023-10-03T13:18:06,105 copying moleculekit/ply/__init__.py -> build/lib.linux-armv7l-cpython-39/moleculekit/ply 2023-10-03T13:18:06,107 copying moleculekit/ply/lex.py -> build/lib.linux-armv7l-cpython-39/moleculekit/ply 2023-10-03T13:18:06,110 creating build/lib.linux-armv7l-cpython-39/moleculekit/pdbx 2023-10-03T13:18:06,111 copying moleculekit/pdbx/__init__.py -> build/lib.linux-armv7l-cpython-39/moleculekit/pdbx 2023-10-03T13:18:06,113 creating build/lib.linux-armv7l-cpython-39/moleculekit/smallmol 2023-10-03T13:18:06,114 copying moleculekit/smallmol/test_smallmollib.py -> build/lib.linux-armv7l-cpython-39/moleculekit/smallmol 2023-10-03T13:18:06,117 copying moleculekit/smallmol/smallmol.py -> build/lib.linux-armv7l-cpython-39/moleculekit/smallmol 2023-10-03T13:18:06,120 copying moleculekit/smallmol/util.py -> build/lib.linux-armv7l-cpython-39/moleculekit/smallmol 2023-10-03T13:18:06,122 copying moleculekit/smallmol/test_smallmol.py -> build/lib.linux-armv7l-cpython-39/moleculekit/smallmol 2023-10-03T13:18:06,124 copying moleculekit/smallmol/__init__.py -> build/lib.linux-armv7l-cpython-39/moleculekit/smallmol 2023-10-03T13:18:06,126 copying moleculekit/smallmol/smallmollib.py -> build/lib.linux-armv7l-cpython-39/moleculekit/smallmol 2023-10-03T13:18:06,129 creating build/lib.linux-armv7l-cpython-39/moleculekit/projections 2023-10-03T13:18:06,130 copying moleculekit/projections/metricdistance.py -> build/lib.linux-armv7l-cpython-39/moleculekit/projections 2023-10-03T13:18:06,133 copying moleculekit/projections/metricshell.py -> build/lib.linux-armv7l-cpython-39/moleculekit/projections 2023-10-03T13:18:06,135 copying moleculekit/projections/metricfluctuation.py -> build/lib.linux-armv7l-cpython-39/moleculekit/projections 2023-10-03T13:18:06,138 copying moleculekit/projections/metricsphericalcoordinate.py -> build/lib.linux-armv7l-cpython-39/moleculekit/projections 2023-10-03T13:18:06,140 copying moleculekit/projections/metricrmsd.py -> build/lib.linux-armv7l-cpython-39/moleculekit/projections 2023-10-03T13:18:06,142 copying moleculekit/projections/metricdihedral.py -> build/lib.linux-armv7l-cpython-39/moleculekit/projections 2023-10-03T13:18:06,145 copying moleculekit/projections/metrictmscore.py -> build/lib.linux-armv7l-cpython-39/moleculekit/projections 2023-10-03T13:18:06,147 copying moleculekit/projections/metricsasa.py -> build/lib.linux-armv7l-cpython-39/moleculekit/projections 2023-10-03T13:18:06,149 copying moleculekit/projections/util.py -> build/lib.linux-armv7l-cpython-39/moleculekit/projections 2023-10-03T13:18:06,151 copying moleculekit/projections/metricgyration.py -> build/lib.linux-armv7l-cpython-39/moleculekit/projections 2023-10-03T13:18:06,153 copying moleculekit/projections/__init__.py -> build/lib.linux-armv7l-cpython-39/moleculekit/projections 2023-10-03T13:18:06,155 copying moleculekit/projections/metricsecondarystructure.py -> build/lib.linux-armv7l-cpython-39/moleculekit/projections 2023-10-03T13:18:06,157 copying moleculekit/projections/projection.py -> build/lib.linux-armv7l-cpython-39/moleculekit/projections 2023-10-03T13:18:06,159 copying moleculekit/projections/metricplumed2.py -> build/lib.linux-armv7l-cpython-39/moleculekit/projections 2023-10-03T13:18:06,162 copying moleculekit/projections/metriccoordinate.py -> build/lib.linux-armv7l-cpython-39/moleculekit/projections 2023-10-03T13:18:06,165 creating build/lib.linux-armv7l-cpython-39/moleculekit/tools/obabel_tools 2023-10-03T13:18:06,166 copying moleculekit/tools/obabel_tools/obabel_cli.py -> build/lib.linux-armv7l-cpython-39/moleculekit/tools/obabel_tools 2023-10-03T13:18:06,168 copying moleculekit/tools/obabel_tools/__init__.py -> build/lib.linux-armv7l-cpython-39/moleculekit/tools/obabel_tools 2023-10-03T13:18:06,170 creating build/lib.linux-armv7l-cpython-39/moleculekit/pdbx/tests 2023-10-03T13:18:06,171 copying moleculekit/pdbx/tests/PdbxWriterTests.py -> build/lib.linux-armv7l-cpython-39/moleculekit/pdbx/tests 2023-10-03T13:18:06,173 copying moleculekit/pdbx/tests/PdbxReadWriteTests.py -> build/lib.linux-armv7l-cpython-39/moleculekit/pdbx/tests 2023-10-03T13:18:06,175 copying moleculekit/pdbx/tests/__init__.py -> build/lib.linux-armv7l-cpython-39/moleculekit/pdbx/tests 2023-10-03T13:18:06,177 copying moleculekit/pdbx/tests/PdbxReaderTests.py -> build/lib.linux-armv7l-cpython-39/moleculekit/pdbx/tests 2023-10-03T13:18:06,179 creating build/lib.linux-armv7l-cpython-39/moleculekit/pdbx/reader 2023-10-03T13:18:06,180 copying moleculekit/pdbx/reader/PdbxParser.py -> build/lib.linux-armv7l-cpython-39/moleculekit/pdbx/reader 2023-10-03T13:18:06,183 copying moleculekit/pdbx/reader/PdbxContainers.py -> build/lib.linux-armv7l-cpython-39/moleculekit/pdbx/reader 2023-10-03T13:18:06,186 copying moleculekit/pdbx/reader/__init__.py -> build/lib.linux-armv7l-cpython-39/moleculekit/pdbx/reader 2023-10-03T13:18:06,187 copying moleculekit/pdbx/reader/PdbxReader.py -> build/lib.linux-armv7l-cpython-39/moleculekit/pdbx/reader 2023-10-03T13:18:06,190 creating build/lib.linux-armv7l-cpython-39/moleculekit/pdbx/writer 2023-10-03T13:18:06,191 copying moleculekit/pdbx/writer/PdbxWriter.py -> build/lib.linux-armv7l-cpython-39/moleculekit/pdbx/writer 2023-10-03T13:18:06,193 copying moleculekit/pdbx/writer/__init__.py -> build/lib.linux-armv7l-cpython-39/moleculekit/pdbx/writer 2023-10-03T13:18:06,195 creating build/lib.linux-armv7l-cpython-39/moleculekit/smallmol/tools 2023-10-03T13:18:06,196 copying moleculekit/smallmol/tools/test_tools.py -> build/lib.linux-armv7l-cpython-39/moleculekit/smallmol/tools 2023-10-03T13:18:06,199 copying moleculekit/smallmol/tools/__init__.py -> build/lib.linux-armv7l-cpython-39/moleculekit/smallmol/tools 2023-10-03T13:18:06,200 copying moleculekit/smallmol/tools/clustering.py -> build/lib.linux-armv7l-cpython-39/moleculekit/smallmol/tools 2023-10-03T13:18:06,203 copying moleculekit/smallmol/tools/restrainedembed.py -> build/lib.linux-armv7l-cpython-39/moleculekit/smallmol/tools 2023-10-03T13:18:06,204 running egg_info 2023-10-03T13:18:06,210 writing moleculekit.egg-info/PKG-INFO 2023-10-03T13:18:06,214 writing dependency_links to moleculekit.egg-info/dependency_links.txt 2023-10-03T13:18:06,215 writing requirements to moleculekit.egg-info/requires.txt 2023-10-03T13:18:06,217 writing top-level names to moleculekit.egg-info/top_level.txt 2023-10-03T13:18:06,230 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,230 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,230 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,231 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,231 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,231 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,231 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,231 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,231 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,232 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,232 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,232 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,232 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,232 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,232 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,232 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,232 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,233 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,233 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,233 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,233 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,233 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,233 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,233 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,233 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,234 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,234 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,234 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,234 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,234 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,234 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,234 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,234 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,235 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,235 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,235 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,235 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,235 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,235 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,235 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,236 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,236 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,236 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,236 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,236 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,236 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,236 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,237 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,237 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,237 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,237 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,237 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,237 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,238 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,238 dependency /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2023-10-03T13:18:06,244 reading manifest file 'moleculekit.egg-info/SOURCES.txt' 2023-10-03T13:18:06,253 reading manifest template 'MANIFEST.in' 2023-10-03T13:18:06,504 no previously-included directories found matching 'moleculekit/test-data' 2023-10-03T13:18:06,505 no previously-included directories found matching 'moleculekit/tests' 2023-10-03T13:18:06,507 no previously-included directories found matching 'package' 2023-10-03T13:18:06,507 adding license file 'LICENSE' 2023-10-03T13:18:06,524 writing manifest file 'moleculekit.egg-info/SOURCES.txt' 2023-10-03T13:18:06,543 /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.atomselect_utils' is absent from the `packages` configuration. 2023-10-03T13:18:06,543 !! 2023-10-03T13:18:06,543 ******************************************************************************** 2023-10-03T13:18:06,543 ############################ 2023-10-03T13:18:06,543 # Package would be ignored # 2023-10-03T13:18:06,544 ############################ 2023-10-03T13:18:06,544 Python recognizes 'moleculekit.atomselect_utils' as an importable package[^1], 2023-10-03T13:18:06,544 but it is absent from setuptools' `packages` configuration. 2023-10-03T13:18:06,544 This leads to an ambiguous overall configuration. If you want to distribute this 2023-10-03T13:18:06,544 package, please make sure that 'moleculekit.atomselect_utils' is explicitly added 2023-10-03T13:18:06,544 to the `packages` configuration field. 2023-10-03T13:18:06,544 Alternatively, you can also rely on setuptools' discovery methods 2023-10-03T13:18:06,545 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-10-03T13:18:06,545 instead of `find_packages(...)`/`find:`). 2023-10-03T13:18:06,545 You can read more about "package discovery" on setuptools documentation page: 2023-10-03T13:18:06,545 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-10-03T13:18:06,546 If you don't want 'moleculekit.atomselect_utils' to be distributed and are 2023-10-03T13:18:06,546 already explicitly excluding 'moleculekit.atomselect_utils' via 2023-10-03T13:18:06,546 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-10-03T13:18:06,546 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-10-03T13:18:06,546 combination with a more fine grained `package-data` configuration. 2023-10-03T13:18:06,546 You can read more about "package data files" on setuptools documentation page: 2023-10-03T13:18:06,547 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-10-03T13:18:06,547 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-10-03T13:18:06,547 even if it does not contain any `.py` files. 2023-10-03T13:18:06,547 On the other hand, currently there is no concept of package data 2023-10-03T13:18:06,547 directory, all directories are treated like packages. 2023-10-03T13:18:06,547 ******************************************************************************** 2023-10-03T13:18:06,548 !! 2023-10-03T13:18:06,548 check.warn(importable) 2023-10-03T13:18:06,548 /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.bondguesser_utils' is absent from the `packages` configuration. 2023-10-03T13:18:06,548 !! 2023-10-03T13:18:06,548 ******************************************************************************** 2023-10-03T13:18:06,549 ############################ 2023-10-03T13:18:06,549 # Package would be ignored # 2023-10-03T13:18:06,549 ############################ 2023-10-03T13:18:06,549 Python recognizes 'moleculekit.bondguesser_utils' as an importable package[^1], 2023-10-03T13:18:06,549 but it is absent from setuptools' `packages` configuration. 2023-10-03T13:18:06,549 This leads to an ambiguous overall configuration. If you want to distribute this 2023-10-03T13:18:06,549 package, please make sure that 'moleculekit.bondguesser_utils' is explicitly added 2023-10-03T13:18:06,549 to the `packages` configuration field. 2023-10-03T13:18:06,550 Alternatively, you can also rely on setuptools' discovery methods 2023-10-03T13:18:06,550 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-10-03T13:18:06,550 instead of `find_packages(...)`/`find:`). 2023-10-03T13:18:06,550 You can read more about "package discovery" on setuptools documentation page: 2023-10-03T13:18:06,550 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-10-03T13:18:06,551 If you don't want 'moleculekit.bondguesser_utils' to be distributed and are 2023-10-03T13:18:06,551 already explicitly excluding 'moleculekit.bondguesser_utils' via 2023-10-03T13:18:06,551 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-10-03T13:18:06,551 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-10-03T13:18:06,551 combination with a more fine grained `package-data` configuration. 2023-10-03T13:18:06,551 You can read more about "package data files" on setuptools documentation page: 2023-10-03T13:18:06,552 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-10-03T13:18:06,552 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-10-03T13:18:06,552 even if it does not contain any `.py` files. 2023-10-03T13:18:06,552 On the other hand, currently there is no concept of package data 2023-10-03T13:18:06,552 directory, all directories are treated like packages. 2023-10-03T13:18:06,552 ******************************************************************************** 2023-10-03T13:18:06,553 !! 2023-10-03T13:18:06,553 check.warn(importable) 2023-10-03T13:18:06,553 /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.distance_utils' is absent from the `packages` configuration. 2023-10-03T13:18:06,553 !! 2023-10-03T13:18:06,553 ******************************************************************************** 2023-10-03T13:18:06,553 ############################ 2023-10-03T13:18:06,553 # Package would be ignored # 2023-10-03T13:18:06,553 ############################ 2023-10-03T13:18:06,554 Python recognizes 'moleculekit.distance_utils' as an importable package[^1], 2023-10-03T13:18:06,554 but it is absent from setuptools' `packages` configuration. 2023-10-03T13:18:06,554 This leads to an ambiguous overall configuration. If you want to distribute this 2023-10-03T13:18:06,554 package, please make sure that 'moleculekit.distance_utils' is explicitly added 2023-10-03T13:18:06,554 to the `packages` configuration field. 2023-10-03T13:18:06,554 Alternatively, you can also rely on setuptools' discovery methods 2023-10-03T13:18:06,554 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-10-03T13:18:06,555 instead of `find_packages(...)`/`find:`). 2023-10-03T13:18:06,555 You can read more about "package discovery" on setuptools documentation page: 2023-10-03T13:18:06,555 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-10-03T13:18:06,555 If you don't want 'moleculekit.distance_utils' to be distributed and are 2023-10-03T13:18:06,555 already explicitly excluding 'moleculekit.distance_utils' via 2023-10-03T13:18:06,556 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-10-03T13:18:06,556 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-10-03T13:18:06,556 combination with a more fine grained `package-data` configuration. 2023-10-03T13:18:06,556 You can read more about "package data files" on setuptools documentation page: 2023-10-03T13:18:06,556 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-10-03T13:18:06,557 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-10-03T13:18:06,557 even if it does not contain any `.py` files. 2023-10-03T13:18:06,557 On the other hand, currently there is no concept of package data 2023-10-03T13:18:06,557 directory, all directories are treated like packages. 2023-10-03T13:18:06,557 ******************************************************************************** 2023-10-03T13:18:06,557 !! 2023-10-03T13:18:06,557 check.warn(importable) 2023-10-03T13:18:06,557 /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.interactions.cationpi' is absent from the `packages` configuration. 2023-10-03T13:18:06,558 !! 2023-10-03T13:18:06,558 ******************************************************************************** 2023-10-03T13:18:06,558 ############################ 2023-10-03T13:18:06,558 # Package would be ignored # 2023-10-03T13:18:06,558 ############################ 2023-10-03T13:18:06,558 Python recognizes 'moleculekit.interactions.cationpi' as an importable package[^1], 2023-10-03T13:18:06,558 but it is absent from setuptools' `packages` configuration. 2023-10-03T13:18:06,559 This leads to an ambiguous overall configuration. If you want to distribute this 2023-10-03T13:18:06,559 package, please make sure that 'moleculekit.interactions.cationpi' is explicitly added 2023-10-03T13:18:06,559 to the `packages` configuration field. 2023-10-03T13:18:06,559 Alternatively, you can also rely on setuptools' discovery methods 2023-10-03T13:18:06,559 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-10-03T13:18:06,559 instead of `find_packages(...)`/`find:`). 2023-10-03T13:18:06,560 You can read more about "package discovery" on setuptools documentation page: 2023-10-03T13:18:06,560 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-10-03T13:18:06,560 If you don't want 'moleculekit.interactions.cationpi' to be distributed and are 2023-10-03T13:18:06,560 already explicitly excluding 'moleculekit.interactions.cationpi' via 2023-10-03T13:18:06,560 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-10-03T13:18:06,560 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-10-03T13:18:06,560 combination with a more fine grained `package-data` configuration. 2023-10-03T13:18:06,561 You can read more about "package data files" on setuptools documentation page: 2023-10-03T13:18:06,561 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-10-03T13:18:06,561 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-10-03T13:18:06,561 even if it does not contain any `.py` files. 2023-10-03T13:18:06,561 On the other hand, currently there is no concept of package data 2023-10-03T13:18:06,562 directory, all directories are treated like packages. 2023-10-03T13:18:06,562 ******************************************************************************** 2023-10-03T13:18:06,562 !! 2023-10-03T13:18:06,562 check.warn(importable) 2023-10-03T13:18:06,562 /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.interactions.hbonds' is absent from the `packages` configuration. 2023-10-03T13:18:06,562 !! 2023-10-03T13:18:06,562 ******************************************************************************** 2023-10-03T13:18:06,563 ############################ 2023-10-03T13:18:06,563 # Package would be ignored # 2023-10-03T13:18:06,563 ############################ 2023-10-03T13:18:06,563 Python recognizes 'moleculekit.interactions.hbonds' as an importable package[^1], 2023-10-03T13:18:06,563 but it is absent from setuptools' `packages` configuration. 2023-10-03T13:18:06,563 This leads to an ambiguous overall configuration. If you want to distribute this 2023-10-03T13:18:06,563 package, please make sure that 'moleculekit.interactions.hbonds' is explicitly added 2023-10-03T13:18:06,563 to the `packages` configuration field. 2023-10-03T13:18:06,564 Alternatively, you can also rely on setuptools' discovery methods 2023-10-03T13:18:06,564 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-10-03T13:18:06,564 instead of `find_packages(...)`/`find:`). 2023-10-03T13:18:06,564 You can read more about "package discovery" on setuptools documentation page: 2023-10-03T13:18:06,564 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-10-03T13:18:06,565 If you don't want 'moleculekit.interactions.hbonds' to be distributed and are 2023-10-03T13:18:06,565 already explicitly excluding 'moleculekit.interactions.hbonds' via 2023-10-03T13:18:06,565 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-10-03T13:18:06,565 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-10-03T13:18:06,565 combination with a more fine grained `package-data` configuration. 2023-10-03T13:18:06,565 You can read more about "package data files" on setuptools documentation page: 2023-10-03T13:18:06,565 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-10-03T13:18:06,566 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-10-03T13:18:06,566 even if it does not contain any `.py` files. 2023-10-03T13:18:06,566 On the other hand, currently there is no concept of package data 2023-10-03T13:18:06,566 directory, all directories are treated like packages. 2023-10-03T13:18:06,566 ******************************************************************************** 2023-10-03T13:18:06,567 !! 2023-10-03T13:18:06,567 check.warn(importable) 2023-10-03T13:18:06,567 /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.interactions.pipi' is absent from the `packages` configuration. 2023-10-03T13:18:06,567 !! 2023-10-03T13:18:06,567 ******************************************************************************** 2023-10-03T13:18:06,567 ############################ 2023-10-03T13:18:06,567 # Package would be ignored # 2023-10-03T13:18:06,568 ############################ 2023-10-03T13:18:06,568 Python recognizes 'moleculekit.interactions.pipi' as an importable package[^1], 2023-10-03T13:18:06,568 but it is absent from setuptools' `packages` configuration. 2023-10-03T13:18:06,568 This leads to an ambiguous overall configuration. If you want to distribute this 2023-10-03T13:18:06,568 package, please make sure that 'moleculekit.interactions.pipi' is explicitly added 2023-10-03T13:18:06,568 to the `packages` configuration field. 2023-10-03T13:18:06,568 Alternatively, you can also rely on setuptools' discovery methods 2023-10-03T13:18:06,569 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-10-03T13:18:06,569 instead of `find_packages(...)`/`find:`). 2023-10-03T13:18:06,569 You can read more about "package discovery" on setuptools documentation page: 2023-10-03T13:18:06,569 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-10-03T13:18:06,569 If you don't want 'moleculekit.interactions.pipi' to be distributed and are 2023-10-03T13:18:06,569 already explicitly excluding 'moleculekit.interactions.pipi' via 2023-10-03T13:18:06,570 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-10-03T13:18:06,570 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-10-03T13:18:06,570 combination with a more fine grained `package-data` configuration. 2023-10-03T13:18:06,570 You can read more about "package data files" on setuptools documentation page: 2023-10-03T13:18:06,570 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-10-03T13:18:06,571 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-10-03T13:18:06,571 even if it does not contain any `.py` files. 2023-10-03T13:18:06,571 On the other hand, currently there is no concept of package data 2023-10-03T13:18:06,571 directory, all directories are treated like packages. 2023-10-03T13:18:06,571 ******************************************************************************** 2023-10-03T13:18:06,571 !! 2023-10-03T13:18:06,571 check.warn(importable) 2023-10-03T13:18:06,571 /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.interactions.sigmahole' is absent from the `packages` configuration. 2023-10-03T13:18:06,572 !! 2023-10-03T13:18:06,572 ******************************************************************************** 2023-10-03T13:18:06,572 ############################ 2023-10-03T13:18:06,572 # Package would be ignored # 2023-10-03T13:18:06,572 ############################ 2023-10-03T13:18:06,572 Python recognizes 'moleculekit.interactions.sigmahole' as an importable package[^1], 2023-10-03T13:18:06,572 but it is absent from setuptools' `packages` configuration. 2023-10-03T13:18:06,573 This leads to an ambiguous overall configuration. If you want to distribute this 2023-10-03T13:18:06,573 package, please make sure that 'moleculekit.interactions.sigmahole' is explicitly added 2023-10-03T13:18:06,573 to the `packages` configuration field. 2023-10-03T13:18:06,573 Alternatively, you can also rely on setuptools' discovery methods 2023-10-03T13:18:06,573 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-10-03T13:18:06,573 instead of `find_packages(...)`/`find:`). 2023-10-03T13:18:06,573 You can read more about "package discovery" on setuptools documentation page: 2023-10-03T13:18:06,574 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-10-03T13:18:06,574 If you don't want 'moleculekit.interactions.sigmahole' to be distributed and are 2023-10-03T13:18:06,574 already explicitly excluding 'moleculekit.interactions.sigmahole' via 2023-10-03T13:18:06,574 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-10-03T13:18:06,574 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-10-03T13:18:06,574 combination with a more fine grained `package-data` configuration. 2023-10-03T13:18:06,575 You can read more about "package data files" on setuptools documentation page: 2023-10-03T13:18:06,575 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-10-03T13:18:06,575 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-10-03T13:18:06,575 even if it does not contain any `.py` files. 2023-10-03T13:18:06,575 On the other hand, currently there is no concept of package data 2023-10-03T13:18:06,575 directory, all directories are treated like packages. 2023-10-03T13:18:06,576 ******************************************************************************** 2023-10-03T13:18:06,576 !! 2023-10-03T13:18:06,576 check.warn(importable) 2023-10-03T13:18:06,576 /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.occupancy_utils' is absent from the `packages` configuration. 2023-10-03T13:18:06,576 !! 2023-10-03T13:18:06,576 ******************************************************************************** 2023-10-03T13:18:06,576 ############################ 2023-10-03T13:18:06,577 # Package would be ignored # 2023-10-03T13:18:06,577 ############################ 2023-10-03T13:18:06,577 Python recognizes 'moleculekit.occupancy_utils' as an importable package[^1], 2023-10-03T13:18:06,577 but it is absent from setuptools' `packages` configuration. 2023-10-03T13:18:06,577 This leads to an ambiguous overall configuration. If you want to distribute this 2023-10-03T13:18:06,577 package, please make sure that 'moleculekit.occupancy_utils' is explicitly added 2023-10-03T13:18:06,577 to the `packages` configuration field. 2023-10-03T13:18:06,577 Alternatively, you can also rely on setuptools' discovery methods 2023-10-03T13:18:06,578 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-10-03T13:18:06,578 instead of `find_packages(...)`/`find:`). 2023-10-03T13:18:06,578 You can read more about "package discovery" on setuptools documentation page: 2023-10-03T13:18:06,578 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-10-03T13:18:06,578 If you don't want 'moleculekit.occupancy_utils' to be distributed and are 2023-10-03T13:18:06,578 already explicitly excluding 'moleculekit.occupancy_utils' via 2023-10-03T13:18:06,579 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-10-03T13:18:06,579 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-10-03T13:18:06,579 combination with a more fine grained `package-data` configuration. 2023-10-03T13:18:06,579 You can read more about "package data files" on setuptools documentation page: 2023-10-03T13:18:06,579 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-10-03T13:18:06,580 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-10-03T13:18:06,580 even if it does not contain any `.py` files. 2023-10-03T13:18:06,580 On the other hand, currently there is no concept of package data 2023-10-03T13:18:06,580 directory, all directories are treated like packages. 2023-10-03T13:18:06,580 ******************************************************************************** 2023-10-03T13:18:06,580 !! 2023-10-03T13:18:06,580 check.warn(importable) 2023-10-03T13:18:06,580 /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.share' is absent from the `packages` configuration. 2023-10-03T13:18:06,581 !! 2023-10-03T13:18:06,581 ******************************************************************************** 2023-10-03T13:18:06,581 ############################ 2023-10-03T13:18:06,581 # Package would be ignored # 2023-10-03T13:18:06,581 ############################ 2023-10-03T13:18:06,581 Python recognizes 'moleculekit.share' as an importable package[^1], 2023-10-03T13:18:06,581 but it is absent from setuptools' `packages` configuration. 2023-10-03T13:18:06,581 This leads to an ambiguous overall configuration. If you want to distribute this 2023-10-03T13:18:06,582 package, please make sure that 'moleculekit.share' is explicitly added 2023-10-03T13:18:06,582 to the `packages` configuration field. 2023-10-03T13:18:06,582 Alternatively, you can also rely on setuptools' discovery methods 2023-10-03T13:18:06,582 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-10-03T13:18:06,582 instead of `find_packages(...)`/`find:`). 2023-10-03T13:18:06,582 You can read more about "package discovery" on setuptools documentation page: 2023-10-03T13:18:06,583 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-10-03T13:18:06,583 If you don't want 'moleculekit.share' to be distributed and are 2023-10-03T13:18:06,583 already explicitly excluding 'moleculekit.share' via 2023-10-03T13:18:06,583 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-10-03T13:18:06,583 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-10-03T13:18:06,583 combination with a more fine grained `package-data` configuration. 2023-10-03T13:18:06,584 You can read more about "package data files" on setuptools documentation page: 2023-10-03T13:18:06,584 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-10-03T13:18:06,584 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-10-03T13:18:06,584 even if it does not contain any `.py` files. 2023-10-03T13:18:06,584 On the other hand, currently there is no concept of package data 2023-10-03T13:18:06,584 directory, all directories are treated like packages. 2023-10-03T13:18:06,584 ******************************************************************************** 2023-10-03T13:18:06,585 !! 2023-10-03T13:18:06,585 check.warn(importable) 2023-10-03T13:18:06,585 /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.share.atomselect' is absent from the `packages` configuration. 2023-10-03T13:18:06,585 !! 2023-10-03T13:18:06,585 ******************************************************************************** 2023-10-03T13:18:06,585 ############################ 2023-10-03T13:18:06,586 # Package would be ignored # 2023-10-03T13:18:06,586 ############################ 2023-10-03T13:18:06,586 Python recognizes 'moleculekit.share.atomselect' as an importable package[^1], 2023-10-03T13:18:06,586 but it is absent from setuptools' `packages` configuration. 2023-10-03T13:18:06,586 This leads to an ambiguous overall configuration. If you want to distribute this 2023-10-03T13:18:06,586 package, please make sure that 'moleculekit.share.atomselect' is explicitly added 2023-10-03T13:18:06,586 to the `packages` configuration field. 2023-10-03T13:18:06,587 Alternatively, you can also rely on setuptools' discovery methods 2023-10-03T13:18:06,587 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-10-03T13:18:06,587 instead of `find_packages(...)`/`find:`). 2023-10-03T13:18:06,587 You can read more about "package discovery" on setuptools documentation page: 2023-10-03T13:18:06,587 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-10-03T13:18:06,587 If you don't want 'moleculekit.share.atomselect' to be distributed and are 2023-10-03T13:18:06,588 already explicitly excluding 'moleculekit.share.atomselect' via 2023-10-03T13:18:06,588 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-10-03T13:18:06,588 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-10-03T13:18:06,588 combination with a more fine grained `package-data` configuration. 2023-10-03T13:18:06,588 You can read more about "package data files" on setuptools documentation page: 2023-10-03T13:18:06,588 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-10-03T13:18:06,589 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-10-03T13:18:06,589 even if it does not contain any `.py` files. 2023-10-03T13:18:06,589 On the other hand, currently there is no concept of package data 2023-10-03T13:18:06,589 directory, all directories are treated like packages. 2023-10-03T13:18:06,589 ******************************************************************************** 2023-10-03T13:18:06,589 !! 2023-10-03T13:18:06,589 check.warn(importable) 2023-10-03T13:18:06,590 /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.share.pdb2pqr.residues' is absent from the `packages` configuration. 2023-10-03T13:18:06,590 !! 2023-10-03T13:18:06,590 ******************************************************************************** 2023-10-03T13:18:06,590 ############################ 2023-10-03T13:18:06,590 # Package would be ignored # 2023-10-03T13:18:06,590 ############################ 2023-10-03T13:18:06,590 Python recognizes 'moleculekit.share.pdb2pqr.residues' as an importable package[^1], 2023-10-03T13:18:06,591 but it is absent from setuptools' `packages` configuration. 2023-10-03T13:18:06,591 This leads to an ambiguous overall configuration. If you want to distribute this 2023-10-03T13:18:06,591 package, please make sure that 'moleculekit.share.pdb2pqr.residues' is explicitly added 2023-10-03T13:18:06,591 to the `packages` configuration field. 2023-10-03T13:18:06,591 Alternatively, you can also rely on setuptools' discovery methods 2023-10-03T13:18:06,591 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-10-03T13:18:06,592 instead of `find_packages(...)`/`find:`). 2023-10-03T13:18:06,592 You can read more about "package discovery" on setuptools documentation page: 2023-10-03T13:18:06,592 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-10-03T13:18:06,592 If you don't want 'moleculekit.share.pdb2pqr.residues' to be distributed and are 2023-10-03T13:18:06,592 already explicitly excluding 'moleculekit.share.pdb2pqr.residues' via 2023-10-03T13:18:06,593 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-10-03T13:18:06,593 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-10-03T13:18:06,593 combination with a more fine grained `package-data` configuration. 2023-10-03T13:18:06,593 You can read more about "package data files" on setuptools documentation page: 2023-10-03T13:18:06,593 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-10-03T13:18:06,594 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-10-03T13:18:06,594 even if it does not contain any `.py` files. 2023-10-03T13:18:06,594 On the other hand, currently there is no concept of package data 2023-10-03T13:18:06,594 directory, all directories are treated like packages. 2023-10-03T13:18:06,594 ******************************************************************************** 2023-10-03T13:18:06,594 !! 2023-10-03T13:18:06,594 check.warn(importable) 2023-10-03T13:18:06,595 /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.tmalign' is absent from the `packages` configuration. 2023-10-03T13:18:06,595 !! 2023-10-03T13:18:06,595 ******************************************************************************** 2023-10-03T13:18:06,595 ############################ 2023-10-03T13:18:06,595 # Package would be ignored # 2023-10-03T13:18:06,595 ############################ 2023-10-03T13:18:06,595 Python recognizes 'moleculekit.tmalign' as an importable package[^1], 2023-10-03T13:18:06,596 but it is absent from setuptools' `packages` configuration. 2023-10-03T13:18:06,596 This leads to an ambiguous overall configuration. If you want to distribute this 2023-10-03T13:18:06,596 package, please make sure that 'moleculekit.tmalign' is explicitly added 2023-10-03T13:18:06,596 to the `packages` configuration field. 2023-10-03T13:18:06,596 Alternatively, you can also rely on setuptools' discovery methods 2023-10-03T13:18:06,596 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-10-03T13:18:06,596 instead of `find_packages(...)`/`find:`). 2023-10-03T13:18:06,597 You can read more about "package discovery" on setuptools documentation page: 2023-10-03T13:18:06,597 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-10-03T13:18:06,597 If you don't want 'moleculekit.tmalign' to be distributed and are 2023-10-03T13:18:06,597 already explicitly excluding 'moleculekit.tmalign' via 2023-10-03T13:18:06,597 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-10-03T13:18:06,598 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-10-03T13:18:06,598 combination with a more fine grained `package-data` configuration. 2023-10-03T13:18:06,598 You can read more about "package data files" on setuptools documentation page: 2023-10-03T13:18:06,598 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-10-03T13:18:06,598 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-10-03T13:18:06,599 even if it does not contain any `.py` files. 2023-10-03T13:18:06,599 On the other hand, currently there is no concept of package data 2023-10-03T13:18:06,599 directory, all directories are treated like packages. 2023-10-03T13:18:06,599 ******************************************************************************** 2023-10-03T13:18:06,599 !! 2023-10-03T13:18:06,599 check.warn(importable) 2023-10-03T13:18:06,599 /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.tmalign.include' is absent from the `packages` configuration. 2023-10-03T13:18:06,599 !! 2023-10-03T13:18:06,600 ******************************************************************************** 2023-10-03T13:18:06,600 ############################ 2023-10-03T13:18:06,600 # Package would be ignored # 2023-10-03T13:18:06,600 ############################ 2023-10-03T13:18:06,600 Python recognizes 'moleculekit.tmalign.include' as an importable package[^1], 2023-10-03T13:18:06,600 but it is absent from setuptools' `packages` configuration. 2023-10-03T13:18:06,600 This leads to an ambiguous overall configuration. If you want to distribute this 2023-10-03T13:18:06,601 package, please make sure that 'moleculekit.tmalign.include' is explicitly added 2023-10-03T13:18:06,601 to the `packages` configuration field. 2023-10-03T13:18:06,601 Alternatively, you can also rely on setuptools' discovery methods 2023-10-03T13:18:06,601 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-10-03T13:18:06,601 instead of `find_packages(...)`/`find:`). 2023-10-03T13:18:06,601 You can read more about "package discovery" on setuptools documentation page: 2023-10-03T13:18:06,602 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-10-03T13:18:06,602 If you don't want 'moleculekit.tmalign.include' to be distributed and are 2023-10-03T13:18:06,603 already explicitly excluding 'moleculekit.tmalign.include' via 2023-10-03T13:18:06,603 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-10-03T13:18:06,603 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-10-03T13:18:06,603 combination with a more fine grained `package-data` configuration. 2023-10-03T13:18:06,604 You can read more about "package data files" on setuptools documentation page: 2023-10-03T13:18:06,604 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-10-03T13:18:06,604 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-10-03T13:18:06,604 even if it does not contain any `.py` files. 2023-10-03T13:18:06,605 On the other hand, currently there is no concept of package data 2023-10-03T13:18:06,606 directory, all directories are treated like packages. 2023-10-03T13:18:06,606 ******************************************************************************** 2023-10-03T13:18:06,607 !! 2023-10-03T13:18:06,607 check.warn(importable) 2023-10-03T13:18:06,608 /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.tmalign.src' is absent from the `packages` configuration. 2023-10-03T13:18:06,608 !! 2023-10-03T13:18:06,608 ******************************************************************************** 2023-10-03T13:18:06,608 ############################ 2023-10-03T13:18:06,608 # Package would be ignored # 2023-10-03T13:18:06,609 ############################ 2023-10-03T13:18:06,609 Python recognizes 'moleculekit.tmalign.src' as an importable package[^1], 2023-10-03T13:18:06,609 but it is absent from setuptools' `packages` configuration. 2023-10-03T13:18:06,609 This leads to an ambiguous overall configuration. If you want to distribute this 2023-10-03T13:18:06,609 package, please make sure that 'moleculekit.tmalign.src' is explicitly added 2023-10-03T13:18:06,609 to the `packages` configuration field. 2023-10-03T13:18:06,610 Alternatively, you can also rely on setuptools' discovery methods 2023-10-03T13:18:06,610 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-10-03T13:18:06,610 instead of `find_packages(...)`/`find:`). 2023-10-03T13:18:06,610 You can read more about "package discovery" on setuptools documentation page: 2023-10-03T13:18:06,610 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-10-03T13:18:06,611 If you don't want 'moleculekit.tmalign.src' to be distributed and are 2023-10-03T13:18:06,611 already explicitly excluding 'moleculekit.tmalign.src' via 2023-10-03T13:18:06,611 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-10-03T13:18:06,611 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-10-03T13:18:06,611 combination with a more fine grained `package-data` configuration. 2023-10-03T13:18:06,611 You can read more about "package data files" on setuptools documentation page: 2023-10-03T13:18:06,612 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-10-03T13:18:06,612 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-10-03T13:18:06,612 even if it does not contain any `.py` files. 2023-10-03T13:18:06,612 On the other hand, currently there is no concept of package data 2023-10-03T13:18:06,612 directory, all directories are treated like packages. 2023-10-03T13:18:06,612 ******************************************************************************** 2023-10-03T13:18:06,613 !! 2023-10-03T13:18:06,613 check.warn(importable) 2023-10-03T13:18:06,613 /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.wrapping' is absent from the `packages` configuration. 2023-10-03T13:18:06,613 !! 2023-10-03T13:18:06,613 ******************************************************************************** 2023-10-03T13:18:06,613 ############################ 2023-10-03T13:18:06,614 # Package would be ignored # 2023-10-03T13:18:06,614 ############################ 2023-10-03T13:18:06,614 Python recognizes 'moleculekit.wrapping' as an importable package[^1], 2023-10-03T13:18:06,614 but it is absent from setuptools' `packages` configuration. 2023-10-03T13:18:06,614 This leads to an ambiguous overall configuration. If you want to distribute this 2023-10-03T13:18:06,614 package, please make sure that 'moleculekit.wrapping' is explicitly added 2023-10-03T13:18:06,614 to the `packages` configuration field. 2023-10-03T13:18:06,615 Alternatively, you can also rely on setuptools' discovery methods 2023-10-03T13:18:06,615 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-10-03T13:18:06,615 instead of `find_packages(...)`/`find:`). 2023-10-03T13:18:06,615 You can read more about "package discovery" on setuptools documentation page: 2023-10-03T13:18:06,615 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-10-03T13:18:06,616 If you don't want 'moleculekit.wrapping' to be distributed and are 2023-10-03T13:18:06,616 already explicitly excluding 'moleculekit.wrapping' via 2023-10-03T13:18:06,616 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-10-03T13:18:06,616 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-10-03T13:18:06,616 combination with a more fine grained `package-data` configuration. 2023-10-03T13:18:06,616 You can read more about "package data files" on setuptools documentation page: 2023-10-03T13:18:06,617 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-10-03T13:18:06,617 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-10-03T13:18:06,617 even if it does not contain any `.py` files. 2023-10-03T13:18:06,617 On the other hand, currently there is no concept of package data 2023-10-03T13:18:06,617 directory, all directories are treated like packages. 2023-10-03T13:18:06,617 ******************************************************************************** 2023-10-03T13:18:06,618 !! 2023-10-03T13:18:06,618 check.warn(importable) 2023-10-03T13:18:06,618 /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.xtc_utils' is absent from the `packages` configuration. 2023-10-03T13:18:06,618 !! 2023-10-03T13:18:06,618 ******************************************************************************** 2023-10-03T13:18:06,618 ############################ 2023-10-03T13:18:06,618 # Package would be ignored # 2023-10-03T13:18:06,619 ############################ 2023-10-03T13:18:06,619 Python recognizes 'moleculekit.xtc_utils' as an importable package[^1], 2023-10-03T13:18:06,619 but it is absent from setuptools' `packages` configuration. 2023-10-03T13:18:06,619 This leads to an ambiguous overall configuration. If you want to distribute this 2023-10-03T13:18:06,619 package, please make sure that 'moleculekit.xtc_utils' is explicitly added 2023-10-03T13:18:06,619 to the `packages` configuration field. 2023-10-03T13:18:06,619 Alternatively, you can also rely on setuptools' discovery methods 2023-10-03T13:18:06,620 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-10-03T13:18:06,620 instead of `find_packages(...)`/`find:`). 2023-10-03T13:18:06,620 You can read more about "package discovery" on setuptools documentation page: 2023-10-03T13:18:06,620 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-10-03T13:18:06,620 If you don't want 'moleculekit.xtc_utils' to be distributed and are 2023-10-03T13:18:06,620 already explicitly excluding 'moleculekit.xtc_utils' via 2023-10-03T13:18:06,621 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-10-03T13:18:06,621 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-10-03T13:18:06,621 combination with a more fine grained `package-data` configuration. 2023-10-03T13:18:06,621 You can read more about "package data files" on setuptools documentation page: 2023-10-03T13:18:06,621 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-10-03T13:18:06,622 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-10-03T13:18:06,622 even if it does not contain any `.py` files. 2023-10-03T13:18:06,622 On the other hand, currently there is no concept of package data 2023-10-03T13:18:06,622 directory, all directories are treated like packages. 2023-10-03T13:18:06,622 ******************************************************************************** 2023-10-03T13:18:06,622 !! 2023-10-03T13:18:06,622 check.warn(importable) 2023-10-03T13:18:06,622 /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.xtc_utils.include' is absent from the `packages` configuration. 2023-10-03T13:18:06,623 !! 2023-10-03T13:18:06,623 ******************************************************************************** 2023-10-03T13:18:06,623 ############################ 2023-10-03T13:18:06,623 # Package would be ignored # 2023-10-03T13:18:06,623 ############################ 2023-10-03T13:18:06,623 Python recognizes 'moleculekit.xtc_utils.include' as an importable package[^1], 2023-10-03T13:18:06,623 but it is absent from setuptools' `packages` configuration. 2023-10-03T13:18:06,624 This leads to an ambiguous overall configuration. If you want to distribute this 2023-10-03T13:18:06,624 package, please make sure that 'moleculekit.xtc_utils.include' is explicitly added 2023-10-03T13:18:06,624 to the `packages` configuration field. 2023-10-03T13:18:06,624 Alternatively, you can also rely on setuptools' discovery methods 2023-10-03T13:18:06,624 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-10-03T13:18:06,624 instead of `find_packages(...)`/`find:`). 2023-10-03T13:18:06,625 You can read more about "package discovery" on setuptools documentation page: 2023-10-03T13:18:06,625 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-10-03T13:18:06,625 If you don't want 'moleculekit.xtc_utils.include' to be distributed and are 2023-10-03T13:18:06,625 already explicitly excluding 'moleculekit.xtc_utils.include' via 2023-10-03T13:18:06,625 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-10-03T13:18:06,626 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-10-03T13:18:06,626 combination with a more fine grained `package-data` configuration. 2023-10-03T13:18:06,626 You can read more about "package data files" on setuptools documentation page: 2023-10-03T13:18:06,626 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-10-03T13:18:06,626 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-10-03T13:18:06,627 even if it does not contain any `.py` files. 2023-10-03T13:18:06,627 On the other hand, currently there is no concept of package data 2023-10-03T13:18:06,627 directory, all directories are treated like packages. 2023-10-03T13:18:06,627 ******************************************************************************** 2023-10-03T13:18:06,627 !! 2023-10-03T13:18:06,627 check.warn(importable) 2023-10-03T13:18:06,627 /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/setuptools/command/build_py.py:204: _Warning: Package 'moleculekit.xtc_utils.src' is absent from the `packages` configuration. 2023-10-03T13:18:06,628 !! 2023-10-03T13:18:06,628 ******************************************************************************** 2023-10-03T13:18:06,628 ############################ 2023-10-03T13:18:06,628 # Package would be ignored # 2023-10-03T13:18:06,628 ############################ 2023-10-03T13:18:06,628 Python recognizes 'moleculekit.xtc_utils.src' as an importable package[^1], 2023-10-03T13:18:06,628 but it is absent from setuptools' `packages` configuration. 2023-10-03T13:18:06,629 This leads to an ambiguous overall configuration. If you want to distribute this 2023-10-03T13:18:06,629 package, please make sure that 'moleculekit.xtc_utils.src' is explicitly added 2023-10-03T13:18:06,629 to the `packages` configuration field. 2023-10-03T13:18:06,629 Alternatively, you can also rely on setuptools' discovery methods 2023-10-03T13:18:06,629 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-10-03T13:18:06,629 instead of `find_packages(...)`/`find:`). 2023-10-03T13:18:06,629 You can read more about "package discovery" on setuptools documentation page: 2023-10-03T13:18:06,630 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-10-03T13:18:06,630 If you don't want 'moleculekit.xtc_utils.src' to be distributed and are 2023-10-03T13:18:06,630 already explicitly excluding 'moleculekit.xtc_utils.src' via 2023-10-03T13:18:06,630 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-10-03T13:18:06,630 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-10-03T13:18:06,630 combination with a more fine grained `package-data` configuration. 2023-10-03T13:18:06,631 You can read more about "package data files" on setuptools documentation page: 2023-10-03T13:18:06,631 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-10-03T13:18:06,631 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-10-03T13:18:06,631 even if it does not contain any `.py` files. 2023-10-03T13:18:06,631 On the other hand, currently there is no concept of package data 2023-10-03T13:18:06,632 directory, all directories are treated like packages. 2023-10-03T13:18:06,632 ******************************************************************************** 2023-10-03T13:18:06,632 !! 2023-10-03T13:18:06,632 check.warn(importable) 2023-10-03T13:18:06,632 copying moleculekit/logging.ini -> build/lib.linux-armv7l-cpython-39/moleculekit 2023-10-03T13:18:06,632 copying moleculekit/vmd_wrapper -> build/lib.linux-armv7l-cpython-39/moleculekit 2023-10-03T13:18:06,632 creating build/lib.linux-armv7l-cpython-39/moleculekit/atomselect_utils 2023-10-03T13:18:06,632 copying moleculekit/atomselect_utils/atomselect_utils.cpp -> build/lib.linux-armv7l-cpython-39/moleculekit/atomselect_utils 2023-10-03T13:18:06,654 copying moleculekit/atomselect_utils/atomselect_utils.pyx -> build/lib.linux-armv7l-cpython-39/moleculekit/atomselect_utils 2023-10-03T13:18:06,664 creating build/lib.linux-armv7l-cpython-39/moleculekit/bondguesser_utils 2023-10-03T13:18:06,667 copying moleculekit/bondguesser_utils/bondguesser_utils.cpp -> build/lib.linux-armv7l-cpython-39/moleculekit/bondguesser_utils 2023-10-03T13:18:06,698 copying moleculekit/bondguesser_utils/bondguesser_utils.pyx -> build/lib.linux-armv7l-cpython-39/moleculekit/bondguesser_utils 2023-10-03T13:18:06,700 creating build/lib.linux-armv7l-cpython-39/moleculekit/distance_utils 2023-10-03T13:18:06,701 copying moleculekit/distance_utils/distance_utils.cpp -> build/lib.linux-armv7l-cpython-39/moleculekit/distance_utils 2023-10-03T13:18:06,732 copying moleculekit/distance_utils/distance_utils.pyx -> build/lib.linux-armv7l-cpython-39/moleculekit/distance_utils 2023-10-03T13:18:06,734 creating build/lib.linux-armv7l-cpython-39/moleculekit/occupancy_utils 2023-10-03T13:18:06,735 copying moleculekit/occupancy_utils/occupancy_utils.cpp -> build/lib.linux-armv7l-cpython-39/moleculekit/occupancy_utils 2023-10-03T13:18:06,763 copying moleculekit/occupancy_utils/occupancy_utils.pyx -> build/lib.linux-armv7l-cpython-39/moleculekit/occupancy_utils 2023-10-03T13:18:06,765 creating build/lib.linux-armv7l-cpython-39/moleculekit/share 2023-10-03T13:18:06,766 copying moleculekit/share/ALA.cif -> build/lib.linux-armv7l-cpython-39/moleculekit/share 2023-10-03T13:18:06,768 copying moleculekit/share/backbone.cif -> build/lib.linux-armv7l-cpython-39/moleculekit/share 2023-10-03T13:18:06,770 copying moleculekit/share/opm_sequences.json -> build/lib.linux-armv7l-cpython-39/moleculekit/share 2023-10-03T13:18:07,020 creating build/lib.linux-armv7l-cpython-39/moleculekit/share/atomselect 2023-10-03T13:18:07,022 copying moleculekit/share/atomselect/atomselect.json -> build/lib.linux-armv7l-cpython-39/moleculekit/share/atomselect 2023-10-03T13:18:07,025 creating build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr 2023-10-03T13:18:07,026 creating build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,027 copying moleculekit/share/pdb2pqr/residues/.gitkeep -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,030 copying moleculekit/share/pdb2pqr/residues/004.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,033 copying moleculekit/share/pdb2pqr/residues/004.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,035 copying moleculekit/share/pdb2pqr/residues/03Y.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,038 copying moleculekit/share/pdb2pqr/residues/03Y.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,042 copying moleculekit/share/pdb2pqr/residues/0A1.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,045 copying moleculekit/share/pdb2pqr/residues/0A1.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,048 copying moleculekit/share/pdb2pqr/residues/0AF.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,051 copying moleculekit/share/pdb2pqr/residues/0AF.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,054 copying moleculekit/share/pdb2pqr/residues/0BN.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,057 copying moleculekit/share/pdb2pqr/residues/0BN.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,060 copying moleculekit/share/pdb2pqr/residues/1MH.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,063 copying moleculekit/share/pdb2pqr/residues/1MH.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,066 copying moleculekit/share/pdb2pqr/residues/2AS.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,068 copying moleculekit/share/pdb2pqr/residues/2AS.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,071 copying moleculekit/share/pdb2pqr/residues/2GX.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,074 copying moleculekit/share/pdb2pqr/residues/2GX.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,077 copying moleculekit/share/pdb2pqr/residues/2ML.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,080 copying moleculekit/share/pdb2pqr/residues/2ML.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,082 copying moleculekit/share/pdb2pqr/residues/2MR.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,084 copying moleculekit/share/pdb2pqr/residues/2MR.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,087 copying moleculekit/share/pdb2pqr/residues/4IN.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,089 copying moleculekit/share/pdb2pqr/residues/4IN.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,092 copying moleculekit/share/pdb2pqr/residues/4PH.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,094 copying moleculekit/share/pdb2pqr/residues/4PH.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,096 copying moleculekit/share/pdb2pqr/residues/4PQ.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,098 copying moleculekit/share/pdb2pqr/residues/4PQ.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,101 copying moleculekit/share/pdb2pqr/residues/5JP.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,103 copying moleculekit/share/pdb2pqr/residues/5JP.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,105 copying moleculekit/share/pdb2pqr/residues/AA4.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,108 copying moleculekit/share/pdb2pqr/residues/AA4.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,110 copying moleculekit/share/pdb2pqr/residues/ABA.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,112 copying moleculekit/share/pdb2pqr/residues/ABA.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,115 copying moleculekit/share/pdb2pqr/residues/AHP.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,117 copying moleculekit/share/pdb2pqr/residues/AHP.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,119 copying moleculekit/share/pdb2pqr/residues/ALC.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,121 copying moleculekit/share/pdb2pqr/residues/ALC.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,123 copying moleculekit/share/pdb2pqr/residues/ALN.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,125 copying moleculekit/share/pdb2pqr/residues/ALN.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,127 copying moleculekit/share/pdb2pqr/residues/ALY.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,129 copying moleculekit/share/pdb2pqr/residues/ALY.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,131 copying moleculekit/share/pdb2pqr/residues/APD.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,133 copying moleculekit/share/pdb2pqr/residues/APD.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,135 copying moleculekit/share/pdb2pqr/residues/BB8.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,137 copying moleculekit/share/pdb2pqr/residues/BB8.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,139 copying moleculekit/share/pdb2pqr/residues/BCS.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,141 copying moleculekit/share/pdb2pqr/residues/BCS.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,143 copying moleculekit/share/pdb2pqr/residues/BTK.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,145 copying moleculekit/share/pdb2pqr/residues/BTK.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,147 copying moleculekit/share/pdb2pqr/residues/CCS.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,149 copying moleculekit/share/pdb2pqr/residues/CCS.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,151 copying moleculekit/share/pdb2pqr/residues/CGU.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,153 copying moleculekit/share/pdb2pqr/residues/CGU.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,155 copying moleculekit/share/pdb2pqr/residues/CSA.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,156 copying moleculekit/share/pdb2pqr/residues/CSA.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,158 copying moleculekit/share/pdb2pqr/residues/CSO.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,160 copying moleculekit/share/pdb2pqr/residues/CSO.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,162 copying moleculekit/share/pdb2pqr/residues/CSP.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,164 copying moleculekit/share/pdb2pqr/residues/CSP.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,166 copying moleculekit/share/pdb2pqr/residues/CSS.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,168 copying moleculekit/share/pdb2pqr/residues/CSS.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,170 copying moleculekit/share/pdb2pqr/residues/D4P.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,172 copying moleculekit/share/pdb2pqr/residues/D4P.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,174 copying moleculekit/share/pdb2pqr/residues/DA2.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,175 copying moleculekit/share/pdb2pqr/residues/DA2.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,178 copying moleculekit/share/pdb2pqr/residues/DAB.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,180 copying moleculekit/share/pdb2pqr/residues/DAB.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,181 copying moleculekit/share/pdb2pqr/residues/DAH.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,183 copying moleculekit/share/pdb2pqr/residues/DAH.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,185 copying moleculekit/share/pdb2pqr/residues/DPP.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,187 copying moleculekit/share/pdb2pqr/residues/DPP.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,189 copying moleculekit/share/pdb2pqr/residues/ESC.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,191 copying moleculekit/share/pdb2pqr/residues/ESC.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,192 copying moleculekit/share/pdb2pqr/residues/FGL.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,194 copying moleculekit/share/pdb2pqr/residues/FGL.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,196 copying moleculekit/share/pdb2pqr/residues/GHG.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,198 copying moleculekit/share/pdb2pqr/residues/GHG.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,200 copying moleculekit/share/pdb2pqr/residues/GME.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,201 copying moleculekit/share/pdb2pqr/residues/GME.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,203 copying moleculekit/share/pdb2pqr/residues/GNC.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,205 copying moleculekit/share/pdb2pqr/residues/GNC.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,207 copying moleculekit/share/pdb2pqr/residues/HHK.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,209 copying moleculekit/share/pdb2pqr/residues/HHK.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,211 copying moleculekit/share/pdb2pqr/residues/HLU.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,213 copying moleculekit/share/pdb2pqr/residues/HLU.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,215 copying moleculekit/share/pdb2pqr/residues/HLX.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,217 copying moleculekit/share/pdb2pqr/residues/HLX.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,219 copying moleculekit/share/pdb2pqr/residues/HOX.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,221 copying moleculekit/share/pdb2pqr/residues/HOX.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,223 copying moleculekit/share/pdb2pqr/residues/HPE.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,224 copying moleculekit/share/pdb2pqr/residues/HPE.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,226 copying moleculekit/share/pdb2pqr/residues/HQA.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,228 copying moleculekit/share/pdb2pqr/residues/HQA.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,230 copying moleculekit/share/pdb2pqr/residues/HTR.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,232 copying moleculekit/share/pdb2pqr/residues/HTR.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,234 copying moleculekit/share/pdb2pqr/residues/HYP.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,236 copying moleculekit/share/pdb2pqr/residues/HYP.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,238 copying moleculekit/share/pdb2pqr/residues/I2M.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,240 copying moleculekit/share/pdb2pqr/residues/I2M.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,242 copying moleculekit/share/pdb2pqr/residues/IGL.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,244 copying moleculekit/share/pdb2pqr/residues/IGL.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,246 copying moleculekit/share/pdb2pqr/residues/IIL.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,248 copying moleculekit/share/pdb2pqr/residues/IIL.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,250 copying moleculekit/share/pdb2pqr/residues/IML.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,252 copying moleculekit/share/pdb2pqr/residues/IML.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,254 copying moleculekit/share/pdb2pqr/residues/KYN.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,256 copying moleculekit/share/pdb2pqr/residues/KYN.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,258 copying moleculekit/share/pdb2pqr/residues/LME.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,259 copying moleculekit/share/pdb2pqr/residues/LME.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,261 copying moleculekit/share/pdb2pqr/residues/LMQ.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,263 copying moleculekit/share/pdb2pqr/residues/LMQ.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,265 copying moleculekit/share/pdb2pqr/residues/LYZ.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,267 copying moleculekit/share/pdb2pqr/residues/LYZ.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,269 copying moleculekit/share/pdb2pqr/residues/M3L.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,271 copying moleculekit/share/pdb2pqr/residues/M3L.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,273 copying moleculekit/share/pdb2pqr/residues/ME0.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,275 copying moleculekit/share/pdb2pqr/residues/ME0.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,277 copying moleculekit/share/pdb2pqr/residues/MEA.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,279 copying moleculekit/share/pdb2pqr/residues/MEA.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,281 copying moleculekit/share/pdb2pqr/residues/MEN.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,282 copying moleculekit/share/pdb2pqr/residues/MEN.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,284 copying moleculekit/share/pdb2pqr/residues/MEQ.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,286 copying moleculekit/share/pdb2pqr/residues/MEQ.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,288 copying moleculekit/share/pdb2pqr/residues/MLE.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,290 copying moleculekit/share/pdb2pqr/residues/MLE.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,292 copying moleculekit/share/pdb2pqr/residues/MLY.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,294 copying moleculekit/share/pdb2pqr/residues/MLY.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,296 copying moleculekit/share/pdb2pqr/residues/MLZ.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,298 copying moleculekit/share/pdb2pqr/residues/MLZ.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,300 copying moleculekit/share/pdb2pqr/residues/MME.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,301 copying moleculekit/share/pdb2pqr/residues/MME.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,303 copying moleculekit/share/pdb2pqr/residues/MMO.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,305 copying moleculekit/share/pdb2pqr/residues/MMO.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,307 copying moleculekit/share/pdb2pqr/residues/MVA.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,309 copying moleculekit/share/pdb2pqr/residues/MVA.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,311 copying moleculekit/share/pdb2pqr/residues/NAL.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,313 copying moleculekit/share/pdb2pqr/residues/NAL.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,315 copying moleculekit/share/pdb2pqr/residues/NCY.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,317 copying moleculekit/share/pdb2pqr/residues/NCY.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,319 copying moleculekit/share/pdb2pqr/residues/NLE.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,321 copying moleculekit/share/pdb2pqr/residues/NLE.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,323 copying moleculekit/share/pdb2pqr/residues/NVA.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,325 copying moleculekit/share/pdb2pqr/residues/NVA.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,327 copying moleculekit/share/pdb2pqr/residues/NZC.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,328 copying moleculekit/share/pdb2pqr/residues/NZC.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,330 copying moleculekit/share/pdb2pqr/residues/OCY.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,332 copying moleculekit/share/pdb2pqr/residues/OCY.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,334 copying moleculekit/share/pdb2pqr/residues/OMX.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,336 copying moleculekit/share/pdb2pqr/residues/OMX.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,338 copying moleculekit/share/pdb2pqr/residues/ONL.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,340 copying moleculekit/share/pdb2pqr/residues/ONL.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,342 copying moleculekit/share/pdb2pqr/residues/ORM.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,343 copying moleculekit/share/pdb2pqr/residues/ORM.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,345 copying moleculekit/share/pdb2pqr/residues/P1L.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,348 copying moleculekit/share/pdb2pqr/residues/P1L.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,350 copying moleculekit/share/pdb2pqr/residues/PCA.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,352 copying moleculekit/share/pdb2pqr/residues/PCA.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,354 copying moleculekit/share/pdb2pqr/residues/PRK.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,356 copying moleculekit/share/pdb2pqr/residues/PRK.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,358 copying moleculekit/share/pdb2pqr/residues/PTR.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,360 copying moleculekit/share/pdb2pqr/residues/PTR.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,362 copying moleculekit/share/pdb2pqr/residues/SEP.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,364 copying moleculekit/share/pdb2pqr/residues/SEP.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,366 copying moleculekit/share/pdb2pqr/residues/TPO.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,368 copying moleculekit/share/pdb2pqr/residues/TPO.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,370 copying moleculekit/share/pdb2pqr/residues/TRO.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,372 copying moleculekit/share/pdb2pqr/residues/TRO.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,374 copying moleculekit/share/pdb2pqr/residues/TY2.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,376 copying moleculekit/share/pdb2pqr/residues/TY2.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,378 copying moleculekit/share/pdb2pqr/residues/TYQ.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,379 copying moleculekit/share/pdb2pqr/residues/TYQ.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,381 copying moleculekit/share/pdb2pqr/residues/YCM.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,383 copying moleculekit/share/pdb2pqr/residues/YCM.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,385 copying moleculekit/share/pdb2pqr/residues/YNM.dat -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,387 copying moleculekit/share/pdb2pqr/residues/YNM.xml -> build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues 2023-10-03T13:18:07,389 creating build/lib.linux-armv7l-cpython-39/moleculekit/tmalign 2023-10-03T13:18:07,390 copying moleculekit/tmalign/tmalign_util.cpp -> build/lib.linux-armv7l-cpython-39/moleculekit/tmalign 2023-10-03T13:18:07,410 copying moleculekit/tmalign/tmalign_util.pyx -> build/lib.linux-armv7l-cpython-39/moleculekit/tmalign 2023-10-03T13:18:07,413 copying moleculekit/tmalign/tmalignlib.pxd -> build/lib.linux-armv7l-cpython-39/moleculekit/tmalign 2023-10-03T13:18:07,415 creating build/lib.linux-armv7l-cpython-39/moleculekit/tmalign/include 2023-10-03T13:18:07,415 copying moleculekit/tmalign/include/TMAlign.h -> build/lib.linux-armv7l-cpython-39/moleculekit/tmalign/include 2023-10-03T13:18:07,418 creating build/lib.linux-armv7l-cpython-39/moleculekit/tmalign/src 2023-10-03T13:18:07,418 copying moleculekit/tmalign/src/TMAlign.cpp -> build/lib.linux-armv7l-cpython-39/moleculekit/tmalign/src 2023-10-03T13:18:07,424 creating build/lib.linux-armv7l-cpython-39/moleculekit/wrapping 2023-10-03T13:18:07,424 copying moleculekit/wrapping/wrapping.cpp -> build/lib.linux-armv7l-cpython-39/moleculekit/wrapping 2023-10-03T13:18:07,443 copying moleculekit/wrapping/wrapping.pyx -> build/lib.linux-armv7l-cpython-39/moleculekit/wrapping 2023-10-03T13:18:07,445 creating build/lib.linux-armv7l-cpython-39/moleculekit/xtc_utils 2023-10-03T13:18:07,446 copying moleculekit/xtc_utils/xtc.cpp -> build/lib.linux-armv7l-cpython-39/moleculekit/xtc_utils 2023-10-03T13:18:07,466 copying moleculekit/xtc_utils/xtc.pyx -> build/lib.linux-armv7l-cpython-39/moleculekit/xtc_utils 2023-10-03T13:18:07,468 copying moleculekit/xtc_utils/xtclib.pxd -> build/lib.linux-armv7l-cpython-39/moleculekit/xtc_utils 2023-10-03T13:18:07,470 creating build/lib.linux-armv7l-cpython-39/moleculekit/xtc_utils/include 2023-10-03T13:18:07,471 copying moleculekit/xtc_utils/include/xdrfile.h -> build/lib.linux-armv7l-cpython-39/moleculekit/xtc_utils/include 2023-10-03T13:18:07,474 copying moleculekit/xtc_utils/include/xdrfile_xtc.h -> build/lib.linux-armv7l-cpython-39/moleculekit/xtc_utils/include 2023-10-03T13:18:07,477 copying moleculekit/xtc_utils/include/xtc.h -> build/lib.linux-armv7l-cpython-39/moleculekit/xtc_utils/include 2023-10-03T13:18:07,479 creating build/lib.linux-armv7l-cpython-39/moleculekit/xtc_utils/src 2023-10-03T13:18:07,480 copying moleculekit/xtc_utils/src/xdrfile.cpp -> build/lib.linux-armv7l-cpython-39/moleculekit/xtc_utils/src 2023-10-03T13:18:07,483 copying moleculekit/xtc_utils/src/xdrfile_xtc.cpp -> build/lib.linux-armv7l-cpython-39/moleculekit/xtc_utils/src 2023-10-03T13:18:07,486 copying moleculekit/xtc_utils/src/xtc.cpp -> build/lib.linux-armv7l-cpython-39/moleculekit/xtc_utils/src 2023-10-03T13:18:07,488 creating build/lib.linux-armv7l-cpython-39/moleculekit/interactions/cationpi 2023-10-03T13:18:07,489 copying moleculekit/interactions/cationpi/cationpi.cpp -> build/lib.linux-armv7l-cpython-39/moleculekit/interactions/cationpi 2023-10-03T13:18:07,517 copying moleculekit/interactions/cationpi/cationpi.pyx -> build/lib.linux-armv7l-cpython-39/moleculekit/interactions/cationpi 2023-10-03T13:18:07,520 creating build/lib.linux-armv7l-cpython-39/moleculekit/interactions/hbonds 2023-10-03T13:18:07,521 copying moleculekit/interactions/hbonds/hbonds.cpp -> build/lib.linux-armv7l-cpython-39/moleculekit/interactions/hbonds 2023-10-03T13:18:07,541 copying moleculekit/interactions/hbonds/hbonds.pyx -> build/lib.linux-armv7l-cpython-39/moleculekit/interactions/hbonds 2023-10-03T13:18:07,543 creating build/lib.linux-armv7l-cpython-39/moleculekit/interactions/pipi 2023-10-03T13:18:07,544 copying moleculekit/interactions/pipi/pipi.cpp -> build/lib.linux-armv7l-cpython-39/moleculekit/interactions/pipi 2023-10-03T13:18:07,564 copying moleculekit/interactions/pipi/pipi.pyx -> build/lib.linux-armv7l-cpython-39/moleculekit/interactions/pipi 2023-10-03T13:18:07,567 creating build/lib.linux-armv7l-cpython-39/moleculekit/interactions/sigmahole 2023-10-03T13:18:07,568 copying moleculekit/interactions/sigmahole/sigmahole.cpp -> build/lib.linux-armv7l-cpython-39/moleculekit/interactions/sigmahole 2023-10-03T13:18:07,587 copying moleculekit/interactions/sigmahole/sigmahole.pyx -> build/lib.linux-armv7l-cpython-39/moleculekit/interactions/sigmahole 2023-10-03T13:18:07,600 UPDATING build/lib.linux-armv7l-cpython-39/moleculekit/_version.py 2023-10-03T13:18:07,600 set build/lib.linux-armv7l-cpython-39/moleculekit/_version.py to '1.7.10' 2023-10-03T13:18:07,601 running build_ext 2023-10-03T13:18:07,612 building 'moleculekit.interactions.hbonds' extension 2023-10-03T13:18:07,613 creating build/temp.linux-armv7l-cpython-39 2023-10-03T13:18:07,613 creating build/temp.linux-armv7l-cpython-39/moleculekit 2023-10-03T13:18:07,614 creating build/temp.linux-armv7l-cpython-39/moleculekit/interactions 2023-10-03T13:18:07,615 creating build/temp.linux-armv7l-cpython-39/moleculekit/interactions/hbonds 2023-10-03T13:18:07,616 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c moleculekit/interactions/hbonds/hbonds.cpp -o build/temp.linux-armv7l-cpython-39/moleculekit/interactions/hbonds/hbonds.o -O3 2023-10-03T13:18:07,910 In file included from /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2023-10-03T13:18:07,910 from /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2023-10-03T13:18:07,910 from /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:5, 2023-10-03T13:18:07,910 from moleculekit/interactions/hbonds/hbonds.cpp:1192: 2023-10-03T13:18:07,910 /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-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] 2023-10-03T13:18:07,910 17 | #warning "Using deprecated NumPy API, disable it with " \ 2023-10-03T13:18:07,910 | ^~~~~~~ 2023-10-03T13:18:33,961 arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/moleculekit/interactions/hbonds/hbonds.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/moleculekit/interactions/hbonds.cpython-39-arm-linux-gnueabihf.so 2023-10-03T13:18:34,287 building 'moleculekit.interactions.pipi' extension 2023-10-03T13:18:34,288 creating build/temp.linux-armv7l-cpython-39/moleculekit/interactions/pipi 2023-10-03T13:18:34,288 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c moleculekit/interactions/pipi/pipi.cpp -o build/temp.linux-armv7l-cpython-39/moleculekit/interactions/pipi/pipi.o -O3 2023-10-03T13:18:34,516 In file included from /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2023-10-03T13:18:34,516 from /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2023-10-03T13:18:34,516 from /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:5, 2023-10-03T13:18:34,516 from moleculekit/interactions/pipi/pipi.cpp:1192: 2023-10-03T13:18:34,517 /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-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] 2023-10-03T13:18:34,517 17 | #warning "Using deprecated NumPy API, disable it with " \ 2023-10-03T13:18:34,517 | ^~~~~~~ 2023-10-03T13:19:02,603 arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/moleculekit/interactions/pipi/pipi.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/moleculekit/interactions/pipi.cpython-39-arm-linux-gnueabihf.so 2023-10-03T13:19:02,921 building 'moleculekit.interactions.cationpi' extension 2023-10-03T13:19:02,922 creating build/temp.linux-armv7l-cpython-39/moleculekit/interactions/cationpi 2023-10-03T13:19:02,923 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c moleculekit/interactions/cationpi/cationpi.cpp -o build/temp.linux-armv7l-cpython-39/moleculekit/interactions/cationpi/cationpi.o -O3 2023-10-03T13:19:03,151 In file included from /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2023-10-03T13:19:03,152 from /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2023-10-03T13:19:03,152 from /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:5, 2023-10-03T13:19:03,152 from moleculekit/interactions/cationpi/cationpi.cpp:1192: 2023-10-03T13:19:03,152 /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-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] 2023-10-03T13:19:03,152 17 | #warning "Using deprecated NumPy API, disable it with " \ 2023-10-03T13:19:03,152 | ^~~~~~~ 2023-10-03T13:19:30,833 arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/moleculekit/interactions/cationpi/cationpi.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/moleculekit/interactions/cationpi.cpython-39-arm-linux-gnueabihf.so 2023-10-03T13:19:31,148 building 'moleculekit.interactions.sigmahole' extension 2023-10-03T13:19:31,149 creating build/temp.linux-armv7l-cpython-39/moleculekit/interactions/sigmahole 2023-10-03T13:19:31,149 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c moleculekit/interactions/sigmahole/sigmahole.cpp -o build/temp.linux-armv7l-cpython-39/moleculekit/interactions/sigmahole/sigmahole.o -O3 2023-10-03T13:19:31,380 In file included from /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2023-10-03T13:19:31,380 from /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2023-10-03T13:19:31,380 from /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:5, 2023-10-03T13:19:31,381 from moleculekit/interactions/sigmahole/sigmahole.cpp:1192: 2023-10-03T13:19:31,381 /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-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] 2023-10-03T13:19:31,381 17 | #warning "Using deprecated NumPy API, disable it with " \ 2023-10-03T13:19:31,381 | ^~~~~~~ 2023-10-03T13:19:58,634 arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/moleculekit/interactions/sigmahole/sigmahole.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/moleculekit/interactions/sigmahole.cpython-39-arm-linux-gnueabihf.so 2023-10-03T13:19:58,948 building 'moleculekit.wrapping' extension 2023-10-03T13:19:58,949 creating build/temp.linux-armv7l-cpython-39/moleculekit/wrapping 2023-10-03T13:19:58,950 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c moleculekit/wrapping/wrapping.cpp -o build/temp.linux-armv7l-cpython-39/moleculekit/wrapping/wrapping.o -O3 2023-10-03T13:19:59,180 In file included from /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2023-10-03T13:19:59,181 from /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2023-10-03T13:19:59,181 from /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:5, 2023-10-03T13:19:59,181 from moleculekit/wrapping/wrapping.cpp:1192: 2023-10-03T13:19:59,181 /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-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] 2023-10-03T13:19:59,181 17 | #warning "Using deprecated NumPy API, disable it with " \ 2023-10-03T13:19:59,181 | ^~~~~~~ 2023-10-03T13:20:22,927 arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/moleculekit/wrapping/wrapping.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/moleculekit/wrapping.cpython-39-arm-linux-gnueabihf.so 2023-10-03T13:20:23,147 building 'moleculekit.bondguesser_utils' extension 2023-10-03T13:20:23,148 creating build/temp.linux-armv7l-cpython-39/moleculekit/bondguesser_utils 2023-10-03T13:20:23,149 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c moleculekit/bondguesser_utils/bondguesser_utils.cpp -o build/temp.linux-armv7l-cpython-39/moleculekit/bondguesser_utils/bondguesser_utils.o -O3 2023-10-03T13:20:23,377 In file included from /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2023-10-03T13:20:23,377 from /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2023-10-03T13:20:23,377 from /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:5, 2023-10-03T13:20:23,377 from moleculekit/bondguesser_utils/bondguesser_utils.cpp:1192: 2023-10-03T13:20:23,377 /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-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] 2023-10-03T13:20:23,378 17 | #warning "Using deprecated NumPy API, disable it with " \ 2023-10-03T13:20:23,378 | ^~~~~~~ 2023-10-03T13:20:24,921 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)’: 2023-10-03T13:20:24,921 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] 2023-10-03T13:20:24,921 19831 | for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_2; __pyx_t_3+=1) { 2023-10-03T13:20:24,921 | ~~~~~~~~~~^~~~~~~~~~~ 2023-10-03T13:20:24,922 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] 2023-10-03T13:20:24,922 19843 | for (__pyx_t_6 = 0; __pyx_t_6 < __pyx_t_5; __pyx_t_6+=1) { 2023-10-03T13:20:24,922 | ~~~~~~~~~~^~~~~~~~~~~ 2023-10-03T13:20:24,922 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] 2023-10-03T13:20:24,922 19855 | for (__pyx_t_9 = 0; __pyx_t_9 < __pyx_t_8; __pyx_t_9+=1) { 2023-10-03T13:20:24,922 | ~~~~~~~~~~^~~~~~~~~~~ 2023-10-03T13:20:24,923 moleculekit/bondguesser_utils/bondguesser_utils.cpp:19894:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-10-03T13:20:24,923 19894 | __pyx_t_12 = (__pyx_v_xi < (__pyx_v_xboxes - 1)); 2023-10-03T13:20:24,923 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-10-03T13:20:24,923 moleculekit/bondguesser_utils/bondguesser_utils.cpp:19933:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-10-03T13:20:24,923 19933 | __pyx_t_12 = (__pyx_v_yi < (__pyx_v_yboxes - 1)); 2023-10-03T13:20:24,923 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-10-03T13:20:24,923 moleculekit/bondguesser_utils/bondguesser_utils.cpp:19972:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-10-03T13:20:24,924 19972 | __pyx_t_12 = (__pyx_v_zi < (__pyx_v_zboxes - 1)); 2023-10-03T13:20:24,924 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-10-03T13:20:24,924 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20011:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-10-03T13:20:24,924 20011 | __pyx_t_13 = (__pyx_v_xi < (__pyx_v_xboxes - 1)); 2023-10-03T13:20:24,924 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-10-03T13:20:24,924 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20017:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-10-03T13:20:24,924 20017 | __pyx_t_13 = (__pyx_v_yi < (__pyx_v_yboxes - 1)); 2023-10-03T13:20:24,925 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-10-03T13:20:24,925 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20058:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-10-03T13:20:24,925 20058 | __pyx_t_13 = (__pyx_v_xi < (__pyx_v_xboxes - 1)); 2023-10-03T13:20:24,925 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-10-03T13:20:24,925 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20064:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-10-03T13:20:24,925 20064 | __pyx_t_13 = (__pyx_v_zi < (__pyx_v_zboxes - 1)); 2023-10-03T13:20:24,925 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-10-03T13:20:24,926 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20105:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-10-03T13:20:24,926 20105 | __pyx_t_13 = (__pyx_v_yi < (__pyx_v_yboxes - 1)); 2023-10-03T13:20:24,926 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-10-03T13:20:24,926 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20111:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-10-03T13:20:24,926 20111 | __pyx_t_13 = (__pyx_v_zi < (__pyx_v_zboxes - 1)); 2023-10-03T13:20:24,926 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-10-03T13:20:24,926 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20152:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-10-03T13:20:24,927 20152 | __pyx_t_13 = (__pyx_v_xi < (__pyx_v_xboxes - 1)); 2023-10-03T13:20:24,927 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-10-03T13:20:24,927 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20205:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-10-03T13:20:24,927 20205 | __pyx_t_13 = (__pyx_v_zi < (__pyx_v_zboxes - 1)); 2023-10-03T13:20:24,927 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-10-03T13:20:24,927 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20252:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-10-03T13:20:24,927 20252 | __pyx_t_13 = (__pyx_v_zi < (__pyx_v_zboxes - 1)); 2023-10-03T13:20:24,928 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-10-03T13:20:24,928 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20293:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-10-03T13:20:24,928 20293 | __pyx_t_13 = (__pyx_v_xi < (__pyx_v_xboxes - 1)); 2023-10-03T13:20:24,928 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-10-03T13:20:24,928 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20299:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-10-03T13:20:24,928 20299 | __pyx_t_13 = (__pyx_v_yi < (__pyx_v_yboxes - 1)); 2023-10-03T13:20:24,928 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-10-03T13:20:24,929 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20305:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-10-03T13:20:24,929 20305 | __pyx_t_13 = (__pyx_v_zi < (__pyx_v_zboxes - 1)); 2023-10-03T13:20:24,929 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-10-03T13:20:24,929 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20352:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-10-03T13:20:24,929 20352 | __pyx_t_13 = (__pyx_v_yi < (__pyx_v_yboxes - 1)); 2023-10-03T13:20:24,929 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-10-03T13:20:24,929 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20358:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-10-03T13:20:24,930 20358 | __pyx_t_13 = (__pyx_v_zi < (__pyx_v_zboxes - 1)); 2023-10-03T13:20:24,930 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-10-03T13:20:24,930 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20399:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-10-03T13:20:24,930 20399 | __pyx_t_13 = (__pyx_v_xi < (__pyx_v_xboxes - 1)); 2023-10-03T13:20:24,930 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-10-03T13:20:24,930 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20411:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-10-03T13:20:24,930 20411 | __pyx_t_13 = (__pyx_v_zi < (__pyx_v_zboxes - 1)); 2023-10-03T13:20:24,931 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-10-03T13:20:24,931 moleculekit/bondguesser_utils/bondguesser_utils.cpp:20464:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2023-10-03T13:20:24,931 20464 | __pyx_t_13 = (__pyx_v_zi < (__pyx_v_zboxes - 1)); 2023-10-03T13:20:24,931 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2023-10-03T13:20:24,950 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)’: 2023-10-03T13:20:24,950 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] 2023-10-03T13:20:24,950 21089 | __pyx_t_6 = (__pyx_v_boxneigh == __pyx_v_n_boxes); 2023-10-03T13:20:24,950 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ 2023-10-03T13:20:24,951 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] 2023-10-03T13:20:24,951 21126 | __pyx_t_6 = (__pyx_v_boxneigh == __pyx_v_boxidx); 2023-10-03T13:20:24,951 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 2023-10-03T13:20:47,907 arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/moleculekit/bondguesser_utils/bondguesser_utils.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/moleculekit/bondguesser_utils.cpython-39-arm-linux-gnueabihf.so 2023-10-03T13:20:48,215 building 'moleculekit.atomselect_utils' extension 2023-10-03T13:20:48,216 creating build/temp.linux-armv7l-cpython-39/moleculekit/atomselect_utils 2023-10-03T13:20:48,217 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c moleculekit/atomselect_utils/atomselect_utils.cpp -o build/temp.linux-armv7l-cpython-39/moleculekit/atomselect_utils/atomselect_utils.o -O3 2023-10-03T13:20:48,451 In file included from /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2023-10-03T13:20:48,451 from /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2023-10-03T13:20:48,451 from /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:5, 2023-10-03T13:20:48,452 from moleculekit/atomselect_utils/atomselect_utils.cpp:1209: 2023-10-03T13:20:48,452 /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-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] 2023-10-03T13:20:48,452 17 | #warning "Using deprecated NumPy API, disable it with " \ 2023-10-03T13:20:48,452 | ^~~~~~~ 2023-10-03T13:20:50,209 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 >&)’: 2023-10-03T13:20:50,209 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] 2023-10-03T13:20:50,210 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); 2023-10-03T13:20:50,210 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 2023-10-03T13:20:50,214 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 >&)’: 2023-10-03T13:20:50,215 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] 2023-10-03T13:20:50,215 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); 2023-10-03T13:20:50,215 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2023-10-03T13:20:50,220 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 >&)’: 2023-10-03T13:20:50,220 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] 2023-10-03T13:20:50,220 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); 2023-10-03T13:20:50,220 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2023-10-03T13:21:20,586 arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/moleculekit/atomselect_utils/atomselect_utils.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/moleculekit/atomselect_utils.cpython-39-arm-linux-gnueabihf.so 2023-10-03T13:21:20,910 building 'moleculekit.distance_utils' extension 2023-10-03T13:21:20,911 creating build/temp.linux-armv7l-cpython-39/moleculekit/distance_utils 2023-10-03T13:21:20,912 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c moleculekit/distance_utils/distance_utils.cpp -o build/temp.linux-armv7l-cpython-39/moleculekit/distance_utils/distance_utils.o -O3 2023-10-03T13:21:21,142 In file included from /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2023-10-03T13:21:21,142 from /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2023-10-03T13:21:21,142 from /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:5, 2023-10-03T13:21:21,142 from moleculekit/distance_utils/distance_utils.cpp:1192: 2023-10-03T13:21:21,142 /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-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] 2023-10-03T13:21:21,142 17 | #warning "Using deprecated NumPy API, disable it with " \ 2023-10-03T13:21:21,142 | ^~~~~~~ 2023-10-03T13:21:53,271 arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/moleculekit/distance_utils/distance_utils.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/moleculekit/distance_utils.cpython-39-arm-linux-gnueabihf.so 2023-10-03T13:21:53,597 building 'moleculekit.occupancy_utils' extension 2023-10-03T13:21:53,598 creating build/temp.linux-armv7l-cpython-39/moleculekit/occupancy_utils 2023-10-03T13:21:53,599 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c moleculekit/occupancy_utils/occupancy_utils.cpp -o build/temp.linux-armv7l-cpython-39/moleculekit/occupancy_utils/occupancy_utils.o -O3 2023-10-03T13:21:53,829 In file included from /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2023-10-03T13:21:53,830 from /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2023-10-03T13:21:53,830 from /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:5, 2023-10-03T13:21:53,830 from moleculekit/occupancy_utils/occupancy_utils.cpp:1192: 2023-10-03T13:21:53,830 /tmp/pip-build-env-u675rfx0/overlay/lib/python3.9/site-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] 2023-10-03T13:21:53,830 17 | #warning "Using deprecated NumPy API, disable it with " \ 2023-10-03T13:21:53,830 | ^~~~~~~ 2023-10-03T13:22:16,812 arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/moleculekit/occupancy_utils/occupancy_utils.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/moleculekit/occupancy_utils.cpython-39-arm-linux-gnueabihf.so 2023-10-03T13:22:17,019 building 'moleculekit.xtc' extension 2023-10-03T13:22:17,019 creating build/temp.linux-armv7l-cpython-39/moleculekit/xtc_utils 2023-10-03T13:22:17,020 creating build/temp.linux-armv7l-cpython-39/moleculekit/xtc_utils/src 2023-10-03T13:22:17,021 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -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-u675rfx0/overlay/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c moleculekit/xtc_utils/src/xdrfile.cpp -o build/temp.linux-armv7l-cpython-39/moleculekit/xtc_utils/src/xdrfile.o 2023-10-03T13:22:17,257 moleculekit/xtc_utils/src/xdrfile.cpp:66:2: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-10-03T13:22:17,257 66 | "OK", 2023-10-03T13:22:17,258 | ^~~~ 2023-10-03T13:22:17,258 moleculekit/xtc_utils/src/xdrfile.cpp:67:2: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-10-03T13:22:17,258 67 | "Header", 2023-10-03T13:22:17,258 | ^~~~~~~~ 2023-10-03T13:22:17,258 moleculekit/xtc_utils/src/xdrfile.cpp:68:2: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-10-03T13:22:17,258 68 | "String", 2023-10-03T13:22:17,258 | ^~~~~~~~ 2023-10-03T13:22:17,259 moleculekit/xtc_utils/src/xdrfile.cpp:69:2: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-10-03T13:22:17,259 69 | "Double", 2023-10-03T13:22:17,259 | ^~~~~~~~ 2023-10-03T13:22:17,259 moleculekit/xtc_utils/src/xdrfile.cpp:70:2: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-10-03T13:22:17,259 70 | "Integer", 2023-10-03T13:22:17,259 | ^~~~~~~~~ 2023-10-03T13:22:17,259 moleculekit/xtc_utils/src/xdrfile.cpp:71:2: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-10-03T13:22:17,260 71 | "Float", 2023-10-03T13:22:17,260 | ^~~~~~~ 2023-10-03T13:22:17,260 moleculekit/xtc_utils/src/xdrfile.cpp:72:2: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-10-03T13:22:17,260 72 | "Unsigned integer", 2023-10-03T13:22:17,260 | ^~~~~~~~~~~~~~~~~~ 2023-10-03T13:22:17,260 moleculekit/xtc_utils/src/xdrfile.cpp:73:2: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-10-03T13:22:17,260 73 | "Compressed 3D coordinate", 2023-10-03T13:22:17,261 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-10-03T13:22:17,261 moleculekit/xtc_utils/src/xdrfile.cpp:74:2: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-10-03T13:22:17,261 74 | "Closing file", 2023-10-03T13:22:17,261 | ^~~~~~~~~~~~~~ 2023-10-03T13:22:17,261 moleculekit/xtc_utils/src/xdrfile.cpp:75:2: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-10-03T13:22:17,261 75 | "Magic number", 2023-10-03T13:22:17,261 | ^~~~~~~~~~~~~~ 2023-10-03T13:22:17,262 moleculekit/xtc_utils/src/xdrfile.cpp:76:2: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-10-03T13:22:17,262 76 | "Not enough memory", 2023-10-03T13:22:17,262 | ^~~~~~~~~~~~~~~~~~~ 2023-10-03T13:22:17,262 moleculekit/xtc_utils/src/xdrfile.cpp:77:2: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-10-03T13:22:17,262 77 | "End of file", 2023-10-03T13:22:17,262 | ^~~~~~~~~~~~~ 2023-10-03T13:22:17,262 moleculekit/xtc_utils/src/xdrfile.cpp:78:2: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-10-03T13:22:17,263 78 | "File not found" 2023-10-03T13:22:17,263 | ^~~~~~~~~~~~~~~~ 2023-10-03T13:22:17,267 moleculekit/xtc_utils/src/xdrfile.cpp: In function ‘int sizeofint(int)’: 2023-10-03T13:22:17,267 moleculekit/xtc_utils/src/xdrfile.cpp:459:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-10-03T13:22:17,267 459 | while (size >= num && num_of_bits < 32) 2023-10-03T13:22:17,267 | ~~~~~^~~~~~ 2023-10-03T13:22:17,267 moleculekit/xtc_utils/src/xdrfile.cpp: In function ‘int sizeofints(int, unsigned int*)’: 2023-10-03T13:22:17,268 moleculekit/xtc_utils/src/xdrfile.cpp:505:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2023-10-03T13:22:17,268 505 | while (bytes[num_of_bytes] >= num) 2023-10-03T13:22:17,268 | ~~~~~~~~~~~~~~~~~~~~^~~~~~ 2023-10-03T13:22:17,270 moleculekit/xtc_utils/src/xdrfile.cpp: In function ‘void encodeints(int*, int, int, unsigned int*, unsigned int*)’: 2023-10-03T13:22:17,270 moleculekit/xtc_utils/src/xdrfile.cpp:614:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-10-03T13:22:17,270 614 | if (num_of_bits >= num_of_bytes * 8) 2023-10-03T13:22:17,270 | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ 2023-10-03T13:22:17,270 moleculekit/xtc_utils/src/xdrfile.cpp:616:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-10-03T13:22:17,271 616 | for (i = 0; i < num_of_bytes; i++) 2023-10-03T13:22:17,271 | ~~^~~~~~~~~~~~~~ 2023-10-03T13:22:17,271 moleculekit/xtc_utils/src/xdrfile.cpp:624:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-10-03T13:22:17,271 624 | for (i = 0; i < num_of_bytes-1; i++) 2023-10-03T13:22:17,271 | ~~^~~~~~~~~~~~~~~~ 2023-10-03T13:22:17,271 moleculekit/xtc_utils/src/xdrfile.cpp: In function ‘int decodebits(int*, int)’: 2023-10-03T13:22:17,271 moleculekit/xtc_utils/src/xdrfile.cpp:664:16: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2023-10-03T13:22:17,272 664 | if (lastbits < num_of_bits) 2023-10-03T13:22:17,272 | ~~~~~~~~~^~~~~~~~~~~~~ 2023-10-03T13:22:17,275 moleculekit/xtc_utils/src/xdrfile.cpp: In function ‘int xdrfile_decompress_coord_float(float*, int*, float*, XDRFILE*)’: 2023-10-03T13:22:17,275 moleculekit/xtc_utils/src/xdrfile.cpp:785:10: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2023-10-03T13:22:17,275 785 | if(size3>xfp->buf1size) 2023-10-03T13:22:17,275 | ~~~~~^~~~~~~~~~~~~~ 2023-10-03T13:22:17,277 moleculekit/xtc_utils/src/xdrfile.cpp:842:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2023-10-03T13:22:17,277 842 | maxidx = (LASTIDX= size3 ) { return -1; } 2023-10-03T13:22:17,280 | ~~~~~~~~~^~~~~~~~ 2023-10-03T13:22:17,280 moleculekit/xtc_utils/src/xdrfile.cpp:935:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-10-03T13:22:17,280 935 | if(countmjh >= size3 ) { return -1; } 2023-10-03T13:22:17,280 | ~~~~~~~~~^~~~~~~~ 2023-10-03T13:22:17,280 moleculekit/xtc_utils/src/xdrfile.cpp:938:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-10-03T13:22:17,281 938 | if(countmjh >= size3 ) { return -1; } 2023-10-03T13:22:17,281 | ~~~~~~~~~^~~~~~~~ 2023-10-03T13:22:17,281 moleculekit/xtc_utils/src/xdrfile.cpp:945:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-10-03T13:22:17,281 945 | if(countmjh >= size3 ) { return -1; } 2023-10-03T13:22:17,281 | ~~~~~~~~~^~~~~~~~ 2023-10-03T13:22:17,281 moleculekit/xtc_utils/src/xdrfile.cpp:948:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-10-03T13:22:17,281 948 | if(countmjh >= size3 ) { return -1; } 2023-10-03T13:22:17,281 | ~~~~~~~~~^~~~~~~~ 2023-10-03T13:22:17,282 moleculekit/xtc_utils/src/xdrfile.cpp:951:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-10-03T13:22:17,282 951 | if(countmjh >= size3 ) { return -1; } 2023-10-03T13:22:17,282 | ~~~~~~~~~^~~~~~~~ 2023-10-03T13:22:17,282 moleculekit/xtc_utils/src/xdrfile.cpp:756:17: warning: variable ‘minidx’ set but not used [-Wunused-but-set-variable] 2023-10-03T13:22:17,282 756 | int smallidx, minidx, maxidx; 2023-10-03T13:22:17,282 | ^~~~~~ 2023-10-03T13:22:17,282 moleculekit/xtc_utils/src/xdrfile.cpp:759:25: warning: variable ‘larger’ set but not used [-Wunused-but-set-variable] 2023-10-03T13:22:17,282 759 | int smallnum, smaller, larger, i, is_smaller, run; 2023-10-03T13:22:17,283 | ^~~~~~ 2023-10-03T13:22:17,283 moleculekit/xtc_utils/src/xdrfile.cpp:763:6: warning: unused variable ‘errval’ [-Wunused-variable] 2023-10-03T13:22:17,283 763 | int errval=1; 2023-10-03T13:22:17,283 | ^~~~~~ 2023-10-03T13:22:17,284 moleculekit/xtc_utils/src/xdrfile.cpp: In function ‘int xdrfile_compress_coord_float(float*, int, float, XDRFILE*)’: 2023-10-03T13:22:17,284 moleculekit/xtc_utils/src/xdrfile.cpp:1011:10: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2023-10-03T13:22:17,284 1011 | if(size3>xfp->buf1size) 2023-10-03T13:22:17,284 | ~~~~~^~~~~~~~~~~~~~ 2023-10-03T13:22:17,286 moleculekit/xtc_utils/src/xdrfile.cpp:1068:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-10-03T13:22:17,286 1068 | countmjh++; if( countmjh> size3) { return -1; } 2023-10-03T13:22:17,286 | ~~~~~~~~^~~~~~~ 2023-10-03T13:22:17,287 moleculekit/xtc_utils/src/xdrfile.cpp:1084:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-10-03T13:22:17,287 1084 | countmjh++; if( countmjh> size3) { return -1; } 2023-10-03T13:22:17,287 | ~~~~~~~~^~~~~~~ 2023-10-03T13:22:17,287 moleculekit/xtc_utils/src/xdrfile.cpp:1098:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-10-03T13:22:17,287 1098 | countmjh++; if( countmjh> size3) { return -1; } 2023-10-03T13:22:17,288 | ~~~~~~~~^~~~~~~ 2023-10-03T13:22:17,289 moleculekit/xtc_utils/src/xdrfile.cpp:1137:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-10-03T13:22:17,289 1137 | while (smallidx < LASTIDX && magicints[smallidx] < mindiff) 2023-10-03T13:22:17,289 | ^ 2023-10-03T13:22:17,289 moleculekit/xtc_utils/src/xdrfile.cpp:1143:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2023-10-03T13:22:17,289 1143 | maxidx = (LASTIDXxfp->buf1size) 2023-10-03T13:22:17,297 | ~~~~~^~~~~~~~~~~~~~ 2023-10-03T13:22:17,298 moleculekit/xtc_utils/src/xdrfile.cpp:1377:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2023-10-03T13:22:17,298 1377 | maxidx = (LASTIDXxfp->buf1size) { 2023-10-03T13:22:17,304 | ~~~~~^~~~~~~~~~~~~~ 2023-10-03T13:22:17,308 moleculekit/xtc_utils/src/xdrfile.cpp:1628:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2023-10-03T13:22:17,308 1628 | while (smallidx < LASTIDX && magicints[smallidx] < mindiff) { 2023-10-03T13:22:17,308 | ^ 2023-10-03T13:22:17,308 moleculekit/xtc_utils/src/xdrfile.cpp:1633:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2023-10-03T13:22:17,308 1633 | maxidx = (LASTIDX::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: 2023-10-03T13:23:29,638 /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2023-10-03T13:23:29,639 426 | vector<_Tp, _Alloc>:: 2023-10-03T13:23:29,639 | ^~~~~~~~~~~~~~~~~~~ 2023-10-03T13:23:30,214 In file included from /usr/include/c++/10/vector:67, 2023-10-03T13:23:30,215 from moleculekit/tmalign/tmalign_util.cpp:1207: 2023-10-03T13:23:30,215 /usr/include/c++/10/bits/stl_vector.h: In function ‘PyObject* __pyx_pw_11moleculekit_7tmalign_1tmalign(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’: 2023-10-03T13:23:30,215 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2023-10-03T13:23:30,215 1198 | _M_realloc_insert(end(), __x); 2023-10-03T13:23:30,215 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2023-10-03T13:23:30,216 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2023-10-03T13:23:30,216 1198 | _M_realloc_insert(end(), __x); 2023-10-03T13:23:30,216 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2023-10-03T13:23:30,216 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2023-10-03T13:23:30,217 1198 | _M_realloc_insert(end(), __x); 2023-10-03T13:23:30,217 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2023-10-03T13:23:32,617 arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/moleculekit/tmalign/src/TMAlign.o build/temp.linux-armv7l-cpython-39/moleculekit/tmalign/tmalign_util.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/moleculekit/tmalign.cpython-39-arm-linux-gnueabihf.so 2023-10-03T13:23:33,068 UPDATING build/lib.linux-armv7l-cpython-39/moleculekit/_version.py 2023-10-03T13:23:33,069 set build/lib.linux-armv7l-cpython-39/moleculekit/_version.py to '1.7.10' 2023-10-03T13:23:33,069 installing to build/bdist.linux-armv7l/wheel 2023-10-03T13:23:33,069 running install 2023-10-03T13:23:33,095 running install_lib 2023-10-03T13:23:33,102 creating build/bdist.linux-armv7l 2023-10-03T13:23:33,102 creating build/bdist.linux-armv7l/wheel 2023-10-03T13:23:33,105 creating build/bdist.linux-armv7l/wheel/moleculekit 2023-10-03T13:23:33,106 copying build/lib.linux-armv7l-cpython-39/moleculekit/home.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-10-03T13:23:33,109 creating build/bdist.linux-armv7l/wheel/moleculekit/tools 2023-10-03T13:23:33,111 copying build/lib.linux-armv7l-cpython-39/moleculekit/tools/autosegment.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2023-10-03T13:23:33,113 copying build/lib.linux-armv7l-cpython-39/moleculekit/tools/sequencestructuralalignment.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2023-10-03T13:23:33,116 copying build/lib.linux-armv7l-cpython-39/moleculekit/tools/preparation_customres.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2023-10-03T13:23:33,119 copying build/lib.linux-armv7l-cpython-39/moleculekit/tools/docking.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2023-10-03T13:23:33,121 copying build/lib.linux-armv7l-cpython-39/moleculekit/tools/atomtyper.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2023-10-03T13:23:33,124 copying build/lib.linux-armv7l-cpython-39/moleculekit/tools/graphalignment.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2023-10-03T13:23:33,127 copying build/lib.linux-armv7l-cpython-39/moleculekit/tools/detect.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2023-10-03T13:23:33,130 copying build/lib.linux-armv7l-cpython-39/moleculekit/tools/hhblitsprofile.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2023-10-03T13:23:33,132 copying build/lib.linux-armv7l-cpython-39/moleculekit/tools/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2023-10-03T13:23:33,134 creating build/bdist.linux-armv7l/wheel/moleculekit/tools/obabel_tools 2023-10-03T13:23:33,135 copying build/lib.linux-armv7l-cpython-39/moleculekit/tools/obabel_tools/obabel_cli.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools/obabel_tools 2023-10-03T13:23:33,137 copying build/lib.linux-armv7l-cpython-39/moleculekit/tools/obabel_tools/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools/obabel_tools 2023-10-03T13:23:33,140 copying build/lib.linux-armv7l-cpython-39/moleculekit/tools/voxeldescriptors.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2023-10-03T13:23:33,142 copying build/lib.linux-armv7l-cpython-39/moleculekit/tools/moleculechecks.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2023-10-03T13:23:33,145 copying build/lib.linux-armv7l-cpython-39/moleculekit/tools/crystalpacking.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2023-10-03T13:23:33,147 copying build/lib.linux-armv7l-cpython-39/moleculekit/tools/preparation.py -> build/bdist.linux-armv7l/wheel/moleculekit/tools 2023-10-03T13:23:33,151 copying build/lib.linux-armv7l-cpython-39/moleculekit/opm.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-10-03T13:23:33,154 copying build/lib.linux-armv7l-cpython-39/moleculekit/align.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-10-03T13:23:33,157 creating build/bdist.linux-armv7l/wheel/moleculekit/interactions 2023-10-03T13:23:33,158 copying build/lib.linux-armv7l-cpython-39/moleculekit/interactions/cationpi.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit/interactions 2023-10-03T13:23:33,183 creating build/bdist.linux-armv7l/wheel/moleculekit/interactions/pipi 2023-10-03T13:23:33,184 copying build/lib.linux-armv7l-cpython-39/moleculekit/interactions/pipi/pipi.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/interactions/pipi 2023-10-03T13:23:33,204 copying build/lib.linux-armv7l-cpython-39/moleculekit/interactions/pipi/pipi.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/interactions/pipi 2023-10-03T13:23:33,207 creating build/bdist.linux-armv7l/wheel/moleculekit/interactions/sigmahole 2023-10-03T13:23:33,208 copying build/lib.linux-armv7l-cpython-39/moleculekit/interactions/sigmahole/sigmahole.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/interactions/sigmahole 2023-10-03T13:23:33,230 copying build/lib.linux-armv7l-cpython-39/moleculekit/interactions/sigmahole/sigmahole.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/interactions/sigmahole 2023-10-03T13:23:33,233 creating build/bdist.linux-armv7l/wheel/moleculekit/interactions/hbonds 2023-10-03T13:23:33,234 copying build/lib.linux-armv7l-cpython-39/moleculekit/interactions/hbonds/hbonds.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/interactions/hbonds 2023-10-03T13:23:33,237 copying build/lib.linux-armv7l-cpython-39/moleculekit/interactions/hbonds/hbonds.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/interactions/hbonds 2023-10-03T13:23:33,256 copying build/lib.linux-armv7l-cpython-39/moleculekit/interactions/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/interactions 2023-10-03T13:23:33,259 copying build/lib.linux-armv7l-cpython-39/moleculekit/interactions/pipi.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit/interactions 2023-10-03T13:23:33,282 copying build/lib.linux-armv7l-cpython-39/moleculekit/interactions/hbonds.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit/interactions 2023-10-03T13:23:33,302 copying build/lib.linux-armv7l-cpython-39/moleculekit/interactions/interactions.py -> build/bdist.linux-armv7l/wheel/moleculekit/interactions 2023-10-03T13:23:33,305 creating build/bdist.linux-armv7l/wheel/moleculekit/interactions/cationpi 2023-10-03T13:23:33,306 copying build/lib.linux-armv7l-cpython-39/moleculekit/interactions/cationpi/cationpi.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/interactions/cationpi 2023-10-03T13:23:33,331 copying build/lib.linux-armv7l-cpython-39/moleculekit/interactions/cationpi/cationpi.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/interactions/cationpi 2023-10-03T13:23:33,333 copying build/lib.linux-armv7l-cpython-39/moleculekit/interactions/sigmahole.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit/interactions 2023-10-03T13:23:33,356 creating build/bdist.linux-armv7l/wheel/moleculekit/occupancy_utils 2023-10-03T13:23:33,356 copying build/lib.linux-armv7l-cpython-39/moleculekit/occupancy_utils/occupancy_utils.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/occupancy_utils 2023-10-03T13:23:33,358 copying build/lib.linux-armv7l-cpython-39/moleculekit/occupancy_utils/occupancy_utils.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/occupancy_utils 2023-10-03T13:23:33,377 copying build/lib.linux-armv7l-cpython-39/moleculekit/pymolgraphics.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-10-03T13:23:33,379 creating build/bdist.linux-armv7l/wheel/moleculekit/atomselect 2023-10-03T13:23:33,380 copying build/lib.linux-armv7l-cpython-39/moleculekit/atomselect/atomselect.py -> build/bdist.linux-armv7l/wheel/moleculekit/atomselect 2023-10-03T13:23:33,383 copying build/lib.linux-armv7l-cpython-39/moleculekit/atomselect/languageparser.py -> build/bdist.linux-armv7l/wheel/moleculekit/atomselect 2023-10-03T13:23:33,385 copying build/lib.linux-armv7l-cpython-39/moleculekit/atomselect/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/atomselect 2023-10-03T13:23:33,386 copying build/lib.linux-armv7l-cpython-39/moleculekit/atomselect/analyze.py -> build/bdist.linux-armv7l/wheel/moleculekit/atomselect 2023-10-03T13:23:33,389 creating build/bdist.linux-armv7l/wheel/moleculekit/xtc_utils 2023-10-03T13:23:33,390 copying build/lib.linux-armv7l-cpython-39/moleculekit/xtc_utils/xtc.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/xtc_utils 2023-10-03T13:23:33,391 copying build/lib.linux-armv7l-cpython-39/moleculekit/xtc_utils/xtclib.pxd -> build/bdist.linux-armv7l/wheel/moleculekit/xtc_utils 2023-10-03T13:23:33,393 creating build/bdist.linux-armv7l/wheel/moleculekit/xtc_utils/src 2023-10-03T13:23:33,394 copying build/lib.linux-armv7l-cpython-39/moleculekit/xtc_utils/src/xdrfile_xtc.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/xtc_utils/src 2023-10-03T13:23:33,396 copying build/lib.linux-armv7l-cpython-39/moleculekit/xtc_utils/src/xtc.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/xtc_utils/src 2023-10-03T13:23:33,398 copying build/lib.linux-armv7l-cpython-39/moleculekit/xtc_utils/src/xdrfile.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/xtc_utils/src 2023-10-03T13:23:33,402 copying build/lib.linux-armv7l-cpython-39/moleculekit/xtc_utils/xtc.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/xtc_utils 2023-10-03T13:23:33,429 creating build/bdist.linux-armv7l/wheel/moleculekit/xtc_utils/include 2023-10-03T13:23:33,430 copying build/lib.linux-armv7l-cpython-39/moleculekit/xtc_utils/include/xdrfile_xtc.h -> build/bdist.linux-armv7l/wheel/moleculekit/xtc_utils/include 2023-10-03T13:23:33,432 copying build/lib.linux-armv7l-cpython-39/moleculekit/xtc_utils/include/xdrfile.h -> build/bdist.linux-armv7l/wheel/moleculekit/xtc_utils/include 2023-10-03T13:23:33,435 copying build/lib.linux-armv7l-cpython-39/moleculekit/xtc_utils/include/xtc.h -> build/bdist.linux-armv7l/wheel/moleculekit/xtc_utils/include 2023-10-03T13:23:33,437 copying build/lib.linux-armv7l-cpython-39/moleculekit/vmdgraphics.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-10-03T13:23:33,440 creating build/bdist.linux-armv7l/wheel/moleculekit/ply 2023-10-03T13:23:33,441 copying build/lib.linux-armv7l-cpython-39/moleculekit/ply/yacc.py -> build/bdist.linux-armv7l/wheel/moleculekit/ply 2023-10-03T13:23:33,445 copying build/lib.linux-armv7l-cpython-39/moleculekit/ply/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/ply 2023-10-03T13:23:33,447 copying build/lib.linux-armv7l-cpython-39/moleculekit/ply/lex.py -> build/bdist.linux-armv7l/wheel/moleculekit/ply 2023-10-03T13:23:33,449 copying build/lib.linux-armv7l-cpython-39/moleculekit/writers.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-10-03T13:23:33,453 creating build/bdist.linux-armv7l/wheel/moleculekit/bondguesser_utils 2023-10-03T13:23:33,454 copying build/lib.linux-armv7l-cpython-39/moleculekit/bondguesser_utils/bondguesser_utils.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/bondguesser_utils 2023-10-03T13:23:33,474 copying build/lib.linux-armv7l-cpython-39/moleculekit/bondguesser_utils/bondguesser_utils.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/bondguesser_utils 2023-10-03T13:23:33,476 copying build/lib.linux-armv7l-cpython-39/moleculekit/readers.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-10-03T13:23:33,480 copying build/lib.linux-armv7l-cpython-39/moleculekit/molecule.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-10-03T13:23:33,484 copying build/lib.linux-armv7l-cpython-39/moleculekit/util.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-10-03T13:23:33,487 copying build/lib.linux-armv7l-cpython-39/moleculekit/version.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-10-03T13:23:33,489 copying build/lib.linux-armv7l-cpython-39/moleculekit/distance.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-10-03T13:23:33,491 creating build/bdist.linux-armv7l/wheel/moleculekit/pdbx 2023-10-03T13:23:33,493 creating build/bdist.linux-armv7l/wheel/moleculekit/pdbx/tests 2023-10-03T13:23:33,494 copying build/lib.linux-armv7l-cpython-39/moleculekit/pdbx/tests/PdbxWriterTests.py -> build/bdist.linux-armv7l/wheel/moleculekit/pdbx/tests 2023-10-03T13:23:33,496 copying build/lib.linux-armv7l-cpython-39/moleculekit/pdbx/tests/PdbxReadWriteTests.py -> build/bdist.linux-armv7l/wheel/moleculekit/pdbx/tests 2023-10-03T13:23:33,498 copying build/lib.linux-armv7l-cpython-39/moleculekit/pdbx/tests/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/pdbx/tests 2023-10-03T13:23:33,500 copying build/lib.linux-armv7l-cpython-39/moleculekit/pdbx/tests/PdbxReaderTests.py -> build/bdist.linux-armv7l/wheel/moleculekit/pdbx/tests 2023-10-03T13:23:33,502 copying build/lib.linux-armv7l-cpython-39/moleculekit/pdbx/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/pdbx 2023-10-03T13:23:33,504 creating build/bdist.linux-armv7l/wheel/moleculekit/pdbx/reader 2023-10-03T13:23:33,505 copying build/lib.linux-armv7l-cpython-39/moleculekit/pdbx/reader/PdbxParser.py -> build/bdist.linux-armv7l/wheel/moleculekit/pdbx/reader 2023-10-03T13:23:33,507 copying build/lib.linux-armv7l-cpython-39/moleculekit/pdbx/reader/PdbxContainers.py -> build/bdist.linux-armv7l/wheel/moleculekit/pdbx/reader 2023-10-03T13:23:33,510 copying build/lib.linux-armv7l-cpython-39/moleculekit/pdbx/reader/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/pdbx/reader 2023-10-03T13:23:33,511 copying build/lib.linux-armv7l-cpython-39/moleculekit/pdbx/reader/PdbxReader.py -> build/bdist.linux-armv7l/wheel/moleculekit/pdbx/reader 2023-10-03T13:23:33,514 creating build/bdist.linux-armv7l/wheel/moleculekit/pdbx/writer 2023-10-03T13:23:33,515 copying build/lib.linux-armv7l-cpython-39/moleculekit/pdbx/writer/PdbxWriter.py -> build/bdist.linux-armv7l/wheel/moleculekit/pdbx/writer 2023-10-03T13:23:33,517 copying build/lib.linux-armv7l-cpython-39/moleculekit/pdbx/writer/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/pdbx/writer 2023-10-03T13:23:33,519 copying build/lib.linux-armv7l-cpython-39/moleculekit/bondguesser.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-10-03T13:23:33,521 copying build/lib.linux-armv7l-cpython-39/moleculekit/_version.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-10-03T13:23:33,523 creating build/bdist.linux-armv7l/wheel/moleculekit/distance_utils 2023-10-03T13:23:33,524 copying build/lib.linux-armv7l-cpython-39/moleculekit/distance_utils/distance_utils.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/distance_utils 2023-10-03T13:23:33,527 copying build/lib.linux-armv7l-cpython-39/moleculekit/distance_utils/distance_utils.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/distance_utils 2023-10-03T13:23:33,557 copying build/lib.linux-armv7l-cpython-39/moleculekit/occupancy_utils.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit 2023-10-03T13:23:33,580 creating build/bdist.linux-armv7l/wheel/moleculekit/smallmol 2023-10-03T13:23:33,582 creating build/bdist.linux-armv7l/wheel/moleculekit/smallmol/tools 2023-10-03T13:23:33,584 copying build/lib.linux-armv7l-cpython-39/moleculekit/smallmol/tools/test_tools.py -> build/bdist.linux-armv7l/wheel/moleculekit/smallmol/tools 2023-10-03T13:23:33,586 copying build/lib.linux-armv7l-cpython-39/moleculekit/smallmol/tools/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/smallmol/tools 2023-10-03T13:23:33,589 copying build/lib.linux-armv7l-cpython-39/moleculekit/smallmol/tools/clustering.py -> build/bdist.linux-armv7l/wheel/moleculekit/smallmol/tools 2023-10-03T13:23:33,591 copying build/lib.linux-armv7l-cpython-39/moleculekit/smallmol/tools/restrainedembed.py -> build/bdist.linux-armv7l/wheel/moleculekit/smallmol/tools 2023-10-03T13:23:33,593 copying build/lib.linux-armv7l-cpython-39/moleculekit/smallmol/test_smallmollib.py -> build/bdist.linux-armv7l/wheel/moleculekit/smallmol 2023-10-03T13:23:33,596 copying build/lib.linux-armv7l-cpython-39/moleculekit/smallmol/smallmol.py -> build/bdist.linux-armv7l/wheel/moleculekit/smallmol 2023-10-03T13:23:33,599 copying build/lib.linux-armv7l-cpython-39/moleculekit/smallmol/util.py -> build/bdist.linux-armv7l/wheel/moleculekit/smallmol 2023-10-03T13:23:33,602 copying build/lib.linux-armv7l-cpython-39/moleculekit/smallmol/test_smallmol.py -> build/bdist.linux-armv7l/wheel/moleculekit/smallmol 2023-10-03T13:23:33,604 copying build/lib.linux-armv7l-cpython-39/moleculekit/smallmol/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/smallmol 2023-10-03T13:23:33,606 copying build/lib.linux-armv7l-cpython-39/moleculekit/smallmol/smallmollib.py -> build/bdist.linux-armv7l/wheel/moleculekit/smallmol 2023-10-03T13:23:33,609 copying build/lib.linux-armv7l-cpython-39/moleculekit/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-10-03T13:23:33,611 copying build/lib.linux-armv7l-cpython-39/moleculekit/config.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-10-03T13:23:33,613 copying build/lib.linux-armv7l-cpython-39/moleculekit/tmalign.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit 2023-10-03T13:23:33,688 copying build/lib.linux-armv7l-cpython-39/moleculekit/xtc.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit 2023-10-03T13:23:33,719 copying build/lib.linux-armv7l-cpython-39/moleculekit/bondguesser_utils.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit 2023-10-03T13:23:33,744 copying build/lib.linux-armv7l-cpython-39/moleculekit/vmdviewer.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-10-03T13:23:33,746 copying build/lib.linux-armv7l-cpython-39/moleculekit/rcsb.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-10-03T13:23:33,748 copying build/lib.linux-armv7l-cpython-39/moleculekit/periodictable.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-10-03T13:23:33,750 copying build/lib.linux-armv7l-cpython-39/moleculekit/logging.ini -> build/bdist.linux-armv7l/wheel/moleculekit 2023-10-03T13:23:33,753 creating build/bdist.linux-armv7l/wheel/moleculekit/atomselect_utils 2023-10-03T13:23:33,754 copying build/lib.linux-armv7l-cpython-39/moleculekit/atomselect_utils/atomselect_utils.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/atomselect_utils 2023-10-03T13:23:33,756 copying build/lib.linux-armv7l-cpython-39/moleculekit/atomselect_utils/atomselect_utils.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/atomselect_utils 2023-10-03T13:23:33,781 creating build/bdist.linux-armv7l/wheel/moleculekit/share 2023-10-03T13:23:33,782 creating build/bdist.linux-armv7l/wheel/moleculekit/share/atomselect 2023-10-03T13:23:33,783 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/atomselect/atomselect.json -> build/bdist.linux-armv7l/wheel/moleculekit/share/atomselect 2023-10-03T13:23:33,786 creating build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr 2023-10-03T13:23:33,790 creating build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,791 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/ABA.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,793 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/DPP.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,795 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/AHP.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,797 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/BCS.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,799 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/DA2.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,801 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/MLZ.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,803 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/ORM.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,805 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/03Y.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,807 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/ABA.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,809 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/ME0.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,810 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/AA4.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,812 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/MLE.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,814 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/NAL.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,816 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/TY2.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,818 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/ALN.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,820 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/APD.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,822 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/PCA.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,823 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/NVA.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,825 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/HPE.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,827 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/CCS.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,829 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/ESC.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,831 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/0BN.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,832 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/FGL.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,834 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/I2M.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,836 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/CSO.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,838 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/4IN.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,840 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/ALY.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,842 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/IML.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,844 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/PTR.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,845 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/D4P.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,847 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/NCY.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,849 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/MLE.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,851 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/4PH.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,853 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/2GX.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,854 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/IGL.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,856 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/DAH.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,858 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/HYP.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,859 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/CSA.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,861 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/HHK.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,863 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/BB8.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,865 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/ALC.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,867 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/1MH.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,868 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/IIL.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,870 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/TRO.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,872 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/HOX.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,874 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/YCM.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,876 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/LME.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,877 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/GME.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,879 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/HQA.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,881 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/M3L.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,882 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/NAL.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,884 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/LMQ.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,886 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/MEA.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,888 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/DPP.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,890 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/2ML.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,891 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/TY2.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,893 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/5JP.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,895 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/AHP.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,897 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/SEP.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,899 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/MMO.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,901 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/ME0.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,902 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/GHG.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,904 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/0A1.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,906 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/HLX.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,908 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/2MR.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,910 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/0A1.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,912 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/MLY.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,913 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/CSS.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,915 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/HLU.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,917 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/GNC.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,919 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/HHK.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,921 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/CSA.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,922 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/ONL.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,924 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/BTK.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,926 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/ESC.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,928 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/LME.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,930 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/MLZ.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,931 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/IML.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,933 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/BCS.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,935 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/CSP.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,937 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/SEP.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,939 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/YNM.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,941 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/KYN.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,942 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/2AS.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,944 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/CSP.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,946 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/TYQ.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,948 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/NVA.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,950 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/BB8.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,952 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/4IN.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,953 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/GME.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,955 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/MEA.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,957 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/LYZ.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,959 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/MLY.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,961 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/HLX.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,963 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/OCY.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,965 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/OCY.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,966 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/HOX.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,968 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/BTK.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,970 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/YCM.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,972 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/PRK.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,974 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/4PH.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,976 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/4PQ.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,978 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/MMO.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,980 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/PRK.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,982 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/TRO.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,984 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/MVA.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,986 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/004.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,988 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/MME.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,990 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/IIL.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,991 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/AA4.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,993 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/ALC.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,995 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/P1L.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,997 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/ONL.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:33,999 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/MEN.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,001 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/NZC.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,003 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/2AS.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,004 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/APD.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,006 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/DAH.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,008 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/004.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,010 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/2MR.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,011 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/CGU.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,013 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/ALY.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,015 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/PCA.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,017 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/YNM.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,018 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/HTR.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,020 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/FGL.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,022 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/0AF.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,023 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/MEN.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,025 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/HLU.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,027 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/DA2.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,029 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/MEQ.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,030 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/HTR.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,032 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/0AF.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,034 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/TPO.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,036 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/P1L.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,037 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/PTR.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,039 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/NZC.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,041 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/CGU.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,043 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/ALN.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,045 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/OMX.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,047 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/CCS.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,048 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/IGL.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,050 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/HYP.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,052 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/LMQ.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,054 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/4PQ.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,056 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/KYN.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,057 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/5JP.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,059 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/NLE.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,061 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/TYQ.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,063 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/1MH.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,065 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/2ML.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,067 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/MME.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,069 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/DAB.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,070 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/M3L.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,072 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/MVA.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,074 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/I2M.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,076 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/ORM.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,078 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/GHG.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,080 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/HPE.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,082 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/HQA.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,083 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/CSO.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,085 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/CSS.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,087 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/NCY.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,089 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/GNC.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,091 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/TPO.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,093 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/LYZ.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,094 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/0BN.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,096 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/.gitkeep -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,098 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/OMX.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,099 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/DAB.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,101 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/03Y.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,103 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/MEQ.dat -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,105 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/NLE.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,107 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/D4P.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,108 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/pdb2pqr/residues/2GX.xml -> build/bdist.linux-armv7l/wheel/moleculekit/share/pdb2pqr/residues 2023-10-03T13:23:34,111 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/ALA.cif -> build/bdist.linux-armv7l/wheel/moleculekit/share 2023-10-03T13:23:34,113 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/backbone.cif -> build/bdist.linux-armv7l/wheel/moleculekit/share 2023-10-03T13:23:34,115 copying build/lib.linux-armv7l-cpython-39/moleculekit/share/opm_sequences.json -> build/bdist.linux-armv7l/wheel/moleculekit/share 2023-10-03T13:23:34,328 copying build/lib.linux-armv7l-cpython-39/moleculekit/rdkitintegration.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-10-03T13:23:34,331 copying build/lib.linux-armv7l-cpython-39/moleculekit/viewer.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-10-03T13:23:34,334 creating build/bdist.linux-armv7l/wheel/moleculekit/projections 2023-10-03T13:23:34,335 copying build/lib.linux-armv7l-cpython-39/moleculekit/projections/metricdistance.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2023-10-03T13:23:34,338 copying build/lib.linux-armv7l-cpython-39/moleculekit/projections/metricshell.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2023-10-03T13:23:34,340 copying build/lib.linux-armv7l-cpython-39/moleculekit/projections/metricfluctuation.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2023-10-03T13:23:34,342 copying build/lib.linux-armv7l-cpython-39/moleculekit/projections/metricsphericalcoordinate.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2023-10-03T13:23:34,345 copying build/lib.linux-armv7l-cpython-39/moleculekit/projections/metricrmsd.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2023-10-03T13:23:34,347 copying build/lib.linux-armv7l-cpython-39/moleculekit/projections/metricdihedral.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2023-10-03T13:23:34,350 copying build/lib.linux-armv7l-cpython-39/moleculekit/projections/metrictmscore.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2023-10-03T13:23:34,352 copying build/lib.linux-armv7l-cpython-39/moleculekit/projections/metricsasa.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2023-10-03T13:23:34,355 copying build/lib.linux-armv7l-cpython-39/moleculekit/projections/util.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2023-10-03T13:23:34,358 copying build/lib.linux-armv7l-cpython-39/moleculekit/projections/metricgyration.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2023-10-03T13:23:34,360 copying build/lib.linux-armv7l-cpython-39/moleculekit/projections/__init__.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2023-10-03T13:23:34,362 copying build/lib.linux-armv7l-cpython-39/moleculekit/projections/metricsecondarystructure.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2023-10-03T13:23:34,364 copying build/lib.linux-armv7l-cpython-39/moleculekit/projections/projection.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2023-10-03T13:23:34,366 copying build/lib.linux-armv7l-cpython-39/moleculekit/projections/metricplumed2.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2023-10-03T13:23:34,369 copying build/lib.linux-armv7l-cpython-39/moleculekit/projections/metriccoordinate.py -> build/bdist.linux-armv7l/wheel/moleculekit/projections 2023-10-03T13:23:34,372 copying build/lib.linux-armv7l-cpython-39/moleculekit/wrapping.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit 2023-10-03T13:23:34,393 copying build/lib.linux-armv7l-cpython-39/moleculekit/dihedral.py -> build/bdist.linux-armv7l/wheel/moleculekit 2023-10-03T13:23:34,395 copying build/lib.linux-armv7l-cpython-39/moleculekit/distance_utils.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit 2023-10-03T13:23:34,421 copying build/lib.linux-armv7l-cpython-39/moleculekit/vmd_wrapper -> build/bdist.linux-armv7l/wheel/moleculekit 2023-10-03T13:23:34,424 creating build/bdist.linux-armv7l/wheel/moleculekit/tmalign 2023-10-03T13:23:34,424 copying build/lib.linux-armv7l-cpython-39/moleculekit/tmalign/tmalign_util.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/tmalign 2023-10-03T13:23:34,443 copying build/lib.linux-armv7l-cpython-39/moleculekit/tmalign/tmalign_util.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/tmalign 2023-10-03T13:23:34,446 creating build/bdist.linux-armv7l/wheel/moleculekit/tmalign/src 2023-10-03T13:23:34,446 copying build/lib.linux-armv7l-cpython-39/moleculekit/tmalign/src/TMAlign.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/tmalign/src 2023-10-03T13:23:34,452 creating build/bdist.linux-armv7l/wheel/moleculekit/tmalign/include 2023-10-03T13:23:34,453 copying build/lib.linux-armv7l-cpython-39/moleculekit/tmalign/include/TMAlign.h -> build/bdist.linux-armv7l/wheel/moleculekit/tmalign/include 2023-10-03T13:23:34,455 copying build/lib.linux-armv7l-cpython-39/moleculekit/tmalign/tmalignlib.pxd -> build/bdist.linux-armv7l/wheel/moleculekit/tmalign 2023-10-03T13:23:34,457 creating build/bdist.linux-armv7l/wheel/moleculekit/wrapping 2023-10-03T13:23:34,458 copying build/lib.linux-armv7l-cpython-39/moleculekit/wrapping/wrapping.cpp -> build/bdist.linux-armv7l/wheel/moleculekit/wrapping 2023-10-03T13:23:34,476 copying build/lib.linux-armv7l-cpython-39/moleculekit/wrapping/wrapping.pyx -> build/bdist.linux-armv7l/wheel/moleculekit/wrapping 2023-10-03T13:23:34,478 copying build/lib.linux-armv7l-cpython-39/moleculekit/atomselect_utils.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/moleculekit 2023-10-03T13:23:34,503 running install_egg_info 2023-10-03T13:23:34,509 Copying moleculekit.egg-info to build/bdist.linux-armv7l/wheel/moleculekit-1.7.10-py3.9.egg-info 2023-10-03T13:23:34,521 running install_scripts 2023-10-03T13:23:34,569 creating build/bdist.linux-armv7l/wheel/moleculekit-1.7.10.dist-info/WHEEL 2023-10-03T13:23:34,573 creating '/tmp/pip-wheel-ri2qgpgl/.tmp-qls6e1jq/moleculekit-1.7.10-cp39-cp39-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2023-10-03T13:23:34,576 adding 'moleculekit/__init__.py' 2023-10-03T13:23:34,577 adding 'moleculekit/_version.py' 2023-10-03T13:23:34,579 adding 'moleculekit/align.py' 2023-10-03T13:23:34,893 adding 'moleculekit/atomselect_utils.cpython-39-arm-linux-gnueabihf.so' 2023-10-03T13:23:34,905 adding 'moleculekit/bondguesser.py' 2023-10-03T13:23:35,148 adding 'moleculekit/bondguesser_utils.cpython-39-arm-linux-gnueabihf.so' 2023-10-03T13:23:35,156 adding 'moleculekit/config.py' 2023-10-03T13:23:35,158 adding 'moleculekit/dihedral.py' 2023-10-03T13:23:35,159 adding 'moleculekit/distance.py' 2023-10-03T13:23:35,463 adding 'moleculekit/distance_utils.cpython-39-arm-linux-gnueabihf.so' 2023-10-03T13:23:35,474 adding 'moleculekit/home.py' 2023-10-03T13:23:35,475 adding 'moleculekit/logging.ini' 2023-10-03T13:23:35,489 adding 'moleculekit/molecule.py' 2023-10-03T13:23:35,711 adding 'moleculekit/occupancy_utils.cpython-39-arm-linux-gnueabihf.so' 2023-10-03T13:23:35,720 adding 'moleculekit/opm.py' 2023-10-03T13:23:35,723 adding 'moleculekit/periodictable.py' 2023-10-03T13:23:35,724 adding 'moleculekit/pymolgraphics.py' 2023-10-03T13:23:35,725 adding 'moleculekit/rcsb.py' 2023-10-03T13:23:35,727 adding 'moleculekit/rdkitintegration.py' 2023-10-03T13:23:35,738 adding 'moleculekit/readers.py' 2023-10-03T13:23:36,378 adding 'moleculekit/tmalign.cpython-39-arm-linux-gnueabihf.so' 2023-10-03T13:23:36,402 adding 'moleculekit/util.py' 2023-10-03T13:23:36,403 adding 'moleculekit/version.py' 2023-10-03T13:23:36,405 adding 'moleculekit/viewer.py' 2023-10-03T13:23:36,406 adding 'moleculekit/vmd_wrapper' 2023-10-03T13:23:36,408 adding 'moleculekit/vmdgraphics.py' 2023-10-03T13:23:36,410 adding 'moleculekit/vmdviewer.py' 2023-10-03T13:23:36,639 adding 'moleculekit/wrapping.cpython-39-arm-linux-gnueabihf.so' 2023-10-03T13:23:36,652 adding 'moleculekit/writers.py' 2023-10-03T13:23:36,916 adding 'moleculekit/xtc.cpython-39-arm-linux-gnueabihf.so' 2023-10-03T13:23:36,926 adding 'moleculekit/atomselect/__init__.py' 2023-10-03T13:23:36,927 adding 'moleculekit/atomselect/analyze.py' 2023-10-03T13:23:36,930 adding 'moleculekit/atomselect/atomselect.py' 2023-10-03T13:23:36,932 adding 'moleculekit/atomselect/languageparser.py' 2023-10-03T13:23:37,035 adding 'moleculekit/atomselect_utils/atomselect_utils.cpp' 2023-10-03T13:23:37,047 adding 'moleculekit/atomselect_utils/atomselect_utils.pyx' 2023-10-03T13:23:37,138 adding 'moleculekit/bondguesser_utils/bondguesser_utils.cpp' 2023-10-03T13:23:37,147 adding 'moleculekit/bondguesser_utils/bondguesser_utils.pyx' 2023-10-03T13:23:37,244 adding 'moleculekit/distance_utils/distance_utils.cpp' 2023-10-03T13:23:37,254 adding 'moleculekit/distance_utils/distance_utils.pyx' 2023-10-03T13:23:37,256 adding 'moleculekit/interactions/__init__.py' 2023-10-03T13:23:37,541 adding 'moleculekit/interactions/cationpi.cpython-39-arm-linux-gnueabihf.so' 2023-10-03T13:23:37,806 adding 'moleculekit/interactions/hbonds.cpython-39-arm-linux-gnueabihf.so' 2023-10-03T13:23:37,817 adding 'moleculekit/interactions/interactions.py' 2023-10-03T13:23:38,094 adding 'moleculekit/interactions/pipi.cpython-39-arm-linux-gnueabihf.so' 2023-10-03T13:23:38,377 adding 'moleculekit/interactions/sigmahole.cpython-39-arm-linux-gnueabihf.so' 2023-10-03T13:23:38,478 adding 'moleculekit/interactions/cationpi/cationpi.cpp' 2023-10-03T13:23:38,486 adding 'moleculekit/interactions/cationpi/cationpi.pyx' 2023-10-03T13:23:38,579 adding 'moleculekit/interactions/hbonds/hbonds.cpp' 2023-10-03T13:23:38,588 adding 'moleculekit/interactions/hbonds/hbonds.pyx' 2023-10-03T13:23:38,680 adding 'moleculekit/interactions/pipi/pipi.cpp' 2023-10-03T13:23:38,689 adding 'moleculekit/interactions/pipi/pipi.pyx' 2023-10-03T13:23:38,780 adding 'moleculekit/interactions/sigmahole/sigmahole.cpp' 2023-10-03T13:23:38,789 adding 'moleculekit/interactions/sigmahole/sigmahole.pyx' 2023-10-03T13:23:38,876 adding 'moleculekit/occupancy_utils/occupancy_utils.cpp' 2023-10-03T13:23:38,884 adding 'moleculekit/occupancy_utils/occupancy_utils.pyx' 2023-10-03T13:23:38,886 adding 'moleculekit/pdbx/__init__.py' 2023-10-03T13:23:38,889 adding 'moleculekit/pdbx/reader/PdbxContainers.py' 2023-10-03T13:23:38,892 adding 'moleculekit/pdbx/reader/PdbxParser.py' 2023-10-03T13:23:38,894 adding 'moleculekit/pdbx/reader/PdbxReader.py' 2023-10-03T13:23:38,896 adding 'moleculekit/pdbx/reader/__init__.py' 2023-10-03T13:23:38,898 adding 'moleculekit/pdbx/tests/PdbxReadWriteTests.py' 2023-10-03T13:23:38,899 adding 'moleculekit/pdbx/tests/PdbxReaderTests.py' 2023-10-03T13:23:38,901 adding 'moleculekit/pdbx/tests/PdbxWriterTests.py' 2023-10-03T13:23:38,902 adding 'moleculekit/pdbx/tests/__init__.py' 2023-10-03T13:23:38,904 adding 'moleculekit/pdbx/writer/PdbxWriter.py' 2023-10-03T13:23:38,905 adding 'moleculekit/pdbx/writer/__init__.py' 2023-10-03T13:23:38,907 adding 'moleculekit/ply/__init__.py' 2023-10-03T13:23:38,911 adding 'moleculekit/ply/lex.py' 2023-10-03T13:23:38,923 adding 'moleculekit/ply/yacc.py' 2023-10-03T13:23:38,925 adding 'moleculekit/projections/__init__.py' 2023-10-03T13:23:38,927 adding 'moleculekit/projections/metriccoordinate.py' 2023-10-03T13:23:38,931 adding 'moleculekit/projections/metricdihedral.py' 2023-10-03T13:23:38,935 adding 'moleculekit/projections/metricdistance.py' 2023-10-03T13:23:38,937 adding 'moleculekit/projections/metricfluctuation.py' 2023-10-03T13:23:38,939 adding 'moleculekit/projections/metricgyration.py' 2023-10-03T13:23:38,942 adding 'moleculekit/projections/metricplumed2.py' 2023-10-03T13:23:38,944 adding 'moleculekit/projections/metricrmsd.py' 2023-10-03T13:23:38,946 adding 'moleculekit/projections/metricsasa.py' 2023-10-03T13:23:38,948 adding 'moleculekit/projections/metricsecondarystructure.py' 2023-10-03T13:23:38,950 adding 'moleculekit/projections/metricshell.py' 2023-10-03T13:23:38,952 adding 'moleculekit/projections/metricsphericalcoordinate.py' 2023-10-03T13:23:38,953 adding 'moleculekit/projections/metrictmscore.py' 2023-10-03T13:23:38,954 adding 'moleculekit/projections/projection.py' 2023-10-03T13:23:38,956 adding 'moleculekit/projections/util.py' 2023-10-03T13:23:38,958 adding 'moleculekit/share/ALA.cif' 2023-10-03T13:23:38,959 adding 'moleculekit/share/backbone.cif' 2023-10-03T13:23:40,261 adding 'moleculekit/share/opm_sequences.json' 2023-10-03T13:23:40,346 adding 'moleculekit/share/atomselect/atomselect.json' 2023-10-03T13:23:40,351 adding 'moleculekit/share/pdb2pqr/residues/.gitkeep' 2023-10-03T13:23:40,352 adding 'moleculekit/share/pdb2pqr/residues/004.dat' 2023-10-03T13:23:40,353 adding 'moleculekit/share/pdb2pqr/residues/004.xml' 2023-10-03T13:23:40,355 adding 'moleculekit/share/pdb2pqr/residues/03Y.dat' 2023-10-03T13:23:40,356 adding 'moleculekit/share/pdb2pqr/residues/03Y.xml' 2023-10-03T13:23:40,357 adding 'moleculekit/share/pdb2pqr/residues/0A1.dat' 2023-10-03T13:23:40,358 adding 'moleculekit/share/pdb2pqr/residues/0A1.xml' 2023-10-03T13:23:40,360 adding 'moleculekit/share/pdb2pqr/residues/0AF.dat' 2023-10-03T13:23:40,361 adding 'moleculekit/share/pdb2pqr/residues/0AF.xml' 2023-10-03T13:23:40,362 adding 'moleculekit/share/pdb2pqr/residues/0BN.dat' 2023-10-03T13:23:40,364 adding 'moleculekit/share/pdb2pqr/residues/0BN.xml' 2023-10-03T13:23:40,365 adding 'moleculekit/share/pdb2pqr/residues/1MH.dat' 2023-10-03T13:23:40,366 adding 'moleculekit/share/pdb2pqr/residues/1MH.xml' 2023-10-03T13:23:40,367 adding 'moleculekit/share/pdb2pqr/residues/2AS.dat' 2023-10-03T13:23:40,369 adding 'moleculekit/share/pdb2pqr/residues/2AS.xml' 2023-10-03T13:23:40,370 adding 'moleculekit/share/pdb2pqr/residues/2GX.dat' 2023-10-03T13:23:40,371 adding 'moleculekit/share/pdb2pqr/residues/2GX.xml' 2023-10-03T13:23:40,373 adding 'moleculekit/share/pdb2pqr/residues/2ML.dat' 2023-10-03T13:23:40,374 adding 'moleculekit/share/pdb2pqr/residues/2ML.xml' 2023-10-03T13:23:40,375 adding 'moleculekit/share/pdb2pqr/residues/2MR.dat' 2023-10-03T13:23:40,377 adding 'moleculekit/share/pdb2pqr/residues/2MR.xml' 2023-10-03T13:23:40,378 adding 'moleculekit/share/pdb2pqr/residues/4IN.dat' 2023-10-03T13:23:40,379 adding 'moleculekit/share/pdb2pqr/residues/4IN.xml' 2023-10-03T13:23:40,380 adding 'moleculekit/share/pdb2pqr/residues/4PH.dat' 2023-10-03T13:23:40,382 adding 'moleculekit/share/pdb2pqr/residues/4PH.xml' 2023-10-03T13:23:40,383 adding 'moleculekit/share/pdb2pqr/residues/4PQ.dat' 2023-10-03T13:23:40,384 adding 'moleculekit/share/pdb2pqr/residues/4PQ.xml' 2023-10-03T13:23:40,385 adding 'moleculekit/share/pdb2pqr/residues/5JP.dat' 2023-10-03T13:23:40,387 adding 'moleculekit/share/pdb2pqr/residues/5JP.xml' 2023-10-03T13:23:40,388 adding 'moleculekit/share/pdb2pqr/residues/AA4.dat' 2023-10-03T13:23:40,389 adding 'moleculekit/share/pdb2pqr/residues/AA4.xml' 2023-10-03T13:23:40,391 adding 'moleculekit/share/pdb2pqr/residues/ABA.dat' 2023-10-03T13:23:40,392 adding 'moleculekit/share/pdb2pqr/residues/ABA.xml' 2023-10-03T13:23:40,393 adding 'moleculekit/share/pdb2pqr/residues/AHP.dat' 2023-10-03T13:23:40,394 adding 'moleculekit/share/pdb2pqr/residues/AHP.xml' 2023-10-03T13:23:40,395 adding 'moleculekit/share/pdb2pqr/residues/ALC.dat' 2023-10-03T13:23:40,397 adding 'moleculekit/share/pdb2pqr/residues/ALC.xml' 2023-10-03T13:23:40,398 adding 'moleculekit/share/pdb2pqr/residues/ALN.dat' 2023-10-03T13:23:40,399 adding 'moleculekit/share/pdb2pqr/residues/ALN.xml' 2023-10-03T13:23:40,400 adding 'moleculekit/share/pdb2pqr/residues/ALY.dat' 2023-10-03T13:23:40,402 adding 'moleculekit/share/pdb2pqr/residues/ALY.xml' 2023-10-03T13:23:40,403 adding 'moleculekit/share/pdb2pqr/residues/APD.dat' 2023-10-03T13:23:40,405 adding 'moleculekit/share/pdb2pqr/residues/APD.xml' 2023-10-03T13:23:40,406 adding 'moleculekit/share/pdb2pqr/residues/BB8.dat' 2023-10-03T13:23:40,407 adding 'moleculekit/share/pdb2pqr/residues/BB8.xml' 2023-10-03T13:23:40,408 adding 'moleculekit/share/pdb2pqr/residues/BCS.dat' 2023-10-03T13:23:40,410 adding 'moleculekit/share/pdb2pqr/residues/BCS.xml' 2023-10-03T13:23:40,411 adding 'moleculekit/share/pdb2pqr/residues/BTK.dat' 2023-10-03T13:23:40,412 adding 'moleculekit/share/pdb2pqr/residues/BTK.xml' 2023-10-03T13:23:40,414 adding 'moleculekit/share/pdb2pqr/residues/CCS.dat' 2023-10-03T13:23:40,415 adding 'moleculekit/share/pdb2pqr/residues/CCS.xml' 2023-10-03T13:23:40,416 adding 'moleculekit/share/pdb2pqr/residues/CGU.dat' 2023-10-03T13:23:40,418 adding 'moleculekit/share/pdb2pqr/residues/CGU.xml' 2023-10-03T13:23:40,419 adding 'moleculekit/share/pdb2pqr/residues/CSA.dat' 2023-10-03T13:23:40,420 adding 'moleculekit/share/pdb2pqr/residues/CSA.xml' 2023-10-03T13:23:40,421 adding 'moleculekit/share/pdb2pqr/residues/CSO.dat' 2023-10-03T13:23:40,423 adding 'moleculekit/share/pdb2pqr/residues/CSO.xml' 2023-10-03T13:23:40,424 adding 'moleculekit/share/pdb2pqr/residues/CSP.dat' 2023-10-03T13:23:40,425 adding 'moleculekit/share/pdb2pqr/residues/CSP.xml' 2023-10-03T13:23:40,427 adding 'moleculekit/share/pdb2pqr/residues/CSS.dat' 2023-10-03T13:23:40,428 adding 'moleculekit/share/pdb2pqr/residues/CSS.xml' 2023-10-03T13:23:40,429 adding 'moleculekit/share/pdb2pqr/residues/D4P.dat' 2023-10-03T13:23:40,430 adding 'moleculekit/share/pdb2pqr/residues/D4P.xml' 2023-10-03T13:23:40,432 adding 'moleculekit/share/pdb2pqr/residues/DA2.dat' 2023-10-03T13:23:40,433 adding 'moleculekit/share/pdb2pqr/residues/DA2.xml' 2023-10-03T13:23:40,434 adding 'moleculekit/share/pdb2pqr/residues/DAB.dat' 2023-10-03T13:23:40,435 adding 'moleculekit/share/pdb2pqr/residues/DAB.xml' 2023-10-03T13:23:40,437 adding 'moleculekit/share/pdb2pqr/residues/DAH.dat' 2023-10-03T13:23:40,438 adding 'moleculekit/share/pdb2pqr/residues/DAH.xml' 2023-10-03T13:23:40,439 adding 'moleculekit/share/pdb2pqr/residues/DPP.dat' 2023-10-03T13:23:40,441 adding 'moleculekit/share/pdb2pqr/residues/DPP.xml' 2023-10-03T13:23:40,442 adding 'moleculekit/share/pdb2pqr/residues/ESC.dat' 2023-10-03T13:23:40,443 adding 'moleculekit/share/pdb2pqr/residues/ESC.xml' 2023-10-03T13:23:40,444 adding 'moleculekit/share/pdb2pqr/residues/FGL.dat' 2023-10-03T13:23:40,446 adding 'moleculekit/share/pdb2pqr/residues/FGL.xml' 2023-10-03T13:23:40,447 adding 'moleculekit/share/pdb2pqr/residues/GHG.dat' 2023-10-03T13:23:40,448 adding 'moleculekit/share/pdb2pqr/residues/GHG.xml' 2023-10-03T13:23:40,449 adding 'moleculekit/share/pdb2pqr/residues/GME.dat' 2023-10-03T13:23:40,451 adding 'moleculekit/share/pdb2pqr/residues/GME.xml' 2023-10-03T13:23:40,452 adding 'moleculekit/share/pdb2pqr/residues/GNC.dat' 2023-10-03T13:23:40,453 adding 'moleculekit/share/pdb2pqr/residues/GNC.xml' 2023-10-03T13:23:40,454 adding 'moleculekit/share/pdb2pqr/residues/HHK.dat' 2023-10-03T13:23:40,456 adding 'moleculekit/share/pdb2pqr/residues/HHK.xml' 2023-10-03T13:23:40,457 adding 'moleculekit/share/pdb2pqr/residues/HLU.dat' 2023-10-03T13:23:40,458 adding 'moleculekit/share/pdb2pqr/residues/HLU.xml' 2023-10-03T13:23:40,460 adding 'moleculekit/share/pdb2pqr/residues/HLX.dat' 2023-10-03T13:23:40,461 adding 'moleculekit/share/pdb2pqr/residues/HLX.xml' 2023-10-03T13:23:40,462 adding 'moleculekit/share/pdb2pqr/residues/HOX.dat' 2023-10-03T13:23:40,463 adding 'moleculekit/share/pdb2pqr/residues/HOX.xml' 2023-10-03T13:23:40,465 adding 'moleculekit/share/pdb2pqr/residues/HPE.dat' 2023-10-03T13:23:40,466 adding 'moleculekit/share/pdb2pqr/residues/HPE.xml' 2023-10-03T13:23:40,467 adding 'moleculekit/share/pdb2pqr/residues/HQA.dat' 2023-10-03T13:23:40,469 adding 'moleculekit/share/pdb2pqr/residues/HQA.xml' 2023-10-03T13:23:40,470 adding 'moleculekit/share/pdb2pqr/residues/HTR.dat' 2023-10-03T13:23:40,471 adding 'moleculekit/share/pdb2pqr/residues/HTR.xml' 2023-10-03T13:23:40,473 adding 'moleculekit/share/pdb2pqr/residues/HYP.dat' 2023-10-03T13:23:40,474 adding 'moleculekit/share/pdb2pqr/residues/HYP.xml' 2023-10-03T13:23:40,475 adding 'moleculekit/share/pdb2pqr/residues/I2M.dat' 2023-10-03T13:23:40,476 adding 'moleculekit/share/pdb2pqr/residues/I2M.xml' 2023-10-03T13:23:40,478 adding 'moleculekit/share/pdb2pqr/residues/IGL.dat' 2023-10-03T13:23:40,479 adding 'moleculekit/share/pdb2pqr/residues/IGL.xml' 2023-10-03T13:23:40,480 adding 'moleculekit/share/pdb2pqr/residues/IIL.dat' 2023-10-03T13:23:40,482 adding 'moleculekit/share/pdb2pqr/residues/IIL.xml' 2023-10-03T13:23:40,483 adding 'moleculekit/share/pdb2pqr/residues/IML.dat' 2023-10-03T13:23:40,484 adding 'moleculekit/share/pdb2pqr/residues/IML.xml' 2023-10-03T13:23:40,485 adding 'moleculekit/share/pdb2pqr/residues/KYN.dat' 2023-10-03T13:23:40,487 adding 'moleculekit/share/pdb2pqr/residues/KYN.xml' 2023-10-03T13:23:40,488 adding 'moleculekit/share/pdb2pqr/residues/LME.dat' 2023-10-03T13:23:40,489 adding 'moleculekit/share/pdb2pqr/residues/LME.xml' 2023-10-03T13:23:40,491 adding 'moleculekit/share/pdb2pqr/residues/LMQ.dat' 2023-10-03T13:23:40,492 adding 'moleculekit/share/pdb2pqr/residues/LMQ.xml' 2023-10-03T13:23:40,493 adding 'moleculekit/share/pdb2pqr/residues/LYZ.dat' 2023-10-03T13:23:40,495 adding 'moleculekit/share/pdb2pqr/residues/LYZ.xml' 2023-10-03T13:23:40,496 adding 'moleculekit/share/pdb2pqr/residues/M3L.dat' 2023-10-03T13:23:40,497 adding 'moleculekit/share/pdb2pqr/residues/M3L.xml' 2023-10-03T13:23:40,498 adding 'moleculekit/share/pdb2pqr/residues/ME0.dat' 2023-10-03T13:23:40,502 adding 'moleculekit/share/pdb2pqr/residues/ME0.xml' 2023-10-03T13:23:40,503 adding 'moleculekit/share/pdb2pqr/residues/MEA.dat' 2023-10-03T13:23:40,504 adding 'moleculekit/share/pdb2pqr/residues/MEA.xml' 2023-10-03T13:23:40,506 adding 'moleculekit/share/pdb2pqr/residues/MEN.dat' 2023-10-03T13:23:40,507 adding 'moleculekit/share/pdb2pqr/residues/MEN.xml' 2023-10-03T13:23:40,508 adding 'moleculekit/share/pdb2pqr/residues/MEQ.dat' 2023-10-03T13:23:40,510 adding 'moleculekit/share/pdb2pqr/residues/MEQ.xml' 2023-10-03T13:23:40,511 adding 'moleculekit/share/pdb2pqr/residues/MLE.dat' 2023-10-03T13:23:40,512 adding 'moleculekit/share/pdb2pqr/residues/MLE.xml' 2023-10-03T13:23:40,514 adding 'moleculekit/share/pdb2pqr/residues/MLY.dat' 2023-10-03T13:23:40,515 adding 'moleculekit/share/pdb2pqr/residues/MLY.xml' 2023-10-03T13:23:40,516 adding 'moleculekit/share/pdb2pqr/residues/MLZ.dat' 2023-10-03T13:23:40,518 adding 'moleculekit/share/pdb2pqr/residues/MLZ.xml' 2023-10-03T13:23:40,519 adding 'moleculekit/share/pdb2pqr/residues/MME.dat' 2023-10-03T13:23:40,520 adding 'moleculekit/share/pdb2pqr/residues/MME.xml' 2023-10-03T13:23:40,521 adding 'moleculekit/share/pdb2pqr/residues/MMO.dat' 2023-10-03T13:23:40,523 adding 'moleculekit/share/pdb2pqr/residues/MMO.xml' 2023-10-03T13:23:40,524 adding 'moleculekit/share/pdb2pqr/residues/MVA.dat' 2023-10-03T13:23:40,525 adding 'moleculekit/share/pdb2pqr/residues/MVA.xml' 2023-10-03T13:23:40,527 adding 'moleculekit/share/pdb2pqr/residues/NAL.dat' 2023-10-03T13:23:40,528 adding 'moleculekit/share/pdb2pqr/residues/NAL.xml' 2023-10-03T13:23:40,529 adding 'moleculekit/share/pdb2pqr/residues/NCY.dat' 2023-10-03T13:23:40,530 adding 'moleculekit/share/pdb2pqr/residues/NCY.xml' 2023-10-03T13:23:40,531 adding 'moleculekit/share/pdb2pqr/residues/NLE.dat' 2023-10-03T13:23:40,533 adding 'moleculekit/share/pdb2pqr/residues/NLE.xml' 2023-10-03T13:23:40,534 adding 'moleculekit/share/pdb2pqr/residues/NVA.dat' 2023-10-03T13:23:40,535 adding 'moleculekit/share/pdb2pqr/residues/NVA.xml' 2023-10-03T13:23:40,537 adding 'moleculekit/share/pdb2pqr/residues/NZC.dat' 2023-10-03T13:23:40,538 adding 'moleculekit/share/pdb2pqr/residues/NZC.xml' 2023-10-03T13:23:40,539 adding 'moleculekit/share/pdb2pqr/residues/OCY.dat' 2023-10-03T13:23:40,540 adding 'moleculekit/share/pdb2pqr/residues/OCY.xml' 2023-10-03T13:23:40,542 adding 'moleculekit/share/pdb2pqr/residues/OMX.dat' 2023-10-03T13:23:40,543 adding 'moleculekit/share/pdb2pqr/residues/OMX.xml' 2023-10-03T13:23:40,544 adding 'moleculekit/share/pdb2pqr/residues/ONL.dat' 2023-10-03T13:23:40,546 adding 'moleculekit/share/pdb2pqr/residues/ONL.xml' 2023-10-03T13:23:40,547 adding 'moleculekit/share/pdb2pqr/residues/ORM.dat' 2023-10-03T13:23:40,548 adding 'moleculekit/share/pdb2pqr/residues/ORM.xml' 2023-10-03T13:23:40,549 adding 'moleculekit/share/pdb2pqr/residues/P1L.dat' 2023-10-03T13:23:40,551 adding 'moleculekit/share/pdb2pqr/residues/P1L.xml' 2023-10-03T13:23:40,552 adding 'moleculekit/share/pdb2pqr/residues/PCA.dat' 2023-10-03T13:23:40,553 adding 'moleculekit/share/pdb2pqr/residues/PCA.xml' 2023-10-03T13:23:40,554 adding 'moleculekit/share/pdb2pqr/residues/PRK.dat' 2023-10-03T13:23:40,556 adding 'moleculekit/share/pdb2pqr/residues/PRK.xml' 2023-10-03T13:23:40,557 adding 'moleculekit/share/pdb2pqr/residues/PTR.dat' 2023-10-03T13:23:40,558 adding 'moleculekit/share/pdb2pqr/residues/PTR.xml' 2023-10-03T13:23:40,560 adding 'moleculekit/share/pdb2pqr/residues/SEP.dat' 2023-10-03T13:23:40,561 adding 'moleculekit/share/pdb2pqr/residues/SEP.xml' 2023-10-03T13:23:40,562 adding 'moleculekit/share/pdb2pqr/residues/TPO.dat' 2023-10-03T13:23:40,563 adding 'moleculekit/share/pdb2pqr/residues/TPO.xml' 2023-10-03T13:23:40,564 adding 'moleculekit/share/pdb2pqr/residues/TRO.dat' 2023-10-03T13:23:40,566 adding 'moleculekit/share/pdb2pqr/residues/TRO.xml' 2023-10-03T13:23:40,567 adding 'moleculekit/share/pdb2pqr/residues/TY2.dat' 2023-10-03T13:23:40,568 adding 'moleculekit/share/pdb2pqr/residues/TY2.xml' 2023-10-03T13:23:40,570 adding 'moleculekit/share/pdb2pqr/residues/TYQ.dat' 2023-10-03T13:23:40,571 adding 'moleculekit/share/pdb2pqr/residues/TYQ.xml' 2023-10-03T13:23:40,572 adding 'moleculekit/share/pdb2pqr/residues/YCM.dat' 2023-10-03T13:23:40,574 adding 'moleculekit/share/pdb2pqr/residues/YCM.xml' 2023-10-03T13:23:40,575 adding 'moleculekit/share/pdb2pqr/residues/YNM.dat' 2023-10-03T13:23:40,576 adding 'moleculekit/share/pdb2pqr/residues/YNM.xml' 2023-10-03T13:23:40,578 adding 'moleculekit/smallmol/__init__.py' 2023-10-03T13:23:40,583 adding 'moleculekit/smallmol/smallmol.py' 2023-10-03T13:23:40,586 adding 'moleculekit/smallmol/smallmollib.py' 2023-10-03T13:23:40,588 adding 'moleculekit/smallmol/test_smallmol.py' 2023-10-03T13:23:40,590 adding 'moleculekit/smallmol/test_smallmollib.py' 2023-10-03T13:23:40,592 adding 'moleculekit/smallmol/util.py' 2023-10-03T13:23:40,594 adding 'moleculekit/smallmol/tools/__init__.py' 2023-10-03T13:23:40,596 adding 'moleculekit/smallmol/tools/clustering.py' 2023-10-03T13:23:40,597 adding 'moleculekit/smallmol/tools/restrainedembed.py' 2023-10-03T13:23:40,599 adding 'moleculekit/smallmol/tools/test_tools.py' 2023-10-03T13:23:40,688 adding 'moleculekit/tmalign/tmalign_util.cpp' 2023-10-03T13:23:40,697 adding 'moleculekit/tmalign/tmalign_util.pyx' 2023-10-03T13:23:40,698 adding 'moleculekit/tmalign/tmalignlib.pxd' 2023-10-03T13:23:40,700 adding 'moleculekit/tmalign/include/TMAlign.h' 2023-10-03T13:23:40,717 adding 'moleculekit/tmalign/src/TMAlign.cpp' 2023-10-03T13:23:40,721 adding 'moleculekit/tools/__init__.py' 2023-10-03T13:23:40,723 adding 'moleculekit/tools/atomtyper.py' 2023-10-03T13:23:40,725 adding 'moleculekit/tools/autosegment.py' 2023-10-03T13:23:40,727 adding 'moleculekit/tools/crystalpacking.py' 2023-10-03T13:23:40,730 adding 'moleculekit/tools/detect.py' 2023-10-03T13:23:40,732 adding 'moleculekit/tools/docking.py' 2023-10-03T13:23:40,734 adding 'moleculekit/tools/graphalignment.py' 2023-10-03T13:23:40,735 adding 'moleculekit/tools/hhblitsprofile.py' 2023-10-03T13:23:40,737 adding 'moleculekit/tools/moleculechecks.py' 2023-10-03T13:23:40,743 adding 'moleculekit/tools/preparation.py' 2023-10-03T13:23:40,746 adding 'moleculekit/tools/preparation_customres.py' 2023-10-03T13:23:40,748 adding 'moleculekit/tools/sequencestructuralalignment.py' 2023-10-03T13:23:40,751 adding 'moleculekit/tools/voxeldescriptors.py' 2023-10-03T13:23:40,753 adding 'moleculekit/tools/obabel_tools/__init__.py' 2023-10-03T13:23:40,754 adding 'moleculekit/tools/obabel_tools/obabel_cli.py' 2023-10-03T13:23:40,842 adding 'moleculekit/wrapping/wrapping.cpp' 2023-10-03T13:23:40,851 adding 'moleculekit/wrapping/wrapping.pyx' 2023-10-03T13:23:40,940 adding 'moleculekit/xtc_utils/xtc.cpp' 2023-10-03T13:23:40,948 adding 'moleculekit/xtc_utils/xtc.pyx' 2023-10-03T13:23:40,950 adding 'moleculekit/xtc_utils/xtclib.pxd' 2023-10-03T13:23:40,953 adding 'moleculekit/xtc_utils/include/xdrfile.h' 2023-10-03T13:23:40,954 adding 'moleculekit/xtc_utils/include/xdrfile_xtc.h' 2023-10-03T13:23:40,956 adding 'moleculekit/xtc_utils/include/xtc.h' 2023-10-03T13:23:40,963 adding 'moleculekit/xtc_utils/src/xdrfile.cpp' 2023-10-03T13:23:40,965 adding 'moleculekit/xtc_utils/src/xdrfile_xtc.cpp' 2023-10-03T13:23:40,967 adding 'moleculekit/xtc_utils/src/xtc.cpp' 2023-10-03T13:23:40,969 adding 'moleculekit-1.7.10.dist-info/LICENSE' 2023-10-03T13:23:40,971 adding 'moleculekit-1.7.10.dist-info/METADATA' 2023-10-03T13:23:40,972 adding 'moleculekit-1.7.10.dist-info/WHEEL' 2023-10-03T13:23:40,973 adding 'moleculekit-1.7.10.dist-info/top_level.txt' 2023-10-03T13:23:40,978 adding 'moleculekit-1.7.10.dist-info/RECORD' 2023-10-03T13:23:41,118 removing build/bdist.linux-armv7l/wheel 2023-10-03T13:23:41,394 Building wheel for moleculekit (pyproject.toml): finished with status 'done' 2023-10-03T13:23:41,699 Created wheel for moleculekit: filename=moleculekit-1.7.10-cp39-cp39-linux_armv7l.whl size=12537762 sha256=e29ce6039cf97de5fb527aa0b91d1d7e7abb19737cb381c9be4ad71120fb19d5 2023-10-03T13:23:41,700 Stored in directory: /tmp/pip-ephem-wheel-cache-6inlhsyf/wheels/f4/00/8d/b8a57a7e32035b77a375114a7bd924204542ddc505928376a2 2023-10-03T13:23:41,725 Successfully built moleculekit 2023-10-03T13:23:42,028 Removed build tracker: '/tmp/pip-build-tracker-ci_5zeig'