2024-07-15T19:37:29,689 Created temporary directory: /tmp/pip-build-tracker-wz4suwx8 2024-07-15T19:37:29,691 Initialized build tracking at /tmp/pip-build-tracker-wz4suwx8 2024-07-15T19:37:29,691 Created build tracker: /tmp/pip-build-tracker-wz4suwx8 2024-07-15T19:37:29,691 Entered build tracker: /tmp/pip-build-tracker-wz4suwx8 2024-07-15T19:37:29,692 Created temporary directory: /tmp/pip-wheel-2lfxxtwk 2024-07-15T19:37:29,696 Created temporary directory: /tmp/pip-ephem-wheel-cache-jkv8_7n_ 2024-07-15T19:37:29,720 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2024-07-15T19:37:29,723 2 location(s) to search for versions of emmer: 2024-07-15T19:37:29,723 * https://pypi.org/simple/emmer/ 2024-07-15T19:37:29,723 * https://www.piwheels.org/simple/emmer/ 2024-07-15T19:37:29,723 Fetching project page and analyzing links: https://pypi.org/simple/emmer/ 2024-07-15T19:37:29,724 Getting page https://pypi.org/simple/emmer/ 2024-07-15T19:37:29,726 Found index url https://pypi.org/simple/ 2024-07-15T19:37:29,776 Fetched page https://pypi.org/simple/emmer/ as application/vnd.pypi.simple.v1+json 2024-07-15T19:37:29,777 Found link https://files.pythonhosted.org/packages/bc/05/351a2819e5f1cb12024971e08ecd8be60cf235ea55d954dfcc9c7de0e12f/emmer-0.0.1.tar.gz (from https://pypi.org/simple/emmer/), version: 0.0.1 2024-07-15T19:37:29,778 Found link https://files.pythonhosted.org/packages/82/cf/bfb5353d5ca586dbe77ba4268ab7aba22fdff2f5110c805c1d7c28852fb2/emmer-0.1.2.tar.gz (from https://pypi.org/simple/emmer/), version: 0.1.2 2024-07-15T19:37:29,778 Fetching project page and analyzing links: https://www.piwheels.org/simple/emmer/ 2024-07-15T19:37:29,778 Getting page https://www.piwheels.org/simple/emmer/ 2024-07-15T19:37:29,779 Found index url https://www.piwheels.org/simple/ 2024-07-15T19:37:29,840 Fetched page https://www.piwheels.org/simple/emmer/ as text/html 2024-07-15T19:37:29,841 Skipping link: No binaries permitted for emmer: https://www.piwheels.org/simple/emmer/emmer-0.0.1-py3-none-any.whl#sha256=203dd136c319cff531f994dd6fb781a88bb61e2e74477e72a743d08719fc3a0b (from https://www.piwheels.org/simple/emmer/) 2024-07-15T19:37:29,842 Skipping link: not a file: https://www.piwheels.org/simple/emmer/ 2024-07-15T19:37:29,842 Skipping link: not a file: https://pypi.org/simple/emmer/ 2024-07-15T19:37:29,859 Given no hashes to check 1 links for project 'emmer': discarding no candidates 2024-07-15T19:37:29,876 Collecting emmer==0.1.2 2024-07-15T19:37:29,878 Created temporary directory: /tmp/pip-unpack-g3a7_52c 2024-07-15T19:37:29,921 Downloading emmer-0.1.2.tar.gz (3.6 MB) 2024-07-15T19:37:30,857 Added emmer==0.1.2 from https://files.pythonhosted.org/packages/82/cf/bfb5353d5ca586dbe77ba4268ab7aba22fdff2f5110c805c1d7c28852fb2/emmer-0.1.2.tar.gz to build tracker '/tmp/pip-build-tracker-wz4suwx8' 2024-07-15T19:37:30,861 Created temporary directory: /tmp/pip-build-env-ttl9wuwk 2024-07-15T19:37:30,871 Installing build dependencies: started 2024-07-15T19:37:30,872 Running command pip subprocess to install build dependencies 2024-07-15T19:37:32,066 Using pip 24.0 from /usr/local/lib/python3.9/dist-packages/pip (python 3.9) 2024-07-15T19:37:32,584 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2024-07-15T19:37:34,080 Collecting setuptools>=42 2024-07-15T19:37:34,095 Using cached https://www.piwheels.org/simple/setuptools/setuptools-70.3.0-py3-none-any.whl (931 kB) 2024-07-15T19:37:34,347 Collecting wheel 2024-07-15T19:37:34,364 Using cached https://www.piwheels.org/simple/wheel/wheel-0.43.0-py3-none-any.whl (65 kB) 2024-07-15T19:37:36,109 Installing collected packages: wheel, setuptools 2024-07-15T19:37:36,330 Creating /tmp/pip-build-env-ttl9wuwk/overlay/bin 2024-07-15T19:37:36,332 changing mode of /tmp/pip-build-env-ttl9wuwk/overlay/bin/wheel to 755 2024-07-15T19:37:38,785 Successfully installed setuptools-70.3.0 wheel-0.43.0 2024-07-15T19:37:38,964 [notice] A new release of pip is available: 24.0 -> 24.1.2 2024-07-15T19:37:38,964 [notice] To update, run: python3 -m pip install --upgrade pip 2024-07-15T19:37:39,239 Installing build dependencies: finished with status 'done' 2024-07-15T19:37:39,245 Getting requirements to build wheel: started 2024-07-15T19:37:39,246 Running command Getting requirements to build wheel 2024-07-15T19:37:39,795 /tmp/pip-build-env-ttl9wuwk/overlay/lib/python3.9/site-packages/setuptools/dist.py:476: SetuptoolsDeprecationWarning: Invalid dash-separated options 2024-07-15T19:37:39,795 !! 2024-07-15T19:37:39,796 ******************************************************************************** 2024-07-15T19:37:39,796 Usage of dash-separated 'description-file' will not be supported in future 2024-07-15T19:37:39,796 versions. Please use the underscore name 'description_file' instead. 2024-07-15T19:37:39,796 By 2024-Sep-26, you need to update your project and remove deprecated calls 2024-07-15T19:37:39,796 or your builds will no longer be supported. 2024-07-15T19:37:39,796 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2024-07-15T19:37:39,797 ******************************************************************************** 2024-07-15T19:37:39,797 !! 2024-07-15T19:37:39,797 opt = self.warn_dash_deprecation(opt, section) 2024-07-15T19:37:39,867 running egg_info 2024-07-15T19:37:39,872 writing emmer.egg-info/PKG-INFO 2024-07-15T19:37:39,876 writing dependency_links to emmer.egg-info/dependency_links.txt 2024-07-15T19:37:39,877 writing entry points to emmer.egg-info/entry_points.txt 2024-07-15T19:37:39,879 writing requirements to emmer.egg-info/requires.txt 2024-07-15T19:37:39,880 writing top-level names to emmer.egg-info/top_level.txt 2024-07-15T19:37:39,930 reading manifest file 'emmer.egg-info/SOURCES.txt' 2024-07-15T19:37:39,935 reading manifest template 'MANIFEST.in' 2024-07-15T19:37:39,965 writing manifest file 'emmer.egg-info/SOURCES.txt' 2024-07-15T19:37:40,035 Getting requirements to build wheel: finished with status 'done' 2024-07-15T19:37:40,039 Created temporary directory: /tmp/pip-modern-metadata-q_idw2zm 2024-07-15T19:37:40,041 Preparing metadata (pyproject.toml): started 2024-07-15T19:37:40,042 Running command Preparing metadata (pyproject.toml) 2024-07-15T19:37:40,582 /tmp/pip-build-env-ttl9wuwk/overlay/lib/python3.9/site-packages/setuptools/dist.py:476: SetuptoolsDeprecationWarning: Invalid dash-separated options 2024-07-15T19:37:40,582 !! 2024-07-15T19:37:40,583 ******************************************************************************** 2024-07-15T19:37:40,583 Usage of dash-separated 'description-file' will not be supported in future 2024-07-15T19:37:40,583 versions. Please use the underscore name 'description_file' instead. 2024-07-15T19:37:40,583 By 2024-Sep-26, you need to update your project and remove deprecated calls 2024-07-15T19:37:40,583 or your builds will no longer be supported. 2024-07-15T19:37:40,584 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2024-07-15T19:37:40,584 ******************************************************************************** 2024-07-15T19:37:40,584 !! 2024-07-15T19:37:40,584 opt = self.warn_dash_deprecation(opt, section) 2024-07-15T19:37:40,621 running dist_info 2024-07-15T19:37:40,626 creating /tmp/pip-modern-metadata-q_idw2zm/emmer.egg-info 2024-07-15T19:37:40,630 writing /tmp/pip-modern-metadata-q_idw2zm/emmer.egg-info/PKG-INFO 2024-07-15T19:37:40,635 writing dependency_links to /tmp/pip-modern-metadata-q_idw2zm/emmer.egg-info/dependency_links.txt 2024-07-15T19:37:40,636 writing entry points to /tmp/pip-modern-metadata-q_idw2zm/emmer.egg-info/entry_points.txt 2024-07-15T19:37:40,638 writing requirements to /tmp/pip-modern-metadata-q_idw2zm/emmer.egg-info/requires.txt 2024-07-15T19:37:40,639 writing top-level names to /tmp/pip-modern-metadata-q_idw2zm/emmer.egg-info/top_level.txt 2024-07-15T19:37:40,640 writing manifest file '/tmp/pip-modern-metadata-q_idw2zm/emmer.egg-info/SOURCES.txt' 2024-07-15T19:37:40,686 reading manifest file '/tmp/pip-modern-metadata-q_idw2zm/emmer.egg-info/SOURCES.txt' 2024-07-15T19:37:40,688 reading manifest template 'MANIFEST.in' 2024-07-15T19:37:40,715 writing manifest file '/tmp/pip-modern-metadata-q_idw2zm/emmer.egg-info/SOURCES.txt' 2024-07-15T19:37:40,716 creating '/tmp/pip-modern-metadata-q_idw2zm/emmer-0.1.2.dist-info' 2024-07-15T19:37:40,834 Preparing metadata (pyproject.toml): finished with status 'done' 2024-07-15T19:37:40,840 Source in /tmp/pip-wheel-2lfxxtwk/emmer_c8fdfc55dd6d4df192e10ea5fb627fd5 has version 0.1.2, which satisfies requirement emmer==0.1.2 from https://files.pythonhosted.org/packages/82/cf/bfb5353d5ca586dbe77ba4268ab7aba22fdff2f5110c805c1d7c28852fb2/emmer-0.1.2.tar.gz 2024-07-15T19:37:40,841 Removed emmer==0.1.2 from https://files.pythonhosted.org/packages/82/cf/bfb5353d5ca586dbe77ba4268ab7aba22fdff2f5110c805c1d7c28852fb2/emmer-0.1.2.tar.gz from build tracker '/tmp/pip-build-tracker-wz4suwx8' 2024-07-15T19:37:40,846 Created temporary directory: /tmp/pip-unpack-w3nztj8t 2024-07-15T19:37:40,846 Created temporary directory: /tmp/pip-unpack-9ux15hqz 2024-07-15T19:37:40,871 Building wheels for collected packages: emmer 2024-07-15T19:37:40,875 Created temporary directory: /tmp/pip-wheel-723zg5xs 2024-07-15T19:37:40,875 Destination directory: /tmp/pip-wheel-723zg5xs 2024-07-15T19:37:40,877 Building wheel for emmer (pyproject.toml): started 2024-07-15T19:37:40,878 Running command Building wheel for emmer (pyproject.toml) 2024-07-15T19:37:41,434 /tmp/pip-build-env-ttl9wuwk/overlay/lib/python3.9/site-packages/setuptools/dist.py:476: SetuptoolsDeprecationWarning: Invalid dash-separated options 2024-07-15T19:37:41,435 !! 2024-07-15T19:37:41,435 ******************************************************************************** 2024-07-15T19:37:41,436 Usage of dash-separated 'description-file' will not be supported in future 2024-07-15T19:37:41,436 versions. Please use the underscore name 'description_file' instead. 2024-07-15T19:37:41,436 By 2024-Sep-26, you need to update your project and remove deprecated calls 2024-07-15T19:37:41,436 or your builds will no longer be supported. 2024-07-15T19:37:41,436 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2024-07-15T19:37:41,436 ******************************************************************************** 2024-07-15T19:37:41,437 !! 2024-07-15T19:37:41,437 opt = self.warn_dash_deprecation(opt, section) 2024-07-15T19:37:41,467 running bdist_wheel 2024-07-15T19:37:41,513 running build 2024-07-15T19:37:41,513 running build_py 2024-07-15T19:37:41,521 creating build 2024-07-15T19:37:41,521 creating build/lib 2024-07-15T19:37:41,522 creating build/lib/emmer 2024-07-15T19:37:41,523 copying emmer/__init__.py -> build/lib/emmer 2024-07-15T19:37:41,525 copying emmer/main.py -> build/lib/emmer 2024-07-15T19:37:41,528 creating build/lib/emmer/tests 2024-07-15T19:37:41,529 copying emmer/tests/__init__.py -> build/lib/emmer/tests 2024-07-15T19:37:41,531 copying emmer/tests/test_dssp.py -> build/lib/emmer/tests 2024-07-15T19:37:41,533 copying emmer/tests/test_filter.py -> build/lib/emmer/tests 2024-07-15T19:37:41,535 copying emmer/tests/run.py -> build/lib/emmer/tests 2024-07-15T19:37:41,537 copying emmer/tests/test_pdb_shake.py -> build/lib/emmer/tests 2024-07-15T19:37:41,538 copying emmer/tests/test_map_utils.py -> build/lib/emmer/tests 2024-07-15T19:37:41,540 copying emmer/tests/test_coordinates.py -> build/lib/emmer/tests 2024-07-15T19:37:41,542 copying emmer/tests/test_pdb_utils.py -> build/lib/emmer/tests 2024-07-15T19:37:41,544 copying emmer/tests/test_map_tools.py -> build/lib/emmer/tests 2024-07-15T19:37:41,546 copying emmer/tests/test_convert.py -> build/lib/emmer/tests 2024-07-15T19:37:41,548 copying emmer/tests/test_surface_area.py -> build/lib/emmer/tests 2024-07-15T19:37:41,551 copying emmer/tests/test_profile_tools.py -> build/lib/emmer/tests 2024-07-15T19:37:41,553 copying emmer/tests/test_fsc_maps.py -> build/lib/emmer/tests 2024-07-15T19:37:41,555 copying emmer/tests/test_bfactors.py -> build/lib/emmer/tests 2024-07-15T19:37:41,557 copying emmer/tests/test_pdb.py -> build/lib/emmer/tests 2024-07-15T19:37:41,559 creating build/lib/emmer/ndimage 2024-07-15T19:37:41,560 copying emmer/ndimage/__init__.py -> build/lib/emmer/ndimage 2024-07-15T19:37:41,563 copying emmer/ndimage/get_center_of_mass.py -> build/lib/emmer/ndimage 2024-07-15T19:37:41,565 copying emmer/ndimage/compute_real_space_correlation.py -> build/lib/emmer/ndimage 2024-07-15T19:37:41,566 copying emmer/ndimage/map_tools.py -> build/lib/emmer/ndimage 2024-07-15T19:37:41,569 copying emmer/ndimage/average_half_maps.py -> build/lib/emmer/ndimage 2024-07-15T19:37:41,572 copying emmer/ndimage/map_utils.py -> build/lib/emmer/ndimage 2024-07-15T19:37:41,576 copying emmer/ndimage/plotContourMap.py -> build/lib/emmer/ndimage 2024-07-15T19:37:41,579 copying emmer/ndimage/trim_map_between_residues.py -> build/lib/emmer/ndimage 2024-07-15T19:37:41,582 creating build/lib/emmer/pdb 2024-07-15T19:37:41,583 copying emmer/pdb/__init__.py -> build/lib/emmer/pdb 2024-07-15T19:37:41,586 copying emmer/pdb/pdb_utils.py -> build/lib/emmer/pdb 2024-07-15T19:37:41,590 creating build/lib/emmer/include 2024-07-15T19:37:41,591 copying emmer/include/__init__.py -> build/lib/emmer/include 2024-07-15T19:37:41,594 copying emmer/include/emmer_utils.py -> build/lib/emmer/include 2024-07-15T19:37:41,600 creating build/lib/emmer/tests/pdb_unittest 2024-07-15T19:37:41,602 copying emmer/tests/pdb_unittest/__init__.py -> build/lib/emmer/tests/pdb_unittest 2024-07-15T19:37:41,610 creating build/lib/emmer/tests/ndimage_unittest 2024-07-15T19:37:41,612 copying emmer/tests/ndimage_unittest/__init__.py -> build/lib/emmer/tests/ndimage_unittest 2024-07-15T19:37:41,615 creating build/lib/emmer/tests/pdb_unittest/data 2024-07-15T19:37:41,616 copying emmer/tests/pdb_unittest/data/__init__.py -> build/lib/emmer/tests/pdb_unittest/data 2024-07-15T19:37:41,619 creating build/lib/emmer/tests/pdb_unittest/verify 2024-07-15T19:37:41,621 copying emmer/tests/pdb_unittest/verify/__init__.py -> build/lib/emmer/tests/pdb_unittest/verify 2024-07-15T19:37:41,628 creating build/lib/emmer/ndimage/bfactors 2024-07-15T19:37:41,630 copying emmer/ndimage/bfactors/__init__.py -> build/lib/emmer/ndimage/bfactors 2024-07-15T19:37:41,636 copying emmer/ndimage/bfactors/estimate_bfactor_distribution.py -> build/lib/emmer/ndimage/bfactors 2024-07-15T19:37:41,856 copying emmer/ndimage/bfactors/estimate_bfactor_map.py -> build/lib/emmer/ndimage/bfactors 2024-07-15T19:37:41,858 copying emmer/ndimage/bfactors/estimate_local_bfactor.py -> build/lib/emmer/ndimage/bfactors 2024-07-15T19:37:41,861 creating build/lib/emmer/ndimage/sharpen 2024-07-15T19:37:41,862 copying emmer/ndimage/sharpen/__init__.py -> build/lib/emmer/ndimage/sharpen 2024-07-15T19:37:41,866 copying emmer/ndimage/sharpen/scaling_tools.py -> build/lib/emmer/ndimage/sharpen 2024-07-15T19:37:41,870 copying emmer/ndimage/sharpen/set_radial_profile_to_volume.py -> build/lib/emmer/ndimage/sharpen 2024-07-15T19:37:41,873 copying emmer/ndimage/sharpen/sharpen_maps.py -> build/lib/emmer/ndimage/sharpen 2024-07-15T19:37:41,877 creating build/lib/emmer/ndimage/radial_profile 2024-07-15T19:37:41,879 copying emmer/ndimage/radial_profile/__init__.py -> build/lib/emmer/ndimage/radial_profile 2024-07-15T19:37:41,884 copying emmer/ndimage/radial_profile/frequency_array.py -> build/lib/emmer/ndimage/radial_profile 2024-07-15T19:37:41,888 copying emmer/ndimage/radial_profile/amplitude_from_resolution.py -> build/lib/emmer/ndimage/radial_profile 2024-07-15T19:37:41,892 copying emmer/ndimage/radial_profile/estimate_bfactor_standard.py -> build/lib/emmer/ndimage/radial_profile 2024-07-15T19:37:41,897 copying emmer/ndimage/radial_profile/profile_tools.py -> build/lib/emmer/ndimage/radial_profile 2024-07-15T19:37:41,902 copying emmer/ndimage/radial_profile/estimate_bfactor_pwlf.py -> build/lib/emmer/ndimage/radial_profile 2024-07-15T19:37:41,907 copying emmer/ndimage/radial_profile/compute_radial_amplitude_variance.py -> build/lib/emmer/ndimage/radial_profile 2024-07-15T19:37:41,912 copying emmer/ndimage/radial_profile/measure_debye_effect_magnitude.py -> build/lib/emmer/ndimage/radial_profile 2024-07-15T19:37:41,917 copying emmer/ndimage/radial_profile/scale_profiles.py -> build/lib/emmer/ndimage/radial_profile 2024-07-15T19:37:41,922 copying emmer/ndimage/radial_profile/merge_two_profiles.py -> build/lib/emmer/ndimage/radial_profile 2024-07-15T19:37:41,928 copying emmer/ndimage/radial_profile/compute_radial_profile.py -> build/lib/emmer/ndimage/radial_profile 2024-07-15T19:37:41,933 copying emmer/ndimage/radial_profile/resolution_from_amplitude.py -> build/lib/emmer/ndimage/radial_profile 2024-07-15T19:37:41,940 creating build/lib/emmer/ndimage/plots 2024-07-15T19:37:41,943 copying emmer/ndimage/plots/plots.py -> build/lib/emmer/ndimage/plots 2024-07-15T19:37:41,948 copying emmer/ndimage/plots/__init__.py -> build/lib/emmer/ndimage/plots 2024-07-15T19:37:41,950 copying emmer/ndimage/plots/plotContourMap.py -> build/lib/emmer/ndimage/plots 2024-07-15T19:37:41,952 creating build/lib/emmer/ndimage/contour 2024-07-15T19:37:41,953 copying emmer/ndimage/contour/count_segments.py -> build/lib/emmer/ndimage/contour 2024-07-15T19:37:41,955 copying emmer/ndimage/contour/__init__.py -> build/lib/emmer/ndimage/contour 2024-07-15T19:37:41,958 copying emmer/ndimage/contour/volume_at_threshold.py -> build/lib/emmer/ndimage/contour 2024-07-15T19:37:41,959 copying emmer/ndimage/contour/contour_utils.py -> build/lib/emmer/ndimage/contour 2024-07-15T19:37:41,961 copying emmer/ndimage/contour/surface_area_at_threshold.py -> build/lib/emmer/ndimage/contour 2024-07-15T19:37:41,963 copying emmer/ndimage/contour/volume_matching_threshold.py -> build/lib/emmer/ndimage/contour 2024-07-15T19:37:41,965 creating build/lib/emmer/ndimage/spectrum 2024-07-15T19:37:41,966 copying emmer/ndimage/spectrum/__init__.py -> build/lib/emmer/ndimage/spectrum 2024-07-15T19:37:41,969 copying emmer/ndimage/spectrum/sum_of_psd_2d.py -> build/lib/emmer/ndimage/spectrum 2024-07-15T19:37:41,971 copying emmer/ndimage/spectrum/spectrum_utils.py -> build/lib/emmer/ndimage/spectrum 2024-07-15T19:37:41,973 creating build/lib/emmer/ndimage/mask 2024-07-15T19:37:41,974 copying emmer/ndimage/mask/__init__.py -> build/lib/emmer/ndimage/mask 2024-07-15T19:37:41,977 copying emmer/ndimage/mask/mask_utils.py -> build/lib/emmer/ndimage/mask 2024-07-15T19:37:41,979 copying emmer/ndimage/mask/get_atomic_model_mask.py -> build/lib/emmer/ndimage/mask 2024-07-15T19:37:41,982 copying emmer/ndimage/mask/compute_confidence_map.py -> build/lib/emmer/ndimage/mask 2024-07-15T19:37:41,984 copying emmer/ndimage/mask/get_spherical_mask.py -> build/lib/emmer/ndimage/mask 2024-07-15T19:37:41,988 creating build/lib/emmer/ndimage/fsc 2024-07-15T19:37:41,989 copying emmer/ndimage/fsc/__init__.py -> build/lib/emmer/ndimage/fsc 2024-07-15T19:37:41,992 copying emmer/ndimage/fsc/calculate_phase_correlation.py -> build/lib/emmer/ndimage/fsc 2024-07-15T19:37:41,993 copying emmer/ndimage/fsc/compute_fsc_resolution.py -> build/lib/emmer/ndimage/fsc 2024-07-15T19:37:41,995 copying emmer/ndimage/fsc/calculate_fsc_curve.py -> build/lib/emmer/ndimage/fsc 2024-07-15T19:37:41,997 copying emmer/ndimage/fsc/fsc_utils.py -> build/lib/emmer/ndimage/fsc 2024-07-15T19:37:41,999 creating build/lib/emmer/ndimage/filter 2024-07-15T19:37:42,000 copying emmer/ndimage/filter/__init__.py -> build/lib/emmer/ndimage/filter 2024-07-15T19:37:42,002 copying emmer/ndimage/filter/low_pass_filter.py -> build/lib/emmer/ndimage/filter 2024-07-15T19:37:42,004 copying emmer/ndimage/filter/smoothen_mask.py -> build/lib/emmer/ndimage/filter 2024-07-15T19:37:42,006 copying emmer/ndimage/filter/apply_fsc_filter.py -> build/lib/emmer/ndimage/filter 2024-07-15T19:37:42,007 copying emmer/ndimage/filter/filter_utils.py -> build/lib/emmer/ndimage/filter 2024-07-15T19:37:42,009 copying emmer/ndimage/filter/band_pass_filter.py -> build/lib/emmer/ndimage/filter 2024-07-15T19:37:42,010 copying emmer/ndimage/filter/high_pass_filter.py -> build/lib/emmer/ndimage/filter 2024-07-15T19:37:42,012 creating build/lib/emmer/pdb/SSE 2024-07-15T19:37:42,013 copying emmer/pdb/SSE/__init__.py -> build/lib/emmer/pdb/SSE 2024-07-15T19:37:42,015 copying emmer/pdb/SSE/get_secondary_structure_residues_content.py -> build/lib/emmer/pdb/SSE 2024-07-15T19:37:42,017 copying emmer/pdb/SSE/link_gemmi_model_with_dssp.py -> build/lib/emmer/pdb/SSE 2024-07-15T19:37:42,018 copying emmer/pdb/SSE/split_gemmi_model_based_on_dssp.py -> build/lib/emmer/pdb/SSE 2024-07-15T19:37:42,020 copying emmer/pdb/SSE/get_dssp.py -> build/lib/emmer/pdb/SSE 2024-07-15T19:37:42,022 creating build/lib/emmer/pdb/pdb_tools 2024-07-15T19:37:42,023 copying emmer/pdb/pdb_tools/add_cryst1_line.py -> build/lib/emmer/pdb/pdb_tools 2024-07-15T19:37:42,025 copying emmer/pdb/pdb_tools/__init__.py -> build/lib/emmer/pdb/pdb_tools 2024-07-15T19:37:42,027 copying emmer/pdb/pdb_tools/compute_rmsd_two_pdb.py -> build/lib/emmer/pdb/pdb_tools 2024-07-15T19:37:42,028 copying emmer/pdb/pdb_tools/shake_pdb_within_mask.py -> build/lib/emmer/pdb/pdb_tools 2024-07-15T19:37:42,030 copying emmer/pdb/pdb_tools/perturb_within_mask.py -> build/lib/emmer/pdb/pdb_tools 2024-07-15T19:37:42,032 copying emmer/pdb/pdb_tools/find_wilson_cutoff.py -> build/lib/emmer/pdb/pdb_tools 2024-07-15T19:37:42,034 creating build/lib/emmer/pdb/coordinates 2024-07-15T19:37:42,035 copying emmer/pdb/coordinates/get_random_polar_vector.py -> build/lib/emmer/pdb/coordinates 2024-07-15T19:37:42,036 copying emmer/pdb/coordinates/__init__.py -> build/lib/emmer/pdb/coordinates 2024-07-15T19:37:42,039 creating build/lib/emmer/pdb/convert 2024-07-15T19:37:42,040 copying emmer/pdb/convert/__init__.py -> build/lib/emmer/pdb/convert 2024-07-15T19:37:42,042 copying emmer/pdb/convert/convert_pdb_to_mmcif.py -> build/lib/emmer/pdb/convert 2024-07-15T19:37:42,043 copying emmer/pdb/convert/convert_cartesian_to_polar.py -> build/lib/emmer/pdb/convert 2024-07-15T19:37:42,045 copying emmer/pdb/convert/convert_pdb_to_mrc_position.py -> build/lib/emmer/pdb/convert 2024-07-15T19:37:42,046 copying emmer/pdb/convert/convert_polar_to_cartesian.py -> build/lib/emmer/pdb/convert 2024-07-15T19:37:42,048 copying emmer/pdb/convert/convert_pdb_to_map.py -> build/lib/emmer/pdb/convert 2024-07-15T19:37:42,050 copying emmer/pdb/convert/convert_mrc_to_pdb_position.py -> build/lib/emmer/pdb/convert 2024-07-15T19:37:42,052 creating build/lib/emmer/include/confidenceMapUtil 2024-07-15T19:37:42,053 copying emmer/include/confidenceMapUtil/__init__.py -> build/lib/emmer/include/confidenceMapUtil 2024-07-15T19:37:42,055 copying emmer/include/confidenceMapUtil/FDRutil.py -> build/lib/emmer/include/confidenceMapUtil 2024-07-15T19:37:42,058 copying emmer/include/confidenceMapUtil/mapUtil.py -> build/lib/emmer/include/confidenceMapUtil 2024-07-15T19:37:42,060 copying emmer/include/confidenceMapUtil/confidenceMapMain.py -> build/lib/emmer/include/confidenceMapUtil 2024-07-15T19:37:42,062 copying emmer/include/confidenceMapUtil/locscaleUtil.py -> build/lib/emmer/include/confidenceMapUtil 2024-07-15T19:37:42,065 running egg_info 2024-07-15T19:37:42,070 writing emmer.egg-info/PKG-INFO 2024-07-15T19:37:42,074 writing dependency_links to emmer.egg-info/dependency_links.txt 2024-07-15T19:37:42,076 writing entry points to emmer.egg-info/entry_points.txt 2024-07-15T19:37:42,078 writing requirements to emmer.egg-info/requires.txt 2024-07-15T19:37:42,079 writing top-level names to emmer.egg-info/top_level.txt 2024-07-15T19:37:42,122 reading manifest file 'emmer.egg-info/SOURCES.txt' 2024-07-15T19:37:42,129 reading manifest template 'MANIFEST.in' 2024-07-15T19:37:42,189 writing manifest file 'emmer.egg-info/SOURCES.txt' 2024-07-15T19:37:42,203 copying emmer/include/geckodriver -> build/lib/emmer/include 2024-07-15T19:37:42,321 copying emmer/include/theoretical_profiles.pickle -> build/lib/emmer/include 2024-07-15T19:37:42,324 copying emmer/tests/pdb_unittest/data/6NY1.pdb -> build/lib/emmer/tests/pdb_unittest/data 2024-07-15T19:37:42,343 copying emmer/tests/pdb_unittest/data/charged.pdb -> build/lib/emmer/tests/pdb_unittest/data 2024-07-15T19:37:42,346 copying emmer/tests/pdb_unittest/data/no_cryst1_line.pdb -> build/lib/emmer/tests/pdb_unittest/data 2024-07-15T19:37:42,349 copying emmer/tests/pdb_unittest/data/testing_model.pdb -> build/lib/emmer/tests/pdb_unittest/data 2024-07-15T19:37:42,352 copying emmer/tests/pdb_unittest/verify/all_coords.npy -> build/lib/emmer/tests/pdb_unittest/verify 2024-07-15T19:37:42,354 copying emmer/tests/pdb_unittest/verify/ca_coords.npy -> build/lib/emmer/tests/pdb_unittest/verify 2024-07-15T19:37:42,356 copying emmer/tests/pdb_unittest/verify/shifted_model.pdb -> build/lib/emmer/tests/pdb_unittest/verify 2024-07-15T19:37:42,359 copying emmer/tests/pdb_unittest/verify/verify_map.mrc -> build/lib/emmer/tests/pdb_unittest/verify 2024-07-15T19:37:42,403 installing to build/bdist.linux-armv7l/wheel 2024-07-15T19:37:42,403 running install 2024-07-15T19:37:42,428 running install_lib 2024-07-15T19:37:42,435 creating build/bdist.linux-armv7l 2024-07-15T19:37:42,435 creating build/bdist.linux-armv7l/wheel 2024-07-15T19:37:42,437 creating build/bdist.linux-armv7l/wheel/emmer 2024-07-15T19:37:42,438 copying build/lib/emmer/__init__.py -> build/bdist.linux-armv7l/wheel/emmer 2024-07-15T19:37:42,441 copying build/lib/emmer/main.py -> build/bdist.linux-armv7l/wheel/emmer 2024-07-15T19:37:42,443 creating build/bdist.linux-armv7l/wheel/emmer/tests 2024-07-15T19:37:42,443 copying build/lib/emmer/tests/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/tests 2024-07-15T19:37:42,446 copying build/lib/emmer/tests/test_dssp.py -> build/bdist.linux-armv7l/wheel/emmer/tests 2024-07-15T19:37:42,448 copying build/lib/emmer/tests/test_filter.py -> build/bdist.linux-armv7l/wheel/emmer/tests 2024-07-15T19:37:42,450 copying build/lib/emmer/tests/run.py -> build/bdist.linux-armv7l/wheel/emmer/tests 2024-07-15T19:37:42,452 copying build/lib/emmer/tests/test_pdb_shake.py -> build/bdist.linux-armv7l/wheel/emmer/tests 2024-07-15T19:37:42,454 copying build/lib/emmer/tests/test_map_utils.py -> build/bdist.linux-armv7l/wheel/emmer/tests 2024-07-15T19:37:42,456 copying build/lib/emmer/tests/test_coordinates.py -> build/bdist.linux-armv7l/wheel/emmer/tests 2024-07-15T19:37:42,458 copying build/lib/emmer/tests/test_pdb_utils.py -> build/bdist.linux-armv7l/wheel/emmer/tests 2024-07-15T19:37:42,460 copying build/lib/emmer/tests/test_map_tools.py -> build/bdist.linux-armv7l/wheel/emmer/tests 2024-07-15T19:37:42,462 copying build/lib/emmer/tests/test_convert.py -> build/bdist.linux-armv7l/wheel/emmer/tests 2024-07-15T19:37:42,464 copying build/lib/emmer/tests/test_surface_area.py -> build/bdist.linux-armv7l/wheel/emmer/tests 2024-07-15T19:37:42,466 copying build/lib/emmer/tests/test_profile_tools.py -> build/bdist.linux-armv7l/wheel/emmer/tests 2024-07-15T19:37:42,468 copying build/lib/emmer/tests/test_fsc_maps.py -> build/bdist.linux-armv7l/wheel/emmer/tests 2024-07-15T19:37:42,471 creating build/bdist.linux-armv7l/wheel/emmer/tests/pdb_unittest 2024-07-15T19:37:42,472 copying build/lib/emmer/tests/pdb_unittest/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/tests/pdb_unittest 2024-07-15T19:37:42,475 creating build/bdist.linux-armv7l/wheel/emmer/tests/pdb_unittest/data 2024-07-15T19:37:42,475 copying build/lib/emmer/tests/pdb_unittest/data/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/tests/pdb_unittest/data 2024-07-15T19:37:42,478 copying build/lib/emmer/tests/pdb_unittest/data/testing_model.pdb -> build/bdist.linux-armv7l/wheel/emmer/tests/pdb_unittest/data 2024-07-15T19:37:42,480 copying build/lib/emmer/tests/pdb_unittest/data/no_cryst1_line.pdb -> build/bdist.linux-armv7l/wheel/emmer/tests/pdb_unittest/data 2024-07-15T19:37:42,483 copying build/lib/emmer/tests/pdb_unittest/data/6NY1.pdb -> build/bdist.linux-armv7l/wheel/emmer/tests/pdb_unittest/data 2024-07-15T19:37:42,497 copying build/lib/emmer/tests/pdb_unittest/data/charged.pdb -> build/bdist.linux-armv7l/wheel/emmer/tests/pdb_unittest/data 2024-07-15T19:37:42,500 creating build/bdist.linux-armv7l/wheel/emmer/tests/pdb_unittest/verify 2024-07-15T19:37:42,501 copying build/lib/emmer/tests/pdb_unittest/verify/ca_coords.npy -> build/bdist.linux-armv7l/wheel/emmer/tests/pdb_unittest/verify 2024-07-15T19:37:42,503 copying build/lib/emmer/tests/pdb_unittest/verify/shifted_model.pdb -> build/bdist.linux-armv7l/wheel/emmer/tests/pdb_unittest/verify 2024-07-15T19:37:42,505 copying build/lib/emmer/tests/pdb_unittest/verify/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/tests/pdb_unittest/verify 2024-07-15T19:37:42,508 copying build/lib/emmer/tests/pdb_unittest/verify/verify_map.mrc -> build/bdist.linux-armv7l/wheel/emmer/tests/pdb_unittest/verify 2024-07-15T19:37:42,523 copying build/lib/emmer/tests/pdb_unittest/verify/all_coords.npy -> build/bdist.linux-armv7l/wheel/emmer/tests/pdb_unittest/verify 2024-07-15T19:37:42,525 copying build/lib/emmer/tests/test_bfactors.py -> build/bdist.linux-armv7l/wheel/emmer/tests 2024-07-15T19:37:42,527 copying build/lib/emmer/tests/test_pdb.py -> build/bdist.linux-armv7l/wheel/emmer/tests 2024-07-15T19:37:42,530 creating build/bdist.linux-armv7l/wheel/emmer/tests/ndimage_unittest 2024-07-15T19:37:42,530 copying build/lib/emmer/tests/ndimage_unittest/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/tests/ndimage_unittest 2024-07-15T19:37:42,533 creating build/bdist.linux-armv7l/wheel/emmer/ndimage 2024-07-15T19:37:42,534 creating build/bdist.linux-armv7l/wheel/emmer/ndimage/bfactors 2024-07-15T19:37:42,535 copying build/lib/emmer/ndimage/bfactors/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/bfactors 2024-07-15T19:37:42,538 copying build/lib/emmer/ndimage/bfactors/estimate_bfactor_distribution.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/bfactors 2024-07-15T19:37:42,539 copying build/lib/emmer/ndimage/bfactors/estimate_bfactor_map.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/bfactors 2024-07-15T19:37:42,541 copying build/lib/emmer/ndimage/bfactors/estimate_local_bfactor.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/bfactors 2024-07-15T19:37:42,543 copying build/lib/emmer/ndimage/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage 2024-07-15T19:37:42,545 copying build/lib/emmer/ndimage/get_center_of_mass.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage 2024-07-15T19:37:42,547 creating build/bdist.linux-armv7l/wheel/emmer/ndimage/sharpen 2024-07-15T19:37:42,548 copying build/lib/emmer/ndimage/sharpen/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/sharpen 2024-07-15T19:37:42,551 copying build/lib/emmer/ndimage/sharpen/scaling_tools.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/sharpen 2024-07-15T19:37:42,552 copying build/lib/emmer/ndimage/sharpen/set_radial_profile_to_volume.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/sharpen 2024-07-15T19:37:42,554 copying build/lib/emmer/ndimage/sharpen/sharpen_maps.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/sharpen 2024-07-15T19:37:42,556 copying build/lib/emmer/ndimage/compute_real_space_correlation.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage 2024-07-15T19:37:42,558 creating build/bdist.linux-armv7l/wheel/emmer/ndimage/radial_profile 2024-07-15T19:37:42,558 copying build/lib/emmer/ndimage/radial_profile/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/radial_profile 2024-07-15T19:37:42,561 copying build/lib/emmer/ndimage/radial_profile/frequency_array.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/radial_profile 2024-07-15T19:37:42,563 copying build/lib/emmer/ndimage/radial_profile/amplitude_from_resolution.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/radial_profile 2024-07-15T19:37:42,565 copying build/lib/emmer/ndimage/radial_profile/estimate_bfactor_standard.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/radial_profile 2024-07-15T19:37:42,566 copying build/lib/emmer/ndimage/radial_profile/profile_tools.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/radial_profile 2024-07-15T19:37:42,568 copying build/lib/emmer/ndimage/radial_profile/estimate_bfactor_pwlf.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/radial_profile 2024-07-15T19:37:42,570 copying build/lib/emmer/ndimage/radial_profile/compute_radial_amplitude_variance.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/radial_profile 2024-07-15T19:37:42,572 copying build/lib/emmer/ndimage/radial_profile/measure_debye_effect_magnitude.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/radial_profile 2024-07-15T19:37:42,574 copying build/lib/emmer/ndimage/radial_profile/scale_profiles.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/radial_profile 2024-07-15T19:37:42,575 copying build/lib/emmer/ndimage/radial_profile/merge_two_profiles.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/radial_profile 2024-07-15T19:37:42,577 copying build/lib/emmer/ndimage/radial_profile/compute_radial_profile.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/radial_profile 2024-07-15T19:37:42,579 copying build/lib/emmer/ndimage/radial_profile/resolution_from_amplitude.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/radial_profile 2024-07-15T19:37:42,581 copying build/lib/emmer/ndimage/map_tools.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage 2024-07-15T19:37:42,583 creating build/bdist.linux-armv7l/wheel/emmer/ndimage/plots 2024-07-15T19:37:42,584 copying build/lib/emmer/ndimage/plots/plots.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/plots 2024-07-15T19:37:42,587 copying build/lib/emmer/ndimage/plots/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/plots 2024-07-15T19:37:42,589 copying build/lib/emmer/ndimage/plots/plotContourMap.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/plots 2024-07-15T19:37:42,592 copying build/lib/emmer/ndimage/average_half_maps.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage 2024-07-15T19:37:42,594 creating build/bdist.linux-armv7l/wheel/emmer/ndimage/contour 2024-07-15T19:37:42,594 copying build/lib/emmer/ndimage/contour/count_segments.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/contour 2024-07-15T19:37:42,596 copying build/lib/emmer/ndimage/contour/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/contour 2024-07-15T19:37:42,599 copying build/lib/emmer/ndimage/contour/volume_at_threshold.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/contour 2024-07-15T19:37:42,600 copying build/lib/emmer/ndimage/contour/contour_utils.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/contour 2024-07-15T19:37:42,602 copying build/lib/emmer/ndimage/contour/surface_area_at_threshold.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/contour 2024-07-15T19:37:42,604 copying build/lib/emmer/ndimage/contour/volume_matching_threshold.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/contour 2024-07-15T19:37:42,606 creating build/bdist.linux-armv7l/wheel/emmer/ndimage/spectrum 2024-07-15T19:37:42,607 copying build/lib/emmer/ndimage/spectrum/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/spectrum 2024-07-15T19:37:42,609 copying build/lib/emmer/ndimage/spectrum/sum_of_psd_2d.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/spectrum 2024-07-15T19:37:42,611 copying build/lib/emmer/ndimage/spectrum/spectrum_utils.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/spectrum 2024-07-15T19:37:42,613 copying build/lib/emmer/ndimage/map_utils.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage 2024-07-15T19:37:42,615 creating build/bdist.linux-armv7l/wheel/emmer/ndimage/mask 2024-07-15T19:37:42,616 copying build/lib/emmer/ndimage/mask/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/mask 2024-07-15T19:37:42,619 copying build/lib/emmer/ndimage/mask/mask_utils.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/mask 2024-07-15T19:37:42,620 copying build/lib/emmer/ndimage/mask/get_atomic_model_mask.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/mask 2024-07-15T19:37:42,622 copying build/lib/emmer/ndimage/mask/compute_confidence_map.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/mask 2024-07-15T19:37:42,624 copying build/lib/emmer/ndimage/mask/get_spherical_mask.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/mask 2024-07-15T19:37:42,626 copying build/lib/emmer/ndimage/plotContourMap.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage 2024-07-15T19:37:42,628 creating build/bdist.linux-armv7l/wheel/emmer/ndimage/fsc 2024-07-15T19:37:42,628 copying build/lib/emmer/ndimage/fsc/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/fsc 2024-07-15T19:37:42,631 copying build/lib/emmer/ndimage/fsc/calculate_phase_correlation.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/fsc 2024-07-15T19:37:42,632 copying build/lib/emmer/ndimage/fsc/compute_fsc_resolution.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/fsc 2024-07-15T19:37:42,634 copying build/lib/emmer/ndimage/fsc/calculate_fsc_curve.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/fsc 2024-07-15T19:37:42,636 copying build/lib/emmer/ndimage/fsc/fsc_utils.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/fsc 2024-07-15T19:37:42,638 copying build/lib/emmer/ndimage/trim_map_between_residues.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage 2024-07-15T19:37:42,640 creating build/bdist.linux-armv7l/wheel/emmer/ndimage/filter 2024-07-15T19:37:42,641 copying build/lib/emmer/ndimage/filter/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/filter 2024-07-15T19:37:42,643 copying build/lib/emmer/ndimage/filter/low_pass_filter.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/filter 2024-07-15T19:37:42,645 copying build/lib/emmer/ndimage/filter/smoothen_mask.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/filter 2024-07-15T19:37:42,646 copying build/lib/emmer/ndimage/filter/apply_fsc_filter.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/filter 2024-07-15T19:37:42,648 copying build/lib/emmer/ndimage/filter/filter_utils.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/filter 2024-07-15T19:37:42,650 copying build/lib/emmer/ndimage/filter/band_pass_filter.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/filter 2024-07-15T19:37:42,651 copying build/lib/emmer/ndimage/filter/high_pass_filter.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/filter 2024-07-15T19:37:42,653 creating build/bdist.linux-armv7l/wheel/emmer/pdb 2024-07-15T19:37:42,654 copying build/lib/emmer/pdb/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/pdb 2024-07-15T19:37:42,657 creating build/bdist.linux-armv7l/wheel/emmer/pdb/SSE 2024-07-15T19:37:42,657 copying build/lib/emmer/pdb/SSE/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/SSE 2024-07-15T19:37:42,660 copying build/lib/emmer/pdb/SSE/get_secondary_structure_residues_content.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/SSE 2024-07-15T19:37:42,662 copying build/lib/emmer/pdb/SSE/link_gemmi_model_with_dssp.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/SSE 2024-07-15T19:37:42,663 copying build/lib/emmer/pdb/SSE/split_gemmi_model_based_on_dssp.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/SSE 2024-07-15T19:37:42,665 copying build/lib/emmer/pdb/SSE/get_dssp.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/SSE 2024-07-15T19:37:42,667 creating build/bdist.linux-armv7l/wheel/emmer/pdb/pdb_tools 2024-07-15T19:37:42,668 copying build/lib/emmer/pdb/pdb_tools/add_cryst1_line.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/pdb_tools 2024-07-15T19:37:42,670 copying build/lib/emmer/pdb/pdb_tools/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/pdb_tools 2024-07-15T19:37:42,672 copying build/lib/emmer/pdb/pdb_tools/compute_rmsd_two_pdb.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/pdb_tools 2024-07-15T19:37:42,674 copying build/lib/emmer/pdb/pdb_tools/shake_pdb_within_mask.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/pdb_tools 2024-07-15T19:37:42,676 copying build/lib/emmer/pdb/pdb_tools/perturb_within_mask.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/pdb_tools 2024-07-15T19:37:42,678 copying build/lib/emmer/pdb/pdb_tools/find_wilson_cutoff.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/pdb_tools 2024-07-15T19:37:42,680 creating build/bdist.linux-armv7l/wheel/emmer/pdb/coordinates 2024-07-15T19:37:42,681 copying build/lib/emmer/pdb/coordinates/get_random_polar_vector.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/coordinates 2024-07-15T19:37:42,682 copying build/lib/emmer/pdb/coordinates/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/coordinates 2024-07-15T19:37:42,685 creating build/bdist.linux-armv7l/wheel/emmer/pdb/convert 2024-07-15T19:37:42,686 copying build/lib/emmer/pdb/convert/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/convert 2024-07-15T19:37:42,688 copying build/lib/emmer/pdb/convert/convert_pdb_to_mmcif.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/convert 2024-07-15T19:37:42,690 copying build/lib/emmer/pdb/convert/convert_cartesian_to_polar.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/convert 2024-07-15T19:37:42,691 copying build/lib/emmer/pdb/convert/convert_pdb_to_mrc_position.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/convert 2024-07-15T19:37:42,693 copying build/lib/emmer/pdb/convert/convert_polar_to_cartesian.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/convert 2024-07-15T19:37:42,695 copying build/lib/emmer/pdb/convert/convert_pdb_to_map.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/convert 2024-07-15T19:37:42,697 copying build/lib/emmer/pdb/convert/convert_mrc_to_pdb_position.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/convert 2024-07-15T19:37:42,699 copying build/lib/emmer/pdb/pdb_utils.py -> build/bdist.linux-armv7l/wheel/emmer/pdb 2024-07-15T19:37:42,702 creating build/bdist.linux-armv7l/wheel/emmer/include 2024-07-15T19:37:42,703 copying build/lib/emmer/include/geckodriver -> build/bdist.linux-armv7l/wheel/emmer/include 2024-07-15T19:37:42,837 copying build/lib/emmer/include/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/include 2024-07-15T19:37:42,839 copying build/lib/emmer/include/emmer_utils.py -> build/bdist.linux-armv7l/wheel/emmer/include 2024-07-15T19:37:42,841 copying build/lib/emmer/include/theoretical_profiles.pickle -> build/bdist.linux-armv7l/wheel/emmer/include 2024-07-15T19:37:42,843 creating build/bdist.linux-armv7l/wheel/emmer/include/confidenceMapUtil 2024-07-15T19:37:42,844 copying build/lib/emmer/include/confidenceMapUtil/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/include/confidenceMapUtil 2024-07-15T19:37:42,846 copying build/lib/emmer/include/confidenceMapUtil/FDRutil.py -> build/bdist.linux-armv7l/wheel/emmer/include/confidenceMapUtil 2024-07-15T19:37:42,849 copying build/lib/emmer/include/confidenceMapUtil/mapUtil.py -> build/bdist.linux-armv7l/wheel/emmer/include/confidenceMapUtil 2024-07-15T19:37:42,851 copying build/lib/emmer/include/confidenceMapUtil/confidenceMapMain.py -> build/bdist.linux-armv7l/wheel/emmer/include/confidenceMapUtil 2024-07-15T19:37:42,853 copying build/lib/emmer/include/confidenceMapUtil/locscaleUtil.py -> build/bdist.linux-armv7l/wheel/emmer/include/confidenceMapUtil 2024-07-15T19:37:42,855 running install_egg_info 2024-07-15T19:37:42,867 Copying emmer.egg-info to build/bdist.linux-armv7l/wheel/emmer-0.1.2-py3.9.egg-info 2024-07-15T19:37:42,880 running install_scripts 2024-07-15T19:37:42,898 creating build/bdist.linux-armv7l/wheel/emmer-0.1.2.dist-info/WHEEL 2024-07-15T19:37:42,901 creating '/tmp/pip-wheel-723zg5xs/.tmp-t9d7jts7/emmer-0.1.2-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2024-07-15T19:37:42,904 adding 'emmer/__init__.py' 2024-07-15T19:37:42,905 adding 'emmer/main.py' 2024-07-15T19:37:42,908 adding 'emmer/include/__init__.py' 2024-07-15T19:37:42,909 adding 'emmer/include/emmer_utils.py' 2024-07-15T19:37:44,129 adding 'emmer/include/geckodriver' 2024-07-15T19:37:44,183 adding 'emmer/include/theoretical_profiles.pickle' 2024-07-15T19:37:44,187 adding 'emmer/include/confidenceMapUtil/FDRutil.py' 2024-07-15T19:37:44,189 adding 'emmer/include/confidenceMapUtil/__init__.py' 2024-07-15T19:37:44,191 adding 'emmer/include/confidenceMapUtil/confidenceMapMain.py' 2024-07-15T19:37:44,195 adding 'emmer/include/confidenceMapUtil/locscaleUtil.py' 2024-07-15T19:37:44,197 adding 'emmer/include/confidenceMapUtil/mapUtil.py' 2024-07-15T19:37:44,200 adding 'emmer/ndimage/__init__.py' 2024-07-15T19:37:44,202 adding 'emmer/ndimage/average_half_maps.py' 2024-07-15T19:37:44,203 adding 'emmer/ndimage/compute_real_space_correlation.py' 2024-07-15T19:37:44,204 adding 'emmer/ndimage/get_center_of_mass.py' 2024-07-15T19:37:44,206 adding 'emmer/ndimage/map_tools.py' 2024-07-15T19:37:44,208 adding 'emmer/ndimage/map_utils.py' 2024-07-15T19:37:44,209 adding 'emmer/ndimage/plotContourMap.py' 2024-07-15T19:37:44,211 adding 'emmer/ndimage/trim_map_between_residues.py' 2024-07-15T19:37:44,213 adding 'emmer/ndimage/bfactors/__init__.py' 2024-07-15T19:37:44,214 adding 'emmer/ndimage/bfactors/estimate_bfactor_distribution.py' 2024-07-15T19:37:44,216 adding 'emmer/ndimage/bfactors/estimate_bfactor_map.py' 2024-07-15T19:37:44,217 adding 'emmer/ndimage/bfactors/estimate_local_bfactor.py' 2024-07-15T19:37:44,219 adding 'emmer/ndimage/contour/__init__.py' 2024-07-15T19:37:44,221 adding 'emmer/ndimage/contour/contour_utils.py' 2024-07-15T19:37:44,222 adding 'emmer/ndimage/contour/count_segments.py' 2024-07-15T19:37:44,223 adding 'emmer/ndimage/contour/surface_area_at_threshold.py' 2024-07-15T19:37:44,224 adding 'emmer/ndimage/contour/volume_at_threshold.py' 2024-07-15T19:37:44,226 adding 'emmer/ndimage/contour/volume_matching_threshold.py' 2024-07-15T19:37:44,228 adding 'emmer/ndimage/filter/__init__.py' 2024-07-15T19:37:44,229 adding 'emmer/ndimage/filter/apply_fsc_filter.py' 2024-07-15T19:37:44,230 adding 'emmer/ndimage/filter/band_pass_filter.py' 2024-07-15T19:37:44,232 adding 'emmer/ndimage/filter/filter_utils.py' 2024-07-15T19:37:44,233 adding 'emmer/ndimage/filter/high_pass_filter.py' 2024-07-15T19:37:44,234 adding 'emmer/ndimage/filter/low_pass_filter.py' 2024-07-15T19:37:44,236 adding 'emmer/ndimage/filter/smoothen_mask.py' 2024-07-15T19:37:44,238 adding 'emmer/ndimage/fsc/__init__.py' 2024-07-15T19:37:44,239 adding 'emmer/ndimage/fsc/calculate_fsc_curve.py' 2024-07-15T19:37:44,240 adding 'emmer/ndimage/fsc/calculate_phase_correlation.py' 2024-07-15T19:37:44,241 adding 'emmer/ndimage/fsc/compute_fsc_resolution.py' 2024-07-15T19:37:44,243 adding 'emmer/ndimage/fsc/fsc_utils.py' 2024-07-15T19:37:44,245 adding 'emmer/ndimage/mask/__init__.py' 2024-07-15T19:37:44,246 adding 'emmer/ndimage/mask/compute_confidence_map.py' 2024-07-15T19:37:44,248 adding 'emmer/ndimage/mask/get_atomic_model_mask.py' 2024-07-15T19:37:44,249 adding 'emmer/ndimage/mask/get_spherical_mask.py' 2024-07-15T19:37:44,250 adding 'emmer/ndimage/mask/mask_utils.py' 2024-07-15T19:37:44,252 adding 'emmer/ndimage/plots/__init__.py' 2024-07-15T19:37:44,254 adding 'emmer/ndimage/plots/plotContourMap.py' 2024-07-15T19:37:44,256 adding 'emmer/ndimage/plots/plots.py' 2024-07-15T19:37:44,258 adding 'emmer/ndimage/radial_profile/__init__.py' 2024-07-15T19:37:44,259 adding 'emmer/ndimage/radial_profile/amplitude_from_resolution.py' 2024-07-15T19:37:44,261 adding 'emmer/ndimage/radial_profile/compute_radial_amplitude_variance.py' 2024-07-15T19:37:44,262 adding 'emmer/ndimage/radial_profile/compute_radial_profile.py' 2024-07-15T19:37:44,263 adding 'emmer/ndimage/radial_profile/estimate_bfactor_pwlf.py' 2024-07-15T19:37:44,264 adding 'emmer/ndimage/radial_profile/estimate_bfactor_standard.py' 2024-07-15T19:37:44,266 adding 'emmer/ndimage/radial_profile/frequency_array.py' 2024-07-15T19:37:44,267 adding 'emmer/ndimage/radial_profile/measure_debye_effect_magnitude.py' 2024-07-15T19:37:44,268 adding 'emmer/ndimage/radial_profile/merge_two_profiles.py' 2024-07-15T19:37:44,270 adding 'emmer/ndimage/radial_profile/profile_tools.py' 2024-07-15T19:37:44,271 adding 'emmer/ndimage/radial_profile/resolution_from_amplitude.py' 2024-07-15T19:37:44,272 adding 'emmer/ndimage/radial_profile/scale_profiles.py' 2024-07-15T19:37:44,274 adding 'emmer/ndimage/sharpen/__init__.py' 2024-07-15T19:37:44,276 adding 'emmer/ndimage/sharpen/scaling_tools.py' 2024-07-15T19:37:44,277 adding 'emmer/ndimage/sharpen/set_radial_profile_to_volume.py' 2024-07-15T19:37:44,278 adding 'emmer/ndimage/sharpen/sharpen_maps.py' 2024-07-15T19:37:44,280 adding 'emmer/ndimage/spectrum/__init__.py' 2024-07-15T19:37:44,282 adding 'emmer/ndimage/spectrum/spectrum_utils.py' 2024-07-15T19:37:44,283 adding 'emmer/ndimage/spectrum/sum_of_psd_2d.py' 2024-07-15T19:37:44,285 adding 'emmer/pdb/__init__.py' 2024-07-15T19:37:44,288 adding 'emmer/pdb/pdb_utils.py' 2024-07-15T19:37:44,290 adding 'emmer/pdb/SSE/__init__.py' 2024-07-15T19:37:44,292 adding 'emmer/pdb/SSE/get_dssp.py' 2024-07-15T19:37:44,293 adding 'emmer/pdb/SSE/get_secondary_structure_residues_content.py' 2024-07-15T19:37:44,294 adding 'emmer/pdb/SSE/link_gemmi_model_with_dssp.py' 2024-07-15T19:37:44,295 adding 'emmer/pdb/SSE/split_gemmi_model_based_on_dssp.py' 2024-07-15T19:37:44,298 adding 'emmer/pdb/convert/__init__.py' 2024-07-15T19:37:44,299 adding 'emmer/pdb/convert/convert_cartesian_to_polar.py' 2024-07-15T19:37:44,300 adding 'emmer/pdb/convert/convert_mrc_to_pdb_position.py' 2024-07-15T19:37:44,302 adding 'emmer/pdb/convert/convert_pdb_to_map.py' 2024-07-15T19:37:44,304 adding 'emmer/pdb/convert/convert_pdb_to_mmcif.py' 2024-07-15T19:37:44,305 adding 'emmer/pdb/convert/convert_pdb_to_mrc_position.py' 2024-07-15T19:37:44,306 adding 'emmer/pdb/convert/convert_polar_to_cartesian.py' 2024-07-15T19:37:44,309 adding 'emmer/pdb/coordinates/__init__.py' 2024-07-15T19:37:44,310 adding 'emmer/pdb/coordinates/get_random_polar_vector.py' 2024-07-15T19:37:44,312 adding 'emmer/pdb/pdb_tools/__init__.py' 2024-07-15T19:37:44,314 adding 'emmer/pdb/pdb_tools/add_cryst1_line.py' 2024-07-15T19:37:44,315 adding 'emmer/pdb/pdb_tools/compute_rmsd_two_pdb.py' 2024-07-15T19:37:44,317 adding 'emmer/pdb/pdb_tools/find_wilson_cutoff.py' 2024-07-15T19:37:44,318 adding 'emmer/pdb/pdb_tools/perturb_within_mask.py' 2024-07-15T19:37:44,319 adding 'emmer/pdb/pdb_tools/shake_pdb_within_mask.py' 2024-07-15T19:37:44,322 adding 'emmer/tests/__init__.py' 2024-07-15T19:37:44,323 adding 'emmer/tests/run.py' 2024-07-15T19:37:44,325 adding 'emmer/tests/test_bfactors.py' 2024-07-15T19:37:44,326 adding 'emmer/tests/test_convert.py' 2024-07-15T19:37:44,327 adding 'emmer/tests/test_coordinates.py' 2024-07-15T19:37:44,329 adding 'emmer/tests/test_dssp.py' 2024-07-15T19:37:44,330 adding 'emmer/tests/test_filter.py' 2024-07-15T19:37:44,332 adding 'emmer/tests/test_fsc_maps.py' 2024-07-15T19:37:44,333 adding 'emmer/tests/test_map_tools.py' 2024-07-15T19:37:44,335 adding 'emmer/tests/test_map_utils.py' 2024-07-15T19:37:44,337 adding 'emmer/tests/test_pdb.py' 2024-07-15T19:37:44,338 adding 'emmer/tests/test_pdb_shake.py' 2024-07-15T19:37:44,340 adding 'emmer/tests/test_pdb_utils.py' 2024-07-15T19:37:44,341 adding 'emmer/tests/test_profile_tools.py' 2024-07-15T19:37:44,343 adding 'emmer/tests/test_surface_area.py' 2024-07-15T19:37:44,345 adding 'emmer/tests/ndimage_unittest/__init__.py' 2024-07-15T19:37:44,347 adding 'emmer/tests/pdb_unittest/__init__.py' 2024-07-15T19:37:44,505 adding 'emmer/tests/pdb_unittest/data/6NY1.pdb' 2024-07-15T19:37:44,512 adding 'emmer/tests/pdb_unittest/data/__init__.py' 2024-07-15T19:37:44,515 adding 'emmer/tests/pdb_unittest/data/charged.pdb' 2024-07-15T19:37:44,517 adding 'emmer/tests/pdb_unittest/data/no_cryst1_line.pdb' 2024-07-15T19:37:44,519 adding 'emmer/tests/pdb_unittest/data/testing_model.pdb' 2024-07-15T19:37:44,522 adding 'emmer/tests/pdb_unittest/verify/__init__.py' 2024-07-15T19:37:44,523 adding 'emmer/tests/pdb_unittest/verify/all_coords.npy' 2024-07-15T19:37:44,525 adding 'emmer/tests/pdb_unittest/verify/ca_coords.npy' 2024-07-15T19:37:44,527 adding 'emmer/tests/pdb_unittest/verify/shifted_model.pdb' 2024-07-15T19:37:44,614 adding 'emmer/tests/pdb_unittest/verify/verify_map.mrc' 2024-07-15T19:37:44,622 adding 'emmer-0.1.2.dist-info/METADATA' 2024-07-15T19:37:44,623 adding 'emmer-0.1.2.dist-info/WHEEL' 2024-07-15T19:37:44,624 adding 'emmer-0.1.2.dist-info/entry_points.txt' 2024-07-15T19:37:44,625 adding 'emmer-0.1.2.dist-info/top_level.txt' 2024-07-15T19:37:44,628 adding 'emmer-0.1.2.dist-info/RECORD' 2024-07-15T19:37:44,666 removing build/bdist.linux-armv7l/wheel 2024-07-15T19:37:44,779 Building wheel for emmer (pyproject.toml): finished with status 'done' 2024-07-15T19:37:44,870 Created wheel for emmer: filename=emmer-0.1.2-py3-none-any.whl size=3657815 sha256=86b6e5c52350a0cd3491566116feede975214e637db58c034b82a94244f88219 2024-07-15T19:37:44,871 Stored in directory: /tmp/pip-ephem-wheel-cache-jkv8_7n_/wheels/15/ac/e9/bc1fe6e29bf9828435035becff5e185b7cc8de3681c37da140 2024-07-15T19:37:44,887 Successfully built emmer 2024-07-15T19:37:44,981 Removed build tracker: '/tmp/pip-build-tracker-wz4suwx8'