2022-09-15T12:31:45,323 Created temporary directory: /tmp/pip-ephem-wheel-cache-d3mx1s9p
2022-09-15T12:31:45,329 Created temporary directory: /tmp/pip-build-tracker-uk_ytb2m
2022-09-15T12:31:45,330 Initialized build tracking at /tmp/pip-build-tracker-uk_ytb2m
2022-09-15T12:31:45,330 Created build tracker: /tmp/pip-build-tracker-uk_ytb2m
2022-09-15T12:31:45,330 Entered build tracker: /tmp/pip-build-tracker-uk_ytb2m
2022-09-15T12:31:45,332 Created temporary directory: /tmp/pip-wheel-r_8y7umm
2022-09-15T12:31:45,404 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2022-09-15T12:31:45,412 2 location(s) to search for versions of emmer:
2022-09-15T12:31:45,412 * https://pypi.org/simple/emmer/
2022-09-15T12:31:45,412 * https://www.piwheels.org/simple/emmer/
2022-09-15T12:31:45,413 Fetching project page and analyzing links: https://pypi.org/simple/emmer/
2022-09-15T12:31:45,414 Getting page https://pypi.org/simple/emmer/
2022-09-15T12:31:45,417 Found index url https://pypi.org/simple
2022-09-15T12:31:45,604   Found link https://files.pythonhosted.org/packages/bc/05/351a2819e5f1cb12024971e08ecd8be60cf235ea55d954dfcc9c7de0e12f/emmer-0.0.1.tar.gz#sha256=52372d91ffaa9afbcc1a9c1bb6561dda0445b75341f65f8ae7d507a2cca93833 (from https://pypi.org/simple/emmer/), version: 0.0.1
2022-09-15T12:31:45,605 Fetching project page and analyzing links: https://www.piwheels.org/simple/emmer/
2022-09-15T12:31:45,606 Getting page https://www.piwheels.org/simple/emmer/
2022-09-15T12:31:45,608 Found index url https://www.piwheels.org/simple
2022-09-15T12:31:45,856 Skipping link: not a file: https://www.piwheels.org/simple/emmer/
2022-09-15T12:31:45,857 Skipping link: not a file: https://pypi.org/simple/emmer/
2022-09-15T12:31:45,890 Given no hashes to check 1 links for project 'emmer': discarding no candidates
2022-09-15T12:31:45,921 Collecting emmer==0.0.1
2022-09-15T12:31:45,925   Created temporary directory: /tmp/pip-unpack-muskpeem
2022-09-15T12:31:47,111   Downloading emmer-0.0.1.tar.gz (3.6 MB)
2022-09-15T12:31:49,714   Added emmer==0.0.1 from https://files.pythonhosted.org/packages/bc/05/351a2819e5f1cb12024971e08ecd8be60cf235ea55d954dfcc9c7de0e12f/emmer-0.0.1.tar.gz#sha256=52372d91ffaa9afbcc1a9c1bb6561dda0445b75341f65f8ae7d507a2cca93833 to build tracker '/tmp/pip-build-tracker-uk_ytb2m'
2022-09-15T12:31:49,722   Created temporary directory: /tmp/pip-build-env-znv12grb
2022-09-15T12:31:49,737   Created temporary directory: /tmp/pip-standalone-pip-o8lv7o2t
2022-09-15T12:31:51,985   Installing build dependencies: started
2022-09-15T12:31:51,988   Running command pip subprocess to install build dependencies
2022-09-15T12:32:01,577   Using pip 22.1.2 from /tmp/pip-standalone-pip-o8lv7o2t/__env_pip__.zip/pip (python 3.7)
2022-09-15T12:32:03,350   Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2022-09-15T12:32:07,589   Collecting setuptools>=42
2022-09-15T12:32:07,850     Using cached https://www.piwheels.org/simple/setuptools/setuptools-65.3.0-py3-none-any.whl (1.2 MB)
2022-09-15T12:32:08,510   Collecting wheel
2022-09-15T12:32:08,546     Using cached https://www.piwheels.org/simple/wheel/wheel-0.37.1-py2.py3-none-any.whl (35 kB)
2022-09-15T12:32:21,649   Installing collected packages: wheel, setuptools
2022-09-15T12:32:21,919     Creating /tmp/pip-build-env-znv12grb/overlay/bin
2022-09-15T12:32:21,923     changing mode of /tmp/pip-build-env-znv12grb/overlay/bin/wheel to 755
2022-09-15T12:32:26,720   Successfully installed setuptools-65.3.0 wheel-0.37.1
2022-09-15T12:32:26,956   --- Logging error ---
2022-09-15T12:32:26,956   Traceback (most recent call last):
2022-09-15T12:32:26,957     File "/tmp/pip-standalone-pip-o8lv7o2t/__env_pip__.zip/pip/_internal/utils/logging.py", line 177, in emit
2022-09-15T12:32:26,957       self.console.print(renderable, overflow="ignore", crop=False, style=style)
2022-09-15T12:32:26,957     File "/tmp/pip-standalone-pip-o8lv7o2t/__env_pip__.zip/pip/_vendor/rich/console.py", line 1752, in print
2022-09-15T12:32:26,958       extend(render(renderable, render_options))
2022-09-15T12:32:26,958     File "/tmp/pip-standalone-pip-o8lv7o2t/__env_pip__.zip/pip/_vendor/rich/console.py", line 1390, in render
2022-09-15T12:32:26,958       for render_output in iter_render:
2022-09-15T12:32:26,959     File "/tmp/pip-standalone-pip-o8lv7o2t/__env_pip__.zip/pip/_internal/utils/logging.py", line 134, in __rich_console__
2022-09-15T12:32:26,959       for line in lines:
2022-09-15T12:32:26,959     File "/tmp/pip-standalone-pip-o8lv7o2t/__env_pip__.zip/pip/_vendor/rich/segment.py", line 245, in split_lines
2022-09-15T12:32:26,960       for segment in segments:
2022-09-15T12:32:26,960     File "/tmp/pip-standalone-pip-o8lv7o2t/__env_pip__.zip/pip/_vendor/rich/console.py", line 1368, in render
2022-09-15T12:32:26,960       renderable = rich_cast(renderable)
2022-09-15T12:32:26,961     File "/tmp/pip-standalone-pip-o8lv7o2t/__env_pip__.zip/pip/_vendor/rich/protocol.py", line 36, in rich_cast
2022-09-15T12:32:26,961       renderable = cast_method()
2022-09-15T12:32:26,961     File "/tmp/pip-standalone-pip-o8lv7o2t/__env_pip__.zip/pip/_internal/self_outdated_check.py", line 130, in __rich__
2022-09-15T12:32:26,961       pip_cmd = get_best_invocation_for_this_pip()
2022-09-15T12:32:26,962     File "/tmp/pip-standalone-pip-o8lv7o2t/__env_pip__.zip/pip/_internal/utils/entrypoints.py", line 60, in get_best_invocation_for_this_pip
2022-09-15T12:32:26,962       os.path.join(binary_prefix, exe_name),
2022-09-15T12:32:26,962     File "/usr/lib/python3.7/genericpath.py", line 97, in samefile
2022-09-15T12:32:26,963       s2 = os.stat(f2)
2022-09-15T12:32:26,963   FileNotFoundError: [Errno 2] No such file or directory: '/usr/bin/pip3.7'
2022-09-15T12:32:26,964   Call stack:
2022-09-15T12:32:26,964     File "/usr/lib/python3.7/runpy.py", line 193, in _run_module_as_main
2022-09-15T12:32:26,964       "__main__", mod_spec)
2022-09-15T12:32:26,964     File "/usr/lib/python3.7/runpy.py", line 85, in _run_code
2022-09-15T12:32:26,965       exec(code, run_globals)
2022-09-15T12:32:26,965     File "/tmp/pip-standalone-pip-o8lv7o2t/__env_pip__.zip/pip/__main__.py", line 31, in <module>
2022-09-15T12:32:26,965       sys.exit(_main())
2022-09-15T12:32:26,966     File "/tmp/pip-standalone-pip-o8lv7o2t/__env_pip__.zip/pip/_internal/cli/main.py", line 70, in main
2022-09-15T12:32:26,966       return command.main(cmd_args)
2022-09-15T12:32:26,966     File "/tmp/pip-standalone-pip-o8lv7o2t/__env_pip__.zip/pip/_internal/cli/base_command.py", line 101, in main
2022-09-15T12:32:26,967       return self._main(args)
2022-09-15T12:32:26,967     File "/tmp/pip-standalone-pip-o8lv7o2t/__env_pip__.zip/pip/_internal/cli/base_command.py", line 223, in _main
2022-09-15T12:32:26,967       self.handle_pip_version_check(options)
2022-09-15T12:32:26,968     File "/tmp/pip-standalone-pip-o8lv7o2t/__env_pip__.zip/pip/_internal/cli/req_command.py", line 148, in handle_pip_version_check
2022-09-15T12:32:26,968       pip_self_version_check(session, options)
2022-09-15T12:32:26,968     File "/tmp/pip-standalone-pip-o8lv7o2t/__env_pip__.zip/pip/_internal/self_outdated_check.py", line 237, in pip_self_version_check
2022-09-15T12:32:26,968       logger.info("[present-rich] %s", upgrade_prompt)
2022-09-15T12:32:26,969     File "/usr/lib/python3.7/logging/__init__.py", line 1383, in info
2022-09-15T12:32:26,969       self._log(INFO, msg, args, **kwargs)
2022-09-15T12:32:26,969     File "/usr/lib/python3.7/logging/__init__.py", line 1519, in _log
2022-09-15T12:32:26,970       self.handle(record)
2022-09-15T12:32:26,970     File "/usr/lib/python3.7/logging/__init__.py", line 1529, in handle
2022-09-15T12:32:26,970       self.callHandlers(record)
2022-09-15T12:32:26,971     File "/usr/lib/python3.7/logging/__init__.py", line 1591, in callHandlers
2022-09-15T12:32:26,971       hdlr.handle(record)
2022-09-15T12:32:26,971     File "/usr/lib/python3.7/logging/__init__.py", line 905, in handle
2022-09-15T12:32:26,971       self.emit(record)
2022-09-15T12:32:26,972     File "/tmp/pip-standalone-pip-o8lv7o2t/__env_pip__.zip/pip/_internal/utils/logging.py", line 179, in emit
2022-09-15T12:32:26,972       self.handleError(record)
2022-09-15T12:32:26,973   Message: '[present-rich] %s'
2022-09-15T12:32:26,973   Arguments: (UpgradePrompt(old='22.1.2', new='22.2.2'),)
2022-09-15T12:32:27,461   Installing build dependencies: finished with status 'done'
2022-09-15T12:32:27,488   Getting requirements to build wheel: started
2022-09-15T12:32:27,490   Running command Getting requirements to build wheel
2022-09-15T12:32:35,200   running egg_info
2022-09-15T12:32:35,826   writing emmer.egg-info/PKG-INFO
2022-09-15T12:32:36,420   writing dependency_links to emmer.egg-info/dependency_links.txt
2022-09-15T12:32:38,190   writing entry points to emmer.egg-info/entry_points.txt
2022-09-15T12:32:39,372   writing requirements to emmer.egg-info/requires.txt
2022-09-15T12:32:39,964   writing top-level names to emmer.egg-info/top_level.txt
2022-09-15T12:32:40,749   reading manifest file 'emmer.egg-info/SOURCES.txt'
2022-09-15T12:32:40,762   reading manifest template 'MANIFEST.in'
2022-09-15T12:32:40,836   writing manifest file 'emmer.egg-info/SOURCES.txt'
2022-09-15T12:32:40,841   /usr/local/lib/python3.7/dist-packages/setuptools/dist.py:775: UserWarning: Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead
2022-09-15T12:32:40,842     % (opt, underscore_opt)
2022-09-15T12:32:41,059   Getting requirements to build wheel: finished with status 'done'
2022-09-15T12:32:41,079   Created temporary directory: /tmp/pip-modern-metadata-8q4uytuh
2022-09-15T12:32:41,085   Preparing metadata (pyproject.toml): started
2022-09-15T12:32:41,087   Running command Preparing metadata (pyproject.toml)
2022-09-15T12:32:48,617   running dist_info
2022-09-15T12:32:49,272   creating /tmp/pip-modern-metadata-8q4uytuh/emmer.egg-info
2022-09-15T12:32:49,896   writing /tmp/pip-modern-metadata-8q4uytuh/emmer.egg-info/PKG-INFO
2022-09-15T12:32:50,489   writing dependency_links to /tmp/pip-modern-metadata-8q4uytuh/emmer.egg-info/dependency_links.txt
2022-09-15T12:32:52,259   writing entry points to /tmp/pip-modern-metadata-8q4uytuh/emmer.egg-info/entry_points.txt
2022-09-15T12:32:53,433   writing requirements to /tmp/pip-modern-metadata-8q4uytuh/emmer.egg-info/requires.txt
2022-09-15T12:32:54,019   writing top-level names to /tmp/pip-modern-metadata-8q4uytuh/emmer.egg-info/top_level.txt
2022-09-15T12:32:54,022   writing manifest file '/tmp/pip-modern-metadata-8q4uytuh/emmer.egg-info/SOURCES.txt'
2022-09-15T12:32:54,805   reading manifest file '/tmp/pip-modern-metadata-8q4uytuh/emmer.egg-info/SOURCES.txt'
2022-09-15T12:32:54,808   reading manifest template 'MANIFEST.in'
2022-09-15T12:32:54,881   writing manifest file '/tmp/pip-modern-metadata-8q4uytuh/emmer.egg-info/SOURCES.txt'
2022-09-15T12:32:54,884   creating '/tmp/pip-modern-metadata-8q4uytuh/emmer-0.0.1.dist-info'
2022-09-15T12:32:55,143   /usr/local/lib/python3.7/dist-packages/setuptools/dist.py:775: UserWarning: Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead
2022-09-15T12:32:55,143     % (opt, underscore_opt)
2022-09-15T12:32:55,376   Preparing metadata (pyproject.toml): finished with status 'done'
2022-09-15T12:32:55,391   Source in /tmp/pip-wheel-r_8y7umm/emmer_5d0216f94c0348708f89b25f3a6e55b1 has version 0.0.1, which satisfies requirement emmer==0.0.1 from https://files.pythonhosted.org/packages/bc/05/351a2819e5f1cb12024971e08ecd8be60cf235ea55d954dfcc9c7de0e12f/emmer-0.0.1.tar.gz#sha256=52372d91ffaa9afbcc1a9c1bb6561dda0445b75341f65f8ae7d507a2cca93833
2022-09-15T12:32:55,393   Removed emmer==0.0.1 from https://files.pythonhosted.org/packages/bc/05/351a2819e5f1cb12024971e08ecd8be60cf235ea55d954dfcc9c7de0e12f/emmer-0.0.1.tar.gz#sha256=52372d91ffaa9afbcc1a9c1bb6561dda0445b75341f65f8ae7d507a2cca93833 from build tracker '/tmp/pip-build-tracker-uk_ytb2m'
2022-09-15T12:32:55,402 Created temporary directory: /tmp/pip-unpack-it5m8l47
2022-09-15T12:32:55,403 Building wheels for collected packages: emmer
2022-09-15T12:32:55,413   Created temporary directory: /tmp/pip-wheel-ljuix8i2
2022-09-15T12:32:55,413   Destination directory: /tmp/pip-wheel-ljuix8i2
2022-09-15T12:32:55,418   Building wheel for emmer (pyproject.toml): started
2022-09-15T12:32:55,420   Running command Building wheel for emmer (pyproject.toml)
2022-09-15T12:33:02,387   running bdist_wheel
2022-09-15T12:33:03,601   running build
2022-09-15T12:33:03,602   running build_py
2022-09-15T12:33:04,279   creating build
2022-09-15T12:33:04,280   creating build/lib
2022-09-15T12:33:04,281   creating build/lib/emmer
2022-09-15T12:33:04,283   copying emmer/main.py -> build/lib/emmer
2022-09-15T12:33:04,287   copying emmer/__init__.py -> build/lib/emmer
2022-09-15T12:33:04,294   creating build/lib/emmer/tests
2022-09-15T12:33:04,295   copying emmer/tests/test_coordinates.py -> build/lib/emmer/tests
2022-09-15T12:33:04,299   copying emmer/tests/test_profile_tools.py -> build/lib/emmer/tests
2022-09-15T12:33:04,303   copying emmer/tests/test_map_tools.py -> build/lib/emmer/tests
2022-09-15T12:33:04,308   copying emmer/tests/run.py -> build/lib/emmer/tests
2022-09-15T12:33:04,311   copying emmer/tests/test_map_utils.py -> build/lib/emmer/tests
2022-09-15T12:33:04,315   copying emmer/tests/test_pdb.py -> build/lib/emmer/tests
2022-09-15T12:33:04,320   copying emmer/tests/test_pdb_utils.py -> build/lib/emmer/tests
2022-09-15T12:33:04,324   copying emmer/tests/test_pdb_shake.py -> build/lib/emmer/tests
2022-09-15T12:33:04,327   copying emmer/tests/test_convert.py -> build/lib/emmer/tests
2022-09-15T12:33:04,331   copying emmer/tests/test_surface_area.py -> build/lib/emmer/tests
2022-09-15T12:33:04,335   copying emmer/tests/test_fsc_maps.py -> build/lib/emmer/tests
2022-09-15T12:33:04,339   copying emmer/tests/test_bfactors.py -> build/lib/emmer/tests
2022-09-15T12:33:04,343   copying emmer/tests/test_dssp.py -> build/lib/emmer/tests
2022-09-15T12:33:04,346   copying emmer/tests/__init__.py -> build/lib/emmer/tests
2022-09-15T12:33:04,350   copying emmer/tests/test_filter.py -> build/lib/emmer/tests
2022-09-15T12:33:04,355   creating build/lib/emmer/pdb
2022-09-15T12:33:04,357   copying emmer/pdb/pdb_utils.py -> build/lib/emmer/pdb
2022-09-15T12:33:04,361   copying emmer/pdb/__init__.py -> build/lib/emmer/pdb
2022-09-15T12:33:04,367   creating build/lib/emmer/include
2022-09-15T12:33:04,368   copying emmer/include/emmer_utils.py -> build/lib/emmer/include
2022-09-15T12:33:04,371   copying emmer/include/__init__.py -> build/lib/emmer/include
2022-09-15T12:33:04,377   creating build/lib/emmer/ndimage
2022-09-15T12:33:04,378   copying emmer/ndimage/map_utils.py -> build/lib/emmer/ndimage
2022-09-15T12:33:04,383   copying emmer/ndimage/map_tools.py -> build/lib/emmer/ndimage
2022-09-15T12:33:04,387   copying emmer/ndimage/trim_map_between_residues.py -> build/lib/emmer/ndimage
2022-09-15T12:33:04,390   copying emmer/ndimage/plotContourMap.py -> build/lib/emmer/ndimage
2022-09-15T12:33:04,393   copying emmer/ndimage/average_half_maps.py -> build/lib/emmer/ndimage
2022-09-15T12:33:04,396   copying emmer/ndimage/compute_real_space_correlation.py -> build/lib/emmer/ndimage
2022-09-15T12:33:04,399   copying emmer/ndimage/__init__.py -> build/lib/emmer/ndimage
2022-09-15T12:33:04,403   copying emmer/ndimage/get_center_of_mass.py -> build/lib/emmer/ndimage
2022-09-15T12:33:04,407   creating build/lib/emmer/tests/ndimage_unittest
2022-09-15T12:33:04,409   copying emmer/tests/ndimage_unittest/__init__.py -> build/lib/emmer/tests/ndimage_unittest
2022-09-15T12:33:04,415   creating build/lib/emmer/tests/pdb_unittest
2022-09-15T12:33:04,416   copying emmer/tests/pdb_unittest/__init__.py -> build/lib/emmer/tests/pdb_unittest
2022-09-15T12:33:04,422   creating build/lib/emmer/tests/pdb_unittest/verify
2022-09-15T12:33:04,423   copying emmer/tests/pdb_unittest/verify/__init__.py -> build/lib/emmer/tests/pdb_unittest/verify
2022-09-15T12:33:04,428   creating build/lib/emmer/tests/pdb_unittest/data
2022-09-15T12:33:04,430   copying emmer/tests/pdb_unittest/data/__init__.py -> build/lib/emmer/tests/pdb_unittest/data
2022-09-15T12:33:04,436   creating build/lib/emmer/pdb/pdb_tools
2022-09-15T12:33:04,437   copying emmer/pdb/pdb_tools/shake_pdb_within_mask.py -> build/lib/emmer/pdb/pdb_tools
2022-09-15T12:33:04,441   copying emmer/pdb/pdb_tools/perturb_within_mask.py -> build/lib/emmer/pdb/pdb_tools
2022-09-15T12:33:04,445   copying emmer/pdb/pdb_tools/compute_rmsd_two_pdb.py -> build/lib/emmer/pdb/pdb_tools
2022-09-15T12:33:04,448   copying emmer/pdb/pdb_tools/add_cryst1_line.py -> build/lib/emmer/pdb/pdb_tools
2022-09-15T12:33:04,451   copying emmer/pdb/pdb_tools/find_wilson_cutoff.py -> build/lib/emmer/pdb/pdb_tools
2022-09-15T12:33:04,454   copying emmer/pdb/pdb_tools/__init__.py -> build/lib/emmer/pdb/pdb_tools
2022-09-15T12:33:04,459   creating build/lib/emmer/pdb/coordinates
2022-09-15T12:33:04,461   copying emmer/pdb/coordinates/__init__.py -> build/lib/emmer/pdb/coordinates
2022-09-15T12:33:04,465   copying emmer/pdb/coordinates/get_random_polar_vector.py -> build/lib/emmer/pdb/coordinates
2022-09-15T12:33:04,469   creating build/lib/emmer/pdb/convert
2022-09-15T12:33:04,471   copying emmer/pdb/convert/convert_mrc_to_pdb_position.py -> build/lib/emmer/pdb/convert
2022-09-15T12:33:04,475   copying emmer/pdb/convert/convert_pdb_to_map.py -> build/lib/emmer/pdb/convert
2022-09-15T12:33:04,479   copying emmer/pdb/convert/convert_pdb_to_mmcif.py -> build/lib/emmer/pdb/convert
2022-09-15T12:33:04,482   copying emmer/pdb/convert/__init__.py -> build/lib/emmer/pdb/convert
2022-09-15T12:33:04,486   copying emmer/pdb/convert/convert_pdb_to_mrc_position.py -> build/lib/emmer/pdb/convert
2022-09-15T12:33:04,489   copying emmer/pdb/convert/convert_cartesian_to_polar.py -> build/lib/emmer/pdb/convert
2022-09-15T12:33:04,491   copying emmer/pdb/convert/convert_polar_to_cartesian.py -> build/lib/emmer/pdb/convert
2022-09-15T12:33:04,496   creating build/lib/emmer/pdb/SSE
2022-09-15T12:33:04,497   copying emmer/pdb/SSE/get_dssp.py -> build/lib/emmer/pdb/SSE
2022-09-15T12:33:04,501   copying emmer/pdb/SSE/split_gemmi_model_based_on_dssp.py -> build/lib/emmer/pdb/SSE
2022-09-15T12:33:04,504   copying emmer/pdb/SSE/get_secondary_structure_residues_content.py -> build/lib/emmer/pdb/SSE
2022-09-15T12:33:04,507   copying emmer/pdb/SSE/link_gemmi_model_with_dssp.py -> build/lib/emmer/pdb/SSE
2022-09-15T12:33:04,510   copying emmer/pdb/SSE/__init__.py -> build/lib/emmer/pdb/SSE
2022-09-15T12:33:04,516   creating build/lib/emmer/include/confidenceMapUtil
2022-09-15T12:33:04,517   copying emmer/include/confidenceMapUtil/confidenceMapMain.py -> build/lib/emmer/include/confidenceMapUtil
2022-09-15T12:33:04,522   copying emmer/include/confidenceMapUtil/FDRutil.py -> build/lib/emmer/include/confidenceMapUtil
2022-09-15T12:33:04,526   copying emmer/include/confidenceMapUtil/locscaleUtil.py -> build/lib/emmer/include/confidenceMapUtil
2022-09-15T12:33:04,531   copying emmer/include/confidenceMapUtil/__init__.py -> build/lib/emmer/include/confidenceMapUtil
2022-09-15T12:33:04,536   copying emmer/include/confidenceMapUtil/mapUtil.py -> build/lib/emmer/include/confidenceMapUtil
2022-09-15T12:33:04,541   creating build/lib/emmer/ndimage/bfactors
2022-09-15T12:33:04,543   copying emmer/ndimage/bfactors/estimate_bfactor_distribution.py -> build/lib/emmer/ndimage/bfactors
2022-09-15T12:33:04,546   copying emmer/ndimage/bfactors/estimate_bfactor_map.py -> build/lib/emmer/ndimage/bfactors
2022-09-15T12:33:04,549   copying emmer/ndimage/bfactors/estimate_local_bfactor.py -> build/lib/emmer/ndimage/bfactors
2022-09-15T12:33:04,552   copying emmer/ndimage/bfactors/__init__.py -> build/lib/emmer/ndimage/bfactors
2022-09-15T12:33:04,558   creating build/lib/emmer/ndimage/contour
2022-09-15T12:33:04,564   copying emmer/ndimage/contour/volume_matching_threshold.py -> build/lib/emmer/ndimage/contour
2022-09-15T12:33:04,568   copying emmer/ndimage/contour/volume_at_threshold.py -> build/lib/emmer/ndimage/contour
2022-09-15T12:33:04,571   copying emmer/ndimage/contour/surface_area_at_threshold.py -> build/lib/emmer/ndimage/contour
2022-09-15T12:33:04,574   copying emmer/ndimage/contour/contour_utils.py -> build/lib/emmer/ndimage/contour
2022-09-15T12:33:04,577   copying emmer/ndimage/contour/__init__.py -> build/lib/emmer/ndimage/contour
2022-09-15T12:33:04,581   copying emmer/ndimage/contour/count_segments.py -> build/lib/emmer/ndimage/contour
2022-09-15T12:33:04,586   creating build/lib/emmer/ndimage/sharpen
2022-09-15T12:33:04,587   copying emmer/ndimage/sharpen/scaling_tools.py -> build/lib/emmer/ndimage/sharpen
2022-09-15T12:33:04,591   copying emmer/ndimage/sharpen/set_radial_profile_to_volume.py -> build/lib/emmer/ndimage/sharpen
2022-09-15T12:33:04,594   copying emmer/ndimage/sharpen/__init__.py -> build/lib/emmer/ndimage/sharpen
2022-09-15T12:33:04,598   copying emmer/ndimage/sharpen/sharpen_maps.py -> build/lib/emmer/ndimage/sharpen
2022-09-15T12:33:04,603   creating build/lib/emmer/ndimage/radial_profile
2022-09-15T12:33:04,605   copying emmer/ndimage/radial_profile/merge_two_profiles.py -> build/lib/emmer/ndimage/radial_profile
2022-09-15T12:33:04,608   copying emmer/ndimage/radial_profile/compute_radial_amplitude_variance.py -> build/lib/emmer/ndimage/radial_profile
2022-09-15T12:33:04,611   copying emmer/ndimage/radial_profile/frequency_array.py -> build/lib/emmer/ndimage/radial_profile
2022-09-15T12:33:04,614   copying emmer/ndimage/radial_profile/resolution_from_amplitude.py -> build/lib/emmer/ndimage/radial_profile
2022-09-15T12:33:04,617   copying emmer/ndimage/radial_profile/estimate_bfactor_standard.py -> build/lib/emmer/ndimage/radial_profile
2022-09-15T12:33:04,620   copying emmer/ndimage/radial_profile/scale_profiles.py -> build/lib/emmer/ndimage/radial_profile
2022-09-15T12:33:04,624   copying emmer/ndimage/radial_profile/measure_debye_effect_magnitude.py -> build/lib/emmer/ndimage/radial_profile
2022-09-15T12:33:04,627   copying emmer/ndimage/radial_profile/compute_radial_profile.py -> build/lib/emmer/ndimage/radial_profile
2022-09-15T12:33:04,630   copying emmer/ndimage/radial_profile/profile_tools.py -> build/lib/emmer/ndimage/radial_profile
2022-09-15T12:33:04,633   copying emmer/ndimage/radial_profile/amplitude_from_resolution.py -> build/lib/emmer/ndimage/radial_profile
2022-09-15T12:33:04,636   copying emmer/ndimage/radial_profile/__init__.py -> build/lib/emmer/ndimage/radial_profile
2022-09-15T12:33:04,640   copying emmer/ndimage/radial_profile/estimate_bfactor_pwlf.py -> build/lib/emmer/ndimage/radial_profile
2022-09-15T12:33:04,645   creating build/lib/emmer/ndimage/filter
2022-09-15T12:33:04,646   copying emmer/ndimage/filter/filter_utils.py -> build/lib/emmer/ndimage/filter
2022-09-15T12:33:04,650   copying emmer/ndimage/filter/smoothen_mask.py -> build/lib/emmer/ndimage/filter
2022-09-15T12:33:04,653   copying emmer/ndimage/filter/band_pass_filter.py -> build/lib/emmer/ndimage/filter
2022-09-15T12:33:04,656   copying emmer/ndimage/filter/low_pass_filter.py -> build/lib/emmer/ndimage/filter
2022-09-15T12:33:04,659   copying emmer/ndimage/filter/apply_fsc_filter.py -> build/lib/emmer/ndimage/filter
2022-09-15T12:33:04,662   copying emmer/ndimage/filter/high_pass_filter.py -> build/lib/emmer/ndimage/filter
2022-09-15T12:33:04,665   copying emmer/ndimage/filter/__init__.py -> build/lib/emmer/ndimage/filter
2022-09-15T12:33:04,671   creating build/lib/emmer/ndimage/mask
2022-09-15T12:33:04,672   copying emmer/ndimage/mask/get_atomic_model_mask.py -> build/lib/emmer/ndimage/mask
2022-09-15T12:33:04,676   copying emmer/ndimage/mask/get_spherical_mask.py -> build/lib/emmer/ndimage/mask
2022-09-15T12:33:04,679   copying emmer/ndimage/mask/mask_utils.py -> build/lib/emmer/ndimage/mask
2022-09-15T12:33:04,682   copying emmer/ndimage/mask/compute_confidence_map.py -> build/lib/emmer/ndimage/mask
2022-09-15T12:33:04,685   copying emmer/ndimage/mask/__init__.py -> build/lib/emmer/ndimage/mask
2022-09-15T12:33:04,690   creating build/lib/emmer/ndimage/spectrum
2022-09-15T12:33:04,691   copying emmer/ndimage/spectrum/spectrum_utils.py -> build/lib/emmer/ndimage/spectrum
2022-09-15T12:33:04,695   copying emmer/ndimage/spectrum/sum_of_psd_2d.py -> build/lib/emmer/ndimage/spectrum
2022-09-15T12:33:04,698   copying emmer/ndimage/spectrum/__init__.py -> build/lib/emmer/ndimage/spectrum
2022-09-15T12:33:04,704   creating build/lib/emmer/ndimage/fsc
2022-09-15T12:33:04,705   copying emmer/ndimage/fsc/fsc_utils.py -> build/lib/emmer/ndimage/fsc
2022-09-15T12:33:04,709   copying emmer/ndimage/fsc/calculate_phase_correlation.py -> build/lib/emmer/ndimage/fsc
2022-09-15T12:33:04,712   copying emmer/ndimage/fsc/__init__.py -> build/lib/emmer/ndimage/fsc
2022-09-15T12:33:04,716   copying emmer/ndimage/fsc/calculate_fsc_curve.py -> build/lib/emmer/ndimage/fsc
2022-09-15T12:33:04,719   copying emmer/ndimage/fsc/compute_fsc_resolution.py -> build/lib/emmer/ndimage/fsc
2022-09-15T12:33:04,724   creating build/lib/emmer/ndimage/plots
2022-09-15T12:33:04,725   copying emmer/ndimage/plots/plotContourMap.py -> build/lib/emmer/ndimage/plots
2022-09-15T12:33:04,729   copying emmer/ndimage/plots/plots.py -> build/lib/emmer/ndimage/plots
2022-09-15T12:33:04,733   copying emmer/ndimage/plots/__init__.py -> build/lib/emmer/ndimage/plots
2022-09-15T12:33:04,738   running egg_info
2022-09-15T12:33:06,008   writing emmer.egg-info/PKG-INFO
2022-09-15T12:33:06,599   writing dependency_links to emmer.egg-info/dependency_links.txt
2022-09-15T12:33:08,362   writing entry points to emmer.egg-info/entry_points.txt
2022-09-15T12:33:09,537   writing requirements to emmer.egg-info/requires.txt
2022-09-15T12:33:10,128   writing top-level names to emmer.egg-info/top_level.txt
2022-09-15T12:33:10,210   reading manifest file 'emmer.egg-info/SOURCES.txt'
2022-09-15T12:33:10,221   reading manifest template 'MANIFEST.in'
2022-09-15T12:33:10,351   writing manifest file 'emmer.egg-info/SOURCES.txt'
2022-09-15T12:33:10,366   copying emmer/include/geckodriver -> build/lib/emmer/include
2022-09-15T12:33:10,690   copying emmer/include/theoretical_profiles.pickle -> build/lib/emmer/include
2022-09-15T12:33:10,697   copying emmer/tests/pdb_unittest/verify/all_coords.npy -> build/lib/emmer/tests/pdb_unittest/verify
2022-09-15T12:33:10,702   copying emmer/tests/pdb_unittest/verify/ca_coords.npy -> build/lib/emmer/tests/pdb_unittest/verify
2022-09-15T12:33:10,707   copying emmer/tests/pdb_unittest/verify/shifted_model.pdb -> build/lib/emmer/tests/pdb_unittest/verify
2022-09-15T12:33:10,712   copying emmer/tests/pdb_unittest/verify/testing_model.cif -> build/lib/emmer/tests/pdb_unittest/verify
2022-09-15T12:33:10,718   copying emmer/tests/pdb_unittest/verify/verify_map.mrc -> build/lib/emmer/tests/pdb_unittest/verify
2022-09-15T12:33:10,760   copying emmer/tests/pdb_unittest/data/6NY1.pdb -> build/lib/emmer/tests/pdb_unittest/data
2022-09-15T12:33:10,809   copying emmer/tests/pdb_unittest/data/charged.pdb -> build/lib/emmer/tests/pdb_unittest/data
2022-09-15T12:33:10,814   copying emmer/tests/pdb_unittest/data/no_cryst1_line.pdb -> build/lib/emmer/tests/pdb_unittest/data
2022-09-15T12:33:10,819   copying emmer/tests/pdb_unittest/data/testing_model.pdb -> build/lib/emmer/tests/pdb_unittest/data
2022-09-15T12:33:12,120   installing to build/bdist.linux-armv7l/wheel
2022-09-15T12:33:12,121   running install
2022-09-15T12:33:12,182   running install_lib
2022-09-15T12:33:12,805   creating build/bdist.linux-armv7l
2022-09-15T12:33:12,806   creating build/bdist.linux-armv7l/wheel
2022-09-15T12:33:12,808   creating build/bdist.linux-armv7l/wheel/emmer
2022-09-15T12:33:12,811   creating build/bdist.linux-armv7l/wheel/emmer/tests
2022-09-15T12:33:12,812   copying build/lib/emmer/tests/test_coordinates.py -> build/bdist.linux-armv7l/wheel/emmer/tests
2022-09-15T12:33:12,816   copying build/lib/emmer/tests/test_profile_tools.py -> build/bdist.linux-armv7l/wheel/emmer/tests
2022-09-15T12:33:12,821   copying build/lib/emmer/tests/test_map_tools.py -> build/bdist.linux-armv7l/wheel/emmer/tests
2022-09-15T12:33:12,825   copying build/lib/emmer/tests/run.py -> build/bdist.linux-armv7l/wheel/emmer/tests
2022-09-15T12:33:12,828   copying build/lib/emmer/tests/test_map_utils.py -> build/bdist.linux-armv7l/wheel/emmer/tests
2022-09-15T12:33:12,833   creating build/bdist.linux-armv7l/wheel/emmer/tests/ndimage_unittest
2022-09-15T12:33:12,834   copying build/lib/emmer/tests/ndimage_unittest/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/tests/ndimage_unittest
2022-09-15T12:33:12,839   copying build/lib/emmer/tests/test_pdb.py -> build/bdist.linux-armv7l/wheel/emmer/tests
2022-09-15T12:33:12,843   copying build/lib/emmer/tests/test_pdb_utils.py -> build/bdist.linux-armv7l/wheel/emmer/tests
2022-09-15T12:33:12,847   copying build/lib/emmer/tests/test_pdb_shake.py -> build/bdist.linux-armv7l/wheel/emmer/tests
2022-09-15T12:33:12,850   copying build/lib/emmer/tests/test_convert.py -> build/bdist.linux-armv7l/wheel/emmer/tests
2022-09-15T12:33:12,855   creating build/bdist.linux-armv7l/wheel/emmer/tests/pdb_unittest
2022-09-15T12:33:12,857   creating build/bdist.linux-armv7l/wheel/emmer/tests/pdb_unittest/verify
2022-09-15T12:33:12,859   copying build/lib/emmer/tests/pdb_unittest/verify/all_coords.npy -> build/bdist.linux-armv7l/wheel/emmer/tests/pdb_unittest/verify
2022-09-15T12:33:12,863   copying build/lib/emmer/tests/pdb_unittest/verify/ca_coords.npy -> build/bdist.linux-armv7l/wheel/emmer/tests/pdb_unittest/verify
2022-09-15T12:33:12,866   copying build/lib/emmer/tests/pdb_unittest/verify/testing_model.cif -> build/bdist.linux-armv7l/wheel/emmer/tests/pdb_unittest/verify
2022-09-15T12:33:12,871   copying build/lib/emmer/tests/pdb_unittest/verify/verify_map.mrc -> build/bdist.linux-armv7l/wheel/emmer/tests/pdb_unittest/verify
2022-09-15T12:33:12,918   copying build/lib/emmer/tests/pdb_unittest/verify/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/tests/pdb_unittest/verify
2022-09-15T12:33:12,923   copying build/lib/emmer/tests/pdb_unittest/verify/shifted_model.pdb -> build/bdist.linux-armv7l/wheel/emmer/tests/pdb_unittest/verify
2022-09-15T12:33:12,929   creating build/bdist.linux-armv7l/wheel/emmer/tests/pdb_unittest/data
2022-09-15T12:33:12,930   copying build/lib/emmer/tests/pdb_unittest/data/testing_model.pdb -> build/bdist.linux-armv7l/wheel/emmer/tests/pdb_unittest/data
2022-09-15T12:33:12,935   copying build/lib/emmer/tests/pdb_unittest/data/charged.pdb -> build/bdist.linux-armv7l/wheel/emmer/tests/pdb_unittest/data
2022-09-15T12:33:12,939   copying build/lib/emmer/tests/pdb_unittest/data/no_cryst1_line.pdb -> build/bdist.linux-armv7l/wheel/emmer/tests/pdb_unittest/data
2022-09-15T12:33:12,944   copying build/lib/emmer/tests/pdb_unittest/data/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/tests/pdb_unittest/data
2022-09-15T12:33:12,948   copying build/lib/emmer/tests/pdb_unittest/data/6NY1.pdb -> build/bdist.linux-armv7l/wheel/emmer/tests/pdb_unittest/data
2022-09-15T12:33:13,027   copying build/lib/emmer/tests/pdb_unittest/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/tests/pdb_unittest
2022-09-15T12:33:13,032   copying build/lib/emmer/tests/test_surface_area.py -> build/bdist.linux-armv7l/wheel/emmer/tests
2022-09-15T12:33:13,036   copying build/lib/emmer/tests/test_fsc_maps.py -> build/bdist.linux-armv7l/wheel/emmer/tests
2022-09-15T12:33:13,039   copying build/lib/emmer/tests/test_bfactors.py -> build/bdist.linux-armv7l/wheel/emmer/tests
2022-09-15T12:33:13,043   copying build/lib/emmer/tests/test_dssp.py -> build/bdist.linux-armv7l/wheel/emmer/tests
2022-09-15T12:33:13,047   copying build/lib/emmer/tests/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/tests
2022-09-15T12:33:13,050   copying build/lib/emmer/tests/test_filter.py -> build/bdist.linux-armv7l/wheel/emmer/tests
2022-09-15T12:33:13,054   copying build/lib/emmer/main.py -> build/bdist.linux-armv7l/wheel/emmer
2022-09-15T12:33:13,058   creating build/bdist.linux-armv7l/wheel/emmer/pdb
2022-09-15T12:33:13,059   copying build/lib/emmer/pdb/pdb_utils.py -> build/bdist.linux-armv7l/wheel/emmer/pdb
2022-09-15T12:33:13,065   creating build/bdist.linux-armv7l/wheel/emmer/pdb/pdb_tools
2022-09-15T12:33:13,066   copying build/lib/emmer/pdb/pdb_tools/shake_pdb_within_mask.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/pdb_tools
2022-09-15T12:33:13,070   copying build/lib/emmer/pdb/pdb_tools/perturb_within_mask.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/pdb_tools
2022-09-15T12:33:13,073   copying build/lib/emmer/pdb/pdb_tools/compute_rmsd_two_pdb.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/pdb_tools
2022-09-15T12:33:13,076   copying build/lib/emmer/pdb/pdb_tools/add_cryst1_line.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/pdb_tools
2022-09-15T12:33:13,079   copying build/lib/emmer/pdb/pdb_tools/find_wilson_cutoff.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/pdb_tools
2022-09-15T12:33:13,083   copying build/lib/emmer/pdb/pdb_tools/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/pdb_tools
2022-09-15T12:33:13,088   creating build/bdist.linux-armv7l/wheel/emmer/pdb/coordinates
2022-09-15T12:33:13,089   copying build/lib/emmer/pdb/coordinates/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/coordinates
2022-09-15T12:33:13,094   copying build/lib/emmer/pdb/coordinates/get_random_polar_vector.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/coordinates
2022-09-15T12:33:13,097   creating build/bdist.linux-armv7l/wheel/emmer/pdb/convert
2022-09-15T12:33:13,098   copying build/lib/emmer/pdb/convert/convert_mrc_to_pdb_position.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/convert
2022-09-15T12:33:13,102   copying build/lib/emmer/pdb/convert/convert_pdb_to_map.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/convert
2022-09-15T12:33:13,106   copying build/lib/emmer/pdb/convert/convert_pdb_to_mmcif.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/convert
2022-09-15T12:33:13,110   copying build/lib/emmer/pdb/convert/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/convert
2022-09-15T12:33:13,114   copying build/lib/emmer/pdb/convert/convert_pdb_to_mrc_position.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/convert
2022-09-15T12:33:13,117   copying build/lib/emmer/pdb/convert/convert_cartesian_to_polar.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/convert
2022-09-15T12:33:13,120   copying build/lib/emmer/pdb/convert/convert_polar_to_cartesian.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/convert
2022-09-15T12:33:13,123   copying build/lib/emmer/pdb/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/pdb
2022-09-15T12:33:13,127   creating build/bdist.linux-armv7l/wheel/emmer/pdb/SSE
2022-09-15T12:33:13,129   copying build/lib/emmer/pdb/SSE/get_dssp.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/SSE
2022-09-15T12:33:13,132   copying build/lib/emmer/pdb/SSE/split_gemmi_model_based_on_dssp.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/SSE
2022-09-15T12:33:13,141   copying build/lib/emmer/pdb/SSE/get_secondary_structure_residues_content.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/SSE
2022-09-15T12:33:13,145   copying build/lib/emmer/pdb/SSE/link_gemmi_model_with_dssp.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/SSE
2022-09-15T12:33:13,148   copying build/lib/emmer/pdb/SSE/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/pdb/SSE
2022-09-15T12:33:13,153   copying build/lib/emmer/__init__.py -> build/bdist.linux-armv7l/wheel/emmer
2022-09-15T12:33:13,158   creating build/bdist.linux-armv7l/wheel/emmer/include
2022-09-15T12:33:13,159   copying build/lib/emmer/include/theoretical_profiles.pickle -> build/bdist.linux-armv7l/wheel/emmer/include
2022-09-15T12:33:13,164   copying build/lib/emmer/include/geckodriver -> build/bdist.linux-armv7l/wheel/emmer/include
2022-09-15T12:33:13,581   creating build/bdist.linux-armv7l/wheel/emmer/include/confidenceMapUtil
2022-09-15T12:33:13,582   copying build/lib/emmer/include/confidenceMapUtil/confidenceMapMain.py -> build/bdist.linux-armv7l/wheel/emmer/include/confidenceMapUtil
2022-09-15T12:33:13,587   copying build/lib/emmer/include/confidenceMapUtil/FDRutil.py -> build/bdist.linux-armv7l/wheel/emmer/include/confidenceMapUtil
2022-09-15T12:33:13,591   copying build/lib/emmer/include/confidenceMapUtil/locscaleUtil.py -> build/bdist.linux-armv7l/wheel/emmer/include/confidenceMapUtil
2022-09-15T12:33:13,596   copying build/lib/emmer/include/confidenceMapUtil/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/include/confidenceMapUtil
2022-09-15T12:33:13,601   copying build/lib/emmer/include/confidenceMapUtil/mapUtil.py -> build/bdist.linux-armv7l/wheel/emmer/include/confidenceMapUtil
2022-09-15T12:33:13,606   copying build/lib/emmer/include/emmer_utils.py -> build/bdist.linux-armv7l/wheel/emmer/include
2022-09-15T12:33:13,609   copying build/lib/emmer/include/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/include
2022-09-15T12:33:13,614   creating build/bdist.linux-armv7l/wheel/emmer/ndimage
2022-09-15T12:33:13,616   creating build/bdist.linux-armv7l/wheel/emmer/ndimage/bfactors
2022-09-15T12:33:13,618   copying build/lib/emmer/ndimage/bfactors/estimate_bfactor_distribution.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/bfactors
2022-09-15T12:33:13,621   copying build/lib/emmer/ndimage/bfactors/estimate_bfactor_map.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/bfactors
2022-09-15T12:33:13,625   copying build/lib/emmer/ndimage/bfactors/estimate_local_bfactor.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/bfactors
2022-09-15T12:33:13,628   copying build/lib/emmer/ndimage/bfactors/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/bfactors
2022-09-15T12:33:13,633   creating build/bdist.linux-armv7l/wheel/emmer/ndimage/contour
2022-09-15T12:33:13,634   copying build/lib/emmer/ndimage/contour/volume_matching_threshold.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/contour
2022-09-15T12:33:13,638   copying build/lib/emmer/ndimage/contour/volume_at_threshold.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/contour
2022-09-15T12:33:13,641   copying build/lib/emmer/ndimage/contour/surface_area_at_threshold.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/contour
2022-09-15T12:33:13,645   copying build/lib/emmer/ndimage/contour/contour_utils.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/contour
2022-09-15T12:33:13,648   copying build/lib/emmer/ndimage/contour/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/contour
2022-09-15T12:33:13,652   copying build/lib/emmer/ndimage/contour/count_segments.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/contour
2022-09-15T12:33:13,657   creating build/bdist.linux-armv7l/wheel/emmer/ndimage/sharpen
2022-09-15T12:33:13,658   copying build/lib/emmer/ndimage/sharpen/scaling_tools.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/sharpen
2022-09-15T12:33:13,662   copying build/lib/emmer/ndimage/sharpen/set_radial_profile_to_volume.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/sharpen
2022-09-15T12:33:13,665   copying build/lib/emmer/ndimage/sharpen/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/sharpen
2022-09-15T12:33:13,669   copying build/lib/emmer/ndimage/sharpen/sharpen_maps.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/sharpen
2022-09-15T12:33:13,672   copying build/lib/emmer/ndimage/map_utils.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage
2022-09-15T12:33:13,677   copying build/lib/emmer/ndimage/map_tools.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage
2022-09-15T12:33:13,680   copying build/lib/emmer/ndimage/trim_map_between_residues.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage
2022-09-15T12:33:13,684   copying build/lib/emmer/ndimage/plotContourMap.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage
2022-09-15T12:33:13,687   copying build/lib/emmer/ndimage/average_half_maps.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage
2022-09-15T12:33:13,691   creating build/bdist.linux-armv7l/wheel/emmer/ndimage/radial_profile
2022-09-15T12:33:13,693   copying build/lib/emmer/ndimage/radial_profile/merge_two_profiles.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/radial_profile
2022-09-15T12:33:13,697   copying build/lib/emmer/ndimage/radial_profile/compute_radial_amplitude_variance.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/radial_profile
2022-09-15T12:33:13,700   copying build/lib/emmer/ndimage/radial_profile/frequency_array.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/radial_profile
2022-09-15T12:33:13,703   copying build/lib/emmer/ndimage/radial_profile/resolution_from_amplitude.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/radial_profile
2022-09-15T12:33:13,706   copying build/lib/emmer/ndimage/radial_profile/estimate_bfactor_standard.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/radial_profile
2022-09-15T12:33:13,709   copying build/lib/emmer/ndimage/radial_profile/scale_profiles.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/radial_profile
2022-09-15T12:33:13,713   copying build/lib/emmer/ndimage/radial_profile/measure_debye_effect_magnitude.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/radial_profile
2022-09-15T12:33:13,716   copying build/lib/emmer/ndimage/radial_profile/compute_radial_profile.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/radial_profile
2022-09-15T12:33:13,719   copying build/lib/emmer/ndimage/radial_profile/profile_tools.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/radial_profile
2022-09-15T12:33:13,722   copying build/lib/emmer/ndimage/radial_profile/amplitude_from_resolution.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/radial_profile
2022-09-15T12:33:13,726   copying build/lib/emmer/ndimage/radial_profile/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/radial_profile
2022-09-15T12:33:13,730   copying build/lib/emmer/ndimage/radial_profile/estimate_bfactor_pwlf.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/radial_profile
2022-09-15T12:33:13,734   creating build/bdist.linux-armv7l/wheel/emmer/ndimage/filter
2022-09-15T12:33:13,735   copying build/lib/emmer/ndimage/filter/filter_utils.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/filter
2022-09-15T12:33:13,739   copying build/lib/emmer/ndimage/filter/smoothen_mask.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/filter
2022-09-15T12:33:13,742   copying build/lib/emmer/ndimage/filter/band_pass_filter.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/filter
2022-09-15T12:33:13,745   copying build/lib/emmer/ndimage/filter/low_pass_filter.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/filter
2022-09-15T12:33:13,748   copying build/lib/emmer/ndimage/filter/apply_fsc_filter.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/filter
2022-09-15T12:33:13,751   copying build/lib/emmer/ndimage/filter/high_pass_filter.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/filter
2022-09-15T12:33:13,755   copying build/lib/emmer/ndimage/filter/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/filter
2022-09-15T12:33:13,759   copying build/lib/emmer/ndimage/compute_real_space_correlation.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage
2022-09-15T12:33:13,763   creating build/bdist.linux-armv7l/wheel/emmer/ndimage/mask
2022-09-15T12:33:13,764   copying build/lib/emmer/ndimage/mask/get_atomic_model_mask.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/mask
2022-09-15T12:33:13,768   copying build/lib/emmer/ndimage/mask/get_spherical_mask.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/mask
2022-09-15T12:33:13,771   copying build/lib/emmer/ndimage/mask/mask_utils.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/mask
2022-09-15T12:33:13,775   copying build/lib/emmer/ndimage/mask/compute_confidence_map.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/mask
2022-09-15T12:33:13,778   copying build/lib/emmer/ndimage/mask/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/mask
2022-09-15T12:33:13,783   creating build/bdist.linux-armv7l/wheel/emmer/ndimage/spectrum
2022-09-15T12:33:13,785   copying build/lib/emmer/ndimage/spectrum/spectrum_utils.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/spectrum
2022-09-15T12:33:13,788   copying build/lib/emmer/ndimage/spectrum/sum_of_psd_2d.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/spectrum
2022-09-15T12:33:13,792   copying build/lib/emmer/ndimage/spectrum/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/spectrum
2022-09-15T12:33:13,797   creating build/bdist.linux-armv7l/wheel/emmer/ndimage/fsc
2022-09-15T12:33:13,799   copying build/lib/emmer/ndimage/fsc/fsc_utils.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/fsc
2022-09-15T12:33:13,804   copying build/lib/emmer/ndimage/fsc/calculate_phase_correlation.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/fsc
2022-09-15T12:33:13,808   copying build/lib/emmer/ndimage/fsc/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/fsc
2022-09-15T12:33:13,813   copying build/lib/emmer/ndimage/fsc/calculate_fsc_curve.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/fsc
2022-09-15T12:33:13,817   copying build/lib/emmer/ndimage/fsc/compute_fsc_resolution.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/fsc
2022-09-15T12:33:13,821   copying build/lib/emmer/ndimage/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage
2022-09-15T12:33:13,826   creating build/bdist.linux-armv7l/wheel/emmer/ndimage/plots
2022-09-15T12:33:13,828   copying build/lib/emmer/ndimage/plots/plotContourMap.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/plots
2022-09-15T12:33:13,833   copying build/lib/emmer/ndimage/plots/plots.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/plots
2022-09-15T12:33:13,838   copying build/lib/emmer/ndimage/plots/__init__.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage/plots
2022-09-15T12:33:13,843   copying build/lib/emmer/ndimage/get_center_of_mass.py -> build/bdist.linux-armv7l/wheel/emmer/ndimage
2022-09-15T12:33:13,847   running install_egg_info
2022-09-15T12:33:14,481   Copying emmer.egg-info to build/bdist.linux-armv7l/wheel/emmer-0.0.1-py3.7.egg-info
2022-09-15T12:33:14,511   running install_scripts
2022-09-15T12:33:14,716   creating build/bdist.linux-armv7l/wheel/emmer-0.0.1.dist-info/WHEEL
2022-09-15T12:33:14,720   creating '/tmp/pip-wheel-ljuix8i2/tmps8ecfm1e/emmer-0.0.1-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2022-09-15T12:33:14,726   adding 'emmer/__init__.py'
2022-09-15T12:33:14,729   adding 'emmer/main.py'
2022-09-15T12:33:14,733   adding 'emmer/include/__init__.py'
2022-09-15T12:33:14,736   adding 'emmer/include/emmer_utils.py'
2022-09-15T12:33:17,855   adding 'emmer/include/geckodriver'
2022-09-15T12:33:18,026   adding 'emmer/include/theoretical_profiles.pickle'
2022-09-15T12:33:18,035   adding 'emmer/include/confidenceMapUtil/FDRutil.py'
2022-09-15T12:33:18,038   adding 'emmer/include/confidenceMapUtil/__init__.py'
2022-09-15T12:33:18,042   adding 'emmer/include/confidenceMapUtil/confidenceMapMain.py'
2022-09-15T12:33:18,049   adding 'emmer/include/confidenceMapUtil/locscaleUtil.py'
2022-09-15T12:33:18,053   adding 'emmer/include/confidenceMapUtil/mapUtil.py'
2022-09-15T12:33:18,058   adding 'emmer/ndimage/__init__.py'
2022-09-15T12:33:18,061   adding 'emmer/ndimage/average_half_maps.py'
2022-09-15T12:33:18,063   adding 'emmer/ndimage/compute_real_space_correlation.py'
2022-09-15T12:33:18,065   adding 'emmer/ndimage/get_center_of_mass.py'
2022-09-15T12:33:18,068   adding 'emmer/ndimage/map_tools.py'
2022-09-15T12:33:18,072   adding 'emmer/ndimage/map_utils.py'
2022-09-15T12:33:18,075   adding 'emmer/ndimage/plotContourMap.py'
2022-09-15T12:33:18,078   adding 'emmer/ndimage/trim_map_between_residues.py'
2022-09-15T12:33:18,082   adding 'emmer/ndimage/bfactors/__init__.py'
2022-09-15T12:33:18,086   adding 'emmer/ndimage/bfactors/estimate_bfactor_distribution.py'
2022-09-15T12:33:18,088   adding 'emmer/ndimage/bfactors/estimate_bfactor_map.py'
2022-09-15T12:33:18,091   adding 'emmer/ndimage/bfactors/estimate_local_bfactor.py'
2022-09-15T12:33:18,095   adding 'emmer/ndimage/contour/__init__.py'
2022-09-15T12:33:18,098   adding 'emmer/ndimage/contour/contour_utils.py'
2022-09-15T12:33:18,100   adding 'emmer/ndimage/contour/count_segments.py'
2022-09-15T12:33:18,102   adding 'emmer/ndimage/contour/surface_area_at_threshold.py'
2022-09-15T12:33:18,104   adding 'emmer/ndimage/contour/volume_at_threshold.py'
2022-09-15T12:33:18,106   adding 'emmer/ndimage/contour/volume_matching_threshold.py'
2022-09-15T12:33:18,110   adding 'emmer/ndimage/filter/__init__.py'
2022-09-15T12:33:18,113   adding 'emmer/ndimage/filter/apply_fsc_filter.py'
2022-09-15T12:33:18,115   adding 'emmer/ndimage/filter/band_pass_filter.py'
2022-09-15T12:33:18,118   adding 'emmer/ndimage/filter/filter_utils.py'
2022-09-15T12:33:18,120   adding 'emmer/ndimage/filter/high_pass_filter.py'
2022-09-15T12:33:18,122   adding 'emmer/ndimage/filter/low_pass_filter.py'
2022-09-15T12:33:18,124   adding 'emmer/ndimage/filter/smoothen_mask.py'
2022-09-15T12:33:18,128   adding 'emmer/ndimage/fsc/__init__.py'
2022-09-15T12:33:18,130   adding 'emmer/ndimage/fsc/calculate_fsc_curve.py'
2022-09-15T12:33:18,133   adding 'emmer/ndimage/fsc/calculate_phase_correlation.py'
2022-09-15T12:33:18,135   adding 'emmer/ndimage/fsc/compute_fsc_resolution.py'
2022-09-15T12:33:18,138   adding 'emmer/ndimage/fsc/fsc_utils.py'
2022-09-15T12:33:18,142   adding 'emmer/ndimage/mask/__init__.py'
2022-09-15T12:33:18,145   adding 'emmer/ndimage/mask/compute_confidence_map.py'
2022-09-15T12:33:18,147   adding 'emmer/ndimage/mask/get_atomic_model_mask.py'
2022-09-15T12:33:18,149   adding 'emmer/ndimage/mask/get_spherical_mask.py'
2022-09-15T12:33:18,151   adding 'emmer/ndimage/mask/mask_utils.py'
2022-09-15T12:33:18,156   adding 'emmer/ndimage/plots/__init__.py'
2022-09-15T12:33:18,159   adding 'emmer/ndimage/plots/plotContourMap.py'
2022-09-15T12:33:18,163   adding 'emmer/ndimage/plots/plots.py'
2022-09-15T12:33:18,167   adding 'emmer/ndimage/radial_profile/__init__.py'
2022-09-15T12:33:18,170   adding 'emmer/ndimage/radial_profile/amplitude_from_resolution.py'
2022-09-15T12:33:18,172   adding 'emmer/ndimage/radial_profile/compute_radial_amplitude_variance.py'
2022-09-15T12:33:18,174   adding 'emmer/ndimage/radial_profile/compute_radial_profile.py'
2022-09-15T12:33:18,176   adding 'emmer/ndimage/radial_profile/estimate_bfactor_pwlf.py'
2022-09-15T12:33:18,179   adding 'emmer/ndimage/radial_profile/estimate_bfactor_standard.py'
2022-09-15T12:33:18,181   adding 'emmer/ndimage/radial_profile/frequency_array.py'
2022-09-15T12:33:18,183   adding 'emmer/ndimage/radial_profile/measure_debye_effect_magnitude.py'
2022-09-15T12:33:18,185   adding 'emmer/ndimage/radial_profile/merge_two_profiles.py'
2022-09-15T12:33:18,188   adding 'emmer/ndimage/radial_profile/profile_tools.py'
2022-09-15T12:33:18,190   adding 'emmer/ndimage/radial_profile/resolution_from_amplitude.py'
2022-09-15T12:33:18,192   adding 'emmer/ndimage/radial_profile/scale_profiles.py'
2022-09-15T12:33:18,197   adding 'emmer/ndimage/sharpen/__init__.py'
2022-09-15T12:33:18,199   adding 'emmer/ndimage/sharpen/scaling_tools.py'
2022-09-15T12:33:18,201   adding 'emmer/ndimage/sharpen/set_radial_profile_to_volume.py'
2022-09-15T12:33:18,204   adding 'emmer/ndimage/sharpen/sharpen_maps.py'
2022-09-15T12:33:18,208   adding 'emmer/ndimage/spectrum/__init__.py'
2022-09-15T12:33:18,210   adding 'emmer/ndimage/spectrum/spectrum_utils.py'
2022-09-15T12:33:18,212   adding 'emmer/ndimage/spectrum/sum_of_psd_2d.py'
2022-09-15T12:33:18,216   adding 'emmer/pdb/__init__.py'
2022-09-15T12:33:18,221   adding 'emmer/pdb/pdb_utils.py'
2022-09-15T12:33:18,226   adding 'emmer/pdb/SSE/__init__.py'
2022-09-15T12:33:18,228   adding 'emmer/pdb/SSE/get_dssp.py'
2022-09-15T12:33:18,231   adding 'emmer/pdb/SSE/get_secondary_structure_residues_content.py'
2022-09-15T12:33:18,233   adding 'emmer/pdb/SSE/link_gemmi_model_with_dssp.py'
2022-09-15T12:33:18,235   adding 'emmer/pdb/SSE/split_gemmi_model_based_on_dssp.py'
2022-09-15T12:33:18,240   adding 'emmer/pdb/convert/__init__.py'
2022-09-15T12:33:18,242   adding 'emmer/pdb/convert/convert_cartesian_to_polar.py'
2022-09-15T12:33:18,244   adding 'emmer/pdb/convert/convert_mrc_to_pdb_position.py'
2022-09-15T12:33:18,248   adding 'emmer/pdb/convert/convert_pdb_to_map.py'
2022-09-15T12:33:18,251   adding 'emmer/pdb/convert/convert_pdb_to_mmcif.py'
2022-09-15T12:33:18,253   adding 'emmer/pdb/convert/convert_pdb_to_mrc_position.py'
2022-09-15T12:33:18,255   adding 'emmer/pdb/convert/convert_polar_to_cartesian.py'
2022-09-15T12:33:18,259   adding 'emmer/pdb/coordinates/__init__.py'
2022-09-15T12:33:18,261   adding 'emmer/pdb/coordinates/get_random_polar_vector.py'
2022-09-15T12:33:18,266   adding 'emmer/pdb/pdb_tools/__init__.py'
2022-09-15T12:33:18,268   adding 'emmer/pdb/pdb_tools/add_cryst1_line.py'
2022-09-15T12:33:18,271   adding 'emmer/pdb/pdb_tools/compute_rmsd_two_pdb.py'
2022-09-15T12:33:18,273   adding 'emmer/pdb/pdb_tools/find_wilson_cutoff.py'
2022-09-15T12:33:18,276   adding 'emmer/pdb/pdb_tools/perturb_within_mask.py'
2022-09-15T12:33:18,279   adding 'emmer/pdb/pdb_tools/shake_pdb_within_mask.py'
2022-09-15T12:33:18,284   adding 'emmer/tests/__init__.py'
2022-09-15T12:33:18,286   adding 'emmer/tests/run.py'
2022-09-15T12:33:18,289   adding 'emmer/tests/test_bfactors.py'
2022-09-15T12:33:18,291   adding 'emmer/tests/test_convert.py'
2022-09-15T12:33:18,294   adding 'emmer/tests/test_coordinates.py'
2022-09-15T12:33:18,296   adding 'emmer/tests/test_dssp.py'
2022-09-15T12:33:18,299   adding 'emmer/tests/test_filter.py'
2022-09-15T12:33:18,302   adding 'emmer/tests/test_fsc_maps.py'
2022-09-15T12:33:18,306   adding 'emmer/tests/test_map_tools.py'
2022-09-15T12:33:18,309   adding 'emmer/tests/test_map_utils.py'
2022-09-15T12:33:18,312   adding 'emmer/tests/test_pdb.py'
2022-09-15T12:33:18,315   adding 'emmer/tests/test_pdb_shake.py'
2022-09-15T12:33:18,318   adding 'emmer/tests/test_pdb_utils.py'
2022-09-15T12:33:18,321   adding 'emmer/tests/test_profile_tools.py'
2022-09-15T12:33:18,324   adding 'emmer/tests/test_surface_area.py'
2022-09-15T12:33:18,328   adding 'emmer/tests/ndimage_unittest/__init__.py'
2022-09-15T12:33:18,332   adding 'emmer/tests/pdb_unittest/__init__.py'
2022-09-15T12:33:18,732   adding 'emmer/tests/pdb_unittest/data/6NY1.pdb'
2022-09-15T12:33:18,753   adding 'emmer/tests/pdb_unittest/data/__init__.py'
2022-09-15T12:33:18,758   adding 'emmer/tests/pdb_unittest/data/charged.pdb'
2022-09-15T12:33:18,762   adding 'emmer/tests/pdb_unittest/data/no_cryst1_line.pdb'
2022-09-15T12:33:18,766   adding 'emmer/tests/pdb_unittest/data/testing_model.pdb'
2022-09-15T12:33:18,771   adding 'emmer/tests/pdb_unittest/verify/__init__.py'
2022-09-15T12:33:18,774   adding 'emmer/tests/pdb_unittest/verify/all_coords.npy'
2022-09-15T12:33:18,776   adding 'emmer/tests/pdb_unittest/verify/ca_coords.npy'
2022-09-15T12:33:18,780   adding 'emmer/tests/pdb_unittest/verify/shifted_model.pdb'
2022-09-15T12:33:18,784   adding 'emmer/tests/pdb_unittest/verify/testing_model.cif'
2022-09-15T12:33:19,005   adding 'emmer/tests/pdb_unittest/verify/verify_map.mrc'
2022-09-15T12:33:19,028   adding 'emmer-0.0.1.dist-info/METADATA'
2022-09-15T12:33:19,030   adding 'emmer-0.0.1.dist-info/WHEEL'
2022-09-15T12:33:19,032   adding 'emmer-0.0.1.dist-info/entry_points.txt'
2022-09-15T12:33:19,033   adding 'emmer-0.0.1.dist-info/top_level.txt'
2022-09-15T12:33:19,039   adding 'emmer-0.0.1.dist-info/RECORD'
2022-09-15T12:33:19,180   removing build/bdist.linux-armv7l/wheel
2022-09-15T12:33:19,269   /usr/local/lib/python3.7/dist-packages/setuptools/dist.py:775: UserWarning: Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead
2022-09-15T12:33:19,269     % (opt, underscore_opt)
2022-09-15T12:33:19,529   Building wheel for emmer (pyproject.toml): finished with status 'done'
2022-09-15T12:33:19,765   Created wheel for emmer: filename=emmer-0.0.1-py3-none-any.whl size=3660085 sha256=203dd136c319cff531f994dd6fb781a88bb61e2e74477e72a743d08719fc3a0b
2022-09-15T12:33:19,767   Stored in directory: /tmp/pip-ephem-wheel-cache-d3mx1s9p/wheels/95/fc/34/365886445b252ad9305cbe7fec9f580c8c9f4643d6725670e9
2022-09-15T12:33:19,803 Successfully built emmer
2022-09-15T12:33:20,101 Removed build tracker: '/tmp/pip-build-tracker-uk_ytb2m'