2022-11-09T01:28:02,656 Created temporary directory: /tmp/pip-ephem-wheel-cache-m7utvjlv 2022-11-09T01:28:02,660 Created temporary directory: /tmp/pip-build-tracker-zwcihthh 2022-11-09T01:28:02,661 Initialized build tracking at /tmp/pip-build-tracker-zwcihthh 2022-11-09T01:28:02,661 Created build tracker: /tmp/pip-build-tracker-zwcihthh 2022-11-09T01:28:02,662 Entered build tracker: /tmp/pip-build-tracker-zwcihthh 2022-11-09T01:28:02,663 Created temporary directory: /tmp/pip-wheel-wo3oek_3 2022-11-09T01:28:02,671 DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453 2022-11-09T01:28:02,685 Created temporary directory: /tmp/pip-ephem-wheel-cache-78ugrspf 2022-11-09T01:28:02,741 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2022-11-09T01:28:02,750 2 location(s) to search for versions of dorkylever-lama-phenotype-detection: 2022-11-09T01:28:02,750 * https://pypi.org/simple/dorkylever-lama-phenotype-detection/ 2022-11-09T01:28:02,750 * https://www.piwheels.org/simple/dorkylever-lama-phenotype-detection/ 2022-11-09T01:28:02,751 Fetching project page and analyzing links: https://pypi.org/simple/dorkylever-lama-phenotype-detection/ 2022-11-09T01:28:02,752 Getting page https://pypi.org/simple/dorkylever-lama-phenotype-detection/ 2022-11-09T01:28:02,755 Found index url https://pypi.org/simple 2022-11-09T01:28:02,945 Fetched page https://pypi.org/simple/dorkylever-lama-phenotype-detection/ as application/vnd.pypi.simple.v1+json 2022-11-09T01:28:02,949 Skipping link: No binaries permitted for dorkylever-lama-phenotype-detection: https://files.pythonhosted.org/packages/65/d3/6e2ed3cdbcea2effec897de9aecd24c061985b51bb3b303c46182c5ec93f/dorkylever_lama_phenotype_detection-1.0.0-py3-none-any.whl (from https://pypi.org/simple/dorkylever-lama-phenotype-detection/) 2022-11-09T01:28:02,950 Found link https://files.pythonhosted.org/packages/da/23/74d2f01d1e5a7bc5a7f576bf58e250063a267324d8350ef01265b470fb52/dorkylever_lama_phenotype_detection-1.0.0.tar.gz (from https://pypi.org/simple/dorkylever-lama-phenotype-detection/), version: 1.0.0 2022-11-09T01:28:02,951 Skipping link: No binaries permitted for dorkylever-lama-phenotype-detection: https://files.pythonhosted.org/packages/8c/ca/fb8f7e7128443a261c4a698e148c2b3ff052bf6bfb9cb22472d18c2a94ee/dorkylever_lama_phenotype_detection-1.0.1-py3-none-any.whl (from https://pypi.org/simple/dorkylever-lama-phenotype-detection/) 2022-11-09T01:28:02,951 Skipping link: unsupported archive format: .egg: https://files.pythonhosted.org/packages/1c/b4/e3ca719182dc83ecc7a7603e8e0210cf9a3f0ae853050ee791aedb73ab78/dorkylever_lama_phenotype_detection-1.0.1-py3.8.egg (from https://pypi.org/simple/dorkylever-lama-phenotype-detection/) 2022-11-09T01:28:02,952 Found link https://files.pythonhosted.org/packages/4d/3c/855fa699d6a46e11459a0e30992e2a9aee198cada0e513bab1e7c426ba65/dorkylever_lama_phenotype_detection-1.0.1.tar.gz (from https://pypi.org/simple/dorkylever-lama-phenotype-detection/), version: 1.0.1 2022-11-09T01:28:02,953 Fetching project page and analyzing links: https://www.piwheels.org/simple/dorkylever-lama-phenotype-detection/ 2022-11-09T01:28:02,953 Getting page https://www.piwheels.org/simple/dorkylever-lama-phenotype-detection/ 2022-11-09T01:28:02,955 Found index url https://www.piwheels.org/simple 2022-11-09T01:28:03,195 Fetched page https://www.piwheels.org/simple/dorkylever-lama-phenotype-detection/ as text/html 2022-11-09T01:28:03,198 Skipping link: No binaries permitted for dorkylever-lama-phenotype-detection: https://www.piwheels.org/simple/dorkylever-lama-phenotype-detection/dorkylever_lama_phenotype_detection-1.0.0-py3-none-any.whl#sha256=4b62a163eed177635af96f4a4e04f3284e04392c6558c52bb4dc0b1fe9964b76 (from https://www.piwheels.org/simple/dorkylever-lama-phenotype-detection/) 2022-11-09T01:28:03,199 Skipping link: not a file: https://www.piwheels.org/simple/dorkylever-lama-phenotype-detection/ 2022-11-09T01:28:03,199 Skipping link: not a file: https://pypi.org/simple/dorkylever-lama-phenotype-detection/ 2022-11-09T01:28:03,232 Given no hashes to check 1 links for project 'dorkylever-lama-phenotype-detection': discarding no candidates 2022-11-09T01:28:03,266 Collecting dorkylever-lama-phenotype-detection==1.0.1 2022-11-09T01:28:03,270 Created temporary directory: /tmp/pip-unpack-6tr86379 2022-11-09T01:28:04,381 Downloading dorkylever_lama_phenotype_detection-1.0.1.tar.gz (25.2 MB) 2022-11-09T01:28:11,795 Added dorkylever-lama-phenotype-detection==1.0.1 from https://files.pythonhosted.org/packages/4d/3c/855fa699d6a46e11459a0e30992e2a9aee198cada0e513bab1e7c426ba65/dorkylever_lama_phenotype_detection-1.0.1.tar.gz to build tracker '/tmp/pip-build-tracker-zwcihthh' 2022-11-09T01:28:11,799 Running setup.py (path:/tmp/pip-wheel-wo3oek_3/dorkylever-lama-phenotype-detection_c99a86ea2cd84441baf175cdee345070/setup.py) egg_info for package dorkylever-lama-phenotype-detection 2022-11-09T01:28:11,800 Created temporary directory: /tmp/pip-pip-egg-info-5itgiigm 2022-11-09T01:28:11,800 Preparing metadata (setup.py): started 2022-11-09T01:28:11,803 Running command python setup.py egg_info 2022-11-09T01:28:14,543 running egg_info 2022-11-09T01:28:14,548 creating /tmp/pip-pip-egg-info-5itgiigm/dorkylever_lama_phenotype_detection.egg-info 2022-11-09T01:28:14,612 writing /tmp/pip-pip-egg-info-5itgiigm/dorkylever_lama_phenotype_detection.egg-info/PKG-INFO 2022-11-09T01:28:14,616 writing dependency_links to /tmp/pip-pip-egg-info-5itgiigm/dorkylever_lama_phenotype_detection.egg-info/dependency_links.txt 2022-11-09T01:28:14,621 writing entry points to /tmp/pip-pip-egg-info-5itgiigm/dorkylever_lama_phenotype_detection.egg-info/entry_points.txt 2022-11-09T01:28:14,624 writing requirements to /tmp/pip-pip-egg-info-5itgiigm/dorkylever_lama_phenotype_detection.egg-info/requires.txt 2022-11-09T01:28:14,626 writing top-level names to /tmp/pip-pip-egg-info-5itgiigm/dorkylever_lama_phenotype_detection.egg-info/top_level.txt 2022-11-09T01:28:14,629 writing manifest file '/tmp/pip-pip-egg-info-5itgiigm/dorkylever_lama_phenotype_detection.egg-info/SOURCES.txt' 2022-11-09T01:28:14,873 reading manifest file '/tmp/pip-pip-egg-info-5itgiigm/dorkylever_lama_phenotype_detection.egg-info/SOURCES.txt' 2022-11-09T01:28:14,876 reading manifest template 'MANIFEST.in' 2022-11-09T01:28:14,877 warning: no files found matching 'lama/current_commit' 2022-11-09T01:28:14,878 adding license file 'LICENCE.md' 2022-11-09T01:28:14,895 writing manifest file '/tmp/pip-pip-egg-info-5itgiigm/dorkylever_lama_phenotype_detection.egg-info/SOURCES.txt' 2022-11-09T01:28:15,099 Preparing metadata (setup.py): finished with status 'done' 2022-11-09T01:28:15,113 Source in /tmp/pip-wheel-wo3oek_3/dorkylever-lama-phenotype-detection_c99a86ea2cd84441baf175cdee345070 has version 1.0.1, which satisfies requirement dorkylever-lama-phenotype-detection==1.0.1 from https://files.pythonhosted.org/packages/4d/3c/855fa699d6a46e11459a0e30992e2a9aee198cada0e513bab1e7c426ba65/dorkylever_lama_phenotype_detection-1.0.1.tar.gz 2022-11-09T01:28:15,115 Removed dorkylever-lama-phenotype-detection==1.0.1 from https://files.pythonhosted.org/packages/4d/3c/855fa699d6a46e11459a0e30992e2a9aee198cada0e513bab1e7c426ba65/dorkylever_lama_phenotype_detection-1.0.1.tar.gz from build tracker '/tmp/pip-build-tracker-zwcihthh' 2022-11-09T01:28:15,125 Created temporary directory: /tmp/pip-unpack-f3eoazqm 2022-11-09T01:28:15,126 Building wheels for collected packages: dorkylever-lama-phenotype-detection 2022-11-09T01:28:15,135 Created temporary directory: /tmp/pip-wheel-36f_1e82 2022-11-09T01:28:15,136 Building wheel for dorkylever-lama-phenotype-detection (setup.py): started 2022-11-09T01:28:15,138 Destination directory: /tmp/pip-wheel-36f_1e82 2022-11-09T01:28:15,138 Running command python setup.py bdist_wheel 2022-11-09T01:28:17,868 running bdist_wheel 2022-11-09T01:28:18,672 running build 2022-11-09T01:28:18,672 running build_py 2022-11-09T01:28:18,741 creating build 2022-11-09T01:28:18,742 creating build/lib 2022-11-09T01:28:18,743 creating build/lib/lama 2022-11-09T01:28:18,745 copying lama/__init__.py -> build/lib/lama 2022-11-09T01:28:18,748 copying lama/paths.py -> build/lib/lama 2022-11-09T01:28:18,752 copying lama/common.py -> build/lib/lama 2022-11-09T01:28:18,757 copying lama/monitor_memory.py -> build/lib/lama 2022-11-09T01:28:18,760 copying lama/version.py -> build/lib/lama 2022-11-09T01:28:18,764 creating build/lib/lama/lib 2022-11-09T01:28:18,766 copying lama/lib/__init__.py -> build/lib/lama/lib 2022-11-09T01:28:18,768 copying lama/lib/addict.py -> build/lib/lama/lib 2022-11-09T01:28:18,772 copying lama/lib/transformations.py -> build/lib/lama/lib 2022-11-09T01:28:18,781 creating build/lib/lama/segmentation_plugins 2022-11-09T01:28:18,782 copying lama/segmentation_plugins/secondary_seg_lateral_ventricle.py -> build/lib/lama/segmentation_plugins 2022-11-09T01:28:18,786 copying lama/segmentation_plugins/__init__.py -> build/lib/lama/segmentation_plugins 2022-11-09T01:28:18,789 copying lama/segmentation_plugins/secondary_seg_lateral_ventricle_e145.py -> build/lib/lama/segmentation_plugins 2022-11-09T01:28:18,793 copying lama/segmentation_plugins/plugin_interface.py -> build/lib/lama/segmentation_plugins 2022-11-09T01:28:18,798 creating build/lib/lama/qc 2022-11-09T01:28:18,799 copying lama/qc/folding.py -> build/lib/lama/qc 2022-11-09T01:28:18,802 copying lama/qc/img_grid.py -> build/lib/lama/qc 2022-11-09T01:28:18,805 copying lama/qc/__init__.py -> build/lib/lama/qc 2022-11-09T01:28:18,808 copying lama/qc/metric_charts.py -> build/lib/lama/qc 2022-11-09T01:28:18,811 copying lama/qc/formatting.py -> build/lib/lama/qc 2022-11-09T01:28:18,814 copying lama/qc/organ_vol_plots.py -> build/lib/lama/qc 2022-11-09T01:28:18,818 copying lama/qc/roi_overlay.py -> build/lib/lama/qc 2022-11-09T01:28:18,821 copying lama/qc/common.py -> build/lib/lama/qc 2022-11-09T01:28:18,824 copying lama/qc/interative_qc.py -> build/lib/lama/qc 2022-11-09T01:28:18,828 copying lama/qc/qc_images.py -> build/lib/lama/qc 2022-11-09T01:28:18,832 copying lama/qc/collate_qc.py -> build/lib/lama/qc 2022-11-09T01:28:18,837 creating build/lib/lama/img_processing 2022-11-09T01:28:18,838 copying lama/img_processing/misc.py -> build/lib/lama/img_processing 2022-11-09T01:28:18,841 copying lama/img_processing/__init__.py -> build/lib/lama/img_processing 2022-11-09T01:28:18,844 copying lama/img_processing/normalise_background.py -> build/lib/lama/img_processing 2022-11-09T01:28:18,847 copying lama/img_processing/glcm3d.py -> build/lib/lama/img_processing 2022-11-09T01:28:18,850 copying lama/img_processing/organ_vol_calculation.py -> build/lib/lama/img_processing 2022-11-09T01:28:18,853 copying lama/img_processing/read_minc.py -> build/lib/lama/img_processing 2022-11-09T01:28:18,857 copying lama/img_processing/normalise.py -> build/lib/lama/img_processing 2022-11-09T01:28:18,864 creating build/lib/lama/scripts 2022-11-09T01:28:18,865 copying lama/scripts/lama_ark_img_pro.py -> build/lib/lama/scripts 2022-11-09T01:28:18,868 copying lama/scripts/lama_job_runner.py -> build/lib/lama/scripts 2022-11-09T01:28:18,872 copying lama/scripts/two_way_plotter.py -> build/lib/lama/scripts 2022-11-09T01:28:18,875 copying lama/scripts/lama_reg.py -> build/lib/lama/scripts 2022-11-09T01:28:18,878 copying lama/scripts/__init__.py -> build/lib/lama/scripts 2022-11-09T01:28:18,881 copying lama/scripts/lama_stats.py -> build/lib/lama/scripts 2022-11-09T01:28:18,884 copying lama/scripts/lama_get_test_data.py -> build/lib/lama/scripts 2022-11-09T01:28:18,886 copying lama/scripts/lama_permutation_stats.py -> build/lib/lama/scripts 2022-11-09T01:28:18,889 copying lama/scripts/lama_radiomics_runner.py -> build/lib/lama/scripts 2022-11-09T01:28:18,892 copying lama/scripts/intensity_normalisation.py -> build/lib/lama/scripts 2022-11-09T01:28:18,896 copying lama/scripts/lama_get_walkthrough_data.py -> build/lib/lama/scripts 2022-11-09T01:28:18,900 creating build/lib/lama/registration_pipeline 2022-11-09T01:28:18,901 copying lama/registration_pipeline/__init__.py -> build/lib/lama/registration_pipeline 2022-11-09T01:28:18,904 copying lama/registration_pipeline/parallel_average_pairwise.py -> build/lib/lama/registration_pipeline 2022-11-09T01:28:18,908 copying lama/registration_pipeline/validate_config.py -> build/lib/lama/registration_pipeline 2022-11-09T01:28:18,913 copying lama/registration_pipeline/parallel_average.py -> build/lib/lama/registration_pipeline 2022-11-09T01:28:18,917 copying lama/registration_pipeline/run_lama.py -> build/lib/lama/registration_pipeline 2022-11-09T01:28:18,924 creating build/lib/lama/staging 2022-11-09T01:28:18,925 copying lama/staging/affine_similarity_scaling_factors.py -> build/lib/lama/staging 2022-11-09T01:28:18,929 copying lama/staging/__init__.py -> build/lib/lama/staging 2022-11-09T01:28:18,932 copying lama/staging/staging_metric_maker.py -> build/lib/lama/staging 2022-11-09T01:28:18,936 copying lama/staging/baseline_selection.py -> build/lib/lama/staging 2022-11-09T01:28:18,940 copying lama/staging/skeleton_length.py -> build/lib/lama/staging 2022-11-09T01:28:18,945 creating build/lib/lama/tests 2022-11-09T01:28:18,946 copying lama/tests/__init__.py -> build/lib/lama/tests 2022-11-09T01:28:18,949 copying lama/tests/debug.py -> build/lib/lama/tests 2022-11-09T01:28:18,953 copying lama/tests/test_distributions.py -> build/lib/lama/tests 2022-11-09T01:28:18,956 copying lama/tests/test_standard_stats.py -> build/lib/lama/tests 2022-11-09T01:28:18,960 copying lama/tests/test_permutation_stats.py -> build/lib/lama/tests 2022-11-09T01:28:18,965 copying lama/tests/test_data_generation.py -> build/lib/lama/tests 2022-11-09T01:28:18,973 creating build/lib/lama/utilities 2022-11-09T01:28:18,975 copying lama/utilities/__init__.py -> build/lib/lama/utilities 2022-11-09T01:28:18,979 copying lama/utilities/flipper.py -> build/lib/lama/utilities 2022-11-09T01:28:18,983 copying lama/utilities/atlas_tools.py -> build/lib/lama/utilities 2022-11-09T01:28:18,987 copying lama/utilities/make_roi.py -> build/lib/lama/utilities 2022-11-09T01:28:18,991 copying lama/utilities/body_radiomics_normaliser.py -> build/lib/lama/utilities 2022-11-09T01:28:18,995 copying lama/utilities/lama_pad_volumes.py -> build/lib/lama/utilities 2022-11-09T01:28:18,999 copying lama/utilities/vpv_line_loader.py -> build/lib/lama/utilities 2022-11-09T01:28:19,002 copying lama/utilities/extract_registrations.py -> build/lib/lama/utilities 2022-11-09T01:28:19,005 copying lama/utilities/remove_output_dirs.py -> build/lib/lama/utilities 2022-11-09T01:28:19,008 copying lama/utilities/invert_emap_ref.py -> build/lib/lama/utilities 2022-11-09T01:28:19,011 copying lama/utilities/quick_rotate.py -> build/lib/lama/utilities 2022-11-09T01:28:19,015 copying lama/utilities/lama_img_info.py -> build/lib/lama/utilities 2022-11-09T01:28:19,018 copying lama/utilities/man_clip_removal.py -> build/lib/lama/utilities 2022-11-09T01:28:19,021 copying lama/utilities/make_otsu.py -> build/lib/lama/utilities 2022-11-09T01:28:19,025 copying lama/utilities/combine_spec_csv.py -> build/lib/lama/utilities 2022-11-09T01:28:19,030 copying lama/utilities/lama_histogram_batch.py -> build/lib/lama/utilities 2022-11-09T01:28:19,034 copying lama/utilities/cropper.py -> build/lib/lama/utilities 2022-11-09T01:28:19,037 copying lama/utilities/extract_label.py -> build/lib/lama/utilities 2022-11-09T01:28:19,040 copying lama/utilities/quick_normalise.py -> build/lib/lama/utilities 2022-11-09T01:28:19,044 copying lama/utilities/prep_for_man_valid.py -> build/lib/lama/utilities 2022-11-09T01:28:19,047 copying lama/utilities/quick_n4_norm.py -> build/lib/lama/utilities 2022-11-09T01:28:19,050 copying lama/utilities/randomise_for_blinding.py -> build/lib/lama/utilities 2022-11-09T01:28:19,054 copying lama/utilities/zoomer.py -> build/lib/lama/utilities 2022-11-09T01:28:19,057 copying lama/utilities/lama_convert_16_to_8.py -> build/lib/lama/utilities 2022-11-09T01:28:19,061 copying lama/utilities/radiomics_normaliser.py -> build/lib/lama/utilities 2022-11-09T01:28:19,065 copying lama/utilities/label_intensity_info.py -> build/lib/lama/utilities 2022-11-09T01:28:19,068 copying lama/utilities/plot_radiomic_features.py -> build/lib/lama/utilities 2022-11-09T01:28:19,072 copying lama/utilities/config_checksum.py -> build/lib/lama/utilities 2022-11-09T01:28:19,075 copying lama/utilities/nrrd_to_h5.py -> build/lib/lama/utilities 2022-11-09T01:28:19,079 copying lama/utilities/data_clean_up.py -> build/lib/lama/utilities 2022-11-09T01:28:19,083 creating build/lib/lama/stats 2022-11-09T01:28:19,085 copying lama/stats/__init__.py -> build/lib/lama/stats 2022-11-09T01:28:19,088 copying lama/stats/penetrence_expressivity_plots.py -> build/lib/lama/stats 2022-11-09T01:28:19,092 copying lama/stats/automated_annotation.py -> build/lib/lama/stats 2022-11-09T01:28:19,096 copying lama/stats/linear_model.py -> build/lib/lama/stats 2022-11-09T01:28:19,100 copying lama/stats/cluster_plots.py -> build/lib/lama/stats 2022-11-09T01:28:19,103 copying lama/stats/common.py -> build/lib/lama/stats 2022-11-09T01:28:19,106 copying lama/stats/heatmap.py -> build/lib/lama/stats 2022-11-09T01:28:19,111 creating build/lib/lama/lama_radiomics 2022-11-09T01:28:19,112 copying lama/lama_radiomics/machine_learning.py -> build/lib/lama/lama_radiomics 2022-11-09T01:28:19,116 copying lama/lama_radiomics/__init__.py -> build/lib/lama/lama_radiomics 2022-11-09T01:28:19,119 copying lama/lama_radiomics/radiomics.py -> build/lib/lama/lama_radiomics 2022-11-09T01:28:19,123 copying lama/lama_radiomics/feature_reduction.py -> build/lib/lama/lama_radiomics 2022-11-09T01:28:19,129 creating build/lib/lama/elastix 2022-11-09T01:28:19,131 copying lama/elastix/folding.py -> build/lib/lama/elastix 2022-11-09T01:28:19,135 copying lama/elastix/elastix_registration.py -> build/lib/lama/elastix 2022-11-09T01:28:19,139 copying lama/elastix/__init__.py -> build/lib/lama/elastix 2022-11-09T01:28:19,142 copying lama/elastix/reverse_registration.py -> build/lib/lama/elastix 2022-11-09T01:28:19,146 copying lama/elastix/deformations.py -> build/lib/lama/elastix 2022-11-09T01:28:19,150 copying lama/elastix/propagate_volumes.py -> build/lib/lama/elastix 2022-11-09T01:28:19,154 copying lama/elastix/invert_transforms.py -> build/lib/lama/elastix 2022-11-09T01:28:19,160 creating build/lib/lama/registration_pipeline/optimise 2022-11-09T01:28:19,161 copying lama/registration_pipeline/optimise/__init__.py -> build/lib/lama/registration_pipeline/optimise 2022-11-09T01:28:19,164 copying lama/registration_pipeline/optimise/test_regop.py -> build/lib/lama/registration_pipeline/optimise 2022-11-09T01:28:19,167 copying lama/registration_pipeline/optimise/points.py -> build/lib/lama/registration_pipeline/optimise 2022-11-09T01:28:19,170 copying lama/registration_pipeline/optimise/run_lama_configs_grid.py -> build/lib/lama/registration_pipeline/optimise 2022-11-09T01:28:19,173 copying lama/registration_pipeline/optimise/regop_points.py -> build/lib/lama/registration_pipeline/optimise 2022-11-09T01:28:19,179 creating build/lib/lama/tests/archive 2022-11-09T01:28:19,180 copying lama/tests/archive/__init__.py -> build/lib/lama/tests/archive 2022-11-09T01:28:19,183 copying lama/tests/archive/test_lama_stats.py -> build/lib/lama/tests/archive 2022-11-09T01:28:19,186 copying lama/tests/archive/test_run_permutation_stats.py -> build/lib/lama/tests/archive 2022-11-09T01:28:19,192 creating build/lib/lama/stats/standard_stats 2022-11-09T01:28:19,194 copying lama/stats/standard_stats/__init__.py -> build/lib/lama/stats/standard_stats 2022-11-09T01:28:19,198 copying lama/stats/standard_stats/read_config.py -> build/lib/lama/stats/standard_stats 2022-11-09T01:28:19,202 copying lama/stats/standard_stats/lama_stats_new.py -> build/lib/lama/stats/standard_stats 2022-11-09T01:28:19,206 copying lama/stats/standard_stats/data_loaders.py -> build/lib/lama/stats/standard_stats 2022-11-09T01:28:19,213 copying lama/stats/standard_stats/results_writer.py -> build/lib/lama/stats/standard_stats 2022-11-09T01:28:19,218 copying lama/stats/standard_stats/stats_objects.py -> build/lib/lama/stats/standard_stats 2022-11-09T01:28:19,225 creating build/lib/lama/stats/permutation_stats 2022-11-09T01:28:19,227 copying lama/stats/permutation_stats/__init__.py -> build/lib/lama/stats/permutation_stats 2022-11-09T01:28:19,230 copying lama/stats/permutation_stats/p_thresholds.py -> build/lib/lama/stats/permutation_stats 2022-11-09T01:28:19,235 copying lama/stats/permutation_stats/bin_heatmap.py -> build/lib/lama/stats/permutation_stats 2022-11-09T01:28:19,238 copying lama/stats/permutation_stats/distributions.py -> build/lib/lama/stats/permutation_stats 2022-11-09T01:28:19,244 copying lama/stats/permutation_stats/run_permutation_stats.py -> build/lib/lama/stats/permutation_stats 2022-11-09T01:28:19,249 copying lama/stats/permutation_stats/bin_and_norm.py -> build/lib/lama/stats/permutation_stats 2022-11-09T01:28:19,252 running egg_info 2022-11-09T01:28:19,400 writing dorkylever_lama_phenotype_detection.egg-info/PKG-INFO 2022-11-09T01:28:19,404 writing dependency_links to dorkylever_lama_phenotype_detection.egg-info/dependency_links.txt 2022-11-09T01:28:19,409 writing entry points to dorkylever_lama_phenotype_detection.egg-info/entry_points.txt 2022-11-09T01:28:19,412 writing requirements to dorkylever_lama_phenotype_detection.egg-info/requires.txt 2022-11-09T01:28:19,414 writing top-level names to dorkylever_lama_phenotype_detection.egg-info/top_level.txt 2022-11-09T01:28:19,528 reading manifest file 'dorkylever_lama_phenotype_detection.egg-info/SOURCES.txt' 2022-11-09T01:28:19,551 reading manifest template 'MANIFEST.in' 2022-11-09T01:28:19,552 warning: no files found matching 'lama/current_commit' 2022-11-09T01:28:19,553 adding license file 'LICENCE.md' 2022-11-09T01:28:19,582 writing manifest file 'dorkylever_lama_phenotype_detection.egg-info/SOURCES.txt' 2022-11-09T01:28:19,588 /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'lama.example_configs' as data is deprecated, please list it in `packages`. 2022-11-09T01:28:19,589 !! 2022-11-09T01:28:19,590 ############################ 2022-11-09T01:28:19,590 # Package would be ignored # 2022-11-09T01:28:19,590 ############################ 2022-11-09T01:28:19,591 Python recognizes 'lama.example_configs' as an importable package, 2022-11-09T01:28:19,591 but it is not listed in the `packages` configuration of setuptools. 2022-11-09T01:28:19,592 'lama.example_configs' has been automatically added to the distribution only 2022-11-09T01:28:19,592 because it may contain data files, but this behavior is likely to change 2022-11-09T01:28:19,592 in future versions of setuptools (and therefore is considered deprecated). 2022-11-09T01:28:19,593 Please make sure that 'lama.example_configs' is included as a package by using 2022-11-09T01:28:19,593 the `packages` configuration field or the proper discovery methods 2022-11-09T01:28:19,594 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2022-11-09T01:28:19,594 instead of `find_packages(...)`/`find:`). 2022-11-09T01:28:19,595 You can read more about "package discovery" and "data files" on setuptools 2022-11-09T01:28:19,595 documentation page. 2022-11-09T01:28:19,596 !! 2022-11-09T01:28:19,596 check.warn(importable) 2022-11-09T01:28:19,597 /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'lama.snake_contour_tool' as data is deprecated, please list it in `packages`. 2022-11-09T01:28:19,597 !! 2022-11-09T01:28:19,598 ############################ 2022-11-09T01:28:19,598 # Package would be ignored # 2022-11-09T01:28:19,599 ############################ 2022-11-09T01:28:19,599 Python recognizes 'lama.snake_contour_tool' as an importable package, 2022-11-09T01:28:19,599 but it is not listed in the `packages` configuration of setuptools. 2022-11-09T01:28:19,600 'lama.snake_contour_tool' has been automatically added to the distribution only 2022-11-09T01:28:19,600 because it may contain data files, but this behavior is likely to change 2022-11-09T01:28:19,601 in future versions of setuptools (and therefore is considered deprecated). 2022-11-09T01:28:19,601 Please make sure that 'lama.snake_contour_tool' is included as a package by using 2022-11-09T01:28:19,601 the `packages` configuration field or the proper discovery methods 2022-11-09T01:28:19,602 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2022-11-09T01:28:19,602 instead of `find_packages(...)`/`find:`). 2022-11-09T01:28:19,603 You can read more about "package discovery" and "data files" on setuptools 2022-11-09T01:28:19,603 documentation page. 2022-11-09T01:28:19,604 !! 2022-11-09T01:28:19,605 check.warn(importable) 2022-11-09T01:28:19,605 /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'lama.stats.rscripts' as data is deprecated, please list it in `packages`. 2022-11-09T01:28:19,605 !! 2022-11-09T01:28:19,606 ############################ 2022-11-09T01:28:19,606 # Package would be ignored # 2022-11-09T01:28:19,607 ############################ 2022-11-09T01:28:19,607 Python recognizes 'lama.stats.rscripts' as an importable package, 2022-11-09T01:28:19,607 but it is not listed in the `packages` configuration of setuptools. 2022-11-09T01:28:19,608 'lama.stats.rscripts' has been automatically added to the distribution only 2022-11-09T01:28:19,608 because it may contain data files, but this behavior is likely to change 2022-11-09T01:28:19,609 in future versions of setuptools (and therefore is considered deprecated). 2022-11-09T01:28:19,609 Please make sure that 'lama.stats.rscripts' is included as a package by using 2022-11-09T01:28:19,610 the `packages` configuration field or the proper discovery methods 2022-11-09T01:28:19,610 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2022-11-09T01:28:19,610 instead of `find_packages(...)`/`find:`). 2022-11-09T01:28:19,611 You can read more about "package discovery" and "data files" on setuptools 2022-11-09T01:28:19,611 documentation page. 2022-11-09T01:28:19,612 !! 2022-11-09T01:28:19,612 check.warn(importable) 2022-11-09T01:28:19,613 /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'lama.stats.rscripts.test_data_for_R_LM' as data is deprecated, please list it in `packages`. 2022-11-09T01:28:19,613 !! 2022-11-09T01:28:19,614 ############################ 2022-11-09T01:28:19,614 # Package would be ignored # 2022-11-09T01:28:19,615 ############################ 2022-11-09T01:28:19,615 Python recognizes 'lama.stats.rscripts.test_data_for_R_LM' as an importable package, 2022-11-09T01:28:19,615 but it is not listed in the `packages` configuration of setuptools. 2022-11-09T01:28:19,616 'lama.stats.rscripts.test_data_for_R_LM' has been automatically added to the distribution only 2022-11-09T01:28:19,616 because it may contain data files, but this behavior is likely to change 2022-11-09T01:28:19,616 in future versions of setuptools (and therefore is considered deprecated). 2022-11-09T01:28:19,617 Please make sure that 'lama.stats.rscripts.test_data_for_R_LM' is included as a package by using 2022-11-09T01:28:19,617 the `packages` configuration field or the proper discovery methods 2022-11-09T01:28:19,618 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2022-11-09T01:28:19,618 instead of `find_packages(...)`/`find:`). 2022-11-09T01:28:19,619 You can read more about "package discovery" and "data files" on setuptools 2022-11-09T01:28:19,619 documentation page. 2022-11-09T01:28:19,620 !! 2022-11-09T01:28:19,620 check.warn(importable) 2022-11-09T01:28:19,621 /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'lama.tests.configs.lama_radiomics' as data is deprecated, please list it in `packages`. 2022-11-09T01:28:19,621 !! 2022-11-09T01:28:19,622 ############################ 2022-11-09T01:28:19,623 # Package would be ignored # 2022-11-09T01:28:19,623 ############################ 2022-11-09T01:28:19,624 Python recognizes 'lama.tests.configs.lama_radiomics' as an importable package, 2022-11-09T01:28:19,624 but it is not listed in the `packages` configuration of setuptools. 2022-11-09T01:28:19,625 'lama.tests.configs.lama_radiomics' has been automatically added to the distribution only 2022-11-09T01:28:19,626 because it may contain data files, but this behavior is likely to change 2022-11-09T01:28:19,626 in future versions of setuptools (and therefore is considered deprecated). 2022-11-09T01:28:19,626 Please make sure that 'lama.tests.configs.lama_radiomics' is included as a package by using 2022-11-09T01:28:19,627 the `packages` configuration field or the proper discovery methods 2022-11-09T01:28:19,627 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2022-11-09T01:28:19,627 instead of `find_packages(...)`/`find:`). 2022-11-09T01:28:19,629 You can read more about "package discovery" and "data files" on setuptools 2022-11-09T01:28:19,629 documentation page. 2022-11-09T01:28:19,630 !! 2022-11-09T01:28:19,631 check.warn(importable) 2022-11-09T01:28:19,631 /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'lama.tests.configs.permutation_stats' as data is deprecated, please list it in `packages`. 2022-11-09T01:28:19,631 !! 2022-11-09T01:28:19,633 ############################ 2022-11-09T01:28:19,633 # Package would be ignored # 2022-11-09T01:28:19,633 ############################ 2022-11-09T01:28:19,634 Python recognizes 'lama.tests.configs.permutation_stats' as an importable package, 2022-11-09T01:28:19,634 but it is not listed in the `packages` configuration of setuptools. 2022-11-09T01:28:19,635 'lama.tests.configs.permutation_stats' has been automatically added to the distribution only 2022-11-09T01:28:19,635 because it may contain data files, but this behavior is likely to change 2022-11-09T01:28:19,635 in future versions of setuptools (and therefore is considered deprecated). 2022-11-09T01:28:19,636 Please make sure that 'lama.tests.configs.permutation_stats' is included as a package by using 2022-11-09T01:28:19,636 the `packages` configuration field or the proper discovery methods 2022-11-09T01:28:19,637 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2022-11-09T01:28:19,637 instead of `find_packages(...)`/`find:`). 2022-11-09T01:28:19,638 You can read more about "package discovery" and "data files" on setuptools 2022-11-09T01:28:19,638 documentation page. 2022-11-09T01:28:19,639 !! 2022-11-09T01:28:19,640 check.warn(importable) 2022-11-09T01:28:19,640 /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'lama.tests.configs.permutation_stats.tempnotdo' as data is deprecated, please list it in `packages`. 2022-11-09T01:28:19,641 !! 2022-11-09T01:28:19,642 ############################ 2022-11-09T01:28:19,642 # Package would be ignored # 2022-11-09T01:28:19,643 ############################ 2022-11-09T01:28:19,643 Python recognizes 'lama.tests.configs.permutation_stats.tempnotdo' as an importable package, 2022-11-09T01:28:19,644 but it is not listed in the `packages` configuration of setuptools. 2022-11-09T01:28:19,644 'lama.tests.configs.permutation_stats.tempnotdo' has been automatically added to the distribution only 2022-11-09T01:28:19,645 because it may contain data files, but this behavior is likely to change 2022-11-09T01:28:19,645 in future versions of setuptools (and therefore is considered deprecated). 2022-11-09T01:28:19,646 Please make sure that 'lama.tests.configs.permutation_stats.tempnotdo' is included as a package by using 2022-11-09T01:28:19,646 the `packages` configuration field or the proper discovery methods 2022-11-09T01:28:19,646 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2022-11-09T01:28:19,647 instead of `find_packages(...)`/`find:`). 2022-11-09T01:28:19,648 You can read more about "package discovery" and "data files" on setuptools 2022-11-09T01:28:19,648 documentation page. 2022-11-09T01:28:19,649 !! 2022-11-09T01:28:19,649 check.warn(importable) 2022-11-09T01:28:19,650 /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'lama.tests.configs.standard_stats' as data is deprecated, please list it in `packages`. 2022-11-09T01:28:19,650 !! 2022-11-09T01:28:19,651 ############################ 2022-11-09T01:28:19,652 # Package would be ignored # 2022-11-09T01:28:19,652 ############################ 2022-11-09T01:28:19,652 Python recognizes 'lama.tests.configs.standard_stats' as an importable package, 2022-11-09T01:28:19,653 but it is not listed in the `packages` configuration of setuptools. 2022-11-09T01:28:19,654 'lama.tests.configs.standard_stats' has been automatically added to the distribution only 2022-11-09T01:28:19,654 because it may contain data files, but this behavior is likely to change 2022-11-09T01:28:19,655 in future versions of setuptools (and therefore is considered deprecated). 2022-11-09T01:28:19,656 Please make sure that 'lama.tests.configs.standard_stats' is included as a package by using 2022-11-09T01:28:19,656 the `packages` configuration field or the proper discovery methods 2022-11-09T01:28:19,656 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2022-11-09T01:28:19,657 instead of `find_packages(...)`/`find:`). 2022-11-09T01:28:19,657 You can read more about "package discovery" and "data files" on setuptools 2022-11-09T01:28:19,658 documentation page. 2022-11-09T01:28:19,659 !! 2022-11-09T01:28:19,659 check.warn(importable) 2022-11-09T01:28:19,660 /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'lama.tests.working_on' as data is deprecated, please list it in `packages`. 2022-11-09T01:28:19,660 !! 2022-11-09T01:28:19,662 ############################ 2022-11-09T01:28:19,662 # Package would be ignored # 2022-11-09T01:28:19,662 ############################ 2022-11-09T01:28:19,663 Python recognizes 'lama.tests.working_on' as an importable package, 2022-11-09T01:28:19,663 but it is not listed in the `packages` configuration of setuptools. 2022-11-09T01:28:19,664 'lama.tests.working_on' has been automatically added to the distribution only 2022-11-09T01:28:19,664 because it may contain data files, but this behavior is likely to change 2022-11-09T01:28:19,665 in future versions of setuptools (and therefore is considered deprecated). 2022-11-09T01:28:19,666 Please make sure that 'lama.tests.working_on' is included as a package by using 2022-11-09T01:28:19,666 the `packages` configuration field or the proper discovery methods 2022-11-09T01:28:19,666 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2022-11-09T01:28:19,667 instead of `find_packages(...)`/`find:`). 2022-11-09T01:28:19,667 You can read more about "package discovery" and "data files" on setuptools 2022-11-09T01:28:19,668 documentation page. 2022-11-09T01:28:19,669 !! 2022-11-09T01:28:19,670 check.warn(importable) 2022-11-09T01:28:19,670 creating build/lib/lama/example_configs 2022-11-09T01:28:19,671 copying lama/example_configs/ark_pop_avg.toml -> build/lib/lama/example_configs 2022-11-09T01:28:19,671 copying lama/example_configs/arkell_generate_data.toml -> build/lib/lama/example_configs 2022-11-09T01:28:19,671 copying lama/example_configs/arkell_stats.toml -> build/lib/lama/example_configs 2022-11-09T01:28:19,672 copying lama/example_configs/generate_data.toml -> build/lib/lama/example_configs 2022-11-09T01:28:19,672 copying lama/example_configs/pop_avg.toml -> build/lib/lama/example_configs 2022-11-09T01:28:19,672 creating build/lib/lama/snake_contour_tool 2022-11-09T01:28:19,673 copying lama/snake_contour_tool/fixer_config.toml -> build/lib/lama/snake_contour_tool 2022-11-09T01:28:19,673 copying lama/snake_contour_tool/geodesic_active_segmentation.py -> build/lib/lama/snake_contour_tool 2022-11-09T01:28:19,674 copying lama/snake_contour_tool/label_fixer.py -> build/lib/lama/snake_contour_tool 2022-11-09T01:28:19,674 creating build/lib/lama/stats/rscripts 2022-11-09T01:28:19,675 copying lama/stats/rscripts/lmFast.R -> build/lib/lama/stats/rscripts 2022-11-09T01:28:19,675 copying lama/stats/rscripts/r_padjust.R -> build/lib/lama/stats/rscripts 2022-11-09T01:28:19,676 copying lama/lib/addict.py.bak -> build/lib/lama/lib 2022-11-09T01:28:19,677 copying lama/lib/transformations.py.bak -> build/lib/lama/lib 2022-11-09T01:28:19,681 copying lama/segmentation_plugins/readme.md -> build/lib/lama/segmentation_plugins 2022-11-09T01:28:19,684 copying lama/img_processing/dicom_to_nrrd.sh -> build/lib/lama/img_processing 2022-11-09T01:28:19,688 copying lama/tests/README.md -> build/lib/lama/tests 2022-11-09T01:28:19,693 copying lama/tests/pytest.ini -> build/lib/lama/tests 2022-11-09T01:28:19,697 copying lama/tests/run_tests.sh -> build/lib/lama/tests 2022-11-09T01:28:19,701 creating build/lib/lama/tests/configs 2022-11-09T01:28:19,701 creating build/lib/lama/tests/configs/lama_radiomics 2022-11-09T01:28:19,703 copying lama/tests/configs/lama_radiomics/radiomics_config.toml -> build/lib/lama/tests/configs/lama_radiomics 2022-11-09T01:28:19,707 creating build/lib/lama/tests/configs/permutation_stats 2022-11-09T01:28:19,708 copying lama/tests/configs/permutation_stats/__init__.py -> build/lib/lama/tests/configs/permutation_stats 2022-11-09T01:28:19,712 copying lama/tests/configs/permutation_stats/perm_no_qc.yaml -> build/lib/lama/tests/configs/permutation_stats 2022-11-09T01:28:19,716 copying lama/tests/configs/permutation_stats/perm_qc.yaml -> build/lib/lama/tests/configs/permutation_stats 2022-11-09T01:28:19,720 copying lama/tests/configs/permutation_stats/temp.yaml -> build/lib/lama/tests/configs/permutation_stats 2022-11-09T01:28:19,723 creating build/lib/lama/tests/configs/permutation_stats/tempnotdo 2022-11-09T01:28:19,725 copying lama/tests/configs/permutation_stats/tempnotdo/perm.yaml -> build/lib/lama/tests/configs/permutation_stats/tempnotdo 2022-11-09T01:28:19,729 creating build/lib/lama/tests/configs/standard_stats 2022-11-09T01:28:19,730 copying lama/tests/configs/standard_stats/generate_data.toml -> build/lib/lama/tests/configs/standard_stats 2022-11-09T01:28:19,735 copying lama/tests/configs/standard_stats/stats.toml -> build/lib/lama/tests/configs/standard_stats 2022-11-09T01:28:19,739 creating build/lib/lama/tests/working_on 2022-11-09T01:28:19,740 copying lama/tests/working_on/test_config_errors.py -> build/lib/lama/tests/working_on 2022-11-09T01:28:19,744 copying lama/tests/working_on/test_distributions.py -> build/lib/lama/tests/working_on 2022-11-09T01:28:19,748 copying lama/tests/working_on/test_label_propagation.py -> build/lib/lama/tests/working_on 2022-11-09T01:28:19,752 copying lama/tests/working_on/test_lm_r.py -> build/lib/lama/tests/working_on 2022-11-09T01:28:19,755 copying lama/tests/working_on/test_population_average.py -> build/lib/lama/tests/working_on 2022-11-09T01:28:19,759 copying lama/tests/working_on/test_qc_images.py -> build/lib/lama/tests/working_on 2022-11-09T01:28:19,763 copying lama/tests/working_on/test_radiomics_scripts.py -> build/lib/lama/tests/working_on 2022-11-09T01:28:19,769 copying lama/tests/working_on/test_two_way_perm.py -> build/lib/lama/tests/working_on 2022-11-09T01:28:19,774 copying lama/tests/working_on/test_two_way_stats.py -> build/lib/lama/tests/working_on 2022-11-09T01:28:19,780 copying lama/stats/rscripts/r_qvalues.R -> build/lib/lama/stats/rscripts 2022-11-09T01:28:19,784 copying lama/stats/rscripts/two_way_plot.R -> build/lib/lama/stats/rscripts 2022-11-09T01:28:19,789 creating build/lib/lama/stats/rscripts/test_data_for_R_LM 2022-11-09T01:28:19,790 copying lama/stats/rscripts/test_data_for_R_LM/groups.csv -> build/lib/lama/stats/rscripts/test_data_for_R_LM 2022-11-09T01:28:19,795 copying lama/stats/rscripts/test_data_for_R_LM/testpixelfile -> build/lib/lama/stats/rscripts/test_data_for_R_LM 2022-11-09T01:28:19,897 /usr/local/lib/python3.7/dist-packages/setuptools/command/install.py:37: SetuptoolsDeprecationWarning: setup.py install is deprecated. Use build and pip and other standards-based tools. 2022-11-09T01:28:19,898 setuptools.SetuptoolsDeprecationWarning, 2022-11-09T01:28:19,961 installing to build/bdist.linux-armv7l/wheel 2022-11-09T01:28:19,962 running install 2022-11-09T01:28:20,024 running install_lib 2022-11-09T01:28:20,090 creating build/bdist.linux-armv7l 2022-11-09T01:28:20,090 creating build/bdist.linux-armv7l/wheel 2022-11-09T01:28:20,094 creating build/bdist.linux-armv7l/wheel/lama 2022-11-09T01:28:20,096 creating build/bdist.linux-armv7l/wheel/lama/lib 2022-11-09T01:28:20,098 copying build/lib/lama/lib/addict.py.bak -> build/bdist.linux-armv7l/wheel/lama/lib 2022-11-09T01:28:20,102 copying build/lib/lama/lib/__init__.py -> build/bdist.linux-armv7l/wheel/lama/lib 2022-11-09T01:28:20,105 copying build/lib/lama/lib/addict.py -> build/bdist.linux-armv7l/wheel/lama/lib 2022-11-09T01:28:20,109 copying build/lib/lama/lib/transformations.py -> build/bdist.linux-armv7l/wheel/lama/lib 2022-11-09T01:28:20,116 copying build/lib/lama/lib/transformations.py.bak -> build/bdist.linux-armv7l/wheel/lama/lib 2022-11-09T01:28:20,124 copying build/lib/lama/__init__.py -> build/bdist.linux-armv7l/wheel/lama 2022-11-09T01:28:20,129 creating build/bdist.linux-armv7l/wheel/lama/segmentation_plugins 2022-11-09T01:28:20,131 copying build/lib/lama/segmentation_plugins/secondary_seg_lateral_ventricle.py -> build/bdist.linux-armv7l/wheel/lama/segmentation_plugins 2022-11-09T01:28:20,136 copying build/lib/lama/segmentation_plugins/__init__.py -> build/bdist.linux-armv7l/wheel/lama/segmentation_plugins 2022-11-09T01:28:20,139 copying build/lib/lama/segmentation_plugins/readme.md -> build/bdist.linux-armv7l/wheel/lama/segmentation_plugins 2022-11-09T01:28:20,143 copying build/lib/lama/segmentation_plugins/secondary_seg_lateral_ventricle_e145.py -> build/bdist.linux-armv7l/wheel/lama/segmentation_plugins 2022-11-09T01:28:20,147 copying build/lib/lama/segmentation_plugins/plugin_interface.py -> build/bdist.linux-armv7l/wheel/lama/segmentation_plugins 2022-11-09T01:28:20,151 copying build/lib/lama/paths.py -> build/bdist.linux-armv7l/wheel/lama 2022-11-09T01:28:20,156 creating build/bdist.linux-armv7l/wheel/lama/qc 2022-11-09T01:28:20,158 copying build/lib/lama/qc/folding.py -> build/bdist.linux-armv7l/wheel/lama/qc 2022-11-09T01:28:20,161 copying build/lib/lama/qc/img_grid.py -> build/bdist.linux-armv7l/wheel/lama/qc 2022-11-09T01:28:20,164 copying build/lib/lama/qc/__init__.py -> build/bdist.linux-armv7l/wheel/lama/qc 2022-11-09T01:28:20,167 copying build/lib/lama/qc/metric_charts.py -> build/bdist.linux-armv7l/wheel/lama/qc 2022-11-09T01:28:20,170 copying build/lib/lama/qc/formatting.py -> build/bdist.linux-armv7l/wheel/lama/qc 2022-11-09T01:28:20,173 copying build/lib/lama/qc/organ_vol_plots.py -> build/bdist.linux-armv7l/wheel/lama/qc 2022-11-09T01:28:20,177 copying build/lib/lama/qc/roi_overlay.py -> build/bdist.linux-armv7l/wheel/lama/qc 2022-11-09T01:28:20,181 copying build/lib/lama/qc/common.py -> build/bdist.linux-armv7l/wheel/lama/qc 2022-11-09T01:28:20,184 copying build/lib/lama/qc/interative_qc.py -> build/bdist.linux-armv7l/wheel/lama/qc 2022-11-09T01:28:20,188 copying build/lib/lama/qc/qc_images.py -> build/bdist.linux-armv7l/wheel/lama/qc 2022-11-09T01:28:20,192 copying build/lib/lama/qc/collate_qc.py -> build/bdist.linux-armv7l/wheel/lama/qc 2022-11-09T01:28:20,197 creating build/bdist.linux-armv7l/wheel/lama/img_processing 2022-11-09T01:28:20,198 copying build/lib/lama/img_processing/misc.py -> build/bdist.linux-armv7l/wheel/lama/img_processing 2022-11-09T01:28:20,202 copying build/lib/lama/img_processing/__init__.py -> build/bdist.linux-armv7l/wheel/lama/img_processing 2022-11-09T01:28:20,204 copying build/lib/lama/img_processing/normalise_background.py -> build/bdist.linux-armv7l/wheel/lama/img_processing 2022-11-09T01:28:20,207 copying build/lib/lama/img_processing/dicom_to_nrrd.sh -> build/bdist.linux-armv7l/wheel/lama/img_processing 2022-11-09T01:28:20,210 copying build/lib/lama/img_processing/glcm3d.py -> build/bdist.linux-armv7l/wheel/lama/img_processing 2022-11-09T01:28:20,214 copying build/lib/lama/img_processing/organ_vol_calculation.py -> build/bdist.linux-armv7l/wheel/lama/img_processing 2022-11-09T01:28:20,217 copying build/lib/lama/img_processing/read_minc.py -> build/bdist.linux-armv7l/wheel/lama/img_processing 2022-11-09T01:28:20,221 copying build/lib/lama/img_processing/normalise.py -> build/bdist.linux-armv7l/wheel/lama/img_processing 2022-11-09T01:28:20,226 creating build/bdist.linux-armv7l/wheel/lama/scripts 2022-11-09T01:28:20,227 copying build/lib/lama/scripts/lama_ark_img_pro.py -> build/bdist.linux-armv7l/wheel/lama/scripts 2022-11-09T01:28:20,231 copying build/lib/lama/scripts/lama_job_runner.py -> build/bdist.linux-armv7l/wheel/lama/scripts 2022-11-09T01:28:20,235 copying build/lib/lama/scripts/two_way_plotter.py -> build/bdist.linux-armv7l/wheel/lama/scripts 2022-11-09T01:28:20,238 copying build/lib/lama/scripts/lama_reg.py -> build/bdist.linux-armv7l/wheel/lama/scripts 2022-11-09T01:28:20,241 copying build/lib/lama/scripts/__init__.py -> build/bdist.linux-armv7l/wheel/lama/scripts 2022-11-09T01:28:20,244 copying build/lib/lama/scripts/lama_stats.py -> build/bdist.linux-armv7l/wheel/lama/scripts 2022-11-09T01:28:20,247 copying build/lib/lama/scripts/lama_get_test_data.py -> build/bdist.linux-armv7l/wheel/lama/scripts 2022-11-09T01:28:20,250 copying build/lib/lama/scripts/lama_permutation_stats.py -> build/bdist.linux-armv7l/wheel/lama/scripts 2022-11-09T01:28:20,253 copying build/lib/lama/scripts/lama_radiomics_runner.py -> build/bdist.linux-armv7l/wheel/lama/scripts 2022-11-09T01:28:20,256 copying build/lib/lama/scripts/intensity_normalisation.py -> build/bdist.linux-armv7l/wheel/lama/scripts 2022-11-09T01:28:20,259 copying build/lib/lama/scripts/lama_get_walkthrough_data.py -> build/bdist.linux-armv7l/wheel/lama/scripts 2022-11-09T01:28:20,263 creating build/bdist.linux-armv7l/wheel/lama/example_configs 2022-11-09T01:28:20,265 copying build/lib/lama/example_configs/arkell_stats.toml -> build/bdist.linux-armv7l/wheel/lama/example_configs 2022-11-09T01:28:20,268 copying build/lib/lama/example_configs/ark_pop_avg.toml -> build/bdist.linux-armv7l/wheel/lama/example_configs 2022-11-09T01:28:20,272 copying build/lib/lama/example_configs/generate_data.toml -> build/bdist.linux-armv7l/wheel/lama/example_configs 2022-11-09T01:28:20,275 copying build/lib/lama/example_configs/pop_avg.toml -> build/bdist.linux-armv7l/wheel/lama/example_configs 2022-11-09T01:28:20,279 copying build/lib/lama/example_configs/arkell_generate_data.toml -> build/bdist.linux-armv7l/wheel/lama/example_configs 2022-11-09T01:28:20,282 copying build/lib/lama/common.py -> build/bdist.linux-armv7l/wheel/lama 2022-11-09T01:28:20,289 creating build/bdist.linux-armv7l/wheel/lama/registration_pipeline 2022-11-09T01:28:20,290 copying build/lib/lama/registration_pipeline/__init__.py -> build/bdist.linux-armv7l/wheel/lama/registration_pipeline 2022-11-09T01:28:20,293 copying build/lib/lama/registration_pipeline/parallel_average_pairwise.py -> build/bdist.linux-armv7l/wheel/lama/registration_pipeline 2022-11-09T01:28:20,298 creating build/bdist.linux-armv7l/wheel/lama/registration_pipeline/optimise 2022-11-09T01:28:20,300 copying build/lib/lama/registration_pipeline/optimise/__init__.py -> build/bdist.linux-armv7l/wheel/lama/registration_pipeline/optimise 2022-11-09T01:28:20,303 copying build/lib/lama/registration_pipeline/optimise/test_regop.py -> build/bdist.linux-armv7l/wheel/lama/registration_pipeline/optimise 2022-11-09T01:28:20,307 copying build/lib/lama/registration_pipeline/optimise/points.py -> build/bdist.linux-armv7l/wheel/lama/registration_pipeline/optimise 2022-11-09T01:28:20,310 copying build/lib/lama/registration_pipeline/optimise/run_lama_configs_grid.py -> build/bdist.linux-armv7l/wheel/lama/registration_pipeline/optimise 2022-11-09T01:28:20,315 copying build/lib/lama/registration_pipeline/optimise/regop_points.py -> build/bdist.linux-armv7l/wheel/lama/registration_pipeline/optimise 2022-11-09T01:28:20,319 copying build/lib/lama/registration_pipeline/validate_config.py -> build/bdist.linux-armv7l/wheel/lama/registration_pipeline 2022-11-09T01:28:20,325 copying build/lib/lama/registration_pipeline/parallel_average.py -> build/bdist.linux-armv7l/wheel/lama/registration_pipeline 2022-11-09T01:28:20,330 copying build/lib/lama/registration_pipeline/run_lama.py -> build/bdist.linux-armv7l/wheel/lama/registration_pipeline 2022-11-09T01:28:20,337 creating build/bdist.linux-armv7l/wheel/lama/staging 2022-11-09T01:28:20,339 copying build/lib/lama/staging/affine_similarity_scaling_factors.py -> build/bdist.linux-armv7l/wheel/lama/staging 2022-11-09T01:28:20,344 copying build/lib/lama/staging/__init__.py -> build/bdist.linux-armv7l/wheel/lama/staging 2022-11-09T01:28:20,347 copying build/lib/lama/staging/staging_metric_maker.py -> build/bdist.linux-armv7l/wheel/lama/staging 2022-11-09T01:28:20,351 copying build/lib/lama/staging/baseline_selection.py -> build/bdist.linux-armv7l/wheel/lama/staging 2022-11-09T01:28:20,356 copying build/lib/lama/staging/skeleton_length.py -> build/bdist.linux-armv7l/wheel/lama/staging 2022-11-09T01:28:20,361 creating build/bdist.linux-armv7l/wheel/lama/tests 2022-11-09T01:28:20,365 creating build/bdist.linux-armv7l/wheel/lama/tests/configs 2022-11-09T01:28:20,368 creating build/bdist.linux-armv7l/wheel/lama/tests/configs/standard_stats 2022-11-09T01:28:20,370 copying build/lib/lama/tests/configs/standard_stats/stats.toml -> build/bdist.linux-armv7l/wheel/lama/tests/configs/standard_stats 2022-11-09T01:28:20,375 copying build/lib/lama/tests/configs/standard_stats/generate_data.toml -> build/bdist.linux-armv7l/wheel/lama/tests/configs/standard_stats 2022-11-09T01:28:20,380 creating build/bdist.linux-armv7l/wheel/lama/tests/configs/permutation_stats 2022-11-09T01:28:20,382 copying build/lib/lama/tests/configs/permutation_stats/__init__.py -> build/bdist.linux-armv7l/wheel/lama/tests/configs/permutation_stats 2022-11-09T01:28:20,386 creating build/bdist.linux-armv7l/wheel/lama/tests/configs/permutation_stats/tempnotdo 2022-11-09T01:28:20,387 copying build/lib/lama/tests/configs/permutation_stats/tempnotdo/perm.yaml -> build/bdist.linux-armv7l/wheel/lama/tests/configs/permutation_stats/tempnotdo 2022-11-09T01:28:20,391 copying build/lib/lama/tests/configs/permutation_stats/temp.yaml -> build/bdist.linux-armv7l/wheel/lama/tests/configs/permutation_stats 2022-11-09T01:28:20,394 copying build/lib/lama/tests/configs/permutation_stats/perm_qc.yaml -> build/bdist.linux-armv7l/wheel/lama/tests/configs/permutation_stats 2022-11-09T01:28:20,397 copying build/lib/lama/tests/configs/permutation_stats/perm_no_qc.yaml -> build/bdist.linux-armv7l/wheel/lama/tests/configs/permutation_stats 2022-11-09T01:28:20,401 creating build/bdist.linux-armv7l/wheel/lama/tests/configs/lama_radiomics 2022-11-09T01:28:20,403 copying build/lib/lama/tests/configs/lama_radiomics/radiomics_config.toml -> build/bdist.linux-armv7l/wheel/lama/tests/configs/lama_radiomics 2022-11-09T01:28:20,406 copying build/lib/lama/tests/__init__.py -> build/bdist.linux-armv7l/wheel/lama/tests 2022-11-09T01:28:20,410 copying build/lib/lama/tests/debug.py -> build/bdist.linux-armv7l/wheel/lama/tests 2022-11-09T01:28:20,414 creating build/bdist.linux-armv7l/wheel/lama/tests/archive 2022-11-09T01:28:20,415 copying build/lib/lama/tests/archive/__init__.py -> build/bdist.linux-armv7l/wheel/lama/tests/archive 2022-11-09T01:28:20,418 copying build/lib/lama/tests/archive/test_lama_stats.py -> build/bdist.linux-armv7l/wheel/lama/tests/archive 2022-11-09T01:28:20,422 copying build/lib/lama/tests/archive/test_run_permutation_stats.py -> build/bdist.linux-armv7l/wheel/lama/tests/archive 2022-11-09T01:28:20,426 copying build/lib/lama/tests/README.md -> build/bdist.linux-armv7l/wheel/lama/tests 2022-11-09T01:28:20,429 copying build/lib/lama/tests/run_tests.sh -> build/bdist.linux-armv7l/wheel/lama/tests 2022-11-09T01:28:20,432 copying build/lib/lama/tests/test_distributions.py -> build/bdist.linux-armv7l/wheel/lama/tests 2022-11-09T01:28:20,435 copying build/lib/lama/tests/test_standard_stats.py -> build/bdist.linux-armv7l/wheel/lama/tests 2022-11-09T01:28:20,439 copying build/lib/lama/tests/test_permutation_stats.py -> build/bdist.linux-armv7l/wheel/lama/tests 2022-11-09T01:28:20,443 copying build/lib/lama/tests/test_data_generation.py -> build/bdist.linux-armv7l/wheel/lama/tests 2022-11-09T01:28:20,448 creating build/bdist.linux-armv7l/wheel/lama/tests/working_on 2022-11-09T01:28:20,450 copying build/lib/lama/tests/working_on/test_qc_images.py -> build/bdist.linux-armv7l/wheel/lama/tests/working_on 2022-11-09T01:28:20,454 copying build/lib/lama/tests/working_on/test_lm_r.py -> build/bdist.linux-armv7l/wheel/lama/tests/working_on 2022-11-09T01:28:20,457 copying build/lib/lama/tests/working_on/test_distributions.py -> build/bdist.linux-armv7l/wheel/lama/tests/working_on 2022-11-09T01:28:20,460 copying build/lib/lama/tests/working_on/test_two_way_perm.py -> build/bdist.linux-armv7l/wheel/lama/tests/working_on 2022-11-09T01:28:20,465 copying build/lib/lama/tests/working_on/test_label_propagation.py -> build/bdist.linux-armv7l/wheel/lama/tests/working_on 2022-11-09T01:28:20,468 copying build/lib/lama/tests/working_on/test_radiomics_scripts.py -> build/bdist.linux-armv7l/wheel/lama/tests/working_on 2022-11-09T01:28:20,474 copying build/lib/lama/tests/working_on/test_population_average.py -> build/bdist.linux-armv7l/wheel/lama/tests/working_on 2022-11-09T01:28:20,477 copying build/lib/lama/tests/working_on/test_two_way_stats.py -> build/bdist.linux-armv7l/wheel/lama/tests/working_on 2022-11-09T01:28:20,481 copying build/lib/lama/tests/working_on/test_config_errors.py -> build/bdist.linux-armv7l/wheel/lama/tests/working_on 2022-11-09T01:28:20,485 copying build/lib/lama/tests/pytest.ini -> build/bdist.linux-armv7l/wheel/lama/tests 2022-11-09T01:28:20,489 copying build/lib/lama/monitor_memory.py -> build/bdist.linux-armv7l/wheel/lama 2022-11-09T01:28:20,494 creating build/bdist.linux-armv7l/wheel/lama/utilities 2022-11-09T01:28:20,497 copying build/lib/lama/utilities/__init__.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-11-09T01:28:20,501 copying build/lib/lama/utilities/flipper.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-11-09T01:28:20,504 copying build/lib/lama/utilities/atlas_tools.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-11-09T01:28:20,509 copying build/lib/lama/utilities/make_roi.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-11-09T01:28:20,513 copying build/lib/lama/utilities/body_radiomics_normaliser.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-11-09T01:28:20,518 copying build/lib/lama/utilities/lama_pad_volumes.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-11-09T01:28:20,522 copying build/lib/lama/utilities/vpv_line_loader.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-11-09T01:28:20,526 copying build/lib/lama/utilities/extract_registrations.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-11-09T01:28:20,530 copying build/lib/lama/utilities/remove_output_dirs.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-11-09T01:28:20,534 copying build/lib/lama/utilities/invert_emap_ref.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-11-09T01:28:20,538 copying build/lib/lama/utilities/quick_rotate.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-11-09T01:28:20,541 copying build/lib/lama/utilities/lama_img_info.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-11-09T01:28:20,545 copying build/lib/lama/utilities/man_clip_removal.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-11-09T01:28:20,549 copying build/lib/lama/utilities/make_otsu.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-11-09T01:28:20,553 copying build/lib/lama/utilities/combine_spec_csv.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-11-09T01:28:20,557 copying build/lib/lama/utilities/lama_histogram_batch.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-11-09T01:28:20,562 copying build/lib/lama/utilities/cropper.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-11-09T01:28:20,566 copying build/lib/lama/utilities/extract_label.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-11-09T01:28:20,569 copying build/lib/lama/utilities/quick_normalise.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-11-09T01:28:20,573 copying build/lib/lama/utilities/prep_for_man_valid.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-11-09T01:28:20,577 copying build/lib/lama/utilities/quick_n4_norm.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-11-09T01:28:20,581 copying build/lib/lama/utilities/randomise_for_blinding.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-11-09T01:28:20,585 copying build/lib/lama/utilities/zoomer.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-11-09T01:28:20,589 copying build/lib/lama/utilities/lama_convert_16_to_8.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-11-09T01:28:20,592 copying build/lib/lama/utilities/radiomics_normaliser.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-11-09T01:28:20,597 copying build/lib/lama/utilities/label_intensity_info.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-11-09T01:28:20,600 copying build/lib/lama/utilities/plot_radiomic_features.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-11-09T01:28:20,604 copying build/lib/lama/utilities/config_checksum.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-11-09T01:28:20,607 copying build/lib/lama/utilities/nrrd_to_h5.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-11-09T01:28:20,611 copying build/lib/lama/utilities/data_clean_up.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-11-09T01:28:20,615 creating build/bdist.linux-armv7l/wheel/lama/stats 2022-11-09T01:28:20,617 copying build/lib/lama/stats/__init__.py -> build/bdist.linux-armv7l/wheel/lama/stats 2022-11-09T01:28:20,620 copying build/lib/lama/stats/penetrence_expressivity_plots.py -> build/bdist.linux-armv7l/wheel/lama/stats 2022-11-09T01:28:20,625 creating build/bdist.linux-armv7l/wheel/lama/stats/standard_stats 2022-11-09T01:28:20,627 copying build/lib/lama/stats/standard_stats/__init__.py -> build/bdist.linux-armv7l/wheel/lama/stats/standard_stats 2022-11-09T01:28:20,631 copying build/lib/lama/stats/standard_stats/read_config.py -> build/bdist.linux-armv7l/wheel/lama/stats/standard_stats 2022-11-09T01:28:20,635 copying build/lib/lama/stats/standard_stats/lama_stats_new.py -> build/bdist.linux-armv7l/wheel/lama/stats/standard_stats 2022-11-09T01:28:20,639 copying build/lib/lama/stats/standard_stats/data_loaders.py -> build/bdist.linux-armv7l/wheel/lama/stats/standard_stats 2022-11-09T01:28:20,646 copying build/lib/lama/stats/standard_stats/results_writer.py -> build/bdist.linux-armv7l/wheel/lama/stats/standard_stats 2022-11-09T01:28:20,651 copying build/lib/lama/stats/standard_stats/stats_objects.py -> build/bdist.linux-armv7l/wheel/lama/stats/standard_stats 2022-11-09T01:28:20,656 copying build/lib/lama/stats/automated_annotation.py -> build/bdist.linux-armv7l/wheel/lama/stats 2022-11-09T01:28:20,660 copying build/lib/lama/stats/linear_model.py -> build/bdist.linux-armv7l/wheel/lama/stats 2022-11-09T01:28:20,666 creating build/bdist.linux-armv7l/wheel/lama/stats/rscripts 2022-11-09T01:28:20,668 copying build/lib/lama/stats/rscripts/r_qvalues.R -> build/bdist.linux-armv7l/wheel/lama/stats/rscripts 2022-11-09T01:28:20,672 copying build/lib/lama/stats/rscripts/two_way_plot.R -> build/bdist.linux-armv7l/wheel/lama/stats/rscripts 2022-11-09T01:28:20,677 copying build/lib/lama/stats/rscripts/lmFast.R -> build/bdist.linux-armv7l/wheel/lama/stats/rscripts 2022-11-09T01:28:20,681 copying build/lib/lama/stats/rscripts/r_padjust.R -> build/bdist.linux-armv7l/wheel/lama/stats/rscripts 2022-11-09T01:28:20,686 creating build/bdist.linux-armv7l/wheel/lama/stats/rscripts/test_data_for_R_LM 2022-11-09T01:28:20,688 copying build/lib/lama/stats/rscripts/test_data_for_R_LM/groups.csv -> build/bdist.linux-armv7l/wheel/lama/stats/rscripts/test_data_for_R_LM 2022-11-09T01:28:20,693 copying build/lib/lama/stats/rscripts/test_data_for_R_LM/testpixelfile -> build/bdist.linux-armv7l/wheel/lama/stats/rscripts/test_data_for_R_LM 2022-11-09T01:28:20,698 creating build/bdist.linux-armv7l/wheel/lama/stats/permutation_stats 2022-11-09T01:28:20,700 copying build/lib/lama/stats/permutation_stats/__init__.py -> build/bdist.linux-armv7l/wheel/lama/stats/permutation_stats 2022-11-09T01:28:20,704 copying build/lib/lama/stats/permutation_stats/p_thresholds.py -> build/bdist.linux-armv7l/wheel/lama/stats/permutation_stats 2022-11-09T01:28:20,709 copying build/lib/lama/stats/permutation_stats/bin_heatmap.py -> build/bdist.linux-armv7l/wheel/lama/stats/permutation_stats 2022-11-09T01:28:20,713 copying build/lib/lama/stats/permutation_stats/distributions.py -> build/bdist.linux-armv7l/wheel/lama/stats/permutation_stats 2022-11-09T01:28:20,719 copying build/lib/lama/stats/permutation_stats/run_permutation_stats.py -> build/bdist.linux-armv7l/wheel/lama/stats/permutation_stats 2022-11-09T01:28:20,725 copying build/lib/lama/stats/permutation_stats/bin_and_norm.py -> build/bdist.linux-armv7l/wheel/lama/stats/permutation_stats 2022-11-09T01:28:20,729 copying build/lib/lama/stats/cluster_plots.py -> build/bdist.linux-armv7l/wheel/lama/stats 2022-11-09T01:28:20,733 copying build/lib/lama/stats/common.py -> build/bdist.linux-armv7l/wheel/lama/stats 2022-11-09T01:28:20,737 copying build/lib/lama/stats/heatmap.py -> build/bdist.linux-armv7l/wheel/lama/stats 2022-11-09T01:28:20,741 copying build/lib/lama/version.py -> build/bdist.linux-armv7l/wheel/lama 2022-11-09T01:28:20,746 creating build/bdist.linux-armv7l/wheel/lama/snake_contour_tool 2022-11-09T01:28:20,748 copying build/lib/lama/snake_contour_tool/label_fixer.py -> build/bdist.linux-armv7l/wheel/lama/snake_contour_tool 2022-11-09T01:28:20,752 copying build/lib/lama/snake_contour_tool/geodesic_active_segmentation.py -> build/bdist.linux-armv7l/wheel/lama/snake_contour_tool 2022-11-09T01:28:20,756 copying build/lib/lama/snake_contour_tool/fixer_config.toml -> build/bdist.linux-armv7l/wheel/lama/snake_contour_tool 2022-11-09T01:28:20,762 creating build/bdist.linux-armv7l/wheel/lama/lama_radiomics 2022-11-09T01:28:20,764 copying build/lib/lama/lama_radiomics/machine_learning.py -> build/bdist.linux-armv7l/wheel/lama/lama_radiomics 2022-11-09T01:28:20,769 copying build/lib/lama/lama_radiomics/__init__.py -> build/bdist.linux-armv7l/wheel/lama/lama_radiomics 2022-11-09T01:28:20,772 copying build/lib/lama/lama_radiomics/radiomics.py -> build/bdist.linux-armv7l/wheel/lama/lama_radiomics 2022-11-09T01:28:20,777 copying build/lib/lama/lama_radiomics/feature_reduction.py -> build/bdist.linux-armv7l/wheel/lama/lama_radiomics 2022-11-09T01:28:20,783 creating build/bdist.linux-armv7l/wheel/lama/elastix 2022-11-09T01:28:20,785 copying build/lib/lama/elastix/folding.py -> build/bdist.linux-armv7l/wheel/lama/elastix 2022-11-09T01:28:20,789 copying build/lib/lama/elastix/elastix_registration.py -> build/bdist.linux-armv7l/wheel/lama/elastix 2022-11-09T01:28:20,793 copying build/lib/lama/elastix/__init__.py -> build/bdist.linux-armv7l/wheel/lama/elastix 2022-11-09T01:28:20,796 copying build/lib/lama/elastix/reverse_registration.py -> build/bdist.linux-armv7l/wheel/lama/elastix 2022-11-09T01:28:20,800 copying build/lib/lama/elastix/deformations.py -> build/bdist.linux-armv7l/wheel/lama/elastix 2022-11-09T01:28:20,805 copying build/lib/lama/elastix/propagate_volumes.py -> build/bdist.linux-armv7l/wheel/lama/elastix 2022-11-09T01:28:20,809 copying build/lib/lama/elastix/invert_transforms.py -> build/bdist.linux-armv7l/wheel/lama/elastix 2022-11-09T01:28:20,813 running install_egg_info 2022-11-09T01:28:20,887 Copying dorkylever_lama_phenotype_detection.egg-info to build/bdist.linux-armv7l/wheel/dorkylever_lama_phenotype_detection-1.0.1-py3.7.egg-info 2022-11-09T01:28:20,909 running install_scripts 2022-11-09T01:28:21,145 adding license file "LICENCE.md" (matched pattern "LICEN[CS]E*") 2022-11-09T01:28:21,154 creating build/bdist.linux-armv7l/wheel/dorkylever_lama_phenotype_detection-1.0.1.dist-info/WHEEL 2022-11-09T01:28:21,160 creating '/tmp/pip-wheel-36f_1e82/dorkylever_lama_phenotype_detection-1.0.1-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2022-11-09T01:28:21,168 adding 'lama/__init__.py' 2022-11-09T01:28:21,178 adding 'lama/common.py' 2022-11-09T01:28:21,181 adding 'lama/monitor_memory.py' 2022-11-09T01:28:21,186 adding 'lama/paths.py' 2022-11-09T01:28:21,189 adding 'lama/version.py' 2022-11-09T01:28:21,193 adding 'lama/elastix/__init__.py' 2022-11-09T01:28:21,198 adding 'lama/elastix/deformations.py' 2022-11-09T01:28:21,203 adding 'lama/elastix/elastix_registration.py' 2022-11-09T01:28:21,207 adding 'lama/elastix/folding.py' 2022-11-09T01:28:21,212 adding 'lama/elastix/invert_transforms.py' 2022-11-09T01:28:21,218 adding 'lama/elastix/propagate_volumes.py' 2022-11-09T01:28:21,222 adding 'lama/elastix/reverse_registration.py' 2022-11-09T01:28:21,227 adding 'lama/example_configs/ark_pop_avg.toml' 2022-11-09T01:28:21,231 adding 'lama/example_configs/arkell_generate_data.toml' 2022-11-09T01:28:21,234 adding 'lama/example_configs/arkell_stats.toml' 2022-11-09T01:28:21,237 adding 'lama/example_configs/generate_data.toml' 2022-11-09T01:28:21,241 adding 'lama/example_configs/pop_avg.toml' 2022-11-09T01:28:21,245 adding 'lama/img_processing/__init__.py' 2022-11-09T01:28:21,248 adding 'lama/img_processing/dicom_to_nrrd.sh' 2022-11-09T01:28:21,251 adding 'lama/img_processing/glcm3d.py' 2022-11-09T01:28:21,254 adding 'lama/img_processing/misc.py' 2022-11-09T01:28:21,259 adding 'lama/img_processing/normalise.py' 2022-11-09T01:28:21,262 adding 'lama/img_processing/normalise_background.py' 2022-11-09T01:28:21,266 adding 'lama/img_processing/organ_vol_calculation.py' 2022-11-09T01:28:21,269 adding 'lama/img_processing/read_minc.py' 2022-11-09T01:28:21,272 adding 'lama/lama_radiomics/__init__.py' 2022-11-09T01:28:21,277 adding 'lama/lama_radiomics/feature_reduction.py' 2022-11-09T01:28:21,280 adding 'lama/lama_radiomics/machine_learning.py' 2022-11-09T01:28:21,285 adding 'lama/lama_radiomics/radiomics.py' 2022-11-09T01:28:21,299 adding 'lama/lib/__init__.py' 2022-11-09T01:28:21,303 adding 'lama/lib/addict.py' 2022-11-09T01:28:21,307 adding 'lama/lib/addict.py.bak' 2022-11-09T01:28:21,326 adding 'lama/lib/transformations.py' 2022-11-09T01:28:21,346 adding 'lama/lib/transformations.py.bak' 2022-11-09T01:28:21,351 adding 'lama/qc/__init__.py' 2022-11-09T01:28:21,354 adding 'lama/qc/collate_qc.py' 2022-11-09T01:28:21,357 adding 'lama/qc/common.py' 2022-11-09T01:28:21,359 adding 'lama/qc/folding.py' 2022-11-09T01:28:21,362 adding 'lama/qc/formatting.py' 2022-11-09T01:28:21,366 adding 'lama/qc/img_grid.py' 2022-11-09T01:28:21,369 adding 'lama/qc/interative_qc.py' 2022-11-09T01:28:21,372 adding 'lama/qc/metric_charts.py' 2022-11-09T01:28:21,376 adding 'lama/qc/organ_vol_plots.py' 2022-11-09T01:28:21,380 adding 'lama/qc/qc_images.py' 2022-11-09T01:28:21,383 adding 'lama/qc/roi_overlay.py' 2022-11-09T01:28:21,387 adding 'lama/registration_pipeline/__init__.py' 2022-11-09T01:28:21,390 adding 'lama/registration_pipeline/parallel_average.py' 2022-11-09T01:28:21,394 adding 'lama/registration_pipeline/parallel_average_pairwise.py' 2022-11-09T01:28:21,402 adding 'lama/registration_pipeline/run_lama.py' 2022-11-09T01:28:21,409 adding 'lama/registration_pipeline/validate_config.py' 2022-11-09T01:28:21,412 adding 'lama/registration_pipeline/optimise/__init__.py' 2022-11-09T01:28:21,415 adding 'lama/registration_pipeline/optimise/points.py' 2022-11-09T01:28:21,419 adding 'lama/registration_pipeline/optimise/regop_points.py' 2022-11-09T01:28:21,422 adding 'lama/registration_pipeline/optimise/run_lama_configs_grid.py' 2022-11-09T01:28:21,424 adding 'lama/registration_pipeline/optimise/test_regop.py' 2022-11-09T01:28:21,428 adding 'lama/scripts/__init__.py' 2022-11-09T01:28:21,430 adding 'lama/scripts/intensity_normalisation.py' 2022-11-09T01:28:21,432 adding 'lama/scripts/lama_ark_img_pro.py' 2022-11-09T01:28:21,434 adding 'lama/scripts/lama_get_test_data.py' 2022-11-09T01:28:21,436 adding 'lama/scripts/lama_get_walkthrough_data.py' 2022-11-09T01:28:21,440 adding 'lama/scripts/lama_job_runner.py' 2022-11-09T01:28:21,443 adding 'lama/scripts/lama_permutation_stats.py' 2022-11-09T01:28:21,445 adding 'lama/scripts/lama_radiomics_runner.py' 2022-11-09T01:28:21,447 adding 'lama/scripts/lama_reg.py' 2022-11-09T01:28:21,450 adding 'lama/scripts/lama_stats.py' 2022-11-09T01:28:21,452 adding 'lama/scripts/two_way_plotter.py' 2022-11-09T01:28:21,455 adding 'lama/segmentation_plugins/__init__.py' 2022-11-09T01:28:21,458 adding 'lama/segmentation_plugins/plugin_interface.py' 2022-11-09T01:28:21,460 adding 'lama/segmentation_plugins/readme.md' 2022-11-09T01:28:21,463 adding 'lama/segmentation_plugins/secondary_seg_lateral_ventricle.py' 2022-11-09T01:28:21,466 adding 'lama/segmentation_plugins/secondary_seg_lateral_ventricle_e145.py' 2022-11-09T01:28:21,469 adding 'lama/snake_contour_tool/fixer_config.toml' 2022-11-09T01:28:21,472 adding 'lama/snake_contour_tool/geodesic_active_segmentation.py' 2022-11-09T01:28:21,475 adding 'lama/snake_contour_tool/label_fixer.py' 2022-11-09T01:28:21,478 adding 'lama/staging/__init__.py' 2022-11-09T01:28:21,480 adding 'lama/staging/affine_similarity_scaling_factors.py' 2022-11-09T01:28:21,484 adding 'lama/staging/baseline_selection.py' 2022-11-09T01:28:21,486 adding 'lama/staging/skeleton_length.py' 2022-11-09T01:28:21,489 adding 'lama/staging/staging_metric_maker.py' 2022-11-09T01:28:21,492 adding 'lama/stats/__init__.py' 2022-11-09T01:28:21,495 adding 'lama/stats/automated_annotation.py' 2022-11-09T01:28:21,498 adding 'lama/stats/cluster_plots.py' 2022-11-09T01:28:21,500 adding 'lama/stats/common.py' 2022-11-09T01:28:21,502 adding 'lama/stats/heatmap.py' 2022-11-09T01:28:21,506 adding 'lama/stats/linear_model.py' 2022-11-09T01:28:21,509 adding 'lama/stats/penetrence_expressivity_plots.py' 2022-11-09T01:28:21,512 adding 'lama/stats/permutation_stats/__init__.py' 2022-11-09T01:28:21,515 adding 'lama/stats/permutation_stats/bin_and_norm.py' 2022-11-09T01:28:21,518 adding 'lama/stats/permutation_stats/bin_heatmap.py' 2022-11-09T01:28:21,526 adding 'lama/stats/permutation_stats/distributions.py' 2022-11-09T01:28:21,530 adding 'lama/stats/permutation_stats/p_thresholds.py' 2022-11-09T01:28:21,540 adding 'lama/stats/permutation_stats/run_permutation_stats.py' 2022-11-09T01:28:21,545 adding 'lama/stats/rscripts/lmFast.R' 2022-11-09T01:28:21,547 adding 'lama/stats/rscripts/r_padjust.R' 2022-11-09T01:28:21,549 adding 'lama/stats/rscripts/r_qvalues.R' 2022-11-09T01:28:21,554 adding 'lama/stats/rscripts/two_way_plot.R' 2022-11-09T01:28:21,558 adding 'lama/stats/rscripts/test_data_for_R_LM/groups.csv' 2022-11-09T01:28:21,561 adding 'lama/stats/rscripts/test_data_for_R_LM/testpixelfile' 2022-11-09T01:28:21,564 adding 'lama/stats/standard_stats/__init__.py' 2022-11-09T01:28:21,573 adding 'lama/stats/standard_stats/data_loaders.py' 2022-11-09T01:28:21,578 adding 'lama/stats/standard_stats/lama_stats_new.py' 2022-11-09T01:28:21,580 adding 'lama/stats/standard_stats/read_config.py' 2022-11-09T01:28:21,585 adding 'lama/stats/standard_stats/results_writer.py' 2022-11-09T01:28:21,588 adding 'lama/stats/standard_stats/stats_objects.py' 2022-11-09T01:28:21,592 adding 'lama/tests/README.md' 2022-11-09T01:28:21,595 adding 'lama/tests/__init__.py' 2022-11-09T01:28:21,597 adding 'lama/tests/debug.py' 2022-11-09T01:28:21,599 adding 'lama/tests/pytest.ini' 2022-11-09T01:28:21,601 adding 'lama/tests/run_tests.sh' 2022-11-09T01:28:21,603 adding 'lama/tests/test_data_generation.py' 2022-11-09T01:28:21,606 adding 'lama/tests/test_distributions.py' 2022-11-09T01:28:21,609 adding 'lama/tests/test_permutation_stats.py' 2022-11-09T01:28:21,612 adding 'lama/tests/test_standard_stats.py' 2022-11-09T01:28:21,615 adding 'lama/tests/archive/__init__.py' 2022-11-09T01:28:21,617 adding 'lama/tests/archive/test_lama_stats.py' 2022-11-09T01:28:21,620 adding 'lama/tests/archive/test_run_permutation_stats.py' 2022-11-09T01:28:21,624 adding 'lama/tests/configs/lama_radiomics/radiomics_config.toml' 2022-11-09T01:28:21,627 adding 'lama/tests/configs/permutation_stats/__init__.py' 2022-11-09T01:28:21,629 adding 'lama/tests/configs/permutation_stats/perm_no_qc.yaml' 2022-11-09T01:28:21,631 adding 'lama/tests/configs/permutation_stats/perm_qc.yaml' 2022-11-09T01:28:21,634 adding 'lama/tests/configs/permutation_stats/temp.yaml' 2022-11-09T01:28:21,637 adding 'lama/tests/configs/permutation_stats/tempnotdo/perm.yaml' 2022-11-09T01:28:21,641 adding 'lama/tests/configs/standard_stats/generate_data.toml' 2022-11-09T01:28:21,643 adding 'lama/tests/configs/standard_stats/stats.toml' 2022-11-09T01:28:21,647 adding 'lama/tests/working_on/test_config_errors.py' 2022-11-09T01:28:21,649 adding 'lama/tests/working_on/test_distributions.py' 2022-11-09T01:28:21,651 adding 'lama/tests/working_on/test_label_propagation.py' 2022-11-09T01:28:21,653 adding 'lama/tests/working_on/test_lm_r.py' 2022-11-09T01:28:21,655 adding 'lama/tests/working_on/test_population_average.py' 2022-11-09T01:28:21,657 adding 'lama/tests/working_on/test_qc_images.py' 2022-11-09T01:28:21,662 adding 'lama/tests/working_on/test_radiomics_scripts.py' 2022-11-09T01:28:21,667 adding 'lama/tests/working_on/test_two_way_perm.py' 2022-11-09T01:28:21,670 adding 'lama/tests/working_on/test_two_way_stats.py' 2022-11-09T01:28:21,675 adding 'lama/utilities/__init__.py' 2022-11-09T01:28:21,678 adding 'lama/utilities/atlas_tools.py' 2022-11-09T01:28:21,681 adding 'lama/utilities/body_radiomics_normaliser.py' 2022-11-09T01:28:21,684 adding 'lama/utilities/combine_spec_csv.py' 2022-11-09T01:28:21,686 adding 'lama/utilities/config_checksum.py' 2022-11-09T01:28:21,688 adding 'lama/utilities/cropper.py' 2022-11-09T01:28:21,691 adding 'lama/utilities/data_clean_up.py' 2022-11-09T01:28:21,693 adding 'lama/utilities/extract_label.py' 2022-11-09T01:28:21,696 adding 'lama/utilities/extract_registrations.py' 2022-11-09T01:28:21,698 adding 'lama/utilities/flipper.py' 2022-11-09T01:28:21,700 adding 'lama/utilities/invert_emap_ref.py' 2022-11-09T01:28:21,702 adding 'lama/utilities/label_intensity_info.py' 2022-11-09T01:28:21,705 adding 'lama/utilities/lama_convert_16_to_8.py' 2022-11-09T01:28:21,708 adding 'lama/utilities/lama_histogram_batch.py' 2022-11-09T01:28:21,710 adding 'lama/utilities/lama_img_info.py' 2022-11-09T01:28:21,713 adding 'lama/utilities/lama_pad_volumes.py' 2022-11-09T01:28:21,716 adding 'lama/utilities/make_otsu.py' 2022-11-09T01:28:21,718 adding 'lama/utilities/make_roi.py' 2022-11-09T01:28:21,720 adding 'lama/utilities/man_clip_removal.py' 2022-11-09T01:28:21,723 adding 'lama/utilities/nrrd_to_h5.py' 2022-11-09T01:28:21,725 adding 'lama/utilities/plot_radiomic_features.py' 2022-11-09T01:28:21,728 adding 'lama/utilities/prep_for_man_valid.py' 2022-11-09T01:28:21,731 adding 'lama/utilities/quick_n4_norm.py' 2022-11-09T01:28:21,733 adding 'lama/utilities/quick_normalise.py' 2022-11-09T01:28:21,735 adding 'lama/utilities/quick_rotate.py' 2022-11-09T01:28:21,739 adding 'lama/utilities/radiomics_normaliser.py' 2022-11-09T01:28:21,741 adding 'lama/utilities/randomise_for_blinding.py' 2022-11-09T01:28:21,744 adding 'lama/utilities/remove_output_dirs.py' 2022-11-09T01:28:21,746 adding 'lama/utilities/vpv_line_loader.py' 2022-11-09T01:28:21,748 adding 'lama/utilities/zoomer.py' 2022-11-09T01:28:21,750 adding 'dorkylever_lama_phenotype_detection-1.0.1.dist-info/LICENCE.md' 2022-11-09T01:28:21,752 adding 'dorkylever_lama_phenotype_detection-1.0.1.dist-info/METADATA' 2022-11-09T01:28:21,753 adding 'dorkylever_lama_phenotype_detection-1.0.1.dist-info/WHEEL' 2022-11-09T01:28:21,755 adding 'dorkylever_lama_phenotype_detection-1.0.1.dist-info/entry_points.txt' 2022-11-09T01:28:21,756 adding 'dorkylever_lama_phenotype_detection-1.0.1.dist-info/top_level.txt' 2022-11-09T01:28:21,764 adding 'dorkylever_lama_phenotype_detection-1.0.1.dist-info/RECORD' 2022-11-09T01:28:21,784 removing build/bdist.linux-armv7l/wheel 2022-11-09T01:28:22,123 Building wheel for dorkylever-lama-phenotype-detection (setup.py): finished with status 'done' 2022-11-09T01:28:22,139 Created wheel for dorkylever-lama-phenotype-detection: filename=dorkylever_lama_phenotype_detection-1.0.1-py3-none-any.whl size=303530 sha256=8a3540b811d7493e57b4b9692e7571ce6a064c0fffd52518921e05d0f9539c73 2022-11-09T01:28:22,142 Stored in directory: /tmp/pip-ephem-wheel-cache-78ugrspf/wheels/d6/5b/03/93fb1b85cdc866a1f943987372fc79c820d2fbb59459588616 2022-11-09T01:28:22,182 Successfully built dorkylever-lama-phenotype-detection 2022-11-09T01:28:22,209 Removed build tracker: '/tmp/pip-build-tracker-zwcihthh'