2022-09-08T07:21:06,890 Created temporary directory: /tmp/pip-ephem-wheel-cache-tr6pd8xu 2022-09-08T07:21:06,895 Created temporary directory: /tmp/pip-build-tracker-ikyt4viz 2022-09-08T07:21:06,896 Initialized build tracking at /tmp/pip-build-tracker-ikyt4viz 2022-09-08T07:21:06,896 Created build tracker: /tmp/pip-build-tracker-ikyt4viz 2022-09-08T07:21:06,897 Entered build tracker: /tmp/pip-build-tracker-ikyt4viz 2022-09-08T07:21:06,898 Created temporary directory: /tmp/pip-wheel-lrg4ki4t 2022-09-08T07:21:06,965 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2022-09-08T07:21:06,974 2 location(s) to search for versions of dorkylever-lama-phenotype-detection: 2022-09-08T07:21:06,974 * https://pypi.org/simple/dorkylever-lama-phenotype-detection/ 2022-09-08T07:21:06,974 * https://www.piwheels.org/simple/dorkylever-lama-phenotype-detection/ 2022-09-08T07:21:06,975 Fetching project page and analyzing links: https://pypi.org/simple/dorkylever-lama-phenotype-detection/ 2022-09-08T07:21:06,976 Getting page https://pypi.org/simple/dorkylever-lama-phenotype-detection/ 2022-09-08T07:21:06,979 Found index url https://pypi.org/simple 2022-09-08T07:21:07,176 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#sha256=2e9d3260b4259c76ff39f89e2c3ff4feec3cb272be443b8898c0a6cf8f50b152 (from https://pypi.org/simple/dorkylever-lama-phenotype-detection/) 2022-09-08T07:21:07,177 Found link https://files.pythonhosted.org/packages/da/23/74d2f01d1e5a7bc5a7f576bf58e250063a267324d8350ef01265b470fb52/dorkylever_lama_phenotype_detection-1.0.0.tar.gz#sha256=813fb43e8d96bd32f2eb12de8b8d835f9a9d2f0e327fbca52dc39be0afdbb16e (from https://pypi.org/simple/dorkylever-lama-phenotype-detection/), version: 1.0.0 2022-09-08T07:21:07,178 Fetching project page and analyzing links: https://www.piwheels.org/simple/dorkylever-lama-phenotype-detection/ 2022-09-08T07:21:07,179 Getting page https://www.piwheels.org/simple/dorkylever-lama-phenotype-detection/ 2022-09-08T07:21:07,181 Found index url https://www.piwheels.org/simple 2022-09-08T07:21:07,384 Skipping link: not a file: https://www.piwheels.org/simple/dorkylever-lama-phenotype-detection/ 2022-09-08T07:21:07,384 Skipping link: not a file: https://pypi.org/simple/dorkylever-lama-phenotype-detection/ 2022-09-08T07:21:07,418 Given no hashes to check 1 links for project 'dorkylever-lama-phenotype-detection': discarding no candidates 2022-09-08T07:21:07,450 Collecting dorkylever-lama-phenotype-detection==1.0.0 2022-09-08T07:21:07,454 Created temporary directory: /tmp/pip-unpack-pc5uwtkn 2022-09-08T07:21:07,693 Downloading dorkylever_lama_phenotype_detection-1.0.0.tar.gz (193 kB) 2022-09-08T07:21:08,460 Added dorkylever-lama-phenotype-detection==1.0.0 from https://files.pythonhosted.org/packages/da/23/74d2f01d1e5a7bc5a7f576bf58e250063a267324d8350ef01265b470fb52/dorkylever_lama_phenotype_detection-1.0.0.tar.gz#sha256=813fb43e8d96bd32f2eb12de8b8d835f9a9d2f0e327fbca52dc39be0afdbb16e to build tracker '/tmp/pip-build-tracker-ikyt4viz' 2022-09-08T07:21:08,462 Running setup.py (path:/tmp/pip-wheel-lrg4ki4t/dorkylever-lama-phenotype-detection_83fb9547708f4b559d9f18455c18b31b/setup.py) egg_info for package dorkylever-lama-phenotype-detection 2022-09-08T07:21:08,464 Created temporary directory: /tmp/pip-pip-egg-info-qcmcl2_v 2022-09-08T07:21:08,465 Preparing metadata (setup.py): started 2022-09-08T07:21:08,467 Running command python setup.py egg_info 2022-09-08T07:21:17,160 running egg_info 2022-09-08T07:21:17,166 creating /tmp/pip-pip-egg-info-qcmcl2_v/dorkylever_lama_phenotype_detection.egg-info 2022-09-08T07:21:17,876 writing /tmp/pip-pip-egg-info-qcmcl2_v/dorkylever_lama_phenotype_detection.egg-info/PKG-INFO 2022-09-08T07:21:18,477 writing dependency_links to /tmp/pip-pip-egg-info-qcmcl2_v/dorkylever_lama_phenotype_detection.egg-info/dependency_links.txt 2022-09-08T07:21:20,269 writing entry points to /tmp/pip-pip-egg-info-qcmcl2_v/dorkylever_lama_phenotype_detection.egg-info/entry_points.txt 2022-09-08T07:21:21,462 writing requirements to /tmp/pip-pip-egg-info-qcmcl2_v/dorkylever_lama_phenotype_detection.egg-info/requires.txt 2022-09-08T07:21:22,060 writing top-level names to /tmp/pip-pip-egg-info-qcmcl2_v/dorkylever_lama_phenotype_detection.egg-info/top_level.txt 2022-09-08T07:21:22,062 writing manifest file '/tmp/pip-pip-egg-info-qcmcl2_v/dorkylever_lama_phenotype_detection.egg-info/SOURCES.txt' 2022-09-08T07:21:23,090 reading manifest file '/tmp/pip-pip-egg-info-qcmcl2_v/dorkylever_lama_phenotype_detection.egg-info/SOURCES.txt' 2022-09-08T07:21:23,093 reading manifest template 'MANIFEST.in' 2022-09-08T07:21:23,094 warning: no files found matching 'lama/current_commit' 2022-09-08T07:21:23,095 adding license file 'LICENCE.md' 2022-09-08T07:21:23,111 writing manifest file '/tmp/pip-pip-egg-info-qcmcl2_v/dorkylever_lama_phenotype_detection.egg-info/SOURCES.txt' 2022-09-08T07:21:23,335 Preparing metadata (setup.py): finished with status 'done' 2022-09-08T07:21:23,345 Source in /tmp/pip-wheel-lrg4ki4t/dorkylever-lama-phenotype-detection_83fb9547708f4b559d9f18455c18b31b has version 1.0.0, which satisfies requirement dorkylever-lama-phenotype-detection==1.0.0 from https://files.pythonhosted.org/packages/da/23/74d2f01d1e5a7bc5a7f576bf58e250063a267324d8350ef01265b470fb52/dorkylever_lama_phenotype_detection-1.0.0.tar.gz#sha256=813fb43e8d96bd32f2eb12de8b8d835f9a9d2f0e327fbca52dc39be0afdbb16e 2022-09-08T07:21:23,347 Removed dorkylever-lama-phenotype-detection==1.0.0 from https://files.pythonhosted.org/packages/da/23/74d2f01d1e5a7bc5a7f576bf58e250063a267324d8350ef01265b470fb52/dorkylever_lama_phenotype_detection-1.0.0.tar.gz#sha256=813fb43e8d96bd32f2eb12de8b8d835f9a9d2f0e327fbca52dc39be0afdbb16e from build tracker '/tmp/pip-build-tracker-ikyt4viz' 2022-09-08T07:21:23,356 Created temporary directory: /tmp/pip-unpack-p9_gufcg 2022-09-08T07:21:23,357 Building wheels for collected packages: dorkylever-lama-phenotype-detection 2022-09-08T07:21:23,367 Created temporary directory: /tmp/pip-wheel-qkbjnsva 2022-09-08T07:21:23,368 Building wheel for dorkylever-lama-phenotype-detection (setup.py): started 2022-09-08T07:21:23,370 Destination directory: /tmp/pip-wheel-qkbjnsva 2022-09-08T07:21:23,370 Running command python setup.py bdist_wheel 2022-09-08T07:21:31,513 running bdist_wheel 2022-09-08T07:21:31,848 running build 2022-09-08T07:21:31,849 running build_py 2022-09-08T07:21:32,558 creating build 2022-09-08T07:21:32,559 creating build/lib 2022-09-08T07:21:32,561 creating build/lib/lama 2022-09-08T07:21:32,564 copying lama/common.py -> build/lib/lama 2022-09-08T07:21:32,571 copying lama/version.py -> build/lib/lama 2022-09-08T07:21:32,575 copying lama/monitor_memory.py -> build/lib/lama 2022-09-08T07:21:32,578 copying lama/__init__.py -> build/lib/lama 2022-09-08T07:21:32,583 copying lama/paths.py -> build/lib/lama 2022-09-08T07:21:32,589 creating build/lib/lama/img_processing 2022-09-08T07:21:32,592 copying lama/img_processing/normalise_background.py -> build/lib/lama/img_processing 2022-09-08T07:21:32,596 copying lama/img_processing/misc.py -> build/lib/lama/img_processing 2022-09-08T07:21:32,600 copying lama/img_processing/normalise.py -> build/lib/lama/img_processing 2022-09-08T07:21:32,606 copying lama/img_processing/read_minc.py -> build/lib/lama/img_processing 2022-09-08T07:21:32,610 copying lama/img_processing/__init__.py -> build/lib/lama/img_processing 2022-09-08T07:21:32,614 copying lama/img_processing/glcm3d.py -> build/lib/lama/img_processing 2022-09-08T07:21:32,618 copying lama/img_processing/organ_vol_calculation.py -> build/lib/lama/img_processing 2022-09-08T07:21:32,623 creating build/lib/lama/lib 2022-09-08T07:21:32,626 copying lama/lib/transformations.py -> build/lib/lama/lib 2022-09-08T07:21:32,636 copying lama/lib/addict.py -> build/lib/lama/lib 2022-09-08T07:21:32,640 copying lama/lib/__init__.py -> build/lib/lama/lib 2022-09-08T07:21:32,645 creating build/lib/lama/tests 2022-09-08T07:21:32,648 copying lama/tests/test_standard_stats.py -> build/lib/lama/tests 2022-09-08T07:21:32,652 copying lama/tests/debug.py -> build/lib/lama/tests 2022-09-08T07:21:32,656 copying lama/tests/test_distributions.py -> build/lib/lama/tests 2022-09-08T07:21:32,660 copying lama/tests/test_data_generation.py -> build/lib/lama/tests 2022-09-08T07:21:32,663 copying lama/tests/__init__.py -> build/lib/lama/tests 2022-09-08T07:21:32,667 copying lama/tests/test_permutation_stats.py -> build/lib/lama/tests 2022-09-08T07:21:32,673 creating build/lib/lama/elastix 2022-09-08T07:21:32,675 copying lama/elastix/deformations.py -> build/lib/lama/elastix 2022-09-08T07:21:32,681 copying lama/elastix/elastix_registration.py -> build/lib/lama/elastix 2022-09-08T07:21:32,685 copying lama/elastix/propagate_volumes.py -> build/lib/lama/elastix 2022-09-08T07:21:32,690 copying lama/elastix/folding.py -> build/lib/lama/elastix 2022-09-08T07:21:32,694 copying lama/elastix/invert_transforms.py -> build/lib/lama/elastix 2022-09-08T07:21:32,698 copying lama/elastix/__init__.py -> build/lib/lama/elastix 2022-09-08T07:21:32,701 copying lama/elastix/reverse_registration.py -> build/lib/lama/elastix 2022-09-08T07:21:32,707 creating build/lib/lama/segmentation_plugins 2022-09-08T07:21:32,708 copying lama/segmentation_plugins/secondary_seg_lateral_ventricle.py -> build/lib/lama/segmentation_plugins 2022-09-08T07:21:32,713 copying lama/segmentation_plugins/secondary_seg_lateral_ventricle_e145.py -> build/lib/lama/segmentation_plugins 2022-09-08T07:21:32,717 copying lama/segmentation_plugins/__init__.py -> build/lib/lama/segmentation_plugins 2022-09-08T07:21:32,720 copying lama/segmentation_plugins/plugin_interface.py -> build/lib/lama/segmentation_plugins 2022-09-08T07:21:32,726 creating build/lib/lama/staging 2022-09-08T07:21:32,727 copying lama/staging/staging_metric_maker.py -> build/lib/lama/staging 2022-09-08T07:21:32,731 copying lama/staging/baseline_selection.py -> build/lib/lama/staging 2022-09-08T07:21:32,735 copying lama/staging/skeleton_length.py -> build/lib/lama/staging 2022-09-08T07:21:32,738 copying lama/staging/affine_similarity_scaling_factors.py -> build/lib/lama/staging 2022-09-08T07:21:32,741 copying lama/staging/__init__.py -> build/lib/lama/staging 2022-09-08T07:21:32,746 creating build/lib/lama/qc 2022-09-08T07:21:32,748 copying lama/qc/organ_vol_plots.py -> build/lib/lama/qc 2022-09-08T07:21:32,752 copying lama/qc/metric_charts.py -> build/lib/lama/qc 2022-09-08T07:21:32,756 copying lama/qc/roi_overlay.py -> build/lib/lama/qc 2022-09-08T07:21:32,760 copying lama/qc/common.py -> build/lib/lama/qc 2022-09-08T07:21:32,763 copying lama/qc/interative_qc.py -> build/lib/lama/qc 2022-09-08T07:21:32,767 copying lama/qc/img_grid.py -> build/lib/lama/qc 2022-09-08T07:21:32,770 copying lama/qc/folding.py -> build/lib/lama/qc 2022-09-08T07:21:32,774 copying lama/qc/collate_qc.py -> build/lib/lama/qc 2022-09-08T07:21:32,777 copying lama/qc/__init__.py -> build/lib/lama/qc 2022-09-08T07:21:32,779 copying lama/qc/formatting.py -> build/lib/lama/qc 2022-09-08T07:21:32,783 copying lama/qc/qc_images.py -> build/lib/lama/qc 2022-09-08T07:21:32,789 creating build/lib/lama/registration_pipeline 2022-09-08T07:21:32,790 copying lama/registration_pipeline/parallel_average.py -> build/lib/lama/registration_pipeline 2022-09-08T07:21:32,794 copying lama/registration_pipeline/parallel_average_pairwise.py -> build/lib/lama/registration_pipeline 2022-09-08T07:21:32,799 copying lama/registration_pipeline/run_lama.py -> build/lib/lama/registration_pipeline 2022-09-08T07:21:32,804 copying lama/registration_pipeline/validate_config.py -> build/lib/lama/registration_pipeline 2022-09-08T07:21:32,808 copying lama/registration_pipeline/__init__.py -> build/lib/lama/registration_pipeline 2022-09-08T07:21:32,812 creating build/lib/lama/stats 2022-09-08T07:21:32,814 copying lama/stats/common.py -> build/lib/lama/stats 2022-09-08T07:21:32,818 copying lama/stats/cluster_plots.py -> build/lib/lama/stats 2022-09-08T07:21:32,821 copying lama/stats/penetrence_expressivity_plots.py -> build/lib/lama/stats 2022-09-08T07:21:32,825 copying lama/stats/heatmap.py -> build/lib/lama/stats 2022-09-08T07:21:32,828 copying lama/stats/linear_model.py -> build/lib/lama/stats 2022-09-08T07:21:32,832 copying lama/stats/__init__.py -> build/lib/lama/stats 2022-09-08T07:21:32,836 copying lama/stats/automated_annotation.py -> build/lib/lama/stats 2022-09-08T07:21:32,841 creating build/lib/lama/lama_radiomics 2022-09-08T07:21:32,842 copying lama/lama_radiomics/feature_reduction.py -> build/lib/lama/lama_radiomics 2022-09-08T07:21:32,847 copying lama/lama_radiomics/machine_learning.py -> build/lib/lama/lama_radiomics 2022-09-08T07:21:32,851 copying lama/lama_radiomics/radiomics.py -> build/lib/lama/lama_radiomics 2022-09-08T07:21:32,856 copying lama/lama_radiomics/__init__.py -> build/lib/lama/lama_radiomics 2022-09-08T07:21:32,861 creating build/lib/lama/scripts 2022-09-08T07:21:32,863 copying lama/scripts/two_way_plotter.py -> build/lib/lama/scripts 2022-09-08T07:21:32,866 copying lama/scripts/lama_reg.py -> build/lib/lama/scripts 2022-09-08T07:21:32,870 copying lama/scripts/intensity_normalisation.py -> build/lib/lama/scripts 2022-09-08T07:21:32,873 copying lama/scripts/lama_get_test_data.py -> build/lib/lama/scripts 2022-09-08T07:21:32,877 copying lama/scripts/lama_permutation_stats.py -> build/lib/lama/scripts 2022-09-08T07:21:32,880 copying lama/scripts/lama_radiomics_runner.py -> build/lib/lama/scripts 2022-09-08T07:21:32,884 copying lama/scripts/lama_job_runner.py -> build/lib/lama/scripts 2022-09-08T07:21:32,888 copying lama/scripts/lama_stats.py -> build/lib/lama/scripts 2022-09-08T07:21:32,891 copying lama/scripts/__init__.py -> build/lib/lama/scripts 2022-09-08T07:21:32,894 copying lama/scripts/lama_ark_img_pro.py -> build/lib/lama/scripts 2022-09-08T07:21:32,897 copying lama/scripts/lama_get_walkthrough_data.py -> build/lib/lama/scripts 2022-09-08T07:21:32,904 creating build/lib/lama/utilities 2022-09-08T07:21:32,906 copying lama/utilities/cropper.py -> build/lib/lama/utilities 2022-09-08T07:21:32,909 copying lama/utilities/lama_convert_16_to_8.py -> build/lib/lama/utilities 2022-09-08T07:21:32,912 copying lama/utilities/vpv_line_loader.py -> build/lib/lama/utilities 2022-09-08T07:21:32,916 copying lama/utilities/config_checksum.py -> build/lib/lama/utilities 2022-09-08T07:21:32,919 copying lama/utilities/quick_n4_norm.py -> build/lib/lama/utilities 2022-09-08T07:21:32,923 copying lama/utilities/randomise_for_blinding.py -> build/lib/lama/utilities 2022-09-08T07:21:32,926 copying lama/utilities/quick_normalise.py -> build/lib/lama/utilities 2022-09-08T07:21:32,929 copying lama/utilities/nrrd_to_h5.py -> build/lib/lama/utilities 2022-09-08T07:21:32,932 copying lama/utilities/man_clip_removal.py -> build/lib/lama/utilities 2022-09-08T07:21:32,939 copying lama/utilities/radiomics_normaliser.py -> build/lib/lama/utilities 2022-09-08T07:21:32,943 copying lama/utilities/flipper.py -> build/lib/lama/utilities 2022-09-08T07:21:32,946 copying lama/utilities/extract_label.py -> build/lib/lama/utilities 2022-09-08T07:21:32,949 copying lama/utilities/remove_output_dirs.py -> build/lib/lama/utilities 2022-09-08T07:21:32,953 copying lama/utilities/lama_histogram_batch.py -> build/lib/lama/utilities 2022-09-08T07:21:32,957 copying lama/utilities/invert_emap_ref.py -> build/lib/lama/utilities 2022-09-08T07:21:32,960 copying lama/utilities/lama_pad_volumes.py -> build/lib/lama/utilities 2022-09-08T07:21:32,964 copying lama/utilities/make_roi.py -> build/lib/lama/utilities 2022-09-08T07:21:32,967 copying lama/utilities/zoomer.py -> build/lib/lama/utilities 2022-09-08T07:21:32,970 copying lama/utilities/prep_for_man_valid.py -> build/lib/lama/utilities 2022-09-08T07:21:32,973 copying lama/utilities/lama_img_info.py -> build/lib/lama/utilities 2022-09-08T07:21:32,977 copying lama/utilities/body_radiomics_normaliser.py -> build/lib/lama/utilities 2022-09-08T07:21:32,981 copying lama/utilities/combine_spec_csv.py -> build/lib/lama/utilities 2022-09-08T07:21:32,984 copying lama/utilities/make_otsu.py -> build/lib/lama/utilities 2022-09-08T07:21:32,987 copying lama/utilities/plot_radiomic_features.py -> build/lib/lama/utilities 2022-09-08T07:21:32,991 copying lama/utilities/quick_rotate.py -> build/lib/lama/utilities 2022-09-08T07:21:32,994 copying lama/utilities/extract_registrations.py -> build/lib/lama/utilities 2022-09-08T07:21:32,997 copying lama/utilities/__init__.py -> build/lib/lama/utilities 2022-09-08T07:21:33,000 copying lama/utilities/atlas_tools.py -> build/lib/lama/utilities 2022-09-08T07:21:33,004 copying lama/utilities/label_intensity_info.py -> build/lib/lama/utilities 2022-09-08T07:21:33,008 copying lama/utilities/data_clean_up.py -> build/lib/lama/utilities 2022-09-08T07:21:33,012 creating build/lib/lama/tests/archive 2022-09-08T07:21:33,014 copying lama/tests/archive/test_lama_stats.py -> build/lib/lama/tests/archive 2022-09-08T07:21:33,017 copying lama/tests/archive/test_run_permutation_stats.py -> build/lib/lama/tests/archive 2022-09-08T07:21:33,021 copying lama/tests/archive/__init__.py -> build/lib/lama/tests/archive 2022-09-08T07:21:33,025 creating build/lib/lama/registration_pipeline/optimise 2022-09-08T07:21:33,027 copying lama/registration_pipeline/optimise/points.py -> build/lib/lama/registration_pipeline/optimise 2022-09-08T07:21:33,031 copying lama/registration_pipeline/optimise/test_regop.py -> build/lib/lama/registration_pipeline/optimise 2022-09-08T07:21:33,034 copying lama/registration_pipeline/optimise/__init__.py -> build/lib/lama/registration_pipeline/optimise 2022-09-08T07:21:33,036 copying lama/registration_pipeline/optimise/run_lama_configs_grid.py -> build/lib/lama/registration_pipeline/optimise 2022-09-08T07:21:33,040 copying lama/registration_pipeline/optimise/regop_points.py -> build/lib/lama/registration_pipeline/optimise 2022-09-08T07:21:33,046 creating build/lib/lama/stats/standard_stats 2022-09-08T07:21:33,047 copying lama/stats/standard_stats/read_config.py -> build/lib/lama/stats/standard_stats 2022-09-08T07:21:33,051 copying lama/stats/standard_stats/results_writer.py -> build/lib/lama/stats/standard_stats 2022-09-08T07:21:33,055 copying lama/stats/standard_stats/stats_objects.py -> build/lib/lama/stats/standard_stats 2022-09-08T07:21:33,059 copying lama/stats/standard_stats/data_loaders.py -> build/lib/lama/stats/standard_stats 2022-09-08T07:21:33,065 copying lama/stats/standard_stats/__init__.py -> build/lib/lama/stats/standard_stats 2022-09-08T07:21:33,067 copying lama/stats/standard_stats/lama_stats_new.py -> build/lib/lama/stats/standard_stats 2022-09-08T07:21:33,073 creating build/lib/lama/stats/permutation_stats 2022-09-08T07:21:33,075 copying lama/stats/permutation_stats/distributions.py -> build/lib/lama/stats/permutation_stats 2022-09-08T07:21:33,081 copying lama/stats/permutation_stats/p_thresholds.py -> build/lib/lama/stats/permutation_stats 2022-09-08T07:21:33,085 copying lama/stats/permutation_stats/bin_heatmap.py -> build/lib/lama/stats/permutation_stats 2022-09-08T07:21:33,088 copying lama/stats/permutation_stats/bin_and_norm.py -> build/lib/lama/stats/permutation_stats 2022-09-08T07:21:33,091 copying lama/stats/permutation_stats/__init__.py -> build/lib/lama/stats/permutation_stats 2022-09-08T07:21:33,094 copying lama/stats/permutation_stats/run_permutation_stats.py -> build/lib/lama/stats/permutation_stats 2022-09-08T07:21:33,100 running egg_info 2022-09-08T07:21:34,530 writing dorkylever_lama_phenotype_detection.egg-info/PKG-INFO 2022-09-08T07:21:35,118 writing dependency_links to dorkylever_lama_phenotype_detection.egg-info/dependency_links.txt 2022-09-08T07:21:36,887 writing entry points to dorkylever_lama_phenotype_detection.egg-info/entry_points.txt 2022-09-08T07:21:38,066 writing requirements to dorkylever_lama_phenotype_detection.egg-info/requires.txt 2022-09-08T07:21:38,658 writing top-level names to dorkylever_lama_phenotype_detection.egg-info/top_level.txt 2022-09-08T07:21:38,814 reading manifest file 'dorkylever_lama_phenotype_detection.egg-info/SOURCES.txt' 2022-09-08T07:21:38,824 reading manifest template 'MANIFEST.in' 2022-09-08T07:21:38,825 warning: no files found matching 'lama/current_commit' 2022-09-08T07:21:38,826 adding license file 'LICENCE.md' 2022-09-08T07:21:38,847 writing manifest file 'dorkylever_lama_phenotype_detection.egg-info/SOURCES.txt' 2022-09-08T07:21:38,854 /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:153: SetuptoolsDeprecationWarning: !! 2022-09-08T07:21:38,855 ############################ 2022-09-08T07:21:38,855 # Package would be ignored # 2022-09-08T07:21:38,855 ############################ 2022-09-08T07:21:38,856 Python recognizes 'lama.stats.rscripts' as an importable package, however it is 2022-09-08T07:21:38,856 included in the distribution as "data". 2022-09-08T07:21:38,856 This behavior is likely to change in future versions of setuptools (and 2022-09-08T07:21:38,857 therefore is considered deprecated). 2022-09-08T07:21:38,857 Please make sure that 'lama.stats.rscripts' is included as a package by using 2022-09-08T07:21:38,858 setuptools' `packages` configuration field or the proper discovery methods. 2022-09-08T07:21:38,858 You can read more about "package discovery" and "data files" on setuptools 2022-09-08T07:21:38,858 documentation page. 2022-09-08T07:21:38,859 !! 2022-09-08T07:21:38,860 check.warn(importable) 2022-09-08T07:21:38,864 creating build/lib/lama/stats/rscripts 2022-09-08T07:21:38,866 copying lama/stats/rscripts/lmFast.R -> build/lib/lama/stats/rscripts 2022-09-08T07:21:38,871 copying lama/stats/rscripts/r_padjust.R -> build/lib/lama/stats/rscripts 2022-09-08T07:21:39,610 /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. 2022-09-08T07:21:39,610 setuptools.SetuptoolsDeprecationWarning, 2022-09-08T07:21:40,366 installing to build/bdist.linux-armv7l/wheel 2022-09-08T07:21:40,367 running install 2022-09-08T07:21:40,429 running install_lib 2022-09-08T07:21:41,131 creating build/bdist.linux-armv7l 2022-09-08T07:21:41,132 creating build/bdist.linux-armv7l/wheel 2022-09-08T07:21:41,135 creating build/bdist.linux-armv7l/wheel/lama 2022-09-08T07:21:41,139 creating build/bdist.linux-armv7l/wheel/lama/img_processing 2022-09-08T07:21:41,140 copying build/lib/lama/img_processing/normalise_background.py -> build/bdist.linux-armv7l/wheel/lama/img_processing 2022-09-08T07:21:41,144 copying build/lib/lama/img_processing/misc.py -> build/bdist.linux-armv7l/wheel/lama/img_processing 2022-09-08T07:21:41,148 copying build/lib/lama/img_processing/normalise.py -> build/bdist.linux-armv7l/wheel/lama/img_processing 2022-09-08T07:21:41,152 copying build/lib/lama/img_processing/read_minc.py -> build/bdist.linux-armv7l/wheel/lama/img_processing 2022-09-08T07:21:41,157 copying build/lib/lama/img_processing/__init__.py -> build/bdist.linux-armv7l/wheel/lama/img_processing 2022-09-08T07:21:41,159 copying build/lib/lama/img_processing/glcm3d.py -> build/bdist.linux-armv7l/wheel/lama/img_processing 2022-09-08T07:21:41,163 copying build/lib/lama/img_processing/organ_vol_calculation.py -> build/bdist.linux-armv7l/wheel/lama/img_processing 2022-09-08T07:21:41,167 creating build/bdist.linux-armv7l/wheel/lama/lib 2022-09-08T07:21:41,169 copying build/lib/lama/lib/transformations.py -> build/bdist.linux-armv7l/wheel/lama/lib 2022-09-08T07:21:41,177 copying build/lib/lama/lib/addict.py -> build/bdist.linux-armv7l/wheel/lama/lib 2022-09-08T07:21:41,181 copying build/lib/lama/lib/__init__.py -> build/bdist.linux-armv7l/wheel/lama/lib 2022-09-08T07:21:41,185 creating build/bdist.linux-armv7l/wheel/lama/tests 2022-09-08T07:21:41,187 copying build/lib/lama/tests/test_standard_stats.py -> build/bdist.linux-armv7l/wheel/lama/tests 2022-09-08T07:21:41,191 copying build/lib/lama/tests/debug.py -> build/bdist.linux-armv7l/wheel/lama/tests 2022-09-08T07:21:41,195 copying build/lib/lama/tests/test_distributions.py -> build/bdist.linux-armv7l/wheel/lama/tests 2022-09-08T07:21:41,199 creating build/bdist.linux-armv7l/wheel/lama/tests/archive 2022-09-08T07:21:41,200 copying build/lib/lama/tests/archive/test_lama_stats.py -> build/bdist.linux-armv7l/wheel/lama/tests/archive 2022-09-08T07:21:41,204 copying build/lib/lama/tests/archive/test_run_permutation_stats.py -> build/bdist.linux-armv7l/wheel/lama/tests/archive 2022-09-08T07:21:41,208 copying build/lib/lama/tests/archive/__init__.py -> build/bdist.linux-armv7l/wheel/lama/tests/archive 2022-09-08T07:21:41,210 copying build/lib/lama/tests/test_data_generation.py -> build/bdist.linux-armv7l/wheel/lama/tests 2022-09-08T07:21:41,214 copying build/lib/lama/tests/__init__.py -> build/bdist.linux-armv7l/wheel/lama/tests 2022-09-08T07:21:41,217 copying build/lib/lama/tests/test_permutation_stats.py -> build/bdist.linux-armv7l/wheel/lama/tests 2022-09-08T07:21:41,223 creating build/bdist.linux-armv7l/wheel/lama/elastix 2022-09-08T07:21:41,224 copying build/lib/lama/elastix/deformations.py -> build/bdist.linux-armv7l/wheel/lama/elastix 2022-09-08T07:21:41,229 copying build/lib/lama/elastix/elastix_registration.py -> build/bdist.linux-armv7l/wheel/lama/elastix 2022-09-08T07:21:41,233 copying build/lib/lama/elastix/propagate_volumes.py -> build/bdist.linux-armv7l/wheel/lama/elastix 2022-09-08T07:21:41,237 copying build/lib/lama/elastix/folding.py -> build/bdist.linux-armv7l/wheel/lama/elastix 2022-09-08T07:21:41,241 copying build/lib/lama/elastix/invert_transforms.py -> build/bdist.linux-armv7l/wheel/lama/elastix 2022-09-08T07:21:41,245 copying build/lib/lama/elastix/__init__.py -> build/bdist.linux-armv7l/wheel/lama/elastix 2022-09-08T07:21:41,248 copying build/lib/lama/elastix/reverse_registration.py -> build/bdist.linux-armv7l/wheel/lama/elastix 2022-09-08T07:21:41,254 creating build/bdist.linux-armv7l/wheel/lama/segmentation_plugins 2022-09-08T07:21:41,255 copying build/lib/lama/segmentation_plugins/secondary_seg_lateral_ventricle.py -> build/bdist.linux-armv7l/wheel/lama/segmentation_plugins 2022-09-08T07:21:41,259 copying build/lib/lama/segmentation_plugins/secondary_seg_lateral_ventricle_e145.py -> build/bdist.linux-armv7l/wheel/lama/segmentation_plugins 2022-09-08T07:21:41,263 copying build/lib/lama/segmentation_plugins/__init__.py -> build/bdist.linux-armv7l/wheel/lama/segmentation_plugins 2022-09-08T07:21:41,266 copying build/lib/lama/segmentation_plugins/plugin_interface.py -> build/bdist.linux-armv7l/wheel/lama/segmentation_plugins 2022-09-08T07:21:41,270 creating build/bdist.linux-armv7l/wheel/lama/staging 2022-09-08T07:21:41,271 copying build/lib/lama/staging/staging_metric_maker.py -> build/bdist.linux-armv7l/wheel/lama/staging 2022-09-08T07:21:41,275 copying build/lib/lama/staging/baseline_selection.py -> build/bdist.linux-armv7l/wheel/lama/staging 2022-09-08T07:21:41,279 copying build/lib/lama/staging/skeleton_length.py -> build/bdist.linux-armv7l/wheel/lama/staging 2022-09-08T07:21:41,282 copying build/lib/lama/staging/affine_similarity_scaling_factors.py -> build/bdist.linux-armv7l/wheel/lama/staging 2022-09-08T07:21:41,285 copying build/lib/lama/staging/__init__.py -> build/bdist.linux-armv7l/wheel/lama/staging 2022-09-08T07:21:41,288 copying build/lib/lama/common.py -> build/bdist.linux-armv7l/wheel/lama 2022-09-08T07:21:41,294 copying build/lib/lama/version.py -> build/bdist.linux-armv7l/wheel/lama 2022-09-08T07:21:41,298 creating build/bdist.linux-armv7l/wheel/lama/qc 2022-09-08T07:21:41,299 copying build/lib/lama/qc/organ_vol_plots.py -> build/bdist.linux-armv7l/wheel/lama/qc 2022-09-08T07:21:41,304 copying build/lib/lama/qc/metric_charts.py -> build/bdist.linux-armv7l/wheel/lama/qc 2022-09-08T07:21:41,307 copying build/lib/lama/qc/roi_overlay.py -> build/bdist.linux-armv7l/wheel/lama/qc 2022-09-08T07:21:41,311 copying build/lib/lama/qc/common.py -> build/bdist.linux-armv7l/wheel/lama/qc 2022-09-08T07:21:41,314 copying build/lib/lama/qc/interative_qc.py -> build/bdist.linux-armv7l/wheel/lama/qc 2022-09-08T07:21:41,318 copying build/lib/lama/qc/img_grid.py -> build/bdist.linux-armv7l/wheel/lama/qc 2022-09-08T07:21:41,321 copying build/lib/lama/qc/folding.py -> build/bdist.linux-armv7l/wheel/lama/qc 2022-09-08T07:21:41,324 copying build/lib/lama/qc/collate_qc.py -> build/bdist.linux-armv7l/wheel/lama/qc 2022-09-08T07:21:41,327 copying build/lib/lama/qc/__init__.py -> build/bdist.linux-armv7l/wheel/lama/qc 2022-09-08T07:21:41,330 copying build/lib/lama/qc/formatting.py -> build/bdist.linux-armv7l/wheel/lama/qc 2022-09-08T07:21:41,333 copying build/lib/lama/qc/qc_images.py -> build/bdist.linux-armv7l/wheel/lama/qc 2022-09-08T07:21:41,338 creating build/bdist.linux-armv7l/wheel/lama/registration_pipeline 2022-09-08T07:21:41,339 copying build/lib/lama/registration_pipeline/parallel_average.py -> build/bdist.linux-armv7l/wheel/lama/registration_pipeline 2022-09-08T07:21:41,344 copying build/lib/lama/registration_pipeline/parallel_average_pairwise.py -> build/bdist.linux-armv7l/wheel/lama/registration_pipeline 2022-09-08T07:21:41,348 copying build/lib/lama/registration_pipeline/run_lama.py -> build/bdist.linux-armv7l/wheel/lama/registration_pipeline 2022-09-08T07:21:41,353 copying build/lib/lama/registration_pipeline/validate_config.py -> build/bdist.linux-armv7l/wheel/lama/registration_pipeline 2022-09-08T07:21:41,359 creating build/bdist.linux-armv7l/wheel/lama/registration_pipeline/optimise 2022-09-08T07:21:41,360 copying build/lib/lama/registration_pipeline/optimise/points.py -> build/bdist.linux-armv7l/wheel/lama/registration_pipeline/optimise 2022-09-08T07:21:41,364 copying build/lib/lama/registration_pipeline/optimise/test_regop.py -> build/bdist.linux-armv7l/wheel/lama/registration_pipeline/optimise 2022-09-08T07:21:41,367 copying build/lib/lama/registration_pipeline/optimise/__init__.py -> build/bdist.linux-armv7l/wheel/lama/registration_pipeline/optimise 2022-09-08T07:21:41,369 copying build/lib/lama/registration_pipeline/optimise/run_lama_configs_grid.py -> build/bdist.linux-armv7l/wheel/lama/registration_pipeline/optimise 2022-09-08T07:21:41,373 copying build/lib/lama/registration_pipeline/optimise/regop_points.py -> build/bdist.linux-armv7l/wheel/lama/registration_pipeline/optimise 2022-09-08T07:21:41,377 copying build/lib/lama/registration_pipeline/__init__.py -> build/bdist.linux-armv7l/wheel/lama/registration_pipeline 2022-09-08T07:21:41,381 creating build/bdist.linux-armv7l/wheel/lama/stats 2022-09-08T07:21:41,384 copying build/lib/lama/stats/common.py -> build/bdist.linux-armv7l/wheel/lama/stats 2022-09-08T07:21:41,388 copying build/lib/lama/stats/cluster_plots.py -> build/bdist.linux-armv7l/wheel/lama/stats 2022-09-08T07:21:41,392 copying build/lib/lama/stats/penetrence_expressivity_plots.py -> build/bdist.linux-armv7l/wheel/lama/stats 2022-09-08T07:21:41,397 creating build/bdist.linux-armv7l/wheel/lama/stats/rscripts 2022-09-08T07:21:41,399 copying build/lib/lama/stats/rscripts/r_padjust.R -> build/bdist.linux-armv7l/wheel/lama/stats/rscripts 2022-09-08T07:21:41,403 copying build/lib/lama/stats/rscripts/lmFast.R -> build/bdist.linux-armv7l/wheel/lama/stats/rscripts 2022-09-08T07:21:41,409 creating build/bdist.linux-armv7l/wheel/lama/stats/standard_stats 2022-09-08T07:21:41,411 copying build/lib/lama/stats/standard_stats/read_config.py -> build/bdist.linux-armv7l/wheel/lama/stats/standard_stats 2022-09-08T07:21:41,415 copying build/lib/lama/stats/standard_stats/results_writer.py -> build/bdist.linux-armv7l/wheel/lama/stats/standard_stats 2022-09-08T07:21:41,420 copying build/lib/lama/stats/standard_stats/stats_objects.py -> build/bdist.linux-armv7l/wheel/lama/stats/standard_stats 2022-09-08T07:21:41,425 copying build/lib/lama/stats/standard_stats/data_loaders.py -> build/bdist.linux-armv7l/wheel/lama/stats/standard_stats 2022-09-08T07:21:41,431 copying build/lib/lama/stats/standard_stats/__init__.py -> build/bdist.linux-armv7l/wheel/lama/stats/standard_stats 2022-09-08T07:21:41,435 copying build/lib/lama/stats/standard_stats/lama_stats_new.py -> build/bdist.linux-armv7l/wheel/lama/stats/standard_stats 2022-09-08T07:21:41,439 copying build/lib/lama/stats/heatmap.py -> build/bdist.linux-armv7l/wheel/lama/stats 2022-09-08T07:21:41,443 copying build/lib/lama/stats/linear_model.py -> build/bdist.linux-armv7l/wheel/lama/stats 2022-09-08T07:21:41,448 copying build/lib/lama/stats/__init__.py -> build/bdist.linux-armv7l/wheel/lama/stats 2022-09-08T07:21:41,451 copying build/lib/lama/stats/automated_annotation.py -> build/bdist.linux-armv7l/wheel/lama/stats 2022-09-08T07:21:41,457 creating build/bdist.linux-armv7l/wheel/lama/stats/permutation_stats 2022-09-08T07:21:41,459 copying build/lib/lama/stats/permutation_stats/distributions.py -> build/bdist.linux-armv7l/wheel/lama/stats/permutation_stats 2022-09-08T07:21:41,465 copying build/lib/lama/stats/permutation_stats/p_thresholds.py -> build/bdist.linux-armv7l/wheel/lama/stats/permutation_stats 2022-09-08T07:21:41,470 copying build/lib/lama/stats/permutation_stats/bin_heatmap.py -> build/bdist.linux-armv7l/wheel/lama/stats/permutation_stats 2022-09-08T07:21:41,473 copying build/lib/lama/stats/permutation_stats/bin_and_norm.py -> build/bdist.linux-armv7l/wheel/lama/stats/permutation_stats 2022-09-08T07:21:41,477 copying build/lib/lama/stats/permutation_stats/__init__.py -> build/bdist.linux-armv7l/wheel/lama/stats/permutation_stats 2022-09-08T07:21:41,480 copying build/lib/lama/stats/permutation_stats/run_permutation_stats.py -> build/bdist.linux-armv7l/wheel/lama/stats/permutation_stats 2022-09-08T07:21:41,487 creating build/bdist.linux-armv7l/wheel/lama/lama_radiomics 2022-09-08T07:21:41,489 copying build/lib/lama/lama_radiomics/feature_reduction.py -> build/bdist.linux-armv7l/wheel/lama/lama_radiomics 2022-09-08T07:21:41,493 copying build/lib/lama/lama_radiomics/machine_learning.py -> build/bdist.linux-armv7l/wheel/lama/lama_radiomics 2022-09-08T07:21:41,497 copying build/lib/lama/lama_radiomics/radiomics.py -> build/bdist.linux-armv7l/wheel/lama/lama_radiomics 2022-09-08T07:21:41,501 copying build/lib/lama/lama_radiomics/__init__.py -> build/bdist.linux-armv7l/wheel/lama/lama_radiomics 2022-09-08T07:21:41,504 copying build/lib/lama/monitor_memory.py -> build/bdist.linux-armv7l/wheel/lama 2022-09-08T07:21:41,507 copying build/lib/lama/__init__.py -> build/bdist.linux-armv7l/wheel/lama 2022-09-08T07:21:41,510 copying build/lib/lama/paths.py -> build/bdist.linux-armv7l/wheel/lama 2022-09-08T07:21:41,515 creating build/bdist.linux-armv7l/wheel/lama/scripts 2022-09-08T07:21:41,517 copying build/lib/lama/scripts/two_way_plotter.py -> build/bdist.linux-armv7l/wheel/lama/scripts 2022-09-08T07:21:41,520 copying build/lib/lama/scripts/lama_reg.py -> build/bdist.linux-armv7l/wheel/lama/scripts 2022-09-08T07:21:41,523 copying build/lib/lama/scripts/intensity_normalisation.py -> build/bdist.linux-armv7l/wheel/lama/scripts 2022-09-08T07:21:41,526 copying build/lib/lama/scripts/lama_get_test_data.py -> build/bdist.linux-armv7l/wheel/lama/scripts 2022-09-08T07:21:41,529 copying build/lib/lama/scripts/lama_permutation_stats.py -> build/bdist.linux-armv7l/wheel/lama/scripts 2022-09-08T07:21:41,533 copying build/lib/lama/scripts/lama_radiomics_runner.py -> build/bdist.linux-armv7l/wheel/lama/scripts 2022-09-08T07:21:41,536 copying build/lib/lama/scripts/lama_job_runner.py -> build/bdist.linux-armv7l/wheel/lama/scripts 2022-09-08T07:21:41,540 copying build/lib/lama/scripts/lama_stats.py -> build/bdist.linux-armv7l/wheel/lama/scripts 2022-09-08T07:21:41,544 copying build/lib/lama/scripts/__init__.py -> build/bdist.linux-armv7l/wheel/lama/scripts 2022-09-08T07:21:41,547 copying build/lib/lama/scripts/lama_ark_img_pro.py -> build/bdist.linux-armv7l/wheel/lama/scripts 2022-09-08T07:21:41,550 copying build/lib/lama/scripts/lama_get_walkthrough_data.py -> build/bdist.linux-armv7l/wheel/lama/scripts 2022-09-08T07:21:41,555 creating build/bdist.linux-armv7l/wheel/lama/utilities 2022-09-08T07:21:41,556 copying build/lib/lama/utilities/cropper.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-09-08T07:21:41,560 copying build/lib/lama/utilities/lama_convert_16_to_8.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-09-08T07:21:41,563 copying build/lib/lama/utilities/vpv_line_loader.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-09-08T07:21:41,566 copying build/lib/lama/utilities/config_checksum.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-09-08T07:21:41,569 copying build/lib/lama/utilities/quick_n4_norm.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-09-08T07:21:41,573 copying build/lib/lama/utilities/randomise_for_blinding.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-09-08T07:21:41,576 copying build/lib/lama/utilities/quick_normalise.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-09-08T07:21:41,579 copying build/lib/lama/utilities/nrrd_to_h5.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-09-08T07:21:41,583 copying build/lib/lama/utilities/man_clip_removal.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-09-08T07:21:41,586 copying build/lib/lama/utilities/radiomics_normaliser.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-09-08T07:21:41,590 copying build/lib/lama/utilities/flipper.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-09-08T07:21:41,594 copying build/lib/lama/utilities/extract_label.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-09-08T07:21:41,597 copying build/lib/lama/utilities/remove_output_dirs.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-09-08T07:21:41,600 copying build/lib/lama/utilities/lama_histogram_batch.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-09-08T07:21:41,604 copying build/lib/lama/utilities/invert_emap_ref.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-09-08T07:21:41,608 copying build/lib/lama/utilities/lama_pad_volumes.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-09-08T07:21:41,612 copying build/lib/lama/utilities/make_roi.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-09-08T07:21:41,615 copying build/lib/lama/utilities/zoomer.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-09-08T07:21:41,619 copying build/lib/lama/utilities/prep_for_man_valid.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-09-08T07:21:41,622 copying build/lib/lama/utilities/lama_img_info.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-09-08T07:21:41,625 copying build/lib/lama/utilities/body_radiomics_normaliser.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-09-08T07:21:41,629 copying build/lib/lama/utilities/combine_spec_csv.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-09-08T07:21:41,633 copying build/lib/lama/utilities/make_otsu.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-09-08T07:21:41,636 copying build/lib/lama/utilities/plot_radiomic_features.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-09-08T07:21:41,640 copying build/lib/lama/utilities/quick_rotate.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-09-08T07:21:41,643 copying build/lib/lama/utilities/extract_registrations.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-09-08T07:21:41,646 copying build/lib/lama/utilities/__init__.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-09-08T07:21:41,650 copying build/lib/lama/utilities/atlas_tools.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-09-08T07:21:41,653 copying build/lib/lama/utilities/label_intensity_info.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-09-08T07:21:41,657 copying build/lib/lama/utilities/data_clean_up.py -> build/bdist.linux-armv7l/wheel/lama/utilities 2022-09-08T07:21:41,660 running install_egg_info 2022-09-08T07:21:42,377 Copying dorkylever_lama_phenotype_detection.egg-info to build/bdist.linux-armv7l/wheel/dorkylever_lama_phenotype_detection-1.0.0-py3.7.egg-info 2022-09-08T07:21:42,402 running install_scripts 2022-09-08T07:21:42,630 adding license file "LICENCE.md" (matched pattern "LICEN[CS]E*") 2022-09-08T07:21:42,639 creating build/bdist.linux-armv7l/wheel/dorkylever_lama_phenotype_detection-1.0.0.dist-info/WHEEL 2022-09-08T07:21:42,644 creating '/tmp/pip-wheel-qkbjnsva/dorkylever_lama_phenotype_detection-1.0.0-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2022-09-08T07:21:42,652 adding 'lama/__init__.py' 2022-09-08T07:21:42,661 adding 'lama/common.py' 2022-09-08T07:21:42,664 adding 'lama/monitor_memory.py' 2022-09-08T07:21:42,668 adding 'lama/paths.py' 2022-09-08T07:21:42,670 adding 'lama/version.py' 2022-09-08T07:21:42,673 adding 'lama/elastix/__init__.py' 2022-09-08T07:21:42,678 adding 'lama/elastix/deformations.py' 2022-09-08T07:21:42,682 adding 'lama/elastix/elastix_registration.py' 2022-09-08T07:21:42,685 adding 'lama/elastix/folding.py' 2022-09-08T07:21:42,690 adding 'lama/elastix/invert_transforms.py' 2022-09-08T07:21:42,695 adding 'lama/elastix/propagate_volumes.py' 2022-09-08T07:21:42,699 adding 'lama/elastix/reverse_registration.py' 2022-09-08T07:21:42,703 adding 'lama/img_processing/__init__.py' 2022-09-08T07:21:42,706 adding 'lama/img_processing/glcm3d.py' 2022-09-08T07:21:42,708 adding 'lama/img_processing/misc.py' 2022-09-08T07:21:42,712 adding 'lama/img_processing/normalise.py' 2022-09-08T07:21:42,715 adding 'lama/img_processing/normalise_background.py' 2022-09-08T07:21:42,718 adding 'lama/img_processing/organ_vol_calculation.py' 2022-09-08T07:21:42,721 adding 'lama/img_processing/read_minc.py' 2022-09-08T07:21:42,724 adding 'lama/lama_radiomics/__init__.py' 2022-09-08T07:21:42,728 adding 'lama/lama_radiomics/feature_reduction.py' 2022-09-08T07:21:42,732 adding 'lama/lama_radiomics/machine_learning.py' 2022-09-08T07:21:42,737 adding 'lama/lama_radiomics/radiomics.py' 2022-09-08T07:21:42,741 adding 'lama/lib/__init__.py' 2022-09-08T07:21:42,744 adding 'lama/lib/addict.py' 2022-09-08T07:21:42,763 adding 'lama/lib/transformations.py' 2022-09-08T07:21:42,768 adding 'lama/qc/__init__.py' 2022-09-08T07:21:42,771 adding 'lama/qc/collate_qc.py' 2022-09-08T07:21:42,773 adding 'lama/qc/common.py' 2022-09-08T07:21:42,776 adding 'lama/qc/folding.py' 2022-09-08T07:21:42,778 adding 'lama/qc/formatting.py' 2022-09-08T07:21:42,780 adding 'lama/qc/img_grid.py' 2022-09-08T07:21:42,784 adding 'lama/qc/interative_qc.py' 2022-09-08T07:21:42,787 adding 'lama/qc/metric_charts.py' 2022-09-08T07:21:42,791 adding 'lama/qc/organ_vol_plots.py' 2022-09-08T07:21:42,796 adding 'lama/qc/qc_images.py' 2022-09-08T07:21:42,799 adding 'lama/qc/roi_overlay.py' 2022-09-08T07:21:42,802 adding 'lama/registration_pipeline/__init__.py' 2022-09-08T07:21:42,805 adding 'lama/registration_pipeline/parallel_average.py' 2022-09-08T07:21:42,809 adding 'lama/registration_pipeline/parallel_average_pairwise.py' 2022-09-08T07:21:42,817 adding 'lama/registration_pipeline/run_lama.py' 2022-09-08T07:21:42,825 adding 'lama/registration_pipeline/validate_config.py' 2022-09-08T07:21:42,829 adding 'lama/registration_pipeline/optimise/__init__.py' 2022-09-08T07:21:42,831 adding 'lama/registration_pipeline/optimise/points.py' 2022-09-08T07:21:42,835 adding 'lama/registration_pipeline/optimise/regop_points.py' 2022-09-08T07:21:42,838 adding 'lama/registration_pipeline/optimise/run_lama_configs_grid.py' 2022-09-08T07:21:42,840 adding 'lama/registration_pipeline/optimise/test_regop.py' 2022-09-08T07:21:42,844 adding 'lama/scripts/__init__.py' 2022-09-08T07:21:42,846 adding 'lama/scripts/intensity_normalisation.py' 2022-09-08T07:21:42,848 adding 'lama/scripts/lama_ark_img_pro.py' 2022-09-08T07:21:42,850 adding 'lama/scripts/lama_get_test_data.py' 2022-09-08T07:21:42,852 adding 'lama/scripts/lama_get_walkthrough_data.py' 2022-09-08T07:21:42,856 adding 'lama/scripts/lama_job_runner.py' 2022-09-08T07:21:42,859 adding 'lama/scripts/lama_permutation_stats.py' 2022-09-08T07:21:42,861 adding 'lama/scripts/lama_radiomics_runner.py' 2022-09-08T07:21:42,864 adding 'lama/scripts/lama_reg.py' 2022-09-08T07:21:42,866 adding 'lama/scripts/lama_stats.py' 2022-09-08T07:21:42,869 adding 'lama/scripts/two_way_plotter.py' 2022-09-08T07:21:42,872 adding 'lama/segmentation_plugins/__init__.py' 2022-09-08T07:21:42,874 adding 'lama/segmentation_plugins/plugin_interface.py' 2022-09-08T07:21:42,877 adding 'lama/segmentation_plugins/secondary_seg_lateral_ventricle.py' 2022-09-08T07:21:42,880 adding 'lama/segmentation_plugins/secondary_seg_lateral_ventricle_e145.py' 2022-09-08T07:21:42,884 adding 'lama/staging/__init__.py' 2022-09-08T07:21:42,886 adding 'lama/staging/affine_similarity_scaling_factors.py' 2022-09-08T07:21:42,890 adding 'lama/staging/baseline_selection.py' 2022-09-08T07:21:42,892 adding 'lama/staging/skeleton_length.py' 2022-09-08T07:21:42,895 adding 'lama/staging/staging_metric_maker.py' 2022-09-08T07:21:42,898 adding 'lama/stats/__init__.py' 2022-09-08T07:21:42,901 adding 'lama/stats/automated_annotation.py' 2022-09-08T07:21:42,904 adding 'lama/stats/cluster_plots.py' 2022-09-08T07:21:42,906 adding 'lama/stats/common.py' 2022-09-08T07:21:42,908 adding 'lama/stats/heatmap.py' 2022-09-08T07:21:42,912 adding 'lama/stats/linear_model.py' 2022-09-08T07:21:42,915 adding 'lama/stats/penetrence_expressivity_plots.py' 2022-09-08T07:21:42,919 adding 'lama/stats/permutation_stats/__init__.py' 2022-09-08T07:21:42,921 adding 'lama/stats/permutation_stats/bin_and_norm.py' 2022-09-08T07:21:42,924 adding 'lama/stats/permutation_stats/bin_heatmap.py' 2022-09-08T07:21:42,933 adding 'lama/stats/permutation_stats/distributions.py' 2022-09-08T07:21:42,937 adding 'lama/stats/permutation_stats/p_thresholds.py' 2022-09-08T07:21:42,947 adding 'lama/stats/permutation_stats/run_permutation_stats.py' 2022-09-08T07:21:42,951 adding 'lama/stats/rscripts/lmFast.R' 2022-09-08T07:21:42,954 adding 'lama/stats/rscripts/r_padjust.R' 2022-09-08T07:21:42,957 adding 'lama/stats/standard_stats/__init__.py' 2022-09-08T07:21:42,966 adding 'lama/stats/standard_stats/data_loaders.py' 2022-09-08T07:21:42,971 adding 'lama/stats/standard_stats/lama_stats_new.py' 2022-09-08T07:21:42,974 adding 'lama/stats/standard_stats/read_config.py' 2022-09-08T07:21:42,978 adding 'lama/stats/standard_stats/results_writer.py' 2022-09-08T07:21:42,982 adding 'lama/stats/standard_stats/stats_objects.py' 2022-09-08T07:21:42,985 adding 'lama/tests/__init__.py' 2022-09-08T07:21:42,988 adding 'lama/tests/debug.py' 2022-09-08T07:21:42,990 adding 'lama/tests/test_data_generation.py' 2022-09-08T07:21:42,993 adding 'lama/tests/test_distributions.py' 2022-09-08T07:21:42,996 adding 'lama/tests/test_permutation_stats.py' 2022-09-08T07:21:42,999 adding 'lama/tests/test_standard_stats.py' 2022-09-08T07:21:43,002 adding 'lama/tests/archive/__init__.py' 2022-09-08T07:21:43,004 adding 'lama/tests/archive/test_lama_stats.py' 2022-09-08T07:21:43,007 adding 'lama/tests/archive/test_run_permutation_stats.py' 2022-09-08T07:21:43,011 adding 'lama/utilities/__init__.py' 2022-09-08T07:21:43,014 adding 'lama/utilities/atlas_tools.py' 2022-09-08T07:21:43,018 adding 'lama/utilities/body_radiomics_normaliser.py' 2022-09-08T07:21:43,021 adding 'lama/utilities/combine_spec_csv.py' 2022-09-08T07:21:43,023 adding 'lama/utilities/config_checksum.py' 2022-09-08T07:21:43,025 adding 'lama/utilities/cropper.py' 2022-09-08T07:21:43,028 adding 'lama/utilities/data_clean_up.py' 2022-09-08T07:21:43,030 adding 'lama/utilities/extract_label.py' 2022-09-08T07:21:43,032 adding 'lama/utilities/extract_registrations.py' 2022-09-08T07:21:43,035 adding 'lama/utilities/flipper.py' 2022-09-08T07:21:43,037 adding 'lama/utilities/invert_emap_ref.py' 2022-09-08T07:21:43,039 adding 'lama/utilities/label_intensity_info.py' 2022-09-08T07:21:43,042 adding 'lama/utilities/lama_convert_16_to_8.py' 2022-09-08T07:21:43,045 adding 'lama/utilities/lama_histogram_batch.py' 2022-09-08T07:21:43,047 adding 'lama/utilities/lama_img_info.py' 2022-09-08T07:21:43,051 adding 'lama/utilities/lama_pad_volumes.py' 2022-09-08T07:21:43,053 adding 'lama/utilities/make_otsu.py' 2022-09-08T07:21:43,056 adding 'lama/utilities/make_roi.py' 2022-09-08T07:21:43,058 adding 'lama/utilities/man_clip_removal.py' 2022-09-08T07:21:43,060 adding 'lama/utilities/nrrd_to_h5.py' 2022-09-08T07:21:43,063 adding 'lama/utilities/plot_radiomic_features.py' 2022-09-08T07:21:43,066 adding 'lama/utilities/prep_for_man_valid.py' 2022-09-08T07:21:43,068 adding 'lama/utilities/quick_n4_norm.py' 2022-09-08T07:21:43,071 adding 'lama/utilities/quick_normalise.py' 2022-09-08T07:21:43,073 adding 'lama/utilities/quick_rotate.py' 2022-09-08T07:21:43,077 adding 'lama/utilities/radiomics_normaliser.py' 2022-09-08T07:21:43,079 adding 'lama/utilities/randomise_for_blinding.py' 2022-09-08T07:21:43,081 adding 'lama/utilities/remove_output_dirs.py' 2022-09-08T07:21:43,083 adding 'lama/utilities/vpv_line_loader.py' 2022-09-08T07:21:43,085 adding 'lama/utilities/zoomer.py' 2022-09-08T07:21:43,087 adding 'dorkylever_lama_phenotype_detection-1.0.0.dist-info/LICENCE.md' 2022-09-08T07:21:43,089 adding 'dorkylever_lama_phenotype_detection-1.0.0.dist-info/METADATA' 2022-09-08T07:21:43,091 adding 'dorkylever_lama_phenotype_detection-1.0.0.dist-info/WHEEL' 2022-09-08T07:21:43,092 adding 'dorkylever_lama_phenotype_detection-1.0.0.dist-info/entry_points.txt' 2022-09-08T07:21:43,094 adding 'dorkylever_lama_phenotype_detection-1.0.0.dist-info/top_level.txt' 2022-09-08T07:21:43,098 adding 'dorkylever_lama_phenotype_detection-1.0.0.dist-info/RECORD' 2022-09-08T07:21:43,111 removing build/bdist.linux-armv7l/wheel 2022-09-08T07:21:43,420 Building wheel for dorkylever-lama-phenotype-detection (setup.py): finished with status 'done' 2022-09-08T07:21:43,435 Created wheel for dorkylever-lama-phenotype-detection: filename=dorkylever_lama_phenotype_detection-1.0.0-py3-none-any.whl size=244894 sha256=4b62a163eed177635af96f4a4e04f3284e04392c6558c52bb4dc0b1fe9964b76 2022-09-08T07:21:43,437 Stored in directory: /tmp/pip-ephem-wheel-cache-tr6pd8xu/wheels/47/3e/83/ec6fcfb3d8cf9b64b03f8837726bee829123d9dcb74707ba4d 2022-09-08T07:21:43,470 Successfully built dorkylever-lama-phenotype-detection 2022-09-08T07:21:43,495 Removed build tracker: '/tmp/pip-build-tracker-ikyt4viz'