.gitignore
.isort.cfg
CITATION.cff
CODE_OF_CONDUCT.md
CONTRIBUTING.md
LICENSE.txt
MANIFEST.in
README.rst
index.rst
mypy.ini
requirements.txt
setup.py
.github/pull_request_template.md
.github/ISSUE_TEMPLATE/bug_report.md
.github/ISSUE_TEMPLATE/feature_request.md
bcdi/__init__.py
bcdi/constants.py
bcdi.egg-info/PKG-INFO
bcdi.egg-info/SOURCES.txt
bcdi.egg-info/dependency_links.txt
bcdi.egg-info/requires.txt
bcdi.egg-info/top_level.txt
bcdi/algorithms/__init__.py
bcdi/algorithms/algorithms_utils.py
bcdi/examples/ID27_config_preprocessing_cdi.yml
bcdi/examples/S11_config_postprocessing.yml
bcdi/examples/S11_config_preprocessing.yml
bcdi/examples/S11_modes_252_210_200_prebinning_1_2_2.h5
bcdi/examples/S11_modes_252_420_392_prebinning_1_1_1.h5
bcdi/examples/__init__.py
bcdi/experiment/__init__.py
bcdi/experiment/beamline.py
bcdi/experiment/beamline_factory.py
bcdi/experiment/detector.py
bcdi/experiment/diffractometer.py
bcdi/experiment/loader.py
bcdi/experiment/rotation_matrix.py
bcdi/experiment/setup.py
bcdi/graph/__init__.py
bcdi/graph/colormap.py
bcdi/graph/graph_utils.py
bcdi/graph/linecut.py
bcdi/graph/turbo_colormap.py
bcdi/postprocessing/__init__.py
bcdi/postprocessing/analysis.py
bcdi/postprocessing/facet_analysis.py
bcdi/postprocessing/facet_recognition.py
bcdi/postprocessing/postprocessing_runner.py
bcdi/postprocessing/postprocessing_utils.py
bcdi/postprocessing/process_scan.py
bcdi/postprocessing/raw_orthogonalization.py
bcdi/preprocessing/ReadNxs3.py
bcdi/preprocessing/__init__.py
bcdi/preprocessing/alias_dict_2018.txt
bcdi/preprocessing/alias_dict_2019.txt
bcdi/preprocessing/alias_dict_2020.txt
bcdi/preprocessing/alias_dict_2021.txt
bcdi/preprocessing/alias_dict_2022.txt
bcdi/preprocessing/analysis.py
bcdi/preprocessing/bcdi_utils.py
bcdi/preprocessing/cdi_utils.py
bcdi/preprocessing/center_fft.py
bcdi/preprocessing/nxsReady.py
bcdi/preprocessing/preprocessing_runner.py
bcdi/preprocessing/process_scan.py
bcdi/preprocessing/process_scan_cdi.py
bcdi/simulation/__init__.py
bcdi/simulation/simulation_utils.py
bcdi/simulation/supportMaker.py
bcdi/utils/__init__.py
bcdi/utils/constants.py
bcdi/utils/image_registration.py
bcdi/utils/io_helper.py
bcdi/utils/parameters.py
bcdi/utils/parser.py
bcdi/utils/snippets_logging.py
bcdi/utils/text.py
bcdi/utils/utilities.py
bcdi/utils/validation.py
bcdi/xcca/__init__.py
bcdi/xcca/xcca_utils.py
doc/EXAMPLE_POSTPROCESSING.rst
doc/EXAMPLE_PREPROCESSING.rst
doc/HISTORY.rst
doc/Makefile
doc/conf.py
doc/index.rst
doc/make.bat
doc/example/alien_removal.PNG
doc/example/files_preprocessing.PNG
doc/example/hotpixel_removal.PNG
doc/modules/index.rst
doc/modules/algorithms/index.rst
doc/modules/experiment/index.rst
doc/modules/graph/index.rst
doc/modules/postprocessing/index.rst
doc/modules/preprocessing/index.rst
doc/modules/simulation/index.rst
doc/modules/utils/index.rst
doc/modules/xcca/index.rst
doc/scripts/index.rst
scripts/algorithms/bcdi_blurring_function.py
scripts/algorithms/bcdi_flatten_intensity.py
scripts/experiment/bcdi_ccd_calib.py
scripts/experiment/bcdi_ccd_calib_cristal.py
scripts/experiment/bcdi_ccd_calib_sixs.py
scripts/graph/bcdi_3D_object_movie.py
scripts/graph/bcdi_linecut_diffpattern.py
scripts/graph/bcdi_scan_analysis.py
scripts/graph/bcdi_scan_movie.py
scripts/graph/bcdi_view_mesh.py
scripts/graph/bcdi_view_psf.py
scripts/graph/bcdi_visu_2D_slice.py
scripts/postprocessing/bcdi_amp_histogram.py
scripts/postprocessing/bcdi_angular_profile.py
scripts/postprocessing/bcdi_bulk_surface_strain.py
scripts/postprocessing/bcdi_compare_BCDI_SEM.py
scripts/postprocessing/bcdi_correct_angles_detector.py
scripts/postprocessing/bcdi_facet_strain.py
scripts/postprocessing/bcdi_line_profile.py
scripts/postprocessing/bcdi_modes_decomposition.py
scripts/postprocessing/bcdi_polarplot.py
scripts/postprocessing/bcdi_post_process_BCDI_2D.py
scripts/postprocessing/bcdi_prtf_BCDI.py
scripts/postprocessing/bcdi_prtf_BCDI_2D.py
scripts/postprocessing/bcdi_prtf_CDI.py
scripts/postprocessing/bcdi_rocking_curves.py
scripts/postprocessing/bcdi_strain.py
scripts/postprocessing/bcdi_strain_mean_var_rms.py
scripts/postprocessing/bcdi_volume_phasing.py
scripts/preprocessing/bcdi_apodize.py
scripts/preprocessing/bcdi_concatenate_scans.py
scripts/preprocessing/bcdi_interpolate_CDI.py
scripts/preprocessing/bcdi_preprocess.py
scripts/preprocessing/bcdi_read_BCDI_scan.py
scripts/preprocessing/bcdi_read_data_P10.py
scripts/preprocessing/bcdi_read_edf.py
scripts/preprocessing/bcdi_rescale_support.py
scripts/preprocessing/bcdi_rotate_scan.py
scripts/publication/bcdi_coefficient_variation.py
scripts/publication/bcdi_compa_simu_exp.py
scripts/publication/bcdi_diffpattern_from_reconstruction.py
scripts/publication/bcdi_plot_diffpattern_2D.py
scripts/publication/bcdi_plot_strain.py
scripts/simulation/bcdi_diffraction_angles.py
scripts/simulation/bcdi_domain_orientation.py
scripts/simulation/bcdi_kinematic_sum_forloop.py
scripts/simulation/bcdi_plane_angle.py
scripts/simulation/bcdi_simu_diffpattern_BCDI.py
scripts/simulation/bcdi_simu_diffpattern_CDI.py
scripts/simulation/bcdi_simu_signe_phase.py
scripts/utils/bcdi_angular_avg_3Dto1D.py
scripts/utils/bcdi_calibration_grid_SEM.py
scripts/utils/bcdi_center_of_rotation.py
scripts/utils/bcdi_correlation_realspace.py
scripts/utils/bcdi_crop_npz.py
scripts/utils/bcdi_cross_corr_fast_live.py
scripts/utils/bcdi_fit_1D_background.py
scripts/utils/bcdi_fit_1D_curve.py
scripts/utils/bcdi_parse_fio2spec.py
scripts/utils/bcdi_primes.py
scripts/utils/bcdi_save_to_mat.py
scripts/xcca/bcdi_view_ccf.py
scripts/xcca/bcdi_view_ccf_map.py
scripts/xcca/bcdi_xcca_3D_map_polar.py
scripts/xcca/bcdi_xcca_3D_map_rect.py
scripts/xcca/bcdi_xcca_3D_polar.py
scripts/xcca/bcdi_xcca_3D_rect.py
scripts/algorithms/bcdi_blurring_function.py
scripts/algorithms/bcdi_flatten_intensity.py
scripts/experiment/bcdi_ccd_calib.py
scripts/experiment/bcdi_ccd_calib_cristal.py
scripts/experiment/bcdi_ccd_calib_sixs.py
scripts/graph/bcdi_3D_object_movie.py
scripts/graph/bcdi_linecut_diffpattern.py
scripts/graph/bcdi_scan_analysis.py
scripts/graph/bcdi_scan_movie.py
scripts/graph/bcdi_view_mesh.py
scripts/graph/bcdi_view_psf.py
scripts/graph/bcdi_visu_2D_slice.py
scripts/postprocessing/bcdi_amp_histogram.py
scripts/postprocessing/bcdi_angular_profile.py
scripts/postprocessing/bcdi_bulk_surface_strain.py
scripts/postprocessing/bcdi_compare_BCDI_SEM.py
scripts/postprocessing/bcdi_correct_angles_detector.py
scripts/postprocessing/bcdi_facet_strain.py
scripts/postprocessing/bcdi_line_profile.py
scripts/postprocessing/bcdi_modes_decomposition.py
scripts/postprocessing/bcdi_polarplot.py
scripts/postprocessing/bcdi_post_process_BCDI_2D.py
scripts/postprocessing/bcdi_prtf_BCDI.py
scripts/postprocessing/bcdi_prtf_BCDI_2D.py
scripts/postprocessing/bcdi_prtf_CDI.py
scripts/postprocessing/bcdi_rocking_curves.py
scripts/postprocessing/bcdi_strain.py
scripts/postprocessing/bcdi_strain_mean_var_rms.py
scripts/postprocessing/bcdi_volume_phasing.py
scripts/preprocessing/bcdi_apodize.py
scripts/preprocessing/bcdi_concatenate_scans.py
scripts/preprocessing/bcdi_interpolate_CDI.py
scripts/preprocessing/bcdi_preprocess.py
scripts/preprocessing/bcdi_read_BCDI_scan.py
scripts/preprocessing/bcdi_read_data_P10.py
scripts/preprocessing/bcdi_read_edf.py
scripts/preprocessing/bcdi_rescale_support.py
scripts/preprocessing/bcdi_rotate_scan.py
scripts/publication/bcdi_coefficient_variation.py
scripts/publication/bcdi_compa_simu_exp.py
scripts/publication/bcdi_diffpattern_from_reconstruction.py
scripts/publication/bcdi_plot_diffpattern_2D.py
scripts/publication/bcdi_plot_strain.py
scripts/simulation/bcdi_diffraction_angles.py
scripts/simulation/bcdi_domain_orientation.py
scripts/simulation/bcdi_kinematic_sum_forloop.py
scripts/simulation/bcdi_plane_angle.py
scripts/simulation/bcdi_simu_diffpattern_BCDI.py
scripts/simulation/bcdi_simu_diffpattern_CDI.py
scripts/simulation/bcdi_simu_signe_phase.py
scripts/utils/bcdi_angular_avg_3Dto1D.py
scripts/utils/bcdi_calibration_grid_SEM.py
scripts/utils/bcdi_center_of_rotation.py
scripts/utils/bcdi_correlation_realspace.py
scripts/utils/bcdi_crop_npz.py
scripts/utils/bcdi_cross_corr_fast_live.py
scripts/utils/bcdi_fit_1D_background.py
scripts/utils/bcdi_fit_1D_curve.py
scripts/utils/bcdi_parse_fio2spec.py
scripts/utils/bcdi_primes.py
scripts/utils/bcdi_save_to_mat.py
scripts/xcca/bcdi_view_ccf.py
scripts/xcca/bcdi_view_ccf_map.py
scripts/xcca/bcdi_xcca_3D_map_polar.py
scripts/xcca/bcdi_xcca_3D_map_rect.py
scripts/xcca/bcdi_xcca_3D_polar.py
scripts/xcca/bcdi_xcca_3D_rect.py
tests/__init__.py
tests/config.py
tests/algorithms/__init__.py
tests/algorithms/test_algorithms_utils.py
tests/experiment/__init__.py
tests/experiment/test_beamline.py
tests/experiment/test_detector.py
tests/experiment/test_diffractometer.py
tests/experiment/test_loader.py
tests/experiment/test_rotation_matrix.py
tests/experiment/test_setup.py
tests/facet_recognition/__init__.py
tests/facet_recognition/test_facet_utils.py
tests/graph/__init__.py
tests/graph/test_graph_utils.py
tests/graph/test_linecut.py
tests/postprocessing/3572_fa.vtk
tests/postprocessing/__init__.py
tests/postprocessing/test_analysis.py
tests/postprocessing/test_facet_analysis.py
tests/postprocessing/test_postprocessing_runner.py
tests/postprocessing/test_postprocessing_utils.py
tests/preprocessing/__init__.py
tests/preprocessing/test_analysis.py
tests/preprocessing/test_bcdi_utils.py
tests/preprocessing/test_center_fft.py
tests/preprocessing/test_preprocessing_runner.py
tests/simulation/__init__.py
tests/simulation/test_simulation_utils.py
tests/simulation/test_supportMaker.py
tests/utils/__init__.py
tests/utils/test_image_registration.py
tests/utils/test_io_helper.py
tests/utils/test_parameters.py
tests/utils/test_parser.py
tests/utils/test_text.py
tests/utils/test_utilities.py
tests/utils/test_validation.py
tests/xcca/__init__.py
tests/xcca/test_xcca_utils.py