cosedaUI

• cosedaUI package
  • Subpackages
    • cosedaUI.importers package
      • Submodules
      • cosedaUI.importers.import_emd_window module
      • cosedaUI.importers.import_h5_window module
      • cosedaUI.importers.import_mrc_window module
      • cosedaUI.importers.import_tiff_window module
      • Module contents
    • cosedaUI.indexintegrate_sections package
      • Submodules
      • cosedaUI.indexintegrate_sections.cellfile module
      • cosedaUI.indexintegrate_sections.geomfile module
      • cosedaUI.indexintegrate_sections.helpers module
      • cosedaUI.indexintegrate_sections.ici module
      • cosedaUI.indexintegrate_sections.index_settings module
      • cosedaUI.indexintegrate_sections.run_control module
      • Module contents
    • cosedaUI.mainwindow_sections package
      • Submodules
      • cosedaUI.mainwindow_sections.cluster module
      • cosedaUI.mainwindow_sections.imports module
      • cosedaUI.mainwindow_sections.indexing module
      • cosedaUI.mainwindow_sections.viewer module
      • cosedaUI.mainwindow_sections.workflow module
      • cosedaUI.mainwindow_sections.workspace module
      • Module contents
  • Submodules
  • cosedaUI.about_window module
    • AboutWindow
      • AboutWindow.init_ui()
    • open_about_window()
  • cosedaUI.aurora_window module
    • AuroraPlotWindow
      • AuroraPlotWindow.closeEvent()
      • AuroraPlotWindow.hdf5_path
      • AuroraPlotWindow.start_plot()
    • AuroraPlotWorker
      • AuroraPlotWorker.failed
      • AuroraPlotWorker.finished
      • AuroraPlotWorker.progress
      • AuroraPlotWorker.run()
  • cosedaUI.cellfile_window module
    • CellfileWindow
      • CellfileWindow.save_cell_file()
  • cosedaUI.export module
    • ExportMtzWindow
  • cosedaUI.findcenters_window module
    • CenterFinderSettingsWindow
      • CenterFinderSettingsWindow.add_plot_to_viewer()
      • CenterFinderSettingsWindow.closeEvent()
      • CenterFinderSettingsWindow.display_selected_plot()
      • CenterFinderSettingsWindow.get_parameter_from_config()
      • CenterFinderSettingsWindow.init_ui()
      • CenterFinderSettingsWindow.on_field_focused()
      • CenterFinderSettingsWindow.on_find_centers_all()
      • CenterFinderSettingsWindow.on_find_centers_current()
      • CenterFinderSettingsWindow.on_force_linear_toggled()
      • CenterFinderSettingsWindow.on_method_change()
      • CenterFinderSettingsWindow.on_processing_cancelled()
      • CenterFinderSettingsWindow.on_processing_error()
      • CenterFinderSettingsWindow.on_processing_finished()
      • CenterFinderSettingsWindow.on_progress_updated()
      • CenterFinderSettingsWindow.on_save_all()
      • CenterFinderSettingsWindow.on_save_current()
      • CenterFinderSettingsWindow.on_skip_linear_toggled()
      • CenterFinderSettingsWindow.on_stop_clicked()
      • CenterFinderSettingsWindow.progress_updated
      • CenterFinderSettingsWindow.receive_coordinate()
      • CenterFinderSettingsWindow.settings_applied
      • CenterFinderSettingsWindow.stop_monitoring()
      • CenterFinderSettingsWindow.update_plot_viewer()
      • CenterFinderSettingsWindow.update_run_list()
    • FocusableLineEdit
      • FocusableLineEdit.focusInEvent()
      • FocusableLineEdit.focusOutEvent()
    • NumericSortTreeWidgetItem
    • PreviewWindow
      • PreviewWindow.auto_display_initial()
      • PreviewWindow.display_selected_plot()
      • PreviewWindow.set_run()
      • PreviewWindow.update_preview()
    • Worker
      • Worker.cancelled
      • Worker.error
      • Worker.finished
      • Worker.progress
      • Worker.request_cancel()
      • Worker.run()
  • cosedaUI.geomfile_window module
    • GeomfileWindow
    • calculate_electron_wavelength()
  • cosedaUI.h5_metadata_loader module
    • H5MetadataLoader
      • H5MetadataLoader.failed
      • H5MetadataLoader.finished
      • H5MetadataLoader.run()
  • cosedaUI.ici_window module
    • GuiStream
      • GuiStream.flush()
      • GuiStream.write()
    • OrchestratorMainWindow
      • OrchestratorMainWindow.closeEvent()
    • OrchestratorWidget
      • OrchestratorWidget.add_h5_files()
      • OrchestratorWidget.append_text()
      • OrchestratorWidget.browse_cell()
      • OrchestratorWidget.browse_geom()
      • OrchestratorWidget.browse_run_root()
      • OrchestratorWidget.build_argv()
      • OrchestratorWidget.clear_h5_files()
      • OrchestratorWidget.on_progress_done()
      • OrchestratorWidget.on_progress_init()
      • OrchestratorWidget.on_progress_step()
      • OrchestratorWidget.on_run_clicked()
      • OrchestratorWidget.on_stop_clicked()
      • OrchestratorWidget.on_worker_finished()
      • OrchestratorWidget.request_stop_on_close()
    • OrchestratorWorker
      • OrchestratorWorker.finished
      • OrchestratorWorker.progress_init
      • OrchestratorWorker.progress_step
      • OrchestratorWorker.run()
      • OrchestratorWorker.text_ready
    • main()
  • cosedaUI.image_tools module
    • HoverLabel
      • HoverLabel.hovered
      • HoverLabel.mouseMoveEvent()
    • ImageInspector
      • ImageInspector.on_mouse_move()
      • ImageInspector.on_mouse_press()
      • ImageInspector.on_mouse_release()
      • ImageInspector.open_popup()
      • ImageInspector.start_inspect()
    • draw_pixmap_scalebar()
    • export_display_image()
    • export_display_pixmap()
    • export_raw_image()
  • cosedaUI.indexing_stream_manager module
    • IndexingStreamManager
      • IndexingStreamManager.compare_peaks()
      • IndexingStreamManager.ensure_loaded()
      • IndexingStreamManager.find_chunk_with_reflections_from()
      • IndexingStreamManager.get_chunk_for_frame()
      • IndexingStreamManager.get_chunk_index()
      • IndexingStreamManager.get_frame_index_for_chunk()
      • IndexingStreamManager.get_last_chunk_with_reflections()
      • IndexingStreamManager.get_last_error()
      • IndexingStreamManager.get_parsed_stream()
      • IndexingStreamManager.get_reflections_for_frame()
      • IndexingStreamManager.get_stream_peaks_for_frame()
      • IndexingStreamManager.has_chunks()
      • IndexingStreamManager.has_parser()
      • IndexingStreamManager.has_stream_file()
      • IndexingStreamManager.is_loaded()
      • IndexingStreamManager.is_stream_available()
      • IndexingStreamManager.reset_for_new_hdf5()
      • IndexingStreamManager.set_stream_path()
  • cosedaUI.indexintegrate_window module
    • IndexingControlWindow
      • IndexingControlWindow.MAX_INDEXER_THREADS
      • IndexingControlWindow.ProcessOutputThread
      • IndexingControlWindow.ini_selection_changed
  • cosedaUI.mainwindow module
    • AspectRatioWidget
      • AspectRatioWidget.hasHeightForWidth()
      • AspectRatioWidget.heightForWidth()
      • AspectRatioWidget.minimumSizeHint()
      • AspectRatioWidget.set_aspect_ratio()
      • AspectRatioWidget.sizeHint()
    • IniListWidget
      • IniListWidget.dragEnterEvent()
      • IniListWidget.dragMoveEvent()
      • IniListWidget.dropEvent()
      • IniListWidget.files_dropped
    • cosedaUI
      • cosedaUI.add_generated_ini_paths()
      • cosedaUI.add_ini_files()
      • cosedaUI.add_ini_paths()
      • cosedaUI.adjust_brightness()
      • cosedaUI.adjust_brightness_value()
      • cosedaUI.adjust_contrast()
      • cosedaUI.adjust_contrast_value()
      • cosedaUI.adjust_gamma()
      • cosedaUI.adjust_gamma_value()
      • cosedaUI.apply_center_finder_settings()
      • cosedaUI.apply_peakfinder_settings()
      • cosedaUI.calculate_radial_profiles()
      • cosedaUI.change_frame()
      • cosedaUI.change_frame_from_entry()
      • cosedaUI.clear_vdf_overlay()
      • cosedaUI.create_layout()
      • cosedaUI.create_menu()
      • cosedaUI.create_widgets()
      • cosedaUI.display_log_file()
      • cosedaUI.draw_peak_preview()
      • cosedaUI.ensure_atlas_for_current_file()
      • cosedaUI.ensure_index_dataset()
      • cosedaUI.export_current_frame()
      • cosedaUI.export_current_frame_as_shown()
      • cosedaUI.find_strongest_frame()
      • cosedaUI.go_to_strongest_frame()
      • cosedaUI.handle_image_update()
      • cosedaUI.highlight_selected_file()
      • cosedaUI.ini_selection_changed
      • cosedaUI.init_ui()
      • cosedaUI.keyPressEvent()
      • cosedaUI.load_image_from_hdf5()
      • cosedaUI.load_last_directory()
      • cosedaUI.load_last_workspace_state()
      • cosedaUI.new_workspace()
      • cosedaUI.next_frame()
      • cosedaUI.on_frame_order_changed()
      • cosedaUI.on_indexing_run_stream_changed()
      • cosedaUI.on_indexintegrate_requested_select_ini()
      • cosedaUI.on_ini_select()
      • cosedaUI.on_kill_all_clusters()
      • cosedaUI.on_kill_current_cluster()
      • cosedaUI.on_open_dashboard()
      • cosedaUI.on_set_cluster_address()
      • cosedaUI.on_show_strong_peaks_toggled()
      • cosedaUI.on_slider_release()
      • cosedaUI.on_slider_start()
      • cosedaUI.on_toggle_indexing_results()
      • cosedaUI.open_aurora_plot()
      • cosedaUI.open_centerfinder_settings_window()
      • cosedaUI.open_centerrefinement_settings_window()
      • cosedaUI.open_check_metadata_window()
      • cosedaUI.open_export_window()
      • cosedaUI.open_file()
      • cosedaUI.open_import_emd_window()
      • cosedaUI.open_import_h5_window()
      • cosedaUI.open_import_mrc_window()
      • cosedaUI.open_import_tiff_window()
      • cosedaUI.open_index_integrate_window()
      • cosedaUI.open_index_window()
      • cosedaUI.open_map()
      • cosedaUI.open_merge_window()
      • cosedaUI.open_peakfinder_settings_window()
      • cosedaUI.open_strip_files_window()
      • cosedaUI.open_unit_cell_hist_window()
      • cosedaUI.open_workspace()
      • cosedaUI.open_workspace_unit_cell_fit_window()
      • cosedaUI.previous_frame()
      • cosedaUI.reload_current_file()
      • cosedaUI.reload_file_preserve_frame()
      • cosedaUI.remove_ini_files()
      • cosedaUI.report_issue()
      • cosedaUI.resizeEvent()
      • cosedaUI.save_workspace()
      • cosedaUI.save_workspace_state()
      • cosedaUI.set_vdf_overlay()
      • cosedaUI.show_about_window()
      • cosedaUI.show_latest_indexed_frame()
      • cosedaUI.show_next_indexed_frame()
      • cosedaUI.show_pixel_index()
      • cosedaUI.show_previous_indexed_frame()
      • cosedaUI.start_coordinate_selection()
      • cosedaUI.stop_live_preview()
      • cosedaUI.update_frame_from_map_click()
      • cosedaUI.update_image()
      • cosedaUI.update_map_thumbnail()
      • cosedaUI.update_workflow_buttons()
    • enable_opengl()
    • run_app()
    • user_config_dir()
  • cosedaUI.map_window module
    • MapWindow
      • MapWindow.closeEvent()
      • MapWindow.find_closest_available_frame()
      • MapWindow.get_available_intensity_datasets()
      • MapWindow.get_unique_alphatilts()
      • MapWindow.handle_print_option_change()
      • MapWindow.init_ui()
      • MapWindow.on_backlash_offset_changed()
      • MapWindow.on_crystallinity_checkbox_toggle()
      • MapWindow.on_crystallinity_threshold_changed()
      • MapWindow.on_hover()
      • MapWindow.on_image_click()
      • MapWindow.on_vdf_overlay_toggled()
      • MapWindow.on_vdf_slider_changed()
      • MapWindow.plot_data()
      • MapWindow.point_clicked_signal
      • MapWindow.resizeEvent()
      • MapWindow.set_hdf5_path()
  • cosedaUI.merging_window module
    • MergingSettingsWindow
  • cosedaUI.metadata_window module
    • MetadataWindow
      • MetadataWindow.apply_to_workspace()
      • MetadataWindow.confirm_metadata_edit()
      • MetadataWindow.is_metadata_complete()
      • MetadataWindow.load_and_print_acquisition_details()
      • MetadataWindow.on_generate_full_mask_clicked()
      • MetadataWindow.on_pixelmask_btn_clicked()
      • MetadataWindow.on_remove_mask_clicked()
      • MetadataWindow.open_pixel_calc_dialog()
      • MetadataWindow.save_acceleration_voltage()
      • MetadataWindow.save_camera_length_correction()
      • MetadataWindow.save_metadata_field()
      • MetadataWindow.save_pixels_per_meter()
    • PixelCalcDialog
      • PixelCalcDialog.calculate()
      • PixelCalcDialog.on_detector_changed()
  • cosedaUI.peakfinder_window module
    • FocusableLineEdit
      • FocusableLineEdit.focusInEvent()
      • FocusableLineEdit.focusOutEvent()
    • PeakFinderSettingsWindow
      • PeakFinderSettingsWindow.apply_settings()
      • PeakFinderSettingsWindow.check_and_enable_findpeaks_button()
      • PeakFinderSettingsWindow.closeEvent()
      • PeakFinderSettingsWindow.file_progress_updated
      • PeakFinderSettingsWindow.get_parameter_from_config()
      • PeakFinderSettingsWindow.init_ui()
      • PeakFinderSettingsWindow.on_field_focused()
      • PeakFinderSettingsWindow.on_file_progress_updated()
      • PeakFinderSettingsWindow.on_find_peaks_all()
      • PeakFinderSettingsWindow.on_find_peaks_current()
      • PeakFinderSettingsWindow.on_peakfinding_error()
      • PeakFinderSettingsWindow.on_peakfinding_finished()
      • PeakFinderSettingsWindow.on_plot_histogram()
      • PeakFinderSettingsWindow.on_progress_updated()
      • PeakFinderSettingsWindow.on_save_all()
      • PeakFinderSettingsWindow.on_save_current()
      • PeakFinderSettingsWindow.on_setting_changed()
      • PeakFinderSettingsWindow.peakfinding_error
      • PeakFinderSettingsWindow.progress_updated
      • PeakFinderSettingsWindow.receive_coordinate()
      • PeakFinderSettingsWindow.run_findpeaks()
      • PeakFinderSettingsWindow.settings_applied
      • PeakFinderSettingsWindow.update_run_list()
  • cosedaUI.refinecenters_window module
    • CenterRefinementSettingsWindow
      • CenterRefinementSettingsWindow.add_plot_to_viewer()
      • CenterRefinementSettingsWindow.closeEvent()
      • CenterRefinementSettingsWindow.display_selected_plot()
      • CenterRefinementSettingsWindow.get_parameter_from_config()
      • CenterRefinementSettingsWindow.init_ui()
      • CenterRefinementSettingsWindow.on_find_refinement_all()
      • CenterRefinementSettingsWindow.on_find_refinement_current()
      • CenterRefinementSettingsWindow.on_method_change()
      • CenterRefinementSettingsWindow.on_plot_display_label_clicked()
      • CenterRefinementSettingsWindow.on_refinement_cancelled()
      • CenterRefinementSettingsWindow.on_refinement_error()
      • CenterRefinementSettingsWindow.on_refinement_finished()
      • CenterRefinementSettingsWindow.on_save_all()
      • CenterRefinementSettingsWindow.on_save_current()
      • CenterRefinementSettingsWindow.on_stop_clicked()
      • CenterRefinementSettingsWindow.open_plot_image()
      • CenterRefinementSettingsWindow.stop_monitoring()
      • CenterRefinementSettingsWindow.update_plot_viewer()
      • CenterRefinementSettingsWindow.update_refine_progress()
    • ClickableLabel
      • ClickableLabel.mouseReleaseEvent()
    • PreviewWindow
      • PreviewWindow.on_next()
      • PreviewWindow.on_prev()
      • PreviewWindow.on_run_selected()
      • PreviewWindow.update_preview()
    • TrimmingDoubleSpinBox
      • TrimmingDoubleSpinBox.textFromValue()
    • Worker
      • Worker.cancelled
      • Worker.error
      • Worker.finished
      • Worker.request_cancel()
      • Worker.run()
    • decimate()
    • envelope_downsample()
  • cosedaUI.strip_file_window module
    • StripFilesWindow
      • StripFilesWindow.abort_stripping()
      • StripFilesWindow.on_empty_only_checkbox_changed()
      • StripFilesWindow.start_stripping()
    • StripWorker
      • StripWorker.abort()
      • StripWorker.finished
      • StripWorker.progress
      • StripWorker.run()
    • StripWorkerBatch
      • StripWorkerBatch.abort()
      • StripWorkerBatch.file_progress
      • StripWorkerBatch.finished
      • StripWorkerBatch.progress
      • StripWorkerBatch.run()
  • cosedaUI.unitcell_window module
    • UnitCellHistogramWindow
      • UnitCellHistogramWindow.closeEvent()
      • UnitCellHistogramWindow.set_stream_path()
      • UnitCellHistogramWindow.start_auto_refresh()
      • UnitCellHistogramWindow.stop_auto_refresh()
  • cosedaUI.update module
    • check_for_updates()
  • cosedaUI.windowsettings module
    • get_version_from_log()
    • load_changelog()
    • set_style()
  • cosedaUI.workflow_wizzard module
    • check_findcenters_allowed()
    • check_index_integrate_allowed()
    • check_peakfinding_allowed()
    • check_refinecenters_allowed()
    • has_detector_shift()
    • has_mask_dataset()
    • has_peak_dataset()
  • cosedaUI.workspace_functions module
    • add_generated_ini_paths()
    • add_ini_files()
    • add_ini_paths()
    • load_last_directory()
    • load_last_workspace_state()
    • new_workspace()
    • open_workspace()
    • remove_ini_files()
    • save_workspace()
    • save_workspace_state()
  • cosedaUI.workspace_unitcell_fit_window module
    • WorkspaceUnitCellFitWindow
      • WorkspaceUnitCellFitWindow.set_workspace_context()
      • WorkspaceUnitCellFitWindow.set_workspace_ini_paths()
  • Module contents