Trimming

Trimming.__init__.py

Copyright (c) 2021, SAXS Team, KEK-PF

Submodules

• Trimming.AutoRestrictor
  • AutoRestrictor
    • AutoRestrictor.correct_inconsistent_extensions()
    • AutoRestrictor.get_better_restriction()
    • AutoRestrictor.get_better_restriction_impl()
    • AutoRestrictor.get_major_emg_peaks_list()
    • AutoRestrictor.get_mapped_points()
    • AutoRestrictor.get_sigma_restriction()
    • AutoRestrictor.get_simple_sigma_points()
    • AutoRestrictor.get_simple_sigma_points_impl()
    • AutoRestrictor.get_them_roughly()
    • AutoRestrictor.get_uv_sigma_points()
    • AutoRestrictor.map_back_to_xray()
    • AutoRestrictor.modify_limits_using_moments()
    • AutoRestrictor.mpeaks
    • AutoRestrictor.proof_plot()
    • AutoRestrictor.reconsider_using_lower_peak_model()
    • AutoRestrictor.set_correponding_point()
    • AutoRestrictor.try_adding_minor_peak()
  • PeakMathcingError
  • get_exact_emg_peaks_list()
• Trimming.AutoRestrictorProxy
  • AutoRestrictorProxy
• Trimming.CdLimit
  • CdLimit
    • CdLimit.get_limit()
    • CdLimit.get_limit_impl()
• Trimming.CustomSigmoid
  • custom_sigmoid()
  • custom_sigmoid_inv()
  • get_safer_point_impl()
• Trimming.DataRange
  • DataRangeDialog
    • DataRangeDialog.apply()
    • DataRangeDialog.buttonbox()
    • DataRangeDialog.exec_callback()
    • DataRangeDialog.get_frame_class()
    • DataRangeDialog.show_it_at_a_glance()
  • DataRestrictor2dFrame
    • DataRestrictor2dFrame.add_popup_menu_bind()
    • DataRestrictor2dFrame.build_bframe()
    • DataRestrictor2dFrame.cb_tracer()
    • DataRestrictor2dFrame.create_gradual_analysis()
    • DataRestrictor2dFrame.create_popup_menu()
    • DataRestrictor2dFrame.draw_flat_wavelength()
    • DataRestrictor2dFrame.draw_restrict_lines()
    • DataRestrictor2dFrame.draw_selection()
    • DataRestrictor2dFrame.draw_selection_guide()
    • DataRestrictor2dFrame.get_restrict_info()
    • DataRestrictor2dFrame.has_gra_dialog()
    • DataRestrictor2dFrame.on_figure_click()
    • DataRestrictor2dFrame.onselect()
    • DataRestrictor2dFrame.set_from_opposite_data_info()
    • DataRestrictor2dFrame.show_extra_info()
    • DataRestrictor2dFrame.show_gradual_analysis()
    • DataRestrictor2dFrame.show_guinier_inspector()
    • DataRestrictor2dFrame.show_popup_menu()
    • DataRestrictor2dFrame.spinbox_tracer()
  • DataRestrictorFrame
    • DataRestrictorFrame.get_frame_classes()
• Trimming.DataRangeTestUtils
  • Manipulator
    • Manipulator.do_for_a_file()
    • Manipulator.manipulate()
    • Manipulator.prepare_out_folder()
    • Manipulator.run_for_all()
    • Manipulator.save_the_figure()
• Trimming.DiniSigmoid
  • demo()
  • dini_sigmoid()
  • dini_sigmoid_inv()
• Trimming.EndingAnomaly
  • check_ending_anomaly()
• Trimming.FlangeLimit
  • FlangeLimit
    • FlangeLimit.get_limit()
    • FlangeLimit.get_limit_impl()
• Trimming.FlowChange
  • FlowChange
    • FlowChange.get_flow_changes()
    • FlowChange.get_mapped_flow_changes()
    • FlowChange.get_raw_flow_changes()
    • FlowChange.get_real_flow_changes()
    • FlowChange.get_safe_flow_changes()
    • FlowChange.get_safer_point()
    • FlowChange.get_similarity()
    • FlowChange.get_solver_info()
    • FlowChange.has_special()
    • FlowChange.remove_irregular_points()
• Trimming.FlowChangeCandidates
  • get_largest_gradients()
  • get_ppk()
• Trimming.FlowChangePrep
  • flatten_remaining_peak()
  • get_easier_curve_y()
• Trimming.FlowChangeTestUtils
  • Manipulator
    • Manipulator.do_for_a_file()
    • Manipulator.prepare_out_folder()
    • Manipulator.run_for_all()
• Trimming.FlowChangeUtils
  • fit_sigmoid_impl()
  • fit_sigmoid_impl_impl()
  • is_ignorable_L_ratio()
• Trimming.GradualRegionAnalysis
  • GradualRegionAnalysis
    • GradualRegionAnalysis.body()
    • GradualRegionAnalysis.buttonbox()
    • GradualRegionAnalysis.cancel()
    • GradualRegionAnalysis.compute_info_with_changed_trimming()
    • GradualRegionAnalysis.determine_analysis_range()
    • GradualRegionAnalysis.on_click()
    • GradualRegionAnalysis.set_geometry()
    • GradualRegionAnalysis.show()
  • survey_summary()
• Trimming.GuinierLimit
  • GuinierLimit
    • GuinierLimit.compute_extrapolated_curve()
    • GuinierLimit.determine_safe_start()
    • GuinierLimit.get_limit()
    • GuinierLimit.get_safe_check_stop()
• Trimming.GuinierRegion
  • GuinierRegionInspector
    • GuinierRegionInspector.body()
    • GuinierRegionInspector.compute_corrected_info()
    • GuinierRegionInspector.determin_2d_fig_limit()
    • GuinierRegionInspector.draw_3d()
    • GuinierRegionInspector.draw_corrected_start()
    • GuinierRegionInspector.draw_default_start()
    • GuinierRegionInspector.draw_start_impl()
    • GuinierRegionInspector.plot_guinier_line()
    • GuinierRegionInspector.save_the_figure()
    • GuinierRegionInspector.show()
• Trimming.MatchingPeaks
  • MatchingPeaks
    • MatchingPeaks.debug_plot_emg_peaks()
    • MatchingPeaks.get_matching_peak_lists()
  • compute_matching_indeces()
• Trimming.MomentTrimming
  • get_info_from_optview_range()
  • get_moment_trimming_info()
  • moment_trimming_info_debug_plot()
  • set_moment_trimming_info()
• Trimming.OptViewRange
  • OptViewRange
    • OptViewRange.get_range()
  • correct_largely_negative_values()
  • get_opt_view_range()
• Trimming.OptimalTrimming
  • OptimalTrimming
    • OptimalTrimming.get_base_curve_info()
    • OptimalTrimming.set_info()
  • get_start_stop_from_list()
  • including_fc_pos()
  • spike()
• Trimming.OutlineFigure
  • OutlineFigure
    • OutlineFigure.clear_figures()
    • OutlineFigure.compute_rg()
    • OutlineFigure.create_popup_menu()
    • OutlineFigure.draw_figure()
    • OutlineFigure.draw_figure1()
    • OutlineFigure.draw_figure2()
    • OutlineFigure.draw_guide_message()
    • OutlineFigure.draw_outline_elution()
    • OutlineFigure.draw_rg_text()
    • OutlineFigure.format_func()
    • OutlineFigure.get_restrict_info()
    • OutlineFigure.on_mpl_button_press()
    • OutlineFigure.on_mpl_motion_notify()
    • OutlineFigure.save_the_elution_curve()
    • OutlineFigure.save_the_figure()
    • OutlineFigure.save_the_upper_figure()
    • OutlineFigure.set_data()
    • OutlineFigure.show_abnomality_check_dialog()
    • OutlineFigure.show_datarange_dialog()
    • OutlineFigure.update_elution_curve()
• Trimming.OutlineFigureSaver
  • save_the_elution_curve_impl()
  • save_the_figure_trial_impl()
  • save_the_upper_figure_impl()
• Trimming.PeakRegion
  • PeakRegion
    • PeakRegion.can_be_treated_as_usual()
    • PeakRegion.compute_cumsum()
    • PeakRegion.compute_cumsum_from_uv()
    • PeakRegion.compute_cumsum_impl()
    • PeakRegion.get_distance_ratio()
    • PeakRegion.get_ends()
    • PeakRegion.get_first_peak()
    • PeakRegion.get_outside()
    • PeakRegion.get_peak_ends()
    • PeakRegion.get_peak_ends_impl()
    • PeakRegion.get_peak_ends_with_rotation()
    • PeakRegion.get_significance_ratio()
    • PeakRegion.get_size()
    • PeakRegion.get_slice()
    • PeakRegion.get_wider_ends()
    • PeakRegion.is_in_the_region()
    • PeakRegion.is_in_the_wider_region()
    • PeakRegion.is_special()
    • PeakRegion.peak_ends_safety_check()
    • PeakRegion.set_default_ends()
    • PeakRegion.set_peak_ends_with_traditional_infos()
    • PeakRegion.set_wider_ends()
• Trimming.PeakRegionTestUtils
  • Manipulator
    • Manipulator.do_for_a_file()
    • Manipulator.prepare_out_folder()
    • Manipulator.run_for_all()
• Trimming.PreliminaryRecognition
  • PreliminaryRecognition
    • PreliminaryRecognition.get_angle_range()
    • PreliminaryRecognition.get_default_angle_range()
    • PreliminaryRecognition.get_flow_changes()
    • PreliminaryRecognition.get_gunier_interval()
    • PreliminaryRecognition.get_pre_recog_copy()
    • PreliminaryRecognition.get_real_flow_changes()
    • PreliminaryRecognition.get_restrict_list_from_uv_flow_changes()
    • PreliminaryRecognition.get_restricted_mapped_info()
    • PreliminaryRecognition.get_rg()
    • PreliminaryRecognition.get_uv_slices()
    • PreliminaryRecognition.get_xr_slices()
    • PreliminaryRecognition.get_xray_shift()
    • PreliminaryRecognition.reset_restrict_info()
    • PreliminaryRecognition.restrict_info_changed()
    • PreliminaryRecognition.set_info()
    • PreliminaryRecognition.set_restrict_info()
    • PreliminaryRecognition.verify_approx_mapping()
  • get_slices_impl()
• Trimming.PreliminaryRg
  • PreliminaryRg
    • PreliminaryRg.compute_rg()
    • PreliminaryRg.get_guinier_start_index()
    • PreliminaryRg.get_scattering_y()
  • get_default_angle_range_impl()
  • get_flange_limit()
  • get_small_anlge_limit()
• Trimming.Sigmoid
  • adjust_ex_sigmoid()
  • bent_sigmoid()
  • bent_sigmoid_inv()
  • ex_sigmoid()
  • ex_sigmoid_inv()
  • fit_bent_sigmoid()
  • guess_bent_sigmoid()
  • guess_x0()
  • sigmoid()
  • sigmoid_inv()
• Trimming.SigmoidApplicability
  • check_applicability()
• Trimming.SigmoidChain
  • SigmoidChain
    • SigmoidChain.evaluate()
    • SigmoidChain.plot_segments()
• Trimming.SigmoidDemo
  • basic_demo()
  • real_demo()
• Trimming.SigmoidGuessX0
  • guess_x0_impl()
• Trimming.SpecialSigmoid
  • guess_special_sigmoid_params()
• Trimming.TrimmingDebugDnd
  • TrimmingDebugDnd
    • TrimmingDebugDnd.decode_ret_info()
    • TrimmingDebugDnd.on_drag()
    • TrimmingDebugDnd.on_drop()
• Trimming.TrimmingDebugUtils
  • plot_restrict_lines()
  • plot_side_sigma_points()
  • trimming_debug_plot()
  • trimming_result_plot()
  • trimming_result_plot_impl()
• Trimming.TrimmingInfo
  • TrimmingInfo
    • TrimmingInfo.get_safe_object()
    • TrimmingInfo.get_slice()
  • get_mapped_info()
  • get_trimming_ends_from_list()
  • get_trimming_info_list()
  • get_trimming_slices_from_list()
  • get_wider_info()
  • load_trimming_txt()
  • restore_trimming_info_impl()
  • save_trimming_txt()
  • seem_to_be_manually_trimmed()
  • set_trimming_info_list()
• Trimming.TrimmingInspection
  • ElutionTrimmingDialog
    • ElutionTrimmingDialog.body()
    • ElutionTrimmingDialog.cancel()
    • ElutionTrimmingDialog.draw_elution()
    • ElutionTrimmingDialog.save_the_figure()
    • ElutionTrimmingDialog.show()
• Trimming.TrimmingResult
  • TrimmingResultDialog
    • TrimmingResultDialog.body()
    • TrimmingResultDialog.buttonbox()
    • TrimmingResultDialog.get_trimming_info()
    • TrimmingResultDialog.on_figure_click()
    • TrimmingResultDialog.redraw()
    • TrimmingResultDialog.show()
    • TrimmingResultDialog.show_debug_dnd()
    • TrimmingResultDialog.show_popup_menu()
• Trimming.TrimmingUtils
  • get_default_uv_wl_trimming()
• Trimming.UvBaseSolver
  • UvBaseSolver
    • UvBaseSolver.get_baseline()
    • UvBaseSolver.solve()
  • get_lrf_elution_base()
• Trimming.UvBaseSolverInfo
  • guess_better_sigmoid_params()
  • guess_distortion_params()
  • make_info_lists()
• Trimming.UvCorrector
  • UvCorrector
    • UvCorrector.correction_curve()
    • UvCorrector.find_widest_possible_ends()
    • UvCorrector.fit()
    • UvCorrector.get_corrected_ppn()
    • UvCorrector.get_corrected_y()
    • UvCorrector.get_widest_possible_fit_slice()
• Trimming.UvCorrectorEgh
  • UvCorrectorEgh
    • UvCorrectorEgh.correction_curve()
    • UvCorrectorEgh.fit()
    • UvCorrectorEgh.model_curve()
• Trimming.UvCorrectorIllust
  • debug_plot()
  • illust()
• Trimming.UvCorrectorSpline
  • UvCorrectorSpline
    • UvCorrectorSpline.correction_curve()
    • UvCorrectorSpline.derivative_curve()
    • UvCorrectorSpline.fit()
• Trimming.UvCorrectorTestUtils
  • Manipulator
    • Manipulator.do_for_a_file()
    • Manipulator.prepare_out_folder()
    • Manipulator.run_for_all()
• Trimming.UvDiffEffects
  • draw_2d_figs()
  • get_uv_data_from_file()
  • investigate_diff_effects()