Index

A

absorption_correction() (LaueData method) (NuclearStructureRefinement method) AbsorptionCorrection (class in garnet.utilities.reflections) add_absorption_extinction_parameters() (NuclearStructureRefinement method) add_beam_parameters() (NuclearStructureRefinement method) add_data_norm_fit() (PeakPlot method) add_detector_run_scale_parameters() (NuclearStructureRefinement method) add_diagnostic_info() (PeakModel method) add_ellipsoid() (PeakPlot method) add_ellipsoid_fit() (PeakPlot method) add_estimated_ellipsoid() (PeakPlot method) add_filter() (PeakPlot method) add_integral_fit() (PeakPlot method) add_material_info() (CrystalStructure method) add_peak() (PeaksModel method) add_peak_info() (PeakPlot method) add_peak_stats() (PeakPlot method) add_plot() (Pages method) add_profile_bkg() (PeakPlot method)

add_profile_fit() (PeakPlot method) add_projection_fit() (PeakPlot method) add_sample_info() (SampleParameters method) add_UBW() (BaseDataModel method) add_with_padding() (Integration method) append_name() (Integration method) (Normalization method) (Parametrization method) (SubPlan method) apply() (ResolutionEllipsoid method) apply_absorption_correction() (Vanadium method) apply_calibration() (LaueData method) (Vanadium method) apply_correction() (AbsorptionCorrection method) (StructureAnalysis method) apply_mask() (LaueData method) apply_masks() (Vanadium method) approximate_norm() (LaueData method) AutoReduce (class in garnet.utilities.autoreduce)

B

B_matrix() (Optimization method) (RefineSingleCrystalGoniometer method) background_profile() (PeakEllipsoid method) BaseDataModel (class in garnet.reduction.data)

BasePlot (class in garnet.plots.base) beam_weights() (NuclearStructureRefinement method) bin_in_Q() (BaseDataModel method) binning_name() (Normalization method) (Parametrization method)

C

calculate_binning_from_bins() (BaseDataModel method) calculate_binning_from_step() (BaseDataModel method) calculate_correction() (AbsorptionCorrection method) calculate_ellipsoid_surface() (NuclearStructureRefinement method) calculate_goniometer() (RefineSingleCrystalGoniometer method) calculate_goniometer_angles() (Calibration method) calculate_goniometer_matrix() (Calibration method) calculate_hkl() (UBModel method) calculate_intensity() (PeakEllipsoid method) calculate_limits() (Peaks method) calculate_maximum_Q() (LaueData method) calculate_orientation_matrix() (Calibration method) calculate_orientation_vector() (Calibration method) calculate_scale_factor() (NuclearStructureRefinement method) calculate_statistics() (NuclearStructureRefinement method) (Peaks method) calculate_structure_amplitudes() (NuclearStructureRefinement method) calculate_structure_factors() (NuclearStructureRefinement method) calculate_tilt_matrices() (Calibration method) calculate_tilt_matrix() (Calibration method) calculate_transform() (Laue method) calculate_transform_extents() (UBModel method) calculate_transforms() (SlicePlot method) CalculateUB (class in garnet.utilities.calculate) calibrate_goniometer() (Calibration method) calibrate_instrument() (Calibration method) Calibration (class in garnet.utilities.calibration) cartesian_matrix_metric_tensor() (CalculateUB method) cell_centering_name() (Integration method) cell_symmetry_matrices() (Calibration method) (Reorient method) centering_matrix() (UBModel method) centroid_inverse_covariance() (PeakEllipsoid method) centroid_peaks() (PeaksModel method) check() (in module garnet.reduction.plan) (ReductionPlan method) (SubPlan method) check_volume_preservation() (BaseDataModel method) chemical_formula_z_parameter() (NuclearStructureRefinement method) cleanup() (SubPlan method)

clear_norm() (BaseDataModel method) close() (BasePlot method) (Pages method) coerce_weight() (PeakEllipsoid method) coerce_weights() (PeakEllipsoid method) collect_mode_fit_metrics() (PeakEllipsoid method) combine() (in module garnet.utilities.combine) (Integration method) (Normalization method), [1] (Parametrization method) combine_files() (BaseDataModel method) combine_histograms() (BaseDataModel method) combine_parallel() (Integration static method) (Normalization static method), [1] (Parametrization static method) combine_peaks() (PeaksModel method) combine_Q_sample() (BaseDataModel method) combine_splits() (BaseDataModel method) compress() (AutoReduce method) confirm_autoreduce() (in module garnet.utilities.confirm) convert_conventional_to_primitive() (Laue method) (UBModel method) convert_peaks() (PeaksModel method) convert_to_hkl() (LaueData method) convert_to_Q_lab() (LaueData method) convert_to_Q_sample() (LaueData method) (MonochromaticData method) copy_combine() (PeakEllipsoid method) copy_UB() (UBModel method) cost() (CalculateUB method) (FindUB method) (NuclearStructureRefinement method) counts_to_intensity_uncertainty() (PeakEllipsoid method) create_directories() (SubPlan method) create_peaks() (PeaksModel method) crop_for_normalization() (LaueData method) CrystalStructure (class in garnet.utilities.crystal) CrystalStructurePlot (class in garnet.plots.crystal) cubic() (CalculateUB method) (Optimization method) (RefineSingleCrystalGoniometer method)

D

data_norm() (PeakEllipsoid method) DataModel() (in module garnet.reduction.data) delete_directory() (in module garnet.reduction.plan) delete_peaks() (PeaksModel method) delete_workspace() (BaseDataModel method) det_S() (PeakEllipsoid method)

detector_bank_scale_factors() (NuclearStructureRefinement method) determine_UB_with_lattice_parameters() (UBModel method) determine_UB_with_primitive_cell() (UBModel method) diagnostics() (ResolutionEllipsoid method) divide_histograms() (BaseDataModel method) draw_boundary() (PeakProfilePlot method) Dumper (class in garnet.reduction.plan)

E

elastic() (AutoReduce method) elastic_name() (Normalization method) (Parametrization method) ellipsoid_covariance() (PeakEllipsoid method) ellipsoid_parameters() (NuclearStructureRefinement method) estimate_center_weighted() (PeakEllipsoid method) estimate_envelope() (PeakEllipsoid method) estimate_intensity() (PeakEllipsoid method) estimate_peak_strength() (PeakEllipsoid method) estimate_prior_sigmas() (ResolutionEllipsoid method) extents_name() (Normalization method) (Parametrization method) extinction_correction() (NuclearStructureRefinement method)

extinction_xp() (NuclearStructureRefinement method) extinction_xs() (NuclearStructureRefinement method) extinction_xx() (NuclearStructureRefinement method) extract_amplitude_background() (PeakEllipsoid method) extract_axis_info() (BaseDataModel method) extract_bin_info() (BaseDataModel method) extract_counts() (BaseDataModel method) extract_info() (NuclearStructureRefinement method) extract_intensity() (PeakEllipsoid method) extract_parameters() (NuclearStructureRefinement method) extract_peak_info() (Integration method) extract_peaks_roi() (PeaksModel method) extract_raw_intensity() (PeakEllipsoid method) extract_result() (PeakEllipsoid method)

F

file_names() (BaseDataModel method) filter_events() (LaueData method) filter_unique_hkl() (PeaksModel method) finalize_and_save() (Peaks method) (Vanadium method) find_partial_files() (in module garnet.utilities.combine) find_peaks() (PeaksModel method)

find_UB() (Laue method) FindUB (class in garnet.reduction.ub) fit() (PeakEllipsoid method) (ResolutionEllipsoid method) fitted_profile() (PeakEllipsoid method) fix_offsets() (Calibration method) fixed() (Optimization method) (RefineSingleCrystalGoniometer method)

G

garnet module garnet.config module garnet.config.instruments module garnet.plots module garnet.plots.base module garnet.plots.colors module garnet.plots.crystal module garnet.plots.peaks module garnet.plots.volume module garnet.reduction module garnet.reduction.background module garnet.reduction.crystallography module garnet.reduction.data module garnet.reduction.ellipsoid module garnet.reduction.integration module garnet.reduction.normalization module garnet.reduction.parametrization module garnet.reduction.peaks module garnet.reduction.plan module garnet.reduction.resolution module garnet.reduction.sample module garnet.reduction.ub module garnet.utilities module garnet.utilities.autoreduce module garnet.utilities.calculate module garnet.utilities.calibration module garnet.utilities.combine module garnet.utilities.confirm module garnet.utilities.crystal module garnet.utilities.macromolecular module garnet.utilities.peaks module garnet.utilities.refinement module garnet.utilities.reflections module garnet.utilities.structure module garnet.utilities.vanadium module gaussian() (PeakEllipsoid method) gaussian_integral() (PeakEllipsoid method)

gaussian_integral_jac_S() (PeakEllipsoid method) gaussian_jac_c() (PeakEllipsoid method) gaussian_jac_S() (PeakEllipsoid method) generate_diagnostic() (Calibration method) generate_lattice_transforms() (UBModel method) generate_parameters() (NuclearStructureRefinement method) generate_plan() (ReductionPlan method) generate_symmetry_transforms() (NuclearStructureRefinement method) get_all_goniometer_matrices() (PeaksModel method) get_angles() (PeakModel method) get_bank_name() (PeakModel method) get_bank_names() (PeaksModel method) get_cell() (Peaks method) get_chemical_formula_z_parameter() (CrystalStructure method) get_counting_rate() (BaseDataModel method) (LaueData method) get_crystal_structure() (CrystalStructurePlot method) get_d_from_ub() (PeakModel method) get_d_spacing() (PeakModel method) get_detector_id() (PeakModel method) get_diagnostic_file() (SubPlan method) get_diagnostic_path() (SubPlan method) get_file() (Integration method) (Normalization method), [1] (Parametrization method) get_file_name_list() (BaseDataModel method) get_goniometer_angles() (PeakModel method) get_goniometer_matrix() (PeakModel method) get_hkl() (PeakModel method) get_hkl_limits() (BaseDataModel method) get_hklmnp() (PeakModel method) get_lattice_constants() (CalculateUB method) (CrystalStructure method) get_lattice_parameters() (Optimization method) (RefineSingleCrystalGoniometer method) (UBModel method) get_material() (SampleMaterial method) get_max_d_spacing() (PeaksModel method) (UBModel method) get_min_max_values() (BaseDataModel method) get_monitor_ratio() (LaueData method) get_number_peaks() (PeakModel method) (PeaksModel method) get_orientation_angles() (Optimization method) (RefineSingleCrystalGoniometer method) get_orientation_parameters() (CalculateUB method) get_output_file() (SubPlan method) get_output_path() (SubPlan method) get_peak_name() (PeakModel method) get_peak_shape() (PeakModel method) get_peaks_name() (PeaksModel method) get_plot_file() (SubPlan method) get_plot_path() (SubPlan method) get_primitive_cell_length_range() (UBModel method) get_projection_matrix() (PeakModel method) get_projection_peak_origin() (PeakModel method) get_resolution_in_Q() (BaseDataModel method) get_sample_material() (SampleMaterial method) get_sample_Q() (PeakModel method) get_scatterers() (CrystalStructure method) get_shape() (SampleMaterial method) get_signal_to_noise() (PeakModel method) get_space_group() (CrystalStructure method) get_UB() (FindUB method) (Optimization method) (PeakModel method) (PeaksModel method) get_unit_cell_volume() (CrystalStructure method) get_volume_in_Q() (LaueData method) get_wavelength() (PeakModel method) gravity_angle() (Calibration method) grouping_list() (LaueData method)

H

has_UB() (UBModel method) hexagonal() (CalculateUB method) (Optimization method) (RefineSingleCrystalGoniometer method)

I

index() (CalculateUB method) index_peaks() (PeaksModel method) (UBModel method) indexer() (CalculateUB method) initialize_correction() (NuclearStructureRefinement method) initialize_crystal_structure() (NuclearStructureRefinement method) initialize_material() (NuclearStructureRefinement method) initialize_peaks() (Calibration method) initialize_unit_cell_atoms() (NuclearStructureRefinement method) integrate() (Integration method) (PeakEllipsoid method)

integrate_parallel() (Integration static method) integrate_peaks() (Integration method) (PeaksModel method) Integration (class in garnet.reduction.integration) intensity_profile() (PeaksModel method) intensity_projection() (PeaksModel method) intensity_vs_radius() (PeaksModel method) inv_S_deriv_r() (PeakEllipsoid method) inv_S_deriv_u() (PeakEllipsoid method) inv_S_matrix() (PeakEllipsoid method)

J

jacobian() (PeakEllipsoid method) jacobian_1d() (PeakEllipsoid method)

jacobian_2d() (PeakEllipsoid method) jacobian_3d() (PeakEllipsoid method) jacobian_mode_poisson() (PeakEllipsoid method)

L

Laue (class in garnet.utilities.peaks) LaueData (class in garnet.reduction.data) load_background() (LaueData method) (MonochromaticData method) load_clear_UB() (BaseDataModel method) load_convert_runs() (Peaks method) load_data() (LaueData method) (MonochromaticData method) load_generate_normalization() (LaueData method) (MonochromaticData method) load_histograms() (BaseDataModel method) load_hkls() (NuclearStructureRefinement method) load_instrument() (Calibration method) (Peaks method) (Vanadium method)

load_peaks() (Calibration method) (Peaks method) (PeaksModel method) (StructureAnalysis method) load_plan() (ReductionPlan method) load_runs() (Vanadium method) load_spectrum() (Peaks method) load_UB() (UBModel method) load_YAML() (in module garnet.reduction.plan) log_name() (Parametrization method) log_split_info() (BaseDataModel method)

M

Macromolecular (class in garnet.utilities.macromolecular) main() (in module garnet.utilities.reflections) make_slice() (SlicePlot method) mask_to_bank() (LaueData method) matched_filter() (PeakEllipsoid method) matrices() (CrystalStructurePlot method) median_absolute_devation() (Peaks method) merge_intensities() (Peaks method) merge_Q_sample() (BaseDataModel method) metric_G_star_tensor() (CalculateUB method) metric_G_tensor() (CalculateUB method) metric_tensor() (FindUB method) minimize() (CalculateUB method) (Reorient method) mode_model_counts() (PeakEllipsoid method) modulation_name() (Integration method) module garnet garnet.config garnet.config.instruments garnet.plots garnet.plots.base garnet.plots.colors garnet.plots.crystal garnet.plots.peaks garnet.plots.volume garnet.reduction garnet.reduction.background garnet.reduction.crystallography garnet.reduction.data garnet.reduction.ellipsoid garnet.reduction.integration garnet.reduction.normalization garnet.reduction.parametrization garnet.reduction.peaks garnet.reduction.plan garnet.reduction.resolution garnet.reduction.sample garnet.reduction.ub garnet.utilities garnet.utilities.autoreduce garnet.utilities.calculate garnet.utilities.calibration garnet.utilities.combine garnet.utilities.confirm garnet.utilities.crystal garnet.utilities.macromolecular garnet.utilities.peaks garnet.utilities.refinement garnet.utilities.reflections garnet.utilities.structure garnet.utilities.vanadium

MonochromaticData (class in garnet.reduction.data) monoclinic() (CalculateUB method) (Optimization method) (RefineSingleCrystalGoniometer method)

N

Normalization (class in garnet.reduction.background) (class in garnet.reduction.normalization) normalization_correction() (NuclearStructureRefinement method) normalize() (Normalization method), [1] (PeakEllipsoid method)

normalize_parallel() (Normalization static method), [1] normalize_to_hkl() (LaueData method) (MonochromaticData method) NuclearStructureRefinement (class in garnet.utilities.refinement)

O

objective() (CalculateUB method) (FindUB method) objective_correction() (NuclearStructureRefinement method) objective_structure() (NuclearStructureRefinement method) Optimization (class in garnet.reduction.ub) optimize_goniometer() (Calibration method) optimize_lattice() (Optimization method) (RefineSingleCrystalGoniometer method)

optimize_lattice_only() (Optimization method) orientation_matrix() (FindUB method) orientation_U() (CalculateUB method) orthorhombic() (CalculateUB method) (Optimization method) (RefineSingleCrystalGoniometer method)

P

pad_to_shape() (Integration method) Pages (class in garnet.plots.base) Parametrization (class in garnet.reduction.parametrization) parametrize() (Parametrization method) parametrize_parallel() (Parametrization static method) params() (CrystalStructurePlot method) parse_args() (in module garnet.utilities.combine) peak_info() (Peaks method) peak_roi() (PeakEllipsoid method) PeakCentroidPlot (class in garnet.plots.peaks) PeakEllipsoid (class in garnet.reduction.ellipsoid) PeakEstimatePlot (class in garnet.plots.peaks) PeakModel (class in garnet.reduction.peaks) PeakPlot (class in garnet.plots.peaks) PeakProfilePlot (class in garnet.plots.peaks) Peaks (class in garnet.utilities.peaks) (class in garnet.utilities.reflections) PeaksModel (class in garnet.reduction.peaks) plot() (CrystalStructurePlot method) plot_absorption_correction() (NuclearStructureRefinement method) plot_diagnostics() (ResolutionEllipsoid method) plot_hkl_families() (NuclearStructureRefinement method) plot_instrument() (AutoReduce method) plot_peak_bins() (PeakEstimatePlot method) (PeakProfilePlot method)

plot_peaks() (PeakProfilePlot method) plot_result() (NuclearStructureRefinement method) plot_sample_shape() (NuclearStructureRefinement method) plot_wobble_correction() (NuclearStructureRefinement method) poisson_deviance_fit() (PeakEllipsoid method) poisson_deviance_residual_factor() (PeakEllipsoid method) possible_conventional_cells() (UBModel method) predict_add_satellite_peaks() (Integration method) predict_lab_cov() (ResolutionEllipsoid method) predict_modulated_peaks() (PeaksModel method) predict_peaks() (PeaksModel method) predict_sample_cov() (ResolutionEllipsoid method) predict_satellite_peaks() (PeaksModel method) prepare_absorption_table() (NuclearStructureRefinement method) preprocess_detector_banks() (LaueData method) preprocess_detectors() (LaueData method) prior_jacobian() (PeakEllipsoid method) prior_residual() (PeakEllipsoid method) prior_strength_from_sn() (PeakEllipsoid method) process_data() (Vanadium method) profile_project() (PeakEllipsoid method) project_background() (PeakEllipsoid method) projection_name() (Normalization method) (Parametrization method) publish_plots() (AutoReduce method)

Q

quick_gaussian() (PeakEllipsoid method)

R

reciprocal_lattice_B() (CalculateUB method) ReductionPlan (class in garnet.reduction.plan) refimenent() (StructureAnalysis method) refine() (CalculateUB method) (NuclearStructureRefinement method) refine_ellipsoids() (Peaks method) refine_goniometer() (Calibration method) refine_offsets() (Calibration method) refine_U_only() (UBModel method) refine_UB() (Laue method) (Peaks method) refine_UB_with_constraints() (UBModel method) refine_UB_without_constraints() (UBModel method) RefineSingleCrystalGoniometer (class in garnet.reduction.ub) reindex_peaks() (Calibration method) remove_aluminum_contamination() (PeaksModel method) remove_duplicate_peaks() (PeaksModel method) remove_non_indexed() (Peaks method) remove_non_integrated() (Peaks method) remove_off_centered() (Peaks method) remove_peaks_by_d_tolerance() (PeaksModel method) remove_unindexed_peaks() (PeaksModel method) remove_volume_outliers() (Peaks method) remove_weak_peaks() (PeaksModel method) renormalize_intensities() (Peaks method) renumber_peaks() (Peaks method) renumber_runs_by_index() (PeaksModel method)

Reorient (class in garnet.reduction.ub) report() (NuclearStructureRefinement method) represent_list() (Dumper method) rescale_intensities() (Peaks method) reset_satellite() (Peaks method) reset_satellites() (PeaksModel method) residual() (CalculateUB method) (Calibration method) (Optimization method) (PeakEllipsoid method) (RefineSingleCrystalGoniometer method) residual_1d() (PeakEllipsoid method) residual_2d() (PeakEllipsoid method) residual_3d() (PeakEllipsoid method) residual_mode_poisson() (PeakEllipsoid method) resolution_name() (Integration method) ResolutionEllipsoid (class in garnet.reduction.resolution) resort_hkl() (Peaks method) rhombohedral() (CalculateUB method) (Optimization method) (RefineSingleCrystalGoniometer method) robust_nnls() (ResolutionEllipsoid method) run() (Calibration method) (Peaks method) (Vanadium method) run_angle_scale_factors() (NuclearStructureRefinement method) runs_list_to_string() (ReductionPlan method) runs_string_to_list() (ReductionPlan method)

S

S_matrix() (PeakEllipsoid method) safe_sn() (PeakEllipsoid method) SampleMaterial (class in garnet.reduction.sample) SampleParameters (class in garnet.utilities.crystal) save_corrected_peaks() (NuclearStructureRefinement method) save_detector_scales() (NuclearStructureRefinement method) save_ellipsoid_stl() (AbsorptionCorrection method) (SampleMaterial method) save_histograms() (BaseDataModel method) save_hkl_cw() (PeaksModel method) save_JSON() (in module garnet.reduction.plan) save_mtz() (StructureAnalysis method) save_peaks() (Peaks method) (PeaksModel method) (StructureAnalysis method) save_plan() (ReductionPlan method) save_plot() (BasePlot method) (PeakPlot method) save_UB() (BaseDataModel method) (UBModel method) save_YAML() (in module garnet.reduction.plan) scan_threshold() (PeaksModel method) ScanPlot (class in garnet.plots.peaks) select_cell() (UBModel method) select_type() (UBModel method) set_goniometer() (BaseDataModel method) (PeaksModel method) set_hklmnp() (PeakModel method) set_lattice_constants() (CalculateUB method) set_material() (AbsorptionCorrection method) (SampleMaterial method)

set_orientation() (AbsorptionCorrection method) set_orientation_parameters() (CalculateUB method) set_output() (ReductionPlan method) set_peak_center() (PeakModel method) set_peak_intensity() (PeakModel method) set_peak_shape() (PeakModel method) set_resolution_sigma() (PeakEllipsoid method) set_sample() (SampleMaterial method) set_sample_geometry() (Vanadium method) set_scale_factor() (PeakModel method) set_shape() (AbsorptionCorrection method) (SampleMaterial method) set_wavelength() (PeakModel method) shortest_reciprocal_spacing() (UBModel method) slice_extents() (BaseDataModel method) slice_roi() (BaseDataModel method) SlicePlot (class in garnet.plots.volume) softplus() (CalculateUB method) sort_peaks_by_bank() (PeaksModel method) sort_peaks_by_d() (PeaksModel method) sort_peaks_by_hkl() (PeaksModel method) spherical_absorption() (NuclearStructureRefinement method) spherical_absorption_correction() (NuclearStructureRefinement method) spherical_extinction() (NuclearStructureRefinement method) StructureAnalysis (class in garnet.utilities.structure) SubPlan (class in garnet.reduction.plan) subtract_background() (LaueData method) (Vanadium method) subtract_histograms() (BaseDataModel method) subtract_profile() (PeakEllipsoid method) sweep() (PeakEllipsoid method) symmetry_name() (Normalization method), [1]

T

template_integration() (ReductionPlan method) template_normalization() (ReductionPlan method) template_parametrization() (ReductionPlan method) tetragonal() (CalculateUB method) (Optimization method) (RefineSingleCrystalGoniometer method)

transform_conventional_to_primitive() (UBModel method) transform_lattice() (Laue method) (UBModel method) transform_primitive_to_conventional() (UBModel method) triclinic() (CalculateUB method) (Optimization method) (RefineSingleCrystalGoniometer method)

U

U_deriv_u() (PeakEllipsoid method) U_matrix() (Optimization method) (PeakEllipsoid method) (RefineSingleCrystalGoniometer method) UB_matrix() (CalculateUB method) UBModel (class in garnet.reduction.ub) uncertainty_line_segements() (Laue method) uniform_mode_weights() (PeakEllipsoid method) unit_key() (Integration method) update_adaptive_prior() (PeakEllipsoid method)

update_constraints() (PeakEllipsoid method) update_envelope() (PeakPlot method) update_estimate() (PeakEllipsoid method) update_logs_for_time() (BaseDataModel method) update_monitor() (Peaks method) update_peak_info() (Integration method) update_peak_offsets() (Integration method) update_raw_path() (BaseDataModel method) update_sample() (NuclearStructureRefinement method) update_scale_factor() (PeaksModel method) update_wavelength() (BaseDataModel method)

V

validate_file() (ReductionPlan method) validate_params() (Integration method) (Normalization method), [1] (Parametrization method) validate_plan() (ReductionPlan method) Vanadium (class in garnet.utilities.vanadium)

vech6() (PeakEllipsoid method) verify_chemical_formula() (AbsorptionCorrection method) (SampleMaterial method) view() (Normalization method) (Parametrization method) voxel_volume() (PeakEllipsoid method) voxels() (PeakEllipsoid method)

W

wavelengths() (Laue method) whiten_weight_matrix() (Optimization method) wobble_correction() (NuclearStructureRefinement method) workspace_exists() (BaseDataModel method)

wrap() (CrystalStructurePlot method) write() (Integration method) write_absortion_parameters() (AbsorptionCorrection method) write_mtz() (Macromolecular method)

Y

yaml_representers (Dumper attribute)