Index

B

butter_bandpass() (in module vasp.automatedPostprocessing.postprocessing_h5py.spectrograms)

butter_bandpass_filter() (in module vasp.automatedPostprocessing.postprocessing_h5py.spectrograms)

C

calc_chroma_entropy() (in module vasp.automatedPostprocessing.postprocessing_h5py.spectrograms) calculate_windowed_rms() (in module vasp.automatedPostprocessing.postprocessing_h5py.postprocessing_common_h5py) check_flatten_boundary() (in module vasp.automatedPreprocessing.preprocessing_common) chroma_filterbank() (in module vasp.automatedPostprocessing.postprocessing_h5py.chroma_filters) chromagram_from_spectrogram() (in module vasp.automatedPostprocessing.postprocessing_h5py.spectrograms) compute_average_over_cycles() (in module vasp.automatedPostprocessing.log_plotter) compute_average_spectrogram() (in module vasp.automatedPostprocessing.postprocessing_h5py.spectrograms) compute_tke() (in module vasp.automatedPostprocessing.log_plotter) convert_vtu_mesh_to_xdmf() (in module vasp.automatedPreprocessing.preprocessing_common) convert_xml_mesh_to_hdf5() (in module vasp.automatedPreprocessing.preprocessing_common) create_bcs() (in module vasp.simulations.aneurysm) (in module vasp.simulations.avf) (in module vasp.simulations.cylinder) (in module vasp.simulations.offset_stenosis)

create_checkpoint_xdmf_file() (in module vasp.automatedPostprocessing.postprocessing_h5py.postprocessing_common_h5py) create_hdf5() (in module vasp.automatedPostprocessing.postprocessing_fenics.create_hdf5) create_point_trace() (in module vasp.automatedPostprocessing.postprocessing_h5py.postprocessing_common_h5py) create_refined_mesh() (in module vasp.automatedPostprocessing.postprocessing_mesh.create_refined_mesh) create_separate_domain_visualization() (in module vasp.automatedPostprocessing.postprocessing_fenics.create_separate_domain_visualization) create_spectrogram_composite() (in module vasp.automatedPostprocessing.postprocessing_h5py.create_spectrograms_chromagrams) create_spectrum() (in module vasp.automatedPostprocessing.postprocessing_h5py.create_spectrum) create_transformed_matrix() (in module vasp.automatedPostprocessing.postprocessing_h5py.postprocessing_common_h5py) create_xdmf_file() (in module vasp.automatedPostprocessing.postprocessing_h5py.postprocessing_common_h5py)

D

dist_sphere_spheres() (in module vasp.automatedPreprocessing.preprocessing_common)

distance_to_spheres_solid_thickness() (in module vasp.automatedPreprocessing.preprocessing_common)

E

edge_length_evaluator() (in module vasp.automatedPreprocessing.preprocessing_common) eval() (vasp.simulations.avf.InnerP method) (vasp.simulations.avf.VelInPara method) (vasp.simulations.cylinder.InnerP method) (vasp.simulations.cylinder.VelInPara method)

Execute() (vasp.automatedPreprocessing.vmtkmeshgeneratorfsi.vmtkMeshGeneratorFsi method)

F

filter_time_data() (in module vasp.automatedPostprocessing.postprocessing_h5py.spectrograms) find_points_in_box() (in module vasp.automatedPostprocessing.postprocessing_h5py.spectrograms)

find_points_in_sphere() (in module vasp.automatedPostprocessing.postprocessing_h5py.spectrograms) finished() (in module vasp.simulations.aneurysm)

G

generate_mesh() (in module vasp.automatedPreprocessing.preprocessing_common) get_coords() (in module vasp.automatedPostprocessing.postprocessing_h5py.postprocessing_common_h5py) get_domain_ids() (in module vasp.automatedPostprocessing.postprocessing_common) get_domain_ids_specified_region() (in module vasp.automatedPostprocessing.postprocessing_h5py.postprocessing_common_h5py) get_eig() (in module vasp.automatedPostprocessing.postprocessing_h5py.postprocessing_common_h5py) get_interface_ids() (in module vasp.automatedPostprocessing.postprocessing_h5py.postprocessing_common_h5py) get_mesh_domain_and_boundaries() (in module vasp.simulations.aneurysm) (in module vasp.simulations.avf) (in module vasp.simulations.cylinder) (in module vasp.simulations.offset_stenosis)

get_psd() (in module vasp.automatedPostprocessing.postprocessing_h5py.spectrograms) get_sampling_constants() (in module vasp.automatedPostprocessing.postprocessing_h5py.postprocessing_common_h5py) (in module vasp.automatedPostprocessing.postprocessing_h5py.spectrograms) get_spectrogram() (in module vasp.automatedPostprocessing.postprocessing_h5py.spectrograms) get_surface_topology_coords() (in module vasp.automatedPostprocessing.postprocessing_h5py.postprocessing_common_h5py)

H

hz_to_octs() (in module vasp.automatedPostprocessing.postprocessing_h5py.chroma_filters)

I

initiate() (in module vasp.simulations.aneurysm) (in module vasp.simulations.avf) (in module vasp.simulations.offset_stenosis)

InnerP (class in vasp.simulations.avf) (class in vasp.simulations.cylinder)

M

main() (in module vasp.automatedPostprocessing.log_plotter) (in module vasp.automatedPostprocessing.postprocessing_fenics.create_hdf5) (in module vasp.automatedPostprocessing.postprocessing_fenics.create_separate_domain_visualization) (in module vasp.automatedPostprocessing.postprocessing_h5py.create_spectrograms_chromagrams) (in module vasp.automatedPostprocessing.postprocessing_h5py.create_spectrum) (in module vasp.automatedPostprocessing.postprocessing_mesh.create_refined_mesh) (in module vasp.automatedPostprocessing.postprocessing_mesh.separate_mesh) (in module vasp.automatedPostprocessing.predeform_mesh) main_meshing() (in module vasp.automatedPreprocessing.automated_preprocessing) module vasp.automatedPostprocessing.log_plotter vasp.automatedPostprocessing.postprocessing_common vasp.automatedPostprocessing.postprocessing_fenics.create_hdf5 vasp.automatedPostprocessing.postprocessing_fenics.create_separate_domain_visualization vasp.automatedPostprocessing.postprocessing_fenics.postprocessing_fenics_common vasp.automatedPostprocessing.postprocessing_h5py.chroma_filters vasp.automatedPostprocessing.postprocessing_h5py.create_spectrograms_chromagrams vasp.automatedPostprocessing.postprocessing_h5py.create_spectrum vasp.automatedPostprocessing.postprocessing_h5py.postprocessing_common_h5py vasp.automatedPostprocessing.postprocessing_h5py.spectrograms vasp.automatedPostprocessing.postprocessing_mesh.create_refined_mesh vasp.automatedPostprocessing.postprocessing_mesh.postprocessing_mesh_common vasp.automatedPostprocessing.postprocessing_mesh.separate_mesh vasp.automatedPostprocessing.predeform_mesh vasp.automatedPreprocessing.automated_preprocessing vasp.automatedPreprocessing.preprocessing_common vasp.automatedPreprocessing.vmtkmeshgeneratorfsi vasp.simulations.aneurysm vasp.simulations.avf vasp.simulations.cylinder vasp.simulations.offset_stenosis

N

normalize() (in module vasp.automatedPostprocessing.postprocessing_h5py.chroma_filters)

O

octs_to_hz() (in module vasp.automatedPostprocessing.postprocessing_h5py.chroma_filters)

output_file_lists() (in module vasp.automatedPostprocessing.postprocessing_common)

P

ParameterError parse_arguments() (in module vasp.automatedPostprocessing.postprocessing_fenics.create_hdf5) (in module vasp.automatedPostprocessing.postprocessing_fenics.create_separate_domain_visualization) (in module vasp.automatedPostprocessing.postprocessing_fenics.postprocessing_fenics_common) (in module vasp.automatedPostprocessing.postprocessing_mesh.postprocessing_mesh_common) (in module vasp.automatedPostprocessing.predeform_mesh) parse_command_line_args() (in module vasp.automatedPostprocessing.log_plotter) parse_dictionary_from_log() (in module vasp.automatedPostprocessing.log_plotter) parse_log_file() (in module vasp.automatedPostprocessing.log_plotter) plot_chromagram() (in module vasp.automatedPostprocessing.postprocessing_h5py.spectrograms) plot_multiple_variables_comparison() (in module vasp.automatedPostprocessing.log_plotter) plot_multiple_variables_vs_time() (in module vasp.automatedPostprocessing.log_plotter) plot_newton_iteration() (in module vasp.automatedPostprocessing.log_plotter) plot_probe_points() (in module vasp.automatedPostprocessing.log_plotter) plot_probe_points_comparison() (in module vasp.automatedPostprocessing.log_plotter) plot_probe_points_displacement() (in module vasp.automatedPostprocessing.log_plotter)

plot_probe_points_displacement_comparison() (in module vasp.automatedPostprocessing.log_plotter) plot_probe_points_tke() (in module vasp.automatedPostprocessing.log_plotter) plot_probe_points_tke_comparison() (in module vasp.automatedPostprocessing.log_plotter) plot_spectrogram() (in module vasp.automatedPostprocessing.postprocessing_h5py.spectrograms) plot_variable_comparison() (in module vasp.automatedPostprocessing.log_plotter) plot_variable_vs_time() (in module vasp.automatedPostprocessing.log_plotter) post_solve() (in module vasp.simulations.aneurysm) (in module vasp.simulations.avf) (in module vasp.simulations.cylinder) (in module vasp.simulations.offset_stenosis) pre_solve() (in module vasp.simulations.aneurysm) (in module vasp.simulations.avf) (in module vasp.simulations.cylinder) (in module vasp.simulations.offset_stenosis) predeform_mesh() (in module vasp.automatedPostprocessing.predeform_mesh) project_dg() (in module vasp.automatedPostprocessing.postprocessing_fenics.postprocessing_fenics_common)

R

read_command_line() (in module vasp.automatedPreprocessing.automated_preprocessing) read_command_line_spec() (in module vasp.automatedPostprocessing.postprocessing_h5py.spectrograms) read_npz_files() (in module vasp.automatedPostprocessing.postprocessing_h5py.postprocessing_common_h5py)

read_parameters_from_file() (in module vasp.automatedPostprocessing.postprocessing_common) read_spectrogram_data() (in module vasp.automatedPostprocessing.postprocessing_h5py.spectrograms) run_pre_processing() (in module vasp.automatedPreprocessing.automated_preprocessing)

S

save_command_to_file() (in module vasp.automatedPreprocessing.automated_preprocessing) save_plot_to_file() (in module vasp.automatedPostprocessing.log_plotter) save_probe_points_data_to_file() (in module vasp.automatedPostprocessing.log_plotter) save_probe_points_displacement_data_to_file() (in module vasp.automatedPostprocessing.log_plotter) separate_mesh() (in module vasp.automatedPostprocessing.postprocessing_mesh.separate_mesh) set_problem_parameters() (in module vasp.simulations.aneurysm) (in module vasp.simulations.avf) (in module vasp.simulations.cylinder) (in module vasp.simulations.offset_stenosis)

shift_bit_length() (in module vasp.automatedPostprocessing.postprocessing_h5py.spectrograms) sonify_point() (in module vasp.automatedPostprocessing.postprocessing_h5py.spectrograms) spectrogram_scaling() (in module vasp.automatedPostprocessing.postprocessing_h5py.spectrograms)

T

tiny() (in module vasp.automatedPostprocessing.postprocessing_h5py.chroma_filters)

U

update() (vasp.simulations.avf.InnerP method) (vasp.simulations.avf.VelInPara method) (vasp.simulations.cylinder.InnerP method) (vasp.simulations.cylinder.VelInPara method)

V

value_shape() (vasp.simulations.avf.InnerP method) (vasp.simulations.avf.VelInPara method) (vasp.simulations.cylinder.InnerP method) (vasp.simulations.cylinder.VelInPara method) vasp.automatedPostprocessing.log_plotter module vasp.automatedPostprocessing.postprocessing_common module vasp.automatedPostprocessing.postprocessing_fenics.create_hdf5 module vasp.automatedPostprocessing.postprocessing_fenics.create_separate_domain_visualization module vasp.automatedPostprocessing.postprocessing_fenics.postprocessing_fenics_common module vasp.automatedPostprocessing.postprocessing_h5py.chroma_filters module vasp.automatedPostprocessing.postprocessing_h5py.create_spectrograms_chromagrams module vasp.automatedPostprocessing.postprocessing_h5py.create_spectrum module vasp.automatedPostprocessing.postprocessing_h5py.postprocessing_common_h5py module vasp.automatedPostprocessing.postprocessing_h5py.spectrograms module

vasp.automatedPostprocessing.postprocessing_mesh.create_refined_mesh module vasp.automatedPostprocessing.postprocessing_mesh.postprocessing_mesh_common module vasp.automatedPostprocessing.postprocessing_mesh.separate_mesh module vasp.automatedPostprocessing.predeform_mesh module vasp.automatedPreprocessing.automated_preprocessing module vasp.automatedPreprocessing.preprocessing_common module vasp.automatedPreprocessing.vmtkmeshgeneratorfsi module vasp.simulations.aneurysm module vasp.simulations.avf module vasp.simulations.cylinder module vasp.simulations.offset_stenosis module VelInPara (class in vasp.simulations.avf) (class in vasp.simulations.cylinder) vmtkMeshGeneratorFsi (class in vasp.automatedPreprocessing.vmtkmeshgeneratorfsi)