mdsuite package¶
Subpackages¶
- mdsuite.calculators package
- Submodules
- mdsuite.calculators.angular_distribution_function module
- mdsuite.calculators.calculator module
- mdsuite.calculators.coordination_number_calculation module
- mdsuite.calculators.einstein_diffusion_coefficients module
- mdsuite.calculators.einstein_distinct_diffusion_coefficients module
- mdsuite.calculators.einstein_helfand_ionic_conductivity module
- mdsuite.calculators.einstein_helfand_thermal_conductivity module
- mdsuite.calculators.einstein_helfand_thermal_kinaci module
- mdsuite.calculators.green_kubo_distinct_diffusion_coefficients module
- mdsuite.calculators.green_kubo_ionic_conductivity module
- mdsuite.calculators.green_kubo_self_diffusion_coefficients module
- mdsuite.calculators.green_kubo_thermal_conductivity module
- mdsuite.calculators.green_kubo_viscosity module
- mdsuite.calculators.green_kubo_viscosity_flux module
- mdsuite.calculators.kirkwood_buff_integrals module
- mdsuite.calculators.nernst_einstein_ionic_conductivity module
- mdsuite.calculators.potential_of_mean_force module
- mdsuite.calculators.radial_distribution_function module
- mdsuite.calculators.spatial_distribution_function module
- mdsuite.calculators.structure_factor module
- mdsuite.calculators.trajectory_calculator module
- mdsuite.calculators.transformations_reference module
- Module contents
- License
- Contact Information
- Citation
- Summary
AngularDistributionFunctionAngularDistributionFunction.batch_sizeAngularDistributionFunction.n_minibatchesAngularDistributionFunction.n_confsAngularDistributionFunction.r_cutAngularDistributionFunction.startAngularDistributionFunction.stopAngularDistributionFunction.binsAngularDistributionFunction.use_tf_functionAngularDistributionFunction.check_input()AngularDistributionFunction.plot_data()AngularDistributionFunction.prepare_computation()AngularDistributionFunction.run_calculator()
CalculatorCalculator.experimentCalculator.experimentsCalculator.plotCalculator.system_propertyCalculator.experimentalCalculator.selected_speciesCalculator.analysis_nameCalculator.timeCalculator.plotterCalculator.result_keysCalculator.result_series_keysCalculator.prefactorCalculator.x_labelCalculator.y_labelCalculator._dtypeCalculator.plot_arrayCalculator.dtypeCalculator.plot_data()Calculator.run_analysis()Calculator.run_calculator()Calculator.run_visualization()
CoordinationNumbersCoordinationNumbers.experimentCoordinationNumbers.data_rangeCoordinationNumbers.x_labelCoordinationNumbers.y_labelCoordinationNumbers.analysis_nameCoordinationNumbers.file_to_studyCoordinationNumbers.integral_dataCoordinationNumbers.species_tupleCoordinationNumbers.indicesCoordinationNumbers.rdf_dataCoordinationNumbers.plot_data()CoordinationNumbers.rdf_dataCoordinationNumbers.run_calculator()
EinsteinDiffusionCoefficientsEinsteinDistinctDiffusionCoefficientsEinsteinDistinctDiffusionCoefficients.experimentEinsteinDistinctDiffusionCoefficients.speciesEinsteinDistinctDiffusionCoefficients.x_labelEinsteinDistinctDiffusionCoefficients.y_labelEinsteinDistinctDiffusionCoefficients.analysis_nameEinsteinDistinctDiffusionCoefficients.loaded_propertyEinsteinDistinctDiffusionCoefficients.check_input()EinsteinDistinctDiffusionCoefficients.run_calculator()
EinsteinHelfandIonicConductivityEinsteinHelfandThermalConductivityEinsteinHelfandThermalConductivity.experimentEinsteinHelfandThermalConductivity.x_labelEinsteinHelfandThermalConductivity.y_labelEinsteinHelfandThermalConductivity.analysis_nameEinsteinHelfandThermalConductivity.loaded_propertyEinsteinHelfandThermalConductivity.check_input()EinsteinHelfandThermalConductivity.ensemble_operation()EinsteinHelfandThermalConductivity.run_calculator()
EinsteinHelfandThermalKinaciEinsteinHelfandThermalKinaci.experimentEinsteinHelfandThermalKinaci.x_labelEinsteinHelfandThermalKinaci.y_labelEinsteinHelfandThermalKinaci.analysis_nameEinsteinHelfandThermalKinaci.loaded_propertyEinsteinHelfandThermalKinaci.check_input()EinsteinHelfandThermalKinaci.ensemble_operation()EinsteinHelfandThermalKinaci.run_calculator()
GreenKuboDiffusionCoefficientsGreenKuboDiffusionCoefficients.speciesGreenKuboDiffusionCoefficients.x_labelGreenKuboDiffusionCoefficients.y_labelGreenKuboDiffusionCoefficients.analysis_nameGreenKuboDiffusionCoefficients.loaded_propertyGreenKuboDiffusionCoefficients.check_input()GreenKuboDiffusionCoefficients.ensemble_operation()GreenKuboDiffusionCoefficients.plot_data()GreenKuboDiffusionCoefficients.postprocessing()GreenKuboDiffusionCoefficients.run_calculator()
GreenKuboDistinctDiffusionCoefficientsGreenKuboDistinctDiffusionCoefficients.x_labelGreenKuboDistinctDiffusionCoefficients.y_labelGreenKuboDistinctDiffusionCoefficients.analysis_nameGreenKuboDistinctDiffusionCoefficients.loaded_propertyGreenKuboDistinctDiffusionCoefficients.check_input()GreenKuboDistinctDiffusionCoefficients.ensemble_operation()GreenKuboDistinctDiffusionCoefficients.plot_data()GreenKuboDistinctDiffusionCoefficients.run_calculator()
GreenKuboIonicConductivityGreenKuboIonicConductivity.experimentGreenKuboIonicConductivity.x_labelGreenKuboIonicConductivity.y_labelGreenKuboIonicConductivity.analysis_nameGreenKuboIonicConductivity.loaded_propertyGreenKuboIonicConductivity.check_input()GreenKuboIonicConductivity.ensemble_operation()GreenKuboIonicConductivity.plot_data()GreenKuboIonicConductivity.run_calculator()
GreenKuboThermalConductivityGreenKuboViscosityGreenKuboViscosityFluxKirkwoodBuffIntegralKirkwoodBuffIntegral.experimentKirkwoodBuffIntegral.data_rangeKirkwoodBuffIntegral.x_labelKirkwoodBuffIntegral.y_labelKirkwoodBuffIntegral.analysis_nameKirkwoodBuffIntegral.file_to_studyKirkwoodBuffIntegral.data_filesKirkwoodBuffIntegral.species_tupleKirkwoodBuffIntegral.plot_data()KirkwoodBuffIntegral.run_calculator()
NernstEinsteinIonicConductivityPotentialOfMeanForcePotentialOfMeanForce.experimentPotentialOfMeanForce.data_rangePotentialOfMeanForce.x_labelPotentialOfMeanForce.y_labelPotentialOfMeanForce.analysis_namePotentialOfMeanForce.file_to_studyPotentialOfMeanForce.data_filesPotentialOfMeanForce.selected_speciesPotentialOfMeanForce.get_pomf_peaks()PotentialOfMeanForce.plot_data()PotentialOfMeanForce.run_calculator()
RadialDistributionFunctionRadialDistributionFunction.experimentRadialDistributionFunction.data_rangeRadialDistributionFunction.x_labelRadialDistributionFunction.y_labelRadialDistributionFunction.analysis_nameRadialDistributionFunction.loaded_propertyRadialDistributionFunction.minibatchRadialDistributionFunction.bin_minibatch()RadialDistributionFunction.check_input()RadialDistributionFunction.combine_dictionaries()RadialDistributionFunction.compute_species_values()RadialDistributionFunction.get_dij()RadialDistributionFunction.ideal_correctionRadialDistributionFunction.particles_listRadialDistributionFunction.plot_data()RadialDistributionFunction.prepare_computation()RadialDistributionFunction.run_calculator()RadialDistributionFunction.run_minibatch_loop()
- Submodules
- mdsuite.data package
- mdsuite.database package
- Submodules
- mdsuite.database.calculator_database module
- mdsuite.database.data_manager module
- mdsuite.database.database_base module
- mdsuite.database.experiment_database module
- mdsuite.database.mdsuite_properties module
- mdsuite.database.project_database module
- mdsuite.database.scheme module
- mdsuite.database.simulation_database module
- mdsuite.database.types module
- Module contents
- Submodules
- mdsuite.experiment package
- Submodules
- Module contents
- License
- Contact Information
- Citation
- Summary
ExperimentExperiment.nameExperiment.storage_pathExperiment.temperatureExperiment.time_stepExperiment.volumeExperiment.speciesExperiment.number_of_atomsExperiment.add_data()Experiment.cls_transformation_run()Experiment.load_matrix()Experiment.runExperiment.run_visualization()Experiment.set_charge()Experiment.set_mass()Experiment.units_to_si()
- mdsuite.file_io package
- mdsuite.graph_modules package
- mdsuite.memory_management package
- mdsuite.project package
- mdsuite.time_series package
- mdsuite.transformations package
- Submodules
- mdsuite.transformations.integrated_heat_current module
- mdsuite.transformations.ionic_current module
- mdsuite.transformations.kinaci_integrated_heat_current module
- mdsuite.transformations.map_molecules module
- mdsuite.transformations.momentum_flux module
- mdsuite.transformations.scale_coordinates module
- mdsuite.transformations.test_trafos module
- mdsuite.transformations.thermal_flux module
- mdsuite.transformations.transformation_dict module
- mdsuite.transformations.transformations module
- mdsuite.transformations.translational_dipole_moment module
- mdsuite.transformations.unwrap_coordinates module
- mdsuite.transformations.unwrap_via_indices module
- mdsuite.transformations.velocity_from_positions module
- mdsuite.transformations.wrap_coordinates module
- Module contents
- License
- Contact Information
- Citation
- Summary
CoordinateUnwrapperCoordinateWrapperIntegratedHeatCurrentIonicCurrentKinaciIntegratedHeatCurrentMolecularMapMomentumFluxScaleCoordinatesThermalFluxTransformationsTransformations.databaseTransformations.experimentTransformations.batch_sizeTransformations.n_batchesTransformations.remainderTransformations.data_managerTransformations.memory_managerTransformations.databaseTransformations.experimentTransformations.find_property_per_config()Transformations.find_property_single_val()Transformations.get_generator_type_spec_and_const_data()Transformations.get_prop_through_transformation()Transformations.run_transformation()
TranslationalDipoleMomentUnwrapViaIndicesVelocityFromPositions
- Submodules
- mdsuite.utils package
- Subpackages
- Submodules
- mdsuite.utils.calculator_helper_methods module
- mdsuite.utils.config module
- mdsuite.utils.constants module
- mdsuite.utils.database module
- mdsuite.utils.exceptions module
- mdsuite.utils.helpers module
- mdsuite.utils.linalg module
- mdsuite.utils.meta_functions module
- License
- Contact Information
- Citation
- Summary
apply_savgol_filter()check_a_in_b()closest_point()find_item()get_dimensionality()get_machine_properties()get_nearest_divisor()golden_section_search()gpu_available()is_jsonable()join_path()line_counter()linear_fitting_function()optimize_batch_size()simple_file_read()sort_array_by_column()split_array()timeit()
- mdsuite.utils.molecule module
- mdsuite.utils.neighbour_list module
- mdsuite.utils.report_computer_characteristics module
- mdsuite.utils.scale_functions module
- mdsuite.utils.testing module
- mdsuite.utils.units module
- Module contents
- mdsuite.visualizer package