Index

A | B | C | D | E | F | G | H | I | J | K | L | M | N | O | P | Q | R | S | T | U | V | W | X | Y

A

abs_path_length (kromatography.model.system.System attribute)
abstol (kromatography.model.time_integrator.TimeIntegrator attribute)
activate_window_if_already_open() (kromatography.app.krom_app.KromatographyApp method)
activated() (kromatography.ui.tasks.kromatography_task.KromatographyTask method)
active_anim_data (kromatography.plotting.animation_plot.AnimationPlot attribute)
active_model_view (kromatography.ui.factories.binding_model.BindingModelBuilder attribute)
add_all_uv_curves() (kromatography.ui.chromatogram_model_view.ChromatogramModelView method)
add_chrome_log() (kromatography.plotting.chromatogram_plot.ChromatogramPlot method)
add_data_inspector() (in module kromatography.plotting.data_inspector_tool)
add_duplicate_simulation() (kromatography.model.study.Study method)
add_experiments() (kromatography.model.base_study.BaseStudy method)
(kromatography.model.study.Study method)
add_object_deletion_listeners() (kromatography.model.kromatography_project.KromatographyProject method)
add_parallel_params (kromatography.model.parameter_scan_description.ParameterScanDescription attribute)
add_runner() (kromatography.solve.sim_runner_manager.SimulationRunnerManager method)
add_sharedx_axes() (in module kromatography.plotting.chromatogram_plot)
add_sim_to_diff() (in module kromatography.model.simulation_group)
add_sims_from_exp_to_study() (in module kromatography.model.study)
add_simulations() (kromatography.model.study.Study method)
add_strip (kromatography.ui.factories.product.ProductBuilder attribute)
add_strip_to_product() (in module kromatography.model.factories.product)
add_to_recent_files() (kromatography.app.krom_app.KromatographyApp method)
additional_params (kromatography.model.random_parameter_scan_description.RandomParameterScanDescription attribute)
adsorption (kromatography.model.cadet_model.CADETModel attribute)
adsorption_type (kromatography.model.cadet_model.CADETModel attribute)
aggregate_cost_data() (kromatography.compute.brute_force_optimizer_step.BruteForceOptimizerStep method)
akta_filepath (kromatography.ui.akta_file_setting_selector.AKTAFileSettingSelector attribute)
akta_reader (kromatography.ui.akta_file_setting_selector.AKTAFileSettingSelector attribute)
(kromatography.ui.akta_file_setting_selector.NamePattern attribute)
akta_start_method_step (kromatography.ui.akta_file_setting_selector.AKTAFileSettingSelector attribute)
AKTAFileSettingSelector (class in kromatography.ui.akta_file_setting_selector)
AKTAReader (class in kromatography.io.akta_reader)
AktaReadError
all_buffers (kromatography.ui.simulation_builder.SimulationBuilder attribute)
all_col_names (kromatography.ui.akta_file_setting_selector.AKTAFileSettingSelector attribute)
all_data (kromatography.plotting.animation_plot.AnimationPlot attribute)
all_plots_index_range (kromatography.plotting.chromatogram_plot.ChromatogramPlot attribute)
allow_akta_gui (kromatography.io.experimental_study_builder.ExperimentalStudyBuilder attribute)
allow_parallel_params (kromatography.ui.regular_parameter_list_selector.RegularParameterListSelector attribute)
allowed_parameters (kromatography.ui.brute_force_optimizer_builder.BruteForceOptimizerBuilder attribute)
(kromatography.ui.regular_parameter_list_selector.RegularParameterListSelector attribute)
(kromatography.ui.simulation_group_builder.SimulationGroupBuilder attribute)
allows_children() (kromatography.ui.adapters.chromatogram_model_to_i_tree_node.ChromatogramModelToITreeNode method)
(kromatography.ui.adapters.data_manager_to_i_tree_node.DataManagerToITreeNode method)
(kromatography.ui.adapters.data_source_to_i_tree_node.SimpleDataSourceToITreeNode method)
amino_acid_numbers (kromatography.model.product.Product attribute)
amino_acids (kromatography.model.product.Product attribute)
analysis_tools (kromatography.model.study.Study attribute)
analyze() (kromatography.model.mass_balance_analyzer.MassBalanceAnalyzer method)
analyze_button (kromatography.ui.simulation_group_model_view.SimulationGroupView attribute)
AnimationData (class in kromatography.plotting.animation_data)
AnimationPlot (class in kromatography.plotting.animation_plot)
AnimationPlotEditor (class in kromatography.ui.tasks.plot_editors)
AnimationPlotView (class in kromatography.ui.animation_plot_view)
anion_concentration (kromatography.model.solution.Solution attribute)
app_height (kromatography.utils.preferences.UIPreferenceGroup attribute)
app_name (kromatography.app.krom_app.KromatographyApp attribute)
app_title (kromatography.tools.update_downloader.UpdateDownloader attribute)
app_width (kromatography.utils.preferences.UIPreferenceGroup attribute)
append_param_values() (kromatography.compute.brute_force_optimizer_step.BruteForceOptimizerStep method)
append_run_sim_to_group() (in module kromatography.model.simulation_group)
apply_new_colors() (kromatography.ui.chromatogram_model_view.ChromatogramModelView method)
apply_strategy() (kromatography.ui.akta_file_setting_selector.AKTAFileSettingSelector method)
AppPreferenceGroup (class in kromatography.utils.preferences)
AppPreferencesView (class in kromatography.tools.preferences_view)
ArrayAdapterEvent (class in kromatography.utils.traitsui_utils)
assay_instances_from_names() (in module kromatography.model.factories.product_component_assay)
assay_names_from_instances() (in module kromatography.model.factories.product_component_assay)
assert_all_exp_for_same_product() (kromatography.compute.experiment_optimizer_step.ExperimentOptimizerStep method)
assert_all_exp_have_output() (kromatography.compute.experiment_optimizer_step.ExperimentOptimizerStep method)
assert_all_experiments_valid() (kromatography.compute.experiment_optimizer_step.ExperimentOptimizerStep method)
assert_file_roundtrip_identical() (in module kromatography.utils.assertion_utils)
assert_roundtrip_identical() (in module kromatography.utils.assertion_utils)
attr_names_to_serialize() (kromatography.io.serializer.BruteForce2StepBindingModelOptimizer_Serializer method)
(kromatography.io.serializer.BruteForceOptimizerStep_Serializer method)
(kromatography.io.serializer.BruteForceOptimizer_Serializer method)
(kromatography.io.serializer.CostFunction0_Serializer method)
(kromatography.io.serializer.InMemoryDatasource_Serializer method)
(kromatography.io.serializer.KromatographyProject_Serializer method)
(kromatography.io.serializer.KromatographyTask_Serializer method)
(kromatography.io.serializer.LazyLoadingSimulation_Serializer method)
(kromatography.io.serializer.ParameterScanDescription_Serializer method)
(kromatography.io.serializer.SimulationGroup_Serializer method)
(kromatography.io.serializer.StudyAnalysisTools_Serializer method)
(kromatography.io.serializer.Study_Serializer method)
auto_close_empty_windows_on_open (kromatography.app.krom_app.KromatographyApp attribute)
(kromatography.utils.preferences.UIPreferenceGroup attribute)
auto_delete_run_sims (kromatography.model.simulation_group.SimulationGroup attribute)
(kromatography.ui.simulation_group_builder.SimulationGroupBuilder attribute)
auto_delete_solver_files_on_exit (kromatography.utils.preferences.SolverPreferenceGroup attribute)
available_column_types (kromatography.io.akta_reader.AKTAReader attribute)
available_dataset_types (kromatography.io.akta_reader.AKTAReader attribute)
average_bead_diameter (kromatography.model.resin.Resin attribute)
axial_dispersion (kromatography.model.transport_model.GeneralRateModel attribute)

B

balance_threshold (kromatography.model.mass_balance_analyzer.MassBalanceAnalyzer attribute)
balanced (kromatography.model.mass_balance_analyzer.MassBalanceAnalyzer attribute)
BaseCADETExecutor (class in kromatography.solve.cadet_executor)
BaseChromatographyDataToITreeNode (class in kromatography.ui.adapters.base_chromatography_data_to_i_tree_node)
BaseEntryCreator (class in kromatography.utils.datasource_utils)
BaseExcelReader (class in kromatography.io.base_excel_reader)
BaseModelViewWithComponentArray (class in kromatography.ui.base_model_view_with_component_array)
BaseParameterScanDescription (class in kromatography.model.base_parameter_scan_description)
BaseProductModel (class in kromatography.model.base_product_model)
BaseSimulationSelector (class in kromatography.ui.simulation_selector)
BaseStudy (class in kromatography.model.base_study)
bead_porosity (kromatography.model.transport_model.GeneralRateModel attribute)
beadboundZ (kromatography.plotting.animation_data.AnimationData attribute)
beaddiam_um (kromatography.plotting.animation_data.AnimationData attribute)
beadliqZ (kromatography.plotting.animation_data.AnimationData attribute)
beadX (kromatography.plotting.animation_data.AnimationData attribute)
bed_height_actual (kromatography.model.column.Column attribute)
bed_height_adjust_method (kromatography.model.column.ColumnType attribute)
bed_height_range (kromatography.model.column.ColumnType attribute)
bedheight_cm (kromatography.plotting.animation_data.AnimationData attribute)
bin_folder_name() (in module kromatography.utils.app_utils)
binding model
binding_model (kromatography.model.simulation.Simulation attribute)
(kromatography.ui.simulation_builder.SimulationBuilder attribute)
binding_model_name (kromatography.ui.simulation_builder.SimulationBuilder attribute)
binding_model_type (kromatography.ui.factories.binding_model.BindingModelBuilder attribute)
binding_model_view (kromatography.ui.simulation_view.SimulationView attribute)
BindingModel (class in kromatography.model.binding_model)
BindingModel_Serializer (class in kromatography.io.serializer)
BindingModelBuilder (class in kromatography.ui.factories.binding_model)
BindingModelBuilderHandler (class in kromatography.ui.factories.binding_model)
bindingModelCostFunction0DeSerializer0 (class in kromatography.io.legacy_deserializers)
bindingModelDeSerializer (class in kromatography.io.deserializer)
bindingModelOptimizerStepDeSerializer (class in kromatography.io.deserializer)
boundary_model (kromatography.model.weno.Weno attribute)
BruteForce2StepBindingModelOptimizer (class in kromatography.compute.brute_force_binding_model_optimizer)
BruteForce2StepBindingModelOptimizer_Serializer (class in kromatography.io.serializer)
bruteForce2StepBindingModelOptimizerDeSerializer (class in kromatography.io.deserializer)
bruteForce2StepBindingModelOptimizerDeSerializer0 (class in kromatography.io.legacy_deserializers)
bruteForce2StepBindingModelOptimizerDeSerializer1 (class in kromatography.io.legacy_deserializers)
bruteForce2StepBindingModelOptimizerDeSerializer2 (class in kromatography.io.legacy_deserializers)
BruteForceBindingModelOptimizerStep (class in kromatography.compute.brute_force_binding_model_optimizer_step)
BruteForceBindingModelOptimizerStep_Serializer (class in kromatography.io.serializer)
bruteForceBindingModelOptimizerStepDeSerializer (class in kromatography.io.deserializer)
bruteForceBindingModelOptimizerStepDeSerializer0 (class in kromatography.io.legacy_deserializers)
bruteForceBindingModelOptimizerStepDeSerializer1 (class in kromatography.io.legacy_deserializers)
BruteForceBindingModelOptimizerToITreeNode (class in kromatography.ui.adapters.brute_force_binding_model_optimizer_to_i_tree_node)
BruteForceOptimizer (class in kromatography.compute.brute_force_optimizer)
BruteForceOptimizer_Serializer (class in kromatography.io.serializer)
BruteForceOptimizerBuilder (class in kromatography.ui.brute_force_optimizer_builder)
bruteForceOptimizerDeSerializer (class in kromatography.io.deserializer)
bruteForceOptimizerDeSerializer0 (class in kromatography.io.legacy_deserializers)
bruteForceOptimizerDeSerializer1 (class in kromatography.io.legacy_deserializers)
BruteForceOptimizerStep (class in kromatography.compute.brute_force_optimizer_step)
BruteForceOptimizerStep_Serializer (class in kromatography.io.serializer)
bruteForceOptimizerStepDeSerializer (class in kromatography.io.deserializer)
bruteForceOptimizerStepDeSerializer0 (class in kromatography.io.legacy_deserializers)
bruteForceOptimizerStepDeSerializer1 (class in kromatography.io.legacy_deserializers)
BruteForceOptimizerStepView (class in kromatography.ui.brute_force_optimizer_step_model_view)
BruteForceOptimizerView (class in kromatography.ui.brute_force_optimizer_model_view)
buffer
Buffer (class in kromatography.model.buffer)
buffer_components (kromatography.ui.buffer_model_view.BufferView attribute)
Buffer_Serializer (class in kromatography.io.serializer)
BufferComponent (class in kromatography.ui.buffer_model_view)
bufferDeSerializer (class in kromatography.io.deserializer)
BufferPrep (class in kromatography.model.buffer_prep)
buffers (kromatography.io.experimental_study_builder.ExperimentalStudyBuilder attribute)
BufferView (class in kromatography.ui.buffer_model_view)
build_2step_view_items() (in module kromatography.ui.brute_force_optimizer_builder)
build_5_point_groups_from_param_desc() (in module kromatography.model.factories.simulation_group)
build_all_objects_for_type() (kromatography.model.factories.user_datasource.DataSourceObjectCatalogBuilder method)
build_animation_plot_model() (in module kromatography.plotting.animation_plot)
build_array_adapter() (in module kromatography.utils.traitsui_utils)
build_assay_list_editor() (in module kromatography.utils.solution_with_product_utils)
build_buffer() (kromatography.model.buffer_prep.BufferPrep method)
build_buffer_component_table_editor() (in module kromatography.ui.buffer_model_view)
build_bug_report_content() (in module kromatography.utils.app_utils)
build_cadet_input() (in module kromatography.utils.cadet_simulation_builder)
build_chemical_component_editor() (in module kromatography.utils.solution_with_product_utils)
build_chemical_component_table_editor() (in module kromatography.ui.chemical_model_view)
build_chemical_from_data() (kromatography.model.factories.user_datasource.DataSourceObjectCatalogBuilder method)
build_chromatogram_model() (in module kromatography.plotting.model_factories)
build_chrome_log_collection_from_experiment() (in module kromatography.plotting.model_factories)
build_chrome_log_collection_from_simulation() (in module kromatography.plotting.model_factories)
build_col_name_editor() (in module kromatography.ui.akta_file_setting_selector)
build_component_descr_editor() (in module kromatography.ui.factories.product)
build_data() (in module kromatography.plotting.mpl_plot_chromatogram)
build_df_editor_grid_data() (in module kromatography.ui.simulation_group_model_view)
build_excel_reader() (kromatography.io.excel_reader_selector.ExcelInputReaderSelector method)
build_flow_rate_array() (in module kromatography.compute.experiment_performance_parameters)
build_general_optim_view_items() (in module kromatography.ui.brute_force_optimizer_builder)
build_group() (kromatography.ui.simulation_group_builder.SimulationGroupBuilder method)
build_group_or_groups() (in module kromatography.model.factories.simulation_group)
build_mc_parameter_table_editor() (in module kromatography.ui.factories.parameter_table_editor)
build_method_step_table_editor() (in module kromatography.ui.method_model_view)
build_new_plot_context() (in module kromatography.plotting.chromatogram_plot)
build_object() (kromatography.io.deserializer.singleParamSimulationDiffDeSerializer method)
(kromatography.io.legacy_deserializers.dataFrameDeSerializer0 method)
(kromatography.io.legacy_deserializers.ndarrayDeSerializer0 method)
build_object_catalog() (in module kromatography.model.data_source)
(kromatography.model.factories.user_datasource.DataSourceObjectCatalogBuilder method)
build_object_from_data() (kromatography.model.factories.user_datasource.DataSourceObjectCatalogBuilder method)
build_optimizer() (in module kromatography.compute.factories.experiment_optimizer)
build_parameter_list() (kromatography.compute.brute_force_binding_model_optimizer.BruteForce2StepBindingModelOptimizer method)
build_performance_data_table_editor() (in module kromatography.ui.tasks.performance_param_pane)
build_product() (kromatography.ui.factories.product.ProductBuilder method)
build_product_from_data() (kromatography.model.factories.user_datasource.DataSourceObjectCatalogBuilder method)
build_random_simulation_group() (in module kromatography.model.factories.simulation_group)
build_regular_parameter_table_editor() (in module kromatography.ui.factories.parameter_table_editor)
build_sim_method_from_method() (in module kromatography.model.factories.method)
build_sim_steps_from_exp_steps() (in module kromatography.model.factories.method)
build_simulation_from_experiment() (in module kromatography.model.factories.simulation)
build_simulation_grid() (in module kromatography.model.factories.simulation_group)
build_simulation_results() (in module kromatography.io.simulation_updater)
build_splash() (in module kromatography.utils.build_splash)
build_study() (kromatography.io.experimental_study_builder.ExperimentalStudyBuilder method)
build_study_from_experimental_study() (in module kromatography.model.factories.study)
build_study_from_file() (kromatography.app.krom_app.KromatographyApp method)
build_user_datasource_filepath() (in module kromatography.utils.app_utils)

C

cached_exp_data (kromatography.compute.cost_functions.CostFunction0 attribute)
cached_sim_data (kromatography.compute.cost_functions.CostFunction0 attribute)
cached_simulations (kromatography.compute.cost_functions.CostFunction0 attribute)
cadet_binary (kromatography.solve.cadet_executor.BaseCADETExecutor attribute)
cadet_filename (kromatography.model.simulation.Simulation attribute)
cadet_filepath (kromatography.model.simulation.Simulation attribute)
cadet_num_threads (kromatography.utils.preferences.SolverPreferenceGroup attribute)
cadet_request (kromatography.compute.brute_force_optimizer.BruteForceOptimizer attribute)
(kromatography.model.simulation.Simulation attribute)
(kromatography.model.simulation_group.SimulationGroup attribute)
cadet_run_finished (kromatography.model.simulation.Simulation attribute)
CADETExecutor (class in kromatography.solve.cadet_executor)
CADETInput (class in kromatography.model.cadet_input)
CADETModel (class in kromatography.model.cadet_model)
CADETPhExternalProfile (class in kromatography.model.cadet_ph_external_profile)
calc_peak_center_of_mass() (in module kromatography.compute.cost_function_calcs)
calc_peak_timing() (in module kromatography.compute.cost_function_calcs)
calc_trailing_slope() (in module kromatography.compute.cost_function_calcs)
calculate_component_concentrations() (in module kromatography.compute.performance_parameters)
calculate_exp_component_concentrations() (in module kromatography.compute.experiment_performance_parameters)
calculate_experiment_performance_data() (in module kromatography.compute.experiment_performance_parameters)
calculate_performance_data() (in module kromatography.compute.performance_parameters)
calculate_pool_concentration() (in module kromatography.compute.performance_parameters)
calculate_pool_volume() (in module kromatography.compute.performance_parameters)
calculate_start_stop_collect() (in module kromatography.compute.performance_parameters)
calculate_step_start_times() (in module kromatography.utils.simulation_utils)
calculate_step_yield() (in module kromatography.compute.performance_parameters)
calculate_user_solution_times() (kromatography.model.solver.Solver method)
call_executable() (kromatography.solve.cadet_executor.BaseCADETExecutor method)
(kromatography.solve.cadet_executor.CADETExecutor method)
(kromatography.solve.slurm_cadet_executor.SlurmCADETExecutor method)
can_change_weights (kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer attribute)
can_copy() (kromatography.ui.adapters.base_chromatography_data_to_i_tree_node.BaseChromatographyDataToITreeNode method)
can_create (kromatography.ui.brute_force_optimizer_builder.BruteForceOptimizerBuilder attribute)
(kromatography.ui.simulation_from_experiment_builder.SimulationFromExperimentBuilder attribute)
(kromatography.ui.simulation_group_builder.SimulationGroupBuilder attribute)
can_delete() (kromatography.ui.adapters.base_chromatography_data_to_i_tree_node.BaseChromatographyDataToITreeNode method)
can_delete_me() (kromatography.ui.adapters.base_chromatography_data_to_i_tree_node.BaseChromatographyDataToITreeNode method)
can_rename_me() (kromatography.ui.adapters.base_chromatography_data_to_i_tree_node.BaseChromatographyDataToITreeNode method)
cation_concentration (kromatography.model.solution.Solution attribute)
center_point_simulation (kromatography.model.simulation_group.SimulationGroup attribute)
(kromatography.ui.simulation_group_builder.SimulationGroupBuilder attribute)
center_point_simulation_name (kromatography.model.simulation_group.SimulationGroup attribute)
(kromatography.ui.simulation_group_builder.SimulationGroupBuilder attribute)
center_sim (kromatography.ui.regular_parameter_list_selector.RegularParameterListSelector attribute)
center_value (kromatography.model.base_parameter_scan_description.BaseParameterScanDescription attribute)
central_pane (kromatography.ui.tasks.kromatography_task.KromatographyTask attribute)
central_pane_editor_map (kromatography.ui.tasks.kromatography_task.KromatographyTask attribute)
changelog_url (kromatography.tools.update_downloader.UpdateDownloader attribute)
charge (kromatography.model.component.Component attribute)
check_cadet_output() (in module kromatography.solve.cadet_executor)
check_license() (in module kromatography.utils.license_manager)
(kromatography.app.krom_app.KromatographyApp method)
check_slurm_installed() (in module kromatography.solve.slurm_cadet_executor)
check_step_index_consistency() (in module kromatography.model.factories.method)
check_valid_command() (in module kromatography.solve.cadet_executor)
chemical
Chemical (class in kromatography.model.chemical)
chemical_amounts (kromatography.model.buffer_prep.BufferPrep attribute)
chemical_component_concentrations (kromatography.model.buffer_prep.BufferPrep attribute)
(kromatography.model.solution.Solution attribute)
chemical_components (kromatography.model.buffer_prep.BufferPrep attribute)
(kromatography.model.solution.Solution attribute)
(kromatography.ui.chemical_model_view.ChemicalView attribute)
chemical_concentrations (kromatography.model.buffer_prep.BufferPrep attribute)
Chemical_Serializer (class in kromatography.io.serializer)
chemical_stock_concentrations (kromatography.model.buffer_prep.BufferPrep attribute)
ChemicalComponent (class in kromatography.ui.chemical_model_view)
(class in kromatography.utils.solution_with_product_utils)
chemicalDeSerializer (class in kromatography.io.deserializer)
chemicals (kromatography.model.buffer_prep.BufferPrep attribute)
ChemicalView (class in kromatography.ui.chemical_model_view)
children_changed() (kromatography.ui.adapters.study_to_i_tree_node.StudyToITreeNode method)
chrom_plots (kromatography.model.kromatography_project.KromatographyProject attribute)
chromatogram_model (kromatography.ui.chromatogram_model_view.ChromatogramModelView attribute)
ChromatogramModel (class in kromatography.plotting.data_models)
ChromatogramModelToITreeNode (class in kromatography.ui.adapters.chromatogram_model_to_i_tree_node)
ChromatogramModelView (class in kromatography.ui.chromatogram_model_view)
ChromatogramPlot (class in kromatography.plotting.chromatogram_plot)
ChromatogramPlotEditor (class in kromatography.ui.tasks.plot_editors)
chromatography_type (kromatography.model.cadet_input.CADETInput attribute)
ChromatographyData (class in kromatography.model.chromatography_data)
ChromatographyData_Serializer (class in kromatography.io.serializer)
ChromatographyDataCRUDEditor (class in kromatography.ui.chrom_data_crud_editor)
chromatographyDataDeSerializer (class in kromatography.io.deserializer)
ChromatographyResults (class in kromatography.model.chromatography_results)
ChromeFamily (class in kromatography.plotting.data_models)
ChromeLog (class in kromatography.plotting.data_models)
ChromeLogCollection (class in kromatography.plotting.data_models)
clear_simulations() (kromatography.model.simulation_group.SimulationGroup method)
clone() (kromatography.model.simulation.Simulation method)
close() (kromatography.ui.factories.binding_model.BindingModelBuilderHandler method)
(kromatography.ui.multi_experim_strip_fraction_calculator_view.MultiExpStripFractionCalculatorHandler method)
(kromatography.ui.strip_fraction_calculator_view.StripFractionCalculatorHandler method)
close_central_pane_for_object() (kromatography.ui.tasks.kromatography_task.KromatographyTask method)
close_empty_windows() (kromatography.app.krom_app.KromatographyApp method)
col_dispersion (kromatography.model.cadet_model.CADETModel attribute)
col_is_output() (kromatography.model.simulation_group.SimulationGroup static method)
col_length (kromatography.model.cadet_model.CADETModel attribute)
col_name_patterns (kromatography.io.akta_reader.AKTAReader attribute)
(kromatography.ui.akta_file_setting_selector.AKTAFileSettingSelector attribute)
col_porosity (kromatography.model.cadet_model.CADETModel attribute)
collect_all_data() (kromatography.io.akta_reader.AKTAReader method)
collect_component_candidates_names() (in module kromatography.ui.factories.product)
collect_experiment_targets() (kromatography.compute.cost_functions.CostFunction0 method)
collect_metrics() (kromatography.compute.cost_functions.CostFunction0 method)
collect_numpy_distros() (in module kromatography.model.random_parameter_scan_description)
collect_sim_data() (kromatography.compute.cost_functions.CostFunction0 method)
collect_user_name() (in module kromatography.utils.app_utils)
collection_criteria (kromatography.model.method.Method attribute)
collection_list (kromatography.ui.chromatogram_model_view.PlotColorEditor attribute)
collection_map (kromatography.ui.chromatogram_model_view.PlotColorEditor attribute)
collection_step_number (kromatography.model.method.Method attribute)
CollectionCriteria (class in kromatography.model.collection_criteria)
CollectionCriteria_Serializer (class in kromatography.io.serializer)
collectionCriteriaDeSerializer (class in kromatography.io.deserializer)
collision (kromatography.ui.akta_file_setting_selector.NamePattern attribute)
color_axis_param (kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer attribute)
color_bar_max_percentile (kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer attribute)
color_editor (kromatography.ui.chromatogram_model_view.ChromatogramModelView attribute)
color_modified() (kromatography.ui.chromatogram_model_view.PlotColorEditor method)
colorbar (kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer attribute)
colorbar_range (kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer attribute)
ColorCycler (class in kromatography.plotting.utilities)
Column (class in kromatography.model.column)
column (kromatography.io.experimental_study_builder.ExperimentalStudyBuilder attribute)
(kromatography.plotting.animation_data.AnimationData attribute)
(kromatography.ui.simulation_from_datasource_builder.SimulationFromDatasourceBuilder attribute)
column model
column_animation() (in module kromatography.plotting.mpl_column_animation)
column_animation_for_comp() (in module kromatography.plotting.mpl_column_animation)
column_lot_id (kromatography.model.column.Column attribute)
column_name (kromatography.ui.simulation_from_datasource_builder.SimulationFromDatasourceBuilder attribute)
column_porosity (kromatography.model.transport_model.GeneralRateModel attribute)
Column_Serializer (class in kromatography.io.serializer)
column_type (kromatography.model.column.Column attribute)
columnDeSerializer (class in kromatography.io.deserializer)
columnDeSerializer0 (class in kromatography.io.legacy_deserializers)
columnDeSerializer1 (class in kromatography.io.legacy_deserializers)
columnliqX (kromatography.plotting.animation_data.AnimationData attribute)
columnliqZ (kromatography.plotting.animation_data.AnimationData attribute)
ColumnPrepView (class in kromatography.ui.column_prep_view)
ColumnType (class in kromatography.model.column)
ColumnType_Serializer (class in kromatography.io.serializer)
columnTypeDeSerializer (class in kromatography.io.deserializer)
ColumnTypeView (class in kromatography.ui.column_type_model_view)
ColumnView (class in kromatography.ui.column_model_view)
command_stack (kromatography.ui.tasks.kromatography_task.KromatographyTask attribute)
component
Component (class in kromatography.model.component)
component_array (kromatography.ui.base_model_view_with_component_array.BaseModelViewWithComponentArray attribute)
component_assay_names (kromatography.ui.factories.product.ProductBuilder attribute)
component_atom_counts (kromatography.model.chemical.Chemical attribute)
component_attrs (kromatography.model.product.Product attribute)
component_descs (kromatography.ui.factories.product.ProductBuilder attribute)
component_idx (kromatography.plotting.animation_data.AnimationData attribute)
component_list (kromatography.model.chemical.Chemical attribute)
component_name (kromatography.plotting.animation_data.AnimationData attribute)
component_names (kromatography.compute.constant_binding_model_optimizer_step.ConstantBruteForceBindingModelOptimizerStep attribute)
(kromatography.model.base_product_model.BaseProductModel attribute)
component_selected (kromatography.ui.brute_force_optimizer_builder.BruteForceOptimizerBuilder attribute)
component_selector (kromatography.ui.brute_force_optimizer_builder.BruteForceOptimizerBuilder attribute)
Component_Serializer (class in kromatography.io.serializer)
ComponentDescription (class in kromatography.ui.factories.product)
componentDeSerializer (class in kromatography.io.deserializer)
ComponentSelector (class in kromatography.ui.component_selector)
ComponentView (class in kromatography.ui.component_model_view)
compress_factor (kromatography.model.column.Column attribute)
compute_assays() (kromatography.model.solution_with_product.SolutionWithProduct method)
compute_concentration() (kromatography.model.mass_balance_analyzer.MassBalanceAnalyzer method)
compute_concentrations() (kromatography.model.solution_with_product.SolutionWithProduct method)
compute_costs() (kromatography.compute.brute_force_optimizer_step.BruteForceOptimizerStep method)
(kromatography.compute.cost_functions.CostFunction0 method)
compute_loaded_vol() (kromatography.model.mass_balance_analyzer.MassBalanceAnalyzer method)
compute_mass_from_abs_data() (in module kromatography.compute.experiment_performance_parameters)
compute_strip_fraction() (in module kromatography.compute.experiment_performance_parameters)
compute_time_offset_from_holdup_volume() (in module kromatography.io.experiment_builder_utils)
compute_x_to_center() (in module kromatography.utils.build_splash)
conductivity (kromatography.model.buffer_prep.BufferPrep attribute)
(kromatography.model.solution.Solution attribute)
confirm_delete() (kromatography.ui.adapters.base_chromatography_data_to_i_tree_node.BaseChromatographyDataToITreeNode method)
confirm_on_window_close (kromatography.app.krom_app.KromatographyApp attribute)
(kromatography.utils.preferences.UIPreferenceGroup attribute)
console_logging_level (kromatography.utils.preferences.AppPreferenceGroup attribute)
const_coeff (kromatography.model.section.Section attribute)
constantBindingModelOptimizerStepDeSerializer0 (class in kromatography.io.legacy_deserializers)
ConstantBruteForceBindingModelOptimizerStep (class in kromatography.compute.constant_binding_model_optimizer_step)
ConstantBruteForceBindingModelOptimizerStep_Serializer (class in kromatography.io.serializer)
constantBruteForceBindingModelOptimizerStepDeSerializer (class in kromatography.io.deserializer)
constantBruteForceBindingModelOptimizerStepDeSerializer0 (class in kromatography.io.legacy_deserializers)
container (kromatography.plotting.chromatogram_plot.ChromatogramPlot attribute)
continuous_data (kromatography.model.chromatography_results.ChromatographyResults attribute)
(kromatography.model.mass_balance_analyzer.MassBalanceAnalyzer attribute)
continuous_data_from_akta() (in module kromatography.io.experiment_builder_utils)
contour_plot_from_data() (kromatography.plotting.animation_plot.AnimationPlot method)
convert_cv_to_g_per_liter_resin() (in module kromatography.utils.chromatography_units)
convert_g_per_liter_resin_to_cv() (in module kromatography.utils.chromatography_units)
convert_units() (in module kromatography.utils.chromatography_units)
copy() (kromatography.model.simulation.Simulation method)
cost_agg_func (kromatography.compute.brute_force_optimizer_step.BruteForceOptimizerStep attribute)
cost_data (kromatography.compute.cost_functions.CostFunction0 attribute)
(kromatography.compute.experiment_optimizer.ExperimentOptimizer attribute)
(kromatography.compute.experiment_optimizer_step.ExperimentOptimizerStep attribute)
(kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer attribute)
cost_data_changed() (kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer method)
cost_data_cols (kromatography.compute.experiment_optimizer.ExperimentOptimizer attribute)
cost_func_kw (kromatography.compute.experiment_optimizer_step.ExperimentOptimizerStep attribute)
cost_func_weights (kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer attribute)
cost_function_name (kromatography.ui.brute_force_optimizer_builder.BruteForceOptimizerBuilder attribute)
cost_function_type (kromatography.compute.experiment_optimizer.ExperimentOptimizer attribute)
(kromatography.compute.experiment_optimizer_step.ExperimentOptimizerStep attribute)
cost_plot_data (kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer attribute)
CostFunction (class in kromatography.compute.cost_functions)
CostFunction0 (class in kromatography.compute.cost_functions)
CostFunction0_Serializer (class in kromatography.io.serializer)
costFunction0DeSerializer (class in kromatography.io.deserializer)
cpus_per_task (kromatography.solve.slurm_cadet_executor.SlurmBatchJobParams attribute)
create() (kromatography.ui.tasks.plot_editors.PlotEditor method)
create_and_append_sim_from_sim_diff() (kromatography.model.simulation_group.SimulationGroup method)
create_and_run_app() (in module kromatography.app.main)
create_binding_model() (in module kromatography.model.factories.binding_model)
create_bug_report_group() (kromatography.app.krom_app.KromatographyApp method)
create_cadet_file_for_sim() (in module kromatography.solve.api)
(in module kromatography.solve.simulation_job_utils)
create_cadet_input_file() (kromatography.model.simulation.Simulation method)
create_central_pane() (kromatography.ui.tasks.kromatography_task.KromatographyTask method)
create_chrome_family() (in module kromatography.plotting.model_factories)
create_chrome_log() (in module kromatography.plotting.model_factories)
create_close_group() (kromatography.app.krom_app.KromatographyApp method)
create_copy_group() (kromatography.app.krom_app.KromatographyApp method)
create_dock_panes() (kromatography.ui.tasks.kromatography_task.KromatographyTask method)
create_documentation_group() (kromatography.app.krom_app.KromatographyApp method)
create_new_binding_model() (kromatography.ui.factories.binding_model.BindingModelBuilder method)
create_new_experiment() (kromatography.model.study.Study method)
create_new_optimizer() (kromatography.model.study.Study method)
create_new_project_group() (kromatography.app.krom_app.KromatographyApp method)
create_new_task_window() (kromatography.app.krom_app.KromatographyApp method)
create_preference_group() (kromatography.app.krom_app.KromatographyApp method)
create_recent_project_group() (kromatography.app.krom_app.KromatographyApp method)
create_start_job_manager() (in module kromatography.model.factories.job_manager)
create_steps() (kromatography.compute.brute_force_binding_model_optimizer.BruteForce2StepBindingModelOptimizer method)
(kromatography.compute.brute_force_optimizer.BruteForceOptimizer method)
create_transport_model() (in module kromatography.model.factories.transport_model)
create_undo_group() (kromatography.app.krom_app.KromatographyApp method)
create_update_group() (kromatography.app.krom_app.KromatographyApp method)
cube_coeff (kromatography.model.section.Section attribute)
current_concentration (kromatography.model.mass_balance_analyzer.MassBalanceAnalyzer attribute)
current_volume (kromatography.model.mass_balance_analyzer.MassBalanceAnalyzer attribute)

D

data (kromatography.io.akta_reader.AKTAReader attribute)
(kromatography.utils.datasource_utils.BaseEntryCreator attribute)
data_catalog (kromatography.model.factories.user_datasource.DataSourceObjectCatalogBuilder attribute)
data_coord (kromatography.plotting.data_inspector_tool.DataInspectorTool attribute)
data_delimiter (kromatography.io.akta_reader.AKTAReader attribute)
data_label (kromatography.plotting.data_models.ChromeFamily attribute)
data_manager (kromatography.model.kromatography_project.KromatographyProject attribute)
data_row_index (kromatography.io.akta_reader.AKTAReader attribute)
data_source (kromatography.io.base_excel_reader.BaseExcelReader attribute)
(kromatography.io.experimental_study_builder.ExperimentalStudyBuilder attribute)
data_unit_label (kromatography.plotting.data_models.ChromeFamily attribute)
data_updated (kromatography.compute.experiment_optimizer_step.ExperimentOptimizerStep attribute)
dataFrameDeSerializer0 (class in kromatography.io.legacy_deserializers)
DataFrameWithColumnOutputsAdapter (class in kromatography.ui.adapters.df_with_outputs_df_editor_adapter)
DataFrameWithOutputsAdapter (class in kromatography.ui.adapters.df_with_outputs_df_editor_adapter)
DataInspectorOverlay (class in kromatography.plotting.data_inspector_tool)
DataInspectorTool (class in kromatography.plotting.data_inspector_tool)
DataManager (class in kromatography.model.data_manager)
DataManagerToITreeNode (class in kromatography.ui.adapters.data_manager_to_i_tree_node)
dataset_type (kromatography.ui.akta_file_setting_selector.NamePattern attribute)
DataSource (class in kromatography.model.data_source)
datasource (kromatography.app.krom_app.KromatographyApp attribute)
(kromatography.model.base_study.BaseStudy attribute)
(kromatography.model.kromatography_project.KromatographyProject attribute)
(kromatography.ui.buffer_model_view.BufferView attribute)
(kromatography.ui.chemical_model_view.ChemicalView attribute)
(kromatography.ui.factories.product.ProductBuilder attribute)
(kromatography.ui.method_model_view.MethodModelView attribute)
(kromatography.ui.simulation_from_datasource_builder.SimulationFromDatasourceBuilder attribute)
(kromatography.ui.system_model_view.SystemTypeSelector attribute)
(kromatography.ui.system_model_view.SystemView attribute)
(kromatography.ui.tasks.data_source_pane.DataSourceDockPane attribute)
(kromatography.utils.datasource_utils.BaseEntryCreator attribute)
(kromatography.utils.datasource_utils.StudyDataSourceEntryCreator attribute)
datasource_file (kromatography.app.krom_app.KromatographyApp attribute)
datasource_key (kromatography.utils.datasource_utils.BaseEntryCreator attribute)
DataSource_Serializer (class in kromatography.io.serializer)
DataSourceCollisionError
dataSourceDeSerializer (class in kromatography.io.deserializer)
DataSourceDockPane (class in kromatography.ui.tasks.data_source_pane)
DataSourceLookupError
DataSourceObjectCatalogBuilder (class in kromatography.model.factories.user_datasource)
DataSourceTypeIDError
default_traits_view() (kromatography.tools.preferences_view.RevealChromatographyPreferenceView method)
(kromatography.ui.animation_plot_view.AnimationPlotView method)
(kromatography.ui.buffer_model_view.BufferView method)
(kromatography.ui.chemical_model_view.ChemicalView method)
(kromatography.ui.chrom_data_crud_editor.ChromatographyDataCRUDEditor method)
(kromatography.ui.chromatogram_model_view.ChromatogramModelView method)
(kromatography.ui.chromatogram_model_view.PlotColorEditor method)
(kromatography.ui.column_model_view.ColumnView method)
(kromatography.ui.column_type_model_view.ColumnTypeView method)
(kromatography.ui.component_model_view.ComponentView method)
(kromatography.ui.discretization_model_view.DiscretizationView method)
(kromatography.ui.external_langmuir_model_view.ExternalLangmuirView method)
(kromatography.ui.general_rate_model_view.GeneralRateModelView method)
(kromatography.ui.langmuir_model_view.LangmuirView method)
(kromatography.ui.method_model_view.MethodModelView method)
(kromatography.ui.multi_experim_strip_fraction_calculator_view.MultiExpStripFractionCalculatorView method)
(kromatography.ui.product_component_model_view.ProductComponentView method)
(kromatography.ui.product_model_view.ProductView method)
(kromatography.ui.resin_model_view.ResinView method)
(kromatography.ui.simulation_selector.SimulationSelector method)
(kromatography.ui.simulation_selector.SingleSimulationGroupSelector method)
(kromatography.ui.simulation_selector.SingleSimulationSelector method)
(kromatography.ui.simulation_view.SimulationView method)
(kromatography.ui.solution_with_product_view.SolutionWithProductView method)
(kromatography.ui.solver_model_view.SolverView method)
(kromatography.ui.steric_mass_action_model_view.StericMassActionModelView method)
(kromatography.ui.strip_fraction_calculator_view.StripFractionCalculatorView method)
(kromatography.ui.study_model_view.StudyView method)
(kromatography.ui.system_model_view.SystemTypeSelector method)
(kromatography.ui.system_model_view.SystemView method)
(kromatography.ui.system_type_model_view.SystemTypeView method)
deleted_objects (kromatography.model.kromatography_project.KromatographyProject attribute)
density (kromatography.model.buffer_prep.BufferPrep attribute)
(kromatography.model.solution.Solution attribute)
description (kromatography.model.buffer_prep.BufferPrep attribute)
(kromatography.model.product.Product attribute)
(kromatography.model.simulation.Simulation attribute)
(kromatography.model.solution.Solution attribute)
(kromatography.plotting.data_models.ChromeFamily attribute)
(kromatography.ui.factories.product.ProductBuilder attribute)
(kromatography.ui.simulation_selector.SimulationSelector attribute)
deserialize() (in module kromatography.io.deserializer)
df_attr_name (kromatography.ui.adapters.df_with_outputs_df_editor_adapter.DataFrameWithOutputsAdapter attribute)
diameter (kromatography.model.column.ColumnType attribute)
direct_list_changed() (kromatography.model.data_source.InMemoryDataSource method)
dirty (kromatography.model.data_source.InMemoryDataSource attribute)
disconnected_plots (kromatography.ui.chromatogram_model_view.ChromatogramModelView attribute)
(kromatography.ui.chromatogram_model_view.PlotColorEditor attribute)
Discretization (class in kromatography.model.discretization)
discretization (kromatography.model.cadet_input.CADETInput attribute)
(kromatography.model.simulation.Simulation attribute)
Discretization_Serializer (class in kromatography.io.serializer)
discretization_type (kromatography.ui.simulation_builder.SimulationBuilder attribute)
discretizationDeSerializer (class in kromatography.io.deserializer)
DiscretizationView (class in kromatography.ui.discretization_model_view)
displayed_log_collection_names (kromatography.ui.chromatogram_model_view.ChromatogramModelView attribute)
displayed_log_family_names (kromatography.ui.chromatogram_model_view.ChromatogramModelView attribute)
dist_param1 (kromatography.model.random_parameter_scan_description.RandomParameterScanDescription attribute)
dist_param2 (kromatography.model.random_parameter_scan_description.RandomParameterScanDescription attribute)
distribution (kromatography.model.random_parameter_scan_description.RandomParameterScanDescription attribute)
do_apply() (kromatography.ui.multi_experim_strip_fraction_calculator_view.MultiExpStripFractionCalculatorHandler method)
(kromatography.ui.strip_fraction_calculator_view.StripFractionCalculatorHandler method)
do_export_data() (kromatography.ui.brute_force_optimizer_model_view.BruteForceOptimizerView method)
(kromatography.ui.brute_force_optimizer_step_model_view.BruteForceOptimizerStepView method)
(kromatography.ui.simulation_group_model_view.SimulationGroupView method)
do_refine (kromatography.compute.brute_force_binding_model_optimizer.BruteForce2StepBindingModelOptimizer attribute)
(kromatography.ui.brute_force_optimizer_builder.BruteForceOptimizerBuilder attribute)
do_reset() (kromatography.ui.multi_experim_strip_fraction_calculator_view.MultiExpStripFractionCalculatorHandler method)
(kromatography.ui.strip_fraction_calculator_view.StripFractionCalculatorHandler method)
do_reset_preferences() (kromatography.tools.preferences_view.RevealChromatographyPreferenceViewHandler method)
do_save_preferences() (kromatography.tools.preferences_view.RevealChromatographyPreferenceViewHandler method)
duplicate_request (kromatography.model.simulation.Simulation attribute)
duplicate_simulation() (kromatography.model.study.Study method)

E

edit_object_in_central_pane() (kromatography.ui.tasks.kromatography_task.KromatographyTask method)
edit_weights_button (kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer attribute)
egg_repo_url (kromatography.tools.update_downloader.UpdateDownloader attribute)
empty_cadet_input_folder() (in module kromatography.utils.app_utils)
empty_log_folder() (in module kromatography.utils.app_utils)
evaluate_mass_balance() (kromatography.ui.akta_file_setting_selector.AKTAFileSettingSelector method)
excel_data (kromatography.io.experimental_study_builder.ExperimentalStudyBuilder attribute)
excel_reader (kromatography.io.experimental_study_builder.ExperimentalStudyBuilder attribute)
ExcelInputReaderSelector (class in kromatography.io.excel_reader_selector)
ExcelReader (class in kromatography.io.excel_reader)
ExcelReadError
ExcelReaderV1 (class in kromatography.io.excel_reader_v1)
execute() (kromatography.solve.cadet_executor.BaseCADETExecutor method)
(kromatography.solve.work_executor.WorkExecutor method)
ExecutionFailedError
executor_num_worker (kromatography.utils.preferences.SolverPreferenceGroup attribute)
exp_importer_mass_threshold (kromatography.utils.preferences.FilePreferenceGroup attribute)
exp_study_filepath (kromatography.model.study.Study attribute)
expand_product_attributes() (kromatography.ui.factories.product.ProductBuilder method)
experim (kromatography.compute.strip_fraction_calculator.StripFractionCalculator attribute)
experiment
Experiment (class in kromatography.model.experiment)
experiment_name (kromatography.ui.akta_file_setting_selector.AKTAFileSettingSelector attribute)
experiment_selected (kromatography.ui.brute_force_optimizer_builder.BruteForceOptimizerBuilder attribute)
(kromatography.ui.simulation_from_experiment_builder.SimulationFromExperimentBuilder attribute)
experiment_selector (kromatography.ui.brute_force_optimizer_builder.BruteForceOptimizerBuilder attribute)
(kromatography.ui.simulation_from_experiment_builder.SimulationFromExperimentBuilder attribute)
Experiment_Serializer (class in kromatography.io.serializer)
experimentalist (kromatography.model.experimental_study.ExperimentalStudy attribute)
ExperimentalStudy (class in kromatography.model.experimental_study)
ExperimentalStudyBuilder (class in kromatography.io.experimental_study_builder)
experimentDeSerializer (class in kromatography.io.deserializer)
ExperimentOptimizer (class in kromatography.compute.experiment_optimizer)
ExperimentOptimizerStep (class in kromatography.compute.experiment_optimizer_step)
ExperimentOptimizerStepToITreeNode (class in kromatography.ui.adapters.experiment_optimizer_step_to_i_tree_node)
ExperimentOptimizerToITreeNode (class in kromatography.ui.adapters.experiment_optimizer_to_i_tree_node)
ExperimentResults (class in kromatography.model.chromatography_results)
ExperimentResults_Serializer (class in kromatography.io.serializer)
experimentResultsDeSerializer (class in kromatography.io.deserializer)
experimentResultsDeSerializer0 (class in kromatography.io.legacy_deserializers)
experimentResultsDeSerializer1 (class in kromatography.io.legacy_deserializers)
experiments (kromatography.io.experimental_study_builder.ExperimentalStudyBuilder attribute)
(kromatography.model.base_study.BaseStudy attribute)
(kromatography.model.study.Study attribute)
ExperimentSelector (class in kromatography.ui.experiment_selector)
expert_mode (kromatography.ui.factories.product.ProductBuilder attribute)
export_data_to_csv_button (kromatography.ui.brute_force_optimizer_model_view.BruteForceOptimizerView attribute)
(kromatography.ui.brute_force_optimizer_step_model_view.BruteForceOptimizerStepView attribute)
(kromatography.ui.simulation_group_model_view.SimulationGroupView attribute)
ExpressionComputationError
ext_prof_delta (kromatography.model.cadet_ph_external_profile.CADETPhExternalProfile attribute)
ext_profile (kromatography.model.cadet_ph_external_profile.CADETPhExternalProfile attribute)
ext_velocity (kromatography.model.cadet_ph_external_profile.CADETPhExternalProfile attribute)
extended_attr (kromatography.model.simulation_group.SingleParamSimulationDiff attribute)
external (kromatography.model.cadet_model.CADETModel attribute)
ExternalLangmuir (class in kromatography.model.binding_model)
ExternalLangmuir_Serializer (class in kromatography.io.serializer)
externalLangmuirDeSerializer (class in kromatography.io.deserializer)
ExternalLangmuirView (class in kromatography.ui.external_langmuir_model_view)
extinction_coefficient (kromatography.model.product_component.ProductComponent attribute)
extl_ka_t (kromatography.model.binding_model.ExternalLangmuir attribute)
extl_kd_t (kromatography.model.binding_model.ExternalLangmuir attribute)
extl_qmax_t (kromatography.model.binding_model.ExternalLangmuir attribute)
extra_actions (kromatography.app.krom_app.KromatographyApp attribute)
extract_list_of_solutions() (in module kromatography.ui.method_model_view)
extract_output_data() (in module kromatography.plotting.mpl_sim_grid)
extract_perf_data() (in module kromatography.plotting.mpl_param_impact_plot)
extract_short_name_from_param_scan() (in module kromatography.model.parameter_scan_description)
extract_slurm_run_id() (in module kromatography.solve.slurm_cadet_executor)

F

factory (kromatography.utils.datasource_utils.BaseEntryCreator attribute)
factory_input (kromatography.utils.datasource_utils.BaseEntryCreator attribute)
factory_reset() (kromatography.tools.preferences_view.RevealChromatographyPreferenceView method)
family (kromatography.plotting.data_models.ChromeLog attribute)
file_path (kromatography.io.akta_reader.AKTAReader attribute)
(kromatography.io.base_excel_reader.BaseExcelReader attribute)
file_preview (kromatography.ui.akta_file_setting_selector.AKTAFileSettingSelector attribute)
filepath (kromatography.io.excel_reader_selector.ExcelInputReaderSelector attribute)
(kromatography.model.experimental_study.ExperimentalStudy attribute)
FilePreferenceGroup (class in kromatography.utils.preferences)
FilePreferencesView (class in kromatography.tools.preferences_view)
film_diffusion (kromatography.model.cadet_model.CADETModel attribute)
film_mass_transfer (kromatography.model.transport_model.GeneralRateModel attribute)
filter_dataframe() (in module kromatography.plotting.mpl_sim_grid)
filtered_cost_data (kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer attribute)
find_index_of_first_value_below() (in module kromatography.compute.cost_function_calcs)
fire_cadet_request() (kromatography.model.simulation.Simulation method)
(kromatography.model.simulation_group.SimulationGroup method)
fire_duplicate_request() (kromatography.model.simulation.Simulation method)
fire_perf_param_data_event() (kromatography.model.simulation.Simulation method)
fire_plot_request() (kromatography.model.simulation.Simulation method)
(kromatography.model.simulation_group.SimulationGroup method)
first_simulated_step (kromatography.model.simulation.Simulation attribute)
first_simulated_step_name (kromatography.ui.simulation_builder.SimulationBuilder attribute)
flatten_nested_mapping() (in module kromatography.plotting.utilities)
flow_range (kromatography.model.system.SystemType attribute)
flow_rate (kromatography.model.method_step.MethodStep attribute)
formula (kromatography.model.chemical.Chemical attribute)
fraction_calculators (kromatography.ui.multi_experim_strip_fraction_calculator_view.MultiExpStripFractionCalculatorView attribute)
fraction_data (kromatography.model.chromatography_results.ChromatographyResults attribute)
from_data_catalog() (kromatography.model.data_source.SimpleDataSource class method)
from_simulation() (kromatography.model.cadet_ph_external_profile.CADETPhExternalProfile class method)
(kromatography.model.lazy_simulation.LazyLoadingSimulation class method)
full_param_name_from_short_name() (in module kromatography.model.parameter_scan_description)

G

general_section_name (kromatography.io.base_excel_reader.BaseExcelReader attribute)
GeneralRateModel (class in kromatography.model.transport_model)
GeneralRateModel_Serializer (class in kromatography.io.serializer)
generalRateModelDeSerializer (class in kromatography.io.deserializer)
GeneralRateModelView (class in kromatography.ui.general_rate_model_view)
generate_license_key() (in module kromatography.utils.license_manager)
generate_sim_name() (in module kromatography.model.factories.simulation)
generate_sim_names() (in module kromatography.ui.simulation_from_experiment_builder)
generate_slurm_script() (in module kromatography.solve.slurm_cadet_executor)
get_all_data() (kromatography.io.base_excel_reader.BaseExcelReader method)
get_app_folder() (in module kromatography.utils.preferences)
get_base_properties_for_family() (in module kromatography.plotting.utilities)
get_bg_color() (kromatography.ui.adapters.df_with_outputs_df_editor_adapter.DataFrameWithColumnOutputsAdapter method)
get_bin_folder() (in module kromatography.utils.app_utils)
get_buffer_prep_data() (kromatography.io.excel_reader.ExcelReader method)
(kromatography.io.excel_reader_v1.ExcelReaderV1 method)
get_cadet_input_folder() (in module kromatography.utils.app_utils)
get_cadet_version() (in module kromatography.utils.app_utils)
get_children() (kromatography.ui.adapters.chromatogram_model_to_i_tree_node.ChromatogramModelToITreeNode method)
(kromatography.ui.adapters.data_manager_to_i_tree_node.DataManagerToITreeNode method)
(kromatography.ui.adapters.data_source_to_i_tree_node.SimpleDataSourceToITreeNode method)
get_column_data() (kromatography.io.base_excel_reader.BaseExcelReader method)
get_component_with_name() (kromatography.model.product.Product method)
get_current_step_time() (kromatography.plotting.animation_plot.AnimationPlot method)
get_current_user() (kromatography.tools.update_downloader.UpdateDownloader static method)
get_data() (kromatography.io.akta_reader.AKTAReader method)
(kromatography.io.serializer.SingleParamSimulationDiff_Serializer method)
get_data_by_type() (kromatography.model.factories.user_datasource.DataSourceObjectCatalogBuilder method)
get_data_of_type() (kromatography.model.factories.user_datasource.DataSourceObjectCatalogBuilder method)
get_dtype() (in module kromatography.utils.str_utils)
get_dtype_sanitized_data() (in module kromatography.utils.io_utils)
get_excel_input_version() (kromatography.io.excel_reader_selector.ExcelInputReaderSelector method)
get_executor_folder() (in module kromatography.utils.app_utils)
get_experiment_data() (kromatography.io.base_excel_reader.BaseExcelReader method)
get_expt_data() (kromatography.compute.cost_functions.CostFunction0 method)
get_general_data() (kromatography.io.base_excel_reader.BaseExcelReader method)
get_group_items() (in module kromatography.utils.traitsui_utils)
get_hdf5_content() (in module kromatography.utils.io_utils)
get_instance() (kromatography.io.deserializer.bindingModelDeSerializer method)
(kromatography.io.deserializer.bindingModelOptimizerStepDeSerializer method)
(kromatography.io.deserializer.bruteForce2StepBindingModelOptimizerDeSerializer method)
(kromatography.io.deserializer.bruteForceOptimizerDeSerializer method)
(kromatography.io.deserializer.bruteForceOptimizerStepDeSerializer method)
(kromatography.io.deserializer.bufferDeSerializer method)
(kromatography.io.deserializer.chemicalDeSerializer method)
(kromatography.io.deserializer.chromatographyDataDeSerializer method)
(kromatography.io.deserializer.collectionCriteriaDeSerializer method)
(kromatography.io.deserializer.columnDeSerializer method)
(kromatography.io.deserializer.componentDeSerializer method)
(kromatography.io.deserializer.costFunction0DeSerializer method)
(kromatography.io.deserializer.dataSourceDeSerializer method)
(kromatography.io.deserializer.discretizationDeSerializer method)
(kromatography.io.deserializer.experimentDeSerializer method)
(kromatography.io.deserializer.kromatographyProjectDeSerializer method)
(kromatography.io.deserializer.kromatographyTaskDeSerializer method)
(kromatography.io.deserializer.methodDeSerializer method)
(kromatography.io.deserializer.methodStepDeSerializer method)
(kromatography.io.deserializer.parameterScanDescriptionDeSerializer method)
(kromatography.io.deserializer.performanceDataDeSerializer method)
(kromatography.io.deserializer.productComponentDeSerializer method)
(kromatography.io.deserializer.productDeSerializer method)
(kromatography.io.deserializer.resinDeSerializer method)
(kromatography.io.deserializer.resultsDeSerializer method)
(kromatography.io.deserializer.schurSolverDeSerializer method)
(kromatography.io.deserializer.sensitivityDeSerializer method)
(kromatography.io.deserializer.simulationDeSerializer method)
(kromatography.io.deserializer.simulationGroupDeSerializer method)
(kromatography.io.deserializer.solutionDeSerializer method)
(kromatography.io.deserializer.solutionWithProductDeSerializer method)
(kromatography.io.deserializer.solverDeSerializer method)
(kromatography.io.deserializer.studyAnalysisToolsDeSerializer method)
(kromatography.io.deserializer.studyDeSerializer method)
(kromatography.io.deserializer.systemDeSerializer method)
(kromatography.io.deserializer.systemTypeDeSerializer method)
(kromatography.io.deserializer.timeIntegratorDeSerializer method)
(kromatography.io.deserializer.transportModelDeSerializer method)
(kromatography.io.deserializer.wenoDeSerializer method)
(kromatography.io.deserializer.xYDataDeSerializer method)
(kromatography.io.legacy_deserializers.bruteForce2StepBindingModelOptimizerDeSerializer0 method)
(kromatography.io.legacy_deserializers.bruteForce2StepBindingModelOptimizerDeSerializer1 method)
(kromatography.io.legacy_deserializers.bruteForce2StepBindingModelOptimizerDeSerializer2 method)
(kromatography.io.legacy_deserializers.bruteForceBindingModelOptimizerStepDeSerializer1 method)
(kromatography.io.legacy_deserializers.bruteForceOptimizerDeSerializer0 method)
(kromatography.io.legacy_deserializers.bruteForceOptimizerDeSerializer1 method)
(kromatography.io.legacy_deserializers.bruteForceOptimizerStepDeSerializer0 method)
(kromatography.io.legacy_deserializers.bruteForceOptimizerStepDeSerializer1 method)
(kromatography.io.legacy_deserializers.columnDeSerializer0 method)
(kromatography.io.legacy_deserializers.columnDeSerializer1 method)
(kromatography.io.legacy_deserializers.constantBindingModelOptimizerStepDeSerializer0 method)
(kromatography.io.legacy_deserializers.constantBruteForceBindingModelOptimizerStepDeSerializer0 method)
(kromatography.io.legacy_deserializers.experimentResultsDeSerializer0 method)
(kromatography.io.legacy_deserializers.experimentResultsDeSerializer1 method)
(kromatography.io.legacy_deserializers.inStudyDataSourceDeSerializer0 method)
(kromatography.io.legacy_deserializers.methodStepDeSerializer0 method)
(kromatography.io.legacy_deserializers.simpleDataSourceDeSerializer0 method)
(kromatography.io.legacy_deserializers.simulationDeSerializer0 method)
(kromatography.io.legacy_deserializers.simulationDeSerializer1 method)
(kromatography.io.legacy_deserializers.simulationGroupDeSerializer0 method)
(kromatography.io.legacy_deserializers.solverDeSerializer0 method)
(kromatography.io.legacy_deserializers.studyDeSerializer0 method)
(kromatography.io.legacy_deserializers.studyDeSerializer1 method)
(kromatography.io.legacy_deserializers.transportModelDeSerializer0 method)
get_label() (kromatography.ui.adapters.chromatogram_model_to_i_tree_node.ChromatogramModelToITreeNode method)
(kromatography.ui.adapters.data_source_to_i_tree_node.SimpleDataSourceToITreeNode method)
(kromatography.ui.adapters.simulation_group_to_i_tree_node.SimulationGroupToITreeNode method)
(kromatography.ui.adapters.study_analysis_tools_to_i_tree_node.StudyAnalysisToolsToITreeNode method)
(kromatography.ui.adapters.study_to_i_tree_node.StudyToITreeNode method)
get_load_data() (kromatography.io.excel_reader.ExcelReader method)
(kromatography.io.excel_reader_v1.ExcelReaderV1 method)
get_log_folder() (in module kromatography.utils.app_utils)
get_menu() (kromatography.ui.adapters.base_chromatography_data_to_i_tree_node.BaseChromatographyDataToITreeNode method)
(kromatography.ui.adapters.study_to_i_tree_node.StudyToITreeNode method)
get_minimal_parser() (in module kromatography.utils.app_utils)
get_most_contributing_component() (in module kromatography.compute.experiment_performance_parameters)
get_newest_app_file() (in module kromatography.utils.app_utils)
get_node_data_list() (in module kromatography.utils.traitsui_utils)
get_node_data_list_element() (in module kromatography.utils.traitsui_utils)
get_object_names_by_type() (kromatography.model.data_source.InMemoryDataSource method)
get_object_of_type() (kromatography.model.data_source.InMemoryDataSource method)
get_object_type_ids() (kromatography.model.data_source.DataSource method)
(kromatography.model.data_source.InMemoryDataSource method)
get_objects_by_type() (kromatography.model.data_source.DataSource method)
(kromatography.model.data_source.InMemoryDataSource method)
get_optimal_sims() (kromatography.compute.brute_force_optimizer_step.BruteForceOptimizerStep method)
get_plot_container_properties_for_family() (in module kromatography.plotting.utilities)
get_preference_file() (in module kromatography.utils.app_utils)
get_preferences() (in module kromatography.utils.app_utils)
get_product_component_assays() (kromatography.ui.product_model_view.ProductView method)
get_python_script_folder() (in module kromatography.utils.app_utils)
get_renderer_properties() (in module kromatography.plotting.utilities)
get_sanitized_state() (in module kromatography.utils.io_utils)
get_section_times() (in module kromatography.model.simulation)
get_serial_data() (kromatography.io.serializer.ChromatographyData_Serializer method)
(kromatography.io.serializer.KromatographyProject_Serializer method)
(kromatography.io.serializer.KromatographyTask_Serializer method)
(kromatography.io.serializer.SingleParamSimulationDiff_Serializer method)
(kromatography.io.serializer.TransportModel_Serializer method)
get_sim_data() (kromatography.compute.cost_functions.CostFunction0 method)
get_simulation() (kromatography.model.simulation_group.SimulationGroup method)
get_step_of_attr() (kromatography.model.method.Method method)
get_step_of_name() (kromatography.model.method.Method method)
get_step_of_type() (kromatography.model.method.Method method)
get_step_velocity() (in module kromatography.model.cadet_ph_external_profile)
get_system_data() (kromatography.io.base_excel_reader.BaseExcelReader method)
get_tree_editor_in_ui() (in module kromatography.utils.traitsui_utils)
get_updater_folder() (in module kromatography.utils.app_utils)
get_user_ds_folder() (in module kromatography.utils.app_utils)
get_val_for_sim() (in module kromatography.model.simulation_group)
get_value() (kromatography.ui.factories.parameter_table_editor.ModifiedObjectColumn method)
group_cost_functions (kromatography.compute.brute_force_optimizer_step.BruteForceOptimizerStep attribute)
group_data (kromatography.model.simulation_group.SimulationGroup attribute)
group_data_updated_event (kromatography.model.simulation_group.SimulationGroup attribute)
group_name (kromatography.ui.simulation_group_builder.SimulationGroupBuilder attribute)
group_type (kromatography.ui.simulation_group_builder.SimulationGroupBuilder attribute)
gs_type (kromatography.model.schur_solver.SchurSolver attribute)

H

has_children() (kromatography.ui.adapters.chromatogram_model_to_i_tree_node.ChromatogramModelToITreeNode method)
(kromatography.ui.adapters.data_manager_to_i_tree_node.DataManagerToITreeNode method)
(kromatography.ui.adapters.data_source_to_i_tree_node.SimpleDataSourceToITreeNode method)
has_mass_units() (in module kromatography.utils.units_utils)
has_run (kromatography.compute.experiment_optimizer.ExperimentOptimizer attribute)
(kromatography.compute.experiment_optimizer_step.ExperimentOptimizerStep attribute)
(kromatography.model.simulation.Simulation attribute)
(kromatography.model.simulation_group.SimulationGroup attribute)
(kromatography.solve.simulation_runner.SimulationRunner attribute)
has_volume_units() (in module kromatography.utils.units_utils)
header_delimiter (kromatography.io.akta_reader.AKTAReader attribute)
header_info (kromatography.io.akta_reader.AKTAReader attribute)
header_row_index (kromatography.io.akta_reader.AKTAReader attribute)
hetp (kromatography.model.column.Column attribute)
hetp_asymmetry (kromatography.model.column.Column attribute)
hide_legend() (kromatography.plotting.chromatogram_plot.ChromatogramPlot method)
high (kromatography.model.parameter_scan_description.ParameterScanDescription attribute), [1]
holdup_volume (kromatography.model.system.System attribute)
home directory

I

import_settings (kromatography.model.chromatography_results.ExperimentResults attribute)
(kromatography.ui.akta_file_setting_selector.AKTAFileSettingSelector attribute)
impurity_assay_exps (kromatography.model.product.Product attribute)
impurity_assay_values (kromatography.model.solution_with_product.SolutionWithProduct attribute)
impurity_assays (kromatography.model.product.Product attribute)
impurity_concentration_exps (kromatography.model.product.Product attribute)
impurity_concentrations (kromatography.model.solution_with_product.SolutionWithProduct attribute)
impurity_names (kromatography.model.product.Product attribute)
index_all_sims() (kromatography.solve.sim_runner_manager.SimulationRunnerManager method)
init() (kromatography.plotting.chromatogram_plot.ChromatogramPlot method)
init_c (kromatography.model.cadet_model.CADETModel attribute)
init_cp (kromatography.model.cadet_model.CADETModel attribute)
init_q (kromatography.model.cadet_model.CADETModel attribute)
init_step_size (kromatography.model.time_integrator.TimeIntegrator attribute)
initial buffer
initial_buffer (kromatography.model.method.Method attribute)
(kromatography.ui.brute_force_optimizer_builder.BruteForceOptimizerBuilder attribute)
(kromatography.ui.simulation_builder.SimulationBuilder attribute)
initial_buffer_name (kromatography.model.method.Method attribute)
(kromatography.ui.brute_force_optimizer_builder.BruteForceOptimizerBuilder attribute)
(kromatography.ui.method_model_view.MethodModelView attribute)
(kromatography.ui.simulation_builder.SimulationBuilder attribute)
initial_files (kromatography.app.krom_app.KromatographyApp attribute)
initial_studies (kromatography.app.krom_app.KromatographyApp attribute)
initialize() (kromatography.tools.update_downloader.UpdateDownloader method)
initialize_animation_figs() (in module kromatography.plotting.mpl_column_animation)
initialize_cadet_input_folder() (in module kromatography.utils.app_utils)
initialize_executor_temp_folder() (in module kromatography.utils.app_utils)
initialize_group_data() (kromatography.model.simulation_group.SimulationGroup method)
initialize_logging() (in module kromatography.utils.app_utils)
initialize_reveal() (in module kromatography.utils.api)
initialize_settings() (kromatography.ui.akta_file_setting_selector.AKTAFileSettingSelector method)
initialize_sim_group() (kromatography.compute.brute_force_optimizer_step.BruteForceOptimizerStep method)
initialize_simulations() (kromatography.model.simulation_group.SimulationGroup method)
initialize_unit_parser() (in module kromatography.utils.app_utils)
initialize_updater_folder() (in module kromatography.utils.app_utils)
Inlet (class in kromatography.model.inlet)
inlet (kromatography.model.cadet_model.CADETModel attribute)
InMemoryDataSource (class in kromatography.model.data_source)
InMemoryDatasource_Serializer (class in kromatography.io.serializer)
inMemoryDataSourceDeSerializer (class in kromatography.io.deserializer)
input_file (kromatography.io.experimental_study_builder.ExperimentalStudyBuilder attribute)
inspector (kromatography.plotting.data_inspector_tool.DataInspectorOverlay attribute)
instance_collection (kromatography.io.deserializer.schurSolverDeSerializer attribute)
instantiate_app() (in module kromatography.app.krom_app)
InStudyDataSource (class in kromatography.model.data_source)
InStudyDataSource_Serializer (class in kromatography.io.serializer)
inStudyDataSourceDeSerializer (class in kromatography.io.deserializer)
inStudyDataSourceDeSerializer0 (class in kromatography.io.legacy_deserializers)
integrated_mass_before_strip (kromatography.compute.strip_fraction_calculator.StripFractionCalculator attribute)
interpolate_properties() (in module kromatography.plotting.utilities)
invalidate_group_cost_data() (kromatography.compute.brute_force_optimizer_step.BruteForceOptimizerStep method)
InvalidExecutorError
io_data_dir() (in module kromatography.utils.testing_utils)
io_data_path() (in module kromatography.utils.testing_utils)
is_blank (kromatography.model.kromatography_project.KromatographyProject attribute)
(kromatography.model.study.Study attribute)
is_kinetic (kromatography.model.binding_model.BindingModel attribute)
is_lazy() (in module kromatography.model.lazy_simulation)
is_lazy_loading (kromatography.model.simulation_group.SimulationGroup attribute)
is_linear_flow_rate() (in module kromatography.utils.units_utils)
is_repeating_array() (in module kromatography.compute.brute_force_optimizer_step)
is_simple_datasource_blank() (in module kromatography.model.data_source)
is_squeezable() (in module kromatography.compute.brute_force_optimizer_step)
is_string_valid_variable_name() (in module kromatography.utils.str_utils)
is_task_blank() (in module kromatography.ui.tasks.kromatography_task)
is_volumetric_flow_rate() (in module kromatography.utils.units_utils)
ISolver (class in kromatography.io.i_solver)

J

job_id (kromatography.solve.simulation_runner.SimulationRunner attribute)
job_manager (kromatography.app.krom_app.KromatographyApp attribute)
(kromatography.model.kromatography_project.KromatographyProject attribute)
(kromatography.solve.simulation_runner.SimulationRunner attribute)
job_name (kromatography.solve.slurm_cadet_executor.SlurmBatchJobParams attribute)

K

ka_low_high (kromatography.compute.constant_binding_model_optimizer_step.ConstantBruteForceBindingModelOptimizerStep attribute)
known_collections (kromatography.plotting.utilities.ColorCycler attribute)
known_components (kromatography.ui.buffer_model_view.BufferView attribute)
(kromatography.ui.chemical_model_view.ChemicalView attribute)
known_runners (kromatography.solve.sim_runner_manager.SimulationRunnerManager attribute)
kromatography (module)
kromatography.app (module)
kromatography.app.krom_app (module)
kromatography.app.krom_driver (module)
kromatography.app.main (module)
kromatography.app.run_cadet_simulation (module)
kromatography.compute (module)
kromatography.compute.brute_force_binding_model_optimizer (module)
kromatography.compute.brute_force_binding_model_optimizer_step (module)
kromatography.compute.brute_force_optimizer (module)
kromatography.compute.brute_force_optimizer_step (module)
kromatography.compute.constant_binding_model_optimizer_step (module)
kromatography.compute.cost_function_calcs (module)
kromatography.compute.cost_functions (module)
kromatography.compute.experiment_optimizer (module)
kromatography.compute.experiment_optimizer_step (module)
kromatography.compute.experiment_performance_parameters (module)
kromatography.compute.factories (module)
kromatography.compute.factories.api (module)
kromatography.compute.factories.experiment_optimizer (module)
kromatography.compute.performance_parameters (module)
kromatography.compute.strip_fraction_calculator (module)
kromatography.data (module)
kromatography.data.api (module)
kromatography.io (module)
kromatography.io.akta_reader (module)
kromatography.io.api (module)
kromatography.io.base_excel_reader (module)
kromatography.io.deserializer (module)
kromatography.io.excel_reader (module)
kromatography.io.excel_reader_selector (module)
kromatography.io.excel_reader_v1 (module)
kromatography.io.experiment_builder_utils (module)
kromatography.io.experimental_study_builder (module)
kromatography.io.i_solver (module)
kromatography.io.legacy_deserializers (module)
kromatography.io.reader_writer (module)
kromatography.io.serializer (module)
kromatography.io.simulation_updater (module)
kromatography.io.study (module)
kromatography.io.task (module)
kromatography.model (module)
kromatography.model.api (module)
kromatography.model.base_parameter_scan_description (module)
kromatography.model.base_product_model (module)
kromatography.model.base_study (module)
kromatography.model.binding_model (module)
kromatography.model.buffer (module)
kromatography.model.buffer_prep (module)
kromatography.model.cadet_input (module)
kromatography.model.cadet_model (module)
kromatography.model.cadet_ph_external_profile (module)
kromatography.model.chemical (module)
kromatography.model.chromatography_data (module)
kromatography.model.chromatography_results (module)
kromatography.model.collection_criteria (module)
kromatography.model.column (module)
kromatography.model.component (module)
kromatography.model.data_manager (module)
kromatography.model.data_source (module)
kromatography.model.discretization (module)
kromatography.model.experiment (module)
kromatography.model.experimental_study (module)
kromatography.model.factories (module)
kromatography.model.factories.api (module)
kromatography.model.factories.binding_model (module)
kromatography.model.factories.job_manager (module)
kromatography.model.factories.method (module)
kromatography.model.factories.product (module)
kromatography.model.factories.product_component_assay (module)
kromatography.model.factories.simulation (module)
kromatography.model.factories.simulation_group (module)
kromatography.model.factories.study (module)
kromatography.model.factories.transport_model (module)
kromatography.model.factories.user_datasource (module)
kromatography.model.inlet (module)
kromatography.model.kromatography_project (module)
kromatography.model.lazy_simulation (module)
kromatography.model.mass_balance_analyzer (module)
kromatography.model.method (module)
kromatography.model.method_step (module)
kromatography.model.parameter_description (module)
kromatography.model.parameter_scan_description (module)
kromatography.model.performance_data (module)
kromatography.model.product (module)
kromatography.model.product_component (module)
kromatography.model.product_component_assay (module)
kromatography.model.random_parameter_scan_description (module)
kromatography.model.resin (module)
kromatography.model.schur_solver (module)
kromatography.model.section (module)
kromatography.model.sensitivity (module)
kromatography.model.simulation (module)
kromatography.model.simulation_group (module)
kromatography.model.solution (module)
kromatography.model.solution_with_product (module)
kromatography.model.solver (module)
kromatography.model.study (module)
kromatography.model.study_analysis_tools (module)
kromatography.model.system (module)
kromatography.model.time_integrator (module)
kromatography.model.transport_model (module)
kromatography.model.weno (module)
kromatography.model.x_y_data (module)
kromatography.plotting (module)
kromatography.plotting.animation_data (module)
kromatography.plotting.animation_plot (module)
kromatography.plotting.api (module)
kromatography.plotting.chromatogram_plot (module)
kromatography.plotting.data_inspector_tool (module)
kromatography.plotting.data_models (module)
kromatography.plotting.model_factories (module)
kromatography.plotting.mpl_column_animation (module)
kromatography.plotting.mpl_param_impact_plot (module)
kromatography.plotting.mpl_plot_akta (module)
kromatography.plotting.mpl_plot_chromatogram (module)
kromatography.plotting.mpl_sim_grid (module)
kromatography.plotting.plot_utils (module)
kromatography.plotting.utilities (module)
kromatography.solve (module)
kromatography.solve.api (module)
kromatography.solve.cadet_executor (module)
kromatography.solve.sim_runner_manager (module)
kromatography.solve.simulation_job_utils (module)
kromatography.solve.simulation_runner (module)
kromatography.solve.slurm_cadet_executor (module)
kromatography.solve.work_executor (module)
kromatography.tools (module)
kromatography.tools.preferences_view (module)
kromatography.tools.python_script_file_selector (module)
kromatography.tools.python_script_runner (module)
kromatography.tools.update_downloader (module)
kromatography.ui (module)
kromatography.ui.adapters (module)
kromatography.ui.adapters.api (module)
kromatography.ui.adapters.base_chromatography_data_to_i_tree_node (module)
kromatography.ui.adapters.brute_force_binding_model_optimizer_to_i_tree_node (module)
kromatography.ui.adapters.chromatogram_model_to_i_tree_node (module)
kromatography.ui.adapters.data_manager_to_i_tree_node (module)
kromatography.ui.adapters.data_source_to_i_tree_node (module)
kromatography.ui.adapters.df_with_outputs_df_editor_adapter (module)
kromatography.ui.adapters.experiment_optimizer_step_to_i_tree_node (module)
kromatography.ui.adapters.experiment_optimizer_to_i_tree_node (module)
kromatography.ui.adapters.simulation_group_to_i_tree_node (module)
kromatography.ui.adapters.simulation_to_i_tree_node (module)
kromatography.ui.adapters.study_analysis_tools_to_i_tree_node (module)
kromatography.ui.adapters.study_to_i_tree_node (module)
kromatography.ui.akta_file_setting_selector (module)
kromatography.ui.animation_plot_view (module)
kromatography.ui.api (module)
kromatography.ui.base_model_view_with_component_array (module)
kromatography.ui.branding (module)
kromatography.ui.brute_force_optimizer_builder (module)
kromatography.ui.brute_force_optimizer_model_view (module)
kromatography.ui.brute_force_optimizer_step_model_view (module)
kromatography.ui.buffer_model_view (module)
kromatography.ui.chemical_model_view (module)
kromatography.ui.chrom_data_crud_editor (module)
kromatography.ui.chromatogram_model_view (module)
kromatography.ui.column_model_view (module)
kromatography.ui.column_prep_view (module)
kromatography.ui.column_type_model_view (module)
kromatography.ui.component_model_view (module)
kromatography.ui.component_selector (module)
kromatography.ui.discretization_model_view (module)
kromatography.ui.experiment_selector (module)
kromatography.ui.external_langmuir_model_view (module)
kromatography.ui.factories (module)
kromatography.ui.factories.binding_model (module)
kromatography.ui.factories.parameter_table_editor (module)
kromatography.ui.factories.product (module)
kromatography.ui.general_rate_model_view (module)
kromatography.ui.gui_model_factory (module)
kromatography.ui.image_resources (module)
kromatography.ui.krom_view (module)
kromatography.ui.langmuir_model_view (module)
kromatography.ui.menu_entry_names (module)
kromatography.ui.method_model_view (module)
kromatography.ui.multi_experim_strip_fraction_calculator_view (module)
kromatography.ui.optimizer_cost_function_explorer (module)
kromatography.ui.ph_dependent_steric_mass_action_model_view (module)
kromatography.ui.product_chooser_view (module)
kromatography.ui.product_component_model_view (module)
kromatography.ui.product_model_view (module)
kromatography.ui.project_file_selector (module)
kromatography.ui.regular_parameter_list_selector (module)
kromatography.ui.resin_model_view (module)
kromatography.ui.simulation_builder (module)
kromatography.ui.simulation_from_datasource_builder (module)
kromatography.ui.simulation_from_experiment_builder (module)
kromatography.ui.simulation_group_builder (module)
kromatography.ui.simulation_group_model_view (module)
kromatography.ui.simulation_selector (module)
kromatography.ui.simulation_view (module)
kromatography.ui.solution_with_product_view (module)
kromatography.ui.solver_model_view (module)
kromatography.ui.steric_mass_action_model_view (module)
kromatography.ui.strip_fraction_calculator_view (module)
kromatography.ui.study_model_view (module)
kromatography.ui.system_model_view (module)
kromatography.ui.system_type_model_view (module)
kromatography.ui.tasks (module)
kromatography.ui.tasks.data_source_pane (module)
kromatography.ui.tasks.kromatography_task (module)
kromatography.ui.tasks.performance_param_pane (module)
kromatography.ui.tasks.plot_editors (module)
kromatography.ui.tasks.study_browser_pane (module)
kromatography.utils (module)
kromatography.utils.api (module)
kromatography.utils.app_utils (module)
kromatography.utils.assertion_utils (module)
kromatography.utils.build_splash (module)
kromatography.utils.cadet_simulation_builder (module)
kromatography.utils.chromatography_units (module)
kromatography.utils.datasource_utils (module)
kromatography.utils.extra_file_dialogs (module)
kromatography.utils.has_traits_utils (module)
kromatography.utils.io_utils (module)
kromatography.utils.license_manager (module)
kromatography.utils.preference_utils (module)
kromatography.utils.preferences (module)
kromatography.utils.simulation_utils (module)
kromatography.utils.solution_with_product_utils (module)
kromatography.utils.str_utils (module)
kromatography.utils.string_definitions (module)
kromatography.utils.testing_utils (module)
kromatography.utils.trait_object_to_tree_node (module)
kromatography.utils.traitsui_utils (module)
kromatography.utils.units_utils (module)
kromatography.utils.url_definitions (module)
KromatographyApp (class in kromatography.app.krom_app)
KromatographyProject (class in kromatography.model.kromatography_project)
KromatographyProject_Serializer (class in kromatography.io.serializer)
kromatographyProjectDeSerializer (class in kromatography.io.deserializer)
KromatographyTask (class in kromatography.ui.tasks.kromatography_task)
KromatographyTask_Serializer (class in kromatography.io.serializer)
kromatographyTaskDeSerializer (class in kromatography.io.deserializer)
KromView (class in kromatography.ui.krom_view)

L

Langmuir (class in kromatography.model.binding_model)
Langmuir_Serializer (class in kromatography.io.serializer)
langmuirDeSerializer (class in kromatography.io.deserializer)
LangmuirView (class in kromatography.ui.langmuir_model_view)
last_simulated_step (kromatography.model.simulation.Simulation attribute)
last_simulated_step_name (kromatography.ui.simulation_builder.SimulationBuilder attribute)
launch_app_for_study() (in module kromatography.utils.app_utils)
lazy_loading (kromatography.ui.simulation_group_builder.SimulationGroupBuilder attribute)
LazyLoadingSimulation (class in kromatography.model.lazy_simulation)
LazyLoadingSimulation_Serializer (class in kromatography.io.serializer)
lazyLoadingSimulationDeSerializer (class in kromatography.io.deserializer)
lazyLoadingSimulationDeSerializer0 (class in kromatography.io.legacy_deserializers)
length_of_preview (kromatography.ui.akta_file_setting_selector.AKTAFileSettingSelector attribute)
levelsbound (kromatography.plotting.animation_data.AnimationData attribute)
levelsliq (kromatography.plotting.animation_data.AnimationData attribute)
license_manager (kromatography.app.krom_app.KromatographyApp attribute)
LicenseManager (class in kromatography.utils.license_manager)
ligand (kromatography.model.resin.Resin attribute)
ligand_density (kromatography.model.resin.Resin attribute)
lin_coeff (kromatography.model.section.Section attribute)
linear_flow_rate_to_volumetric() (in module kromatography.utils.units_utils)
listen_to_sim_has_run() (kromatography.model.simulation_group.SimulationGroup method)
load
(kromatography.model.method.Method attribute)
load_characteristics_changed() (kromatography.compute.strip_fraction_calculator.StripFractionCalculator method)
load_concentration (kromatography.compute.strip_fraction_calculator.StripFractionCalculator attribute)
load_default_experiment_simulation() (in module kromatography.utils.testing_utils)
load_default_user_datasource() (in module kromatography.utils.app_utils)
load_exp_study_from_excel() (in module kromatography.io.study)
load_object() (in module kromatography.io.reader_writer)
load_project() (in module kromatography.io.task)
load_results() (kromatography.model.simulation.Simulation method)
load_sim_from_study() (in module kromatography.io.study)
load_start (kromatography.compute.strip_fraction_calculator.StripFractionCalculator attribute)
load_study_from_excel() (in module kromatography.io.study)
load_study_from_exp_button (kromatography.ui.study_model_view.StudyView attribute)
load_study_from_project_file() (in module kromatography.io.study)
load_study_with_exps_and_ran_sims() (in module kromatography.utils.testing_utils)
load_tutorial_project() (in module kromatography.data.api)
loaded_mass (kromatography.compute.strip_fraction_calculator.StripFractionCalculator attribute)
loaded_mass_from_method() (kromatography.model.mass_balance_analyzer.MassBalanceAnalyzer method)
loaded_mass_from_uv() (kromatography.model.mass_balance_analyzer.MassBalanceAnalyzer method)
loaded_volume (kromatography.compute.strip_fraction_calculator.StripFractionCalculator attribute)
loads (kromatography.io.experimental_study_builder.ExperimentalStudyBuilder attribute)
log_collections (kromatography.plotting.data_models.ChromatogramModel attribute)
log_filepath (kromatography.app.krom_app.KromatographyApp attribute)
log_folder (kromatography.utils.preferences.AppPreferenceGroup attribute)
log_level (kromatography.model.solver.Solver attribute)
logs (kromatography.plotting.data_models.ChromeLogCollection attribute)
lookup_components() (kromatography.ui.factories.product.ProductBuilder method)
lot_id (kromatography.model.buffer_prep.BufferPrep attribute)
(kromatography.model.resin.Resin attribute)
(kromatography.model.solution.Solution attribute)
low (kromatography.model.parameter_scan_description.ParameterScanDescription attribute), [1]

M

main() (in module kromatography.app.krom_driver)
(in module kromatography.app.main)
(in module kromatography.app.run_cadet_simulation)
main_debug() (in module kromatography.app.main)
make_blank_product() (in module kromatography.model.product)
make_blank_study() (in module kromatography.model.study)
make_clean() (kromatography.model.data_source.InMemoryDataSource method)
make_dirty() (kromatography.model.data_source.InMemoryDataSource method)
manufacturer (kromatography.model.column.ColumnType attribute)
(kromatography.model.system.SystemType attribute)
manufacturer_name (kromatography.model.column.ColumnType attribute)
(kromatography.model.system.SystemType attribute)
mass_bal_analyzer (kromatography.ui.akta_file_setting_selector.AKTAFileSettingSelector attribute)
mass_bal_msg (kromatography.ui.akta_file_setting_selector.AKTAFileSettingSelector attribute)
mass_bal_strategy (kromatography.ui.akta_file_setting_selector.AKTAFileSettingSelector attribute)
mass_bal_strategy_msg (kromatography.ui.akta_file_setting_selector.AKTAFileSettingSelector attribute)
mass_balanced (kromatography.ui.akta_file_setting_selector.AKTAFileSettingSelector attribute)
mass_from_method (kromatography.model.mass_balance_analyzer.MassBalanceAnalyzer attribute)
mass_from_uv (kromatography.model.mass_balance_analyzer.MassBalanceAnalyzer attribute)
MassBalanceAnalyzer (class in kromatography.model.mass_balance_analyzer)
matching_col_name (kromatography.ui.akta_file_setting_selector.NamePattern attribute)
max_krylov (kromatography.model.schur_solver.SchurSolver attribute)
max_recent_files (kromatography.app.krom_app.KromatographyApp attribute)
(kromatography.utils.preferences.FilePreferenceGroup attribute)
max_restarts (kromatography.model.schur_solver.SchurSolver attribute)
max_steps (kromatography.model.time_integrator.TimeIntegrator attribute)
max_workers (kromatography.solve.simulation_runner.SimulationRunner attribute)
mcl_ka (kromatography.model.binding_model.Langmuir attribute)
mcl_kd (kromatography.model.binding_model.Langmuir attribute)
mcl_qmax (kromatography.model.binding_model.Langmuir attribute)
mem (kromatography.solve.slurm_cadet_executor.SlurmBatchJobParams attribute)
message_for_data (kromatography.plotting.data_inspector_tool.DataInspectorOverlay attribute)
method
Method (class in kromatography.model.method)
method (kromatography.ui.simulation_from_datasource_builder.SimulationFromDatasourceBuilder attribute)
method step
method_name (kromatography.ui.simulation_from_datasource_builder.SimulationFromDatasourceBuilder attribute)
Method_Serializer (class in kromatography.io.serializer)
method_steps (kromatography.model.method.Method attribute)
methodDeSerializer (class in kromatography.io.deserializer)
MethodModelView (class in kromatography.ui.method_model_view)
MethodStep (class in kromatography.model.method_step)
MethodStep_Serializer (class in kromatography.io.serializer)
methodStepDeSerializer (class in kromatography.io.deserializer)
methodStepDeSerializer0 (class in kromatography.io.legacy_deserializers)
model (kromatography.model.cadet_input.CADETInput attribute)
(kromatography.ui.animation_plot_view.AnimationPlotView attribute)
(kromatography.ui.brute_force_optimizer_model_view.BruteForceOptimizerView attribute)
(kromatography.ui.brute_force_optimizer_step_model_view.BruteForceOptimizerStepView attribute)
(kromatography.ui.buffer_model_view.BufferView attribute)
(kromatography.ui.chemical_model_view.ChemicalView attribute)
(kromatography.ui.factories.binding_model.BindingModelBuilder attribute)
(kromatography.ui.langmuir_model_view.LangmuirView attribute)
(kromatography.ui.method_model_view.MethodModelView attribute)
(kromatography.ui.ph_dependent_steric_mass_action_model_view.PhDependentStericMassActionModelView attribute)
(kromatography.ui.simulation_group_model_view.SimulationGroupView attribute)
(kromatography.ui.simulation_view.SimulationView attribute)
(kromatography.ui.solution_with_product_view.SolutionWithProductView attribute)
(kromatography.ui.steric_mass_action_model_view.StericMassActionModelView attribute)
(kromatography.ui.study_model_view.StudyView attribute)
(kromatography.ui.system_model_view.SystemView attribute)
model_data_dir() (in module kromatography.utils.testing_utils)
model_data_path() (in module kromatography.utils.testing_utils)
model_type (kromatography.model.binding_model.BindingModel attribute)
(kromatography.model.binding_model.ExternalLangmuir attribute)
(kromatography.model.binding_model.Langmuir attribute)
(kromatography.model.binding_model.PhDependentStericMassAction attribute)
(kromatography.model.binding_model.StericMassAction attribute)
(kromatography.model.transport_model.GeneralRateModel attribute)
(kromatography.model.transport_model.TransportModel attribute)
modified_colors (kromatography.ui.chromatogram_model_view.PlotColorEditor attribute)
ModifiedObjectColumn (class in kromatography.ui.factories.parameter_table_editor)
molecular_weight (kromatography.model.chemical.Chemical attribute)
(kromatography.model.product_component.ProductComponent attribute)
monte_carlo_explorations (kromatography.model.study_analysis_tools.StudyAnalysisTools attribute)
most_contributing_comp (kromatography.compute.strip_fraction_calculator.StripFractionCalculator attribute)
move_callback (kromatography.plotting.data_inspector_tool.DataInspectorTool attribute)
mpl_show() (kromatography.model.x_y_data.XYData method)
MultiExpStripFractionCalculatorHandler (class in kromatography.ui.multi_experim_strip_fraction_calculator_view)
MultiExpStripFractionCalculatorView (class in kromatography.ui.multi_experim_strip_fraction_calculator_view)

N

name (kromatography.compute.experiment_optimizer.ExperimentOptimizer attribute)
(kromatography.model.base_parameter_scan_description.BaseParameterScanDescription attribute)
(kromatography.model.kromatography_project.KromatographyProject attribute)
(kromatography.model.parameter_description.ParameterDescription attribute)
(kromatography.model.parameter_scan_description.ParameterScanDescription attribute)
(kromatography.plotting.animation_plot.AnimationPlot attribute)
(kromatography.ui.factories.product.ProductBuilder attribute)
(kromatography.utils.solution_with_product_utils.ProductAssay attribute)
NamePattern (class in kromatography.ui.akta_file_setting_selector)
ncol (kromatography.model.discretization.Discretization attribute)
ncomp (kromatography.model.cadet_model.CADETModel attribute)
ndarrayDeSerializer0 (class in kromatography.io.legacy_deserializers)
new_animation_plot() (kromatography.ui.tasks.kromatography_task.KromatographyTask method)
new_blank_project() (kromatography.app.krom_app.KromatographyApp method)
new_model_calibration_plot() (kromatography.ui.tasks.kromatography_task.KromatographyTask method)
new_optimizer() (kromatography.ui.tasks.kromatography_task.KromatographyTask method)
new_parameter_button (kromatography.ui.brute_force_optimizer_builder.BruteForceOptimizerBuilder attribute)
(kromatography.ui.regular_parameter_list_selector.RegularParameterListSelector attribute)
(kromatography.ui.simulation_group_builder.SimulationGroupBuilder attribute)
new_simulation_from_datasource() (kromatography.ui.tasks.kromatography_task.KromatographyTask method)
new_simulation_from_experiments() (kromatography.ui.tasks.kromatography_task.KromatographyTask method)
new_simulation_grid() (kromatography.ui.tasks.kromatography_task.KromatographyTask method)
new_study_button (kromatography.ui.study_model_view.StudyView attribute)
new_study_from_experimental_study_file() (kromatography.app.krom_app.KromatographyApp method)
no_cost_data (kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer attribute)
NoAutoTextEditor (class in kromatography.utils.traitsui_utils)
nodes (kromatography.solve.slurm_cadet_executor.SlurmBatchJobParams attribute)
normal_mouse_leave() (kromatography.plotting.data_inspector_tool.DataInspectorTool method)
normal_mouse_move() (kromatography.plotting.data_inspector_tool.DataInspectorTool method)
npar (kromatography.model.discretization.Discretization attribute)
nsec (kromatography.model.inlet.Inlet attribute)
nsens (kromatography.model.sensitivity.Sensitivity attribute)
ntasks (kromatography.solve.slurm_cadet_executor.SlurmBatchJobParams attribute)
nthreads (kromatography.model.solver.Solver attribute)
nu_low_high (kromatography.compute.constant_binding_model_optimizer_step.ConstantBruteForceBindingModelOptimizerStep attribute)
num_channels (kromatography.model.system.SystemType attribute)
num_comp (kromatography.model.base_product_model.BaseProductModel attribute)
num_components (kromatography.model.product.Product attribute)
num_cpu_per_task (kromatography.solve.cadet_executor.BaseCADETExecutor attribute)
num_inlets (kromatography.model.system.SystemType attribute)
num_optimal_simulations (kromatography.compute.experiment_optimizer.ExperimentOptimizer attribute)
num_outputs (kromatography.ui.adapters.df_with_outputs_df_editor_adapter.DataFrameWithOutputsAdapter attribute)
num_prod_comp (kromatography.model.base_product_model.BaseProductModel attribute)
num_steps (kromatography.compute.experiment_optimizer.ExperimentOptimizer attribute)
(kromatography.model.method.Method attribute)
num_values (kromatography.model.parameter_scan_description.ParameterScanDescription attribute), [1]
num_values_fixed (kromatography.ui.regular_parameter_list_selector.RegularParameterListSelector attribute)
number_user_solution_points (kromatography.model.solver.Solver attribute)

O

obj_view (kromatography.ui.tasks.plot_editors.ChromatogramPlotEditor attribute)
object_catalog (kromatography.model.data_source.InMemoryDataSource attribute)
(kromatography.model.factories.user_datasource.DataSourceObjectCatalogBuilder attribute)
object_dirty_changed() (kromatography.tools.preferences_view.RevealChromatographyPreferenceViewHandler method)
offline_steps (kromatography.model.method.Method attribute)
open_about_dialog() (kromatography.app.krom_app.KromatographyApp method)
open_bug_report() (kromatography.app.krom_app.KromatographyApp method)
open_documentation() (kromatography.app.krom_app.KromatographyApp method)
open_preferences() (kromatography.app.krom_app.KromatographyApp method)
open_proj_file() (kromatography.ui.tasks.kromatography_task.KromatographyTask method)
open_project_button (kromatography.ui.study_model_view.StudyView attribute)
open_project_from_file() (kromatography.app.krom_app.KromatographyApp method)
open_recent_project() (kromatography.app.krom_app.KromatographyApp method)
open_recent_projects() (kromatography.ui.tasks.kromatography_task.KromatographyTask method)
open_software_updater() (kromatography.app.krom_app.KromatographyApp method)
open_strip_fraction_editor() (kromatography.ui.tasks.kromatography_task.KromatographyTask method)
open_tutorial_files() (kromatography.app.krom_app.KromatographyApp method)
open_uv_on_open (kromatography.ui.chromatogram_model_view.ChromatogramModelView attribute)
optimal_model_for_comp (kromatography.compute.brute_force_binding_model_optimizer_step.BruteForceBindingModelOptimizerStep attribute)
optimal_models (kromatography.compute.brute_force_binding_model_optimizer.BruteForce2StepBindingModelOptimizer attribute)
optimal_simulation_for_comp (kromatography.compute.brute_force_optimizer_step.BruteForceOptimizerStep attribute)
optimal_simulation_map (kromatography.compute.experiment_optimizer.ExperimentOptimizer attribute)
optimal_simulations (kromatography.compute.experiment_optimizer.ExperimentOptimizer attribute)
optimizations (kromatography.model.study_analysis_tools.StudyAnalysisTools attribute)
optimize_costs() (kromatography.compute.brute_force_optimizer_step.BruteForceOptimizerStep method)
optimizer (kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer attribute)
optimizer_builder_to_optimizer() (in module kromatography.compute.factories.experiment_optimizer)
optimizer_name (kromatography.ui.brute_force_optimizer_builder.BruteForceOptimizerBuilder attribute)
optimizer_step_chunk_size (kromatography.utils.preferences.OptimizerPreferenceGroup attribute)
optimizer_step_type (kromatography.compute.brute_force_binding_model_optimizer_step.BruteForceBindingModelOptimizerStep attribute)
(kromatography.compute.brute_force_optimizer_step.BruteForceOptimizerStep attribute)
(kromatography.compute.experiment_optimizer_step.ExperimentOptimizerStep attribute)
optimizer_type (kromatography.ui.brute_force_optimizer_builder.BruteForceOptimizerBuilder attribute)
OptimizerBuilderHandler (class in kromatography.ui.brute_force_optimizer_builder)
OptimizerCostFunctionExplorer (class in kromatography.ui.optimizer_cost_function_explorer)
OptimizerPreferenceGroup (class in kromatography.utils.preferences)
ordered_object_types (kromatography.model.factories.user_datasource.DataSourceObjectCatalogBuilder attribute)
origin_error_msg (kromatography.ui.akta_file_setting_selector.AKTAFileSettingSelector attribute)
output (kromatography.model.lazy_simulation.LazyLoadingSimulation attribute)
output_color (kromatography.ui.adapters.df_with_outputs_df_editor_adapter.DataFrameWithOutputsAdapter attribute)
output_pattern (kromatography.solve.slurm_cadet_executor.SlurmBatchJobParams attribute)

P

package_costs() (kromatography.compute.cost_functions.CostFunction0 method)
packed column
par_diffusion (kromatography.model.cadet_model.CADETModel attribute)
par_disc_type (kromatography.model.discretization.Discretization attribute)
par_disc_vector (kromatography.model.discretization.Discretization attribute)
par_porosity (kromatography.model.cadet_model.CADETModel attribute)
par_radius (kromatography.model.cadet_model.CADETModel attribute)
par_surfdiffusion (kromatography.model.cadet_model.CADETModel attribute)
parallel_parameters (kromatography.model.parameter_scan_description.ParameterScanDescription attribute)
param_formula_str (kromatography.ui.external_langmuir_model_view.ExternalLangmuirView attribute)
(kromatography.ui.steric_mass_action_model_view.StericMassActionModelView attribute)
param_klass (kromatography.ui.simulation_group_builder.SimulationGroupBuilder attribute)
param_list (kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer attribute)
param_name_filter (kromatography.ui.brute_force_optimizer_builder.BruteForceOptimizerBuilder attribute)
(kromatography.ui.regular_parameter_list_selector.RegularParameterListSelector attribute)
(kromatography.ui.simulation_group_builder.SimulationGroupBuilder attribute)
param_names_to_ignore (kromatography.ui.regular_parameter_list_selector.RegularParameterListSelector attribute)
param_scans_to_sim_group() (in module kromatography.model.factories.simulation_group)
parameter_list (kromatography.compute.brute_force_optimizer_step.BruteForceOptimizerStep attribute)
parameter_scans (kromatography.ui.brute_force_optimizer_builder.BruteForceOptimizerBuilder attribute)
(kromatography.ui.regular_parameter_list_selector.RegularParameterListSelector attribute)
(kromatography.ui.simulation_group_builder.SimulationGroupBuilder attribute)
ParameterDescription (class in kromatography.model.parameter_description)
ParameterScanDescription (class in kromatography.model.parameter_scan_description)
ParameterScanDescription_Serializer (class in kromatography.io.serializer)
parameterScanDescriptionDeSerializer (class in kromatography.io.deserializer)
partition (kromatography.solve.slurm_cadet_executor.SlurmBatchJobParams attribute)
pattern_error_msg (kromatography.ui.akta_file_setting_selector.AKTAFileSettingSelector attribute)
patterns_as_list (kromatography.ui.akta_file_setting_selector.AKTAFileSettingSelector attribute)
peak_height_weight (kromatography.compute.cost_functions.CostFunction0 attribute)
(kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer attribute)
peak_slope_weight (kromatography.compute.cost_functions.CostFunction0 attribute)
(kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer attribute)
peak_time_weight (kromatography.compute.cost_functions.CostFunction0 attribute)
(kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer attribute)
percent_run (kromatography.compute.brute_force_optimizer.BruteForceOptimizer attribute)
(kromatography.compute.brute_force_optimizer_step.BruteForceOptimizerStep attribute)
(kromatography.model.simulation_group.SimulationGroup attribute)
percentile
perf_param_data_event (kromatography.model.simulation.Simulation attribute)
perf_params (kromatography.model.simulation_group.SimulationGroup attribute)
performance_data (kromatography.model.chromatography_results.ChromatographyResults attribute)
PerformanceData (class in kromatography.model.performance_data)
PerformanceData_Serializer (class in kromatography.io.serializer)
performanceDataDeSerializer (class in kromatography.io.deserializer)
PerformanceParamPane (class in kromatography.ui.tasks.performance_param_pane)
pH (kromatography.model.buffer_prep.BufferPrep attribute)
(kromatography.model.solution.Solution attribute)
PhDependentStericMassAction (class in kromatography.model.binding_model)
PhDependentStericMassAction_Serializer (class in kromatography.io.serializer)
phDependentStericMassActionDeSerializer (class in kromatography.io.deserializer)
PhDependentStericMassActionModelView (class in kromatography.ui.ph_dependent_steric_mass_action_model_view)
pI (kromatography.model.product.Product attribute)
(kromatography.ui.factories.product.ProductBuilder attribute)
pivot_filtered_data() (kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer method)
pKa (kromatography.model.component.Component attribute)
plot (kromatography.model.mass_balance_analyzer.MassBalanceAnalyzer attribute)
(kromatography.plotting.animation_plot.AnimationPlot attribute)
plot1_2d_container (kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer attribute)
plot_akta_data() (in module kromatography.plotting.mpl_plot_akta)
plot_as_heatmap() (in module kromatography.plotting.mpl_sim_grid)
plot_chromatogram() (in module kromatography.plotting.mpl_plot_chromatogram)
plot_container_properties (kromatography.plotting.data_models.ChromeFamily attribute)
plot_contexts (kromatography.plotting.chromatogram_plot.ChromatogramPlot attribute)
plot_data (kromatography.model.mass_balance_analyzer.MassBalanceAnalyzer attribute)
(kromatography.plotting.animation_plot.AnimationPlot attribute)
plot_data() (in module kromatography.plotting.plot_utils)
plot_data_dir() (in module kromatography.utils.testing_utils)
plot_data_path() (in module kromatography.utils.testing_utils)
plot_output_as_heatmaps() (in module kromatography.plotting.mpl_sim_grid)
plot_performance_as_tornado_plot() (in module kromatography.plotting.mpl_param_impact_plot)
plot_request (kromatography.model.simulation.Simulation attribute)
(kromatography.model.simulation_group.SimulationGroup attribute)
plot_sim_group_performances() (in module kromatography.plotting.mpl_sim_grid)
PlotColorEditor (class in kromatography.ui.chromatogram_model_view)
PlotEditor (class in kromatography.ui.tasks.plot_editors)
pool (kromatography.model.performance_data.PerformanceData attribute)
pool_concentration (kromatography.model.performance_data.PerformanceData attribute)
pool_purities (kromatography.model.performance_data.PerformanceData attribute)
pool_volume (kromatography.model.performance_data.PerformanceData attribute)
pore_diffusion (kromatography.model.transport_model.GeneralRateModel attribute)
post_creation_instance_updates() (kromatography.io.deserializer.bruteForceOptimizerDeSerializer method)
(kromatography.io.deserializer.kromatographyProjectDeSerializer method)
prepare_constructor_data() (kromatography.io.deserializer.bindingModelOptimizerStepDeSerializer method)
(kromatography.io.legacy_deserializers.constantBindingModelOptimizerStepDeSerializer0 method)
prepare_datasource_catalog() (in module kromatography.utils.datasource_utils)
prepare_destroy() (kromatography.ui.tasks.kromatography_task.KromatographyTask method)
prepare_simulation_for_run() (in module kromatography.solve.simulation_job_utils)
prepare_study_datasource_catalog() (in module kromatography.utils.datasource_utils)
print_all_data() (kromatography.io.base_excel_reader.BaseExcelReader method)
print_config (kromatography.model.solver.Solver attribute)
print_paramlist (kromatography.model.solver.Solver attribute)
print_progress (kromatography.model.solver.Solver attribute)
print_statistics (kromatography.model.solver.Solver attribute)
print_timing (kromatography.model.solver.Solver attribute)
product
Product (class in kromatography.model.product)
product (kromatography.io.base_excel_reader.BaseExcelReader attribute)
(kromatography.io.experimental_study_builder.ExperimentalStudyBuilder attribute)
(kromatography.model.base_study.BaseStudy attribute)
(kromatography.model.experimental_study.ExperimentalStudy attribute)
(kromatography.model.solution_with_product.SolutionWithProduct attribute)
(kromatography.model.study.Study attribute)
(kromatography.plotting.animation_data.AnimationData attribute)
(kromatography.ui.simulation_from_datasource_builder.SimulationFromDatasourceBuilder attribute)
(kromatography.ui.tasks.performance_param_pane.PerformanceParamPane attribute)
product assay
product component
product_assays (kromatography.ui.solution_with_product_view.SolutionWithProductView attribute)
product_change_allowed (kromatography.ui.simulation_from_datasource_builder.SimulationFromDatasourceBuilder attribute)
product_component (kromatography.plotting.animation_plot.AnimationPlot attribute)
product_component_assay_exps (kromatography.model.product.Product attribute)
product_component_assay_values (kromatography.model.solution_with_product.SolutionWithProduct attribute)
product_component_assays (kromatography.model.product.Product attribute)
(kromatography.ui.product_model_view.ProductView attribute)
product_component_concentration_exps (kromatography.model.product.Product attribute)
product_component_concentrations (kromatography.model.solution_with_product.SolutionWithProduct attribute)
product_component_names (kromatography.model.product.Product attribute)
product_component_purities (kromatography.model.solution_with_product.SolutionWithProduct attribute)
product_components (kromatography.model.product.Product attribute)
product_concentration (kromatography.model.solution_with_product.SolutionWithProduct attribute)
product_contains_strip (kromatography.model.study.Study attribute)
product_ext_coeff (kromatography.compute.strip_fraction_calculator.StripFractionCalculator attribute)
product_name (kromatography.ui.simulation_from_datasource_builder.SimulationFromDatasourceBuilder attribute)
(kromatography.ui.study_model_view.StudyView attribute)
Product_Serializer (class in kromatography.io.serializer)
product_set (kromatography.model.base_study.BaseStudy attribute)
product_type (kromatography.model.product.Product attribute)
(kromatography.ui.factories.product.ProductBuilder attribute)
ProductAssay (class in kromatography.utils.solution_with_product_utils)
ProductBuilder (class in kromatography.ui.factories.product)
ProductChooser (class in kromatography.ui.product_chooser_view)
ProductComponent (class in kromatography.model.product_component)
ProductComponent_Serializer (class in kromatography.io.serializer)
ProductComponentAssay (class in kromatography.model.product_component_assay)
productComponentDeSerializer (class in kromatography.io.deserializer)
ProductComponentSelector (class in kromatography.ui.factories.product)
ProductComponentView (class in kromatography.ui.product_component_model_view)
productDeSerializer (class in kromatography.io.deserializer)
products (kromatography.model.data_source.SimpleDataSource attribute)
ProductView (class in kromatography.ui.product_model_view)
ProEditionOnlyError
project (kromatography.ui.tasks.kromatography_task.KromatographyTask attribute)
project_filepath (kromatography.ui.tasks.kromatography_task.KromatographyTask attribute)
ProjectFileSelector (class in kromatography.ui.project_file_selector)
prompt_for_new_name() (in module kromatography.utils.traitsui_utils)
proportion (kromatography.utils.solution_with_product_utils.ProductAssay attribute)
protocol_version (kromatography.io.deserializer.bindingModelOptimizerStepDeSerializer attribute)
(kromatography.io.deserializer.bruteForce2StepBindingModelOptimizerDeSerializer attribute)
(kromatography.io.deserializer.bruteForceBindingModelOptimizerStepDeSerializer attribute)
(kromatography.io.deserializer.bruteForceOptimizerDeSerializer attribute)
(kromatography.io.deserializer.bruteForceOptimizerStepDeSerializer attribute)
(kromatography.io.deserializer.columnDeSerializer attribute)
(kromatography.io.deserializer.columnTypeDeSerializer attribute)
(kromatography.io.deserializer.constantBruteForceBindingModelOptimizerStepDeSerializer attribute)
(kromatography.io.deserializer.experimentResultsDeSerializer attribute)
(kromatography.io.deserializer.inMemoryDataSourceDeSerializer attribute)
(kromatography.io.deserializer.lazyLoadingSimulationDeSerializer attribute)
(kromatography.io.deserializer.methodStepDeSerializer attribute)
(kromatography.io.deserializer.simulationDeSerializer attribute)
(kromatography.io.deserializer.simulationGroupDeSerializer attribute)
(kromatography.io.deserializer.solverDeSerializer attribute)
(kromatography.io.deserializer.studyDeSerializer attribute)
(kromatography.io.deserializer.transportModelDeSerializer attribute)
(kromatography.io.legacy_deserializers.bindingModelCostFunction0DeSerializer0 attribute)
(kromatography.io.legacy_deserializers.bruteForce2StepBindingModelOptimizerDeSerializer0 attribute)
(kromatography.io.legacy_deserializers.bruteForce2StepBindingModelOptimizerDeSerializer1 attribute)
(kromatography.io.legacy_deserializers.bruteForce2StepBindingModelOptimizerDeSerializer2 attribute)
(kromatography.io.legacy_deserializers.bruteForceBindingModelOptimizerStepDeSerializer1 attribute)
(kromatography.io.legacy_deserializers.bruteForceOptimizerDeSerializer0 attribute)
(kromatography.io.legacy_deserializers.bruteForceOptimizerDeSerializer1 attribute)
(kromatography.io.legacy_deserializers.bruteForceOptimizerStepDeSerializer0 attribute)
(kromatography.io.legacy_deserializers.bruteForceOptimizerStepDeSerializer1 attribute)
(kromatography.io.legacy_deserializers.columnDeSerializer0 attribute)
(kromatography.io.legacy_deserializers.columnDeSerializer1 attribute)
(kromatography.io.legacy_deserializers.constantBindingModelOptimizerStepDeSerializer0 attribute)
(kromatography.io.legacy_deserializers.constantBruteForceBindingModelOptimizerStepDeSerializer0 attribute)
(kromatography.io.legacy_deserializers.dataFrameDeSerializer0 attribute)
(kromatography.io.legacy_deserializers.experimentResultsDeSerializer0 attribute)
(kromatography.io.legacy_deserializers.experimentResultsDeSerializer1 attribute)
(kromatography.io.legacy_deserializers.inStudyDataSourceDeSerializer0 attribute)
(kromatography.io.legacy_deserializers.lazyLoadingSimulationDeSerializer0 attribute)
(kromatography.io.legacy_deserializers.methodStepDeSerializer0 attribute)
(kromatography.io.legacy_deserializers.ndarrayDeSerializer0 attribute)
(kromatography.io.legacy_deserializers.simpleDataSourceDeSerializer0 attribute)
(kromatography.io.legacy_deserializers.simulationDeSerializer0 attribute)
(kromatography.io.legacy_deserializers.simulationDeSerializer1 attribute)
(kromatography.io.legacy_deserializers.simulationGroupDeSerializer0 attribute)
(kromatography.io.legacy_deserializers.solverDeSerializer0 attribute)
(kromatography.io.legacy_deserializers.studyDeSerializer0 attribute)
(kromatography.io.legacy_deserializers.studyDeSerializer1 attribute)
(kromatography.io.legacy_deserializers.transportModelDeSerializer0 attribute)
(kromatography.io.legacy_deserializers.unitArrayDeSerializer0 attribute)
(kromatography.io.serializer.BruteForce2StepBindingModelOptimizer_Serializer attribute)
(kromatography.io.serializer.BruteForceBindingModelOptimizerStep_Serializer attribute)
(kromatography.io.serializer.BruteForceOptimizerStep_Serializer attribute)
(kromatography.io.serializer.BruteForceOptimizer_Serializer attribute)
(kromatography.io.serializer.Column_Serializer attribute)
(kromatography.io.serializer.ConstantBruteForceBindingModelOptimizerStep_Serializer attribute)
(kromatography.io.serializer.ExperimentResults_Serializer attribute)
(kromatography.io.serializer.InMemoryDatasource_Serializer attribute)
(kromatography.io.serializer.LazyLoadingSimulation_Serializer attribute)
(kromatography.io.serializer.MethodStep_Serializer attribute)
(kromatography.io.serializer.SimulationGroup_Serializer attribute)
(kromatography.io.serializer.Simulation_Serializer attribute)
(kromatography.io.serializer.Solver_Serializer attribute)
(kromatography.io.serializer.Study_Serializer attribute)
(kromatography.io.serializer.TransportModel_Serializer attribute)
pure_protein_exp (kromatography.ui.akta_file_setting_selector.AKTAFileSettingSelector attribute)
python_script_folder (kromatography.utils.preferences.AppPreferenceGroup attribute)
PythonScriptFileSelector (class in kromatography.tools.python_script_file_selector)
PythonScriptRunner (class in kromatography.tools.python_script_runner)

Q

quad_coeff (kromatography.model.section.Section attribute)

R

raise_on_collision (kromatography.io.akta_reader.AKTAReader attribute)
RandomParameterScanDescription (class in kromatography.model.random_parameter_scan_description)
RanSimulationChooser (class in kromatography.ui.simulation_selector)
read_akta() (in module kromatography.io.akta_reader)
read_continuous_data_from_cadet_h5() (in module kromatography.io.simulation_updater)
read_excel_data() (kromatography.io.experimental_study_builder.ExperimentalStudyBuilder method)
read_from_h5() (in module kromatography.utils.io_utils)
reanalyze_mass_balance() (kromatography.ui.akta_file_setting_selector.AKTAFileSettingSelector method)
rebuild_1d_renderer() (kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer method)
rebuild_2d_renderer() (kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer method)
rebuild_all() (kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer method)
rebuild_col_name_patterns() (kromatography.ui.akta_file_setting_selector.AKTAFileSettingSelector method)
rebuild_cost_data() (kromatography.compute.experiment_optimizer.ExperimentOptimizer method)
rebuild_method() (kromatography.io.legacy_deserializers.simulationDeSerializer0 method)
rebuild_renderer() (kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer method)
rebuild_weights() (kromatography.compute.cost_functions.CostFunction0 method)
recent_files (kromatography.app.krom_app.KromatographyApp attribute)
(kromatography.utils.preferences.FilePreferenceGroup attribute)
recompute_colorbar() (kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer method)
recompute_cost_data() (kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer method)
recompute_costs_for_weights() (kromatography.compute.brute_force_optimizer.BruteForceOptimizer method)
(kromatography.compute.brute_force_optimizer_step.BruteForceOptimizerStep method)
recompute_integrated_mass() (kromatography.compute.strip_fraction_calculator.StripFractionCalculator method)
recompute_mass_fraction() (kromatography.compute.strip_fraction_calculator.StripFractionCalculator method)
reconstruction (kromatography.model.discretization.Discretization attribute)
refining_factor (kromatography.compute.brute_force_binding_model_optimizer.BruteForce2StepBindingModelOptimizer attribute)
(kromatography.ui.brute_force_optimizer_builder.BruteForceOptimizerBuilder attribute)
refining_step_num_values (kromatography.compute.brute_force_binding_model_optimizer.BruteForce2StepBindingModelOptimizer attribute)
(kromatography.ui.brute_force_optimizer_builder.BruteForceOptimizerBuilder attribute)
refining_step_spacing (kromatography.compute.brute_force_binding_model_optimizer.BruteForce2StepBindingModelOptimizer attribute)
(kromatography.ui.brute_force_optimizer_builder.BruteForceOptimizerBuilder attribute)
refresh_container() (kromatography.plotting.chromatogram_plot.ChromatogramPlot method)
regenerate_plots() (kromatography.plotting.animation_plot.AnimationPlot method)
register_all_data_views() (in module kromatography.ui.api)
register_all_tree_node_adapters() (in module kromatography.ui.adapters.api)
RegularParameterListSelector (class in kromatography.ui.regular_parameter_list_selector)
reinitialize_preference_file() (in module kromatography.utils.app_utils)
release_simulation_list() (kromatography.model.simulation_group.SimulationGroup method)
reltol (kromatography.model.time_integrator.TimeIntegrator attribute)
remember_layout (kromatography.utils.preferences.UIPreferenceGroup attribute)
remove_chrome_log() (kromatography.plotting.chromatogram_plot.ChromatogramPlot method)
remove_empty_plot (kromatography.plotting.chromatogram_plot.ChromatogramPlot attribute)
remove_existing_renderers() (kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer method)
remove_log_family() (kromatography.plotting.chromatogram_plot.ChromatogramPlot method)
remove_nan_from_data() (kromatography.io.akta_reader.AKTAReader method)
rename_cost_data_df() (in module kromatography.io.legacy_deserializers)
renderer_properties (kromatography.plotting.data_models.ChromeLog attribute)
request_binding_model() (in module kromatography.ui.gui_model_factory)
request_binding_model_ds() (in module kromatography.ui.gui_model_factory)
request_export_user_ds() (kromatography.ui.tasks.kromatography_task.KromatographyTask method)
request_launch_python_console() (kromatography.ui.tasks.kromatography_task.KromatographyTask method)
request_new_buffer() (in module kromatography.ui.gui_model_factory)
request_new_chemical() (in module kromatography.ui.gui_model_factory)
request_new_column() (in module kromatography.ui.gui_model_factory)
request_new_column_type() (in module kromatography.ui.gui_model_factory)
request_new_component() (in module kromatography.ui.gui_model_factory)
request_new_load_solution() (in module kromatography.ui.gui_model_factory)
request_new_method() (in module kromatography.ui.gui_model_factory)
request_new_product() (in module kromatography.ui.gui_model_factory)
request_new_product_component() (in module kromatography.ui.gui_model_factory)
request_new_resin() (in module kromatography.ui.gui_model_factory)
request_new_simulation_from_datasource() (kromatography.model.study.Study method)
request_new_simulation_group() (kromatography.model.study.Study method)
request_new_simulations_from_experiments() (kromatography.model.study.Study method)
request_new_system() (in module kromatography.ui.gui_model_factory)
request_new_system_type() (in module kromatography.ui.gui_model_factory)
request_project_from_file() (kromatography.app.krom_app.KromatographyApp method)
request_run_python_script() (kromatography.ui.tasks.kromatography_task.KromatographyTask method)
request_strip_fraction_tool() (kromatography.model.study.Study method)
(kromatography.model.study_analysis_tools.StudyAnalysisTools method)
request_transport_model() (in module kromatography.ui.gui_model_factory)
request_transport_model_ds() (in module kromatography.ui.gui_model_factory)
requested_data_item (kromatography.ui.tasks.data_source_pane.DataSourceDockPane attribute)
(kromatography.ui.tasks.study_browser_pane.StudyDataDockPane attribute)
reset (kromatography.compute.strip_fraction_calculator.StripFractionCalculator attribute)
reset_akta_data_time_origin() (kromatography.io.akta_reader.AKTAReader method)
reset_filtered_cost_data() (kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer method)
reset_preferences() (in module kromatography.utils.preferences)
reset_solver_user_times() (kromatography.model.simulation.Simulation method)
Resin (class in kromatography.model.resin)
resin (kromatography.model.column.Column attribute)
Resin_Serializer (class in kromatography.io.serializer)
resin_type (kromatography.model.resin.Resin attribute)
resinDeSerializer (class in kromatography.io.deserializer)
ResinView (class in kromatography.ui.resin_model_view)
Results_Serializer (class in kromatography.io.serializer)
resultsDeSerializer (class in kromatography.io.deserializer)
resync_object_catalog() (kromatography.model.data_source.InMemoryDataSource method)
RevealChromatographyPreferences (class in kromatography.utils.preferences)
RevealChromatographyPreferenceView (class in kromatography.tools.preferences_view)
RevealChromatographyPreferenceViewHandler (class in kromatography.tools.preferences_view)
run() (kromatography.compute.brute_force_optimizer.BruteForceOptimizer method)
(kromatography.compute.brute_force_optimizer_step.BruteForceOptimizerStep method)
(kromatography.compute.experiment_optimizer.ExperimentOptimizer method)
(kromatography.compute.experiment_optimizer_step.ExperimentOptimizerStep method)
(kromatography.io.i_solver.ISolver method)
(kromatography.model.simulation.Simulation method)
(kromatography.model.simulation_group.SimulationGroup method)
run_button (kromatography.ui.brute_force_optimizer_model_view.BruteForceOptimizerView attribute)
(kromatography.ui.simulation_group_model_view.SimulationGroupView attribute)
run_cadet_simulator() (in module kromatography.solve.api)
run_chromatography_simulation() (in module kromatography.app.krom_driver)
run_optimizer() (kromatography.model.study.Study method)
(kromatography.ui.tasks.kromatography_task.KromatographyTask method)
run_python_script() (kromatography.ui.tasks.kromatography_task.KromatographyTask method)
run_simulation_group() (kromatography.model.study.Study method)
run_simulation_groups() (kromatography.ui.tasks.kromatography_task.KromatographyTask method)
run_simulations() (in module kromatography.solve.api)
(in module kromatography.solve.simulation_runner)
(kromatography.model.study.Study method)
(kromatography.ui.tasks.kromatography_task.KromatographyTask method)
run_start (kromatography.compute.experiment_optimizer.ExperimentOptimizer attribute)
run_status (kromatography.model.simulation.Simulation attribute)
(kromatography.model.simulation_group.SimulationGroup attribute)
run_step() (kromatography.compute.brute_force_optimizer.BruteForceOptimizer method)
(kromatography.compute.experiment_optimizer.ExperimentOptimizer method)
run_stop (kromatography.compute.experiment_optimizer.ExperimentOptimizer attribute)
run_type (kromatography.model.method.Method attribute)

S

sanitize_str_list() (in module kromatography.utils.str_utils)
save() (kromatography.ui.tasks.kromatography_task.KromatographyTask method)
save_object() (in module kromatography.io.reader_writer)
save_project() (in module kromatography.io.task)
save_project_as() (kromatography.ui.tasks.kromatography_task.KromatographyTask method)
save_request() (kromatography.ui.tasks.kromatography_task.KromatographyTask method)
save_study_to_project_file() (in module kromatography.io.study)
save_user_datasource_to() (in module kromatography.utils.app_utils)
save_user_ds() (kromatography.ui.tasks.kromatography_task.KromatographyTask method)
scan_ka (kromatography.compute.constant_binding_model_optimizer_step.ConstantBruteForceBindingModelOptimizerStep attribute)
scan_nu (kromatography.compute.constant_binding_model_optimizer_step.ConstantBruteForceBindingModelOptimizerStep attribute)
scan_num_values (kromatography.compute.constant_binding_model_optimizer_step.ConstantBruteForceBindingModelOptimizerStep attribute)
scan_sigma (kromatography.compute.constant_binding_model_optimizer_step.ConstantBruteForceBindingModelOptimizerStep attribute)
scan_type (kromatography.compute.constant_binding_model_optimizer_step.ConstantBruteForceBindingModelOptimizerStep attribute)
scanned_param_names (kromatography.compute.brute_force_optimizer_step.BruteForceOptimizerStep attribute)
(kromatography.compute.experiment_optimizer.ExperimentOptimizer attribute)
scanned_values (kromatography.model.parameter_scan_description.ParameterScanDescription attribute)
schur_safety (kromatography.model.schur_solver.SchurSolver attribute)
schur_solver (kromatography.model.solver.Solver attribute)
SchurSolver (class in kromatography.model.schur_solver)
SchurSolver_Serializer (class in kromatography.io.serializer)
schurSolverDeSerializer (class in kromatography.io.deserializer)
search_experiment_by_name() (kromatography.model.base_study.BaseStudy method)
search_parameters_in_sim() (in module kromatography.utils.has_traits_utils)
search_simulation_by_name() (kromatography.model.study.Study method)
search_simulation_group_by_name() (kromatography.model.study.Study method)
Section (class in kromatography.model.section)
section (kromatography.model.inlet.Inlet attribute)
section_continuity (kromatography.model.inlet.Inlet attribute)
section_labels (kromatography.io.base_excel_reader.BaseExcelReader attribute)
section_times (kromatography.model.inlet.Inlet attribute)
(kromatography.model.simulation.Simulation attribute)
select_all_collections (kromatography.ui.chromatogram_model_view.ChromatogramModelView attribute)
select_excel_reader_klass() (kromatography.io.excel_reader_selector.ExcelInputReaderSelector method)
selected_system_type (kromatography.ui.system_model_view.SystemTypeSelector attribute)
sens_method (kromatography.model.sensitivity.Sensitivity attribute)
Sensitivity (class in kromatography.model.sensitivity)
sensitivity (kromatography.model.cadet_input.CADETInput attribute)
(kromatography.model.simulation.Simulation attribute)
Sensitivity_Serializer (class in kromatography.io.serializer)
sensitivityDeSerializer (class in kromatography.io.deserializer)
serialize() (in module kromatography.io.serializer)
set_as_not_run() (kromatography.model.simulation.Simulation method)
set_as_run() (kromatography.model.simulation.Simulation method)
set_method_initial_buffer() (in module kromatography.model.factories.method)
set_object_of_type() (kromatography.model.data_source.DataSource method)
(kromatography.model.data_source.InMemoryDataSource method)
set_text() (kromatography.utils.traitsui_utils.SimpleNotifyingArrayAdapter method)
settled_porosity (kromatography.model.resin.Resin attribute)
setup_run_refining_steps() (kromatography.compute.brute_force_binding_model_optimizer.BruteForce2StepBindingModelOptimizer method)
shift_continuous_data_by_holdup_vol() (in module kromatography.io.experiment_builder_utils)
shift_fraction_data_by_holdup_vol() (in module kromatography.io.experiment_builder_utils)
short_sim_name_from_fullname() (in module kromatography.model.simulation_group)
short_sim_name_from_sim_number() (in module kromatography.model.simulation_group)
show_advanced_parameters (kromatography.ui.simulation_view.SimulationView attribute)
show_cost_data_nd (kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer attribute)
show_hide_legend() (kromatography.ui.tasks.kromatography_task.KromatographyTask method)
show_hide_plot_controls() (kromatography.ui.tasks.kromatography_task.KromatographyTask method)
show_legend() (kromatography.plotting.chromatogram_plot.ChromatogramPlot method)
sigma_low_high (kromatography.compute.constant_binding_model_optimizer_step.ConstantBruteForceBindingModelOptimizerStep attribute)
sim_diffs_from_grid_parameter_scans() (in module kromatography.model.factories.simulation_group)
sim_diffs_from_random_parameter_scans() (in module kromatography.model.factories.simulation_group)
sim_group_max_size (kromatography.compute.brute_force_optimizer_step.BruteForceOptimizerStep attribute)
sim_runner (kromatography.model.simulation_group.SimulationGroup attribute)
sim_runner_manager (kromatography.model.study.Study attribute)
SimpleArrayAdapter (class in kromatography.utils.traitsui_utils)
SimpleDataSource (class in kromatography.model.data_source)
SimpleDataSource_Serializer (class in kromatography.io.serializer)
simpleDataSourceDeSerializer (class in kromatography.io.deserializer)
simpleDataSourceDeSerializer0 (class in kromatography.io.legacy_deserializers)
SimpleDataSourceToITreeNode (class in kromatography.ui.adapters.data_source_to_i_tree_node)
SimpleNotifyingArrayAdapter (class in kromatography.utils.traitsui_utils)
simplify_version() (in module kromatography.utils.build_splash)
sims_run (kromatography.model.simulation_group.SimulationGroup attribute)
simulation
Simulation (class in kromatography.model.simulation)
simulation_details (kromatography.ui.simulation_view.SimulationView attribute)
simulation_diffs (kromatography.model.simulation_group.SimulationGroup attribute)
simulation_grids (kromatography.model.study_analysis_tools.StudyAnalysisTools attribute)
simulation_groups (kromatography.compute.brute_force_optimizer_step.BruteForceOptimizerStep attribute)
simulation_list (kromatography.solve.simulation_runner.SimulationRunner attribute)
simulation_name (kromatography.plotting.animation_data.AnimationData attribute)
(kromatography.plotting.animation_plot.AnimationPlot attribute)
(kromatography.ui.simulation_builder.SimulationBuilder attribute)
simulation_names (kromatography.ui.simulation_from_experiment_builder.SimulationFromExperimentBuilder attribute)
simulation_selected (kromatography.ui.simulation_selector.SingleSimulationSelector attribute)
Simulation_Serializer (class in kromatography.io.serializer)
SimulationBuilder (class in kromatography.ui.simulation_builder)
simulationDeSerializer (class in kromatography.io.deserializer)
simulationDeSerializer0 (class in kromatography.io.legacy_deserializers)
simulationDeSerializer1 (class in kromatography.io.legacy_deserializers)
SimulationFromDatasourceBuilder (class in kromatography.ui.simulation_from_datasource_builder)
SimulationFromExperimentBuilder (class in kromatography.ui.simulation_from_experiment_builder)
SimulationGroup (class in kromatography.model.simulation_group)
SimulationGroup_Serializer (class in kromatography.io.serializer)
SimulationGroupBuilder (class in kromatography.ui.simulation_group_builder)
SimulationGroupBuilderHandler (class in kromatography.ui.simulation_from_experiment_builder)
(class in kromatography.ui.simulation_group_builder)
simulationGroupDeSerializer (class in kromatography.io.deserializer)
simulationGroupDeSerializer0 (class in kromatography.io.legacy_deserializers)
SimulationGroupToITreeNode (class in kromatography.ui.adapters.simulation_group_to_i_tree_node)
SimulationGroupView (class in kromatography.ui.simulation_group_model_view)
SimulationNameCollisionError
SimulationResults (class in kromatography.model.chromatography_results)
SimulationResults_Serializer (class in kromatography.io.serializer)
simulationResultsDeSerializer (class in kromatography.io.deserializer)
SimulationRunner (class in kromatography.solve.simulation_runner)
SimulationRunnerManager (class in kromatography.solve.sim_runner_manager)
simulations (kromatography.model.simulation_group.SimulationGroup attribute)
(kromatography.model.study.Study attribute)
(kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer attribute)
simulations_exist (kromatography.ui.tasks.kromatography_task.KromatographyTask attribute)
simulations_selected (kromatography.ui.simulation_selector.SimulationSelector attribute)
SimulationSelector (class in kromatography.ui.simulation_selector)
SimulationToITreeNode (class in kromatography.ui.adapters.simulation_to_i_tree_node)
SimulationView (class in kromatography.ui.simulation_view)
SingleParamSimulationDiff (class in kromatography.model.simulation_group)
SingleParamSimulationDiff_Serializer (class in kromatography.io.serializer)
singleParamSimulationDiffDeSerializer (class in kromatography.io.deserializer)
SingleSimulationGroupSelector (class in kromatography.ui.simulation_selector)
SingleSimulationSelector (class in kromatography.ui.simulation_selector)
size (kromatography.compute.experiment_optimizer.ExperimentOptimizer attribute)
(kromatography.model.simulation_group.SimulationGroup attribute)
size_run (kromatography.compute.brute_force_optimizer.BruteForceOptimizer attribute)
(kromatography.compute.brute_force_optimizer_step.BruteForceOptimizerStep attribute)
(kromatography.model.simulation_group.SimulationGroup attribute)
skip_confirm_on_window_close() (kromatography.app.krom_app.KromatographyApp method)
slurm_binary (kromatography.solve.slurm_cadet_executor.SlurmCADETExecutor attribute)
(kromatography.utils.preferences.SolverPreferenceGroup attribute)
slurm_job_name (kromatography.utils.preferences.SolverPreferenceGroup attribute)
slurm_partition (kromatography.utils.preferences.SolverPreferenceGroup attribute)
slurm_scratch_dir (kromatography.solve.slurm_cadet_executor.SlurmCADETExecutor attribute)
slurm_script_fname (kromatography.solve.slurm_cadet_executor.SlurmCADETExecutor attribute)
slurm_squeue_binary (kromatography.solve.slurm_cadet_executor.SlurmCADETExecutor attribute)
SlurmBatchJobParams (class in kromatography.solve.slurm_cadet_executor)
SlurmCADETExecutor (class in kromatography.solve.slurm_cadet_executor)
sma_ka (kromatography.model.binding_model.StericMassAction attribute)
sma_ka_ph (kromatography.model.binding_model.PhDependentStericMassAction attribute)
sma_ka_ph2 (kromatography.model.binding_model.PhDependentStericMassAction attribute)
sma_kd (kromatography.model.binding_model.StericMassAction attribute)
sma_kd_ph (kromatography.model.binding_model.PhDependentStericMassAction attribute)
sma_kd_ph2 (kromatography.model.binding_model.PhDependentStericMassAction attribute)
sma_lambda (kromatography.model.binding_model.StericMassAction attribute)
sma_nu (kromatography.model.binding_model.StericMassAction attribute)
sma_nu_ph (kromatography.model.binding_model.PhDependentStericMassAction attribute)
sma_nu_ph2 (kromatography.model.binding_model.PhDependentStericMassAction attribute)
sma_sigma (kromatography.model.binding_model.StericMassAction attribute)
sma_sigma_ph (kromatography.model.binding_model.PhDependentStericMassAction attribute)
sma_sigma_ph2 (kromatography.model.binding_model.PhDependentStericMassAction attribute)
SMAParameterDescription (class in kromatography.model.parameter_description)
SMAParameterScanDescription (class in kromatography.model.parameter_scan_description)
Solution (class in kromatography.model.solution)
Solution_Serializer (class in kromatography.io.serializer)
solution_type (kromatography.model.solution_with_product.SolutionWithProduct attribute)
solutionDeSerializer (class in kromatography.io.deserializer)
solutions (kromatography.io.experimental_study_builder.ExperimentalStudyBuilder attribute)
(kromatography.model.method_step.MethodStep attribute)
SolutionWithProduct (class in kromatography.model.solution_with_product)
SolutionWithProduct_Serializer (class in kromatography.io.serializer)
solutionWithProductDeSerializer (class in kromatography.io.deserializer)
SolutionWithProductView (class in kromatography.ui.solution_with_product_view)
Solver (class in kromatography.model.solver)
solver (kromatography.model.cadet_input.CADETInput attribute)
(kromatography.model.simulation.Simulation attribute)
solver_binary_path (kromatography.utils.preferences.SolverPreferenceGroup attribute)
solver_prefs (kromatography.solve.cadet_executor.BaseCADETExecutor attribute)
(kromatography.solve.slurm_cadet_executor.SlurmBatchJobParams attribute)
Solver_Serializer (class in kromatography.io.serializer)
solver_type (kromatography.ui.simulation_builder.SimulationBuilder attribute)
solverDeSerializer (class in kromatography.io.deserializer)
solverDeSerializer0 (class in kromatography.io.legacy_deserializers)
SolverPreferenceGroup (class in kromatography.utils.preferences)
SolverPreferencesView (class in kromatography.tools.preferences_view)
SolverView (class in kromatography.ui.solver_model_view)
sort_by (kromatography.ui.brute_force_optimizer_model_view.BruteForceOptimizerView attribute)
sort_by_possible (kromatography.ui.brute_force_optimizer_model_view.BruteForceOptimizerView attribute)
source (kromatography.model.buffer_prep.BufferPrep attribute)
(kromatography.model.solution.Solution attribute)
(kromatography.plotting.data_models.ChromeLogCollection attribute)
source_experiment (kromatography.model.simulation.Simulation attribute)
source_type (kromatography.plotting.data_models.ChromeLog attribute)
(kromatography.plotting.data_models.ChromeLogCollection attribute)
spacing (kromatography.model.parameter_scan_description.ParameterScanDescription attribute), [1]
standardise() (in module kromatography.model.data_source)
start() (kromatography.app.krom_app.KromatographyApp method)
(kromatography.solve.simulation_runner.SimulationRunner method)
start_collect_time (kromatography.model.performance_data.PerformanceData attribute)
start_collection_target (kromatography.model.collection_criteria.CollectionCriteria attribute)
start_collection_type (kromatography.model.collection_criteria.CollectionCriteria attribute)
start_collection_while (kromatography.model.collection_criteria.CollectionCriteria attribute)
starting_point_simulation_name (kromatography.ui.brute_force_optimizer_builder.BruteForceOptimizerBuilder attribute)
starting_point_simulations (kromatography.compute.experiment_optimizer.ExperimentOptimizer attribute)
(kromatography.compute.experiment_optimizer_step.ExperimentOptimizerStep attribute)
(kromatography.ui.brute_force_optimizer_builder.BruteForceOptimizerBuilder attribute)
state (kromatography.model.chemical.Chemical attribute)
status (kromatography.compute.experiment_optimizer.ExperimentOptimizer attribute)
(kromatography.compute.experiment_optimizer_step.ExperimentOptimizerStep attribute)
step_names (kromatography.plotting.animation_data.AnimationData attribute)
(kromatography.ui.simulation_builder.SimulationBuilder attribute)
step_start_times (kromatography.plotting.animation_data.AnimationData attribute)
step_type (kromatography.model.method_step.MethodStep attribute)
step_yield (kromatography.model.performance_data.PerformanceData attribute)
StepLookupError
StepNotFoundError
steps (kromatography.compute.brute_force_optimizer.BruteForceOptimizer attribute)
(kromatography.compute.experiment_optimizer.ExperimentOptimizer attribute)
StericMassAction (class in kromatography.model.binding_model)
StericMassAction_Serializer (class in kromatography.io.serializer)
stericMassActionDeSerializer (class in kromatography.io.deserializer)
StericMassActionModelView (class in kromatography.ui.steric_mass_action_model_view)
stop_collect_time (kromatography.model.performance_data.PerformanceData attribute)
stop_collection_target (kromatography.model.collection_criteria.CollectionCriteria attribute)
stop_collection_type (kromatography.model.collection_criteria.CollectionCriteria attribute)
stop_collection_while (kromatography.model.collection_criteria.CollectionCriteria attribute)
str_list_mostly_float() (in module kromatography.utils.str_utils)
strip_component (kromatography.ui.factories.product.ProductBuilder attribute)
strip_component_descs (kromatography.ui.factories.product.ProductBuilder attribute)
strip_decode_strings() (in module kromatography.utils.str_utils)
strip_mass_fraction (kromatography.compute.strip_fraction_calculator.StripFractionCalculator attribute)
(kromatography.model.experiment.Experiment attribute)
(kromatography.model.solution_with_product.SolutionWithProduct attribute)
strip_start (kromatography.compute.strip_fraction_calculator.StripFractionCalculator attribute)
StripFractionCalculator (class in kromatography.compute.strip_fraction_calculator)
StripFractionCalculatorHandler (class in kromatography.ui.strip_fraction_calculator_view)
StripFractionCalculatorView (class in kromatography.ui.strip_fraction_calculator_view)
study
Study (class in kromatography.model.study)
study (kromatography.io.experimental_study_builder.ExperimentalStudyBuilder attribute)
(kromatography.model.kromatography_project.KromatographyProject attribute)
(kromatography.ui.simulation_selector.BaseSimulationSelector attribute)
(kromatography.ui.tasks.performance_param_pane.PerformanceParamPane attribute)
(kromatography.ui.tasks.study_browser_pane.StudyDataDockPane attribute)
(kromatography.utils.datasource_utils.StudyDataSourceEntryCreator attribute)
study data
study_datasource (kromatography.model.study.Study attribute)
(kromatography.ui.simulation_builder.SimulationBuilder attribute)
study_id (kromatography.model.experimental_study.ExperimentalStudy attribute)
study_purpose (kromatography.model.experimental_study.ExperimentalStudy attribute)
(kromatography.model.study.Study attribute)
Study_Serializer (class in kromatography.io.serializer)
study_site (kromatography.model.experimental_study.ExperimentalStudy attribute)
study_type (kromatography.model.experimental_study.ExperimentalStudy attribute)
(kromatography.model.study.Study attribute)
StudyAnalysisTools (class in kromatography.model.study_analysis_tools)
StudyAnalysisTools_Serializer (class in kromatography.io.serializer)
studyAnalysisToolsDeSerializer (class in kromatography.io.deserializer)
StudyAnalysisToolsToITreeNode (class in kromatography.ui.adapters.study_analysis_tools_to_i_tree_node)
StudyDataDockPane (class in kromatography.ui.tasks.study_browser_pane)
StudyDataSourceEntryCreator (class in kromatography.utils.datasource_utils)
studyDeSerializer (class in kromatography.io.deserializer)
studyDeSerializer0 (class in kromatography.io.legacy_deserializers)
studyDeSerializer1 (class in kromatography.io.legacy_deserializers)
StudyToITreeNode (class in kromatography.ui.adapters.study_to_i_tree_node)
StudyView (class in kromatography.ui.study_model_view)
submit_jobs() (kromatography.solve.simulation_runner.SimulationRunner method)
surface_diffusion (kromatography.model.transport_model.GeneralRateModel attribute)
System (class in kromatography.model.system)
system (kromatography.io.experimental_study_builder.ExperimentalStudyBuilder attribute)
(kromatography.model.experiment.Experiment attribute)
system_number (kromatography.model.system.System attribute)
System_Serializer (class in kromatography.io.serializer)
system_type (kromatography.model.system.System attribute)
system_type_name (kromatography.ui.system_model_view.SystemTypeSelector attribute)
systemDeSerializer (class in kromatography.io.deserializer)
SystemType (class in kromatography.model.system)
SystemType_Serializer (class in kromatography.io.serializer)
systemTypeDeSerializer (class in kromatography.io.deserializer)
SystemTypeSelector (class in kromatography.ui.system_model_view)
SystemTypeView (class in kromatography.ui.system_type_model_view)
SystemView (class in kromatography.ui.system_model_view)

T

target_components (kromatography.compute.cost_functions.CostFunction0 attribute)
(kromatography.compute.experiment_optimizer.ExperimentOptimizer attribute)
(kromatography.compute.experiment_optimizer_step.ExperimentOptimizerStep attribute)
target_experiment (kromatography.model.mass_balance_analyzer.MassBalanceAnalyzer attribute)
(kromatography.ui.akta_file_setting_selector.AKTAFileSettingSelector attribute)
target_experiment_names (kromatography.compute.experiment_optimizer.ExperimentOptimizer attribute)
target_experiments (kromatography.compute.cost_functions.CostFunction0 attribute)
(kromatography.compute.experiment_optimizer.ExperimentOptimizer attribute)
(kromatography.compute.experiment_optimizer_step.ExperimentOptimizerStep attribute)
(kromatography.ui.multi_experim_strip_fraction_calculator_view.MultiExpStripFractionCalculatorView attribute)
target_product (kromatography.model.base_product_model.BaseProductModel attribute)
(kromatography.model.product_component.ProductComponent attribute)
(kromatography.ui.factories.binding_model.BindingModelBuilder attribute)
target_simulation (kromatography.model.base_parameter_scan_description.BaseParameterScanDescription attribute)
target_study (kromatography.ui.brute_force_optimizer_builder.BruteForceOptimizerBuilder attribute)
(kromatography.ui.simulation_from_experiment_builder.SimulationFromExperimentBuilder attribute)
(kromatography.ui.simulation_group_builder.SimulationGroupBuilder attribute)
temperature (kromatography.model.buffer_prep.BufferPrep attribute)
(kromatography.model.solution.Solution attribute)
time (kromatography.solve.slurm_cadet_executor.SlurmBatchJobParams attribute)
time_description (kromatography.ui.animation_plot_view.AnimationPlotView attribute)
time_integrator (kromatography.model.solver.Solver attribute)
time_label (kromatography.plotting.data_models.ChromeFamily attribute)
time_of_origin (kromatography.io.akta_reader.AKTAReader attribute)
(kromatography.model.mass_balance_analyzer.MassBalanceAnalyzer attribute)
(kromatography.ui.akta_file_setting_selector.AKTAFileSettingSelector attribute)
time_slice (kromatography.plotting.animation_plot.AnimationPlot attribute)
time_to_volume() (in module kromatography.utils.units_utils)
time_unit_label (kromatography.plotting.data_models.ChromeFamily attribute)
TimeIntegrator (class in kromatography.model.time_integrator)
TimeIntegrator_Serializer (class in kromatography.io.serializer)
timeIntegratorDeSerializer (class in kromatography.io.deserializer)
times (kromatography.plotting.animation_data.AnimationData attribute)
title (kromatography.ui.regular_parameter_list_selector.RegularParameterListSelector attribute)
(kromatography.ui.simulation_selector.SimulationSelector attribute)
to_param_scan_desc() (kromatography.model.parameter_scan_description.SMAParameterScanDescription method)
to_sim_diffs() (kromatography.model.parameter_scan_description.ParameterScanDescription method)
to_simulation() (kromatography.model.lazy_simulation.LazyLoadingSimulation method)
(kromatography.ui.simulation_from_datasource_builder.SimulationFromDatasourceBuilder method)
to_simulations() (kromatography.ui.simulation_from_experiment_builder.SimulationFromExperimentBuilder method)
trait_name_param_name_map (kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer attribute)
TraitListObjectToTreeNode (class in kromatography.utils.trait_object_to_tree_node)
traits_view() (kromatography.model.mass_balance_analyzer.MassBalanceAnalyzer method)
(kromatography.tools.preferences_view.SolverPreferencesView method)
(kromatography.ui.akta_file_setting_selector.AKTAFileSettingSelector method)
(kromatography.ui.brute_force_optimizer_builder.BruteForceOptimizerBuilder method)
(kromatography.ui.brute_force_optimizer_model_view.BruteForceOptimizerView method)
(kromatography.ui.brute_force_optimizer_step_model_view.BruteForceOptimizerStepView method)
(kromatography.ui.column_prep_view.ColumnPrepView method)
(kromatography.ui.factories.binding_model.BindingModelBuilder method)
(kromatography.ui.factories.product.ProductBuilder method)
(kromatography.ui.factories.product.ProductComponentSelector method)
(kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer method)
(kromatography.ui.product_chooser_view.ProductChooser method)
(kromatography.ui.regular_parameter_list_selector.RegularParameterListSelector method)
(kromatography.ui.simulation_from_datasource_builder.SimulationFromDatasourceBuilder method)
(kromatography.ui.simulation_from_experiment_builder.SimulationFromExperimentBuilder method)
(kromatography.ui.simulation_group_builder.SimulationGroupBuilder method)
(kromatography.ui.simulation_group_model_view.SimulationGroupView method)
(kromatography.ui.tasks.data_source_pane.DataSourceDockPane method)
(kromatography.ui.tasks.performance_param_pane.PerformanceParamPane method)
(kromatography.ui.tasks.study_browser_pane.StudyDataDockPane method)
translate_v1_to_v2() (in module kromatography.utils.preference_utils)
translate_v1_to_v4() (in module kromatography.utils.preference_utils)
translate_v2_to_v3() (in module kromatography.utils.preference_utils)
translate_v2_to_v4() (in module kromatography.utils.preference_utils)
translate_v3_to_v4() (in module kromatography.utils.preference_utils)
transport model
transport_model (kromatography.model.simulation.Simulation attribute)
(kromatography.ui.simulation_builder.SimulationBuilder attribute)
transport_model_name (kromatography.ui.simulation_builder.SimulationBuilder attribute)
transport_model_view (kromatography.ui.simulation_view.SimulationView attribute)
TransportModel (class in kromatography.model.transport_model)
TransportModel_Serializer (class in kromatography.io.serializer)
transportModelDeSerializer (class in kromatography.io.deserializer)
transportModelDeSerializer0 (class in kromatography.io.legacy_deserializers)
transpose_group_data() (kromatography.io.legacy_deserializers.simulationGroupDeSerializer0 method)
trigger_plot_simulation() (kromatography.ui.tasks.kromatography_task.KromatographyTask method)
trigger_run_optimizer() (kromatography.ui.tasks.kromatography_task.KromatographyTask method)
trigger_run_simulation() (kromatography.ui.tasks.kromatography_task.KromatographyTask method)
trigger_run_simulation_group() (kromatography.ui.tasks.kromatography_task.KromatographyTask method)
type (kromatography.compute.brute_force_binding_model_optimizer.BruteForce2StepBindingModelOptimizer attribute)
(kromatography.compute.brute_force_optimizer.BruteForceOptimizer attribute)
(kromatography.compute.experiment_optimizer.ExperimentOptimizer attribute)
(kromatography.model.simulation_group.SimulationGroup attribute)
type_id (kromatography.model.binding_model.BindingModel attribute)
(kromatography.model.buffer.Buffer attribute)
(kromatography.model.buffer_prep.BufferPrep attribute)
(kromatography.model.chemical.Chemical attribute)
(kromatography.model.chromatography_data.ChromatographyData attribute)
(kromatography.model.chromatography_results.ExperimentResults attribute)
(kromatography.model.chromatography_results.SimulationResults attribute)
(kromatography.model.collection_criteria.CollectionCriteria attribute)
(kromatography.model.column.Column attribute)
(kromatography.model.column.ColumnType attribute)
(kromatography.model.component.Component attribute)
(kromatography.model.experiment.Experiment attribute)
(kromatography.model.method.Method attribute)
(kromatography.model.method_step.MethodStep attribute)
(kromatography.model.performance_data.PerformanceData attribute)
(kromatography.model.product.Product attribute)
(kromatography.model.resin.Resin attribute)
(kromatography.model.simulation.Simulation attribute)
(kromatography.model.simulation_group.SimulationGroup attribute)
(kromatography.model.solution_with_product.SolutionWithProduct attribute)
(kromatography.model.system.System attribute)
(kromatography.model.system.SystemType attribute)
(kromatography.model.transport_model.TransportModel attribute)
(kromatography.model.x_y_data.XYData attribute)
type_regex (kromatography.ui.akta_file_setting_selector.NamePattern attribute)

U

UIPreferenceGroup (class in kromatography.utils.preferences)
UIPreferencesView (class in kromatography.tools.preferences_view)
undo_manager (kromatography.ui.tasks.kromatography_task.KromatographyTask attribute)
unique_id (kromatography.model.chromatography_data.ChromatographyData attribute)
unit_almost_equal() (in module kromatography.utils.units_utils)
unit_delimiter (kromatography.io.akta_reader.AKTAReader attribute)
unit_row_index (kromatography.io.akta_reader.AKTAReader attribute)
unit_scalar_almost_equal() (in module kromatography.utils.units_utils)
unitarray_to_unitted_list() (in module kromatography.utils.units_utils)
unitArrayDeSerializer0 (class in kromatography.io.legacy_deserializers)
unitted_list_to_array() (in module kromatography.utils.units_utils)
update_1D_cost_plot_data() (kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer method)
update_2D_cost_plot_data() (kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer method)
update_blank() (kromatography.model.study.Study method)
update_buffer_components() (kromatography.ui.buffer_model_view.BufferView method)
update_candidates() (kromatography.ui.factories.product.ProductComponentSelector method)
update_central_pane_tabs() (kromatography.ui.tasks.kromatography_task.KromatographyTask method)
update_chemical_components() (kromatography.ui.chemical_model_view.ChemicalView method)
(kromatography.ui.solution_with_product_view.SolutionWithProductView method)
update_col_name() (kromatography.ui.akta_file_setting_selector.NamePattern method)
update_colorbar_range() (kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer method)
update_cost_data_dict() (kromatography.compute.brute_force_optimizer_step.BruteForceOptimizerStep method)
update_datasource_from_experiment() (kromatography.model.study.Study method)
update_filtered_cost_data() (kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer method)
update_from_experimental_study() (kromatography.model.study.Study method)
update_has_run() (kromatography.compute.experiment_optimizer.ExperimentOptimizer method)
update_mass_balance_msg() (kromatography.ui.akta_file_setting_selector.AKTAFileSettingSelector method)
update_model() (kromatography.ui.buffer_model_view.BufferView method)
(kromatography.ui.chemical_model_view.ChemicalView method)
update_model_chemical_components() (kromatography.ui.solution_with_product_view.SolutionWithProductView method)
update_model_product_assays() (kromatography.ui.solution_with_product_view.SolutionWithProductView method)
update_model_product_component_assays() (kromatography.ui.product_model_view.ProductView method)
update_name() (kromatography.ui.tasks.kromatography_task.KromatographyTask method)
update_on_param_change() (kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer method)
update_optimal_simulation_for_comp() (kromatography.compute.brute_force_optimizer_step.BruteForceOptimizerStep method)
update_optimal_simulation_map() (kromatography.compute.brute_force_binding_model_optimizer.BruteForce2StepBindingModelOptimizer method)
(kromatography.compute.experiment_optimizer.ExperimentOptimizer method)
update_optimal_simulations() (kromatography.compute.experiment_optimizer.ExperimentOptimizer method)
update_pattern_error_msg() (kromatography.ui.akta_file_setting_selector.AKTAFileSettingSelector method)
update_plot_data() (kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer method)
update_plot_title() (kromatography.ui.animation_plot_view.AnimationPlotView method)
update_pool_purities() (kromatography.model.performance_data.PerformanceData method)
update_product_assays() (kromatography.ui.solution_with_product_view.SolutionWithProductView method)
update_scanned_values() (kromatography.model.parameter_scan_description.ParameterScanDescription method)
update_settings() (kromatography.ui.akta_file_setting_selector.AKTAFileSettingSelector method)
update_simulation_from_results() (kromatography.solve.simulation_runner.SimulationRunner method)
update_simulation_names() (kromatography.ui.simulation_from_experiment_builder.SimulationFromExperimentBuilder method)
update_simulation_results() (in module kromatography.io.simulation_updater)
update_solution_names() (kromatography.model.method_step.MethodStep method)
update_solutions() (kromatography.ui.method_model_view.MethodModelView method)
update_starting_point_simulations() (kromatography.compute.brute_force_binding_model_optimizer.BruteForce2StepBindingModelOptimizer method)
(kromatography.ui.brute_force_optimizer_builder.BruteForceOptimizerBuilder method)
update_step() (kromatography.compute.brute_force_binding_model_optimizer.BruteForce2StepBindingModelOptimizer method)
update_target_products_in_datasource() (kromatography.io.legacy_deserializers.studyDeSerializer0 method)
UpdateDownloader (class in kromatography.tools.update_downloader)
updater_view (kromatography.tools.update_downloader.UpdateDownloader attribute)
upgrade_help_str (kromatography.tools.update_downloader.UpdateDownloader attribute)
upgrade_url (kromatography.tools.update_downloader.UpdateDownloader attribute)
use_analytic_jacobian (kromatography.model.solver.Solver attribute)
use_slurm_scheduler (kromatography.utils.preferences.SolverPreferenceGroup attribute)
use_uv_for_cost (kromatography.compute.cost_functions.CostFunction0 attribute)
(kromatography.compute.experiment_optimizer.ExperimentOptimizer attribute)
(kromatography.compute.experiment_optimizer_step.ExperimentOptimizerStep attribute)
user data
user_ds_folder (kromatography.utils.preferences.AppPreferenceGroup attribute)
user_solution_times (kromatography.model.solver.Solver attribute)
UserDataSourceEntryCreator (class in kromatography.utils.datasource_utils)
uuid (kromatography.solve.simulation_runner.SimulationRunner attribute)

V

val (kromatography.model.simulation_group.SingleParamSimulationDiff attribute)
valid_parameter_names (kromatography.model.base_parameter_scan_description.BaseParameterScanDescription attribute)
validate_inputs() (in module kromatography.model.base_product_model)
validate_parallel_parameters() (kromatography.model.parameter_scan_description.ParameterScanDescription method)
validate_time_of_origin() (in module kromatography.io.akta_reader)
vector_attributes (kromatography.ui.base_model_view_with_component_array.BaseModelViewWithComponentArray attribute)
velocity (kromatography.model.cadet_model.CADETModel attribute)
verbose (kromatography.app.krom_app.KromatographyApp attribute)
view_edit_cost_function_button (kromatography.ui.brute_force_optimizer_model_view.BruteForceOptimizerView attribute)
visibility (kromatography.plotting.data_inspector_tool.DataInspectorOverlay attribute)
visible (kromatography.plotting.data_inspector_tool.DataInspectorOverlay attribute)
vol_to_time() (in module kromatography.utils.units_utils)
volume (kromatography.model.buffer_prep.BufferPrep attribute)
(kromatography.model.column.Column attribute)
(kromatography.model.method_step.MethodStep attribute)
volume_to_depth() (in module kromatography.utils.units_utils)
volumetric_CV_flow_rate_to_volumetric_flow_rate() (in module kromatography.utils.units_utils)
volumetric_flow_rate_to_linear() (in module kromatography.utils.units_utils)

W

wait() (kromatography.compute.brute_force_optimizer.BruteForceOptimizer method)
(kromatography.compute.brute_force_optimizer_step.BruteForceOptimizerStep method)
(kromatography.model.simulation_group.SimulationGroup method)
(kromatography.solve.simulation_runner.SimulationRunner method)
wait_on_slurm_job() (in module kromatography.solve.slurm_cadet_executor)
walk_dataelement_editable() (in module kromatography.solve.simulation_job_utils)
warn_if_old_file (kromatography.app.krom_app.KromatographyApp attribute)
weight_edit_mode (kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer attribute)
weights (kromatography.compute.cost_functions.CostFunction0 attribute)
Weno (class in kromatography.model.weno)
weno (kromatography.model.discretization.Discretization attribute)
weno_eps (kromatography.model.weno.Weno attribute)
weno_order (kromatography.model.weno.Weno attribute)
Weno_Serializer (class in kromatography.io.serializer)
wenoDeSerializer (class in kromatography.io.deserializer)
when_children_changed() (kromatography.ui.adapters.study_to_i_tree_node.StudyToITreeNode method)
work_item_ids (kromatography.solve.simulation_runner.SimulationRunner attribute)
WorkExecutor (class in kromatography.solve.work_executor)
write_at_user_times (kromatography.model.solver.Solver attribute)
write_sens_all (kromatography.model.solver.Solver attribute)
write_sens_column_outlet (kromatography.model.solver.Solver attribute)
write_sens_last (kromatography.model.solver.Solver attribute)
write_solution_all (kromatography.model.solver.Solver attribute)
write_solution_column_inlet (kromatography.model.solver.Solver attribute)
write_solution_column_outlet (kromatography.model.solver.Solver attribute)
write_solution_last (kromatography.model.solver.Solver attribute)
write_solution_times (kromatography.model.solver.Solver attribute)
write_to_h5() (in module kromatography.utils.io_utils)
write_trait_obj() (in module kromatography.utils.io_utils)

X

x_axis_param (kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer attribute)
x_data (kromatography.model.x_y_data.XYData attribute)
(kromatography.plotting.data_models.ChromeLog attribute)
x_metadata (kromatography.model.x_y_data.XYData attribute)
XYData (class in kromatography.model.x_y_data)
XYData_Serializer (class in kromatography.io.serializer)
xYDataDeSerializer (class in kromatography.io.deserializer)

Y

y_axis_param (kromatography.ui.optimizer_cost_function_explorer.OptimizerCostFunctionExplorer attribute)
y_data (kromatography.model.x_y_data.XYData attribute)
y_metadata (kromatography.model.x_y_data.XYData attribute)