idmtools_calibra package

Subpackages

• idmtools_calibra.algorithms package
  • Subpackages
    • idmtools_calibra.algorithms.pbnb package
      • Submodules
  • Submodules
    • idmtools_calibra.algorithms.fisher_inf_matrix module
      • perturbed_points()
      • compute_fisher_inf_matrix()
      • sample_cov_ellipse()
      • trunc_gauss()
      • div0()
      • near_pd()
    • idmtools_calibra.algorithms.generic_iterative_next_point module
      • GenericIterativeNextPoint
    • idmtools_calibra.algorithms.gpc module
      • GPC
    • idmtools_calibra.algorithms.imis module
      • IMIS
    • idmtools_calibra.algorithms.next_point_algorithm module
      • NextPointAlgorithm
    • idmtools_calibra.algorithms.optim_tool module
      • OptimTool
    • idmtools_calibra.algorithms.optim_tools_pspo module
      • OptimToolPSPO
    • idmtools_calibra.algorithms.optim_tools_spsa module
      • OptimToolSPSA
    • idmtools_calibra.algorithms.separatrix_bhm module
      • SeparatrixBHM
• idmtools_calibra.analyzers package
  • Submodules
    • idmtools_calibra.analyzers.base_calibration_analyzer module
      • BaseCalibrationAnalyzer
    • idmtools_calibra.analyzers.rmse_analyzer module
      • RMSEAnalyzer
• idmtools_calibra.cli package
  • Submodules
    • idmtools_calibra.cli.commands module
    • idmtools_calibra.cli.utils module
      • load_config_module()
      • get_calib_manager()
      • read_calib_data()
• idmtools_calibra.output package
  • Submodules
    • idmtools_calibra.output.spatial_output module
      • SpatialOutput
• idmtools_calibra.plotters package
  • Submodules
    • idmtools_calibra.plotters.base_plotter module
      • BasePlotter
    • idmtools_calibra.plotters.likelihood_plotter module
      • LikelihoodPlotter
    • idmtools_calibra.plotters.optim_tool_pbnb_plotter module
      • OptimToolPBnBPlotter
    • idmtools_calibra.plotters.optim_tool_plotter module
      • OptimToolPlotter
    • idmtools_calibra.plotters.optim_tool_spsa_plotter module
      • OptimToolSPSAPlotter
    • idmtools_calibra.plotters.separatrix_bhm_plotter module
      • SeparatrixBHMPlotter
    • idmtools_calibra.plotters.site_data_plotter module
      • SiteDataPlotter
• idmtools_calibra.resamplers package
  • Submodules
    • idmtools_calibra.resamplers.base_resampler module
      • BaseResampler
    • idmtools_calibra.resamplers.calibration_point module
      • CalibrationPoint
      • CalibrationParameter
    • idmtools_calibra.resamplers.calibration_points module
      • CalibrationPoints
    • idmtools_calibra.resamplers.cramer_rao_resampler module
      • CramerRaoResampler
    • idmtools_calibra.resamplers.random_perturbation_resampler module
      • RandomPerturbationResampler
• idmtools_calibra.utilities package
  • Subpackages
    • idmtools_calibra.utilities.parsers package
      • Submodules
  • Submodules
    • idmtools_calibra.utilities.display module
      • on_off()
      • pluralize()
      • verbose_timedelta()
    • idmtools_calibra.utilities.distro module
      • NORMALIZED_OS_ID
      • NORMALIZED_LSB_ID
      • NORMALIZED_DISTRO_ID
      • linux_distribution()
      • id()
      • name()
      • version()
      • version_parts()
      • major_version()
      • minor_version()
      • build_number()
      • like()
      • codename()
      • info()
      • os_release_info()
      • lsb_release_info()
      • distro_release_info()
      • uname_info()
      • os_release_attr()
      • lsb_release_attr()
      • distro_release_attr()
      • uname_attr()
      • cached_property
      • LinuxDistribution
      • main()
      • test()
    • idmtools_calibra.utilities.encoding module
      • NumpyEncoder
      • GeneralEncoder
      • json_numpy_obj_hook()
      • cast_number()
    • idmtools_calibra.utilities.helper module
      • validate_exp_name()
      • json_to_pandas()
    • idmtools_calibra.utilities.ll_all_generator module
      • generate_ll_all()
    • idmtools_calibra.utilities.ll_calculators module
      • dirichlet_multinomial_pandas()
      • gamma_poisson_pandas()
      • beta_binomial_pandas()
      • dirichlet_multinomial()
      • dirichlet_single()
      • beta_binomial()
      • gamma_poisson()
      • euclidean_distance()
      • euclidean_distance_pandas()
      • weighted_squares()
    • idmtools_calibra.utilities.mod_fn module
      • ModFn
    • idmtools_calibra.utilities.parameter_set module
      • NaNDetectedError
      • ParameterSet
    • idmtools_calibra.utilities.prior module
      • SampleRange
      • SampleFunctionContainer
      • MultiVariatePrior
    • idmtools_calibra.utilities.resume_manager module
      • status_to_iter_step()
      • ResumeManager

Submodules

• idmtools_calibra.calib_base_app module
  • constrain_sample()
  • map_sample_to_model_input()
  • init()
  • go()
• idmtools_calibra.calib_manager module
  • set_parameter_sweep_callback()
  • SampleIndexWrapper
  • CalibManager
    • CalibManager.open_for_reading()
    • CalibManager.suite_id
    • CalibManager.iteration
    • CalibManager.run_calibration()
    • CalibManager.run_iterations()
    • CalibManager.post_iteration()
    • CalibManager.set_experiment_builder_function()
    • CalibManager.set_map_replicates_callback()
    • CalibManager.default_experiment_builder_function()
    • CalibManager.create_iteration_state()
    • CalibManager.create_calibration()
    • CalibManager.finalize_calibration()
    • CalibManager.cache_calibration()
    • CalibManager.backup_calibration()
    • CalibManager.serialize_results()
    • CalibManager.resume_calibration()
    • CalibManager.delete()
    • CalibManager.cleanup()
    • CalibManager.read_calib_data()
    • CalibManager.calibration_path
    • CalibManager.analyzer_list
    • CalibManager.required_components
    • CalibManager.iteration_directory()
    • CalibManager.state_for_iteration()
    • CalibManager.param_names()
    • CalibManager.site_analyzer_names()
    • CalibManager.get_last_iteration()
    • CalibManager.get_parameter_sets_with_likelihoods()
• idmtools_calibra.calib_site module
  • SiteFunctions
    • SiteFunctions.set_calibration_site()
  • CalibSite
    • CalibSite.get_reference_data()
    • CalibSite.get_analyzers()
    • CalibSite.get_setup_functions()
• idmtools_calibra.iteration_state module
  • IterationState
    • IterationState.status
    • IterationState.update()
    • IterationState.restore_results()
    • IterationState.run()
    • IterationState.starting_step()
    • IterationState.commission_step()
    • IterationState.analyze_step()
    • IterationState.plotting_step()
    • IterationState.next_point_step()
    • IterationState.commission_iteration()
    • IterationState.plot_iteration()
    • IterationState.analyze_iteration()
    • IterationState.wait_for_finished()
    • IterationState.cancel()
    • IterationState.iteration_directory
    • IterationState.iteration_file
    • IterationState.param_names
    • IterationState.finished()
    • IterationState.from_file()
    • IterationState.to_file()
    • IterationState.restore_state()
    • IterationState.set_samples_for_iteration()
    • IterationState.save()
    • IterationState.get_parameter_sets_with_likelihoods()
• idmtools_calibra.process_state module
  • StatusPoint
    • StatusPoint.iteration_start
    • StatusPoint.commission
    • StatusPoint.running
    • StatusPoint.analyze
    • StatusPoint.plot
    • StatusPoint.next_point
    • StatusPoint.done
• idmtools_calibra.resample_manager module
  • ResampleManager
    • ResampleManager.resample_and_run()
    • ResampleManager.write_restart()
    • ResampleManager.load_restart()
    • ResampleManager.get_calibrated_points()
• idmtools_calibra.rmse_site module
  • RMSESiteSingleChannel
    • RMSESiteSingleChannel.get_reference_data()
    • RMSESiteSingleChannel.get_analyzers()
    • RMSESiteSingleChannel.get_setup_functions()
• idmtools_calibra.singularity_json_python_task module
  • SingularityJSONConfiguredPythonTask
    • SingularityJSONConfiguredPythonTask.provided_command
    • SingularityJSONConfiguredPythonTask.pre_creation()
    • SingularityJSONConfiguredPythonTask.set_parameter_sweep_callback()
    • SingularityJSONConfiguredPythonTask.set_param_partial()