eulerpi package

Subpackages

• Core
  • Data Transformation
    • DataIdentity
      • DataIdentity.jacobian()
      • DataIdentity.transform()
    • DataNormalizer
      • DataNormalizer.from_data()
      • DataNormalizer.from_transformation()
      • DataNormalizer.jacobian()
      • DataNormalizer.transform()
    • DataPCA
      • DataPCA.from_data()
      • DataPCA.jacobian()
      • DataPCA.transform()
    • DataTransformation
      • DataTransformation.jacobian()
      • DataTransformation.transform()
  • Data Transformation Types
    • DataTransformationType
      • DataTransformationType.Custom
      • DataTransformationType.Identity
      • DataTransformationType.Normalize
      • DataTransformationType.PCA
  • Dense Grid
    • evaluate_on_grid_chunk()
    • generate_chebyshev_grid()
    • generate_regular_grid()
    • inference_dense_grid()
    • run_dense_grid_evaluation()
  • Dense Grid Types
    • DenseGridType
      • DenseGridType.CHEBYSHEV
      • DenseGridType.EQUIDISTANT
  • Inference
    • inference()
  • Inference Types
    • InferenceType
      • InferenceType.DENSE_GRID
      • InferenceType.MCMC
      • InferenceType.SPARSE_GRID
  • KDE
    • calc_kernel_width()
    • eval_kde_cauchy()
    • eval_kde_gauss()
  • Model
    • ArtificialModelInterface
      • ArtificialModelInterface.generate_artificial_data()
      • ArtificialModelInterface.generate_artificial_params()
    • JaxModel
      • JaxModel.forward_and_jacobian()
      • JaxModel.forward_method()
      • JaxModel.init_fw_and_bw()
      • JaxModel.jacobian()
    • Model
      • Model.forward()
      • Model.forward_and_jacobian()
      • Model.is_artificial()
      • Model.jacobian()
      • Model.param_is_within_domain()
      • Model.data_dim
      • Model.param_dim
    • SBMLModel
      • SBMLModel.forward()
      • SBMLModel.forward_and_jacobian()
      • SBMLModel.indices_from_ids()
      • SBMLModel.jacobian()
      • SBMLModel.load_amici_model_and_solver()
      • SBMLModel.setSensitivities()
      • SBMLModel.data_dim
      • SBMLModel.param_dim
    • add_autodiff()
    • is_amici_available()
  • Model Check
    • basic_model_check()
    • full_model_check()
    • inference_model_check()
  • Plotting
    • sample_violin_plot()
  • Result Manager
    • ResultManager
      • ResultManager.model_name
      • ResultManager.run_name
      • ResultManager.count_emcee_sub_runs()
      • ResultManager.create_application_folder_structure()
      • ResultManager.create_slice_folder_structure()
      • ResultManager.delete_application_folder_structure()
      • ResultManager.delete_slice_folder_structure()
      • ResultManager.get_application_path()
      • ResultManager.get_slice_name()
      • ResultManager.get_slice_path()
      • ResultManager.load_inference_results()
      • ResultManager.load_slice_inference_results()
      • ResultManager.save_inference_information()
      • ResultManager.save_overall()
      • ResultManager.save_run()
  • Sampling
    • calc_walker_acceptance()
    • inference_mcmc()
    • run_emcee_once()
    • run_emcee_sampling()
  • Sparse Grid
    • SparseGrid
      • SparseGrid.dim
      • SparseGrid.max_level_sum
      • SparseGrid.subspace_list
      • SparseGrid.levels2index
      • SparseGrid.nSubspaces
      • SparseGrid.n_points
      • SparseGrid.allPoints
      • SparseGrid.compute_all_points()
      • SparseGrid.compute_coefficients()
      • SparseGrid.compute_index_list4top_down_sparse_grid_traverse()
      • SparseGrid.compute_integral()
      • SparseGrid.compute_n_points()
      • SparseGrid.eval_function_sg()
      • SparseGrid.refine_subspace()
    • Subspace
      • Subspace.eval_function()
      • Subspace.pass_contributions2higher_levels()
    • basis_1d()
    • basis_nd()
    • evaluate_on_sparse_grid()
    • inference_sparse_grid()
    • meshgrid2matrix()
  • Transformations
    • calc_gram_determinant()
    • eval_log_transformed_density()
    • evaluate_density()

Submodules

• Jax Extension
  • value_and_jacfwd()
  • value_and_jacrev()

Module contents

DEBUGFORMATTER = '%(filename)s:%(name)s:%(funcName)s:%(lineno)d: %(message)s'

Debug file formatter.

INFOFORMATTER = '%(message)s'

Log file and stream output formatter.