bluepyemodel.emodel_pipeline.emodel

EModel class

Functions

format_dict_for_resource(d)

Translates a dictionary to a list of the format used by resources

Classes

EModel([fitness, parameter, score, ...])

Contains all the information related to an optimized e-model, such as its parameters or its e-feature values and scores.

EModelMixin()

Contains functions used both in EModel and MEModel classes.
class EModel(fitness=None, parameter=None, score=None, features=None, scoreValidation=None, passedValidation=None, seed=None, emodel_metadata=None, workflow_id=None, nexus_images=None, threshold_data=None)

Bases: EModelMixin

Contains all the information related to an optimized e-model, such as its parameters or its e-feature values and scores.

This class is not meant to be instantiated by hand. It is used to transmit the information about optimized e-model information.

Init

Parameters:

  • fitness (float) – fitness of the emodel as the sum of scores.

  • parameter (dict or Resource) – parameters of the emodel

  • score (dict or Resource) – scores of the emodel.

  • features (dict or Resource) – feature values of the emodel.

  • scoreValidation (dict or Resource) – scores obtained on the validation protocols.

  • passedValidation (bool or None) – did the model go through validation and if yes, did it pass it successfully (None: no validation, True: passed, False: didn’t pass)

  • seed (int) – seed used during optimisation for this emodel.

  • emodel_metadata (EModelMetadata) – metadata of the model (emodel name, etype, ttype, …)

  • workflow_id (str) – EModelWorkflow id on nexus.

  • nexus_images (list) – list of pdfs associated to the emodel. Not used, retained for legacy purposes only.

  • threshold_data (dict) – contains rmp, Rin, holding current and threshold current values to avoid re-computation of related protocols. Keys must match the ‘output_key’ used in respective protocols. If None, threshold-related protocols will be re-computed each time protocols are run.

copy_pdf_dependencies_to_new_path(seed, overwrite=False)

Copy pdf dependencies to new path using allen notation

class EModelMixin

Bases: object

Contains functions used both in EModel and MEModel classes.

build_pdf_dependencies(seed)

Find all the pdfs associated to an emodel

format_dict_for_resource(d)

Translates a dictionary to a list of the format used by resources