def get_context_data(self, **kwargs):
kwargs = HasWorkingModel.get_context_data(self, **kwargs)
kwargs['list_of_species'] = self.listOfSpecies
kwargs['list_of_reactions'] = self.listOfReactions
kwargs['list_of_compartments'] = self.listOfCompartments
return kwargs
def get_context_data(self, **kwargs): kwargs = HasWorkingModel.get_context_data(self, **kwargs) kwargs['list_of_species'] = self.listOfSpecies kwargs['list_of_reactions'] = self.listOfReactions kwargs['list_of_compartments'] = self.listOfCompartments return kwargs
def get_context_data(self, **kwargs):
kwargs = HasWorkingModel.get_context_data(self, **kwargs)
kwargs['unit_definitions'] = self.listOfUnitDefinitions
if self.unitDefinition is not None:
kwargs[
'unit_definition_desc'] = self.unitDefinition.printUnitDefinition(
)
kwargs['unit_definition_name'] = self.unitDefinition.getName()
kwargs[
'unit_definition_identifier'] = self.unitDefinition.getSbmlId(
)
else:
kwargs['unit_definition_desc'] = None
kwargs['unit_definition_name'] = None
kwargs['unit_definition_identifier'] = None
kwargs['units'] = self.listOfUnits
kwargs['unit_list'] = Unit.unit_id.values()
kwargs['adding_new_unit'] = self.addingNewUnit
kwargs['editting_unit'] = self.editingUnitDefinition
return kwargs
def get_context_data(self, **kwargs):
kwargs = HasWorkingModel.get_context_data(self, **kwargs)
kwargs = HasErrorMessages.get_context_data(self, **kwargs)
kwargs['list_of_submodels'] = self.listOfSubmodels
kwargs['list_of_submodels_names'] = [
submodel.getNameOrSbmlId() for submodel in self.listOfSubmodels
]
kwargs['list_of_substitutions'] = self.listOfSubstitutions
kwargs['list_of_project_models'] = [
str(pm.name) for pm in self.listOfProjectModels
]
kwargs['list_of_submodels_refs'] = self.listOfSubmodelsRefs
kwargs['list_of_submodel_types'] = self.listOfSubmodelTypes
kwargs['submodel_types'] = [
"Internal model definition", "External model definition"
]
kwargs['list_of_objects'] = self.listOfObjects
kwargs['list_of_conversion_factors'] = [
conv_factor.getNameOrSbmlId()
for conv_factor in self.listOfConversionFactors
]
kwargs['form'] = self.form
kwargs['form_subs'] = self.formSubstitutions
return kwargs
def get_context_data(self, **kwargs):
kwargs = HasWorkingModel.get_context_data(self, **kwargs)
kwargs['species'] = self.listOfVariables
kwargs['reactions'] = self.listOfReactions
kwargs['experiments'] = self.experiments
if self.experiment is not None:
kwargs['experiment_name'] = self.experiment.name
kwargs['experiment_observations'] = [
condition.listOfExperimentalData
for condition in self.experiment.listOfConditions.values()
]
kwargs['ids_species_selected'] = self.form.selectedSpeciesIds
kwargs['ids_reactions_selected'] = self.form.selectedReactionsIds
kwargs['sim_results'] = self.simResults
kwargs['t_unit'] = self.t_unit
kwargs['y_unit'] = self.y_unit
kwargs['y_max'] = self.y_max
kwargs['colors'] = Settings.default_colors
kwargs['form'] = self.form
return kwargs
def get_context_data(self, **kwargs):
kwargs = HasWorkingModel.get_context_data(self, **kwargs)
kwargs['species'] = self.listOfVariables
kwargs['reactions'] = self.listOfReactions
# kwargs['experiments'] = self.experiments
# kwargs['experiment_id'] = self.form.experimentId
# kwargs['experiment_name'] = self.experimentName
# kwargs['experiment_nb_conditions'] = self.nbConditions
# kwargs['experiment_conditions_names'] = self.conditionNames
# kwargs['experiment_observations'] = self.observations
kwargs['ids_species_selected'] = self.form.selectedSpeciesIds
kwargs['ids_reactions_selected'] = self.form.selectedReactionsIds
kwargs['t_min'] = self.form.timeMin
# kwargs['t_ech'] = self.form.timeEch
kwargs['t_max'] = self.form.timeMax
kwargs['steady_states'] = self.form.steady_states
kwargs['sim_results'] = self.simResults
kwargs['t_unit'] = self.t_unit
kwargs['y_unit'] = self.y_unit
kwargs['y_max'] = self.y_max
kwargs['colors'] = Settings.default_colors
kwargs['simulation_results_loaded'] = self.simulationResultsLoaded
kwargs['form'] = self.form
return kwargs
def get_context_data(self, **kwargs): kwargs = HasWorkingModel.get_context_data(self, **kwargs) kwargs = HasErrorMessages.get_context_data(self, **kwargs) kwargs['list_of_constants'] = [const.getNameOrSbmlId() for const in self.listOfConstants] kwargs['list_of_variables'] = [var.getNameOrSbmlId() for var in self.listOfVariables] kwargs['list_of_computations'] = self.listOfComputations return kwargs
def get_context_data(self, **kwargs): kwargs = HasErrorMessages.get_context_data(self, **kwargs) kwargs = HasWorkingModel.get_context_data(self, **kwargs) kwargs['list_of_events'] = self.listOfEvents kwargs['list_of_variables'] = [var.getNameOrSbmlId() for var in self.listOfVariables] kwargs['form'] = self.form return kwargs
def get_context_data(self, **kwargs):
kwargs = HasWorkingModel.get_context_data(self, **kwargs)
kwargs = HasErrorMessages.get_context_data(self, **kwargs)
kwargs['list_of_compartments'] = self.listOfCompartments
kwargs['list_of_units'] = [unit.getName() for unit in self.listOfUnits]
kwargs['form'] = self.form
return kwargs
def get_context_data(self, **kwargs):
kwargs = HasWorkingModel.get_context_data(self, **kwargs)
kwargs['unit_definitions'] = self.listOfUnitDefinitions
kwargs['unit_list'] = Unit.unit_id.values()
kwargs['form'] = self.form
return kwargs
def get_context_data(self, **kwargs): kwargs = HasWorkingModel.get_context_data(self, **kwargs) kwargs = HasErrorMessages.get_context_data(self, **kwargs) kwargs['list_of_compartments'] = self.listOfCompartments kwargs['list_of_units'] = [unit.getName() for unit in self.listOfUnits] kwargs['form'] = self.form return kwargs
def get_context_data(self, **kwargs): kwargs = HasWorkingModel.get_context_data(self, **kwargs) kwargs['latex_odes'] = self.latex_odes kwargs['latex_conslaws'] = self.latex_conslaws kwargs['latex_cfes'] = self.latex_cfes kwargs['latex_daes'] = self.latex_daes return kwargs
def get_context_data(self, **kwargs): kwargs = HasWorkingModel.get_context_data(self, **kwargs) kwargs['unit_definitions'] = self.listOfUnitDefinitions kwargs['unit_list'] = Unit.unit_id.values() kwargs['form'] = self.form return kwargs
def get_context_data(self, **kwargs):
kwargs = HasWorkingModel.get_context_data(self, **kwargs)
kwargs['list_of_species'] = [
species.getNameOrSbmlId() for species in self.listOfSpecies
]
kwargs['interaction_matrix'] = self.interactionMatrix
kwargs['png_graph'] = self.getSimpleGraph()
return kwargs
def get_context_data(self, **kwargs): kwargs = HasWorkingModel.get_context_data(self, **kwargs) kwargs['list_of_variables'] = [var.getNameOrSbmlId() for var in self.listOfVariables] kwargs['list_of_rules'] = self.listOfRules kwargs['rules_types'] = self.ruleTypes kwargs['form'] = self.form return kwargs
def get_context_data(self, **kwargs): kwargs = HasWorkingModel.get_context_data(self, **kwargs) kwargs['list_of_variables'] = [var.getNameOrSbmlId() for var in self.listOfVariables] kwargs['list_of_rules'] = self.listOfRules kwargs['rules_types'] = self.ruleTypes kwargs['form'] = self.form return kwargs
def get_context_data(self, **kwargs):
kwargs = HasErrorMessages.get_context_data(self, **kwargs)
kwargs = HasWorkingModel.get_context_data(self, **kwargs)
kwargs['list_of_events'] = self.listOfEvents
kwargs['list_of_variables'] = [
var.getNameOrSbmlId() for var in self.listOfVariables
]
kwargs['form'] = self.form
return kwargs
def get_context_data(self, **kwargs): kwargs = HasWorkingModel.get_context_data(self, **kwargs) kwargs = HasErrorMessages.get_context_data(self, **kwargs) kwargs['list_of_constants'] = [const.getNameOrSbmlId() for const in self.listOfConstants] kwargs['list_of_computations'] = self.listOfComputations kwargs['colors'] = Settings.default_colors kwargs['form'] = self.form return kwargs
def get_context_data(self, **kwargs):
kwargs = HasWorkingModel.get_context_data(self, **kwargs)
kwargs['list_of_species'] = [
species for species in self.listOfSpecies
if species.isInReactions()
]
kwargs['list_of_reactions'] = self.listOfReactions
# kwargs['interaction_matrix'] = self.interactionMatrix
# kwargs['png_graph'] = self.getSimpleGraph()
return kwargs
def get_context_data(self, **kwargs): kwargs = HasWorkingModel.get_context_data(self, **kwargs) kwargs = HasErrorMessages.get_context_data(self, **kwargs) kwargs['list_of_parameters'] = self.listOfParameters kwargs['list_of_reactions'] = ["Global"] + [reaction.getNameOrSbmlId() for reaction in self.listOfReactions] kwargs['list_of_units'] = [unit.getNameOrSbmlId() for unit in self.listOfUnits] kwargs['form'] = self.form return kwargs
def get_context_data(self, **kwargs): kwargs = HasWorkingModel.get_context_data(self, **kwargs) kwargs['experimental_data_sets'] = [experiment.name for experiment in Experiment.objects.filter(project=self.project)] kwargs['list_of_species'] = self.getModelInstance().listOfSpecies kwargs['list_of_parameters'] = self.getModelInstance().listOfParameters kwargs['selected_datasets_ids'] = self.form.selectedDataSetsIds kwargs['selected_parameters'] = self.form.selectedParameters kwargs['form'] = self.form return kwargs
def get_context_data(self, **kwargs):
kwargs = HasWorkingModel.get_context_data(self, **kwargs)
kwargs = HasErrorMessages.get_context_data(self, **kwargs)
kwargs['page_address'] = reverse('edit_annotations')
kwargs['model_history'] = self.modelHistory
kwargs['model_publication'] = self.modelPublication
kwargs['form'] = self.form
return kwargs
def get_context_data(self, **kwargs):
kwargs = HasWorkingModel.get_context_data(self, **kwargs)
kwargs['experimental_data_sets'] = self.listOfDataSets
kwargs['selected_datasets'] = self.selectedDataSets
kwargs['selected_datasets_ids'] = self.selectedDataSetsIds
kwargs['list_of_species'] = self.listOfSpecies
kwargs['selected_parameters'] = self.selectedParameters
return kwargs
def get_context_data(self, **kwargs):
kwargs = HasWorkingModel.get_context_data(self, **kwargs)
kwargs = HasErrorMessages.get_context_data(self, **kwargs)
kwargs['page_address'] = reverse('edit_annotations')
kwargs['model_history'] = self.modelHistory
kwargs['model_publication'] = self.modelPublication
kwargs['form'] = self.form
return kwargs
def get_context_data(self, **kwargs): kwargs = HasWorkingModel.get_context_data(self, **kwargs) kwargs = HasErrorMessages.get_context_data(self, **kwargs) kwargs['list_of_species'] = self.listOfSpecies kwargs['list_of_compartments'] = [comp.getNameOrSbmlId() for comp in self.listOfCompartments] kwargs['list_of_species_type'] = ["Amount", "Concentration"] kwargs['list_of_units'] = [unit.getName() for unit in self.listOfUnits] kwargs['form'] = self.form return kwargs
def get_context_data(self, **kwargs):
kwargs = HasWorkingModel.get_context_data(self, **kwargs)
kwargs['experimental_data_sets'] = Experiment.objects.filter(
project=self.project)
kwargs['list_of_species'] = self.model.listOfSpecies.values()
kwargs['list_of_parameters'] = self.model.listOfParameters.values()
kwargs['ids_of_species'] = self.model.listOfSpecies.sbmlIds()
kwargs['selected_datasets'] = self.form.selectedDataSets
kwargs['selected_datasets_ids'] = self.form.selectedDataSetsIds
kwargs['selected_parameters'] = self.form.selectedParameters
return kwargs
def get_context_data(self, **kwargs): kwargs = HasErrorMessages.get_context_data(self, **kwargs) kwargs = HasWorkingModel.get_context_data(self, **kwargs) kwargs['list_of_reactions'] = self.listOfReactions kwargs['list_of_kinetic_laws'] = self.listOfKineticLaws kwargs['list_of_species'] = [species.getNameOrSbmlId() for species in self.listOfSpecies] kwargs['list_of_parameters'] = [parameter.getNameOrSbmlId() for parameter in self.listOfParameters] kwargs['reaction_types'] = self.reactionTypes kwargs['parameters_list'] = self.parametersList kwargs['allow_reversible'] = self.allowReversibleList kwargs['form'] = self.form return kwargs
def get_context_data(self, **kwargs): kwargs = HasErrorMessages.get_context_data(self, **kwargs) kwargs = HasWorkingModel.get_context_data(self, **kwargs) kwargs['list_of_reactions'] = self.listOfReactions kwargs['list_of_kinetic_laws'] = self.listOfKineticLaws kwargs['list_of_species'] = [species.getNameOrSbmlId() for species in self.listOfSpecies] kwargs['list_of_parameters'] = [parameter.getNameOrSbmlId() for parameter in self.listOfParameters] kwargs['reaction_types'] = self.reactionTypes kwargs['parameters_list'] = self.parametersList kwargs['allow_reversible'] = self.allowReversibleList kwargs['form'] = self.form return kwargs
def get_context_data(self, **kwargs):
kwargs = HasWorkingModel.get_context_data(self, **kwargs)
kwargs = HasErrorMessages.get_context_data(self, **kwargs)
kwargs['page_address'] = reverse('edit_overview')
kwargs['list_of_units'] = [unit.getName() for unit in self.listOfUnits]
kwargs['list_of_parameters'] = [
parameter.getNameOrSbmlId() for parameter in self.listOfParameters
]
kwargs['sbml_levels'] = self.sbmlLevels
kwargs['model_history'] = self.modelHistory
kwargs['model_publication'] = self.modelPublication
kwargs['form'] = self.form
return kwargs
def get_context_data(self, **kwargs):
kwargs = HasWorkingModel.get_context_data(self, **kwargs)
kwargs = HasErrorMessages.get_context_data(self, **kwargs)
kwargs['page_address'] = reverse('edit_overview')
kwargs['list_of_units'] = [unit.getName() for unit in self.listOfUnits]
kwargs['list_of_parameters'] = [parameter.getNameOrSbmlId() for parameter in self.listOfParameters]
kwargs['sbml_levels'] = self.sbmlLevels
kwargs['model_history'] = self.modelHistory
kwargs['model_publication'] = self.modelPublication
kwargs['form'] = self.form
return kwargs
def get_context_data(self, **kwargs): kwargs = HasWorkingModel.get_context_data(self, **kwargs) kwargs['species'] = self.listOfVariables kwargs['reactions'] = self.listOfReactions kwargs['ids_species_selected'] = self.form.selectedSpeciesIds kwargs['ids_reactions_selected'] = self.form.selectedReactionsIds kwargs['steady_states'] = self.form.steady_states kwargs['sim_results'] = self.simResults kwargs['t_unit'] = self.t_unit kwargs['y_unit'] = self.y_unit kwargs['y_max'] = self.y_max kwargs['colors'] = Settings.default_colors kwargs['form'] = self.form return kwargs
def get_context_data(self, **kwargs):
kwargs = HasWorkingModel.get_context_data(self, **kwargs)
kwargs['species'] = self.listOfVariables
kwargs['reactions'] = self.listOfReactions
kwargs['ids_species_selected'] = self.form.selectedSpeciesIds
kwargs['ids_reactions_selected'] = self.form.selectedReactionsIds
kwargs['steady_states'] = self.form.steady_states
kwargs['sim_results'] = self.simResults
kwargs['t_unit'] = self.t_unit
kwargs['y_unit'] = self.y_unit
kwargs['y_max'] = self.y_max
kwargs['colors'] = Settings.default_colors
kwargs['form'] = self.form
return kwargs
def get_context_data(self, **kwargs): kwargs = HasWorkingModel.get_context_data(self, **kwargs) kwargs = HasErrorMessages.get_context_data(self, **kwargs) kwargs['list_of_submodels'] = self.listOfSubmodels kwargs['list_of_submodels_names'] = [submodel.getNameOrSbmlId() for submodel in self.listOfSubmodels] kwargs['list_of_substitutions'] = self.listOfSubstitutions kwargs['list_of_project_models'] = [str(pm.name) for pm in self.listOfProjectModels] kwargs['list_of_submodels_refs'] = self.listOfSubmodelsRefs kwargs['list_of_submodel_types'] = self.listOfSubmodelTypes kwargs['submodel_types'] = ["Internal model definition", "External model definition"] kwargs['list_of_objects'] = self.listOfObjects kwargs['list_of_conversion_factors'] = [conv_factor.getNameOrSbmlId() for conv_factor in self.listOfConversionFactors] kwargs['form'] = self.form kwargs['form_subs'] = self.formSubstitutions return kwargs
def get_context_data(self, **kwargs): kwargs = HasWorkingModel.get_context_data(self, **kwargs) kwargs['species'] = self.listOfVariables kwargs['reactions'] = self.listOfReactions kwargs['experiments'] = self.experiments if self.experiment is not None: kwargs['experiment_name'] = self.experiment.name kwargs['experiment_observations'] = [condition.listOfExperimentalData for condition in self.experiment.listOfConditions.values()] kwargs['ids_species_selected'] = self.form.selectedSpeciesIds kwargs['ids_reactions_selected'] = self.form.selectedReactionsIds kwargs['sim_results'] = self.simResults kwargs['t_unit'] = self.t_unit kwargs['y_unit'] = self.y_unit kwargs['y_max'] = self.y_max kwargs['colors'] = Settings.default_colors kwargs['form'] = self.form return kwargs
def get_context_data(self, **kwargs):
kwargs = HasWorkingModel.get_context_data(self, **kwargs)
return kwargs
def get_context_data(self, **kwargs): kwargs = HasWorkingModel.get_context_data(self, **kwargs) kwargs['optimizations'] = self.listOfOptimizations return kwargs
def get_context_data(self, **kwargs): kwargs = HasWorkingModel.get_context_data(self, **kwargs) return kwargs
def get_context_data(self, **kwargs):
kwargs = HasWorkingModel.get_context_data(self, **kwargs)
kwargs['optimizations'] = self.listOfOptimizations
return kwargs
