def __init__(self, parent_view):
HasErrorMessages.__init__(self)
self.parent_view = parent_view
self.username = None
self.password = None
def __init__(self, parent_view): HasErrorMessages.__init__(self) self.parent_view = parent_view self.username = None self.password = None
def __init__(self, parent):
HasErrorMessages.__init__(self)
self.parent = parent
self.id = None
self.isEditing = False
self.clear()
def load(self, request, *args, **kwargs): HasErrorMessages.clearErrors(self) HasWorkingModel.load(self, request, *args, **kwargs) if self.isModelLoaded(): self.listOfCompartments = self.getModel().listOfCompartments self.listOfUnits = self.getModel().listOfUnitDefinitions
def __init__(self, parent): HasErrorMessages.__init__(self) self.parent = parent self.id = None self.isEditing = False self.clear()
def load(self, request, *args, **kwargs):
HasErrorMessages.clearErrors(self)
HasWorkingModel.load(self, request, *args, **kwargs)
if self.isModelLoaded():
self.listOfCompartments = self.getModel().listOfCompartments
self.listOfUnits = self.getModel().listOfUnitDefinitions
def load(self, request, *args, **kwargs):
HasErrorMessages.clearErrors(self)
HasWorkingModel.load(self, request, *args, **kwargs)
if self.isModelLoaded():
self.loadRules()
self.loadGlobalVariables()
def load(self, request, *args, **kwargs): HasErrorMessages.clearErrors(self) HasWorkingModel.load(self, request, *args, **kwargs) if self.isModelLoaded(): self.loadRules() self.loadGlobalVariables()
def load(self, request, *args, **kwargs):
HasErrorMessages.clearErrors(self)
HasWorkingModel.load(self, request, *args, **kwargs)
if self.isModelLoaded():
self.loadSpecies()
self.loadCompartments()
self.loadUnits()
def load(self, request, *args, **kwargs): HasErrorMessages.clearErrors(self) HasWorkingModel.load(self, request, *args, **kwargs) if self.isModelLoaded(): self.loadSpecies() self.loadCompartments() self.loadUnits()
def __init__(self, **kwargs): TemplateView.__init__(self, **kwargs) HasErrorMessages.__init__(self) self.computations = None self.computationsStatus = None self.conts = None self.optims = None
def load(self, request, *args, **kwargs): HasErrorMessages.clearErrors(self) HasWorkingModel.load(self, request, *args, **kwargs) if self.isModelLoaded(): self.loadParameters() self.loadReactions() self.loadUnits()
def __init__(self, **kwargs):
TemplateView.__init__(self, **kwargs)
HasErrorMessages.__init__(self)
HasWorkingModel.__init__(self)
self.modelHistory = None
self.modelPublication = None
self.form = ModelAnnotationsForm(self)
def __init__(self, **kwargs):
TemplateView.__init__(self, **kwargs)
HasErrorMessages.__init__(self)
HasWorkingModel.__init__(self)
self.listOfVariables = None
self.listOfEvents = None
self.form = ModelEventsForm(self)
def __init__(self, parent): HasErrorMessages.__init__(self) self.parent = parent self.parameter = None self.fromValue = None self.toValue = None self.ds = None self.MaxSteps = None
def __init__(self, **kwargs): TemplateView.__init__(self, **kwargs) HasWorkingProject.__init__(self) HasUserLoggedIn.__init__(self) HasErrorMessages.__init__(self) self.listOfModels = None self.fileUploadForm = DocumentForm()
def __init__(self, **kwargs):
TemplateView.__init__(self, **kwargs)
HasWorkingProject.__init__(self)
HasUserLoggedIn.__init__(self)
HasErrorMessages.__init__(self)
self.listOfModels = None
self.fileUploadForm = DocumentForm()
def __init__(self, **kwargs):
TemplateView.__init__(self, **kwargs)
HasWorkingModel.__init__(self)
HasErrorMessages.__init__(self)
self.listOfCompartments = None
self.listOfUnits = None
self.form = ModelCompartmentsForm(self)
def __init__(self, **kwargs): TemplateView.__init__(self, **kwargs) HasErrorMessages.__init__(self) HasWorkingModel.__init__(self) self.modelHistory = None self.modelPublication = None self.form = ModelAnnotationsForm(self)
def load(self, request, *args, **kwargs):
HasErrorMessages.clearErrors(self)
HasWorkingModel.load(self, request, *args, **kwargs)
if self.isModelLoaded():
self.loadParameters()
self.loadReactions()
self.loadUnits()
def __init__(self, **kwargs): TemplateView.__init__(self, **kwargs) HasWorkingModel.__init__(self) HasErrorMessages.__init__(self) self.listOfCompartments = None self.listOfUnits = None self.form = ModelCompartmentsForm(self)
def __init__(self, **kwargs): TemplateView.__init__(self, **kwargs) HasErrorMessages.__init__(self) HasWorkingModel.__init__(self) self.listOfVariables = None self.listOfEvents = None self.form = ModelEventsForm(self)
def __init__(self, **kwargs): TemplateView.__init__(self, **kwargs) HasWorkingModel.__init__(self) HasErrorMessages.__init__(self) self.listOfConstants = None self.listOfVariables = None self.listComputations = None self.computation = None
def __init__(self, **kwargs): TemplateView.__init__(self, **kwargs) HasWorkingModel.__init__(self) HasErrorMessages.__init__(self) self.listOfConstants = None self.listComputations = None self.computation = None self.form = AnalyseBifurcationsForm(self)
def load(self, request, *args, **kwargs): HasErrorMessages.clearErrors(self) HasWorkingModel.load(self, request, *args, **kwargs) if self.isModelLoaded(): self.loadSubmodels() self.loadProjectModels(request) self.loadConversionFactors() self.loadObjects() self.loadSubstitutions()
def load(self, request, *args, **kwargs):
HasErrorMessages.clearErrors(self)
HasWorkingModel.load(self, request, *args, **kwargs)
if self.isModelLoaded():
self.loadSubmodels()
self.loadProjectModels(request)
self.loadConversionFactors()
self.loadObjects()
self.loadSubstitutions()
def __init__(self, **kwargs): TemplateView.__init__(self, **kwargs) HasErrorMessages.__init__(self) HasWorkingModel.__init__(self) self.listOfParameters = None self.listOfReactions = None self.listOfUnits = None self.form = ModelParametersForm(self)
def __init__(self, **kwargs):
TemplateView.__init__(self, **kwargs)
HasErrorMessages.__init__(self)
HasWorkingModel.__init__(self)
self.listOfParameters = None
self.listOfReactions = None
self.listOfUnits = None
self.form = ModelParametersForm(self)
def __init__(self, parent_view):
HasErrorMessages.__init__(self)
self.parent_view = parent_view
self.username = None
self.firstname = None
self.lastname = None
self.email = None
self.organisation = None
self.password1 = None
self.password2 = None
def __init__(self, **kwargs):
TemplateView.__init__(self, **kwargs)
HasErrorMessages.__init__(self)
HasWorkingModel.__init__(self)
self.listOfUnits = None
self.listOfParameters = None
self.sbmlLevels = None
self.modelHistory = None
self.modelPublication = None
self.form = ModelMiscForm(self)
def __init__(self, **kwargs): TemplateView.__init__(self, **kwargs) HasErrorMessages.__init__(self) HasWorkingModel.__init__(self) self.listOfUnits = None self.listOfParameters = None self.sbmlLevels = None self.modelHistory = None self.modelPublication = None self.form = ModelMiscForm(self)
def load(self, request, *args, **kwargs): HasErrorMessages.clearErrors(self) HasWorkingModel.load(self, request, *args, **kwargs) if len(args) > 0: self.setModel(request, int(args[0])) if self.isModelLoaded(): self.form.load() self.modelHistory = self.getModel().modelHistory if len(self.getModel().getAnnotation().getIsDescribedBy()) > 0: self.modelPublication = self.getModel().getAnnotation().getIsDescribedBy()[0]
def load(self, request, *args, **kwargs):
HasErrorMessages.clearErrors(self)
HasWorkingModel.load(self, request, *args, **kwargs)
if len(args) > 0:
self.setModel(request, int(args[0]))
if self.isModelLoaded():
self.listOfUnits = self.getModel().listOfUnitDefinitions
self.listOfParameters = self.getModel().listOfParameters
self.sbmlLevels = self.getModel().getSbmlLevels()
self.form.load()
def load(self, request, *args, **kwargs): HasErrorMessages.clearErrors(self) HasWorkingModel.load(self, request, *args, **kwargs) if len(args) > 0: self.setModel(request, int(args[0])) if self.isModelLoaded(): self.listOfUnits = self.getModel().listOfUnitDefinitions self.listOfParameters = self.getModel().listOfParameters self.sbmlLevels = self.getModel().getSbmlLevels() self.form.load()
def load(self, request, *args, **kwargs):
HasErrorMessages.clearErrors(self)
HasWorkingModel.load(self, request, *args, **kwargs)
if len(args) > 0:
self.setModel(request, int(args[0]))
if self.isModelLoaded():
self.form.load()
self.modelHistory = self.getModel().modelHistory
if len(self.getModel().getAnnotation().getIsDescribedBy()) > 0:
self.modelPublication = self.getModel().getAnnotation(
).getIsDescribedBy()[0]
def __init__(self, **kwargs):
TemplateView.__init__(self, **kwargs)
HasErrorMessages.__init__(self)
HasWorkingModel.__init__(self)
self.listOfVariables = None
self.listOfRules = None
self.ruleTypes = [
"Algebraic rule", "Assignment rule", "Rate rule",
"Initial assignment"
]
self.form = ModelRulesForm(self)
def __init__(self, **kwargs): TemplateView.__init__(self, **kwargs) HasErrorMessages.__init__(self) HasWorkingModel.__init__(self) self.listOfReactions = None self.listOfSpecies = None self.listOfParameters = None self.listOfKineticLaws = None self.reactionTypes = KineticLaw.reactionTypes self.parametersList = KineticLaw.parametersList self.allowReversibleList = KineticLaw.allowReversibleList self.form = ModelReactionsForm(self)
def __init__(self, **kwargs):
TemplateView.__init__(self, **kwargs)
HasErrorMessages.__init__(self)
HasWorkingModel.__init__(self)
self.listOfReactions = None
self.listOfSpecies = None
self.listOfParameters = None
self.listOfKineticLaws = None
self.reactionTypes = KineticLaw.reactionTypes
self.parametersList = KineticLaw.parametersList
self.allowReversibleList = KineticLaw.allowReversibleList
self.form = ModelReactionsForm(self)
def load(self, request, *args, **kwargs):
HasErrorMessages.clearErrors(self)
HasWorkingModel.load(self, request, *args, **kwargs)
if self.isModelLoaded():
self.listOfEvents = self.getModel().listOfEvents
self.getModel().listOfVariables.classifyVariables()
self.listOfVariables = []
for variable in self.getModel().listOfVariables:
if ((variable.isParameter() and variable.isGlobal())
or variable.isSpecies() or variable.isCompartment()
or variable.isStoichiometry()):
self.listOfVariables.append(variable)
def __init__(self, **kwargs): TemplateView.__init__(self, **kwargs) HasErrorMessages.__init__(self) HasWorkingModel.__init__(self) self.listOfVariables = None self.listOfRules = None self.ruleTypes = ["Algebraic rule", "Assignment rule", "Rate rule", "Initial assignment"] self.form = ModelRulesForm(self)
def load(self, request, *args, **kwargs): HasErrorMessages.clearErrors(self) HasWorkingModel.load(self, request, *args, **kwargs) if self.isModelLoaded(): self.listOfEvents = self.getModel().listOfEvents self.getModel().listOfVariables.classifyVariables() self.listOfVariables = [] for variable in self.getModel().listOfVariables: if ((variable.isParameter() and variable.isGlobal()) or variable.isSpecies() or variable.isCompartment() or variable.isStoichiometry()): self.listOfVariables.append(variable)
def __init__(self, **kwargs): TemplateView.__init__(self, **kwargs) HasErrorMessages.__init__(self) # "email_address": "*****@*****.**", # "email_use_tls": true, # "email_host": "smtp.gmail.com", # "email_port": "587", # "email_user": "******", # "email_password": "******", self.mailAddress = None self.mailUseTLS = None self.mailHost = None self.mailPort = None self.mailUser = None
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 load(self, request, *args, **kwargs): HasErrorMessages.clearErrors(self) HasWorkingModel.load(self, request, *args, **kwargs) if len(args) > 0: self.setModel(request, int(args[0])) if self.isModelLoaded(): # self.listOfUnits = self.getModel().listOfUnitDefinitions.values() # self.listOfParameters = self.getModel().listOfParameters.values() # self.sbmlLevels = self.getModel().getSbmlLevels() self.form.load() self.modelHistory = self.getModel().modelHistory if len(self.getModel().getAnnotation().getIsDescribedBy()) > 0: self.modelPublication = self.getModel().getAnnotation().getIsDescribedBy()[0]
def __init__(self, **kwargs):
TemplateView.__init__(self, **kwargs)
HasErrorMessages.__init__(self)
# "email_address": "*****@*****.**",
# "email_use_tls": true,
# "email_host": "smtp.gmail.com",
# "email_port": "587",
# "email_user": "******",
# "email_password": "******",
self.mailAddress = None
self.mailUseTLS = None
self.mailHost = None
self.mailPort = None
self.mailUser = None
def get_context_data(self, **kwargs): kwargs = HasErrorMessages.get_context_data(self, **kwargs) kwargs['computations'] = self.computations kwargs['comp_statuses'] = self.computationsStatus kwargs['conts'] = self.conts kwargs['optims'] = self.optims return kwargs
def __init__(self, parent_view):
HasErrorMessages.__init__(self)
self.parent_view = parent_view
self.selectedSpeciesIds = None
self.selectedReactionsIds = None
# self.experimentId = None
self.timeMin = None
# self.timeEch = None
self.timeMax = None
# self.showObservations = None
self.steady_states = []
self.speciesId = None
def __init__(self, parent_view):
HasErrorMessages.__init__(self)
self.parent_view = parent_view
self.simulationName = None
self.simulationModelSnapshot = None
self.selectedSpeciesIds = None
self.selectedReactionsIds = None
self.experimentId = None
self.timeMin = None
self.timeEch = None
self.timeMax = None
self.showObservations = None
def get_context_data(self, **kwargs): kwargs = HasWorkingProject.get_context_data(self, **kwargs) kwargs = HasErrorMessages.get_context_data(self, **kwargs) kwargs['plots_2d'] = self.listOfPlots2D kwargs['colors'] = Settings.default_colors return kwargs
def __init__(self, parent_view): HasErrorMessages.__init__(self) self.parent_view = parent_view self.simulationName = None self.simulationModelSnapshot = None self.selectedSpeciesIds = None self.selectedReactionsIds = None # self.timeMin = None self.timeMax = None self.steady_states_str = None self.steady_states = [] self.speciesId = None self.speciesName = None
def __init__(self, parent_view): HasErrorMessages.__init__(self) self.parent_view = parent_view self.simulationName = None self.simulationModelSnapshot = None self.selectedSpeciesIds = None self.selectedReactionsIds = None self.experimentId = None self.timeMin = None self.timeEch = None self.timeMax = None self.showObservations = None
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 = 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 = HasWorkingProject.get_context_data(self, **kwargs) kwargs = HasErrorMessages.get_context_data(self, **kwargs) kwargs['form'] = self.fileUploadForm kwargs['sbml_models'] = self.listOfModels return kwargs
def __init__(self, **kwargs): TemplateView.__init__(self, **kwargs) HasErrorMessages.__init__(self) HasWorkingModel.__init__(self) self.listOfSubmodels = [] self.listOfSubmodelTypes = [] self.listOfSubstitutions = None self.listOfProjectModels = None self.listOfSubmodelsRefs = None self.listOfObjects = None self.listOfObjectsMetaIds = None self.listOfConversionFactors = None self.form = ModelSubmodelsForm(self) self.formSubstitutions = ModelSubmodelSubstitutionForm(self)
