def _CompareRdf(self, referenceFilePath, outputFilePath):
"""Helper method to compare the RDF content of two CellML files."""
ref_model = LoadModel(referenceFilePath)
output_model = LoadModel(outputFilePath)
ref_rdf = list(cellml_metadata.get_all_rdf(ref_model.model))
output_rdf = list(cellml_metadata.get_all_rdf(output_model.model))
self.assertEqual(len(ref_rdf), len(output_rdf))
# Tidy up for Redland
cellml_metadata.remove_model(ref_model.model)
cellml_metadata.remove_model(output_model.model)
def _CompareRdf(self, referenceFilePath, outputFilePath):
"""Helper method to compare the RDF content of two CellML files."""
ref_model = LoadModel(referenceFilePath)
output_model = LoadModel(outputFilePath)
ref_rdf = list(cellml_metadata.get_all_rdf(ref_model.model))
output_rdf = list(cellml_metadata.get_all_rdf(output_model.model))
self.assertEqual(len(ref_rdf), len(output_rdf))
# Tidy up for Redland
cellml_metadata.remove_model(ref_model.model)
cellml_metadata.remove_model(output_model.model)
def Run(originalModelPath, newModelPath, outputModelPath):
original_model = LoadModel(originalModelPath)
new_model = LoadModel(newModelPath)
# Copy all cmeta:ids to the new model
vars = original_model.model.xml_xpath(u'cml:component/cml:variable[@cmeta:id]')
for var in vars:
try:
new_var = new_model.model.get_variable_by_name(var.component.name, var.name)
except:
continue # No matching variable in the new model
meta_id = var.cmeta_id
new_var.xml_set_attribute((u'cmeta:id', translators.NSS['cmeta']), meta_id)
# Also copy the model's cmeta:id, if any
model_id = original_model.model.getAttributeNS(translators.NSS['cmeta'], u'id')
if model_id:
new_model.model.xml_set_attribute((u'cmeta:id', translators.NSS['cmeta']), model_id)
# Get the RDF from the original model, and copy to the new one
for triple in cellml_metadata.get_all_rdf(original_model.model):
cellml_metadata.add_statement(new_model.model, *triple)
cellml_metadata.update_serialized_rdf(new_model.model)
# Write out to a new file
stream = translators.open_output_stream(outputModelPath)
new_model.xml(indent=u'yes', stream=stream)
translators.close_output_stream(stream)
# Tidy up nicely
cellml_metadata.remove_model(original_model.model)
cellml_metadata.remove_model(new_model.model)
def Run(originalModelPath, newModelPath, outputModelPath):
original_model = LoadModel(originalModelPath)
new_model = LoadModel(newModelPath)
# Copy all cmeta:ids to the new model
vars = original_model.model.xml_xpath(
u'cml:component/cml:variable[@cmeta:id]')
for var in vars:
try:
new_var = new_model.model.get_variable_by_name(
var.component.name, var.name)
except:
continue # No matching variable in the new model
meta_id = var.cmeta_id
new_var.xml_set_attribute((u'cmeta:id', translators.NSS['cmeta']),
meta_id)
# Also copy the model's cmeta:id, if any
model_id = original_model.model.getAttributeNS(translators.NSS['cmeta'],
u'id')
if model_id:
new_model.model.xml_set_attribute(
(u'cmeta:id', translators.NSS['cmeta']), model_id)
# Get the RDF from the original model, and copy to the new one
for triple in cellml_metadata.get_all_rdf(original_model.model):
cellml_metadata.add_statement(new_model.model, *triple)
cellml_metadata.update_serialized_rdf(new_model.model)
# Write out to a new file
stream = translators.open_output_stream(outputModelPath)
new_model.xml(indent=u'yes', stream=stream)
translators.close_output_stream(stream)
# Tidy up nicely
cellml_metadata.remove_model(original_model.model)
cellml_metadata.remove_model(new_model.model)