def _process_control_tables(self, control_tables):
ref_controls = {}
if not control_tables:
return ref_controls
for table in control_tables:
controls_table = ControlsTable(table,
self.catalog_accessor.get_control_type(),
self.catalog_accessor.get_fluid_units(),
self.catalog_accessor.get_time_units())
controls_data = controls_table.process_table()
table_caption = controls_table.get_table_caption()
if table_caption:
ref_controls[table_caption] = controls_data
self.validation_errors.extend(controls_table.get_validation_errors())
self.validation_warnings.extend(controls_table.get_validation_warnings())
return ref_controls
def _process_control_tables(self, control_tables, strain_mapping):
if not control_tables:
self.validation_errors.append(
'No control tables to parse from document.')
return
try:
for table in control_tables:
controls_table = ControlsTable(
table,
control_types=self._CONTROL_TYPES,
fluid_units=self._FLUID_UNITS,
timepoint_units=self._TIME_UNITS,
strain_mapping=strain_mapping)
controls_table.process_table()
table_caption = controls_table.get_table_caption()
if table_caption:
self.processed_controls[table_caption] = controls_table
self.validation_errors.extend(
controls_table.get_validation_errors())
self.validation_warnings.extend(
controls_table.get_validation_warnings())
except IntentParserException as err:
self.validation_errors.extend([err.get_message()])
def process_control_tables(self, control_tables):
if not control_tables:
self.validation_warnings.append('No measurement table to parse from document.')
return
strain_mapping = {}
try:
strain_mapping = self.sbol_dictionary.get_mapped_strain(self.processed_labs[dc_constants.LAB])
except (DictionaryMaintainerException, TableException) as err:
self.validation_errors.extend([err.get_message()])
for table in control_tables:
controls_table = ControlsTable(table,
control_types=self.catalog_accessor.get_control_type(),
fluid_units=self.catalog_accessor.get_fluid_units(),
timepoint_units=self.catalog_accessor.get_time_units(),
strain_mapping=strain_mapping)
controls_table.process_table()
control_intents = controls_table.get_intents()
table_caption = controls_table.get_table_caption()
if table_caption:
self.processed_controls[table_caption] = control_intents
self.validation_errors.extend(controls_table.get_validation_errors())
self.validation_warnings.extend(controls_table.get_validation_warnings())