def _sq_run_file_attributes(converted_files):
file_attributes = {}
for index, file in enumerate(converted_files):
file_attributes.update({
f'Files - {index} - File Core - File Name':
dsp_attribute(file.get('name')),
f'Files - {index} - File Core - Format':
dsp_attribute(file.get('format')),
f'Files - {index} - HCA File UUID':
dsp_attribute(file.get('uuid')),
f'Files - {index} - Read Index':
dsp_attribute(file.get('read_index')),
f'Files - {index} - Lane Index':
dsp_attribute(file.get('lane_index'))
})
return file_attributes
def nominal_value(*args):
value = args[0]
if value:
value = str(args[0])
else:
value = "0"
return dsp_attribute(value)
def test_dsp_attribute(self):
# given:
string_attribute = dsp_attribute('name')
numeric_attribute = dsp_attribute(28)
falsy_attribute = dsp_attribute(0)
# expect:
self.assertEqual(1, len(string_attribute))
self.assertEqual('name', string_attribute[0].get('value'))
# and:
self.assertEqual(1, len(numeric_attribute))
self.assertEqual(28, numeric_attribute[0].get('value'))
# and:
self.assertEqual(1, len(falsy_attribute))
self.assertEqual(0, falsy_attribute[0].get('value'))
# and:
self.assertIsNone(dsp_attribute(None))
def instrument_model(*args):
hca_name = args[0]
return dsp_attribute(to_dsp_name(hca_name))
def _library_layout_attribute(*args):
paired_end = args[0]
value = 'PAIRED' if paired_end else 'SINGLE'
return dsp_attribute(value)
def _map_primer(*args):
primer = str(args[0])
mapping = _primer_mapping.get(primer)
return dsp_attribute(mapping)
def derive_concrete_type(*args):
schema_url = args[0]
concrete_type = get_concrete_type(schema_url)
return dsp_attribute(concrete_type)
def taxon_id_attribute(*args):
ids: list = args[0]
return dsp_attribute(ids[0])
def derive_concrete_type(*args):
schema_url = args[0]
concrete_type = schema_url.split('/')[-1]
return dsp_attribute(concrete_type)
