def setUp(self):
self.empty_sa = StandoffAnnotation(
os.path.join(FIXTURES_PATH, "valid_sa_file1.xml"))
self.has_overlap_sa = StandoffAnnotation(
os.path.join(FIXTURES_PATH, "has_overlap1.xml"))
self.no_overlap_sa = StandoffAnnotation(
os.path.join(FIXTURES_PATH, "no_overlap1.xml"))
def get_sa_from_dir(dirname):
"""Returns a dictionary in the format of:
{"id": <StandoffAnnotation>}
This is determined by finding all filenames within dirname that pass
is_valid_sa_file.
"""
sas = []
for filename in os.listdir(dirname):
filename = os.path.join(dirname, filename)
if is_valid_sa_file(filename):
sas.append(StandoffAnnotation(filename))
return dict(zip([sa.id for sa in sas], sas))
def setUp(self):
self.has_overlap_sa = StandoffAnnotation(
os.path.join(FIXTURES_PATH, "has_overlap1.xml"))
def setUp(self):
self.has_overlap_sa = StandoffAnnotation(
os.path.join(FIXTURES_PATH, "has_overlap1.xml"))
self.document = Document(self.has_overlap_sa.file_name)