def __init__(self, external_name):
if not os.path.isdir(PathResolver.datasets_output_path()):
os.makedirs(PathResolver.datasets_output_path())
self.external_name = external_name
self.internal_name = self.detect_internal_name()
NameConverter.register(self.external_name)
self._contigs_count = None
def reads_output_paths(self):
input_names = [os.path.basename(p) for p in self.reads_input_paths()]
return [PathResolver.datasets_output_path(p) for p in input_names]
def contigs_output_path(self):
file_name = os.path.basename(self.contigs_input_path())
return PathResolver.datasets_output_path(file_name)
def _get_output_path(self, input_path):
file_name = os.path.basename(input_path)
file_name = input_file_name.replace(file_name, self.internal_name)
return PathResolver.datasets_output_path(file_name)
def _contigs_files(self):
files = glob.glob(PathResolver.datasets_output_path() + '/*')
return [
e for e in files if re.match(DataManager.CONTIGS_FNAME_REGEXP, e)
]