app.py 文件源码

def get_mode(self, paths):
        """Return ``SINGLE_END`` or ``PAIRED_END`` from list of file paths

        Raise InputDataException if non-existing.
        """
        seen = {0: 0, 1: 0}  # counters
        for path in paths:
            filename = os.path.basename(path)
            for i, patterns in enumerate([PATTERNS_R1, PATTERNS_R2]):
                for pattern in patterns:
                    if fnmatch.fnmatch(filename, pattern):
                        seen[i] += 1
                        break
        if not seen[0] and seen[1]:
            raise InvalidDataException('Have seen only R2 in {}!'.format(
                ','.join(paths)))
        if seen[1] and seen[0] != seen[1]:
            raise InvalidDataException(
                'Have seen different number of R1 and R2 reads in {}'.format(
                    ','.join(paths)))
        return (PAIRED_END if seen[1] else SINGLE_END)