INNER CODE UNIT · Python

revert

hillerlab/TOGA · CESAR_wrapper.py:346

def revert(line):
    """Revert string and change with complement bases."""
    line = line[::-1].upper()
    new_str = "".join([COMPLEMENT_BASE.get(c) for c in line if COMPLEMENT_BASE.get(c)])
    return new_str


def get_2bit_path(db_arg):
    """Check if alias and return a path to 2bit file."""
    if os.path.isfile(db_arg):  # not an alias
        return db_arg  # there is nothing to do
    elif os.path.islink(db_arg):
        return os.readlink(db_arg)
    aliased = two_bit_templ.format(db_arg)
    # check that it's a file
    die(f"Error! Cannot find {aliased} file", 1) if not os.path.isfile(
        aliased
    ) else None

View source record →