def _parse_structure()

in data/contact_map_utils.py [0:0]

• 8 lines of code
• 3 McCabe index (conditional complexity)

def _parse_structure(parser, name, file_path):
    """Parse a .pdb or .cif file into a structure object.
    The file can be gzipped.

    Args:
        parser: a Bio.PDB.PDBParser or Bio.PDB.MMCIFParser instance.
        name: String. name of protein
        file_path: String. Filpath of the pdb or cif file to be read.

    Retruns:
        a Bio.PDB.Structure object representing the protein structure.

    """
    if pd.isnull(file_path):
        return None
    if file_path.endswith(".gz"):
        structure = parser.get_structure(name, gunzip_to_ram(file_path))
    else:  # not gzipped
        structure = parser.get_structure(name, file_path)
    return structure