dive.py 文件源码

def dive_export_sc(sc):
    sc = sc.add_parser('export', help='Writes props for DiVE visualization')
    sc.add_argument('fragmentsdb', type=str,
                    help='Name of fragments db input file')
    uniprot_annot_help = '''Uniprot download accession 2 gene symbol, family mapping.
    Fetch "http://www.uniprot.org/uniprot/?query=database:pdb&format=tab&columns=id,genes(PREFERRED),families,database(PDB)"
    '''
    sc.add_argument('uniprot_annot', type=argparse.FileType('r'), help=uniprot_annot_help)
    sc.add_argument('--propnames',
                    type=argparse.FileType('w'),
                    help='Name of prop names file',
                    default='kripo.propnames.txt')
    sc.add_argument('--props',
                    type=argparse.FileType('w'),
                    help='Name of props file',
                    default='kripo.props.txt')
    sc.add_argument('--pdbtags', type=argparse.FileType('r'), action='append', help='Tag pdb in file by filename')
    sc.set_defaults(func=dive_export)