swamp.parsers.mapalignparser module¶

class MapAlignParser(stdout, logger=None)[source]¶

map_align contact map alignment output parser

Parameters:	stdout (str) – the stdout to be parsed (default None) logger (SwampLogger) – logging interface for the parser (default None)
Variables:	con_sco (str) – the contact score obtained after alignment of the input maps gap_sco (str) – the gap score obtained in the alignment total_sco (str) – the gap score obtained after alignment of the input maps alignment_length (int) – the length of the alignment obtained between the two input maps alignemnt (dict) – a dictionary with the residue sequence number equivalence across the two input maps
Example:

>>> from swamp.parsers import MapAlignParser
>>> my_parser = MapAlignParser('<stdout>')
>>> my_parser.parse()