def __str__(self):
"""For backwards compatibility. TODO should eventually be replaced by
AmosGenericMessage.__str__()"""
buffer = [ '{RED' ]
buffer.append( 'iid:%d' % self.iid )
if (self.eid != ''): # tigger doesn't like a null eid field
buffer.append( 'eid:%s' % self.eid )
buffer.append( 'seq:\n%s\n.' % prettyprint( self.seq ) )
buffer.append( 'qlt:\n%s\n.' % prettyprint( self.qlt ) )
buffer.append( 'frg:%d' % self.frg )
buffer.append( 'clr:%s' % self.clr )
buffer.append( '}' )
return '\n'.join(buffer)
def toFasta(self):
lineLength = 60
id = self.eid
if id == '':
id = self.iid
buffer = ">%s\n" % id
buffer += prettyprint(self.seq, lineLength)
return buffer
