This command will convert a profile that is in memory into the alignment format (see Section B.1). The function of this command is complimentary to Alignment.to_profile(). The generated alignment is returned.
Note: Not all information of a 'PIR' format is encoded in a profile. (See Profile.read()). So converting a profile to an alignment may need manual attention to ensure that the alignment is useful for other routines.
# Example file for: Profile.read(), Profile.to_alignment() from modeller import * env = Environ() # Create a new, blank, profile prf = Profile(env) # Read in the profile file prf.read(file='toxin.prf', profile_format='TEXT') # Convert the profile to alignment aln = prf.to_alignment() # Write out the alignment aln.write(file='readprofile.pir', alignment_format='PIR')