/allpy/markups.py Thu Jul 14 14:44:58 2011 +0400 +++ b/allpy/markups.py Thu Jul 14 16:15:21 2011 +0400 @@ -91,4 +91,33 @@ markup += monomer .code1.lower() return {'markup': '%s' % markup, 'io-class': 'SequenceCaseMarkup'} +class SequencePdbResiMarkup(base.SequenceMarkup, IntMarkupMixin): + name = 'pdb_resi' + + def from_pdb( self ): + for monomer in self .sequence: + try: + monomer .pdb_resi = ...

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• allpy: b12d3f40a5cb allpy/markups.py
• allpy: 497de2152849 allpy/markups.py
• allpy: allpy/markups.py diff

... Markup We sometimes (very often) want to add marks on an alignment. ... Our definitions Examples What works Projects using allpy Future Converting alignment format alignment = protein. Alignment ().append_file( input_file, format= genbank ) alignment .to_file(output_file, format= fasta ) Converting alignment format -- the uncensored version from allpy import protein input_file = open( input_file.fasta ) output_file = open( output_file.fasta , w ) alignment = protein ...