... string representing secondary structure """ 1.6 return ''.join([ 1.7 - (secuence.pdb_secstr[pdb_chain][m] if secuence.pdb_has(pdb_chain, m) else gap) 1.8 + (secuence.pdb_secstr[pdb_chain][m] if secuence.secstr_has(pdb_chain, m) else gap) 1.9 for m in self ...
... s \n" % sequence.__dict__) 1.7 - monomers = [self.project.alignment[i] for i in sorted(self.positions)] 1.8 - string = ''.join([m.type.code1 if m else '-' for m in monomers]) 1.9 + alignment_monomers = self.project.alignment[sequence] 1.10 + block ...
... ksenia_yashina@8 . 15 for item , l , m in list : . ksenia_yashina@8 . ... ksenia_yashina@8 . 15 for item , l , m in list : . ksenia_yashina@8 . ... ksenia_yashina@8 . 17 to = m , sliderlength = 7 , width = 10 ) . ksenia_yashina@8 . ...
... 3 +121,12 @@ 1.4 for i in self.positions: 1.5 monomers[i] = True 1.6 return ''.join([x if m else '-' for m in monomers]) 1.7 + 1.8 + def save_xstring(self, out_file, name, description='', x='X'): 1.9 + """ 1.10 + Save xstring and name in fasta format 1.11 ...
... in self.sequences: 1.6 out_file.write(">%(name)s %(description)s \n" % sequence.__dict__) 1.7 - string = str(sequence) 1.8 + string = ''.join([m.monomer_type.code1 if m else '-' for m in self.alignment[sequence]]) 1.9 if long_line: 1.10 for i in range(0 ...
... 23 22:16:02 2011 +0300 +++ b/allpy/structure.py Wed Feb 23 23:10:47 2011 +0300 @@ -300,8 +300,8 @@ sequences = set(monomer2sequence[m] for m in clique) columns = set(monomer2column[m] for m in clique) columns = sorted(columns, key=column2pos.get) - first ...