diff --git a/modules/mol/alg/pymod/chain_mapping.py b/modules/mol/alg/pymod/chain_mapping.py index 7c144730dfe9f52edbc8087ef9d2d9107473bfed..7b1eceb23d68749687ffc78101b83d2d80228645 100644 --- a/modules/mol/alg/pymod/chain_mapping.py +++ b/modules/mol/alg/pymod/chain_mapping.py @@ -621,9 +621,6 @@ class ChainMapper: def polypep_seqs(self): """Sequences of peptide chains in :attr:`~target` - Respective :class:`EntityView` from *target* for each sequence s are - available as ``s.GetAttachedView()`` - :type: :class:`ost.seq.SequenceList` """ return self._polypep_seqs @@ -632,9 +629,6 @@ class ChainMapper: def polynuc_seqs(self): """Sequences of nucleotide chains in :attr:`~target` - Respective :class:`EntityView` from *target* for each sequence s are - available as ``s.GetAttachedView()`` - :type: :class:`ost.seq.SequenceList` """ return self._polynuc_seqs @@ -1480,7 +1474,6 @@ class ChainMapper: * filters view by chain lengths, see *min_pep_length* and *min_nuc_length* in constructor * Extracts atom sequences for each chain in that view - * Attaches corresponding :class:`ost.mol.EntityView` to each sequence * If residue number alignments are used, strictly increasing residue numbers without insertion codes are ensured in each chain @@ -1489,8 +1482,7 @@ class ChainMapper: :returns: Tuple with 3 elements: 1) :class:`ost.mol.EntityView` containing peptide and nucleotide residues 2) :class:`ost.seq.SequenceList` containing ATOMSEQ sequences - for each polypeptide chain in returned view, sequences have - :class:`ost.mol.EntityView` of according chains attached + for each polypeptide chain in returned view 3) same for polynucleotide chains """ view = ent.CreateEmptyView() @@ -1586,11 +1578,9 @@ class ChainMapper: Performs Needleman-Wunsch alignment with parameterization setup at ChainMapper construction - :param s1: First sequence to align - must have view attached in case - of resnum_alignments + :param s1: First sequence to align :type s1: :class:`ost.seq.SequenceHandle` - :param s2: Second sequence to align - must have view attached in case - of resnum_alignments + :param s2: Second sequence to align :type s2: :class:`ost.seq.SequenceHandle` :param stype: Type of sequences to align, must be in [:class:`ost.mol.ChemType.AMINOACIDS`,