AlignmentI al, String pep, boolean b)
{
List<List<? extends Object>> replaced = AlignSeq
- .replaceMatchingSeqsWith(seqs, annotations, prot, al,
- AlignSeq.PEP, false);
+ .replaceMatchingSeqsWith(seqs, annotations, prot, al, pep,
+ false);
for (PDBChain ch : chains)
{
int p = 0;