if ( params.isAlignSeqRes() && !params.isHeaderOnly() && !seqResChains.isEmpty()){ logger.debug("Parsing mode align_seqres, will parse SEQRES and align to ATOM sequence"); SeqRes2AtomAligner aligner = new SeqRes2AtomAligner();
if ( params.isAlignSeqRes() && !params.isHeaderOnly() ){ logger.debug("Parsing mode align_seqres, will parse SEQRES and align to ATOM sequence"); alignSeqRes();