if(numFPrimers != 0){
success = trimOligos->stripForward(currSeq, currQual, primerIndex, keepforward);
if(success > pdiffs) {
if(numFPrimers != 0){
success = trimOligos->stripForward(currSeq, currQual, primerIndex, keepforward);
if(success > pdiffs) {
else{ thisCurrentSeqsDiffs += thisSuccess; }
}
if(numFPrimers != 0){
thisSuccess = rtrimOligos->stripForward(savedSeq, savedQual, thisPrimerIndex, keepforward);
else{ thisCurrentSeqsDiffs += thisSuccess; }
}
if(numFPrimers != 0){
thisSuccess = rtrimOligos->stripForward(savedSeq, savedQual, thisPrimerIndex, keepforward);