}
return seq;
}
- public static AlignmentSequence newAlignmentSequence(String name, String alSequence, Sequence refseq, int start, int end) {
+ public static AlignmentSequence newAlignmentSequence(String name, String alSequence, Sequence refseq, long start, long end) {
if (refseq!=null) {
AlignmentSequence asq = new AlignmentSequence();
asq.setName(name);