protected void mapTranscriptToChromosome(Sequence transcript,
SequenceI gene, MapList mapping)
{
- GeneLoci loci = ((Sequence) gene).getGeneLoci();
+ GeneLoci loci = gene.getGeneLoci();
if (loci == null)
{
return;
List<int[]> exons = mapping.getFromRanges();
List<int[]> transcriptLoci = new ArrayList<>();
-
- for (int[] exon : exons) {
+
+ for (int[] exon : exons)
+ {
transcriptLoci.add(geneMapping.locateInTo(exon[0], exon[1]));
}