fix issue slop wasn't being applied to BAM records.
@@ -118,7 +118,7 @@ bool BedWindow::FindOneOrMoreWindowOverlaps(const BED &a) {
CHRPOS aFudgeEnd;
AddWindow(a, aFudgeStart, aFudgeEnd);
- bool overlapsFound = _bedB->anyHits(a.chrom, a.start, a.end, a.strand,
+ bool overlapsFound = _bedB->anyHits(a.chrom, aFudgeStart, aFudgeEnd, a.strand,
_matchOnSameStrand, _matchOnDiffStrand, 0.0, false);
return overlapsFound;
}
