zzh
/
gatk-3.8
1
0
Fork 0
Code Issues Pull Requests Packages Projects Releases Wiki Activity

Bug fix. 

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@3526 348d0f76-0448-11de-a6fe-93d51630548a
This commit is contained in:
hanna 2010-06-10 01:53:26 +00:00
parent ca4eab1d23
commit f55f32d4ee
1 changed files with 3 additions and 3 deletions
Show Stats Download Patch File Download Diff File Expand all files Collapse all files

6
java/src/org/broadinstitute/sting/gatk/iterators/DownsamplingLocusIteratorByState.java
View File

@ -612,15 +612,15 @@ public class DownsamplingLocusIteratorByState extends LocusIterator {
// nextReadState != null indicates that we haven't returned this value from the next() method yet.
if(nextReadState != null)
return;
if(alignmentStartIterator!=null&&alignmentStartIterator.hasNext()) {
while(alignmentStartIterator!=null&&alignmentStartIterator.hasNext()) {
nextReadState = alignmentStartIterator.next();
}
else if(sampleIterator!=null&&sampleIterator.hasNext()) {
while(nextReadState==null&&sampleIterator!=null&&sampleIterator.hasNext()) {
currentAlignmentStart = sampleIterator.next();
alignmentStartIterator = currentAlignmentStart!=null ? currentAlignmentStart.iterator() : null;
nextReadState = alignmentStartIterator!=null&&alignmentStartIterator.hasNext() ? alignmentStartIterator.next() : null;
}
else if(sampleIterators.hasNext()) {
while(nextReadState==null&&sampleIterators.hasNext()) {
sampleIterator = sampleIterators.next();
currentAlignmentStart = sampleIterator!=null&&sampleIterator.hasNext() ? sampleIterator.next() : null;
alignmentStartIterator = currentAlignmentStart!=null ? currentAlignmentStart.iterator() : null;