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Cleanup of a couple of output statements 

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@343 348d0f76-0448-11de-a6fe-93d51630548a
This commit is contained in:
aaron 2009-04-09 14:09:07 +00:00
parent c556a97f17
commit d56193b6df
1 changed files with 0 additions and 2 deletions
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2
java/src/org/broadinstitute/sting/gatk/dataSources/simpleDataSources/SAMBAMDataSource.java
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@ -69,7 +69,6 @@ public class SAMBAMDataSource implements SimpleDataSource {
if (samFile.toString().endsWith(".list")) { if (samFile.toString().endsWith(".list")) {
return null; return null;
} else { } else {
System.err.println("initializeSAMFile");
SAMFileReader samReader = new SAMFileReader(samFile, true); SAMFileReader samReader = new SAMFileReader(samFile, true);
samReader.setValidationStringency(strictness); samReader.setValidationStringency(strictness);
@ -118,7 +117,6 @@ public class SAMBAMDataSource implements SimpleDataSource {
MergingSamRecordIterator2 iter = new MergingSamRecordIterator2(headerMerger); MergingSamRecordIterator2 iter = new MergingSamRecordIterator2(headerMerger);
System.err.println("About to query");
// we do different things for locus and read modes // we do different things for locus and read modes
if (locusMode) { if (locusMode) {
iter.query(location.getContig(), (int) location.getStart(), (int) location.getStop(), true); iter.query(location.getContig(), (int) location.getStart(), (int) location.getStop(), true);