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

Need to reset the static counter before tests are run or else we won't be deterministic. 

Also need to give credit where credit is due: David was right that this was not a non-deterministic Bamboo failure...
This commit is contained in:
Eric Banks 2013-02-05 10:41:46 -05:00
parent 23c6aee236
commit 00c98ff0cf
2 changed files with 3 additions and 1 deletions
Show Stats Download Patch File Download Diff File Expand all files Collapse all files

2
public/java/src/org/broadinstitute/sting/utils/sam/MisencodedBaseQualityReadTransformer.java
View File

@ -44,7 +44,7 @@ public class MisencodedBaseQualityReadTransformer extends ReadTransformer {
private boolean disabled; private boolean disabled;
private boolean fixQuals; private boolean fixQuals;
private static int currentReadCounter = 0; protected static int currentReadCounter = 0;
@Override @Override
public ApplicationTime initializeSub(final GenomeAnalysisEngine engine, final Walker walker) { public ApplicationTime initializeSub(final GenomeAnalysisEngine engine, final Walker walker) {

2
public/java/test/org/broadinstitute/sting/utils/sam/MisencodedBaseQualityUnitTest.java
View File

@ -49,6 +49,8 @@ public class MisencodedBaseQualityUnitTest extends BaseTest {
@BeforeMethod @BeforeMethod
public void before() { public void before() {
// reset the read counter so that we are deterministic
MisencodedBaseQualityReadTransformer.currentReadCounter = 0;
header = ArtificialSAMUtils.createArtificialSamHeader(1, 1, 1000); header = ArtificialSAMUtils.createArtificialSamHeader(1, 1, 1000);
} }