Update new test for copying arg sync

broadinstitute · Dec 8, 2023 · 0e44296 · 0e44296
1 parent a99eae2
commit 0e44296
Showing 1 changed file with 2 additions and 2 deletions.
diff --git a/...oadinstitute/hellbender/tools/walkers/haplotypecaller/HaplotypeCallerIntegrationTest.java b/...oadinstitute/hellbender/tools/walkers/haplotypecaller/HaplotypeCallerIntegrationTest.java
@@ -1050,15 +1050,15 @@ public void testArgCollectionCopiesAreSynchronized() {
  hcArgs.applyBQD = !hcArgs.applyBQD;
  hcArgs.dontGenotype = !hcArgs.dontGenotype;
  hcArgs.standardArgs.annotateAllSitesWithPLs = !hcArgs.standardArgs.annotateAllSitesWithPLs;
- hcArgs.standardArgs.genotypeArgs.annotateNumberOfAllelesDiscovered = !hcArgs.standardArgs.genotypeArgs.annotateNumberOfAllelesDiscovered;
+ hcArgs.standardArgs.genotypeArgs.ANNOTATE_NUMBER_OF_ALLELES_DISCOVERED = !hcArgs.standardArgs.genotypeArgs.ANNOTATE_NUMBER_OF_ALLELES_DISCOVERED;
 
  // Create copy with different ploidy and check tweaked values (and one control non-changed value) remain in sync
  HaplotypeCallerArgumentCollection hcArgsCopy = hcArgs.copyWithNewPloidy(3);
  Assert.assertEquals(hcArgs.applyBQD, hcArgsCopy.applyBQD);
  Assert.assertEquals(hcArgs.dontGenotype, hcArgsCopy.dontGenotype);
  Assert.assertEquals(hcArgs.standardArgs.annotateAllSitesWithPLs, hcArgsCopy.standardArgs.annotateAllSitesWithPLs);
  Assert.assertEquals(hcArgs.standardArgs.CONTAMINATION_FRACTION, hcArgsCopy.standardArgs.CONTAMINATION_FRACTION);
- Assert.assertEquals(hcArgs.standardArgs.genotypeArgs.annotateNumberOfAllelesDiscovered, hcArgsCopy.standardArgs.genotypeArgs.annotateNumberOfAllelesDiscovered);
+ Assert.assertEquals(hcArgs.standardArgs.genotypeArgs.ANNOTATE_NUMBER_OF_ALLELES_DISCOVERED, hcArgsCopy.standardArgs.genotypeArgs.ANNOTATE_NUMBER_OF_ALLELES_DISCOVERED);
 
  // Modify other values of copy and check they are now distinct, i.e. a "deep copy" was created above
  hcArgsCopy.applyBQD = !hcArgsCopy.applyBQD;