python test failures

bigdatagenomics · Dec 11, 2018 · 47781cf · 47781cf
1 parent a371f9f
commit 47781cf
Show file tree

Hide file tree

Showing 2 changed files with 3 additions and 3 deletions.
diff --git a/adam-python/bdgenomics/adam/test/alignmentRecordDataset_test.py b/adam-python/bdgenomics/adam/test/alignmentRecordDataset_test.py
@@ -120,7 +120,7 @@ def test_transform(self):
 
         reads = ac.loadAlignments(readsPath)
 
-        transformedReads = reads.transform(lambda x: x.filter(x.contigName == "1"))
+        transformedReads = reads.transform(lambda x: x.filter(x.referenceName == "1"))
 
         self.assertEqual(transformedReads.toDF().count(), 1)
 
@@ -132,7 +132,7 @@ def test_transmute_to_coverage(self):
 
         reads = ac.loadAlignments(readsPath)
 
-        readsAsCoverage = reads.transmute(lambda x: x.select(x.contigName,
+        readsAsCoverage = reads.transmute(lambda x: x.select(x.referenceName,
                                                              x.start,
                                                              x.end,
                                                              x.mapq.cast(DoubleType()).alias("count"),

diff --git a/adam-python/bdgenomics/adam/test/genotypeDataset_test.py b/adam-python/bdgenomics/adam/test/genotypeDataset_test.py
@@ -248,7 +248,7 @@ def test_transform(self):
 
         genotypes = ac.loadGenotypes(testFile)
 
-        transformedGenotypes = genotypes.transform(lambda x: x.filter(x.contigName == '1'))
+        transformedGenotypes = genotypes.transform(lambda x: x.filter(x.referenceName == '1'))
 
         self.assertEqual(transformedGenotypes.toDF().count(), 9)