def test_load_indexed_bam(self): readsPath = self.resourceFile("indexed_bams/sorted.bam") ac = ADAMContext(self.ss) querys = [ReferenceRegion("chr2", 100, 101), ReferenceRegion("3", 10, 17)] reads = ac.loadIndexedBam(readsPath, querys) self.assertEqual(reads.toDF().count(), 2)
def test_load_indexed_bam(self): testFile = self.resourceFile("indexed_bams/sorted.bam") ac = ADAMContext(self.ss) reads = ac.loadIndexedBam(testFile, [ReferenceRegion("chr2", 100, 101), ReferenceRegion("3", 10, 17)]) self.assertEqual(reads.toDF().count(), 2)
def test_load_indexed_bam(self): readsPath = self.resourceFile("indexed_bams/sorted.bam") ac = ADAMContext(self.ss) querys = [ ReferenceRegion("chr2", 100L, 101L), ReferenceRegion("3", 10L, 17L) ] reads = ac.loadIndexedBam(readsPath, querys) self.assertEquals(reads.toDF().count(), 2)