Class org.broadinstitute.hellbender.tools.walkers.annotator.VariantOverlapAnnotatorUnitTest

all > org.broadinstitute.hellbender.tools.walkers.annotator > VariantOverlapAnnotatorUnitTest
193

tests
0

failures
0

ignored
0.488s

duration
100%

successful

Tests

Test Duration Result
testAnnotateOverlapsEmpty[0]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], rsID1, true) 0s passed
testAnnotateOverlapsEmpty[10]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, G] attr={} GT=[] filters=], rsID1;rsID3, true) 0s passed
testAnnotateOverlapsEmpty[11]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], rsID1, true) 0s passed
testAnnotateOverlapsEmpty[12]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=, [VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], rsID1, true) 0s passed
testAnnotateOverlapsEmpty[13]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=], rsID1;rsID2, true) 0s passed
testAnnotateOverlapsEmpty[14]([VC call @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=], rsID1;rsID2, true) 0s passed
testAnnotateOverlapsEmpty[15]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, G] attr={} GT=[] filters=], rsID1;rsID3, true) 0.001s passed
testAnnotateOverlapsEmpty[16]([VC call @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, G] attr={} GT=[] filters=], ., false) 0s passed
testAnnotateOverlapsEmpty[17]([VC call @ 20:10 Q. of type=MIXED alleles=[T*, C, TAC] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=INDEL alleles=[T*, TAC, TATAC] attr={} GT=[] filters=, [VC DBSNP @ 20:10 Q. of type=SNP alleles=[T*, C] attr={} GT=[] filters=], rsID1;rsID2, true) 0s passed
testAnnotateOverlapsEmpty[18]([VC call @ 20:10 Q. of type=MIXED alleles=[T*, C, TAC] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[T*, C] attr={} GT=[] filters=, [VC DBSNP @ 20:10 Q. of type=INDEL alleles=[T*, TAC, TATAC] attr={} GT=[] filters=], rsID2;rsID1, true) 0s passed
testAnnotateOverlapsEmpty[19]([VC call @ 20:10 Q. of type=INDEL alleles=[T*, TTCC] attr={} GT=[] filters=, [[VC DBSNP @ 20:10-28 Q. of type=INDEL alleles=[TTCCTCCTCCTCCTCCTCC*, T, TTCCTCCTCCTCCTCCTCCTCC] attr={} GT=[] filters=], rsID1, true) 0s passed
testAnnotateOverlapsEmpty[1]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], ., false) 0s passed
testAnnotateOverlapsEmpty[20]([VC call @ 20:10-28 Q. of type=INDEL alleles=[TTCCTCCTCCTCCTCCTCC*, T, TTCCTCCTCCTCCTCCTCCTCC] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=INDEL alleles=[T*, TTCC] attr={} GT=[] filters=], rsID1, true) 0s passed
testAnnotateOverlapsEmpty[21]([VC call @ 20:10-13 Q. of type=INDEL alleles=[TTTT*, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10-15 Q. of type=INDEL alleles=[TTTTTT*, T] attr={} GT=[] filters=, [VC DBSNP @ 20:10-15 Q. of type=INDEL alleles=[TTTTTT*, T, TTTTTTTTTTT] attr={} GT=[] filters=], ., false) 0.001s passed
testAnnotateOverlapsEmpty[22]([VC call @ 20:10 Q. of type=INDEL alleles=[T*, TTTT] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=INDEL alleles=[T*, TTTTTT] attr={} GT=[] filters=, [VC DBSNP @ 20:10-15 Q. of type=INDEL alleles=[TTTTTT*, T, TTTTTTTTTTT] attr={} GT=[] filters=], ., false) 0s passed
testAnnotateOverlapsEmpty[23]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=FAIL], ., false) 0s passed
testAnnotateOverlapsEmpty[2]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], foo;rsID1, true) 0s passed
testAnnotateOverlapsEmpty[3]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], foo, false) 0s passed
testAnnotateOverlapsEmpty[4]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], rsID1, true) 0s passed
testAnnotateOverlapsEmpty[5]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], rsID1, false) 0s passed
testAnnotateOverlapsEmpty[6]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], rsID1, true) 0s passed
testAnnotateOverlapsEmpty[7]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], rsID2, true) 0s passed
testAnnotateOverlapsEmpty[8]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, G] attr={} GT=[] filters=], ., false) 0s passed
testAnnotateOverlapsEmpty[9]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=], rsID1;rsID2, true) 0s passed
testAnnotateOverlapsFeatureContextWith2Sets[0]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], rsID1, true) 0.005s passed
testAnnotateOverlapsFeatureContextWith2Sets[10]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, G] attr={} GT=[] filters=], rsID1;rsID3, true) 0.003s passed
testAnnotateOverlapsFeatureContextWith2Sets[11]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], rsID1, true) 0.003s passed
testAnnotateOverlapsFeatureContextWith2Sets[12]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=, [VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], rsID1, true) 0.004s passed
testAnnotateOverlapsFeatureContextWith2Sets[13]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=], rsID1;rsID2, true) 0.003s passed
testAnnotateOverlapsFeatureContextWith2Sets[14]([VC call @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=], rsID1;rsID2, true) 0.004s passed
testAnnotateOverlapsFeatureContextWith2Sets[15]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, G] attr={} GT=[] filters=], rsID1;rsID3, true) 0.003s passed
testAnnotateOverlapsFeatureContextWith2Sets[16]([VC call @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, G] attr={} GT=[] filters=], ., false) 0.005s passed
testAnnotateOverlapsFeatureContextWith2Sets[17]([VC call @ 20:10 Q. of type=MIXED alleles=[T*, C, TAC] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=INDEL alleles=[T*, TAC, TATAC] attr={} GT=[] filters=, [VC DBSNP @ 20:10 Q. of type=SNP alleles=[T*, C] attr={} GT=[] filters=], rsID1;rsID2, true) 0.004s passed
testAnnotateOverlapsFeatureContextWith2Sets[18]([VC call @ 20:10 Q. of type=MIXED alleles=[T*, C, TAC] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[T*, C] attr={} GT=[] filters=, [VC DBSNP @ 20:10 Q. of type=INDEL alleles=[T*, TAC, TATAC] attr={} GT=[] filters=], rsID2;rsID1, true) 0.004s passed
testAnnotateOverlapsFeatureContextWith2Sets[19]([VC call @ 20:10 Q. of type=INDEL alleles=[T*, TTCC] attr={} GT=[] filters=, [[VC DBSNP @ 20:10-28 Q. of type=INDEL alleles=[TTCCTCCTCCTCCTCCTCC*, T, TTCCTCCTCCTCCTCCTCCTCC] attr={} GT=[] filters=], rsID1, true) 0.004s passed
testAnnotateOverlapsFeatureContextWith2Sets[1]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], ., false) 0.004s passed
testAnnotateOverlapsFeatureContextWith2Sets[20]([VC call @ 20:10-28 Q. of type=INDEL alleles=[TTCCTCCTCCTCCTCCTCC*, T, TTCCTCCTCCTCCTCCTCCTCC] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=INDEL alleles=[T*, TTCC] attr={} GT=[] filters=], rsID1, true) 0.003s passed
testAnnotateOverlapsFeatureContextWith2Sets[21]([VC call @ 20:10-13 Q. of type=INDEL alleles=[TTTT*, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10-15 Q. of type=INDEL alleles=[TTTTTT*, T] attr={} GT=[] filters=, [VC DBSNP @ 20:10-15 Q. of type=INDEL alleles=[TTTTTT*, T, TTTTTTTTTTT] attr={} GT=[] filters=], ., false) 0.003s passed
testAnnotateOverlapsFeatureContextWith2Sets[22]([VC call @ 20:10 Q. of type=INDEL alleles=[T*, TTTT] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=INDEL alleles=[T*, TTTTTT] attr={} GT=[] filters=, [VC DBSNP @ 20:10-15 Q. of type=INDEL alleles=[TTTTTT*, T, TTTTTTTTTTT] attr={} GT=[] filters=], ., false) 0.004s passed
testAnnotateOverlapsFeatureContextWith2Sets[23]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=FAIL], ., false) 0.003s passed
testAnnotateOverlapsFeatureContextWith2Sets[2]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], foo;rsID1, true) 0.004s passed
testAnnotateOverlapsFeatureContextWith2Sets[3]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], foo, false) 0.003s passed
testAnnotateOverlapsFeatureContextWith2Sets[4]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], rsID1, true) 0.004s passed
testAnnotateOverlapsFeatureContextWith2Sets[5]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], rsID1, false) 0.004s passed
testAnnotateOverlapsFeatureContextWith2Sets[6]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], rsID1, true) 0.004s passed
testAnnotateOverlapsFeatureContextWith2Sets[7]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], rsID2, true) 0.003s passed
testAnnotateOverlapsFeatureContextWith2Sets[8]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, G] attr={} GT=[] filters=], ., false) 0.004s passed
testAnnotateOverlapsFeatureContextWith2Sets[9]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=], rsID1;rsID2, true) 0.004s passed
testAnnotateOverlapsFeatureContext[0]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], rsID1, true) 0.010s passed
testAnnotateOverlapsFeatureContext[10]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, G] attr={} GT=[] filters=], rsID1;rsID3, true) 0.004s passed
testAnnotateOverlapsFeatureContext[11]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], rsID1, true) 0.005s passed
testAnnotateOverlapsFeatureContext[12]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=, [VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], rsID1, true) 0.004s passed
testAnnotateOverlapsFeatureContext[13]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=], rsID1;rsID2, true) 0.004s passed
testAnnotateOverlapsFeatureContext[14]([VC call @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=], rsID1;rsID2, true) 0.004s passed
testAnnotateOverlapsFeatureContext[15]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, G] attr={} GT=[] filters=], rsID1;rsID3, true) 0.005s passed
testAnnotateOverlapsFeatureContext[16]([VC call @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, G] attr={} GT=[] filters=], ., false) 0.003s passed
testAnnotateOverlapsFeatureContext[17]([VC call @ 20:10 Q. of type=MIXED alleles=[T*, C, TAC] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=INDEL alleles=[T*, TAC, TATAC] attr={} GT=[] filters=, [VC DBSNP @ 20:10 Q. of type=SNP alleles=[T*, C] attr={} GT=[] filters=], rsID1;rsID2, true) 0.004s passed
testAnnotateOverlapsFeatureContext[18]([VC call @ 20:10 Q. of type=MIXED alleles=[T*, C, TAC] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[T*, C] attr={} GT=[] filters=, [VC DBSNP @ 20:10 Q. of type=INDEL alleles=[T*, TAC, TATAC] attr={} GT=[] filters=], rsID2;rsID1, true) 0.004s passed
testAnnotateOverlapsFeatureContext[19]([VC call @ 20:10 Q. of type=INDEL alleles=[T*, TTCC] attr={} GT=[] filters=, [[VC DBSNP @ 20:10-28 Q. of type=INDEL alleles=[TTCCTCCTCCTCCTCCTCC*, T, TTCCTCCTCCTCCTCCTCCTCC] attr={} GT=[] filters=], rsID1, true) 0.005s passed
testAnnotateOverlapsFeatureContext[1]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], ., false) 0.005s passed
testAnnotateOverlapsFeatureContext[20]([VC call @ 20:10-28 Q. of type=INDEL alleles=[TTCCTCCTCCTCCTCCTCC*, T, TTCCTCCTCCTCCTCCTCCTCC] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=INDEL alleles=[T*, TTCC] attr={} GT=[] filters=], rsID1, true) 0.004s passed
testAnnotateOverlapsFeatureContext[21]([VC call @ 20:10-13 Q. of type=INDEL alleles=[TTTT*, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10-15 Q. of type=INDEL alleles=[TTTTTT*, T] attr={} GT=[] filters=, [VC DBSNP @ 20:10-15 Q. of type=INDEL alleles=[TTTTTT*, T, TTTTTTTTTTT] attr={} GT=[] filters=], ., false) 0.005s passed
testAnnotateOverlapsFeatureContext[22]([VC call @ 20:10 Q. of type=INDEL alleles=[T*, TTTT] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=INDEL alleles=[T*, TTTTTT] attr={} GT=[] filters=, [VC DBSNP @ 20:10-15 Q. of type=INDEL alleles=[TTTTTT*, T, TTTTTTTTTTT] attr={} GT=[] filters=], ., false) 0.005s passed
testAnnotateOverlapsFeatureContext[23]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=FAIL], ., false) 0.005s passed
testAnnotateOverlapsFeatureContext[2]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], foo;rsID1, true) 0.006s passed
testAnnotateOverlapsFeatureContext[3]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], foo, false) 0.005s passed
testAnnotateOverlapsFeatureContext[4]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], rsID1, true) 0.013s passed
testAnnotateOverlapsFeatureContext[5]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], rsID1, false) 0.008s passed
testAnnotateOverlapsFeatureContext[6]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], rsID1, true) 0.004s passed
testAnnotateOverlapsFeatureContext[7]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], rsID2, true) 0.006s passed
testAnnotateOverlapsFeatureContext[8]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, G] attr={} GT=[] filters=], ., false) 0.005s passed
testAnnotateOverlapsFeatureContext[9]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=], rsID1;rsID2, true) 0.004s passed
testAnnotateOverlaps[0]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], rsID1, true) 0s passed
testAnnotateOverlaps[10]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, G] attr={} GT=[] filters=], rsID1;rsID3, true) 0s passed
testAnnotateOverlaps[11]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], rsID1, true) 0s passed
testAnnotateOverlaps[12]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=, [VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], rsID1, true) 0s passed
testAnnotateOverlaps[13]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=], rsID1;rsID2, true) 0s passed
testAnnotateOverlaps[14]([VC call @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=], rsID1;rsID2, true) 0s passed
testAnnotateOverlaps[15]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, G] attr={} GT=[] filters=], rsID1;rsID3, true) 0.001s passed
testAnnotateOverlaps[16]([VC call @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, G] attr={} GT=[] filters=], ., false) 0s passed
testAnnotateOverlaps[17]([VC call @ 20:10 Q. of type=MIXED alleles=[T*, C, TAC] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=INDEL alleles=[T*, TAC, TATAC] attr={} GT=[] filters=, [VC DBSNP @ 20:10 Q. of type=SNP alleles=[T*, C] attr={} GT=[] filters=], rsID1;rsID2, true) 0s passed
testAnnotateOverlaps[18]([VC call @ 20:10 Q. of type=MIXED alleles=[T*, C, TAC] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[T*, C] attr={} GT=[] filters=, [VC DBSNP @ 20:10 Q. of type=INDEL alleles=[T*, TAC, TATAC] attr={} GT=[] filters=], rsID2;rsID1, true) 0.001s passed
testAnnotateOverlaps[19]([VC call @ 20:10 Q. of type=INDEL alleles=[T*, TTCC] attr={} GT=[] filters=, [[VC DBSNP @ 20:10-28 Q. of type=INDEL alleles=[TTCCTCCTCCTCCTCCTCC*, T, TTCCTCCTCCTCCTCCTCCTCC] attr={} GT=[] filters=], rsID1, true) 0.002s passed
testAnnotateOverlaps[1]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], ., false) 0s passed
testAnnotateOverlaps[20]([VC call @ 20:10-28 Q. of type=INDEL alleles=[TTCCTCCTCCTCCTCCTCC*, T, TTCCTCCTCCTCCTCCTCCTCC] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=INDEL alleles=[T*, TTCC] attr={} GT=[] filters=], rsID1, true) 0s passed
testAnnotateOverlaps[21]([VC call @ 20:10-13 Q. of type=INDEL alleles=[TTTT*, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10-15 Q. of type=INDEL alleles=[TTTTTT*, T] attr={} GT=[] filters=, [VC DBSNP @ 20:10-15 Q. of type=INDEL alleles=[TTTTTT*, T, TTTTTTTTTTT] attr={} GT=[] filters=], ., false) 0.001s passed
testAnnotateOverlaps[22]([VC call @ 20:10 Q. of type=INDEL alleles=[T*, TTTT] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=INDEL alleles=[T*, TTTTTT] attr={} GT=[] filters=, [VC DBSNP @ 20:10-15 Q. of type=INDEL alleles=[TTTTTT*, T, TTTTTTTTTTT] attr={} GT=[] filters=], ., false) 0s passed
testAnnotateOverlaps[23]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=FAIL], ., false) 0s passed
testAnnotateOverlaps[2]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], foo;rsID1, true) 0s passed
testAnnotateOverlaps[3]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], foo, false) 0s passed
testAnnotateOverlaps[4]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], rsID1, true) 0s passed
testAnnotateOverlaps[5]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], rsID1, false) 0s passed
testAnnotateOverlaps[6]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], rsID1, true) 0.001s passed
testAnnotateOverlaps[7]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], rsID2, true) 0s passed
testAnnotateOverlaps[8]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, G] attr={} GT=[] filters=], ., false) 0.001s passed
testAnnotateOverlaps[9]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=], rsID1;rsID2, true) 0s passed
testAnnotateRsID[0]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], rsID1, true) 0s passed
testAnnotateRsID[10]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, G] attr={} GT=[] filters=], rsID1;rsID3, true) 0s passed
testAnnotateRsID[11]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], rsID1, true) 0s passed
testAnnotateRsID[12]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=, [VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], rsID1, true) 0s passed
testAnnotateRsID[13]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=], rsID1;rsID2, true) 0.001s passed
testAnnotateRsID[14]([VC call @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=], rsID1;rsID2, true) 0s passed
testAnnotateRsID[15]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, G] attr={} GT=[] filters=], rsID1;rsID3, true) 0s passed
testAnnotateRsID[16]([VC call @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, G] attr={} GT=[] filters=], ., false) 0.001s passed
testAnnotateRsID[17]([VC call @ 20:10 Q. of type=MIXED alleles=[T*, C, TAC] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=INDEL alleles=[T*, TAC, TATAC] attr={} GT=[] filters=, [VC DBSNP @ 20:10 Q. of type=SNP alleles=[T*, C] attr={} GT=[] filters=], rsID1;rsID2, true) 0s passed
testAnnotateRsID[18]([VC call @ 20:10 Q. of type=MIXED alleles=[T*, C, TAC] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[T*, C] attr={} GT=[] filters=, [VC DBSNP @ 20:10 Q. of type=INDEL alleles=[T*, TAC, TATAC] attr={} GT=[] filters=], rsID2;rsID1, true) 0s passed
testAnnotateRsID[19]([VC call @ 20:10 Q. of type=INDEL alleles=[T*, TTCC] attr={} GT=[] filters=, [[VC DBSNP @ 20:10-28 Q. of type=INDEL alleles=[TTCCTCCTCCTCCTCCTCC*, T, TTCCTCCTCCTCCTCCTCCTCC] attr={} GT=[] filters=], rsID1, true) 0.001s passed
testAnnotateRsID[1]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], ., false) 0.001s passed
testAnnotateRsID[20]([VC call @ 20:10-28 Q. of type=INDEL alleles=[TTCCTCCTCCTCCTCCTCC*, T, TTCCTCCTCCTCCTCCTCCTCC] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=INDEL alleles=[T*, TTCC] attr={} GT=[] filters=], rsID1, true) 0s passed
testAnnotateRsID[21]([VC call @ 20:10-13 Q. of type=INDEL alleles=[TTTT*, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10-15 Q. of type=INDEL alleles=[TTTTTT*, T] attr={} GT=[] filters=, [VC DBSNP @ 20:10-15 Q. of type=INDEL alleles=[TTTTTT*, T, TTTTTTTTTTT] attr={} GT=[] filters=], ., false) 0s passed
testAnnotateRsID[22]([VC call @ 20:10 Q. of type=INDEL alleles=[T*, TTTT] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=INDEL alleles=[T*, TTTTTT] attr={} GT=[] filters=, [VC DBSNP @ 20:10-15 Q. of type=INDEL alleles=[TTTTTT*, T, TTTTTTTTTTT] attr={} GT=[] filters=], ., false) 0s passed
testAnnotateRsID[23]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=FAIL], ., false) 0s passed
testAnnotateRsID[2]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], foo;rsID1, true) 0s passed
testAnnotateRsID[3]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], foo, false) 0s passed
testAnnotateRsID[4]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], rsID1, true) 0s passed
testAnnotateRsID[5]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], rsID1, false) 0s passed
testAnnotateRsID[6]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], rsID1, true) 0.001s passed
testAnnotateRsID[7]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], rsID2, true) 0s passed
testAnnotateRsID[8]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, G] attr={} GT=[] filters=], ., false) 0s passed
testAnnotateRsID[9]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=], rsID1;rsID2, true) 0s passed
testCreateWithSpecialNames 0s passed
testRsIDFeatureContextWith2Sets[0]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], rsID1, true) 0.004s passed
testRsIDFeatureContextWith2Sets[10]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, G] attr={} GT=[] filters=], rsID1;rsID3, true) 0.003s passed
testRsIDFeatureContextWith2Sets[11]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], rsID1, true) 0.003s passed
testRsIDFeatureContextWith2Sets[12]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=, [VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], rsID1, true) 0.003s passed
testRsIDFeatureContextWith2Sets[13]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=], rsID1;rsID2, true) 0.003s passed
testRsIDFeatureContextWith2Sets[14]([VC call @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=], rsID1;rsID2, true) 0.003s passed
testRsIDFeatureContextWith2Sets[15]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, G] attr={} GT=[] filters=], rsID1;rsID3, true) 0.003s passed
testRsIDFeatureContextWith2Sets[16]([VC call @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, G] attr={} GT=[] filters=], ., false) 0.003s passed
testRsIDFeatureContextWith2Sets[17]([VC call @ 20:10 Q. of type=MIXED alleles=[T*, C, TAC] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=INDEL alleles=[T*, TAC, TATAC] attr={} GT=[] filters=, [VC DBSNP @ 20:10 Q. of type=SNP alleles=[T*, C] attr={} GT=[] filters=], rsID1;rsID2, true) 0.003s passed
testRsIDFeatureContextWith2Sets[18]([VC call @ 20:10 Q. of type=MIXED alleles=[T*, C, TAC] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[T*, C] attr={} GT=[] filters=, [VC DBSNP @ 20:10 Q. of type=INDEL alleles=[T*, TAC, TATAC] attr={} GT=[] filters=], rsID2;rsID1, true) 0.003s passed
testRsIDFeatureContextWith2Sets[19]([VC call @ 20:10 Q. of type=INDEL alleles=[T*, TTCC] attr={} GT=[] filters=, [[VC DBSNP @ 20:10-28 Q. of type=INDEL alleles=[TTCCTCCTCCTCCTCCTCC*, T, TTCCTCCTCCTCCTCCTCCTCC] attr={} GT=[] filters=], rsID1, true) 0.003s passed
testRsIDFeatureContextWith2Sets[1]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], ., false) 0.003s passed
testRsIDFeatureContextWith2Sets[20]([VC call @ 20:10-28 Q. of type=INDEL alleles=[TTCCTCCTCCTCCTCCTCC*, T, TTCCTCCTCCTCCTCCTCCTCC] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=INDEL alleles=[T*, TTCC] attr={} GT=[] filters=], rsID1, true) 0.003s passed
testRsIDFeatureContextWith2Sets[21]([VC call @ 20:10-13 Q. of type=INDEL alleles=[TTTT*, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10-15 Q. of type=INDEL alleles=[TTTTTT*, T] attr={} GT=[] filters=, [VC DBSNP @ 20:10-15 Q. of type=INDEL alleles=[TTTTTT*, T, TTTTTTTTTTT] attr={} GT=[] filters=], ., false) 0.004s passed
testRsIDFeatureContextWith2Sets[22]([VC call @ 20:10 Q. of type=INDEL alleles=[T*, TTTT] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=INDEL alleles=[T*, TTTTTT] attr={} GT=[] filters=, [VC DBSNP @ 20:10-15 Q. of type=INDEL alleles=[TTTTTT*, T, TTTTTTTTTTT] attr={} GT=[] filters=], ., false) 0.004s passed
testRsIDFeatureContextWith2Sets[23]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=FAIL], ., false) 0.003s passed
testRsIDFeatureContextWith2Sets[2]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], foo;rsID1, true) 0.004s passed
testRsIDFeatureContextWith2Sets[3]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], foo, false) 0.003s passed
testRsIDFeatureContextWith2Sets[4]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], rsID1, true) 0.003s passed
testRsIDFeatureContextWith2Sets[5]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], rsID1, false) 0.004s passed
testRsIDFeatureContextWith2Sets[6]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], rsID1, true) 0.003s passed
testRsIDFeatureContextWith2Sets[7]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], rsID2, true) 0.003s passed
testRsIDFeatureContextWith2Sets[8]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, G] attr={} GT=[] filters=], ., false) 0.003s passed
testRsIDFeatureContextWith2Sets[9]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=], rsID1;rsID2, true) 0.004s passed
testRsIDFeatureContextWithNoDBSnP[0]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], rsID1, true) 0.004s passed
testRsIDFeatureContextWithNoDBSnP[10]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, G] attr={} GT=[] filters=], rsID1;rsID3, true) 0.003s passed
testRsIDFeatureContextWithNoDBSnP[11]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], rsID1, true) 0.004s passed
testRsIDFeatureContextWithNoDBSnP[12]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=, [VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], rsID1, true) 0.004s passed
testRsIDFeatureContextWithNoDBSnP[13]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=], rsID1;rsID2, true) 0.003s passed
testRsIDFeatureContextWithNoDBSnP[14]([VC call @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=], rsID1;rsID2, true) 0.003s passed
testRsIDFeatureContextWithNoDBSnP[15]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, G] attr={} GT=[] filters=], rsID1;rsID3, true) 0.003s passed
testRsIDFeatureContextWithNoDBSnP[16]([VC call @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, G] attr={} GT=[] filters=], ., false) 0.007s passed
testRsIDFeatureContextWithNoDBSnP[17]([VC call @ 20:10 Q. of type=MIXED alleles=[T*, C, TAC] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=INDEL alleles=[T*, TAC, TATAC] attr={} GT=[] filters=, [VC DBSNP @ 20:10 Q. of type=SNP alleles=[T*, C] attr={} GT=[] filters=], rsID1;rsID2, true) 0.004s passed
testRsIDFeatureContextWithNoDBSnP[18]([VC call @ 20:10 Q. of type=MIXED alleles=[T*, C, TAC] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[T*, C] attr={} GT=[] filters=, [VC DBSNP @ 20:10 Q. of type=INDEL alleles=[T*, TAC, TATAC] attr={} GT=[] filters=], rsID2;rsID1, true) 0.004s passed
testRsIDFeatureContextWithNoDBSnP[19]([VC call @ 20:10 Q. of type=INDEL alleles=[T*, TTCC] attr={} GT=[] filters=, [[VC DBSNP @ 20:10-28 Q. of type=INDEL alleles=[TTCCTCCTCCTCCTCCTCC*, T, TTCCTCCTCCTCCTCCTCCTCC] attr={} GT=[] filters=], rsID1, true) 0.004s passed
testRsIDFeatureContextWithNoDBSnP[1]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], ., false) 0.003s passed
testRsIDFeatureContextWithNoDBSnP[20]([VC call @ 20:10-28 Q. of type=INDEL alleles=[TTCCTCCTCCTCCTCCTCC*, T, TTCCTCCTCCTCCTCCTCCTCC] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=INDEL alleles=[T*, TTCC] attr={} GT=[] filters=], rsID1, true) 0.005s passed
testRsIDFeatureContextWithNoDBSnP[21]([VC call @ 20:10-13 Q. of type=INDEL alleles=[TTTT*, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10-15 Q. of type=INDEL alleles=[TTTTTT*, T] attr={} GT=[] filters=, [VC DBSNP @ 20:10-15 Q. of type=INDEL alleles=[TTTTTT*, T, TTTTTTTTTTT] attr={} GT=[] filters=], ., false) 0.004s passed
testRsIDFeatureContextWithNoDBSnP[22]([VC call @ 20:10 Q. of type=INDEL alleles=[T*, TTTT] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=INDEL alleles=[T*, TTTTTT] attr={} GT=[] filters=, [VC DBSNP @ 20:10-15 Q. of type=INDEL alleles=[TTTTTT*, T, TTTTTTTTTTT] attr={} GT=[] filters=], ., false) 0.004s passed
testRsIDFeatureContextWithNoDBSnP[23]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=FAIL], ., false) 0.004s passed
testRsIDFeatureContextWithNoDBSnP[2]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], foo;rsID1, true) 0.004s passed
testRsIDFeatureContextWithNoDBSnP[3]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], foo, false) 0.003s passed
testRsIDFeatureContextWithNoDBSnP[4]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], rsID1, true) 0.003s passed
testRsIDFeatureContextWithNoDBSnP[5]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], rsID1, false) 0.002s passed
testRsIDFeatureContextWithNoDBSnP[6]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], rsID1, true) 0.004s passed
testRsIDFeatureContextWithNoDBSnP[7]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], rsID2, true) 0.002s passed
testRsIDFeatureContextWithNoDBSnP[8]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, G] attr={} GT=[] filters=], ., false) 0.004s passed
testRsIDFeatureContextWithNoDBSnP[9]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=], rsID1;rsID2, true) 0.002s passed
testRsIDFeatureContext[0]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], rsID1, true) 0.006s passed
testRsIDFeatureContext[10]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, G] attr={} GT=[] filters=], rsID1;rsID3, true) 0.004s passed
testRsIDFeatureContext[11]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], rsID1, true) 0.003s passed
testRsIDFeatureContext[12]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=, [VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], rsID1, true) 0.003s passed
testRsIDFeatureContext[13]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=], rsID1;rsID2, true) 0.004s passed
testRsIDFeatureContext[14]([VC call @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=], rsID1;rsID2, true) 0.003s passed
testRsIDFeatureContext[15]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, G] attr={} GT=[] filters=], rsID1;rsID3, true) 0.003s passed
testRsIDFeatureContext[16]([VC call @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, G] attr={} GT=[] filters=], ., false) 0.003s passed
testRsIDFeatureContext[17]([VC call @ 20:10 Q. of type=MIXED alleles=[T*, C, TAC] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=INDEL alleles=[T*, TAC, TATAC] attr={} GT=[] filters=, [VC DBSNP @ 20:10 Q. of type=SNP alleles=[T*, C] attr={} GT=[] filters=], rsID1;rsID2, true) 0.003s passed
testRsIDFeatureContext[18]([VC call @ 20:10 Q. of type=MIXED alleles=[T*, C, TAC] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[T*, C] attr={} GT=[] filters=, [VC DBSNP @ 20:10 Q. of type=INDEL alleles=[T*, TAC, TATAC] attr={} GT=[] filters=], rsID2;rsID1, true) 0.004s passed
testRsIDFeatureContext[19]([VC call @ 20:10 Q. of type=INDEL alleles=[T*, TTCC] attr={} GT=[] filters=, [[VC DBSNP @ 20:10-28 Q. of type=INDEL alleles=[TTCCTCCTCCTCCTCCTCC*, T, TTCCTCCTCCTCCTCCTCCTCC] attr={} GT=[] filters=], rsID1, true) 0.003s passed
testRsIDFeatureContext[1]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], ., false) 0.004s passed
testRsIDFeatureContext[20]([VC call @ 20:10-28 Q. of type=INDEL alleles=[TTCCTCCTCCTCCTCCTCC*, T, TTCCTCCTCCTCCTCCTCCTCC] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=INDEL alleles=[T*, TTCC] attr={} GT=[] filters=], rsID1, true) 0.004s passed
testRsIDFeatureContext[21]([VC call @ 20:10-13 Q. of type=INDEL alleles=[TTTT*, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10-15 Q. of type=INDEL alleles=[TTTTTT*, T] attr={} GT=[] filters=, [VC DBSNP @ 20:10-15 Q. of type=INDEL alleles=[TTTTTT*, T, TTTTTTTTTTT] attr={} GT=[] filters=], ., false) 0.003s passed
testRsIDFeatureContext[22]([VC call @ 20:10 Q. of type=INDEL alleles=[T*, TTTT] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=INDEL alleles=[T*, TTTTTT] attr={} GT=[] filters=, [VC DBSNP @ 20:10-15 Q. of type=INDEL alleles=[TTTTTT*, T, TTTTTTTTTTT] attr={} GT=[] filters=], ., false) 0.004s passed
testRsIDFeatureContext[23]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=FAIL], ., false) 0.004s passed
testRsIDFeatureContext[2]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], foo;rsID1, true) 0.004s passed
testRsIDFeatureContext[3]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], foo, false) 0.003s passed
testRsIDFeatureContext[4]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], rsID1, true) 0.004s passed
testRsIDFeatureContext[5]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], rsID1, false) 0.006s passed
testRsIDFeatureContext[6]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C] attr={} GT=[] filters=], rsID1, true) 0.005s passed
testRsIDFeatureContext[7]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=], rsID2, true) 0.005s passed
testRsIDFeatureContext[8]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, G] attr={} GT=[] filters=], ., false) 0.004s passed
testRsIDFeatureContext[9]([VC call @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=, [[VC DBSNP @ 20:10 Q. of type=SNP alleles=[A*, C, T] attr={} GT=[] filters=], rsID1;rsID2, true) 0.004s passed

Standard error

18:55:07.476 DEBUG GenomeLocParser - Prepared reference sequence contig dictionary
18:55:07.476 DEBUG GenomeLocParser -  1 (16000 bp)
18:55:07.476 DEBUG GenomeLocParser -  2 (16000 bp)
18:55:07.476 DEBUG GenomeLocParser -  3 (16000 bp)
18:55:07.476 DEBUG GenomeLocParser -  4 (16000 bp)
18:55:07.496 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.499 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.502 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.505 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.508 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.510 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.513 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.515 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.518 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.520 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.532 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.536 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.539 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.541 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.544 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.546 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.550 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.552 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.555 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.557 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.559 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.561 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.564 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.566 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.568 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.570 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.572 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.574 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.576 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.578 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.580 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.582 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.585 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.586 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.589 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.590 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.592 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.594 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.596 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.598 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.601 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.602 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.605 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.607 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.610 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.612 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.616 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.618 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.621 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.623 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.626 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.628 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.630 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.632 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.634 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.635 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.638 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.639 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.641 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.643 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.645 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.647 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.649 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.650 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.652 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.654 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.656 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.658 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.660 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.661 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.664 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.665 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.667 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.669 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.671 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.672 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.674 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.676 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.678 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.679 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.682 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.683 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.687 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.688 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.690 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.692 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.694 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.696 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.698 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.699 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.702 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.703 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.705 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.707 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.709 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.710 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.711 DEBUG ExecutorMetricsPoller - removing (46, 0) from stageTCMP
18:55:07.721 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.724 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.726 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.728 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.731 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.732 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.734 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.736 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.738 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.740 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.743 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.745 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.748 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.750 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.753 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.755 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.758 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.760 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.762 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.764 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.766 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.768 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.770 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.771 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.774 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.775 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.777 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.779 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.782 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.784 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.786 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.787 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.789 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.790 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.793 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.794 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.796 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.798 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.800 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.801 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.803 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.804 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.807 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.808 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.811 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.812 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.814 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.816 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.818 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.820 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.822 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.823 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.825 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.827 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.829 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.830 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.832 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.834 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.835 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.837 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.839 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.840 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.842 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.843 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.845 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.846 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.849 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.850 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.852 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.854 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.855 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.857 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.858 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.860 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.862 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.863 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.865 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.866 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.868 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.869 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.871 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.872 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.874 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.875 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.877 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.878 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.881 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.882 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.884 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.885 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.887 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.888 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.891 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.893 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.895 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.896 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.899 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.900 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.903 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.904 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.906 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.908 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.910 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.911 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.913 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.914 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.916 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.917 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.918 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.920 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.922 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.923 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.925 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.926 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.928 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.929 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.931 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.932 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.935 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.937 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.939 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.941 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.943 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.944 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.946 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.947 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.949 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.950 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.952 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.953 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.959 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.961 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.964 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.966 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.969 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.970 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.973 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.975 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.978 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.979 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.982 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.984 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.986 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf
18:55:07.988 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/Homo_sapiens_assembly19.dbsnp135.chr1_1M.exome_intervals.vcf