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

all > org.broadinstitute.hellbender.tools.walkers.annotator > DirichletAlleleDepthAndFractionIntegrationTest
26

tests
0

failures
0

ignored
13.832s

duration
100%

successful

Tests

Test Duration Result
assertThatExpectedOutputUpdateToggleIsDisabled 0.001s passed
testBrokenReferenceDictionaryErrorMessage 0.153s passed
testNoInformativeMatrix 0.022s passed
testSharding 0.178s passed
testSitesOnlyMode 0.162s passed
testVCFModeIsConsistentWithPastResults[0](/gatkCloneMountPoint/src/test/resources/large/CEUTrio.HiSeq.WGS.b37.NA12878.20.21.bam, /gatkCloneMountPoint/src/test/resources/large/human_g1k_v37.20.21.fasta) 5.870s passed
testVCFModeIsConsistentWithPastResults[1](/gatkCloneMountPoint/src/test/resources/large/CEUTrio.HiSeq.WGS.b37.NA12878.20.21.v3.0.samtools.cram, /gatkCloneMountPoint/src/test/resources/large/human_g1k_v37.20.21.fasta) 5.540s passed
testVcfOutputFilterMode[0]([1:101-10001, 2:201-20001], [], ANYWHERE, [1:10-15, 1:100-105, 1:1000-1005, 1:10000-10005, 2:20-25, 2:200-205, 2:2000-2005, 2:20000-20005, 3:20000-20000]) 0.139s passed
testVcfOutputFilterMode[10]([1:99-110], [], STARTS_IN, [1:100-105]) 0.114s passed
testVcfOutputFilterMode[11]([1:100-110], [], STARTS_IN, [1:100-105]) 0.116s passed
testVcfOutputFilterMode[12]([1:101-110], [], STARTS_IN, []) 0.100s passed
testVcfOutputFilterMode[13]([3:19999-19999], [], STARTS_IN, []) 0.087s passed
testVcfOutputFilterMode[14]([3:20000-20000], [], STARTS_IN, [3:20000-20000]) 0.088s passed
testVcfOutputFilterMode[15]([3:20001-20001], [], STARTS_IN, []) 0.106s passed
testVcfOutputFilterMode[16]([3:19999-19999], [], ENDS_IN, []) 0.094s passed
testVcfOutputFilterMode[17]([3:20000-20000], [], ENDS_IN, [3:20000-20000]) 0.097s passed
testVcfOutputFilterMode[18]([3:20001-20001], [], ENDS_IN, []) 0.091s passed
testVcfOutputFilterMode[1]([1:101-10001, 2:201-20001], [], OVERLAPS, [1:100-105, 1:1000-1005, 1:10000-10005, 2:200-205, 2:2000-2005, 2:20000-20005]) 0.098s passed
testVcfOutputFilterMode[2]([1:101-10001, 2:201-20001], [], STARTS_IN, [1:1000-1005, 1:10000-10005, 2:2000-2005, 2:20000-20005]) 0.110s passed
testVcfOutputFilterMode[3]([1:101-10001, 2:201-20001], [], ENDS_IN, [1:100-105, 1:1000-1005, 2:200-205, 2:2000-2005]) 0.090s passed
testVcfOutputFilterMode[4]([1:101-10001, 2:201-20001], [], CONTAINED, [1:1000-1005, 2:2000-2005]) 0.104s passed
testVcfOutputFilterMode[5]([1:99-102, 1:103-110], [], CONTAINED, [1:100-105]) 0.090s passed
testVcfOutputFilterMode[6]([1:99-102, 1:103-110], [--interval-merging-rule, ALL], CONTAINED, [1:100-105]) 0.099s passed
testVcfOutputFilterMode[7]([1:99-102, 1:103-110], [--interval-merging-rule, OVERLAPPING_ONLY], CONTAINED, []) 0.088s passed
testVcfOutputFilterMode[8]([1:99-102, 1:104-110], [--interval-merging-rule, OVERLAPPING_ONLY], CONTAINED, []) 0.097s passed
testVcfOutputFilterMode[9]([1:99-102, 1:104-110], [--interval-merging-rule, OVERLAPPING_ONLY, --interval-padding, 10], CONTAINED, [1:100-105]) 0.098s passed

Standard error

[June 12, 2025 at 8:58:28 PM GMT] org.broadinstitute.hellbender.tools.walkers.mutect.Mutect2 done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:58:28 PM GMT] org.broadinstitute.hellbender.tools.walkers.variantutils.SelectVariants done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:58:29 PM GMT] org.broadinstitute.hellbender.tools.walkers.variantutils.SelectVariants done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:58:29 PM GMT] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:58:29 PM GMT] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:58:29 PM GMT] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
[June 12, 2025 at 8:58:29 PM GMT] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
[June 12, 2025 at 8:58:29 PM GMT] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
[June 12, 2025 at 8:58:29 PM GMT] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
[June 12, 2025 at 8:58:29 PM GMT] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
[June 12, 2025 at 8:58:29 PM GMT] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
[June 12, 2025 at 8:58:30 PM GMT] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
[June 12, 2025 at 8:58:30 PM GMT] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
[June 12, 2025 at 8:58:30 PM GMT] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=750780416
[June 12, 2025 at 8:58:30 PM GMT] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=750780416
[June 12, 2025 at 8:58:30 PM GMT] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=750780416
[June 12, 2025 at 8:58:30 PM GMT] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=750780416
[June 12, 2025 at 8:58:30 PM GMT] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=750780416
[June 12, 2025 at 8:58:30 PM GMT] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=750780416
[June 12, 2025 at 8:58:30 PM GMT] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=750780416
[June 12, 2025 at 8:58:30 PM GMT] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=750780416
[June 12, 2025 at 8:58:31 PM GMT] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=750780416
[50.001, 50.001]
[June 12, 2025 at 8:58:36 PM GMT] org.broadinstitute.hellbender.tools.walkers.haplotypecaller.HaplotypeCaller done. Elapsed time: 0.10 minutes.
Runtime.totalMemory()=750780416
[June 12, 2025 at 8:58:42 PM GMT] org.broadinstitute.hellbender.tools.walkers.haplotypecaller.HaplotypeCaller done. Elapsed time: 0.09 minutes.
Runtime.totalMemory()=750780416