Class org.broadinstitute.hellbender.engine.GatkToolIntegrationTest

all > org.broadinstitute.hellbender.engine > GatkToolIntegrationTest
22

tests
0

failures
0

ignored
1.543s

duration
100%

successful

Tests

Test Duration Result
testBrokenReferenceDictionaryErrorMessage 0.096s passed
testSharding 0.088s passed
testSitesOnlyMode 0.077s 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]) 0.086s passed
testVcfOutputFilterMode[10]([1:99-110], [], STARTS_IN, [1:100-105]) 0.062s passed
testVcfOutputFilterMode[11]([1:100-110], [], STARTS_IN, [1:100-105]) 0.067s passed
testVcfOutputFilterMode[12]([1:101-110], [], STARTS_IN, []) 0.067s passed
testVcfOutputFilterMode[13]([3:19999-19999], [], STARTS_IN, []) 0.069s passed
testVcfOutputFilterMode[14]([3:20000-20000], [], STARTS_IN, [3:20000-20000]) 0.065s passed
testVcfOutputFilterMode[15]([3:20001-20001], [], STARTS_IN, []) 0.063s passed
testVcfOutputFilterMode[16]([3:19999-19999], [], ENDS_IN, []) 0.063s passed
testVcfOutputFilterMode[17]([3:20000-20000], [], ENDS_IN, [3:20000-20000]) 0.066s passed
testVcfOutputFilterMode[18]([3:20001-20001], [], ENDS_IN, []) 0.064s 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]) 0.079s passed
testVcfOutputFilterMode[2]([1:101-10001, 2:201-20001], [], STARTS_IN, [1:1000-1005, 1:10000-10005, 2:2000-2005, 2:20000-20005]) 0.069s passed
testVcfOutputFilterMode[3]([1:101-10001, 2:201-20001], [], ENDS_IN, [1:100-105, 1:1000-1005, 2:200-205, 2:2000-2005]) 0.065s passed
testVcfOutputFilterMode[4]([1:101-10001, 2:201-20001], [], CONTAINED, [1:1000-1005, 2:2000-2005]) 0.067s passed
testVcfOutputFilterMode[5]([1:99-102, 1:103-110], [], CONTAINED, [1:100-105]) 0.070s passed
testVcfOutputFilterMode[6]([1:99-102, 1:103-110], [--interval-merging-rule, ALL], CONTAINED, [1:100-105]) 0.067s passed
testVcfOutputFilterMode[7]([1:99-102, 1:103-110], [--interval-merging-rule, OVERLAPPING_ONLY], CONTAINED, []) 0.064s passed
testVcfOutputFilterMode[8]([1:99-102, 1:104-110], [--interval-merging-rule, OVERLAPPING_ONLY], CONTAINED, []) 0.065s passed
testVcfOutputFilterMode[9]([1:99-102, 1:104-110], [--interval-merging-rule, OVERLAPPING_ONLY, --interval-padding, 10], CONTAINED, [1:100-105]) 0.064s passed

Standard error

[March 28, 2025 at 10:32:56 PM UTC] org.broadinstitute.hellbender.tools.walkers.mutect.Mutect2 done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1526726656
[March 28, 2025 at 10:32:56 PM UTC] org.broadinstitute.hellbender.tools.walkers.variantutils.SelectVariants done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1526726656
[March 28, 2025 at 10:32:56 PM UTC] org.broadinstitute.hellbender.tools.walkers.variantutils.SelectVariants done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1526726656
[March 28, 2025 at 10:32:56 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1526726656
[March 28, 2025 at 10:32:56 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1526726656
[March 28, 2025 at 10:32:56 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1526726656
[March 28, 2025 at 10:32:56 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1526726656
[March 28, 2025 at 10:32:56 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1526726656
[March 28, 2025 at 10:32:56 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1526726656
[March 28, 2025 at 10:32:56 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1526726656
[March 28, 2025 at 10:32:56 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1526726656
[March 28, 2025 at 10:32:57 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1526726656
[March 28, 2025 at 10:32:57 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1526726656
[March 28, 2025 at 10:32:57 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1526726656
[March 28, 2025 at 10:32:57 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1526726656
[March 28, 2025 at 10:32:57 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1526726656
[March 28, 2025 at 10:32:57 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1526726656
[March 28, 2025 at 10:32:57 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1526726656
[March 28, 2025 at 10:32:57 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1526726656
[March 28, 2025 at 10:32:57 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1526726656
[March 28, 2025 at 10:32:57 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1526726656
[March 28, 2025 at 10:32:57 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1526726656