Class org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpointsIntegrationTest

all > org.broadinstitute.hellbender.tools.copynumber.utils > CombineSegmentBreakpointsIntegrationTest
15

tests
0

failures
0

ignored
1.802s

duration
100%

successful

Tests

Test Duration Result
testDisagreeingSamHeadersAndNoReference 0.135s passed
testDisagreeingSamHeadersAndReference 0.121s passed
testErrorWithoutSamHeadersAndNoReference 0.124s passed
testFailureIfNotAllColsOfInterestExist 0.129s passed
testOldFormats[0](/gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/tools//copynumber/utils/combine-segment-breakpoints.seg, /gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/tools//copynumber/utils/combine-segment-breakpoints-comparison-recapseg.seg, Segment_Mean, Segment_Call, 4) 0.133s passed
testOldFormats[1](/gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/tools//copynumber/utils/combine-segment-breakpoints.seg, /gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/tools//copynumber/utils/combine-segment-breakpoints-comparison-oncotator-gene-list.seg, segment_mean, segment_call, 4) 0.126s passed
testRealFormats[0](/gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/tools//copynumber/utils/combine-segment-breakpoints.seg, /gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/tools//copynumber/utils/combine-segment-breakpoints-comparison-ucsc-track.seg, /gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/tools//copynumber/utils/combine-segment-breakpoints-comparison-ucsc-track-expected.seg, [Ljava.lang.String;@235e60aa) 0.131s passed
testRealFormats[1](/gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/tools//copynumber/utils/combine-segment-breakpoints.seg, /gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/tools//copynumber/utils/combine-segment-breakpoints-comparison-jabba.seg, /gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/tools//copynumber/utils/combine-segment-breakpoints-comparison-jabba-expected.seg, [Ljava.lang.String;@f67351d) 0.128s passed
testRealFormats[2](/gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/tools//copynumber/utils/combine-segment-breakpoints.seg, /gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/tools//copynumber/utils/combine-segment-breakpoints-comparison-pcawg-consensus.seg, /gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/tools//copynumber/utils/combine-segment-breakpoints-comparison-pcawg-consensus-expected.seg, [Ljava.lang.String;@15f209fc) 0.130s passed
testRunAndOneWithoutSamHeaderAndNoReference 0.131s passed
testRunWithExactSameFiles 0.105s passed
testRunWithExactSegments 0.096s passed
testRunWithoutExactOverlaps 0.100s passed
testRunWithoutExactOverlapsAndLabels 0.103s passed
testWithoutSamHeaderAndWithReference 0.110s passed

Standard error

[May 27, 2025 at 6:22:15 PM GMT] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=891289600
[May 27, 2025 at 6:22:15 PM GMT] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=891289600
[May 27, 2025 at 6:22:15 PM GMT] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=891289600
[May 27, 2025 at 6:22:15 PM GMT] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=891289600
[May 27, 2025 at 6:22:15 PM GMT] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=891289600
[May 27, 2025 at 6:22:16 PM GMT] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=891289600
[May 27, 2025 at 6:22:16 PM GMT] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=891289600
[May 27, 2025 at 6:22:16 PM GMT] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=891289600
[May 27, 2025 at 6:22:16 PM GMT] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=891289600
[May 27, 2025 at 6:22:16 PM GMT] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=891289600
[May 27, 2025 at 6:22:16 PM GMT] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=891289600
[May 27, 2025 at 6:22:16 PM GMT] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=891289600
[May 27, 2025 at 6:22:16 PM GMT] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=891289600
[May 27, 2025 at 6:22:16 PM GMT] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=891289600
[May 27, 2025 at 6:22:17 PM GMT] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=891289600