Class org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpointsIntegrationTest
|
100%
successful |
Tests
| Test | Duration | Result |
|---|---|---|
| testDisagreeingSamHeadersAndNoReference | 0.097s | passed |
| testDisagreeingSamHeadersAndReference | 0.101s | passed |
| testErrorWithoutSamHeadersAndNoReference | 0.096s | passed |
| testFailureIfNotAllColsOfInterestExist | 0.101s | 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) | 0.107s | 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) | 0.101s | 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;@74126a41) | 0.115s | 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;@76d55a3e) | 0.096s | 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;@38c9b920) | 0.101s | passed |
| testRunAndOneWithoutSamHeaderAndNoReference | 0.103s | passed |
| testRunWithExactSameFiles | 0.099s | passed |
| testRunWithExactSegments | 0.105s | passed |
| testRunWithoutExactOverlaps | 0.097s | passed |
| testRunWithoutExactOverlapsAndLabels | 0.099s | passed |
| testWithoutSamHeaderAndWithReference | 0.105s | passed |
Standard error
[June 2, 2025 at 2:26:50 PM GMT] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=780140544 [June 2, 2025 at 2:26:50 PM GMT] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=780140544 [June 2, 2025 at 2:26:51 PM GMT] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=780140544 [June 2, 2025 at 2:26:51 PM GMT] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=780140544 [June 2, 2025 at 2:26:51 PM GMT] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=780140544 [June 2, 2025 at 2:26:51 PM GMT] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=780140544 [June 2, 2025 at 2:26:51 PM GMT] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=780140544 [June 2, 2025 at 2:26:51 PM GMT] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=780140544 [June 2, 2025 at 2:26:51 PM GMT] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=780140544 [June 2, 2025 at 2:26:51 PM GMT] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=780140544 [June 2, 2025 at 2:26:51 PM GMT] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=780140544 [June 2, 2025 at 2:26:51 PM GMT] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=780140544 [June 2, 2025 at 2:26:52 PM GMT] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=780140544 [June 2, 2025 at 2:26:52 PM GMT] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=780140544 [June 2, 2025 at 2:26:52 PM GMT] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=780140544