Class org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpointsIntegrationTest
|
100%
successful |
Tests
| Test | Duration | Result |
|---|---|---|
| testDisagreeingSamHeadersAndNoReference | 0.063s | passed |
| testDisagreeingSamHeadersAndReference | 0.075s | passed |
| testErrorWithoutSamHeadersAndNoReference | 0.068s | passed |
| testFailureIfNotAllColsOfInterestExist | 0.063s | passed |
| testOldFormats[0](/home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools//copynumber/utils/combine-segment-breakpoints.seg, /home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools//copynumber/utils/combine-segment-breakpoints-comparison-recapseg.seg, Segment_Mean, Segment_Call, 4) | 0.073s | passed |
| testOldFormats[1](/home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools//copynumber/utils/combine-segment-breakpoints.seg, /home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools//copynumber/utils/combine-segment-breakpoints-comparison-oncotator-gene-list.seg, segment_mean, segment_call, 4) | 0.067s | passed |
| testRealFormats[0](/home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools//copynumber/utils/combine-segment-breakpoints.seg, /home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools//copynumber/utils/combine-segment-breakpoints-comparison-ucsc-track.seg, /home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools//copynumber/utils/combine-segment-breakpoints-comparison-ucsc-track-expected.seg, [Ljava.lang.String;@3631dfac) | 0.069s | passed |
| testRealFormats[1](/home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools//copynumber/utils/combine-segment-breakpoints.seg, /home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools//copynumber/utils/combine-segment-breakpoints-comparison-jabba.seg, /home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools//copynumber/utils/combine-segment-breakpoints-comparison-jabba-expected.seg, [Ljava.lang.String;@3a24986b) | 0.071s | passed |
| testRealFormats[2](/home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools//copynumber/utils/combine-segment-breakpoints.seg, /home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools//copynumber/utils/combine-segment-breakpoints-comparison-pcawg-consensus.seg, /home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools//copynumber/utils/combine-segment-breakpoints-comparison-pcawg-consensus-expected.seg, [Ljava.lang.String;@472bc0b7) | 0.070s | passed |
| testRunAndOneWithoutSamHeaderAndNoReference | 0.070s | passed |
| testRunWithExactSameFiles | 0.069s | passed |
| testRunWithExactSegments | 0.070s | passed |
| testRunWithoutExactOverlaps | 0.070s | passed |
| testRunWithoutExactOverlapsAndLabels | 0.070s | passed |
| testWithoutSamHeaderAndWithReference | 0.068s | passed |
Standard error
[May 19, 2025 at 3:36:39 PM UTC] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=1491075072 [May 19, 2025 at 3:36:40 PM UTC] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=1491075072 [May 19, 2025 at 3:36:40 PM UTC] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=1491075072 [May 19, 2025 at 3:36:40 PM UTC] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=1491075072 [May 19, 2025 at 3:36:40 PM UTC] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=1491075072 [May 19, 2025 at 3:36:40 PM UTC] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=1491075072 [May 19, 2025 at 3:36:40 PM UTC] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=1491075072 [May 19, 2025 at 3:36:40 PM UTC] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=1491075072 [May 19, 2025 at 3:36:40 PM UTC] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=1491075072 [May 19, 2025 at 3:36:40 PM UTC] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=1491075072 [May 19, 2025 at 3:36:40 PM UTC] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=1491075072 [May 19, 2025 at 3:36:40 PM UTC] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=1491075072 [May 19, 2025 at 3:36:40 PM UTC] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=1491075072 [May 19, 2025 at 3:36:40 PM UTC] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=1491075072 [May 19, 2025 at 3:36:40 PM UTC] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=1491075072