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

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

tests
0

failures
0

ignored
1.044s

duration
100%

successful

Tests

Test Duration Result
testDisagreeingSamHeadersAndNoReference 0.071s passed
testDisagreeingSamHeadersAndReference 0.066s passed
testErrorWithoutSamHeadersAndNoReference 0.070s passed
testFailureIfNotAllColsOfInterestExist 0.074s 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) 0.074s 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) 0.070s 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;@416eaa02) 0.070s 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;@1f2c7599) 0.070s 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;@615c851f) 0.070s passed
testRunAndOneWithoutSamHeaderAndNoReference 0.068s passed
testRunWithExactSameFiles 0.071s passed
testRunWithExactSegments 0.068s passed
testRunWithoutExactOverlaps 0.067s passed
testRunWithoutExactOverlapsAndLabels 0.067s passed
testWithoutSamHeaderAndWithReference 0.068s passed

Standard error

[May 27, 2025 at 4:27:24 PM UTC] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1304428544
[May 27, 2025 at 4:27:24 PM UTC] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1304428544
[May 27, 2025 at 4:27:24 PM UTC] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1304428544
[May 27, 2025 at 4:27:24 PM UTC] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1304428544
[May 27, 2025 at 4:27:24 PM UTC] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1304428544
[May 27, 2025 at 4:27:24 PM UTC] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1304428544
[May 27, 2025 at 4:27:24 PM UTC] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1304428544
[May 27, 2025 at 4:27:25 PM UTC] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1304428544
[May 27, 2025 at 4:27:25 PM UTC] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1304428544
[May 27, 2025 at 4:27:25 PM UTC] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1304428544
[May 27, 2025 at 4:27:25 PM UTC] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1304428544
[May 27, 2025 at 4:27:25 PM UTC] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1304428544
[May 27, 2025 at 4:27:25 PM UTC] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1304428544
[May 27, 2025 at 4:27:25 PM UTC] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1304428544
[May 27, 2025 at 4:27:25 PM UTC] org.broadinstitute.hellbender.tools.copynumber.utils.CombineSegmentBreakpoints done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1304428544