Class org.broadinstitute.hellbender.tools.spark.RevertSamSparkIntegrationTest

all > org.broadinstitute.hellbender.tools.spark > RevertSamSparkIntegrationTest
27

tests
0

failures
0

ignored
10.286s

duration
100%

successful

Tests

Test Duration Result
basicPositiveTests[0](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.sam, null, false, false, true, true, null, null, []) 0.450s passed
basicPositiveTests[10](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.cram, null, true, false, false, false, Hey,Dad!, NewLibraryName, [NM, UQ, PG, MD, MQ, SA, MC, AS, XT]) 0.233s passed
basicPositiveTests[11](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.cram, null, true, true, false, false, null, null, []) 0.253s passed
basicPositiveTests[1](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.sam, queryname, false, false, true, false, Hey,Dad!, null, [NM, UQ, PG, MD, MQ, SA, MC, AS, XT]) 0.166s passed
basicPositiveTests[2](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.sam, null, true, false, false, false, Hey,Dad!, NewLibraryName, [NM, UQ, PG, MD, MQ, SA, MC, AS, XT]) 0.180s passed
basicPositiveTests[3](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.sam, null, true, true, false, false, null, null, []) 0.161s passed
basicPositiveTests[4](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.bam, null, false, false, true, true, null, null, []) 0.652s passed
basicPositiveTests[5](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.bam, queryname, false, false, true, false, Hey,Dad!, null, [NM, UQ, PG, MD, MQ, SA, MC, AS, XT]) 0.257s passed
basicPositiveTests[6](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.bam, null, true, false, false, false, Hey,Dad!, NewLibraryName, [NM, UQ, PG, MD, MQ, SA, MC, AS, XT]) 0.271s passed
basicPositiveTests[7](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.bam, null, true, true, false, false, null, null, []) 0.254s passed
basicPositiveTests[8](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.cram, null, false, false, true, true, null, null, []) 0.622s passed
basicPositiveTests[9](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.cram, queryname, false, false, true, false, Hey,Dad!, null, [NM, UQ, PG, MD, MQ, SA, MC, AS, XT]) 0.224s passed
testFilePathsWithMapFile 0.002s passed
testIsOutputMapHeaderValid 0s passed
testNoRgInfoSanitize 0.211s passed
testOutputByReadGroupWithOutputMap[0](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.sam) 0.421s passed
testOutputByReadGroupWithOutputMap[1](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.bam) 0.659s passed
testOutputByReadGroupWithOutputMap[2](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.cram) 0.619s passed
testSampleLibraryOverride[0](NewSample, null) 0.088s passed
testSampleLibraryOverride[1](null, NewLibrary) 0.087s passed
testSampleLibraryOverride[2](NewSample, NewLibrary) 0.093s passed
testSanitizeAndDeduplicateRecords[0](.sam) 0.307s passed
testSanitizeAndDeduplicateRecords[1](.bam) 1.060s passed
testSanitizeAndDeduplicateRecords[2](.cram) 0.914s passed
testSingleEndSanitize[0](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.sam) 0.278s passed
testSingleEndSanitize[1](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.bam) 1.003s passed
testSingleEndSanitize[2](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.cram) 0.821s passed

Standard error

[March 28, 2025 at 10:44:09 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.01 minutes.
Runtime.totalMemory()=524288000
[March 28, 2025 at 10:44:09 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[March 28, 2025 at 10:44:09 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[March 28, 2025 at 10:44:09 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[March 28, 2025 at 10:44:10 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.01 minutes.
Runtime.totalMemory()=524288000
[March 28, 2025 at 10:44:10 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[March 28, 2025 at 10:44:11 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[March 28, 2025 at 10:44:11 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[March 28, 2025 at 10:44:12 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.01 minutes.
Runtime.totalMemory()=524288000
[March 28, 2025 at 10:44:12 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[March 28, 2025 at 10:44:12 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[March 28, 2025 at 10:44:12 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[March 28, 2025 at 10:44:12 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[March 28, 2025 at 10:44:13 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.01 minutes.
Runtime.totalMemory()=803209216
[March 28, 2025 at 10:44:14 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.01 minutes.
Runtime.totalMemory()=524288000
[March 28, 2025 at 10:44:14 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.01 minutes.
Runtime.totalMemory()=524288000
[March 28, 2025 at 10:44:14 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[March 28, 2025 at 10:44:14 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[March 28, 2025 at 10:44:14 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[March 28, 2025 at 10:44:15 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[March 28, 2025 at 10:44:16 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.02 minutes.
Runtime.totalMemory()=524288000
[March 28, 2025 at 10:44:17 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.01 minutes.
Runtime.totalMemory()=559939584
[March 28, 2025 at 10:44:17 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=559939584
[March 28, 2025 at 10:44:18 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.02 minutes.
Runtime.totalMemory()=524288000
[March 28, 2025 at 10:44:19 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.01 minutes.
Runtime.totalMemory()=524288000