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

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

tests
0

failures
0

ignored
9.428s

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, []) 0.333s 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]) 0.230s passed
basicPositiveTests[11](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.cram, null, true, true, false, false, null, null, []) 0.232s 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]) 0.168s 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]) 0.181s passed
basicPositiveTests[3](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.sam, null, true, true, false, false, null, null, []) 0.170s passed
basicPositiveTests[4](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.bam, null, false, false, true, true, null, null, []) 0.562s 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]) 0.253s 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]) 0.261s passed
basicPositiveTests[7](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.bam, null, true, true, false, false, null, null, []) 0.248s passed
basicPositiveTests[8](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.cram, null, false, false, true, true, null, null, []) 0.493s 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]) 0.229s passed
testFilePathsWithMapFile 0.003s passed
testIsOutputMapHeaderValid 0s passed
testNoRgInfoSanitize 0.227s passed
testOutputByReadGroupWithOutputMap[0](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.sam) 0.351s passed
testOutputByReadGroupWithOutputMap[1](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.bam) 0.582s passed
testOutputByReadGroupWithOutputMap[2](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.cram) 0.533s passed
testSampleLibraryOverride[0](NewSample, null) 0.116s passed
testSampleLibraryOverride[1](null, NewLibrary) 0.120s passed
testSampleLibraryOverride[2](NewSample, NewLibrary) 0.124s passed
testSanitizeAndDeduplicateRecords[0](.sam) 0.336s passed
testSanitizeAndDeduplicateRecords[1](.bam) 0.939s passed
testSanitizeAndDeduplicateRecords[2](.cram) 0.815s passed
testSingleEndSanitize[0](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.sam) 0.293s passed
testSingleEndSanitize[1](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.bam) 0.904s passed
testSingleEndSanitize[2](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.cram) 0.725s passed

Standard error

[May 27, 2025 at 4:48:54 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=926941184
[May 27, 2025 at 4:48:54 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=926941184
[May 27, 2025 at 4:48:54 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=926941184
[May 27, 2025 at 4:48:54 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=926941184
[May 27, 2025 at 4:48:55 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.01 minutes.
Runtime.totalMemory()=926941184
[May 27, 2025 at 4:48:55 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=926941184
[May 27, 2025 at 4:48:55 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=926941184
[May 27, 2025 at 4:48:56 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=926941184
[May 27, 2025 at 4:48:56 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.01 minutes.
Runtime.totalMemory()=926941184
[May 27, 2025 at 4:48:56 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=926941184
[May 27, 2025 at 4:48:57 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=926941184
[May 27, 2025 at 4:48:57 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=926941184
[May 27, 2025 at 4:48:57 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=926941184
[May 27, 2025 at 4:48:57 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=926941184
[May 27, 2025 at 4:48:58 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.01 minutes.
Runtime.totalMemory()=926941184
[May 27, 2025 at 4:48:58 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.01 minutes.
Runtime.totalMemory()=926941184
[May 27, 2025 at 4:48:59 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=926941184
[May 27, 2025 at 4:48:59 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=926941184
[May 27, 2025 at 4:48:59 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=926941184
[May 27, 2025 at 4:48:59 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=926941184
[May 27, 2025 at 4:49:00 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.01 minutes.
Runtime.totalMemory()=926941184
[May 27, 2025 at 4:49:01 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.01 minutes.
Runtime.totalMemory()=926941184
[May 27, 2025 at 4:49:01 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=926941184
[May 27, 2025 at 4:49:02 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.01 minutes.
Runtime.totalMemory()=926941184
[May 27, 2025 at 4:49:03 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.01 minutes.
Runtime.totalMemory()=926941184