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

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

tests
0

failures
0

ignored
11.212s

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, []) 0.457s 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]) 0.273s passed
basicPositiveTests[11](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.cram, null, true, true, false, false, null, null, []) 0.297s 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]) 0.232s 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]) 0.225s passed
basicPositiveTests[3](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.sam, null, true, true, false, false, null, null, []) 0.238s passed
basicPositiveTests[4](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.bam, null, false, false, true, true, null, null, []) 0.679s 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]) 0.334s 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]) 0.314s passed
basicPositiveTests[7](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.bam, null, true, true, false, false, null, null, []) 0.323s passed
basicPositiveTests[8](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.cram, null, false, false, true, true, null, null, []) 0.596s 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]) 0.288s passed
testFilePathsWithMapFile 0.003s passed
testIsOutputMapHeaderValid 0s passed
testNoRgInfoSanitize 0.276s passed
testOutputByReadGroupWithOutputMap[0](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.sam) 0.447s passed
testOutputByReadGroupWithOutputMap[1](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.bam) 0.663s passed
testOutputByReadGroupWithOutputMap[2](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.cram) 0.594s passed
testSampleLibraryOverride[0](NewSample, null) 0.145s passed
testSampleLibraryOverride[1](null, NewLibrary) 0.144s passed
testSampleLibraryOverride[2](NewSample, NewLibrary) 0.154s passed
testSanitizeAndDeduplicateRecords[0](.sam) 0.420s passed
testSanitizeAndDeduplicateRecords[1](.bam) 1.054s passed
testSanitizeAndDeduplicateRecords[2](.cram) 0.872s passed
testSingleEndSanitize[0](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.sam) 0.339s passed
testSingleEndSanitize[1](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.bam) 1.035s passed
testSingleEndSanitize[2](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.cram) 0.810s passed

Standard error

[May 27, 2025 at 6:30:41 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.01 minutes.
Runtime.totalMemory()=987758592
[May 27, 2025 at 6:30:41 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=987758592
[May 27, 2025 at 6:30:41 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=987758592
[May 27, 2025 at 6:30:41 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=987758592
[May 27, 2025 at 6:30:42 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.01 minutes.
Runtime.totalMemory()=987758592
[May 27, 2025 at 6:30:42 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=987758592
[May 27, 2025 at 6:30:43 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=987758592
[May 27, 2025 at 6:30:43 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=987758592
[May 27, 2025 at 6:30:44 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.01 minutes.
Runtime.totalMemory()=987758592
[May 27, 2025 at 6:30:44 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=987758592
[May 27, 2025 at 6:30:44 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=987758592
[May 27, 2025 at 6:30:45 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=987758592
[May 27, 2025 at 6:30:45 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=987758592
[May 27, 2025 at 6:30:45 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.01 minutes.
Runtime.totalMemory()=987758592
[May 27, 2025 at 6:30:46 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.01 minutes.
Runtime.totalMemory()=987758592
[May 27, 2025 at 6:30:47 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.01 minutes.
Runtime.totalMemory()=987758592
[May 27, 2025 at 6:30:47 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=987758592
[May 27, 2025 at 6:30:47 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=987758592
[May 27, 2025 at 6:30:47 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=987758592
[May 27, 2025 at 6:30:47 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=987758592
[May 27, 2025 at 6:30:48 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.02 minutes.
Runtime.totalMemory()=987758592
[May 27, 2025 at 6:30:49 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.01 minutes.
Runtime.totalMemory()=987758592
[May 27, 2025 at 6:30:50 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=987758592
[May 27, 2025 at 6:30:51 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.02 minutes.
Runtime.totalMemory()=987758592
[May 27, 2025 at 6:30:52 PM GMT] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.01 minutes.
Runtime.totalMemory()=987758592