Class org.broadinstitute.hellbender.tools.spark.RevertSamSparkIntegrationTest
|
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, []) | 0.387s | 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]) | 0.228s | passed |
| basicPositiveTests[11](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.cram, null, true, true, false, false, null, null, []) | 0.222s | 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]) | 0.164s | 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]) | 0.178s | passed |
| basicPositiveTests[3](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.sam, null, true, true, false, false, null, null, []) | 0.171s | passed |
| basicPositiveTests[4](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.bam, null, false, false, true, true, null, null, []) | 0.620s | 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]) | 0.251s | 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]) | 0.245s | passed |
| basicPositiveTests[7](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.bam, null, true, true, false, false, null, null, []) | 0.242s | passed |
| basicPositiveTests[8](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.cram, null, false, false, true, true, null, null, []) | 0.528s | 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]) | 0.225s | passed |
| testFilePathsWithMapFile | 0.002s | passed |
| testIsOutputMapHeaderValid | 0s | passed |
| testNoRgInfoSanitize | 0.244s | passed |
| testOutputByReadGroupWithOutputMap[0](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.sam) | 0.394s | passed |
| testOutputByReadGroupWithOutputMap[1](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.bam) | 0.657s | passed |
| testOutputByReadGroupWithOutputMap[2](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.cram) | 0.545s | passed |
| testSampleLibraryOverride[0](NewSample, null) | 0.110s | passed |
| testSampleLibraryOverride[1](null, NewLibrary) | 0.092s | passed |
| testSampleLibraryOverride[2](NewSample, NewLibrary) | 0.088s | passed |
| testSanitizeAndDeduplicateRecords[0](.sam) | 0.276s | passed |
| testSanitizeAndDeduplicateRecords[1](.bam) | 0.929s | passed |
| testSanitizeAndDeduplicateRecords[2](.cram) | 0.816s | passed |
| testSingleEndSanitize[0](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.sam) | 0.285s | passed |
| testSingleEndSanitize[1](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.bam) | 0.895s | passed |
| testSingleEndSanitize[2](src/test/resources/org/broadinstitute/hellbender/tools/spark/RevertSamSpark/revert_sam_basic.cram) | 0.728s | passed |
Standard error
[May 27, 2025 at 2:56:47 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.01 minutes. Runtime.totalMemory()=2013265920 [May 27, 2025 at 2:56:47 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=2013265920 [May 27, 2025 at 2:56:47 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=2013265920 [May 27, 2025 at 2:56:48 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=2013265920 [May 27, 2025 at 2:56:48 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.01 minutes. Runtime.totalMemory()=2013265920 [May 27, 2025 at 2:56:48 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=2013265920 [May 27, 2025 at 2:56:49 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=2013265920 [May 27, 2025 at 2:56:49 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=2013265920 [May 27, 2025 at 2:56:50 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.01 minutes. Runtime.totalMemory()=2013265920 [May 27, 2025 at 2:56:50 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=2013265920 [May 27, 2025 at 2:56:50 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=2013265920 [May 27, 2025 at 2:56:50 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=2013265920 [May 27, 2025 at 2:56:50 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=2013265920 [May 27, 2025 at 2:56:51 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.01 minutes. Runtime.totalMemory()=2013265920 [May 27, 2025 at 2:56:51 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.01 minutes. Runtime.totalMemory()=2013265920 [May 27, 2025 at 2:56:52 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.01 minutes. Runtime.totalMemory()=2013265920 [May 27, 2025 at 2:56:52 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=2013265920 [May 27, 2025 at 2:56:52 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=2013265920 [May 27, 2025 at 2:56:52 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=2013265920 [May 27, 2025 at 2:56:53 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=2013265920 [May 27, 2025 at 2:56:54 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.01 minutes. Runtime.totalMemory()=2013265920 [May 27, 2025 at 2:56:54 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.01 minutes. Runtime.totalMemory()=2013265920 [May 27, 2025 at 2:56:55 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.00 minutes. Runtime.totalMemory()=2013265920 [May 27, 2025 at 2:56:56 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.01 minutes. Runtime.totalMemory()=2013265920 [May 27, 2025 at 2:56:56 PM UTC] org.broadinstitute.hellbender.tools.spark.RevertSamSpark done. Elapsed time: 0.01 minutes. Runtime.totalMemory()=2013265920