Class org.broadinstitute.hellbender.tools.spark.validation.CompareDuplicatesSparkIntegrationTest

all > org.broadinstitute.hellbender.tools.spark.validation > CompareDuplicatesSparkIntegrationTest

tests

failures

ignored

3.556s

duration

100%

successful

Tests
Standard output
Standard error

Tests

Test	Duration	Result
differentBamTest[0](src/test/resources/org/broadinstitute/hellbender/tools/validation/tmp.gatk4.CEUTrio.HiSeq.WGS.b37.ch20.1m-1m1k.NA12878.bam, src/test/resources/org/broadinstitute/hellbender/tools/validation/single.read.bam)	0.319s	passed
differentBamTest[1](src/test/resources/org/broadinstitute/hellbender/tools/validation/tmp.gatk4.CEUTrio.HiSeq.WGS.b37.ch20.1m-1m1k.NA12878.bam, src/test/resources/org/broadinstitute/hellbender/tools/validation/CEUTrio.HiSeq.WGS.b37.ch20.1m-1m1k.NA12878.bam)	0.564s	passed
differentBamTest[2](src/test/resources/org/broadinstitute/hellbender/tools/validation/tmp.gatk4.CEUTrio.HiSeq.WGS.b37.ch20.1m-1m1k.NA12878.bam, src/test/resources/org/broadinstitute/hellbender/tools/validation/clean.CEUTrio.HiSeq.WGS.b37.ch20.1m-1m1k.NA12878.bam)	0.574s	passed
identicalBamTest[0](src/test/resources/org/broadinstitute/hellbender/tools/validation/tmp.legacy.CEUTrio.HiSeq.WGS.b37.ch20.1m-1m1k.NA12878.bam, src/test/resources/org/broadinstitute/hellbender/tools/validation/tmp.legacy.CEUTrio.HiSeq.WGS.b37.ch20.1m-1m1k.NA12878.bam)	0.598s	passed
identicalBamTest[1](src/test/resources/org/broadinstitute/hellbender/tools/validation/tmp.legacy.CEUTrio.HiSeq.WGS.b37.ch20.1m-1m1k.NA12878.bam, src/test/resources/org/broadinstitute/hellbender/tools/validation/tmp.gatk4.CEUTrio.HiSeq.WGS.b37.ch20.1m-1m1k.NA12878.bam)	0.555s	passed
testOutputFile	0.946s	passed

Standard output

processing bams with 1510 mapped reads
BAMs have different number of total duplicates: 96,128
first and second: 96,128
##############################
EQUAL: 1137
DIFF_NUM_DUPES: 34
DIFFERENT_REPRESENTATIVE_READ: 80
READ_MISMATCH: 0
SIZE_UNEQUAL: 0
processing bams with 1510 mapped reads
BAMs have different number of total duplicates: 96,0
first and second: 96,0
##############################
EQUAL: 1164
DIFF_NUM_DUPES: 87
DIFFERENT_REPRESENTATIVE_READ: 0
READ_MISMATCH: 0
SIZE_UNEQUAL: 0
processing bams with 1510 mapped reads
first and second: 96,96
##############################
EQUAL: 1251
DIFF_NUM_DUPES: 0
DIFFERENT_REPRESENTATIVE_READ: 0
READ_MISMATCH: 0
SIZE_UNEQUAL: 0
processing bams with 1510 mapped reads
first and second: 96,96
##############################
EQUAL: 1251
DIFF_NUM_DUPES: 0
DIFFERENT_REPRESENTATIVE_READ: 0
READ_MISMATCH: 0
SIZE_UNEQUAL: 0
processing bams with 1510 mapped reads
BAMs have different number of total duplicates: 96,0
first and second: 96,0
##############################
EQUAL: 1164
DIFF_NUM_DUPES: 87
DIFFERENT_REPRESENTATIVE_READ: 0
READ_MISMATCH: 0
SIZE_UNEQUAL: 0

Standard error

[March 28, 2025 at 10:46:25 PM UTC] org.broadinstitute.hellbender.tools.spark.validation.CompareDuplicatesSpark done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=847249408
[March 28, 2025 at 10:46:25 PM UTC] org.broadinstitute.hellbender.tools.spark.validation.CompareDuplicatesSpark done. Elapsed time: 0.01 minutes.
Runtime.totalMemory()=847249408
[March 28, 2025 at 10:46:26 PM UTC] org.broadinstitute.hellbender.tools.spark.validation.CompareDuplicatesSpark done. Elapsed time: 0.01 minutes.
Runtime.totalMemory()=658505728
[March 28, 2025 at 10:46:27 PM UTC] org.broadinstitute.hellbender.tools.spark.validation.CompareDuplicatesSpark done. Elapsed time: 0.01 minutes.
Runtime.totalMemory()=769654784
[March 28, 2025 at 10:46:27 PM UTC] org.broadinstitute.hellbender.tools.spark.validation.CompareDuplicatesSpark done. Elapsed time: 0.01 minutes.
Runtime.totalMemory()=769654784
[March 28, 2025 at 10:46:28 PM UTC] org.broadinstitute.hellbender.tools.spark.validation.CompareDuplicatesSpark done. Elapsed time: 0.01 minutes.
Runtime.totalMemory()=658505728