Class org.broadinstitute.hellbender.tools.PrintReadsIntegrationTest

all > org.broadinstitute.hellbender.tools > PrintReadsIntegrationTest

tests

failures

ignored

10.007s

duration

100%

successful

Tests
Standard output
Standard error

Tests

Test	Duration	Result
testCoordinateSortedInRegion	0.107s	passed
testFileToFileWithMD5[0](print_reads.sam, .sam, null)	0.121s	passed
testFileToFileWithMD5[10](print_reads.sorted.sam, .bam, null)	0.070s	passed
testFileToFileWithMD5[11](print_reads.sorted.sam, .cram, print_reads.fasta)	0.076s	passed
testFileToFileWithMD5[12](print_reads.sorted.bam, .sam, null)	0.119s	passed
testFileToFileWithMD5[13](print_reads.sorted.bam, .bam, null)	0.070s	passed
testFileToFileWithMD5[14](print_reads.sorted.bam, .cram, print_reads.fasta)	0.083s	passed
testFileToFileWithMD5[15](print_reads.sorted.cram, .sam, print_reads.fasta)	0.123s	passed
testFileToFileWithMD5[16](print_reads.sorted.cram, .bam, print_reads.fasta)	0.126s	passed
testFileToFileWithMD5[17](print_reads.sorted.cram, .cram, print_reads.fasta)	0.086s	passed
testFileToFileWithMD5[18](print_reads.sorted.queryname.sam, .sam, null)	0.122s	passed
testFileToFileWithMD5[19](print_reads.sorted.queryname.sam, .bam, null)	0.122s	passed
testFileToFileWithMD5[1](print_reads.sam, .bam, null)	0.121s	passed
testFileToFileWithMD5[20](print_reads.sorted.queryname.sam, .cram, print_reads.fasta)	0.076s	passed
testFileToFileWithMD5[21](print_reads.sorted.queryname.bam, .sam, null)	0.120s	passed
testFileToFileWithMD5[22](print_reads.sorted.queryname.bam, .bam, null)	0.119s	passed
testFileToFileWithMD5[23](print_reads.sorted.queryname.bam, .cram, print_reads.fasta)	0.076s	passed
testFileToFileWithMD5[24](print_reads.sorted.queryname.cram, .sam, print_reads.fasta)	0.123s	passed
testFileToFileWithMD5[25](print_reads.sorted.queryname.cram, .bam, print_reads.fasta)	0.124s	passed
testFileToFileWithMD5[26](print_reads.sorted.queryname.cram, .cram, print_reads.fasta)	0.079s	passed
testFileToFileWithMD5[27](print_reads.sorted.queryname.htsjdk-2.1.0.cram, .cram, print_reads.fasta)	0.079s	passed
testFileToFileWithMD5[28](print_reads.sorted.queryname.htsjdk-2.1.0.cram, .sam, print_reads.fasta)	0.128s	passed
testFileToFileWithMD5[2](print_reads.sam, .cram, print_reads.fasta)	0.081s	passed
testFileToFileWithMD5[3](print_reads.bam, .sam, null)	0.121s	passed
testFileToFileWithMD5[4](print_reads.bam, .bam, null)	0.120s	passed
testFileToFileWithMD5[5](print_reads.bam, .cram, print_reads.fasta)	0.071s	passed
testFileToFileWithMD5[6](print_reads.cram, .sam, print_reads.fasta)	0.124s	passed
testFileToFileWithMD5[7](print_reads.cram, .bam, print_reads.fasta)	0.128s	passed
testFileToFileWithMD5[8](print_reads.cram, .cram, print_reads.fasta)	0.081s	passed
testFileToFileWithMD5[9](print_reads.sorted.sam, .sam, null)	0.122s	passed
testFileToFile[0](print_reads.sam, .sam, null)	0.134s	passed
testFileToFile[10](print_reads.sorted.sam, .bam, null)	0.073s	passed
testFileToFile[11](print_reads.sorted.sam, .cram, print_reads.fasta)	0.081s	passed
testFileToFile[12](print_reads.sorted.bam, .sam, null)	0.142s	passed
testFileToFile[13](print_reads.sorted.bam, .bam, null)	0.073s	passed
testFileToFile[14](print_reads.sorted.bam, .cram, print_reads.fasta)	0.081s	passed
testFileToFile[15](print_reads.sorted.cram, .sam, print_reads.fasta)	0.124s	passed
testFileToFile[16](print_reads.sorted.cram, .bam, print_reads.fasta)	0.076s	passed
testFileToFile[17](print_reads.sorted.cram, .cram, print_reads.fasta)	0.080s	passed
testFileToFile[18](print_reads.sorted.queryname.sam, .sam, null)	0.122s	passed
testFileToFile[19](print_reads.sorted.queryname.sam, .bam, null)	0.122s	passed
testFileToFile[1](print_reads.sam, .bam, null)	0.124s	passed
testFileToFile[20](print_reads.sorted.queryname.sam, .cram, print_reads.fasta)	0.081s	passed
testFileToFile[21](print_reads.sorted.queryname.bam, .sam, null)	0.124s	passed
testFileToFile[22](print_reads.sorted.queryname.bam, .bam, null)	0.121s	passed
testFileToFile[23](print_reads.sorted.queryname.bam, .cram, print_reads.fasta)	0.080s	passed
testFileToFile[24](print_reads.sorted.queryname.cram, .sam, print_reads.fasta)	0.127s	passed
testFileToFile[25](print_reads.sorted.queryname.cram, .bam, print_reads.fasta)	0.124s	passed
testFileToFile[26](print_reads.sorted.queryname.cram, .cram, print_reads.fasta)	0.078s	passed
testFileToFile[27](print_reads.sorted.queryname.htsjdk-2.1.0.cram, .cram, print_reads.fasta)	0.078s	passed
testFileToFile[28](print_reads.sorted.queryname.htsjdk-2.1.0.cram, .sam, print_reads.fasta)	0.128s	passed
testFileToFile[2](print_reads.sam, .cram, print_reads.fasta)	0.088s	passed
testFileToFile[3](print_reads.bam, .sam, null)	0.138s	passed
testFileToFile[4](print_reads.bam, .bam, null)	0.126s	passed
testFileToFile[5](print_reads.bam, .cram, print_reads.fasta)	0.082s	passed
testFileToFile[6](print_reads.cram, .sam, print_reads.fasta)	0.132s	passed
testFileToFile[7](print_reads.cram, .bam, print_reads.fasta)	0.128s	passed
testFileToFile[8](print_reads.cram, .cram, print_reads.fasta)	0.081s	passed
testFileToFile[9](print_reads.sorted.sam, .sam, null)	0.122s	passed
testNoConflictPG	0.120s	passed
testNonExistentReference	0.068s	passed
testReadFiltering	0.120s	passed
testReadFiltering_asIntegrationTestSpec	0.072s	passed
testReadFilters[0](print_reads_one_malformed_read.sam, null, .sam, [], 7)	0.120s	passed
testReadFilters[10](print_reads.sorted.bam, null, .sam, [--read-filter, ReadLengthReadFilter, --min-read-length, 100, --max-read-length, 101], 8)	0.121s	passed
testReadFilters[11](print_reads.sorted.bam, null, .sam, [--read-filter, ReadNameReadFilter, --read-name, both_reads_align_clip_adapter, --read-filter, ReadLengthReadFilter, --min-read-length, 100, --max-read-length, 101], 2)	0.121s	passed
testReadFilters[12](print_reads.sorted.cram, print_reads.fasta, .sam, [--read-filter, ReadNameReadFilter, --read-name, both_reads_align_clip_adapter, --read-filter, ReadLengthReadFilter, --min-read-length, 100, --max-read-length, 101], 2)	0.127s	passed
testReadFilters[1](print_reads_one_malformed_read.sam, null, .sam, [--disable-tool-default-read-filters], 8)	0.122s	passed
testReadFilters[2](print_reads_one_malformed_read.sam, null, .sam, [--disable-read-filter, WellformedReadFilter], 8)	0.122s	passed
testReadFilters[3](print_reads.sorted.sam, null, .sam, [--disable-tool-default-read-filters], 8)	0.121s	passed
testReadFilters[4](print_reads.sorted.sam, null, .sam, [--read-filter, ReadNameReadFilter, --read-name, both_reads_align_clip_adapter], 2)	0.123s	passed
testReadFilters[5](print_reads.sorted.sam, null, .sam, [--read-filter, ReadLengthReadFilter, --min-read-length, 100, --max-read-length, 200], 8)	0.122s	passed
testReadFilters[6](print_reads.sorted.sam, null, .sam, [--read-filter, ReadLengthReadFilter, --min-read-length, 1, --max-read-length, 10], 0)	0.121s	passed
testReadFilters[7](print_reads.sorted.sam, null, .sam, [--read-filter, ReadNameReadFilter, --read-name, both_reads_align_clip_adapter, --read-filter, ReadLengthReadFilter, --min-read-length, 100, --max-read-length, 101], 2)	0.124s	passed
testReadFilters[8](print_reads.sorted.bam, null, .sam, [--disable-tool-default-read-filters], 8)	0.122s	passed
testReadFilters[9](print_reads.sorted.bam, null, .sam, [--read-filter, ReadNameReadFilter, --read-name, both_reads_align_clip_adapter], 2)	0.121s	passed
testReadThatConsumesNoReferenceBases	0.123s	passed
testSequenceDictionaryValidation	0.071s	passed
testUnSorted	0.121s	passed
testUnmappedReadInclusion[0](/home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/reads_data_source_test1_with_unmapped.bam, null, [unmapped], [u1, u2, u3, u4, u5])	0.126s	passed
testUnmappedReadInclusion[10](/home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/CEUTrio.HiSeq.WGS.b37.NA12878.snippet_with_unmapped.cram, /home/runner/work/gatk/gatk/src/test/resources/large/human_g1k_v37.20.21.fasta, [20:10000009-10000011, unmapped], [a, b, c, d, e, g, h, h, i, i])	0.168s	passed
testUnmappedReadInclusion[11](/home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/CEUTrio.HiSeq.WGS.b37.NA12878.snippet_with_unmapped.cram, /home/runner/work/gatk/gatk/src/test/resources/large/human_g1k_v37.20.21.fasta, [20:10000009-10000013, unmapped], [a, b, c, d, e, f, f, g, h, h, i, i])	0.164s	passed
testUnmappedReadInclusion[1](/home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/reads_data_source_test1_with_unmapped.bam, null, [/home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/reads_data_source_test1_unmapped.intervals], [u1, u2, u3, u4, u5])	0.123s	passed
testUnmappedReadInclusion[2](/home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/reads_data_source_test1_with_unmapped.bam, null, [1:200-300, unmapped], [a, b, c, u1, u2, u3, u4, u5])	0.123s	passed
testUnmappedReadInclusion[3](/home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/reads_data_source_test1_with_unmapped.bam, null, [1:200-300, 4:700-701, unmapped], [a, b, c, k, u1, u2, u3, u4, u5])	0.072s	passed
testUnmappedReadInclusion[4](/home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/reads_data_source_test1_with_unmapped.bam, null, [/home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/reads_data_source_test1_unmapped2.intervals], [a, b, c, k, u1, u2, u3, u4, u5])	0.072s	passed
testUnmappedReadInclusion[5](/home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/CEUTrio.HiSeq.WGS.b37.NA12878.snippet_with_unmapped.bam, null, [unmapped], [g, h, h, i, i])	0.120s	passed
testUnmappedReadInclusion[6](/home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/CEUTrio.HiSeq.WGS.b37.NA12878.snippet_with_unmapped.bam, null, [20:10000009-10000011], [a, b, c, d, e])	0.122s	passed
testUnmappedReadInclusion[7](/home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/CEUTrio.HiSeq.WGS.b37.NA12878.snippet_with_unmapped.bam, null, [20:10000009-10000011, unmapped], [a, b, c, d, e, g, h, h, i, i])	0.123s	passed
testUnmappedReadInclusion[8](/home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/CEUTrio.HiSeq.WGS.b37.NA12878.snippet_with_unmapped.bam, null, [20:10000009-10000013, unmapped], [a, b, c, d, e, f, f, g, h, h, i, i])	0.122s	passed
testUnmappedReadInclusion[9](/home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/CEUTrio.HiSeq.WGS.b37.NA12878.snippet_with_unmapped.cram, /home/runner/work/gatk/gatk/src/test/resources/large/human_g1k_v37.20.21.fasta, [unmapped], [g, h, h, i, i])	0.202s	passed

Standard output

--------------------------------------------------------------------------------
[20:34:05] Executing test PrintReadsIntegrationTest:testReadFiltering_asIntegrationTestSpec

Standard error

[June 12, 2025 at 8:34:01 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=664797184
[June 12, 2025 at 8:34:01 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=664797184
[June 12, 2025 at 8:34:02 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=664797184
[June 12, 2025 at 8:34:02 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=664797184
[June 12, 2025 at 8:34:02 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:02 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:02 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:02 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:02 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:02 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:02 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:02 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:03 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:03 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:03 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:03 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:03 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:03 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:03 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:03 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:03 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:03 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:04 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:04 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:04 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:04 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:04 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:04 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:04 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:04 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:04 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:05 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:05 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:05 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:05 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:05 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:05 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:05 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:05 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:05 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:06 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:06 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:06 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:06 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:06 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:06 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:06 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:06 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:07 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:07 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:07 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:07 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:07 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:07 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:07 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:07 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:07 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:08 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:08 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:08 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:08 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:08 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:08 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:08 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:09 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:09 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:09 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:09 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:09 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:09 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:09 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:09 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:09 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:09 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:09 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:10 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:10 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:10 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:10 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:10 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:10 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:10 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:10 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:10 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:11 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:11 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:11 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:11 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:11 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:11 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[June 12, 2025 at 8:34:11 PM UTC] org.broadinstitute.hellbender.tools.PrintReads done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000