Class org.broadinstitute.hellbender.tools.walkers.variantutils.LeftAlignAndTrimVariantsIntegrationTest

all > org.broadinstitute.hellbender.tools.walkers.variantutils > LeftAlignAndTrimVariantsIntegrationTest

tests

failures

ignored

0.912s

duration

100%

successful

Tests
Standard output
Standard error

Tests

Test	Duration	Result
testLefAlignRequireReference[0](src/test/resources/org/broadinstitute/hellbender/tools/walkers/variantutils/LeftAlignAndTrimVariants/test_left_align_hg38.vcf)	0.086s	passed
testLeftAlignment[0](src/test/resources/org/broadinstitute/hellbender/tools/walkers/variantutils/LeftAlignAndTrimVariants/test_left_align_hg38.vcf, /gatkCloneMountPoint/src/test/resources/large/Homo_sapiens_assembly38.20.21.fasta, src/test/resources/org/broadinstitute/hellbender/tools/walkers/variantutils/LeftAlignAndTrimVariants/expected_left_align_hg38.vcf, )	0.126s	passed
testLeftAlignment[1](src/test/resources/org/broadinstitute/hellbender/tools/walkers/variantutils/LeftAlignAndTrimVariants/test_left_align_hg38.vcf, /gatkCloneMountPoint/src/test/resources/large/Homo_sapiens_assembly38.20.21.fasta, src/test/resources/org/broadinstitute/hellbender/tools/walkers/variantutils/LeftAlignAndTrimVariants/expected_left_align_hg38_split_multiallelics.vcf, --split-multi-allelics)	0.104s	passed
testLeftAlignment[2](src/test/resources/org/broadinstitute/hellbender/tools/walkers/variantutils/LeftAlignAndTrimVariants/test_left_align_hg38.vcf, /gatkCloneMountPoint/src/test/resources/large/Homo_sapiens_assembly38.20.21.fasta, src/test/resources/org/broadinstitute/hellbender/tools/walkers/variantutils/LeftAlignAndTrimVariants/expected_left_align_hg38_notrim.vcf, --dont-trim-alleles)	0.096s	passed
testLeftAlignment[3](src/test/resources/org/broadinstitute/hellbender/tools/walkers/variantutils/LeftAlignAndTrimVariants/test_left_align_hg38.vcf, /gatkCloneMountPoint/src/test/resources/large/Homo_sapiens_assembly38.20.21.fasta, src/test/resources/org/broadinstitute/hellbender/tools/walkers/variantutils/LeftAlignAndTrimVariants/expected_left_align_hg38_notrim_split_multiallelics.vcf, --no-trim --split-multi-allelics)	0.098s	passed
testLeftAlignment[4](src/test/resources/org/broadinstitute/hellbender/tools/walkers/variantutils/LeftAlignAndTrimVariants/test_left_align_hg38.vcf, /gatkCloneMountPoint/src/test/resources/large/Homo_sapiens_assembly38.20.21.fasta, src/test/resources/org/broadinstitute/hellbender/tools/walkers/variantutils/LeftAlignAndTrimVariants/expected_left_align_hg38_split_multiallelics_keepOrigAC.vcf, --split-multi-allelics --keep-original-ac)	0.098s	passed
testLeftAlignment[5](src/test/resources/org/broadinstitute/hellbender/tools/walkers/variantutils/LeftAlignAndTrimVariants/test_left_align_hg38.vcf, /gatkCloneMountPoint/src/test/resources/large/Homo_sapiens_assembly38.20.21.fasta, src/test/resources/org/broadinstitute/hellbender/tools/walkers/variantutils/LeftAlignAndTrimVariants/expected_left_align_hg38_maxIndelSize296.vcf, --max-indel-length 296)	0.097s	passed
testLeftAlignment[6](src/test/resources/org/broadinstitute/hellbender/tools/walkers/variantutils/LeftAlignAndTrimVariants/test_left_align_hg38.vcf, /gatkCloneMountPoint/src/test/resources/large/Homo_sapiens_assembly38.20.21.fasta, src/test/resources/org/broadinstitute/hellbender/tools/walkers/variantutils/LeftAlignAndTrimVariants/expected_left_align_hg38_maxIndelSize342.vcf, --max-indel-length 342)	0.102s	passed
testSplitAllelesWithASFilters	0.105s	passed

Standard output

--------------------------------------------------------------------------------
[17:00:20] Executing test LeftAlignAndTrimVariantsIntegrationTest:testLeftAlignment--requireReference
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[17:00:21] Executing test LeftAlignAndTrimVariantsIntegrationTest:testLeftAlignment--src/test/resources/org/broadinstitute/hellbender/tools/walkers/variantutils/LeftAlignAndTrimVariants/expected_left_align_hg38.vcf
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[17:00:21] Executing test LeftAlignAndTrimVariantsIntegrationTest:testLeftAlignment--src/test/resources/org/broadinstitute/hellbender/tools/walkers/variantutils/LeftAlignAndTrimVariants/expected_left_align_hg38_split_multiallelics.vcf
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[17:00:21] Executing test LeftAlignAndTrimVariantsIntegrationTest:testLeftAlignment--src/test/resources/org/broadinstitute/hellbender/tools/walkers/variantutils/LeftAlignAndTrimVariants/expected_left_align_hg38_notrim.vcf
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[17:00:21] Executing test LeftAlignAndTrimVariantsIntegrationTest:testLeftAlignment--src/test/resources/org/broadinstitute/hellbender/tools/walkers/variantutils/LeftAlignAndTrimVariants/expected_left_align_hg38_notrim_split_multiallelics.vcf
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[17:00:21] Executing test LeftAlignAndTrimVariantsIntegrationTest:testLeftAlignment--src/test/resources/org/broadinstitute/hellbender/tools/walkers/variantutils/LeftAlignAndTrimVariants/expected_left_align_hg38_split_multiallelics_keepOrigAC.vcf
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[17:00:21] Executing test LeftAlignAndTrimVariantsIntegrationTest:testLeftAlignment--src/test/resources/org/broadinstitute/hellbender/tools/walkers/variantutils/LeftAlignAndTrimVariants/expected_left_align_hg38_maxIndelSize296.vcf
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[17:00:21] Executing test LeftAlignAndTrimVariantsIntegrationTest:testLeftAlignment--src/test/resources/org/broadinstitute/hellbender/tools/walkers/variantutils/LeftAlignAndTrimVariants/expected_left_align_hg38_maxIndelSize342.vcf
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[17:00:21] Executing test LeftAlignAndTrimVariantsIntegrationTest:testSplitAllelesWithASFilters--src/test/resources/org/broadinstitute/hellbender/tools/walkers/variantutils/LeftAlignAndTrimVariants/expected_split_with_AS_filters.vcf

Standard error

[May 27, 2025 at 5:00:21 PM GMT] org.broadinstitute.hellbender.tools.walkers.variantutils.LeftAlignAndTrimVariants done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
[May 27, 2025 at 5:00:21 PM GMT] org.broadinstitute.hellbender.tools.walkers.variantutils.LeftAlignAndTrimVariants done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
[May 27, 2025 at 5:00:21 PM GMT] org.broadinstitute.hellbender.tools.walkers.variantutils.LeftAlignAndTrimVariants done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
[May 27, 2025 at 5:00:21 PM GMT] org.broadinstitute.hellbender.tools.walkers.variantutils.LeftAlignAndTrimVariants done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
[May 27, 2025 at 5:00:21 PM GMT] org.broadinstitute.hellbender.tools.walkers.variantutils.LeftAlignAndTrimVariants done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
[May 27, 2025 at 5:00:21 PM GMT] org.broadinstitute.hellbender.tools.walkers.variantutils.LeftAlignAndTrimVariants done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
[May 27, 2025 at 5:00:21 PM GMT] org.broadinstitute.hellbender.tools.walkers.variantutils.LeftAlignAndTrimVariants done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
[May 27, 2025 at 5:00:21 PM GMT] org.broadinstitute.hellbender.tools.walkers.variantutils.LeftAlignAndTrimVariants done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000