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

all > org.broadinstitute.hellbender.tools.walkers.variantutils > VCFComparatorIntegrationTest
17

tests
0

failures
0

ignored
3.657s

duration
100%

successful

Tests

Test Duration Result
testAnnotationDifferences[0]( -L chr1:186475, expected_warning_as_vqslod.txt) 0.205s passed
testAnnotationDifferences[1]( -L chr1:186475 --ignore-attribute AS_VQSLOD, empty_file.txt) 0.204s passed
testAnnotationDifferences[2]( -L chr1:187471 --ignore-attribute AS_VQSLOD, expected_warning_filter.txt) 0.230s passed
testAnnotationDifferences[3]( -L chr1:186475-945669 --ignore-attribute VQSLOD --ignore-attribute AS_VQSLOD --ignore-filters --ignore-attribute culprit --ignore-attribute AS_culprit --ignore-attribute AS_FilterStatus --ignore-attribute ExcessHet --ignore-attribute AS_SOR --ignore-attribute AS_FS --ignore-attribute AS_BaseQRankSum --ignore-attribute AS_ReadPosRankSum --ignore-attribute AS_MQRankSum, empty_file.txt) 0.227s passed
testAnnotationDifferences[4]( -L chr1:945670 --ignore-attribute VQSLOD --ignore-attribute AS_VQSLOD --ignore-filters --ignore-attribute culprit --ignore-attribute AS_culprit --ignore-attribute AS_FilterStatus --ignore-attribute ExcessHet --ignore-attribute AS_SOR --ignore-attribute AS_FS --ignore-attribute AS_BaseQRankSum --ignore-attribute AS_ReadPosRankSum --ignore-attribute AS_MQRankSum, qual_diff_warning.txt) 0.206s passed
testAnnotationDifferences[5]( -L chr1:945670 --qual-change-allowed 0.1 --ignore-attribute AS_VQSLOD, empty_file.txt) 0.200s passed
testAnnotationDifferences[6]( -L chr1:186475 --mute-acceptable-diffs, empty_file.txt) 0.200s passed
testExpectedFailure 0.400s passed
testGvcfs[0]( -L chr1:864084-864610, empty_file.txt) 0.193s passed
testGvcfs[1]( -L chr1:54682-347969, ref_block_warning.txt) 0.185s passed
testGvcfs[2]( -L chr1:792417, tree_score_warning.txt) 0.187s passed
testGvcfs[3]( -L chr1:792417 --ignore-non-ref-data --annotations-to-keep TREE_SCORE, tree_score_warning.txt) 0.189s passed
testGvcfs[4]( -L chr1:792417 --ignore-attribute TREE_SCORE --ignore-non-ref-data, empty_file.txt) 0.188s passed
testGvcfs[5]( -L chr1:792417 --ignore-attribute TREE_SCORE, empty_file.txt) 0.185s passed
testGvcfs[6]( -L chr1:950542, depth_warning.txt) 0.189s passed
testGvcfs[7]( -L chr1:950542 --ignore-gq0, empty_file.txt) 0.191s passed
testMixedPloidy 0.278s passed

Standard output

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[14:15:47] Executing test VCFComparatorIntegrationTest:testVcfs
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[14:15:47] Executing test VCFComparatorIntegrationTest:testVcfs
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[14:15:48] Executing test VCFComparatorIntegrationTest:testVcfs
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[14:15:48] Executing test VCFComparatorIntegrationTest:testVcfs
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[14:15:48] Executing test VCFComparatorIntegrationTest:testVcfs
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[14:15:48] Executing test VCFComparatorIntegrationTest:testVcfs
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[14:15:48] Executing test VCFComparatorIntegrationTest:testVcfs
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[14:15:49] Executing test VCFComparatorIntegrationTest:testGvcfs
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[14:15:49] Executing test VCFComparatorIntegrationTest:testGvcfs
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[14:15:49] Executing test VCFComparatorIntegrationTest:testGvcfs
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[14:15:50] Executing test VCFComparatorIntegrationTest:testGvcfs
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[14:15:50] Executing test VCFComparatorIntegrationTest:testGvcfs
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[14:15:50] Executing test VCFComparatorIntegrationTest:testGvcfs
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[14:15:50] Executing test VCFComparatorIntegrationTest:testGvcfs
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[14:15:50] Executing test VCFComparatorIntegrationTest:testGvcfs
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[14:15:51] Executing test VCFComparatorIntegrationTest:testMixedPloidy
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[14:15:51] Executing test VCFComparatorIntegrationTest:testMixedPloidy

Standard error

[May 27, 2025 at 2:15:47 PM GMT] org.broadinstitute.hellbender.tools.walkers.variantutils.VCFComparator done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
[May 27, 2025 at 2:15:48 PM GMT] org.broadinstitute.hellbender.tools.walkers.variantutils.VCFComparator done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
[May 27, 2025 at 2:15:48 PM GMT] org.broadinstitute.hellbender.tools.walkers.variantutils.VCFComparator done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
[May 27, 2025 at 2:15:48 PM GMT] org.broadinstitute.hellbender.tools.walkers.variantutils.VCFComparator done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
[May 27, 2025 at 2:15:48 PM GMT] org.broadinstitute.hellbender.tools.walkers.variantutils.VCFComparator done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
[May 27, 2025 at 2:15:48 PM GMT] org.broadinstitute.hellbender.tools.walkers.variantutils.VCFComparator done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
[May 27, 2025 at 2:15:49 PM GMT] org.broadinstitute.hellbender.tools.walkers.variantutils.VCFComparator done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
[May 27, 2025 at 2:15:49 PM GMT] org.broadinstitute.hellbender.tools.walkers.variantutils.VCFComparator done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
[May 27, 2025 at 2:15:49 PM GMT] org.broadinstitute.hellbender.tools.walkers.variantutils.VCFComparator done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
[May 27, 2025 at 2:15:49 PM GMT] org.broadinstitute.hellbender.tools.walkers.variantutils.VCFComparator done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
[May 27, 2025 at 2:15:49 PM GMT] org.broadinstitute.hellbender.tools.walkers.variantutils.VCFComparator done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
[May 27, 2025 at 2:15:50 PM GMT] org.broadinstitute.hellbender.tools.walkers.variantutils.VCFComparator done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
[May 27, 2025 at 2:15:50 PM GMT] org.broadinstitute.hellbender.tools.walkers.variantutils.VCFComparator done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
[May 27, 2025 at 2:15:50 PM GMT] org.broadinstitute.hellbender.tools.walkers.variantutils.VCFComparator done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
[May 27, 2025 at 2:15:50 PM GMT] org.broadinstitute.hellbender.tools.walkers.variantutils.VCFComparator done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
[May 27, 2025 at 2:15:50 PM GMT] org.broadinstitute.hellbender.tools.walkers.variantutils.VCFComparator done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
[May 27, 2025 at 2:15:51 PM GMT] org.broadinstitute.hellbender.tools.walkers.variantutils.VCFComparator done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
[May 27, 2025 at 2:15:51 PM GMT] org.broadinstitute.hellbender.tools.walkers.variantutils.VCFComparator done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
[May 27, 2025 at 2:15:51 PM GMT] org.broadinstitute.hellbender.tools.walkers.variantutils.VCFComparator done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000