Class org.broadinstitute.hellbender.tools.walkers.vqsr.scalable.TrainVariantAnnotationsModelIntegrationTest

all > org.broadinstitute.hellbender.tools.walkers.vqsr.scalable > TrainVariantAnnotationsModelIntegrationTest
15

tests
0

failures
0

ignored
1m2.45s

duration
100%

successful

Tests

Test Duration Result
testPositiveAnnotationForOneVariantTypeIsCompletelyMissing 3.172s passed
testPositiveAnnotationsOfSpecifiedVariantTypesNotPresent 3.238s passed
testSNPOnlyModelsFromSNPOnlyAndSNPPlusIndelAnnotationsAreIdentical 6.404s passed
testValidInputs[0](extract.nonAS.snpIndel.posUn.train.snp.posOnly.IF, --mode SNP --model-backend PYTHON_IFOREST) 3.182s passed
testValidInputs[10](extract.AS.snpIndel.posUn.train.snpIndel.posOnly.IFDifferentSeed, --mode SNP --mode INDEL --hyperparameters-json /gatkCloneMountPoint/src/test/resources/large/org/broadinstitute/hellbender/tools/walkers/vqsr/scalable/train/isolation-forest-hyperparameters-different-seed.json --model-backend PYTHON_IFOREST) 5.550s passed
testValidInputs[11](extract.AS.snpIndel.posUn.train.snpIndel.posOnly.IFDifferentSeed, --mode SNP --mode INDEL --python-script /tmp/isolation-forest.10788502528088988228.py --hyperparameters-json /gatkCloneMountPoint/src/test/resources/large/org/broadinstitute/hellbender/tools/walkers/vqsr/scalable/train/isolation-forest-hyperparameters-different-seed.json --model-backend PYTHON_SCRIPT) 4.974s passed
testValidInputs[1](extract.nonAS.snpIndel.posUn.train.snp.posOnly.IFDifferentSeed, --mode SNP --hyperparameters-json /gatkCloneMountPoint/src/test/resources/large/org/broadinstitute/hellbender/tools/walkers/vqsr/scalable/train/isolation-forest-hyperparameters-different-seed.json --model-backend PYTHON_IFOREST) 3.139s passed
testValidInputs[2](extract.nonAS.snpIndel.posUn.train.snp.posOnly.IFDifferentSeed, --mode SNP --python-script /tmp/isolation-forest.10788502528088988228.py --hyperparameters-json /gatkCloneMountPoint/src/test/resources/large/org/broadinstitute/hellbender/tools/walkers/vqsr/scalable/train/isolation-forest-hyperparameters-different-seed.json --model-backend PYTHON_SCRIPT) 2.512s passed
testValidInputs[3](extract.nonAS.snpIndel.posUn.train.snpIndel.posOnly.IF, --mode SNP --mode INDEL --model-backend PYTHON_IFOREST) 5.591s passed
testValidInputs[4](extract.nonAS.snpIndel.posUn.train.snpIndel.posOnly.IFDifferentSeed, --mode SNP --mode INDEL --hyperparameters-json /gatkCloneMountPoint/src/test/resources/large/org/broadinstitute/hellbender/tools/walkers/vqsr/scalable/train/isolation-forest-hyperparameters-different-seed.json --model-backend PYTHON_IFOREST) 5.474s passed
testValidInputs[5](extract.nonAS.snpIndel.posUn.train.snpIndel.posOnly.IFDifferentSeed, --mode SNP --mode INDEL --python-script /tmp/isolation-forest.10788502528088988228.py --hyperparameters-json /gatkCloneMountPoint/src/test/resources/large/org/broadinstitute/hellbender/tools/walkers/vqsr/scalable/train/isolation-forest-hyperparameters-different-seed.json --model-backend PYTHON_SCRIPT) 4.923s passed
testValidInputs[6](extract.AS.snpIndel.posUn.train.snp.posOnly.IF, --mode SNP --model-backend PYTHON_IFOREST) 3.116s passed
testValidInputs[7](extract.AS.snpIndel.posUn.train.snp.posOnly.IFDifferentSeed, --mode SNP --hyperparameters-json /gatkCloneMountPoint/src/test/resources/large/org/broadinstitute/hellbender/tools/walkers/vqsr/scalable/train/isolation-forest-hyperparameters-different-seed.json --model-backend PYTHON_IFOREST) 3.132s passed
testValidInputs[8](extract.AS.snpIndel.posUn.train.snp.posOnly.IFDifferentSeed, --mode SNP --python-script /tmp/isolation-forest.10788502528088988228.py --hyperparameters-json /gatkCloneMountPoint/src/test/resources/large/org/broadinstitute/hellbender/tools/walkers/vqsr/scalable/train/isolation-forest-hyperparameters-different-seed.json --model-backend PYTHON_SCRIPT) 2.473s passed
testValidInputs[9](extract.AS.snpIndel.posUn.train.snpIndel.posOnly.IF, --mode SNP --mode INDEL --model-backend PYTHON_IFOREST) 5.567s passed

Standard output

dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found
dataset: </data/scores> and </data/scores>
0 differences found

Standard error

[October 24, 2025 at 9:03:11 PM GMT] org.broadinstitute.hellbender.tools.walkers.vqsr.scalable.TrainVariantAnnotationsModel done. Elapsed time: 0.05 minutes.
Runtime.totalMemory()=1048576000
[October 24, 2025 at 9:03:14 PM GMT] org.broadinstitute.hellbender.tools.walkers.vqsr.scalable.TrainVariantAnnotationsModel done. Elapsed time: 0.05 minutes.
Runtime.totalMemory()=1048576000
[October 24, 2025 at 9:03:17 PM GMT] org.broadinstitute.hellbender.tools.walkers.vqsr.scalable.TrainVariantAnnotationsModel done. Elapsed time: 0.05 minutes.
Runtime.totalMemory()=1048576000
[October 24, 2025 at 9:03:20 PM GMT] org.broadinstitute.hellbender.tools.walkers.vqsr.scalable.TrainVariantAnnotationsModel done. Elapsed time: 0.05 minutes.
Runtime.totalMemory()=1048576000
[October 24, 2025 at 9:03:24 PM GMT] org.broadinstitute.hellbender.tools.walkers.vqsr.scalable.TrainVariantAnnotationsModel done. Elapsed time: 0.05 minutes.
Runtime.totalMemory()=1048576000
[October 24, 2025 at 9:03:27 PM GMT] org.broadinstitute.hellbender.tools.walkers.vqsr.scalable.TrainVariantAnnotationsModel done. Elapsed time: 0.05 minutes.
Runtime.totalMemory()=1048576000
[October 24, 2025 at 9:03:29 PM GMT] org.broadinstitute.hellbender.tools.walkers.vqsr.scalable.TrainVariantAnnotationsModel done. Elapsed time: 0.04 minutes.
Runtime.totalMemory()=1048576000
[October 24, 2025 at 9:03:35 PM GMT] org.broadinstitute.hellbender.tools.walkers.vqsr.scalable.TrainVariantAnnotationsModel done. Elapsed time: 0.09 minutes.
Runtime.totalMemory()=1048576000
[October 24, 2025 at 9:03:40 PM GMT] org.broadinstitute.hellbender.tools.walkers.vqsr.scalable.TrainVariantAnnotationsModel done. Elapsed time: 0.09 minutes.
Runtime.totalMemory()=1048576000
[October 24, 2025 at 9:03:45 PM GMT] org.broadinstitute.hellbender.tools.walkers.vqsr.scalable.TrainVariantAnnotationsModel done. Elapsed time: 0.08 minutes.
Runtime.totalMemory()=1048576000
[October 24, 2025 at 9:03:48 PM GMT] org.broadinstitute.hellbender.tools.walkers.vqsr.scalable.TrainVariantAnnotationsModel done. Elapsed time: 0.05 minutes.
Runtime.totalMemory()=1048576000
[October 24, 2025 at 9:03:52 PM GMT] org.broadinstitute.hellbender.tools.walkers.vqsr.scalable.TrainVariantAnnotationsModel done. Elapsed time: 0.05 minutes.
Runtime.totalMemory()=1048576000
[October 24, 2025 at 9:03:54 PM GMT] org.broadinstitute.hellbender.tools.walkers.vqsr.scalable.TrainVariantAnnotationsModel done. Elapsed time: 0.04 minutes.
Runtime.totalMemory()=1048576000
[October 24, 2025 at 9:04:00 PM GMT] org.broadinstitute.hellbender.tools.walkers.vqsr.scalable.TrainVariantAnnotationsModel done. Elapsed time: 0.09 minutes.
Runtime.totalMemory()=1048576000
[October 24, 2025 at 9:04:05 PM GMT] org.broadinstitute.hellbender.tools.walkers.vqsr.scalable.TrainVariantAnnotationsModel done. Elapsed time: 0.09 minutes.
Runtime.totalMemory()=1048576000
[October 24, 2025 at 9:04:10 PM GMT] org.broadinstitute.hellbender.tools.walkers.vqsr.scalable.TrainVariantAnnotationsModel done. Elapsed time: 0.08 minutes.
Runtime.totalMemory()=1048576000