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

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

tests
0

failures
0

ignored
1m1.51s

duration
100%

successful

Tests

Test Duration Result
testPositiveAnnotationForOneVariantTypeIsCompletelyMissing 3.109s passed
testPositiveAnnotationsOfSpecifiedVariantTypesNotPresent 3.087s passed
testSNPOnlyModelsFromSNPOnlyAndSNPPlusIndelAnnotationsAreIdentical 6.268s passed
testValidInputs[0](extract.nonAS.snpIndel.posUn.train.snp.posOnly.IF, --mode SNP --model-backend PYTHON_IFOREST) 3.136s 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) 5.514s passed
testValidInputs[11](extract.AS.snpIndel.posUn.train.snpIndel.posOnly.IFDifferentSeed, --mode SNP --mode INDEL --python-script /tmp/isolation-forest.4932601032160847590.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) 4.836s 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) 3.098s passed
testValidInputs[2](extract.nonAS.snpIndel.posUn.train.snp.posOnly.IFDifferentSeed, --mode SNP --python-script /tmp/isolation-forest.4932601032160847590.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) 2.449s passed
testValidInputs[3](extract.nonAS.snpIndel.posUn.train.snpIndel.posOnly.IF, --mode SNP --mode INDEL --model-backend PYTHON_IFOREST) 5.501s 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) 5.466s passed
testValidInputs[5](extract.nonAS.snpIndel.posUn.train.snpIndel.posOnly.IFDifferentSeed, --mode SNP --mode INDEL --python-script /tmp/isolation-forest.4932601032160847590.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) 4.819s passed
testValidInputs[6](extract.AS.snpIndel.posUn.train.snp.posOnly.IF, --mode SNP --model-backend PYTHON_IFOREST) 3.104s 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) 3.104s passed
testValidInputs[8](extract.AS.snpIndel.posUn.train.snp.posOnly.IFDifferentSeed, --mode SNP --python-script /tmp/isolation-forest.4932601032160847590.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) 2.480s passed
testValidInputs[9](extract.AS.snpIndel.posUn.train.snpIndel.posOnly.IF, --mode SNP --mode INDEL --model-backend PYTHON_IFOREST) 5.543s 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

[November 26, 2025 at 6:47:01 PM GMT] org.broadinstitute.hellbender.tools.walkers.vqsr.scalable.TrainVariantAnnotationsModel done. Elapsed time: 0.05 minutes.
Runtime.totalMemory()=1048576000
[November 26, 2025 at 6:47:05 PM GMT] org.broadinstitute.hellbender.tools.walkers.vqsr.scalable.TrainVariantAnnotationsModel done. Elapsed time: 0.05 minutes.
Runtime.totalMemory()=1048576000
[November 26, 2025 at 6:47:08 PM GMT] org.broadinstitute.hellbender.tools.walkers.vqsr.scalable.TrainVariantAnnotationsModel done. Elapsed time: 0.05 minutes.
Runtime.totalMemory()=1048576000
[November 26, 2025 at 6:47:11 PM GMT] org.broadinstitute.hellbender.tools.walkers.vqsr.scalable.TrainVariantAnnotationsModel done. Elapsed time: 0.05 minutes.
Runtime.totalMemory()=1048576000
[November 26, 2025 at 6:47:14 PM GMT] org.broadinstitute.hellbender.tools.walkers.vqsr.scalable.TrainVariantAnnotationsModel done. Elapsed time: 0.05 minutes.
Runtime.totalMemory()=1048576000
[November 26, 2025 at 6:47:17 PM GMT] org.broadinstitute.hellbender.tools.walkers.vqsr.scalable.TrainVariantAnnotationsModel done. Elapsed time: 0.05 minutes.
Runtime.totalMemory()=1048576000
[November 26, 2025 at 6:47:20 PM GMT] org.broadinstitute.hellbender.tools.walkers.vqsr.scalable.TrainVariantAnnotationsModel done. Elapsed time: 0.04 minutes.
Runtime.totalMemory()=1048576000
[November 26, 2025 at 6:47:25 PM GMT] org.broadinstitute.hellbender.tools.walkers.vqsr.scalable.TrainVariantAnnotationsModel done. Elapsed time: 0.09 minutes.
Runtime.totalMemory()=1048576000
[November 26, 2025 at 6:47:30 PM GMT] org.broadinstitute.hellbender.tools.walkers.vqsr.scalable.TrainVariantAnnotationsModel done. Elapsed time: 0.09 minutes.
Runtime.totalMemory()=1048576000
[November 26, 2025 at 6:47:35 PM GMT] org.broadinstitute.hellbender.tools.walkers.vqsr.scalable.TrainVariantAnnotationsModel done. Elapsed time: 0.08 minutes.
Runtime.totalMemory()=1048576000
[November 26, 2025 at 6:47:38 PM GMT] org.broadinstitute.hellbender.tools.walkers.vqsr.scalable.TrainVariantAnnotationsModel done. Elapsed time: 0.05 minutes.
Runtime.totalMemory()=1048576000
[November 26, 2025 at 6:47:42 PM GMT] org.broadinstitute.hellbender.tools.walkers.vqsr.scalable.TrainVariantAnnotationsModel done. Elapsed time: 0.05 minutes.
Runtime.totalMemory()=1048576000
[November 26, 2025 at 6:47:44 PM GMT] org.broadinstitute.hellbender.tools.walkers.vqsr.scalable.TrainVariantAnnotationsModel done. Elapsed time: 0.04 minutes.
Runtime.totalMemory()=1048576000
[November 26, 2025 at 6:47:50 PM GMT] org.broadinstitute.hellbender.tools.walkers.vqsr.scalable.TrainVariantAnnotationsModel done. Elapsed time: 0.09 minutes.
Runtime.totalMemory()=1048576000
[November 26, 2025 at 6:47:55 PM GMT] org.broadinstitute.hellbender.tools.walkers.vqsr.scalable.TrainVariantAnnotationsModel done. Elapsed time: 0.09 minutes.
Runtime.totalMemory()=1048576000
[November 26, 2025 at 6:48:00 PM GMT] org.broadinstitute.hellbender.tools.walkers.vqsr.scalable.TrainVariantAnnotationsModel done. Elapsed time: 0.08 minutes.
Runtime.totalMemory()=1048576000