Class org.broadinstitute.hellbender.tools.CreateBundleIntegrationTest

all > org.broadinstitute.hellbender.tools > CreateBundleIntegrationTest
31

tests
0

failures
0

ignored
2.428s

duration
100%

successful

Tests

Test Duration Result
testBundleCases[0](file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/count_variants_withSequenceDict.vcf, null, null, null, null, null, false, VARIANT_CONTEXTS/2 resource(s)) 0.075s passed
testBundleCases[10](file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/count_variants_withSequenceDict.vcf, VARIANT_CONTEXTS, file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/count_variants_withSequenceDict.vcf.idx, VARIANTS_INDEX, null, null, false, VARIANT_CONTEXTS/2 resource(s)) 0.070s passed
testBundleCases[11](file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/count_variants_withSequenceDict.vcf, VARIANT_CONTEXTS, null, null, null, null, true, VARIANT_CONTEXTS/1 resource(s)) 0.070s passed
testBundleCases[12](file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/count_variants_withSequenceDict.vcf, VARIANT_CONTEXTS, file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/count_variants_withSequenceDict.vcf.idx, VARIANTS_INDEX, null, null, true, VARIANT_CONTEXTS/2 resource(s)) 0.070s passed
testBundleCases[13](file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/count_variants_withSequenceDict.vcf, VARIANT_CONTEXTS, file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/count_variants_withSequenceDict.vcf.idx, VARIANTS_INDEX, [someVariantsCompanion.txt], [someVariantsCT], false, VARIANT_CONTEXTS/3 resource(s)) 0.070s passed
testBundleCases[14](file:///home/runner/work/gatk/gatk/src/test/resources/large/Homo_sapiens_assembly38.20.21.fasta, null, null, null, null, null, false, HAPLOID_REFERENCE/3 resource(s)) 0.069s passed
testBundleCases[15](file:///home/runner/work/gatk/gatk/src/test/resources/large/Homo_sapiens_assembly38.20.21.fasta, HAPLOID_REFERENCE, file:///home/runner/work/gatk/gatk/src/test/resources/large/Homo_sapiens_assembly38.20.21.fasta.fai, REFERENCE_INDEX, [file:///home/runner/work/gatk/gatk/src/test/resources/large/Homo_sapiens_assembly38.20.21.dict], [REFERENCE_DICTIONARY], false, HAPLOID_REFERENCE/3 resource(s)) 0.071s passed
testBundleCases[16](file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/count_variants_withSequenceDict.vcf, primary_ct, null, null, null, null, true, primary_ct/1 resource(s)) 0.070s passed
testBundleCases[17](file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/count_variants_withSequenceDict.vcf, primary_ct, file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/count_variants_withSequenceDict.vcf.idx, secondary_ct, null, null, true, primary_ct/2 resource(s)) 0.069s passed
testBundleCases[18](file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/count_variants_withSequenceDict.vcf, primary_ct, file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/count_variants_withSequenceDict.vcf.idx, secondary_ct, [file:///home/runner/work/gatk/gatk/src/test/resources/large/NA24385.vcf.gz.tbi], [other_ct], true, primary_ct/3 resource(s)) 0.068s passed
testBundleCases[1](file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/count_variants_withSequenceDict.vcf, null, file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/count_variants_withSequenceDict.vcf.idx, VARIANTS_INDEX, null, null, false, VARIANT_CONTEXTS/2 resource(s)) 0.066s passed
testBundleCases[2](file:///home/runner/work/gatk/gatk/src/test/resources/large/NA24385.vcf.gz, null, null, null, null, null, false, VARIANT_CONTEXTS/2 resource(s)) 0.067s passed
testBundleCases[3](file:///home/runner/work/gatk/gatk/src/test/resources/large/NA24385.vcf.gz, null, file:///home/runner/work/gatk/gatk/src/test/resources/large/NA24385.vcf.gz.tbi, VARIANTS_INDEX, null, null, true, VARIANT_CONTEXTS/2 resource(s)) 0.068s passed
testBundleCases[4](gs://hellbender/test/resources/large/1000G.phase3.broad.withGenotypes.chr20.10100000.vcf, null, null, null, null, null, false, VARIANT_CONTEXTS/2 resource(s)) 0.354s passed
testBundleCases[5](gs://hellbender/test/resources/large/1000G.phase3.broad.withGenotypes.chr20.10100000.vcf, null, gs://hellbender/test/resources/large/1000G.phase3.broad.withGenotypes.chr20.10100000.vcf.idx, VARIANTS_INDEX, null, null, false, VARIANT_CONTEXTS/2 resource(s)) 0.071s passed
testBundleCases[6](file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/count_variants_withSequenceDict.vcf, null, null, null, null, null, true, VARIANT_CONTEXTS/1 resource(s)) 0.071s passed
testBundleCases[7](file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/count_variants_withSequenceDict_noIndex.vcf, null, null, null, null, null, true, VARIANT_CONTEXTS/1 resource(s)) 0.072s passed
testBundleCases[8](gs://hellbender/test/resources/large/1000G.phase3.broad.withGenotypes.chr20.10100000.vcf, null, null, null, null, null, true, VARIANT_CONTEXTS/1 resource(s)) 0.069s passed
testBundleCases[9](file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/count_variants_withSequenceDict.vcf, VARIANT_CONTEXTS, null, null, null, null, false, VARIANT_CONTEXTS/2 resource(s)) 0.067s passed
testNegativeBundleCases[0](file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/count_variants_withSequenceDict_noIndex.vcf, null, null, null, null, null, false, VARIANT_CONTEXTS/1 resource(s)) 0.071s passed
testNegativeBundleCases[10](primaryFile.ext, primary_ct, secondaryFile.ext, secondary_ct, [other.txt], null, false, null) 0.068s passed
testNegativeBundleCases[1](file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/count_variants_withSequenceDict.vcf, VARIANT_CONTEXTS, null, null, [other.txt], null, false, null) 0.069s passed
testNegativeBundleCases[2](file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/count_variants_withSequenceDict.vcf, null, file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/count_variants_withSequenceDict.vcf.idx, null, null, null, false, VARIANT_CONTEXTS/2 resource(s)) 0.069s passed
testNegativeBundleCases[3](file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/count_variants_withSequenceDict.vcf, null, file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/count_variants_withSequenceDict.vcf.idx, null, null, null, true, VARIANT_CONTEXTS/2 resource(s)) 0.070s passed
testNegativeBundleCases[4](file:///home/runner/work/gatk/gatk/src/test/resources/large/NA24385.vcf.gz, null, file:///home/runner/work/gatk/gatk/src/test/resources/large/NA24385.vcf.gz.tbi, null, null, null, true, VARIANT_CONTEXTS/2 resource(s)) 0.070s passed
testNegativeBundleCases[5](gs://hellbender/test/resources/large/1000G.phase3.broad.withGenotypes.chr20.10100000.vcf, null, gs://hellbender/test/resources/large/1000G.phase3.broad.withGenotypes.chr20.10100000.vcf.idx, null, null, null, false, VARIANT_CONTEXTS/2 resource(s)) 0.070s passed
testNegativeBundleCases[6](gs://hellbender/test/resources/large/1000G.phase3.broad.withGenotypes.chr20.10100000.vcf, null, gs://hellbender/test/resources/large/1000G.phase3.broad.withGenotypes.chr20.10100000.vcf.idx, null, null, null, true, VARIANT_CONTEXTS/2 resource(s)) 0.068s passed
testNegativeBundleCases[7](primaryFile.ext, null, null, null, null, null, false, null) 0.065s passed
testNegativeBundleCases[8](primaryFile.ext, primary_ct, secondaryFile.ext, null, null, null, false, null) 0.068s passed
testNegativeBundleCases[9](file:///home/runner/work/gatk/gatk/src/test/resources/large/Homo_sapiens_assembly38.20.21.fasta, null, file:///home/runner/work/gatk/gatk/src/test/resources/large/Homo_sapiens_assembly38.20.21.fasta.fai, unknown, null, null, false, null) 0.065s passed
testRequireBundleExtension 0.068s passed

Standard error

[May 27, 2025 at 4:25:43 PM UTC] org.broadinstitute.hellbender.tools.CreateBundle done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[May 27, 2025 at 4:25:43 PM UTC] org.broadinstitute.hellbender.tools.CreateBundle done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[May 27, 2025 at 4:25:43 PM UTC] org.broadinstitute.hellbender.tools.CreateBundle done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[May 27, 2025 at 4:25:43 PM UTC] org.broadinstitute.hellbender.tools.CreateBundle done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[May 27, 2025 at 4:25:44 PM UTC] org.broadinstitute.hellbender.tools.CreateBundle done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[May 27, 2025 at 4:25:44 PM UTC] org.broadinstitute.hellbender.tools.CreateBundle done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[May 27, 2025 at 4:25:44 PM UTC] org.broadinstitute.hellbender.tools.CreateBundle done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[May 27, 2025 at 4:25:44 PM UTC] org.broadinstitute.hellbender.tools.CreateBundle done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[May 27, 2025 at 4:25:44 PM UTC] org.broadinstitute.hellbender.tools.CreateBundle done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[May 27, 2025 at 4:25:44 PM UTC] org.broadinstitute.hellbender.tools.CreateBundle done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[May 27, 2025 at 4:25:44 PM UTC] org.broadinstitute.hellbender.tools.CreateBundle done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[May 27, 2025 at 4:25:44 PM UTC] org.broadinstitute.hellbender.tools.CreateBundle done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[May 27, 2025 at 4:25:44 PM UTC] org.broadinstitute.hellbender.tools.CreateBundle done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[May 27, 2025 at 4:25:44 PM UTC] org.broadinstitute.hellbender.tools.CreateBundle done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[May 27, 2025 at 4:25:44 PM UTC] org.broadinstitute.hellbender.tools.CreateBundle done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[May 27, 2025 at 4:25:44 PM UTC] org.broadinstitute.hellbender.tools.CreateBundle done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[May 27, 2025 at 4:25:45 PM UTC] org.broadinstitute.hellbender.tools.CreateBundle done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[May 27, 2025 at 4:25:45 PM UTC] org.broadinstitute.hellbender.tools.CreateBundle done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[May 27, 2025 at 4:25:45 PM UTC] org.broadinstitute.hellbender.tools.CreateBundle done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[May 27, 2025 at 4:25:45 PM UTC] org.broadinstitute.hellbender.tools.CreateBundle done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[May 27, 2025 at 4:25:45 PM UTC] org.broadinstitute.hellbender.tools.CreateBundle done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[May 27, 2025 at 4:25:45 PM UTC] org.broadinstitute.hellbender.tools.CreateBundle done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[May 27, 2025 at 4:25:45 PM UTC] org.broadinstitute.hellbender.tools.CreateBundle done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[May 27, 2025 at 4:25:45 PM UTC] org.broadinstitute.hellbender.tools.CreateBundle done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[May 27, 2025 at 4:25:45 PM UTC] org.broadinstitute.hellbender.tools.CreateBundle done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[May 27, 2025 at 4:25:45 PM UTC] org.broadinstitute.hellbender.tools.CreateBundle done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[May 27, 2025 at 4:25:45 PM UTC] org.broadinstitute.hellbender.tools.CreateBundle done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[May 27, 2025 at 4:25:45 PM UTC] org.broadinstitute.hellbender.tools.CreateBundle done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[May 27, 2025 at 4:25:45 PM UTC] org.broadinstitute.hellbender.tools.CreateBundle done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000