Class org.broadinstitute.hellbender.tools.reference.CheckReferenceCompatibilityIntegrationTest

all > org.broadinstitute.hellbender.tools.reference > CheckReferenceCompatibilityIntegrationTest
16

tests
0

failures
0

ignored
1.020s

duration
100%

successful

Tests

Test Duration Result
testReferenceCompatibilityBAMWithMD5s[0](/home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/reference/CompareReferences/hg19mini.fasta, src/test/resources/org/broadinstitute/hellbender/tools/reference/CheckReferenceCompatibility/reads_data_source_test1_withmd5s.bam, src/test/resources/org/broadinstitute/hellbender/tools/reference/CheckReferenceCompatibility/expected.testReferenceCompatibilityBAMWithMD5s_exactmatch.table) 0.066s passed
testReferenceCompatibilityBAMWithMD5s[1](/home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/reference/CompareReferences/hg19mini.fasta, src/test/resources/org/broadinstitute/hellbender/tools/reference/CheckReferenceCompatibility/reads_data_source_test1_withmd5s_missingchr1.bam, src/test/resources/org/broadinstitute/hellbender/tools/reference/CheckReferenceCompatibility/expected.testReferenceCompatibilityBAMWithMD5s_subset.table) 0.065s passed
testReferenceCompatibilityBAMWithMD5s[2](/home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/reference/CompareReferences/hg19mini_missingchr3.fasta, src/test/resources/org/broadinstitute/hellbender/tools/reference/CheckReferenceCompatibility/reads_data_source_test1_withmd5s.bam, src/test/resources/org/broadinstitute/hellbender/tools/reference/CheckReferenceCompatibility/expected.testReferenceCompatibilityBAMWithMD5s_notcompatible.table) 0.066s passed
testReferenceCompatibilityBAMWithoutMD5s[0](/home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/reference/CompareReferences/hg19mini.fasta, src/test/resources/org/broadinstitute/hellbender/tools/reference/CheckReferenceCompatibility/reads_data_source_test1_withoutmd5s.bam, src/test/resources/org/broadinstitute/hellbender/tools/reference/CheckReferenceCompatibility/expected.testReferenceCompatibilityBAMWithoutMD5s_compatible.table) 0.065s passed
testReferenceCompatibilityBAMWithoutMD5s[1](/home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/reference/CompareReferences/hg19mini.fasta, src/test/resources/org/broadinstitute/hellbender/tools/reference/CheckReferenceCompatibility/reads_data_source_test1_withoutmd5s_missingchr1.bam, src/test/resources/org/broadinstitute/hellbender/tools/reference/CheckReferenceCompatibility/expected.testReferenceCompatibilityBAMWithoutMD5s_subset.table) 0.065s passed
testReferenceCompatibilityBAMWithoutMD5s[2](/home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/reference/CompareReferences/hg19mini_missingchr3.fasta, src/test/resources/org/broadinstitute/hellbender/tools/reference/CheckReferenceCompatibility/reads_data_source_test1_withoutmd5s.bam, src/test/resources/org/broadinstitute/hellbender/tools/reference/CheckReferenceCompatibility/expected.testReferenceCompatibilityBAMWithoutMD5s_notcompatible.table) 0.063s passed
testReferenceCompatibilityBAMandVCF 0.063s passed
testReferenceCompatibilityMultipleBAMs 0.062s passed
testReferenceCompatibilityMultipleReferencesBAMWithMD5s 0.067s passed
testReferenceCompatibilityMultipleReferencesBAMWithoutMD5s 0.064s passed
testReferenceCompatibilityNoBAMOrVCF 0.060s passed
testReferenceCompatibilityVCFWithMD5s 0.063s passed
testReferenceCompatibilityVCFWithoutMD5s[0](/home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/reference/CompareReferences/hg19mini.fasta, src/test/resources/org/broadinstitute/hellbender/tools/reference/CheckReferenceCompatibility/example_variants_withSequenceDict_withoutmd5s.vcf, src/test/resources/org/broadinstitute/hellbender/tools/reference/CheckReferenceCompatibility/expected.testReferenceCompatibilityVCFWithoutMD5s_match.table) 0.063s passed
testReferenceCompatibilityVCFWithoutMD5s[1](/home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/reference/CompareReferences/hg19mini.fasta, src/test/resources/org/broadinstitute/hellbender/tools/reference/CheckReferenceCompatibility/example_variants_withSequenceDict_withoutmd5s_missingchr1.vcf, src/test/resources/org/broadinstitute/hellbender/tools/reference/CheckReferenceCompatibility/expected.testReferenceCompatibilityVCFWithoutMD5s_subset.table) 0.063s passed
testReferenceCompatibilityVCFWithoutMD5s[2](/home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/reference/CompareReferences/hg19mini_missingchr3.fasta, src/test/resources/org/broadinstitute/hellbender/tools/reference/CheckReferenceCompatibility/example_variants_withSequenceDict_withoutmd5s.vcf, src/test/resources/org/broadinstitute/hellbender/tools/reference/CheckReferenceCompatibility/expected.testReferenceCompatibilityVCFWithoutMD5s_notcompatible.table) 0.063s passed
testReferenceCompatibilityWithoutMD5sMismatch 0.062s passed

Standard error

[October 27, 2025 at 5:44:57 PM UTC] org.broadinstitute.hellbender.tools.reference.CheckReferenceCompatibility done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=3128950784
[October 27, 2025 at 5:44:57 PM UTC] org.broadinstitute.hellbender.tools.reference.CheckReferenceCompatibility done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=3128950784
[October 27, 2025 at 5:44:57 PM UTC] org.broadinstitute.hellbender.tools.reference.CheckReferenceCompatibility done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=3128950784
[October 27, 2025 at 5:44:57 PM UTC] org.broadinstitute.hellbender.tools.reference.CheckReferenceCompatibility done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=3128950784
[October 27, 2025 at 5:44:57 PM UTC] org.broadinstitute.hellbender.tools.reference.CheckReferenceCompatibility done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=3128950784
[October 27, 2025 at 5:44:57 PM UTC] org.broadinstitute.hellbender.tools.reference.CheckReferenceCompatibility done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=3128950784
[October 27, 2025 at 5:44:57 PM UTC] org.broadinstitute.hellbender.tools.reference.CheckReferenceCompatibility done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=3128950784
[October 27, 2025 at 5:44:57 PM UTC] org.broadinstitute.hellbender.tools.reference.CheckReferenceCompatibility done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=3128950784
[October 27, 2025 at 5:44:57 PM UTC] org.broadinstitute.hellbender.tools.reference.CheckReferenceCompatibility done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=3128950784
[October 27, 2025 at 5:44:57 PM UTC] org.broadinstitute.hellbender.tools.reference.CheckReferenceCompatibility done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=3128950784
[October 27, 2025 at 5:44:57 PM UTC] org.broadinstitute.hellbender.tools.reference.CheckReferenceCompatibility done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=3128950784
[October 27, 2025 at 5:44:57 PM UTC] org.broadinstitute.hellbender.tools.reference.CheckReferenceCompatibility done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=3128950784
[October 27, 2025 at 5:44:57 PM UTC] org.broadinstitute.hellbender.tools.reference.CheckReferenceCompatibility done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=3128950784
[October 27, 2025 at 5:44:57 PM UTC] org.broadinstitute.hellbender.tools.reference.CheckReferenceCompatibility done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=3128950784
[October 27, 2025 at 5:44:58 PM UTC] org.broadinstitute.hellbender.tools.reference.CheckReferenceCompatibility done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=3128950784
[October 27, 2025 at 5:44:58 PM UTC] org.broadinstitute.hellbender.tools.reference.CheckReferenceCompatibility done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=3128950784