Class org.broadinstitute.hellbender.engine.MultiVariantDataSourceUnitTest
|
100%
successful |
Tests
| Test | Duration | Result |
|---|---|---|
| testCompleteIterationOverFile[0](/gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf, [a, b, c, d, e, f, g, h, i, j, k, l, m, n, o, p, q, r, s, t, u, v, w, x, y, z]) | 0.006s | passed |
| testGetName | 0.006s | passed |
| testGetSequenceDictionaryAlternate | 0.004s | passed |
| testGetSequenceDictionaryCompatible | 0.006s | passed |
| testGetSequenceDictionaryIncompatible | 0.003s | passed |
| testIterator | 0.006s | passed |
| testIteratorOverlapping | 0.006s | passed |
| testQueryGVCF[0](1:1-99, []) | 0.002s | passed |
| testQueryGVCF[1](1:50-100, [aa]) | 0.002s | passed |
| testQueryGVCF[2](1:50-150, [aa]) | 0.002s | passed |
| testQueryGVCF[3](1:100-100, [aa]) | 0.002s | passed |
| testQueryGVCF[4](1:100-150, [aa]) | 0.002s | passed |
| testQueryGVCF[5](1:100-200, [aa]) | 0.001s | passed |
| testQueryGVCF[6](1:150-200, [aa]) | 0.002s | passed |
| testQueryGVCF[7](1:150-250, [aa]) | 0.002s | passed |
| testQueryGVCF[8](1:200-201, [aa]) | 0.002s | passed |
| testQueryGVCF[9](1:201-3000, []) | 0.002s | passed |
| testQueryOverUnindexedFile | 0.002s | passed |
| testRejectNonExistentFile | 0s | passed |
| testRejectNullFile | 0s | passed |
| testRequireFeatureInput | 0s | passed |
| testSerialQueries | 0.004s | passed |
| testSetIntervals | 0.005s | passed |
| testTraversalByIntervals[0]([1:100-200], [a, b, c]) | 0.002s | passed |
| testTraversalByIntervals[10]([1:100-200, 1:1000-2000, 1:2000-3000], [a, b, c, j, k, l, m, n]) | 0.002s | passed |
| testTraversalByIntervals[11]([1:100-200, 1:1000-2000, 1:2000-3000, 1:4000-5000], [a, b, c, j, k, l, m, n]) | 0.002s | passed |
| testTraversalByIntervals[12]([1:1-99, 1:287-290, 1:500-600, 2:201-524, 2:1000-2000, 4:1-500], []) | 0.002s | passed |
| testTraversalByIntervals[13]([], [a, b, c, d, e, f, g, h, i, j, k, l, m, n, o, p, q, r, s, t, u, v, w, x, y, z]) | 0.002s | passed |
| testTraversalByIntervals[1]([1:100-200, 1:1000-2000], [a, b, c, j, k, l, m, n]) | 0.002s | passed |
| testTraversalByIntervals[2]([1:100-203, 1:205-284, 1:286-1000], [a, b, c, d, e, f, h, i, j, k]) | 0.002s | passed |
| testTraversalByIntervals[3]([1:100-203, 1:204-285, 1:286-1000], [a, b, c, d, e, f, g, h, i, j, k]) | 0.002s | passed |
| testTraversalByIntervals[4]([1:200-300, 2:500-600], [b, c, d, e, f, g, h, p, q]) | 0.002s | passed |
| testTraversalByIntervals[5]([1:200-203, 1:205-285, 2:200-548, 2:550-650, 4:700-800], [b, c, d, e, f, g, o, p, q, r, y, z]) | 0.002s | passed |
| testTraversalByIntervals[6]([1:1-50, 1:100-200, 1:1000-2000], [a, b, c, j, k, l, m, n]) | 0.002s | passed |
| testTraversalByIntervals[7]([1:1-50, 1:60-70, 1:100-200, 1:1000-2000], [a, b, c, j, k, l, m, n]) | 0.002s | passed |
| testTraversalByIntervals[8]([1:100-200, 1:500-600, 1:1000-2000], [a, b, c, j, k, l, m, n]) | 0.002s | passed |
| testTraversalByIntervals[9]([1:100-200, 1:500-600, 1:700-800, 1:1000-2000], [a, b, c, j, k, l, m, n]) | 0.002s | passed |
| testVariantSource | 0.006s | passed |
Standard error
22:03:38.895 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:03:38.896 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.896 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.900 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/baseVariants.vcf 22:03:38.903 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/baseVariantsAlternateDictionary.vcf 22:03:38.906 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/baseVariants.vcf 22:03:38.907 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/baseVariantsAlternateDictionary.vcf 22:03:38.910 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/interleavedVariants_1.vcf 22:03:38.912 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/interleavedVariants_2.vcf 22:03:38.916 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/baseVariants.vcf 22:03:38.918 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/baseVariantsConflictingDictionary.vcf 22:03:38.919 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/interleavedVariants_1.vcf 22:03:38.921 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/interleavedVariants_2.vcf 22:03:38.925 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/interleavedVariants_1_WithOverlap.vcf 22:03:38.927 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/interleavedVariants_2_WithOverlap.vcf 22:03:38.931 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf 22:03:38.931 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.931 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.933 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf 22:03:38.933 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.934 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.935 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf 22:03:38.935 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.936 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.937 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf 22:03:38.937 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.937 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.939 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf 22:03:38.939 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.939 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.941 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf 22:03:38.941 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.941 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.942 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf 22:03:38.943 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.943 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.944 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf 22:03:38.945 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.946 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.947 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf 22:03:38.947 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.948 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.949 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf 22:03:38.949 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.950 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.951 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/unindexed.vcf 22:03:38.952 WARN MultiVariantDataSource - A sequence dictionary is required for each input when using multiple inputs, and one could not be obtained for feature input: unindexed. The input may not exist or may not have a valid header 22:03:38.954 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/interleavedVariants_1.vcf 22:03:38.956 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/interleavedVariants_2.vcf 22:03:38.958 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/interleavedVariants_1.vcf 22:03:38.960 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/interleavedVariants_2.vcf 22:03:38.963 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:03:38.963 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.964 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.965 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:03:38.965 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.965 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.967 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:03:38.967 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.967 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.969 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:03:38.969 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.969 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.971 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:03:38.971 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.972 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.973 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:03:38.973 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.973 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.975 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:03:38.975 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.975 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.977 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:03:38.977 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.977 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.979 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:03:38.979 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.979 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.981 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:03:38.981 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.981 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.983 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:03:38.983 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.983 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.985 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:03:38.985 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.985 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.987 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:03:38.987 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.987 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.989 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:03:38.989 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.989 WARN IndexUtils - Feature file "file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file 22:03:38.993 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/interleavedVariants_1.vcf 22:03:38.994 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/interleavedVariants_2.vcf