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]) | 0.007s | passed |
| testGetName | 0.006s | passed |
| testGetSequenceDictionaryAlternate | 0.004s | passed |
| testGetSequenceDictionaryCompatible | 0.005s | passed |
| testGetSequenceDictionaryIncompatible | 0.003s | passed |
| testIterator | 0.006s | passed |
| testIteratorOverlapping | 0.005s | 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]) | 0.002s | passed |
| testQueryGVCF[6](1:150-200, [aa]) | 0.001s | passed |
| testQueryGVCF[7](1:150-250, [aa]) | 0.001s | passed |
| testQueryGVCF[8](1:200-201, [aa]) | 0.001s | passed |
| testQueryGVCF[9](1:201-3000, []) | 0.001s | passed |
| testQueryOverUnindexedFile | 0.001s | passed |
| testRejectNonExistentFile | 0s | passed |
| testRejectNullFile | 0s | passed |
| testRequireFeatureInput | 0s | passed |
| testSerialQueries | 0.005s | passed |
| testSetIntervals | 0.004s | 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]) | 0.003s | 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]) | 0.003s | 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]) | 0.003s | 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]) | 0.003s | passed |
| testVariantSource | 0.006s | passed |
Standard error
20:47:49.732 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 20:47:49.733 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 20:47:49.734 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 20:47:49.738 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/baseVariants.vcf 20:47:49.741 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/baseVariantsAlternateDictionary.vcf 20:47:49.745 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/baseVariants.vcf 20:47:49.746 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/baseVariantsAlternateDictionary.vcf 20:47:49.750 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/interleavedVariants_1.vcf 20:47:49.752 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/interleavedVariants_2.vcf 20:47:49.755 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/baseVariants.vcf 20:47:49.756 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/baseVariantsConflictingDictionary.vcf 20:47:49.758 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/interleavedVariants_1.vcf 20:47:49.759 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/interleavedVariants_2.vcf 20:47:49.764 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/interleavedVariants_1_WithOverlap.vcf 20:47:49.766 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/interleavedVariants_2_WithOverlap.vcf 20:47:49.770 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf 20:47:49.770 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 20:47:49.770 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 20:47:49.772 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf 20:47:49.773 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 20:47:49.773 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 20:47:49.774 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf 20:47:49.775 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 20:47:49.775 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 20:47:49.776 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf 20:47:49.777 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 20:47:49.777 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 20:47:49.778 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf 20:47:49.779 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 20:47:49.779 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 20:47:49.780 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf 20:47:49.781 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 20:47:49.781 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 20:47:49.782 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf 20:47:49.783 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 20:47:49.783 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 20:47:49.785 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf 20:47:49.785 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 20:47:49.785 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 20:47:49.786 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf 20:47:49.787 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 20:47:49.787 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 20:47:49.788 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf 20:47:49.789 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 20:47:49.789 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 20:47:49.791 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/unindexed.vcf 20:47:49.791 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 20:47:49.793 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/interleavedVariants_1.vcf 20:47:49.795 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/interleavedVariants_2.vcf 20:47:49.798 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/interleavedVariants_1.vcf 20:47:49.799 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/interleavedVariants_2.vcf 20:47:49.802 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 20:47:49.803 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 20:47:49.803 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 20:47:49.804 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 20:47:49.805 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 20:47:49.805 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 20:47:49.806 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 20:47:49.807 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 20:47:49.807 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 20:47:49.809 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 20:47:49.809 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 20:47:49.809 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 20:47:49.811 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 20:47:49.812 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 20:47:49.812 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 20:47:49.813 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 20:47:49.814 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 20:47:49.814 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 20:47:49.816 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 20:47:49.816 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 20:47:49.816 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 20:47:49.818 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 20:47:49.818 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 20:47:49.818 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 20:47:49.820 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 20:47:49.820 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 20:47:49.821 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 20:47:49.822 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 20:47:49.823 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 20:47:49.823 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 20:47:49.825 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 20:47:49.825 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 20:47:49.825 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 20:47:49.827 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 20:47:49.828 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 20:47:49.828 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 20:47:49.830 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 20:47:49.830 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 20:47:49.830 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 20:47:49.832 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 20:47:49.832 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 20:47:49.832 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 20:47:49.836 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/interleavedVariants_1.vcf 20:47:49.838 INFO FeatureManager - Using codec VCFCodec to read file file:///gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/engine/MultiVariantDataSource/interleavedVariants_2.vcf