Class org.broadinstitute.hellbender.engine.FeatureDataSourceUnitTest
|
100%
successful |
Tests
| Test | Duration | Result |
|---|---|---|
| testBlowUpOnOverflow | 0.002s | passed |
| testCacheFeatureRetrieval[0](org.broadinstitute.hellbender.engine.FeatureCache@35d62807, [(100,[1:1-1, 1:1-100, 1:5-5, 1:10-10, 1:10-100, 1:50-50, 1:51-55, 1:52-52, 1:55-60, 1:75-75, 1:80-100]), (80,[1:1-1, 1:1-100, 1:5-5, 1:10-10, 1:10-100, 1:50-50, 1:51-55, 1:52-52, 1:55-60, 1:75-75, 1:80-100]), (79,[1:1-1, 1:1-100, 1:5-5, 1:10-10, 1:10-100, 1:50-50, 1:51-55, 1:52-52, 1:55-60, 1:75-75]), (80,[1:1-1, 1:1-100, 1:5-5, 1:10-10, 1:10-100, 1:50-50, 1:51-55, 1:52-52, 1:55-60, 1:75-75, 1:80-100]), (75,[1:1-1, 1:1-100, 1:5-5, 1:10-10, 1:10-100, 1:50-50, 1:51-55, 1:52-52, 1:55-60, 1:75-75]), (74,[1:1-1, 1:1-100, 1:5-5, 1:10-10, 1:10-100, 1:50-50, 1:51-55, 1:52-52, 1:55-60]), (54,[1:1-1, 1:1-100, 1:5-5, 1:10-10, 1:10-100, 1:50-50, 1:51-55, 1:52-52]), (52,[1:1-1, 1:1-100, 1:5-5, 1:10-10, 1:10-100, 1:50-50, 1:51-55, 1:52-52]), (51,[1:1-1, 1:1-100, 1:5-5, 1:10-10, 1:10-100, 1:50-50, 1:51-55]), (50,[1:1-1, 1:1-100, 1:5-5, 1:10-10, 1:10-100, 1:50-50]), (49,[1:1-1, 1:1-100, 1:5-5, 1:10-10, 1:10-100]), (10,[1:1-1, 1:1-100, 1:5-5, 1:10-10, 1:10-100]), (9,[1:1-1, 1:1-100, 1:5-5]), (5,[1:1-1, 1:1-100, 1:5-5]), (4,[1:1-1, 1:1-100]), (1,[1:1-1, 1:1-100])]) | 0.001s | passed |
| testCacheFill[0]([1:1-100, 1:50-150, 1:200-300, 1:350-400], 1, 1, 400) | 0s | passed |
| testCacheFill[1]([1:1-100], 1, 1, 100) | 0s | passed |
| testCacheFill[2]([], 1, 1, 1) | 0s | passed |
| testCacheHitDetection[0](org.broadinstitute.hellbender.engine.FeatureCache@3514df8d, 1:50-250, true) | 0s | passed |
| testCacheHitDetection[1](org.broadinstitute.hellbender.engine.FeatureCache@3514df8d, 1:100-200, true) | 0s | passed |
| testCacheHitDetection[2](org.broadinstitute.hellbender.engine.FeatureCache@3514df8d, 1:50-100, true) | 0s | passed |
| testCacheHitDetection[3](org.broadinstitute.hellbender.engine.FeatureCache@3514df8d, 1:200-250, true) | 0s | passed |
| testCacheHitDetection[4](org.broadinstitute.hellbender.engine.FeatureCache@3514df8d, 1:49-100, false) | 0s | passed |
| testCacheHitDetection[5](org.broadinstitute.hellbender.engine.FeatureCache@3514df8d, 1:200-251, false) | 0s | passed |
| testCacheHitDetection[6](org.broadinstitute.hellbender.engine.FeatureCache@3514df8d, 1:1-40, false) | 0s | passed |
| testCacheHitDetection[7](org.broadinstitute.hellbender.engine.FeatureCache@3514df8d, 1:300-350, false) | 0s | passed |
| testCacheHitDetection[8](org.broadinstitute.hellbender.engine.FeatureCache@3514df8d, 2:50-250, false) | 0s | passed |
| testCacheTrimming[0](org.broadinstitute.hellbender.engine.FeatureCache@6f076c53, [(1,[1:1-1, 1:1-100, 1:1-1, 1:1-50, 1:1-3, 1:1-5, 1:5-5, 1:5-50, 1:5-10, 1:50-100, 1:50-50, 1:50-200, 1:100-100, 1:100-110, 1:100-200, 1:100-150, 1:100-199]), (2,[1:1-100, 1:1-50, 1:1-3, 1:1-5, 1:5-5, 1:5-50, 1:5-10, 1:50-100, 1:50-50, 1:50-200, 1:100-100, 1:100-110, 1:100-200, 1:100-150, 1:100-199]), (3,[1:1-100, 1:1-50, 1:1-3, 1:1-5, 1:5-5, 1:5-50, 1:5-10, 1:50-100, 1:50-50, 1:50-200, 1:100-100, 1:100-110, 1:100-200, 1:100-150, 1:100-199]), (4,[1:1-100, 1:1-50, 1:1-5, 1:5-5, 1:5-50, 1:5-10, 1:50-100, 1:50-50, 1:50-200, 1:100-100, 1:100-110, 1:100-200, 1:100-150, 1:100-199]), (5,[1:1-100, 1:1-50, 1:1-5, 1:5-5, 1:5-50, 1:5-10, 1:50-100, 1:50-50, 1:50-200, 1:100-100, 1:100-110, 1:100-200, 1:100-150, 1:100-199]), (6,[1:1-100, 1:1-50, 1:5-50, 1:5-10, 1:50-100, 1:50-50, 1:50-200, 1:100-100, 1:100-110, 1:100-200, 1:100-150, 1:100-199]), (10,[1:1-100, 1:1-50, 1:5-50, 1:5-10, 1:50-100, 1:50-50, 1:50-200, 1:100-100, 1:100-110, 1:100-200, 1:100-150, 1:100-199]), (11,[1:1-100, 1:1-50, 1:5-50, 1:50-100, 1:50-50, 1:50-200, 1:100-100, 1:100-110, 1:100-200, 1:100-150, 1:100-199]), (50,[1:1-100, 1:1-50, 1:5-50, 1:50-100, 1:50-50, 1:50-200, 1:100-100, 1:100-110, 1:100-200, 1:100-150, 1:100-199]), (51,[1:1-100, 1:50-100, 1:50-200, 1:100-100, 1:100-110, 1:100-200, 1:100-150, 1:100-199]), (100,[1:1-100, 1:50-100, 1:50-200, 1:100-100, 1:100-110, 1:100-200, 1:100-150, 1:100-199]), (101,[1:50-200, 1:100-110, 1:100-200, 1:100-150, 1:100-199]), (111,[1:50-200, 1:100-200, 1:100-150, 1:100-199]), (151,[1:50-200, 1:100-200, 1:100-199]), (151,[1:50-200, 1:100-200, 1:100-199]), (200,[1:50-200, 1:100-200])]) | 0.001s | passed |
| testCompleteIterationOverFile[0](/home/runner/work/gatk/gatk/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 |
| testCompleteIterationOverFile[1](/home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/unindexed.vcf, [a, b, c]) | 0.002s | passed |
| testGetHeader | 0.002s | passed |
| testGetName | 0.002s | passed |
| testGetSequenceDictionaryFromIndex | 0.004s | passed |
| testHandleCachingOfEmptyRegion | 0s | passed |
| testHandleInvalidQueryLookahead | 0.001s | passed |
| testHandleNonExistentFile | 0.001s | passed |
| testHandleNullFile | 0s | passed |
| testHandleQueryOverUnindexedFile | 0.002s | passed |
| testIndependentFeatureQuerying[0](1:1-99, []) | 0.003s | passed |
| testIndependentFeatureQuerying[10](1:275-300, [e, f, g, h]) | 0.002s | passed |
| testIndependentFeatureQuerying[11](1:275-284, [e, f]) | 0.002s | passed |
| testIndependentFeatureQuerying[12](1:284-284, [f]) | 0.002s | passed |
| testIndependentFeatureQuerying[13](1:284-285, [f, g]) | 0.002s | passed |
| testIndependentFeatureQuerying[14](1:284-286, [f, g, h]) | 0.002s | passed |
| testIndependentFeatureQuerying[15](1:286-286, [f, h]) | 0.002s | passed |
| testIndependentFeatureQuerying[16](1:287-290, []) | 0.002s | passed |
| testIndependentFeatureQuerying[17](1:999-1000, [i, j, k]) | 0.002s | passed |
| testIndependentFeatureQuerying[18](1:1000-1001, [j, k]) | 0.002s | passed |
| testIndependentFeatureQuerying[19](1:1002-1005, [k]) | 0.002s | passed |
| testIndependentFeatureQuerying[1](1:100-100, [a]) | 0.004s | passed |
| testIndependentFeatureQuerying[20](1:1005-1010, []) | 0.002s | passed |
| testIndependentFeatureQuerying[21](1:1075-1175, [l, m]) | 0.001s | passed |
| testIndependentFeatureQuerying[22](1:1075-1176, [l, m, n]) | 0.002s | passed |
| testIndependentFeatureQuerying[23](1:1077-1176, [m, n]) | 0.002s | passed |
| testIndependentFeatureQuerying[24](1:1170-1180, [n]) | 0.001s | passed |
| testIndependentFeatureQuerying[25](1:1003-1175, [k, l, m]) | 0.001s | passed |
| testIndependentFeatureQuerying[26](1:1-2000, [a, b, c, d, e, f, g, h, i, j, k, l, m, n]) | 0.002s | passed |
| testIndependentFeatureQuerying[27](1:2000-3000, []) | 0.002s | passed |
| testIndependentFeatureQuerying[28](1:286-1175, [f, h, i, j, k, l, m]) | 0.002s | passed |
| testIndependentFeatureQuerying[29](2:200-700, [o, p, q, r, s]) | 0.001s | passed |
| testIndependentFeatureQuerying[2](1:100-200, [a, b, c]) | 0.003s | passed |
| testIndependentFeatureQuerying[30](2:201-699, [p, q, r]) | 0.002s | passed |
| testIndependentFeatureQuerying[31](2:550-560, [q]) | 0.002s | passed |
| testIndependentFeatureQuerying[32](2:549-699, [q, r]) | 0.001s | passed |
| testIndependentFeatureQuerying[33](2:600-700, [r, s]) | 0.002s | passed |
| testIndependentFeatureQuerying[34](2:701-800, []) | 0.001s | passed |
| testIndependentFeatureQuerying[35](3:1-300, [t, u, v]) | 0.001s | passed |
| testIndependentFeatureQuerying[36](3:300-400, [u, v, w]) | 0.002s | passed |
| testIndependentFeatureQuerying[37](3:301-400, [v, w]) | 0.001s | passed |
| testIndependentFeatureQuerying[38](3:301-399, [v]) | 0.002s | passed |
| testIndependentFeatureQuerying[39](3:305-400, [w]) | 0.002s | passed |
| testIndependentFeatureQuerying[3](1:200-202, [b, c]) | 0.002s | passed |
| testIndependentFeatureQuerying[40](3:500-600, []) | 0.001s | passed |
| testIndependentFeatureQuerying[41](4:1-1000, [x, y, z]) | 0.001s | passed |
| testIndependentFeatureQuerying[42](4:600-775, [x, y]) | 0.002s | passed |
| testIndependentFeatureQuerying[43](4:775-776, [y, z]) | 0.001s | passed |
| testIndependentFeatureQuerying[44](4:777-780, [z]) | 0.002s | passed |
| testIndependentFeatureQuerying[45](4:777-300000000, [z]) | 0.001s | passed |
| testIndependentFeatureQuerying[4](1:200-203, [b, c, d]) | 0.003s | passed |
| testIndependentFeatureQuerying[5](1:201-203, [d]) | 0.002s | passed |
| testIndependentFeatureQuerying[6](1:204-204, [d]) | 0.007s | passed |
| testIndependentFeatureQuerying[7](1:206-206, [d]) | 0.003s | passed |
| testIndependentFeatureQuerying[8](1:207-207, []) | 0.002s | passed |
| testIndependentFeatureQuerying[9](1:200-300, [b, c, d, e, f, g, h]) | 0.002s | passed |
| testQueryAllHG38Intervals | 0.069s | passed |
| testQueryGVCF[0](1:1-99, []) | 0.004s | passed |
| testQueryGVCF[1](1:50-100, [aa]) | 0.001s | passed |
| testQueryGVCF[2](1:50-150, [aa]) | 0.002s | passed |
| testQueryGVCF[3](1:100-100, [aa]) | 0.001s | 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]) | 0.001s | passed |
| testQueryGVCF[8](1:200-201, [aa]) | 0.002s | passed |
| testQueryGVCF[9](1:201-3000, []) | 0.001s | passed |
| testSingleDataSourceMultipleQueries[0]([(1:1-99,[]), (1:100-100,[a]), (1:100-200,[a, b, c]), (1:200-202,[b, c]), (1:200-203,[b, c, d]), (1:201-203,[d]), (1:204-204,[d]), (1:206-206,[d]), (1:207-207,[]), (1:200-300,[b, c, d, e, f, g, h]), (1:275-300,[e, f, g, h]), (1:275-284,[e, f]), (1:284-284,[f]), (1:284-285,[f, g]), (1:284-286,[f, g, h]), (1:286-286,[f, h]), (1:287-290,[]), (1:999-1000,[i, j, k]), (1:1000-1001,[j, k]), (1:1002-1005,[k]), (1:1005-1010,[]), (1:1075-1175,[l, m]), (1:1075-1176,[l, m, n]), (1:1077-1176,[m, n]), (1:1170-1180,[n]), (1:1003-1175,[k, l, m]), (1:1-2000,[a, b, c, d, e, f, g, h, i, j, k, l, m, n]), (1:2000-3000,[]), (1:286-1175,[f, h, i, j, k, l, m]), (2:200-700,[o, p, q, r, s]), (2:201-699,[p, q, r]), (2:550-560,[q]), (2:549-699,[q, r]), (2:600-700,[r, s]), (2:701-800,[]), (3:1-300,[t, u, v]), (3:300-400,[u, v, w]), (3:301-400,[v, w]), (3:301-399,[v]), (3:305-400,[w]), (3:500-600,[]), (4:1-1000,[x, y, z]), (4:600-775,[x, y]), (4:775-776,[y, z]), (4:777-780,[z]), (4:777-300000000,[z])]) | 0.002s | passed |
| testSingleDataSourceMultipleQueries[1]([(1:1-100,[a]), (1:50-150,[a]), (1:100-200,[a, b, c]), (1:150-250,[b, c, d]), (1:200-300,[b, c, d, e, f, g, h]), (1:250-350,[e, f, g, h]), (1:300-400,[]), (1:350-450,[]), (1:950-1050,[i, j, k]), (1:1000-1100,[j, k, l]), (1:1050-1150,[l, m]), (1:1100-1200,[m, n]), (1:1150-1250,[m, n]), (1:1200-1300,[]), (2:1-100,[]), (2:100-200,[o]), (2:500-600,[p, q]), (2:550-650,[q, r]), (2:600-700,[r, s]), (2:650-750,[s]), (3:1-200,[t]), (3:300-400,[u, v, w]), (3:302-350,[v])]) | 0.002s | passed |
| testSingleDataSourceMultipleQueries[2]([(1:100-200,[a, b, c]), (1:99-205,[a, b, c, d]), (1:2000-3000,[]), (1:205-285,[d, e, f, g]), (1:286-400,[f, h]), (2:200-600,[o, p, q]), (2:1-100,[]), (2:3000-4000,[]), (1:200-300,[b, c, d, e, f, g, h]), (1:100-200,[a, b, c]), (1:1-1,[]), (1:1100-1200,[m, n])]) | 0.002s | 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]) | 0.001s | 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], []) | 0.001s | 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]) | 0.001s | passed |
| testTraversalByIntervals[2]([1:100-203, 1:205-284, 1:286-1000], [a, b, c, d, e, f, h, i, j, k]) | 0.001s | 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]) | 0.001s | 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]) | 0.001s | 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]) | 0.001s | 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 |
| testUnindexedBZippedFile | 0.020s | passed |
Standard error
22:32:00.878 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.886 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.891 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/unindexed.vcf 22:32:00.894 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.896 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.898 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.899 WARN IndexUtils - Feature file "file:///home/runner/work/gatk/gatk/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 22:32:00.903 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/unindexed.vcf 22:32:00.906 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.909 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.913 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.916 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.918 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.921 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.928 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.931 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.933 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.936 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.938 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.940 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.942 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.944 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.947 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.949 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.951 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.953 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.955 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.957 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.959 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.961 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.963 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.965 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.967 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.968 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.970 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.972 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.974 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.976 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.977 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.979 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.981 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.982 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.984 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.985 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.987 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.989 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.990 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.992 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.994 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.995 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.997 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:00.999 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:01.000 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:01.002 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:01.048 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/Homo_sapiens_assembly38.headerOnly.vcf.gz 22:32:01.074 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf 22:32:01.077 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf 22:32:01.078 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf 22:32:01.080 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf 22:32:01.081 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf 22:32:01.083 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf 22:32:01.084 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf 22:32:01.086 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf 22:32:01.087 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf 22:32:01.088 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test_gvcf.vcf 22:32:01.091 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:01.093 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:01.095 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:01.098 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:01.100 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:01.101 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:01.103 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:01.104 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:01.106 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:01.108 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:01.109 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:01.111 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:01.112 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:01.114 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:01.115 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:01.116 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:01.118 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/engine/feature_data_source_test.vcf 22:32:01.121 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/IndexFeatureFile/4featuresHG38Header.unindexed.vcf.gz