Class org.broadinstitute.hellbender.cmdline.argumentcollections.IntervalArgumentCollectionUnitTest

all > org.broadinstitute.hellbender.cmdline.argumentcollections > IntervalArgumentCollectionUnitTest
48

tests
0

failures
0

ignored
0.071s

duration
100%

successful

Tests

Test Duration Result
emptyIntervalsTest[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@32fd5bc) 0.001s passed
emptyIntervalsTest[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@b5d7233) 0s passed
getUserSpecifiedIntervalsWithoutMerging[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@169d1f92) 0.055s passed
getUserSpecifiedIntervalsWithoutMerging[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@69e8b711) 0.001s passed
testAllExcluded[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@d99df7a) 0.001s passed
testAllExcluded[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@4b9dc62f) 0s passed
testExcludeWithNoIncludes[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@2f9236d8) 0.001s passed
testExcludeWithNoIncludes[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@603faaad) 0s passed
testExcludeWithPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@28d16af8) 0s passed
testExcludeWithPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@e344f14) 0s passed
testIncludeWithExclude[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@6c2be147) 0.001s passed
testIncludeWithExclude[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@21bd6fd1) 0s passed
testIncludeWithPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@340c7479) 0s passed
testIncludeWithPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@1d57b8f1) 0s passed
testIntervalMergingRuleAdjacentMerge[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@39a2e77d) 0s passed
testIntervalMergingRuleAdjacentMerge[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@3adeca1f) 0s passed
testIntervalMergingRuleAdjacentNoMerge[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@2d41bb5a) 0s passed
testIntervalMergingRuleAdjacentNoMerge[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@848d9bc) 0s passed
testIntervalMergingRuleOverlappingNoMergeWithPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@3c9c91e3) 0.001s passed
testIntervalMergingRuleOverlappingNoMergeWithPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@742dbac8) 0s passed
testIntervalMergingRuleOverlappingNoMerge[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@1add3e03) 0s passed
testIntervalMergingRuleOverlappingNoMerge[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@43e30f15) 0s passed
testIntervalSetAndMergingOverlap[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@3538a129) 0s passed
testIntervalSetAndMergingOverlap[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@728535c6) 0s passed
testIntervalSetRuleIntersection[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@19855799) 0s passed
testIntervalSetRuleIntersection[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@5020b59f) 0.001s passed
testIntervalSetRuleUnion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@46d18a33) 0s passed
testIntervalSetRuleUnion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@1c06f19c) 0.001s passed
testIntervalUnmergingWithIntervalPaddingOverlap[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@7aaf6bfd) 0s passed
testIntervalUnmergingWithIntervalPaddingOverlap[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@61aa6300) 0.001s passed
testIntervalUnmergingWithUnmappedIntervalsAndPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@584fb03d) 0.001s passed
testIntervalUnmergingWithUnmappedIntervalsAndPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@52d181ed) 0s passed
testIntervalsWithoutMergingWithNoIntervalsSpecified[0](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@66046e7c) 0s passed
testIntervalsWithoutMergingWithNoIntervalsSpecified[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@726a5e6a) 0s passed
testMultipleUnmappedInclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@b889cb6) 0.001s passed
testMultipleUnmappedInclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@49005dc4) 0s passed
testNoIntersection[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@25d9298e) 0.001s passed
testNoIntersection[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@219db855) 0s passed
testOptionalIsOptional 0.001s passed
testRequiredIsRequired 0.001s passed
testThrowOnUnmappedExclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@12dc702b) 0s passed
testThrowOnUnmappedExclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@486bcaa) 0s passed
testUnmappedAndMappedInclusionPlusMappedExclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@5dd2ea0a) 0s passed
testUnmappedAndMappedInclusionPlusMappedExclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@782143e8) 0.001s passed
testUnmappedAndMappedInclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@2f3a0f37) 0.001s passed
testUnmappedAndMappedInclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@4f1a5b93) 0s passed
testUnmappedInclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@6003eb60) 0s passed
testUnmappedInclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@2552181d) 0s passed

Standard error

22:31:47.978 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
22:31:47.980 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
22:31:47.982 INFO  IntervalArgumentCollection - Initial include intervals span 64000 loci; exclude intervals span 48000 loci
22:31:47.982 INFO  IntervalArgumentCollection - Excluding 48000 loci from original intervals (75.00% reduction)
22:31:47.983 INFO  IntervalArgumentCollection - Processing 16000 bp from intervals
22:31:47.983 INFO  IntervalArgumentCollection - Initial include intervals span 64000 loci; exclude intervals span 48000 loci
22:31:47.983 INFO  IntervalArgumentCollection - Excluding 48000 loci from original intervals (75.00% reduction)
22:31:47.983 INFO  IntervalArgumentCollection - Processing 16000 bp from intervals
22:31:47.984 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 31 loci
22:31:47.984 INFO  IntervalArgumentCollection - Excluding 21 loci from original intervals (21.00% reduction)
22:31:47.984 INFO  IntervalArgumentCollection - Processing 79 bp from intervals
22:31:47.985 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 31 loci
22:31:47.985 INFO  IntervalArgumentCollection - Excluding 21 loci from original intervals (21.00% reduction)
22:31:47.985 INFO  IntervalArgumentCollection - Processing 79 bp from intervals
22:31:47.986 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 111 loci
22:31:47.986 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (11.00% reduction)
22:31:47.986 INFO  IntervalArgumentCollection - Processing 89 bp from intervals
22:31:47.986 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 111 loci
22:31:47.986 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (11.00% reduction)
22:31:47.986 INFO  IntervalArgumentCollection - Processing 89 bp from intervals
22:31:47.987 INFO  IntervalArgumentCollection - Processing 31 bp from intervals
22:31:47.987 INFO  IntervalArgumentCollection - Processing 31 bp from intervals
22:31:47.988 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
22:31:47.988 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
22:31:47.989 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
22:31:47.989 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
22:31:47.994 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
22:31:47.994 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
22:31:47.995 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
22:31:47.995 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
22:31:47.999 INFO  IntervalArgumentCollection - Processing 12 bp from intervals
22:31:48.000 INFO  IntervalArgumentCollection - Processing 12 bp from intervals
22:31:48.005 INFO  IntervalArgumentCollection - Processing 17 bp from intervals
22:31:48.005 INFO  IntervalArgumentCollection - Processing 17 bp from intervals
22:31:48.006 INFO  IntervalArgumentCollection - Initial include intervals span 17 loci; exclude intervals span 16000 loci
22:31:48.006 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (64.71% reduction)
22:31:48.006 INFO  IntervalArgumentCollection - Processing 6 bp from intervals
22:31:48.007 INFO  IntervalArgumentCollection - Initial include intervals span 17 loci; exclude intervals span 16000 loci
22:31:48.007 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (64.71% reduction)
22:31:48.007 INFO  IntervalArgumentCollection - Processing 6 bp from intervals
22:31:48.007 INFO  IntervalArgumentCollection - Processing 1 bp from intervals
22:31:48.008 INFO  IntervalArgumentCollection - Processing 1 bp from intervals