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

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

tests
0

failures
0

ignored
0.074s

duration
100%

successful

Tests

Test Duration Result
emptyIntervalsTest[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@1fa44f66) 0s passed
emptyIntervalsTest[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@47c356e) 0s passed
getUserSpecifiedIntervalsWithoutMerging[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@5b80b41d) 0.052s passed
getUserSpecifiedIntervalsWithoutMerging[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@45648e75) 0.001s passed
testAllExcluded[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@2d117280) 0.001s passed
testAllExcluded[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@dddcd91) 0s passed
testExcludeWithNoIncludes[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@79e9c14) 0.001s passed
testExcludeWithNoIncludes[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@575e862c) 0.001s passed
testExcludeWithPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@6e5af973) 0.001s passed
testExcludeWithPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@3adeca1f) 0.001s passed
testIncludeWithExclude[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@2d41bb5a) 0s passed
testIncludeWithExclude[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@848d9bc) 0s passed
testIncludeWithPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@1add3e03) 0.001s passed
testIncludeWithPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@43e30f15) 0s passed
testIntervalMergingRuleAdjacentMerge[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@3c9c91e3) 0.001s passed
testIntervalMergingRuleAdjacentMerge[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@2f2d8770) 0s passed
testIntervalMergingRuleAdjacentNoMerge[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@2ce62e27) 0.001s passed
testIntervalMergingRuleAdjacentNoMerge[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@766db6f9) 0s passed
testIntervalMergingRuleOverlappingNoMergeWithPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@5020b59f) 0.001s passed
testIntervalMergingRuleOverlappingNoMergeWithPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@495f3965) 0.001s passed
testIntervalMergingRuleOverlappingNoMerge[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@728535c6) 0.001s passed
testIntervalMergingRuleOverlappingNoMerge[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@19855799) 0.001s passed
testIntervalSetAndMergingOverlap[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@3065efd0) 0.001s passed
testIntervalSetAndMergingOverlap[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@61aa6300) 0s passed
testIntervalSetRuleIntersection[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@7f5f7731) 0.001s passed
testIntervalSetRuleIntersection[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@584fb03d) 0s passed
testIntervalSetRuleUnion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@52d181ed) 0.001s passed
testIntervalSetRuleUnion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@66046e7c) 0s passed
testIntervalUnmergingWithIntervalPaddingOverlap[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@726a5e6a) 0.001s passed
testIntervalUnmergingWithIntervalPaddingOverlap[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@b889cb6) 0s passed
testIntervalUnmergingWithUnmappedIntervalsAndPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@6a2057e) 0s passed
testIntervalUnmergingWithUnmappedIntervalsAndPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@6ab826bb) 0.001s passed
testIntervalsWithoutMergingWithNoIntervalsSpecified[0](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@3702d0ed) 0s passed
testIntervalsWithoutMergingWithNoIntervalsSpecified[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@705d72f0) 0s passed
testMultipleUnmappedInclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@1d6a0962) 0s passed
testMultipleUnmappedInclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@488b46da) 0s passed
testNoIntersection[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@3c74d846) 0s passed
testNoIntersection[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@5552d10) 0s passed
testOptionalIsOptional 0.001s passed
testRequiredIsRequired 0s passed
testThrowOnUnmappedExclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@6003eb60) 0s passed
testThrowOnUnmappedExclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@2552181d) 0s passed
testUnmappedAndMappedInclusionPlusMappedExclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@7f31937b) 0.001s passed
testUnmappedAndMappedInclusionPlusMappedExclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@7187078a) 0.001s passed
testUnmappedAndMappedInclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@2e7e4480) 0.001s passed
testUnmappedAndMappedInclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@3d99d327) 0s passed
testUnmappedInclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@1d38cdde) 0s passed
testUnmappedInclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@717b0d81) 0s passed

Standard error

19:47:57.990 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
19:47:57.992 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
19:47:57.994 INFO  IntervalArgumentCollection - Initial include intervals span 64000 loci; exclude intervals span 48000 loci
19:47:57.994 INFO  IntervalArgumentCollection - Excluding 48000 loci from original intervals (75.00% reduction)
19:47:57.995 INFO  IntervalArgumentCollection - Processing 16000 bp from intervals
19:47:57.995 INFO  IntervalArgumentCollection - Initial include intervals span 64000 loci; exclude intervals span 48000 loci
19:47:57.995 INFO  IntervalArgumentCollection - Excluding 48000 loci from original intervals (75.00% reduction)
19:47:57.996 INFO  IntervalArgumentCollection - Processing 16000 bp from intervals
19:47:57.997 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 31 loci
19:47:57.997 INFO  IntervalArgumentCollection - Excluding 21 loci from original intervals (21.00% reduction)
19:47:57.997 INFO  IntervalArgumentCollection - Processing 79 bp from intervals
19:47:57.997 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 31 loci
19:47:57.997 INFO  IntervalArgumentCollection - Excluding 21 loci from original intervals (21.00% reduction)
19:47:57.998 INFO  IntervalArgumentCollection - Processing 79 bp from intervals
19:47:57.998 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 111 loci
19:47:57.998 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (11.00% reduction)
19:47:57.998 INFO  IntervalArgumentCollection - Processing 89 bp from intervals
19:47:57.999 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 111 loci
19:47:57.999 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (11.00% reduction)
19:47:57.999 INFO  IntervalArgumentCollection - Processing 89 bp from intervals
19:47:58.000 INFO  IntervalArgumentCollection - Processing 31 bp from intervals
19:47:58.000 INFO  IntervalArgumentCollection - Processing 31 bp from intervals
19:47:58.001 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
19:47:58.001 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
19:47:58.002 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
19:47:58.002 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
19:47:58.008 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
19:47:58.008 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
19:47:58.009 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
19:47:58.009 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
19:47:58.013 INFO  IntervalArgumentCollection - Processing 12 bp from intervals
19:47:58.014 INFO  IntervalArgumentCollection - Processing 12 bp from intervals
19:47:58.018 INFO  IntervalArgumentCollection - Processing 17 bp from intervals
19:47:58.018 INFO  IntervalArgumentCollection - Processing 17 bp from intervals
19:47:58.019 INFO  IntervalArgumentCollection - Initial include intervals span 17 loci; exclude intervals span 16000 loci
19:47:58.019 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (64.71% reduction)
19:47:58.019 INFO  IntervalArgumentCollection - Processing 6 bp from intervals
19:47:58.019 INFO  IntervalArgumentCollection - Initial include intervals span 17 loci; exclude intervals span 16000 loci
19:47:58.020 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (64.71% reduction)
19:47:58.020 INFO  IntervalArgumentCollection - Processing 6 bp from intervals
19:47:58.020 INFO  IntervalArgumentCollection - Processing 1 bp from intervals
19:47:58.020 INFO  IntervalArgumentCollection - Processing 1 bp from intervals