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

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

tests
0

failures
0

ignored
0.058s

duration
100%

successful

Tests

Test Duration Result
emptyIntervalsTest[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@31dd0e2e) 0s passed
emptyIntervalsTest[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@197180a5) 0s passed
getUserSpecifiedIntervalsWithoutMerging[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@68f75a35) 0.044s passed
getUserSpecifiedIntervalsWithoutMerging[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@79e9c14) 0s passed
testAllExcluded[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@575e862c) 0s passed
testAllExcluded[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@6e5af973) 0s passed
testExcludeWithNoIncludes[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@1aee6983) 0.001s passed
testExcludeWithNoIncludes[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@3f62d56) 0s passed
testExcludeWithPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@448a6d00) 0.001s passed
testExcludeWithPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@1add3e03) 0s passed
testIncludeWithExclude[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@43e30f15) 0.001s passed
testIncludeWithExclude[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@3c9c91e3) 0s passed
testIncludeWithPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@2f2d8770) 0s passed
testIncludeWithPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@2ce62e27) 0s passed
testIntervalMergingRuleAdjacentMerge[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@766db6f9) 0s passed
testIntervalMergingRuleAdjacentMerge[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@728535c6) 0s passed
testIntervalMergingRuleAdjacentNoMerge[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@19855799) 0s passed
testIntervalMergingRuleAdjacentNoMerge[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@5020b59f) 0s passed
testIntervalMergingRuleOverlappingNoMergeWithPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@7aaf6bfd) 0s passed
testIntervalMergingRuleOverlappingNoMergeWithPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@7e2e0b8a) 0s passed
testIntervalMergingRuleOverlappingNoMerge[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@46d18a33) 0s passed
testIntervalMergingRuleOverlappingNoMerge[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@1c06f19c) 0.001s passed
testIntervalSetAndMergingOverlap[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@6a4f7c17) 0s passed
testIntervalSetAndMergingOverlap[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@52d181ed) 0s passed
testIntervalSetRuleIntersection[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@66046e7c) 0s passed
testIntervalSetRuleIntersection[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@726a5e6a) 0.001s passed
testIntervalSetRuleUnion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@b889cb6) 0s passed
testIntervalSetRuleUnion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@54c37dab) 0.001s passed
testIntervalUnmergingWithIntervalPaddingOverlap[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@6a2057e) 0s passed
testIntervalUnmergingWithIntervalPaddingOverlap[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@6ab826bb) 0.001s passed
testIntervalUnmergingWithUnmappedIntervalsAndPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@705d72f0) 0.001s passed
testIntervalUnmergingWithUnmappedIntervalsAndPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@1d6a0962) 0s passed
testIntervalsWithoutMergingWithNoIntervalsSpecified[0](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@515d615) 0s passed
testIntervalsWithoutMergingWithNoIntervalsSpecified[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@5e777b0) 0s passed
testMultipleUnmappedInclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@17fa14a3) 0.001s passed
testMultipleUnmappedInclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@219dd935) 0s passed
testNoIntersection[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@4a9412c4) 0.001s passed
testNoIntersection[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@320efff5) 0s passed
testOptionalIsOptional 0.001s passed
testRequiredIsRequired 0s passed
testThrowOnUnmappedExclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@3d99d327) 0s passed
testThrowOnUnmappedExclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@7f31937b) 0s passed
testUnmappedAndMappedInclusionPlusMappedExclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@717b0d81) 0.001s passed
testUnmappedAndMappedInclusionPlusMappedExclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@4d793390) 0.001s passed
testUnmappedAndMappedInclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@7187078a) 0.001s passed
testUnmappedAndMappedInclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@1d38cdde) 0s passed
testUnmappedInclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@138b9abe) 0s passed
testUnmappedInclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@23ffc910) 0s passed

Standard error

17:37:25.830 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
17:37:25.831 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
17:37:25.833 INFO  IntervalArgumentCollection - Initial include intervals span 64000 loci; exclude intervals span 48000 loci
17:37:25.834 INFO  IntervalArgumentCollection - Excluding 48000 loci from original intervals (75.00% reduction)
17:37:25.834 INFO  IntervalArgumentCollection - Processing 16000 bp from intervals
17:37:25.834 INFO  IntervalArgumentCollection - Initial include intervals span 64000 loci; exclude intervals span 48000 loci
17:37:25.834 INFO  IntervalArgumentCollection - Excluding 48000 loci from original intervals (75.00% reduction)
17:37:25.834 INFO  IntervalArgumentCollection - Processing 16000 bp from intervals
17:37:25.835 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 31 loci
17:37:25.835 INFO  IntervalArgumentCollection - Excluding 21 loci from original intervals (21.00% reduction)
17:37:25.835 INFO  IntervalArgumentCollection - Processing 79 bp from intervals
17:37:25.836 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 31 loci
17:37:25.836 INFO  IntervalArgumentCollection - Excluding 21 loci from original intervals (21.00% reduction)
17:37:25.836 INFO  IntervalArgumentCollection - Processing 79 bp from intervals
17:37:25.837 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 111 loci
17:37:25.837 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (11.00% reduction)
17:37:25.837 INFO  IntervalArgumentCollection - Processing 89 bp from intervals
17:37:25.837 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 111 loci
17:37:25.837 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (11.00% reduction)
17:37:25.837 INFO  IntervalArgumentCollection - Processing 89 bp from intervals
17:37:25.838 INFO  IntervalArgumentCollection - Processing 31 bp from intervals
17:37:25.838 INFO  IntervalArgumentCollection - Processing 31 bp from intervals
17:37:25.839 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
17:37:25.839 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
17:37:25.840 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
17:37:25.840 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
17:37:25.844 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
17:37:25.845 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
17:37:25.845 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
17:37:25.846 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
17:37:25.849 INFO  IntervalArgumentCollection - Processing 12 bp from intervals
17:37:25.850 INFO  IntervalArgumentCollection - Processing 12 bp from intervals
17:37:25.854 INFO  IntervalArgumentCollection - Processing 17 bp from intervals
17:37:25.854 INFO  IntervalArgumentCollection - Processing 17 bp from intervals
17:37:25.855 INFO  IntervalArgumentCollection - Initial include intervals span 17 loci; exclude intervals span 16000 loci
17:37:25.855 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (64.71% reduction)
17:37:25.855 INFO  IntervalArgumentCollection - Processing 6 bp from intervals
17:37:25.855 INFO  IntervalArgumentCollection - Initial include intervals span 17 loci; exclude intervals span 16000 loci
17:37:25.856 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (64.71% reduction)
17:37:25.856 INFO  IntervalArgumentCollection - Processing 6 bp from intervals
17:37:25.856 INFO  IntervalArgumentCollection - Processing 1 bp from intervals
17:37:25.856 INFO  IntervalArgumentCollection - Processing 1 bp from intervals