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

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

tests
0

failures
0

ignored
0.091s

duration
100%

successful

Tests

Test Duration Result
emptyIntervalsTest[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@36c8e1c6) 0s passed
emptyIntervalsTest[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@5e78dd7f) 0s passed
getUserSpecifiedIntervalsWithoutMerging[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@7d440378) 0.071s passed
getUserSpecifiedIntervalsWithoutMerging[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@41f274d) 0s passed
testAllExcluded[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@67fdc1e9) 0s passed
testAllExcluded[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@4e7bf371) 0s passed
testExcludeWithNoIncludes[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@97e9568) 0.001s passed
testExcludeWithNoIncludes[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@377b773c) 0s passed
testExcludeWithPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@650929dc) 0.001s passed
testExcludeWithPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@69780093) 0.001s passed
testIncludeWithExclude[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@7c590039) 0s passed
testIncludeWithExclude[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@72cf43fa) 0.001s passed
testIncludeWithPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@1f748d43) 0.001s passed
testIncludeWithPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@19dc9dda) 0s passed
testIntervalMergingRuleAdjacentMerge[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@494c452b) 0.001s passed
testIntervalMergingRuleAdjacentMerge[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@3d41881) 0s passed
testIntervalMergingRuleAdjacentNoMerge[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@14ca4b4d) 0s passed
testIntervalMergingRuleAdjacentNoMerge[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@1201c2f6) 0.001s passed
testIntervalMergingRuleOverlappingNoMergeWithPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@266b7d1) 0s passed
testIntervalMergingRuleOverlappingNoMergeWithPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@26f50a28) 0s passed
testIntervalMergingRuleOverlappingNoMerge[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@4ae93e38) 0.001s passed
testIntervalMergingRuleOverlappingNoMerge[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@71549247) 0s passed
testIntervalSetAndMergingOverlap[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@41fdb59c) 0s passed
testIntervalSetAndMergingOverlap[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@1786e49f) 0.001s passed
testIntervalSetRuleIntersection[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@275ff5f8) 0s passed
testIntervalSetRuleIntersection[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@42a698bd) 0s passed
testIntervalSetRuleUnion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@7e047d85) 0.001s passed
testIntervalSetRuleUnion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@4ba56bbe) 0s passed
testIntervalUnmergingWithIntervalPaddingOverlap[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@551bc2c6) 0.001s passed
testIntervalUnmergingWithIntervalPaddingOverlap[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@bf32f3f) 0.001s passed
testIntervalUnmergingWithUnmappedIntervalsAndPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@58192546) 0.001s passed
testIntervalUnmergingWithUnmappedIntervalsAndPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@64aab3fd) 0s passed
testIntervalsWithoutMergingWithNoIntervalsSpecified[0](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@34c79268) 0.001s passed
testIntervalsWithoutMergingWithNoIntervalsSpecified[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@6e6c723b) 0s passed
testMultipleUnmappedInclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@6e591c03) 0.001s passed
testMultipleUnmappedInclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@36996b37) 0s passed
testNoIntersection[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@4f61c7e1) 0s passed
testNoIntersection[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@6289376f) 0s passed
testOptionalIsOptional 0s passed
testRequiredIsRequired 0.001s passed
testThrowOnUnmappedExclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@283074e8) 0s passed
testThrowOnUnmappedExclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@7eb370c5) 0s passed
testUnmappedAndMappedInclusionPlusMappedExclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@22277482) 0.001s passed
testUnmappedAndMappedInclusionPlusMappedExclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@4474c514) 0.001s passed
testUnmappedAndMappedInclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@29509774) 0s passed
testUnmappedAndMappedInclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@6cc9f35d) 0.001s passed
testUnmappedInclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@5fc44b4b) 0s passed
testUnmappedInclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@7e3062f0) 0.001s passed

Standard error

21:17:35.758 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
21:17:35.759 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
21:17:35.761 INFO  IntervalArgumentCollection - Initial include intervals span 64000 loci; exclude intervals span 48000 loci
21:17:35.762 INFO  IntervalArgumentCollection - Excluding 48000 loci from original intervals (75.00% reduction)
21:17:35.762 INFO  IntervalArgumentCollection - Processing 16000 bp from intervals
21:17:35.762 INFO  IntervalArgumentCollection - Initial include intervals span 64000 loci; exclude intervals span 48000 loci
21:17:35.762 INFO  IntervalArgumentCollection - Excluding 48000 loci from original intervals (75.00% reduction)
21:17:35.762 INFO  IntervalArgumentCollection - Processing 16000 bp from intervals
21:17:35.763 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 31 loci
21:17:35.764 INFO  IntervalArgumentCollection - Excluding 21 loci from original intervals (21.00% reduction)
21:17:35.764 INFO  IntervalArgumentCollection - Processing 79 bp from intervals
21:17:35.764 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 31 loci
21:17:35.764 INFO  IntervalArgumentCollection - Excluding 21 loci from original intervals (21.00% reduction)
21:17:35.765 INFO  IntervalArgumentCollection - Processing 79 bp from intervals
21:17:35.765 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 111 loci
21:17:35.765 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (11.00% reduction)
21:17:35.765 INFO  IntervalArgumentCollection - Processing 89 bp from intervals
21:17:35.766 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 111 loci
21:17:35.766 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (11.00% reduction)
21:17:35.766 INFO  IntervalArgumentCollection - Processing 89 bp from intervals
21:17:35.767 INFO  IntervalArgumentCollection - Processing 31 bp from intervals
21:17:35.767 INFO  IntervalArgumentCollection - Processing 31 bp from intervals
21:17:35.768 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
21:17:35.768 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
21:17:35.769 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
21:17:35.769 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
21:17:35.775 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
21:17:35.776 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
21:17:35.777 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
21:17:35.777 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
21:17:35.781 INFO  IntervalArgumentCollection - Processing 12 bp from intervals
21:17:35.782 INFO  IntervalArgumentCollection - Processing 12 bp from intervals
21:17:35.786 INFO  IntervalArgumentCollection - Processing 17 bp from intervals
21:17:35.787 INFO  IntervalArgumentCollection - Processing 17 bp from intervals
21:17:35.788 INFO  IntervalArgumentCollection - Initial include intervals span 17 loci; exclude intervals span 16000 loci
21:17:35.788 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (64.71% reduction)
21:17:35.788 INFO  IntervalArgumentCollection - Processing 6 bp from intervals
21:17:35.789 INFO  IntervalArgumentCollection - Initial include intervals span 17 loci; exclude intervals span 16000 loci
21:17:35.789 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (64.71% reduction)
21:17:35.789 INFO  IntervalArgumentCollection - Processing 6 bp from intervals
21:17:35.789 INFO  IntervalArgumentCollection - Processing 1 bp from intervals
21:17:35.790 INFO  IntervalArgumentCollection - Processing 1 bp from intervals