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

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

tests
0

failures
0

ignored
0.111s

duration
100%

successful

Tests

Test Duration Result
emptyIntervalsTest[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@5e78dd7f) 0.001s passed
emptyIntervalsTest[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@7d440378) 0s passed
getUserSpecifiedIntervalsWithoutMerging[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@7597ae32) 0.089s passed
getUserSpecifiedIntervalsWithoutMerging[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@67fdc1e9) 0.001s passed
testAllExcluded[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@4e7bf371) 0.001s passed
testAllExcluded[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@97e9568) 0s passed
testExcludeWithNoIncludes[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@377b773c) 0.001s passed
testExcludeWithNoIncludes[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@650929dc) 0s passed
testExcludeWithPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@781befe7) 0.001s passed
testExcludeWithPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@7c590039) 0s passed
testIncludeWithExclude[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@72cf43fa) 0s passed
testIncludeWithExclude[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@1f748d43) 0s passed
testIncludeWithPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@19dc9dda) 0.001s passed
testIncludeWithPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@494c452b) 0s passed
testIntervalMergingRuleAdjacentMerge[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@3d41881) 0.001s passed
testIntervalMergingRuleAdjacentMerge[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@14ca4b4d) 0s passed
testIntervalMergingRuleAdjacentNoMerge[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@1201c2f6) 0.001s passed
testIntervalMergingRuleAdjacentNoMerge[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@4ae93e38) 0s passed
testIntervalMergingRuleOverlappingNoMergeWithPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@4dea763c) 0s passed
testIntervalMergingRuleOverlappingNoMergeWithPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@41fdb59c) 0s passed
testIntervalMergingRuleOverlappingNoMerge[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@71549247) 0s passed
testIntervalMergingRuleOverlappingNoMerge[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@266b7d1) 0s passed
testIntervalSetAndMergingOverlap[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@5112858c) 0.001s passed
testIntervalSetAndMergingOverlap[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@275ff5f8) 0s passed
testIntervalSetRuleIntersection[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@42a698bd) 0s passed
testIntervalSetRuleIntersection[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@7e047d85) 0.001s passed
testIntervalSetRuleUnion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@4ba56bbe) 0.001s passed
testIntervalSetRuleUnion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@551bc2c6) 0s passed
testIntervalUnmergingWithIntervalPaddingOverlap[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@bf32f3f) 0s passed
testIntervalUnmergingWithIntervalPaddingOverlap[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@7b50e70a) 0.001s passed
testIntervalUnmergingWithUnmappedIntervalsAndPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@64aab3fd) 0.001s passed
testIntervalUnmergingWithUnmappedIntervalsAndPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@34c79268) 0s passed
testIntervalsWithoutMergingWithNoIntervalsSpecified[0](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@6e6c723b) 0.001s passed
testIntervalsWithoutMergingWithNoIntervalsSpecified[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@6e591c03) 0s passed
testMultipleUnmappedInclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@7ce58c1c) 0.001s passed
testMultipleUnmappedInclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@4f61c7e1) 0s passed
testNoIntersection[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@6289376f) 0s passed
testNoIntersection[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@5b1ebbe) 0s passed
testOptionalIsOptional 0.001s passed
testRequiredIsRequired 0.001s passed
testThrowOnUnmappedExclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@7eb370c5) 0s passed
testThrowOnUnmappedExclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@29509774) 0.001s passed
testUnmappedAndMappedInclusionPlusMappedExclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@4474c514) 0.001s passed
testUnmappedAndMappedInclusionPlusMappedExclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@5fc44b4b) 0.002s passed
testUnmappedAndMappedInclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@6cc9f35d) 0s passed
testUnmappedAndMappedInclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@22277482) 0.001s passed
testUnmappedInclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@7e3062f0) 0s passed
testUnmappedInclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@309d9033) 0s passed

Standard error

20:25:06.228 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
20:25:06.229 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
20:25:06.231 INFO  IntervalArgumentCollection - Initial include intervals span 64000 loci; exclude intervals span 48000 loci
20:25:06.231 INFO  IntervalArgumentCollection - Excluding 48000 loci from original intervals (75.00% reduction)
20:25:06.232 INFO  IntervalArgumentCollection - Processing 16000 bp from intervals
20:25:06.232 INFO  IntervalArgumentCollection - Initial include intervals span 64000 loci; exclude intervals span 48000 loci
20:25:06.232 INFO  IntervalArgumentCollection - Excluding 48000 loci from original intervals (75.00% reduction)
20:25:06.232 INFO  IntervalArgumentCollection - Processing 16000 bp from intervals
20:25:06.233 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 31 loci
20:25:06.234 INFO  IntervalArgumentCollection - Excluding 21 loci from original intervals (21.00% reduction)
20:25:06.234 INFO  IntervalArgumentCollection - Processing 79 bp from intervals
20:25:06.234 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 31 loci
20:25:06.234 INFO  IntervalArgumentCollection - Excluding 21 loci from original intervals (21.00% reduction)
20:25:06.234 INFO  IntervalArgumentCollection - Processing 79 bp from intervals
20:25:06.235 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 111 loci
20:25:06.235 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (11.00% reduction)
20:25:06.235 INFO  IntervalArgumentCollection - Processing 89 bp from intervals
20:25:06.236 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 111 loci
20:25:06.236 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (11.00% reduction)
20:25:06.236 INFO  IntervalArgumentCollection - Processing 89 bp from intervals
20:25:06.237 INFO  IntervalArgumentCollection - Processing 31 bp from intervals
20:25:06.237 INFO  IntervalArgumentCollection - Processing 31 bp from intervals
20:25:06.238 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
20:25:06.239 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
20:25:06.240 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
20:25:06.240 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
20:25:06.248 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
20:25:06.248 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
20:25:06.250 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
20:25:06.250 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
20:25:06.254 INFO  IntervalArgumentCollection - Processing 12 bp from intervals
20:25:06.255 INFO  IntervalArgumentCollection - Processing 12 bp from intervals
20:25:06.259 INFO  IntervalArgumentCollection - Processing 17 bp from intervals
20:25:06.260 INFO  IntervalArgumentCollection - Processing 17 bp from intervals
20:25:06.261 INFO  IntervalArgumentCollection - Initial include intervals span 17 loci; exclude intervals span 16000 loci
20:25:06.261 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (64.71% reduction)
20:25:06.261 INFO  IntervalArgumentCollection - Processing 6 bp from intervals
20:25:06.263 INFO  IntervalArgumentCollection - Initial include intervals span 17 loci; exclude intervals span 16000 loci
20:25:06.263 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (64.71% reduction)
20:25:06.263 INFO  IntervalArgumentCollection - Processing 6 bp from intervals
20:25:06.264 INFO  IntervalArgumentCollection - Processing 1 bp from intervals
20:25:06.264 INFO  IntervalArgumentCollection - Processing 1 bp from intervals