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

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

tests
0

failures
0

ignored
0.099s

duration
100%

successful

Tests

Test Duration Result
emptyIntervalsTest[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@7a80b2e6) 0s passed
emptyIntervalsTest[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@1e5f3c4a) 0s passed
getUserSpecifiedIntervalsWithoutMerging[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@5502f74c) 0.082s passed
getUserSpecifiedIntervalsWithoutMerging[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@34c79268) 0.001s passed
testAllExcluded[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@6e6c723b) 0s passed
testAllExcluded[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@6e591c03) 0.001s passed
testExcludeWithNoIncludes[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@7ce58c1c) 0.001s passed
testExcludeWithNoIncludes[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@1006d0e3) 0.001s passed
testExcludeWithPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@1fb4377d) 0.001s passed
testExcludeWithPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@5b1ebbe) 0.001s passed
testIncludeWithExclude[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@109941fa) 0s passed
testIncludeWithExclude[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@2df6d461) 0s passed
testIncludeWithPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@4d5d6297) 0.001s passed
testIncludeWithPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@709c41da) 0s passed
testIntervalMergingRuleAdjacentMerge[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@4a467f08) 0s passed
testIntervalMergingRuleAdjacentMerge[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@2541b4d3) 0s passed
testIntervalMergingRuleAdjacentNoMerge[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@7f027735) 0s passed
testIntervalMergingRuleAdjacentNoMerge[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@6d3dc0c5) 0s passed
testIntervalMergingRuleOverlappingNoMergeWithPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@29509774) 0.001s passed
testIntervalMergingRuleOverlappingNoMergeWithPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@f61b92d) 0s passed
testIntervalMergingRuleOverlappingNoMerge[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@283074e8) 0s passed
testIntervalMergingRuleOverlappingNoMerge[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@7eb370c5) 0.001s passed
testIntervalSetAndMergingOverlap[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@670481b2) 0s passed
testIntervalSetAndMergingOverlap[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@5fc44b4b) 0.001s passed
testIntervalSetRuleIntersection[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@7e3062f0) 0s passed
testIntervalSetRuleIntersection[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@309d9033) 0.001s passed
testIntervalSetRuleUnion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@23674e3d) 0s passed
testIntervalSetRuleUnion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@42c2a1da) 0.001s passed
testIntervalUnmergingWithIntervalPaddingOverlap[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@6945fdb8) 0s passed
testIntervalUnmergingWithIntervalPaddingOverlap[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@35e64c7b) 0s passed
testIntervalUnmergingWithUnmappedIntervalsAndPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@5b6789cf) 0s passed
testIntervalUnmergingWithUnmappedIntervalsAndPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@6980e66a) 0s passed
testIntervalsWithoutMergingWithNoIntervalsSpecified[0](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@7ec63b9a) 0s passed
testIntervalsWithoutMergingWithNoIntervalsSpecified[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@21c7415e) 0s passed
testMultipleUnmappedInclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@30407f28) 0.001s passed
testMultipleUnmappedInclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@65b17373) 0.001s passed
testNoIntersection[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@19305a7c) 0s passed
testNoIntersection[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@10cb1b89) 0s passed
testOptionalIsOptional 0.001s passed
testRequiredIsRequired 0s passed
testThrowOnUnmappedExclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@3bd552f7) 0s passed
testThrowOnUnmappedExclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@4158b72f) 0s passed
testUnmappedAndMappedInclusionPlusMappedExclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@796434a3) 0.001s passed
testUnmappedAndMappedInclusionPlusMappedExclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@542aba71) 0s passed
testUnmappedAndMappedInclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@5c1605e2) 0s passed
testUnmappedAndMappedInclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@7536ef0f) 0.001s passed
testUnmappedInclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@11c82829) 0s passed
testUnmappedInclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@353ac1ef) 0s passed

Standard error

20:47:34.404 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
20:47:34.405 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
20:47:34.408 INFO  IntervalArgumentCollection - Initial include intervals span 64000 loci; exclude intervals span 48000 loci
20:47:34.408 INFO  IntervalArgumentCollection - Excluding 48000 loci from original intervals (75.00% reduction)
20:47:34.408 INFO  IntervalArgumentCollection - Processing 16000 bp from intervals
20:47:34.408 INFO  IntervalArgumentCollection - Initial include intervals span 64000 loci; exclude intervals span 48000 loci
20:47:34.408 INFO  IntervalArgumentCollection - Excluding 48000 loci from original intervals (75.00% reduction)
20:47:34.409 INFO  IntervalArgumentCollection - Processing 16000 bp from intervals
20:47:34.410 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 31 loci
20:47:34.410 INFO  IntervalArgumentCollection - Excluding 21 loci from original intervals (21.00% reduction)
20:47:34.410 INFO  IntervalArgumentCollection - Processing 79 bp from intervals
20:47:34.410 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 31 loci
20:47:34.410 INFO  IntervalArgumentCollection - Excluding 21 loci from original intervals (21.00% reduction)
20:47:34.410 INFO  IntervalArgumentCollection - Processing 79 bp from intervals
20:47:34.411 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 111 loci
20:47:34.411 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (11.00% reduction)
20:47:34.411 INFO  IntervalArgumentCollection - Processing 89 bp from intervals
20:47:34.412 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 111 loci
20:47:34.412 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (11.00% reduction)
20:47:34.412 INFO  IntervalArgumentCollection - Processing 89 bp from intervals
20:47:34.413 INFO  IntervalArgumentCollection - Processing 31 bp from intervals
20:47:34.413 INFO  IntervalArgumentCollection - Processing 31 bp from intervals
20:47:34.414 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
20:47:34.414 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
20:47:34.415 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
20:47:34.415 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
20:47:34.420 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
20:47:34.421 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
20:47:34.421 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
20:47:34.422 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
20:47:34.426 INFO  IntervalArgumentCollection - Processing 12 bp from intervals
20:47:34.427 INFO  IntervalArgumentCollection - Processing 12 bp from intervals
20:47:34.431 INFO  IntervalArgumentCollection - Processing 17 bp from intervals
20:47:34.431 INFO  IntervalArgumentCollection - Processing 17 bp from intervals
20:47:34.432 INFO  IntervalArgumentCollection - Initial include intervals span 17 loci; exclude intervals span 16000 loci
20:47:34.432 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (64.71% reduction)
20:47:34.432 INFO  IntervalArgumentCollection - Processing 6 bp from intervals
20:47:34.433 INFO  IntervalArgumentCollection - Initial include intervals span 17 loci; exclude intervals span 16000 loci
20:47:34.433 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (64.71% reduction)
20:47:34.433 INFO  IntervalArgumentCollection - Processing 6 bp from intervals
20:47:34.434 INFO  IntervalArgumentCollection - Processing 1 bp from intervals
20:47:34.434 INFO  IntervalArgumentCollection - Processing 1 bp from intervals