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

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

tests
0

failures
0

ignored
0.081s

duration
100%

successful

Tests

Test Duration Result
emptyIntervalsTest[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@747e8659) 0s passed
emptyIntervalsTest[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@75fa9254) 0s passed
getUserSpecifiedIntervalsWithoutMerging[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@6f69e2d8) 0.056s passed
getUserSpecifiedIntervalsWithoutMerging[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@d28a235) 0.001s passed
testAllExcluded[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@4fc2933e) 0s passed
testAllExcluded[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@746da54f) 0s passed
testExcludeWithNoIncludes[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@742dbac8) 0.001s passed
testExcludeWithNoIncludes[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@3538a129) 0.001s passed
testExcludeWithPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@6f8fb906) 0.003s passed
testExcludeWithPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@19855799) 0.001s passed
testIncludeWithExclude[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@5020b59f) 0.001s passed
testIncludeWithExclude[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@46d18a33) 0.001s passed
testIncludeWithPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@1c06f19c) 0s passed
testIncludeWithPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@7aaf6bfd) 0.001s passed
testIntervalMergingRuleAdjacentMerge[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@61aa6300) 0s passed
testIntervalMergingRuleAdjacentMerge[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@7f5f7731) 0.001s passed
testIntervalMergingRuleAdjacentNoMerge[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@584fb03d) 0s passed
testIntervalMergingRuleAdjacentNoMerge[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@52d181ed) 0s passed
testIntervalMergingRuleOverlappingNoMergeWithPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@b889cb6) 0s passed
testIntervalMergingRuleOverlappingNoMergeWithPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@49005dc4) 0.001s passed
testIntervalMergingRuleOverlappingNoMerge[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@66046e7c) 0.001s passed
testIntervalMergingRuleOverlappingNoMerge[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@726a5e6a) 0s passed
testIntervalSetAndMergingOverlap[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@25d9298e) 0.001s passed
testIntervalSetAndMergingOverlap[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@3702d0ed) 0s passed
testIntervalSetRuleIntersection[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@705d72f0) 0.001s passed
testIntervalSetRuleIntersection[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@1d6a0962) 0s passed
testIntervalSetRuleUnion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@515d615) 0s passed
testIntervalSetRuleUnion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@5e777b0) 0s passed
testIntervalUnmergingWithIntervalPaddingOverlap[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@17fa14a3) 0s passed
testIntervalUnmergingWithIntervalPaddingOverlap[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@3b3190fd) 0.001s passed
testIntervalUnmergingWithUnmappedIntervalsAndPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@7d15c513) 0.001s passed
testIntervalUnmergingWithUnmappedIntervalsAndPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@78b44fcb) 0s passed
testIntervalsWithoutMergingWithNoIntervalsSpecified[0](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@41b2123e) 0s passed
testIntervalsWithoutMergingWithNoIntervalsSpecified[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@5e9671e6) 0s passed
testMultipleUnmappedInclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@7ec8db0c) 0.001s passed
testMultipleUnmappedInclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@5dd2ea0a) 0s passed
testNoIntersection[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@782143e8) 0.001s passed
testNoIntersection[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@6003eb60) 0s passed
testOptionalIsOptional 0.001s passed
testRequiredIsRequired 0.001s passed
testThrowOnUnmappedExclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@23ffc910) 0s passed
testThrowOnUnmappedExclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@7a364e1c) 0.001s passed
testUnmappedAndMappedInclusionPlusMappedExclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@38b0e2a7) 0.001s passed
testUnmappedAndMappedInclusionPlusMappedExclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@73eae5f) 0.001s passed
testUnmappedAndMappedInclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@74cff17c) 0s passed
testUnmappedAndMappedInclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@328bc067) 0.001s passed
testUnmappedInclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@7698a3d9) 0s passed
testUnmappedInclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@39dce2df) 0s passed

Standard error

14:50:50.160 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
14:50:50.162 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
14:50:50.165 INFO  IntervalArgumentCollection - Initial include intervals span 64000 loci; exclude intervals span 48000 loci
14:50:50.165 INFO  IntervalArgumentCollection - Excluding 48000 loci from original intervals (75.00% reduction)
14:50:50.165 INFO  IntervalArgumentCollection - Processing 16000 bp from intervals
14:50:50.166 INFO  IntervalArgumentCollection - Initial include intervals span 64000 loci; exclude intervals span 48000 loci
14:50:50.166 INFO  IntervalArgumentCollection - Excluding 48000 loci from original intervals (75.00% reduction)
14:50:50.166 INFO  IntervalArgumentCollection - Processing 16000 bp from intervals
14:50:50.169 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 31 loci
14:50:50.169 INFO  IntervalArgumentCollection - Excluding 21 loci from original intervals (21.00% reduction)
14:50:50.169 INFO  IntervalArgumentCollection - Processing 79 bp from intervals
14:50:50.170 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 31 loci
14:50:50.170 INFO  IntervalArgumentCollection - Excluding 21 loci from original intervals (21.00% reduction)
14:50:50.170 INFO  IntervalArgumentCollection - Processing 79 bp from intervals
14:50:50.171 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 111 loci
14:50:50.172 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (11.00% reduction)
14:50:50.172 INFO  IntervalArgumentCollection - Processing 89 bp from intervals
14:50:50.172 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 111 loci
14:50:50.172 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (11.00% reduction)
14:50:50.172 INFO  IntervalArgumentCollection - Processing 89 bp from intervals
14:50:50.173 INFO  IntervalArgumentCollection - Processing 31 bp from intervals
14:50:50.174 INFO  IntervalArgumentCollection - Processing 31 bp from intervals
14:50:50.174 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
14:50:50.175 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
14:50:50.175 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
14:50:50.176 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
14:50:50.181 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
14:50:50.181 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
14:50:50.182 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
14:50:50.182 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
14:50:50.186 INFO  IntervalArgumentCollection - Processing 12 bp from intervals
14:50:50.187 INFO  IntervalArgumentCollection - Processing 12 bp from intervals
14:50:50.191 INFO  IntervalArgumentCollection - Processing 17 bp from intervals
14:50:50.192 INFO  IntervalArgumentCollection - Processing 17 bp from intervals
14:50:50.193 INFO  IntervalArgumentCollection - Initial include intervals span 17 loci; exclude intervals span 16000 loci
14:50:50.193 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (64.71% reduction)
14:50:50.193 INFO  IntervalArgumentCollection - Processing 6 bp from intervals
14:50:50.193 INFO  IntervalArgumentCollection - Initial include intervals span 17 loci; exclude intervals span 16000 loci
14:50:50.193 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (64.71% reduction)
14:50:50.194 INFO  IntervalArgumentCollection - Processing 6 bp from intervals
14:50:50.194 INFO  IntervalArgumentCollection - Processing 1 bp from intervals
14:50:50.194 INFO  IntervalArgumentCollection - Processing 1 bp from intervals