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

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

tests
0

failures
0

ignored
0.107s

duration
100%

successful

Tests

Test Duration Result
emptyIntervalsTest[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@c730e65) 0s passed
emptyIntervalsTest[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@16263fb2) 0s passed
getUserSpecifiedIntervalsWithoutMerging[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@4620e669) 0.086s passed
getUserSpecifiedIntervalsWithoutMerging[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@5f9b37b5) 0s passed
testAllExcluded[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@17abef0f) 0.001s passed
testAllExcluded[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@6aefb242) 0s passed
testExcludeWithNoIncludes[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@5c4e86e7) 0.001s passed
testExcludeWithNoIncludes[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@5fc82de5) 0.001s passed
testExcludeWithPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@4d71476c) 0.001s passed
testExcludeWithPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@6dc8a602) 0.001s passed
testIncludeWithExclude[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@1a9cfd5f) 0.001s passed
testIncludeWithExclude[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@51fadd20) 0s passed
testIncludeWithPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@28878a52) 0s passed
testIncludeWithPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@2f19ab6) 0s passed
testIntervalMergingRuleAdjacentMerge[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@2493f9a8) 0.001s passed
testIntervalMergingRuleAdjacentMerge[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@5545c42) 0s passed
testIntervalMergingRuleAdjacentNoMerge[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@1fc51af7) 0.001s passed
testIntervalMergingRuleAdjacentNoMerge[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@41cec7b0) 0s passed
testIntervalMergingRuleOverlappingNoMergeWithPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@6773c073) 0s passed
testIntervalMergingRuleOverlappingNoMergeWithPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@4d5aeea7) 0s passed
testIntervalMergingRuleOverlappingNoMerge[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@5523f107) 0.001s passed
testIntervalMergingRuleOverlappingNoMerge[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@7d2c9b65) 0s passed
testIntervalSetAndMergingOverlap[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@6ecf239d) 0s passed
testIntervalSetAndMergingOverlap[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@6fa98e98) 0.001s passed
testIntervalSetRuleIntersection[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@42000298) 0.001s passed
testIntervalSetRuleIntersection[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@6e87556f) 0s passed
testIntervalSetRuleUnion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@38f1f6c9) 0.001s passed
testIntervalSetRuleUnion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@6f8b1902) 0s passed
testIntervalUnmergingWithIntervalPaddingOverlap[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@1b61a646) 0.001s passed
testIntervalUnmergingWithIntervalPaddingOverlap[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@fbc1de9) 0.001s passed
testIntervalUnmergingWithUnmappedIntervalsAndPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@2a12048d) 0.001s passed
testIntervalUnmergingWithUnmappedIntervalsAndPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@12e8c5c4) 0s passed
testIntervalsWithoutMergingWithNoIntervalsSpecified[0](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@1d2b49b2) 0s passed
testIntervalsWithoutMergingWithNoIntervalsSpecified[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@d6d88b1) 0s passed
testMultipleUnmappedInclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@55c901b2) 0.001s passed
testMultipleUnmappedInclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@47858d7c) 0.001s passed
testNoIntersection[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@16cc5e51) 0s passed
testNoIntersection[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@198c97d0) 0.001s passed
testOptionalIsOptional 0.001s passed
testRequiredIsRequired 0s passed
testThrowOnUnmappedExclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@6a434cdd) 0s passed
testThrowOnUnmappedExclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@27df4dcb) 0s passed
testUnmappedAndMappedInclusionPlusMappedExclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@1c7da28) 0s passed
testUnmappedAndMappedInclusionPlusMappedExclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@39b50027) 0s passed
testUnmappedAndMappedInclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@d88d9d7) 0.001s passed
testUnmappedAndMappedInclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@5d38758a) 0s passed
testUnmappedInclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@1b6daf20) 0.001s passed
testUnmappedInclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@5086e144) 0s passed

Standard error

15:09:02.123 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
15:09:02.124 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
15:09:02.127 INFO  IntervalArgumentCollection - Initial include intervals span 64000 loci; exclude intervals span 48000 loci
15:09:02.127 INFO  IntervalArgumentCollection - Excluding 48000 loci from original intervals (75.00% reduction)
15:09:02.127 INFO  IntervalArgumentCollection - Processing 16000 bp from intervals
15:09:02.128 INFO  IntervalArgumentCollection - Initial include intervals span 64000 loci; exclude intervals span 48000 loci
15:09:02.128 INFO  IntervalArgumentCollection - Excluding 48000 loci from original intervals (75.00% reduction)
15:09:02.128 INFO  IntervalArgumentCollection - Processing 16000 bp from intervals
15:09:02.129 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 31 loci
15:09:02.129 INFO  IntervalArgumentCollection - Excluding 21 loci from original intervals (21.00% reduction)
15:09:02.129 INFO  IntervalArgumentCollection - Processing 79 bp from intervals
15:09:02.129 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 31 loci
15:09:02.130 INFO  IntervalArgumentCollection - Excluding 21 loci from original intervals (21.00% reduction)
15:09:02.130 INFO  IntervalArgumentCollection - Processing 79 bp from intervals
15:09:02.130 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 111 loci
15:09:02.130 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (11.00% reduction)
15:09:02.131 INFO  IntervalArgumentCollection - Processing 89 bp from intervals
15:09:02.131 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 111 loci
15:09:02.131 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (11.00% reduction)
15:09:02.131 INFO  IntervalArgumentCollection - Processing 89 bp from intervals
15:09:02.132 INFO  IntervalArgumentCollection - Processing 31 bp from intervals
15:09:02.132 INFO  IntervalArgumentCollection - Processing 31 bp from intervals
15:09:02.133 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
15:09:02.135 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
15:09:02.136 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
15:09:02.137 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
15:09:02.144 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
15:09:02.145 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
15:09:02.146 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
15:09:02.146 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
15:09:02.152 INFO  IntervalArgumentCollection - Processing 12 bp from intervals
15:09:02.152 INFO  IntervalArgumentCollection - Processing 12 bp from intervals
15:09:02.157 INFO  IntervalArgumentCollection - Processing 17 bp from intervals
15:09:02.157 INFO  IntervalArgumentCollection - Processing 17 bp from intervals
15:09:02.158 INFO  IntervalArgumentCollection - Initial include intervals span 17 loci; exclude intervals span 16000 loci
15:09:02.158 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (64.71% reduction)
15:09:02.158 INFO  IntervalArgumentCollection - Processing 6 bp from intervals
15:09:02.159 INFO  IntervalArgumentCollection - Initial include intervals span 17 loci; exclude intervals span 16000 loci
15:09:02.159 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (64.71% reduction)
15:09:02.159 INFO  IntervalArgumentCollection - Processing 6 bp from intervals
15:09:02.160 INFO  IntervalArgumentCollection - Processing 1 bp from intervals
15:09:02.160 INFO  IntervalArgumentCollection - Processing 1 bp from intervals