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

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

tests
0

failures
0

ignored
0.080s

duration
100%

successful

Tests

Test Duration Result
emptyIntervalsTest[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@569d7074) 0s passed
emptyIntervalsTest[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@33e6176b) 0s passed
getUserSpecifiedIntervalsWithoutMerging[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@296ddfc7) 0.064s passed
getUserSpecifiedIntervalsWithoutMerging[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@551bc2c6) 0s passed
testAllExcluded[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@bf32f3f) 0.001s passed
testAllExcluded[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@7b50e70a) 0s passed
testExcludeWithNoIncludes[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@58192546) 0.001s passed
testExcludeWithNoIncludes[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@64aab3fd) 0s passed
testExcludeWithPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@34c79268) 0.001s passed
testExcludeWithPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@66859669) 0s passed
testIncludeWithExclude[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@7115d5af) 0s passed
testIncludeWithExclude[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@36996b37) 0s passed
testIncludeWithPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@4f61c7e1) 0s passed
testIncludeWithPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@6289376f) 0s passed
testIntervalMergingRuleAdjacentMerge[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@5b1ebbe) 0s passed
testIntervalMergingRuleAdjacentMerge[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@109941fa) 0.001s passed
testIntervalMergingRuleAdjacentNoMerge[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@2df6d461) 0s passed
testIntervalMergingRuleAdjacentNoMerge[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@4d5d6297) 0s passed
testIntervalMergingRuleOverlappingNoMergeWithPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@2541b4d3) 0s passed
testIntervalMergingRuleOverlappingNoMergeWithPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@45f20384) 0s passed
testIntervalMergingRuleOverlappingNoMerge[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@709c41da) 0.001s passed
testIntervalMergingRuleOverlappingNoMerge[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@4a467f08) 0s passed
testIntervalSetAndMergingOverlap[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@4467088e) 0.001s passed
testIntervalSetAndMergingOverlap[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@7eb370c5) 0s passed
testIntervalSetRuleIntersection[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@29509774) 0s passed
testIntervalSetRuleIntersection[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@6cc9f35d) 0.001s passed
testIntervalSetRuleUnion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@22277482) 0s passed
testIntervalSetRuleUnion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@4474c514) 0.001s passed
testIntervalUnmergingWithIntervalPaddingOverlap[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@5fc44b4b) 0.001s passed
testIntervalUnmergingWithIntervalPaddingOverlap[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@7e3062f0) 0s passed
testIntervalUnmergingWithUnmappedIntervalsAndPadding[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@23674e3d) 0s passed
testIntervalUnmergingWithUnmappedIntervalsAndPadding[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@42c2a1da) 0.001s passed
testIntervalsWithoutMergingWithNoIntervalsSpecified[0](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@6945fdb8) 0s passed
testIntervalsWithoutMergingWithNoIntervalsSpecified[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@35e64c7b) 0s passed
testMultipleUnmappedInclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@51f91d19) 0s passed
testMultipleUnmappedInclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@70882cb7) 0.001s passed
testNoIntersection[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@1988e095) 0s passed
testNoIntersection[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@4f1a4d61) 0.001s passed
testOptionalIsOptional 0.001s passed
testRequiredIsRequired 0.001s passed
testThrowOnUnmappedExclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@340f4723) 0s passed
testThrowOnUnmappedExclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@347074a9) 0s passed
testUnmappedAndMappedInclusionPlusMappedExclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@1bfa398e) 0.001s passed
testUnmappedAndMappedInclusionPlusMappedExclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@3bd552f7) 0s passed
testUnmappedAndMappedInclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@5d956649) 0s passed
testUnmappedAndMappedInclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@16d7f503) 0.001s passed
testUnmappedInclusion[0](org.broadinstitute.hellbender.cmdline.argumentcollections.OptionalIntervalArgumentCollection@4158b72f) 0s passed
testUnmappedInclusion[1](org.broadinstitute.hellbender.cmdline.argumentcollections.RequiredIntervalArgumentCollection@5c1605e2) 0s passed

Standard error

19:01:41.030 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
19:01:41.031 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
19:01:41.034 INFO  IntervalArgumentCollection - Initial include intervals span 64000 loci; exclude intervals span 48000 loci
19:01:41.034 INFO  IntervalArgumentCollection - Excluding 48000 loci from original intervals (75.00% reduction)
19:01:41.034 INFO  IntervalArgumentCollection - Processing 16000 bp from intervals
19:01:41.035 INFO  IntervalArgumentCollection - Initial include intervals span 64000 loci; exclude intervals span 48000 loci
19:01:41.035 INFO  IntervalArgumentCollection - Excluding 48000 loci from original intervals (75.00% reduction)
19:01:41.035 INFO  IntervalArgumentCollection - Processing 16000 bp from intervals
19:01:41.036 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 31 loci
19:01:41.037 INFO  IntervalArgumentCollection - Excluding 21 loci from original intervals (21.00% reduction)
19:01:41.037 INFO  IntervalArgumentCollection - Processing 79 bp from intervals
19:01:41.037 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 31 loci
19:01:41.037 INFO  IntervalArgumentCollection - Excluding 21 loci from original intervals (21.00% reduction)
19:01:41.037 INFO  IntervalArgumentCollection - Processing 79 bp from intervals
19:01:41.038 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 111 loci
19:01:41.038 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (11.00% reduction)
19:01:41.038 INFO  IntervalArgumentCollection - Processing 89 bp from intervals
19:01:41.039 INFO  IntervalArgumentCollection - Initial include intervals span 100 loci; exclude intervals span 111 loci
19:01:41.039 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (11.00% reduction)
19:01:41.039 INFO  IntervalArgumentCollection - Processing 89 bp from intervals
19:01:41.040 INFO  IntervalArgumentCollection - Processing 31 bp from intervals
19:01:41.040 INFO  IntervalArgumentCollection - Processing 31 bp from intervals
19:01:41.041 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
19:01:41.042 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
19:01:41.042 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
19:01:41.043 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
19:01:41.048 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
19:01:41.049 INFO  IntervalArgumentCollection - Processing 11 bp from intervals
19:01:41.049 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
19:01:41.050 INFO  IntervalArgumentCollection - Processing 200 bp from intervals
19:01:41.054 INFO  IntervalArgumentCollection - Processing 12 bp from intervals
19:01:41.055 INFO  IntervalArgumentCollection - Processing 12 bp from intervals
19:01:41.059 INFO  IntervalArgumentCollection - Processing 17 bp from intervals
19:01:41.060 INFO  IntervalArgumentCollection - Processing 17 bp from intervals
19:01:41.060 INFO  IntervalArgumentCollection - Initial include intervals span 17 loci; exclude intervals span 16000 loci
19:01:41.061 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (64.71% reduction)
19:01:41.061 INFO  IntervalArgumentCollection - Processing 6 bp from intervals
19:01:41.061 INFO  IntervalArgumentCollection - Initial include intervals span 17 loci; exclude intervals span 16000 loci
19:01:41.061 INFO  IntervalArgumentCollection - Excluding 11 loci from original intervals (64.71% reduction)
19:01:41.061 INFO  IntervalArgumentCollection - Processing 6 bp from intervals
19:01:41.062 INFO  IntervalArgumentCollection - Processing 1 bp from intervals
19:01:41.062 INFO  IntervalArgumentCollection - Processing 1 bp from intervals