Surefire Report

Summary

[Summary] [Package List] [Test Cases]

Note: failures are anticipated and checked for with assertions while errors are unanticipated.

Package List

[Summary] [Package List] [Test Cases]

Note: package statistics are not computed recursively, they only sum up all of its testsuites numbers.

ubic.basecode.io

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	TestByteArrayConverter	15	0	0	0	100%	0.095

ubic.basecode.math.linalg

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	QRDecompositionTest	5	0	0	0	100%	0.003

ubic.basecode.util

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	TestStringUtil	8	0	0	0	100%	0.005
	SQLUtilsTest	1	0	0	0	100%	0.001
	BatchIteratorTest	3	0	0	0	100%	0
	DateUtilTest	6	0	0	0	100%	0.004
	ConfigUtilsTest	13	0	0	0	100%	0.186
	StringUtilTest	5	0	0	0	100%	0.001
	NetUtilsTest	4	0	0	0	100%	3.918
	PrettyPrinterTest	1	0	0	0	100%	0.009
	FileToolsTest	32	0	0	0	100%	0.074

ubic.basecode.dataStructure.params

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	ParameterKeeperTest	1	0	0	0	100%	0.335
	ParamGrabberTest	1	0	0	0	100%	0

ubic.basecode.graphics

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	MatrixDisplayTest	4	0	0	0	100%	0.228

ubic.basecode.io.writer

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	TestHistogramWriter	1	0	0	0	100%	0
	MatrixWriterTest	3	0	0	0	100%	0.002

ubic.basecode.ontology.ncbo

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	AnnotatorClientTest	3	0	0	3	0%	0.001

ubic.basecode.math.distribution

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	HistogramTest	2	0	0	0	100%	0
	NormalProbabilityComputerTest	4	0	0	0	100%	0
	HistogramSamplerTest	1	0	0	0	100%	0
	TestWishart	1	0	0	0	100%	0
	UniformDensityComputerTest	1	0	0	0	100%	0

ubic.basecode.math.metaanalysis

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	MetaAnalysisTest	2	0	0	0	100%	0
	TestCorrelationEffectMetaAnalysis	9	0	0	0	100%	0.003
	TestMeanDifferenceMetaAnalysis	8	0	0	0	100%	0.001

ubic.basecode.util.r

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	RServeClientTest	21	0	0	0	100%	6.401
	JRIClientTest	21	0	0	0	100%	0.003

ubic.basecode.math.linearmodels

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	LeastSquaresFitTest	20	0	0	0	100%	12.164
	DesignMatrixTest	5	0	0	0	100%	0.008
	MeanVarianceEstimatorTest	5	0	0	0	100%	0.053
	ModeratedTstatTest	6	0	0	0	100%	0.205

ubic.basecode.ontology.jena

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	UberonOntologySearchTest	2	0	0	0	100%	26.853
	JenaUtilsTest	1	0	0	0	100%	0.18
	OntologyLoaderTest	2	0	0	0	100%	0.19
	OntologySearchTest	9	0	0	0	100%	4.444

ubic.basecode.dataStructure.graph

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	TestDirectedGraph	11	0	0	0	100%	0.298

ubic.basecode.dataStructure.matrix

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	SparseRaggedDoubleMatrixTest	10	0	0	0	100%	0.018
	MatrixUtilTest	7	0	0	0	100%	0.016
	SparseDoubleMatrixTest	24	0	0	0	100%	0.029
	CompressedNamedBitMatrixTest	9	0	0	0	100%	0.092
	StringMatrixTest	4	0	0	0	100%	0.005
	CompressedSparseDoubleMatrixTest	38	0	0	0	100%	1.061
	DenseDoubleMatrixTest	39	0	0	0	100%	0.076
	RCDoubleMatrix1DTest	3	0	0	0	100%	0
	DenseDouble3dMatrixTest	4	0	0	0	100%	0.002
	FastRowAccessDoubleMatrixTest	39	0	0	0	100%	0.064
	IntegerMatrixTest	16	0	0	0	100%	0.008

ubic.basecode.math

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	TestStats	14	0	0	0	100%	0.001
	StringDistanceTest	16	0	0	0	100%	0
	TestMathUtil	5	0	0	0	100%	0
	TestMatrixNormalizer	2	0	0	0	100%	0
	RandomChooserTest	7	0	0	0	100%	1.384
	TestMatrixStats	15	0	0	0	100%	0.154
	TestSpecFunc	7	0	0	0	100%	0.001
	TestWilcoxon	15	0	0	0	100%	3.973
	SingularValueDecompositionTest	1	0	0	0	100%	0.097
	KruskalWallisTest	1	0	0	0	100%	0
	MultipleTestCorrectionTest	5	0	0	0	100%	0.085
	TestROC	3	0	0	0	100%	0.046
	TestRank	14	0	0	0	100%	0
	PrecisionRecallTest	5	0	0	0	100%	0
	TestKSTest	2	0	0	0	100%	0.001
	TestMatrixRowStats	6	0	0	0	100%	0
	TestDescriptiveWithMissing	45	0	0	0	100%	0.003
	DistanceTest	12	0	0	0	100%	0.001
	CorrelationStatsTest	18	0	0	0	100%	0.091

ubic.basecode.io.reader

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	TestSparseRaggedDouble2DNamedMatrixReader	3	0	0	0	100%	0.874
	TestMapReader	3	0	0	0	100%	0
	HistogramReaderTest	2	0	0	0	100%	0.001
	TestSparseDoubleMatrixReader	2	0	0	0	100%	0.003
	TestDoubleMatrixReader	15	0	0	0	100%	0.077
	TestStringMatrixReader	4	0	0	0	100%	0.001

ubic.basecode.datafilter

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	TestRowMissingFilter	11	0	0	0	100%	0.025
	TestRowAffyNameFilter	2	0	0	0	100%	0.005
	TestRowAbsentFilter	9	0	0	0	100%	0.063
	TestItemLevelFilter	1	0	0	0	100%	0.001
	TestRowLevelFilter	23	0	0	0	100%	0.087
	TestRowNameFilter	4	0	0	0	100%	0.012

ubic.basecode.ontology

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	OntologyTermTest	5	0	0	0	100%	1.488

ubic.basecode.dataStructure.tree

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	BinaryTreeTest	7	0	0	0	100%	0.001

ubic.basecode.dataStructure

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	DoubleAddingMapTest	1	0	0	0	100%	0
	CountingMapTest	6	0	0	0	100%	0
	BitUtilTest	5	0	0	0	100%	0.002
	StringToStringSetMapTest	6	0	0	0	100%	0

ubic.basecode.io.excel

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	ExcelUtilTest	3	0	0	0	100%	0.24

Test Cases

[Summary] [Package List] [Test Cases]

MetaAnalysisTest

	testFisherCombinePvaluesB	0
	testFisherCombinePvalues	0

TestStringUtil

	testTwoStringHashKey	0
	testCsvSplitA	0.003
	testCsvSplitB	0.001
	testCsvSplitC	0
	testCsvSplitD	0
	testCsvSplitE	0
	testCsvSplitF	0.001
	testTwoStringHashKeyB	0

TestSparseRaggedDouble2DNamedMatrixReader

	testReadStreamAdjList	0
	testReadInputStream	0
	testReadStreamAdjListBig	0.873

RServeClientTest

	testExec	0.315
	testListEvalA	0.304
	testListEvalB	0.304
	testExecError	0.304
	testDataFrameA	0.304
	testAssignAndRetrieveMatrix	0.303
	testAnovaA	0.304
	testAnovaB	0.304
	testAnovaC	0.304
	testAnovaD	0.305
	testAnovaE	0.304
	testAnovaF	0.304
	testLimmaA	0.303
	testExecDoubleArray	0.304
	testAssignAndRetrieveMatrixB	0.304
	testAssignAndRetrieveMatrixD	0.306
	testLinearModelA	0.303
	testLinearModelB	0.304
	testLinearModelC	0.304
	testLinearModelD	0.308
	testStringListEvalB	0.305

SparseRaggedDoubleMatrixTest

	testSubsetRows	0.008
	testSubsetRowsFail	0
	testRows	0.002
	testGetRowMatrix1D	0.002
	testGetRowArrayList	0.001
	testColumns	0.001
	testGetColRange	0.001
	testAddrow	0.001
	testGetRow	0.001
	testGetRowRange	0.001

TestStats

	testNormalizeDoubleArrayListdouble	0
	testCdf	0
	testRange	0.001
	testMeanAboveQuantile	0
	testCv	0
	testCumulateRight	0
	testQuantile	0
	testIsValidFraction	0
	testIsValidFraction2	0
	testNumberOfDistinctValues	0
	testCumulate	0
	testQuantile75	0
	testNormalizeDoubleArrayList	0
	testNumberOfDistinctValuesNonNA	0

MatrixUtilTest

	testSelectColumnsAndRowsBad	0
	testSelectColumns	0
	testDropColumn	0
	testSelectColumnsAndRows	0.007
	testRemoveMissing1	0.004
	testRemoveMissing2	0.001
	testSelectRows	0.002

SQLUtilsTest

testBlobToString

0

BinaryTreeTest

	testGetRight	0
	testInsertRight	0
	testGetLeft	0
	testGetRoot	0
	testInsertLeft	0
	testIsLeaf	0
	testIsEmpty	0

BatchIteratorTest

	testBatches	0
	testBatchIterator	0
	testConcurrentModificationException	0

TestRowMissingFilter

	testFilterPresentCountInvalid	0
	testFilterWithMissingLowMaxFraction	0.001
	testFilterWithMissing	0
	testFilterWithMissingLessStringent	0
	testFilterFractionInvalid2	0.003
	testFilterFractionInvalid	0.01
	testFilterStringMatrix	0.003
	testFilterFraction	0.002
	testFilter	0.002
	testMaxFractionRemovedInvalid	0.002
	testFilterNoFiltering	0.002

UberonOntologySearchTest

	testScore	0.101
	testOmitDefinition	0.017

ParameterKeeperTest

test

0.335

TestRowAffyNameFilter

	testStringFilter	0.001
	testFilter	0.004

SparseDoubleMatrixTest

	testSubsetCols	0.008
	testSubsetRows	0.001
	testToArray	0.002
	testGet	0.001
	testSet	0
	testCopy	0.001
	testRows	0.001
	testSize	0.001
	testToString	0.002
	testGetRowArrayList	0
	testViewRow	0.001
	testColumns	0
	testGetColRange	0
	testGetByKeys	0.001
	testGetColObj	0
	testGetColumn	0.002
	testIsMissing	0.001
	testViewColumn	0
	testGetObject	0.001
	testGetRow	0.001
	testGetRowObj	0.001
	testGetRowRange	0
	testGetRowByName	0.001
	testGetColByName	0.001

TestRowAbsentFilter

	testFilterKeepMarginal	0.003
	testFilterPresentCountInvalid	0.007
	testFilterWithMissing	0.008
	testFilterNullFlags	0.007
	testFilterWithMissingLessStringent	0.007
	testFilterFractionInvalid	0.007
	testFilterStringMatrix	0.008
	testFilterFraction	0.007
	testFilter	0.008

StringDistanceTest

	testWeightedHammingA	0
	testWeightedHammingB	0
	testWeightedHammingC	0
	testHammingDistance	0
	testBadMatch	0
	testEditDistanceA	0
	testEditDistanceB	0
	testEditDistanceC	0
	testEditDistanceD	0
	testEditDistanceE	0
	testEditDistanceF	0
	testEditDistanceG	0
	testEditDistanceH	0
	testWeightedSuffixHammingA	0
	testWeightedSuffixHammingB	0
	testWeightedSuffixHammingC	0

TestMathUtil

	testMax	0
	testSumArray	0
	testFillRangeDown	0
	testFillRange	0
	testFillRangeNo	0

CompressedNamedBitMatrixTest

	testGetOutOfBounds	0.014
	testOverlap	0
	testGet	0
	testTotalBitCount	0.001
	testOutOfBounds	0
	testOutOfBounds2	0.001
	testGetRowBitCount	0
	testBitMatrix	0.014
	testBitCount	0

TestHistogramWriter

testWriter

0

StringMatrixTest

	testToString	0
	testSubsetColumns	0.002
	testGetColObj	0.001
	testSubset	0.002

DoubleAddingMapTest

test

0

TestMapReader

	testRead	0
	testReadNoHeader	0
	testReadNoHeaderFile	0

TestMatrixNormalizer

	testQuantileNormalize	0
	testQuantileNormalizeWithMissing	0

RandomChooserTest

	testChooseRandomDeck	0.02
	testRepeatSubset	0.67
	testChooserandomInts	0.014
	testChooserandomWrep	0
	testRandomSubset	0
	testChooserandomInt	0.059
	testRepeat	0.621

TestMatrixStats

	testRbfNormalize	0
	testSelfSquare	0
	testStandardize	0
	testCorrelationMatrix	0
	testMax	0
	testMin	0
	testNan	0
	testColSumsWithMissing	0
	testLogTransform	0
	testDoubleStandardize	0
	testCov2Cor	0.001
	testConvertToLog2Cpm	0.147
	testConvertLog	0.001
	testCountsPerMillionWithMissing	0.001
	testCorrelationMatrixThreshold	0.004

MatrixWriterTest

	testWriteMatrixB	0
	testWriteMatrix	0
	testWrite3DMatrix	0.002

TestItemLevelFilter

testFilter

0

LeastSquaresFitTest

	testTwoWayAnovaUnfittable	0.065
	testThreeWaySingular	0.195
	testEstrogen	5.648
	testVectorWeightedRegress	0.001
	testNHBE	6.088
	testLSFTwoLevels2	0.042
	testLSFTwoLevels3	0.035
	testSingular2	0.004
	testVectorWeightedRegressWithMissing	0.005
	testVectorRegress	0
	testLSFThreeLevelsOneContinuousWithMissing3	0.005
	testTwoWayAnovaWithInteractions	0.004
	testLSFTwoLevels	0.005
	testOneWayAnova	0.022
	testTwoWayTwoLevelsOneContinousInteractionC	0.006
	testLSFThreeLevelsOnecontinous2	0.004
	testMatrixWeightedRegress	0
	testSingular	0.02
	testLSFTwoLevelsOneContinuous	0.008
	testLSFOneContinuousWithMissing3	0.005

MatrixDisplayTest

	testWriteOutAsPNG2	0.187
	testWriteOutAsPNG	0.013
	testSaveImage	0.008
	testSaveImageStandardize	0.02

DateUtilTest

	testgetRelative5yearsFromnow	0.001
	testRange	0.002
	testgetRelative5yearsago	0.001
	testgetRelativeTomorrow	0
	testgetRelativeDateDayago	0
	testRangeBad	0

HistogramTest

	testGetBiggestBinSize	0
	testGetApproximateQuantile	0

TestSpecFunc

	testdBinom	0
	testCumHyperGeometricB	0
	testTrigammaInverse	0
	testCumHyperGeometric	0
	testTrigammaInverseB	0
	testHypergeometric	0
	testCumHyperGeometricUT	0

TestWilcoxon

	testWilxcoxonPExactB	0
	testWilxcoxonPExactC	0
	testWilxcoxonPExactD	3.941
	testWilxcoxonPGaussB	0.002
	testBGaussian	0
	testFVolume	0.001
	testWilxcoxonPVolume	0.008
	testBig	0
	testWilxcoxonPGauss	0
	testWilcoxonPExactA	0
	testCGaussian	0.001
	testDVolume	0.001
	testAExact	0.017
	testWilxcoxonPWithTies	0.001
	testEVolume	0.001

NormalProbabilityComputerTest

	testProbabilityDoubleBoolean	0
	testProbabilityDoubleBooleanLower	0
	testInvalidVariance	0
	testProbabilityDouble	0

ConfigUtilsTest

	testLoadConfigURL	0.069
	testGetConfigBuilderFile	0.092
	testGetConfigBuilderString	0.003
	testGetConfigBuilderURLNew	0.001
	testGetConfigBuilderStringNew	0.002
	testLoadConfigString	0.002
	testLoadConfigURLNew	0.001
	testLoadConfigStringNewName	0.007
	testGetConfigBuilderURL	0
	testLoadConfigStringNew	0.002
	testLoadConfigFile	0.002
	testGetConfigBuilderFileNew	0.002
	testLoadConfigFileNew	0.001

AnnotatorClientTest

	test + - [ Detail ]	0
	This test require -Dncbi.api.key to be set.
	testB + - [ Detail ]	0
	This test require -Dncbi.api.key to be set.
	testC + - [ Detail ]	0
	This test require -Dncbi.api.key to be set.

StringUtilTest

	testMakeRnames	0
	testCommonPrefixNone	0
	testCommonSuffixNone	0
	testCommonPrefix	0
	testCommonSuffix	0

TestByteArrayConverter

	testDoubleArrayToByteArrayConversionSpeed	0.01
	testByteArrayToBooleans	0.005
	testStringToDoubleArrayConversionSpeed	0.009
	testByteArrayToDoubleConversionSpeed	0.008
	testByteArrayToTabbedString	0.008
	testDoubleArrayToBytes	0.005
	testIntsToBytes	0.006
	testBooleansToLongArray	0.006
	testByteArrayToDoubles	0.005
	testStringToBytes	0.007
	testDoubleArrayToDelimitedStringConversionSpeed	0.009
	testObjectToBytes	0.005
	testBooleansToByteArray	0.004
	testByteArrayToLongs	0.003
	testByteArrayToDoubleMatrix	0.004

JenaUtilsTest

testInferenceCapabilities

0.178

TestCorrelationEffectMetaAnalysis

	testRunUFEffect	0.001
	testRunZFEffect	0
	testRunZRQval	0
	testRunUFZscore	0
	testRunZFZscore	0.001
	testRunUFVar	0
	testRunURBSV	0
	testRunZFVar	0
	testRunZRBSV	0.001

TestDirectedGraph

	testDeleteLeaf1	0.001
	testDeleteLeafFail	0
	testGetChildren	0
	testToString	0
	testAddChild	0
	testTopoSort	0
	testAddParent	0
	testDeleteLeafNotLeaf	0
	testAddChildFail	0
	testAddParentFail	0
	testTreeView	0.297

DesignMatrixTest

	testInteractionC	0.001
	test2	0
	testA	0
	testB	0
	testInteractionAndRelevel	0.006

HistogramSamplerTest

testNextSample

0

SingularValueDecompositionTest

testSingularValueDecomposition

0.097

CompressedSparseDoubleMatrixTest

	testSubsetRows	0.912
	testToArray	0.005
	testSortByColumnAbsoluteValue	0.021
	testGet	0.006
	testSet	0.006
	testRows2	0.004
	testCopy	0.005
	testGet2	0.003
	testRows	0.003
	testSet2	0.004
	testSize	0.004
	testToString	0.007
	testGetRowByNameFail	0.004
	testGetRowByNameNull	0.004
	testSetIntIntObject	0.004
	testGetRow2	0.005
	testSubsetColumns	0.009
	testViewRow	0.006
	testColumns	0.002
	testGetColRange	0.002
	testGetByKeys	0.002
	testGetColObj	0.002
	testGetColumn	0.002
	testIsMissing	0.005
	testViewColumn	0.002
	testGetColObj2	0.002
	testGetObject	0.002
	testGetRow	0.002
	testGetRowObj	0.002
	testGetRowRange	0.002
	testGetRowByName	0.003
	testIsMissing2	0.002
	testGetColByNameFail	0.002
	testGetColByNameNull	0.002
	testGetRowObj2	0.002
	testGetColByName	0.002
	testGetRowArrayList2	0.002
	testViewRow2	0.002

MeanVarianceEstimatorTest

	testVoom	0.034
	testMeanVarianceNoDesignWithColsRowAllMissing	0
	testDuplicateRows	0.017
	testInterpolate	0
	testMeanVarianceNoDesignWithMissing	0.001

DenseDoubleMatrixTest

	testConstructFromArray	0
	testSubsetRows	0
	testToArray	0.002
	testSortByColumnAbsoluteValue	0.013
	testGet	0.003
	testSet	0.002
	testRows2	0.002
	testCopy	0.003
	testGet2	0.002
	testRows	0.002
	testSet2	0.002
	testSize	0.003
	testToString	0.002
	testGetRowByNameFail	0.002
	testGetRowByNameNull	0.002
	testSetIntIntObject	0.002
	testGetRow2	0.002
	testSubsetColumns	0.001
	testViewRow	0.002
	testColumns	0.001
	testGetColRange	0.001
	testGetByKeys	0.002
	testGetColObj	0.002
	testGetColumn	0.001
	testIsMissing	0.003
	testViewColumn	0.001
	testGetColObj2	0.001
	testGetObject	0.002
	testGetRow	0.001
	testGetRowObj	0.001
	testGetRowRange	0.001
	testGetRowByName	0.002
	testIsMissing2	0.001
	testGetColByNameFail	0.001
	testGetColByNameNull	0.002
	testGetRowObj2	0.001
	testGetColByName	0.001
	testGetRowArrayList2	0.002
	testViewRow2	0.001

CountingMapTest

	testSummation	0
	testCount	0
	testSeen	0
	testIncrement	0
	testSortedKeyList	0
	testSortedKeyListBoolean	0

NetUtilsTest

	testFtpFileSize	0.825
	testCheckForFile	0.777
	testFtpFileSizeDoesntExist	1.325
	testDownloadFile	0.991

OntologyLoaderTest

	testCacheOntologyToDisk	0.162
	testHasChanged	0.007

ParamGrabberTest

test

0

OntologySearchTest

	testPersistence	0.838
	testOmitDefinitions2	0.267
	testOmitDefinitions3	0.048
	testOmitDefinitions4	1.865
	testOmitBadPredicates2	0.06
	testOmitBadPredicates	0.058
	testIndexing	0.727
	testOmitDefinitions	0.055
	testStemming	0.473

KruskalWallisTest

testKW

0

RCDoubleMatrix1DTest

	testZSum	0
	testAssignAr	0
	testAssign	0

TestMeanDifferenceMetaAnalysis

	testRunRandomE	0
	testRunRandomZ	0
	testRunFixedE	0
	testRunFixedQ	0
	testRunFixedZ	0
	testRunRandomBSV	0
	testRunRandomVar	0
	testRunFixedVar	0

OntologyTermTest

	testGetParentsHasProperPart	0.079
	testGetChildren	0.656
	testGetChildrenHasProperPart	0.034
	testGetParents	0.311
	testRejectNonEnglish	0.396

MultipleTestCorrectionTest

	testBenjaminiYekuteliCut	0.008
	testBenjaminiHochbergCut	0.017
	testBenjaminiHochberg	0.022
	testBenjaminiHochbergM	0.023
	testBonferroniCut	0.015

TestROC

	testBig	0.045
	testAroc	0
	testArocPvalue	0

TestRowLevelFilter

	testFilterMinHigh	0.006
	testFilterFractionMaxRemoveHighAndLowBothFraction	0.005
	testFilterMaxTooHigh	0.003
	testFilterMedian	0.006
	testFilterNoFilter	0.003
	testFilterFractionMaxRemoveHighAndLowBothLevelsNegLow	0.004
	testFilterFractionMaxRemoveNegHigh	0.004
	testFilterMax	0.003
	testFilterMin	0.004
	testFilterMaxFractionNoneRemoveNeg	0.003
	testFilterMedianHigh	0.004
	testFilterFractionMaxRemoveHighAndLowBothLevelsNoNegRemove	0.003
	testFilterFractionMaxRemoveNeg	0.003
	testFilterMaxFractionAll	0.004
	testFilterFractionMaxRemoveHighAndLowBothLevels	0.003
	testFilterMaxFraction	0.004
	testFilterBadFraction	0.003
	testFilterMaxFractionHigh	0.003
	testFilterMaxFractionNone	0.004
	testFilterFractionMaxRemoveHighAndLow	0.003
	testFilterMeanHigh	0.003
	testFilterMean	0.004
	testFilterMaxHigh	0.003

TestRank

	testRankTransformMapDesc	0
	testRankTransformDoubleArrayListDesc	0
	testRankTransformMap	0
	testOrder	0
	testRankWithTies	0
	testWithNaNs	0
	testRankTransformDoubleArrayList	0
	testRankWithTiesB	0
	testRankWithTiesC	0
	testRankWithTiesD	0
	testRankWithTiesE	0
	testWithNaNs2	0
	testWithNaNs3	0
	testOrderB	0

HistogramReaderTest

	testHistogramReaderIs	0
	testHistogramReaderString	0.001

PrettyPrinterTest

testPrintBeans

0.007

PrecisionRecallTest

	testAveragePrecisionB	0
	testAveragePrecisionWithTie	0
	testAveragePrecisionNotInOrder	0
	testAveragePrecision	0
	testAveragePrecisionBNotInOrder	0

TestKSTest

	testKSTestTwoSample	0
	testKSTestOneSample	0

TestSparseDoubleMatrixReader

	testReadStream	0
	testReadJW	0.003

JRIClientTest

	testExec	0.001
	testListEvalA	0
	testListEvalB	0
	testExecError	0
	testDataFrameA	0
	testAssignAndRetrieveMatrix	0
	testAnovaA	0
	testAnovaB	0
	testAnovaC	0
	testAnovaD	0
	testAnovaE	0
	testAnovaF	0
	testLimmaA	0
	testExecDoubleArray	0
	testAssignAndRetrieveMatrixB	0
	testAssignAndRetrieveMatrixD	0.001
	testLinearModelA	0
	testLinearModelB	0
	testLinearModelC	0
	testLinearModelD	0
	testStringListEvalB	0

TestDoubleMatrixReader

	testReadChooseRowsBadfileName	0
	testReadInputStreamMissingBad	0
	testReadInputStreamGotColNameSkipColumn	0
	testReadInputStreamRowCount	0
	testReadInputStreamGotColName	0.001
	testReadInputStreamGotRowName	0.001
	testSmallNumbers	0.05
	testReadInputStreamMissingSpaces	0.013
	testReadBad	0.002
	testBadFileName	0
	testReadChooseRowsSkipcols	0.002
	testReadBlankCorner	0.002
	testReadInputStreamMissing	0.002
	testReadChooseRows	0.001
	testReadInputStreamColumnCount	0.002

TestWishart

testNextDoubleMatrix

0

FileToolsTest

	testHasImageExtension	0
	testTestDir	0
	testGetWithoutExtension	0.001
	testGetLines	0.003
	testTouch	0.002
	testListDirectoryFiles	0.011
	testAddImageExtension	0.001
	testChangeExtension	0.001
	testDeleteFilesAndDir	0.005
	testCleanFileName	0.002
	testgetStringListFromFile	0.002
	testGetWithoutExtensionB	0.002
	testGetWithoutExtensionC	0.001
	testResourcetoPath	0.001
	testCleanFileNameErr	0.002
	testIsGZipped	0.003
	testUnGzipFile	0.002
	testCopyFileFailOnDirectoryOutput	0.002
	testTestFileString	0.001
	testGetCompressedFile	0.002
	testCopyFile	0.002
	testGetExtension	0.002
	testCheckPathIsReadableFile	0.001
	testIsZipped	0.002
	testAddDataExtension	0.001
	testGetCompressedFileZip	0.003
	testTestFileFile	0.001
	testCheckPathIsReadableFileNot	0.002
	testCopyFileFailOnDirectoryInput	0.001
	testGetInputStreamFromPlainOrCompressedFile	0.002
	testHasXMLExtension	0.001
	testUnzipFile	0.009

BitUtilTest

	testGet	0
	testSet	0
	testClear	0.001
	testCount	0
	testToBool	0

StringToStringSetMapTest

	testExpandedValues	0
	testMatrix2	0
	testExpandedSize	0
	testWhereIs	0
	testMatrix	0
	testSeenValues	0

DenseDouble3dMatrixTest

	testget	0
	testtostring	0.001
	testgetcolobj	0
	testgetrowobj	0

ModeratedTstatTest

	testLimmaMissing	0.028
	testFdist	0.001
	testLimma	0.031
	testSqueezeVarB	0.144
	testSqueezeVar	0.001
	testSqueezeVarWMissing	0

ExcelUtilTest

	testGetSheetFromFile	0.237
	testGetSet	0
	testSetFormula	0.003

TestMatrixRowStats

	testSumOfSquaresDoubleMatrixNamed	0
	testMeans	0
	testSums	0
	testMeans2	0
	testStandardDeviations	0
	testSumOfSquaresDoubleMatrixNamedDoubleArrayList	0

TestDescriptiveWithMissing

	testRankInterpolated	0
	testKurtosis	0.001
	testCorrelationA	0
	testCorrelationB	0
	testQuantileInverse	0
	testStandardize	0
	testIncrementalWeightedUpdate	0
	testSumOfPowerDeviationsA	0
	testOptimizedCorrelation	0
	testMad	0
	testMax	0
	testMin	0
	testSum	0
	testMeanDoubleArB	0
	testSumOfInversions	0
	testLag1	0
	testMean	0
	testSkew	0
	testDurbinWatson	0
	testMeanAboveQuantile	0
	testSumOfSquares	0
	testProduct	0
	testGeometricMean	0
	testMeanDoubleAr	0
	testSampleSkew	0
	testQuantile	0
	testVariance	0
	testQuantiles	0
	testSampleKurtosis	0
	testStandardizeNoVariance	0
	testDurbinWatsonTwo	0.001
	testKurtosisList	0
	testSumOfSquaredDeviations	0
	testSampleStandardDeviation	0
	testMeanEff	0
	testSumOfPowers	0
	testSampleVariance	0
	testWeightedMean	0
	testCovariance	0
	testIncrementalUpdate	0
	testMedian	0
	testTrimmedMean	0
	testIncrementalUpdateSums	0
	testDurbinWatsonShort	0.001
	testAutoCorrelation	0

FastRowAccessDoubleMatrixTest

	testConstructFromArray	0
	testSubsetRows	0
	testToArray	0.001
	testSortByColumnAbsoluteValue	0.006
	testGet	0.001
	testSet	0.001
	testRows2	0.001
	testCopy	0.002
	testGet2	0.001
	testRows	0.002
	testSet2	0.001
	testSize	0.002
	testToString	0.002
	testGetRowByNameFail	0.003
	testGetRowByNameNull	0.002
	testSetIntIntObject	0.003
	testGetRow2	0.002
	testSubsetColumns	0.001
	testViewRow	0.002
	testColumns	0.001
	testGetColRange	0.001
	testGetByKeys	0.001
	testGetColObj	0.002
	testGetColumn	0.001
	testIsMissing	0.003
	testViewColumn	0.001
	testGetColObj2	0.002
	testGetObject	0.002
	testGetRow	0.001
	testGetRowObj	0.001
	testGetRowRange	0.002
	testGetRowByName	0.001
	testIsMissing2	0.001
	testGetColByNameFail	0.002
	testGetColByNameNull	0.001
	testGetRowObj2	0.001
	testGetColByName	0.001
	testGetRowArrayList2	0.001
	testViewRow2	0.001

DistanceTest

	testSpearmanRankCorrelation	0
	testCorrelationOfStandardizedDoubleArrayDoubleArray	0
	testSpearmanRankCorrelation2	0
	testSpearmanRankCorrelation3	0
	testManhattanDistance	0
	testSpearmanRankCorrelationNaN	0
	testEuclDistance	0
	testSpearmanOneList1	0
	testSpearmanOneList2	0
	testSpearmanOneList3	0
	testSpearmanOneList4	0.001
	testCorrelationOfStandardizedDoubleArrayListDoubleArrayList	0

UniformDensityComputerTest

testDensity

0

IntegerMatrixTest

	testGetEntry	0
	testGet	0
	testSet	0
	testRows	0
	testSize	0
	testColumns	0
	testSetByKeys	0.001
	testToInteger	0.001
	testGetByKeys	0
	testGetColObj	0.001
	testGetColumn	0
	testIsMissing	0.001
	testGetObject	0
	testGetRow	0.001
	testGetRowObj	0.001
	testSetObj	0.001

TestRowNameFilter

	testFilterString	0.001
	testFilterExclude	0.001
	testFilter	0.005
	testFilterStringExclude	0.004

TestStringMatrixReader

	testReadInputStreamRowCount	0
	testReadInputStreamGotColName	0
	testReadInputStreamGotRowName	0
	testReadInputStreamColumnCount	0

CorrelationStatsTest

	testSpearmanPvalueA	0
	testSpearmanPvalueB	0
	testSpearmanPvalueD	0
	testSpearmanPvalueE	0.022
	testSpearmanPvalueF	0
	testSpearmanPvalueG	0.059
	testCorrelationForPvalue	0
	testCorrelTooSmall	0
	testInverseFisherTransform	0
	testSpearmanPvalueTDist	0
	testCorrel	0
	testCorrelAsByte	0
	testPvalue	0
	testSpearmanPvalueA2	0
	testSpearmanPvalueD2	0
	testSpearmanPvalueEh	0
	testSpearmanPvalueEm	0.009
	testSpearmanPvalueG2	0

QRDecompositionTest

	testScaledDesign	0
	testSingular2	0
	test1	0
	test3	0.003
	test2NoPivoting	0

Failure Details

[Summary] [Package List] [Test Cases]

	test
	skipped: This test require -Dncbi.api.key to be set.
	testB
	skipped: This test require -Dncbi.api.key to be set.
	testC
	skipped: This test require -Dncbi.api.key to be set.