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	17	0	0	0	100%	0.12

ubic.basecode.math.linalg

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	QRDecompositionTest	5	0	0	0	100%	0.029

ubic.basecode.util

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	SQLUtilsTest	1	0	0	0	100%	0.001
	DateUtilTest	6	0	0	0	100%	0.011
	StringUtilTest	6	0	0	0	100%	0
	BatchIteratorTest	3	0	0	0	100%	0
	PrettyPrinterTest	1	0	0	0	100%	0
	FileToolsTest	32	0	0	0	100%	0.856
	NetUtilsTest	4	0	0	0	100%	4.488
	ConfigUtilsTest	13	0	0	0	100%	0.303
	TestStringUtil	8	0	0	0	100%	0.002

ubic.basecode.dataStructure.params

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	ParameterKeeperTest	1	0	0	0	100%	0.246
	ParamGrabberTest	1	0	0	0	100%	0

ubic.basecode.graphics

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	MatrixDisplayTest	4	0	0	0	100%	0.173

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%	0.001

ubic.basecode.ontology.ncbo

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	AnnotatorClientTest	3	0	0	3	0%	0.003

ubic.basecode.math.distribution

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	NormalProbabilityComputerTest	4	0	0	0	100%	0
	HistogramTest	2	0	0	0	100%	0
	UniformDensityComputerTest	1	0	0	0	100%	0
	HistogramSamplerTest	1	0	0	0	100%	0.027
	TestWishart	1	0	0	0	100%	0

ubic.basecode.math.linearmodels

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	LeastSquaresFitTest	20	0	0	0	100%	10.289
	DesignMatrixTest	5	0	0	0	100%	0.005
	ModeratedTstatTest	6	0	0	0	100%	0.4
	MeanVarianceEstimatorTest	5	0	0	0	100%	0.04

ubic.basecode.util.r

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	JRIClientTest	21	0	0	0	100%	0.013
	RServeClientTest	21	0	0	0	100%	6.459

ubic.basecode.math.metaanalysis

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

ubic.basecode.ontology.jena

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	UberonOntologySearchTest	2	0	0	0	100%	24.112
	OntologyLoaderTest	2	0	0	0	100%	0.737
	OntologySearchTest	9	0	0	0	100%	4.894
	JenaUtilsTest	1	0	0	0	100%	0.645

ubic.basecode.dataStructure.graph

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	TestDirectedGraph	11	0	0	0	100%	0.295

ubic.basecode.dataStructure.matrix

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	StringMatrixTest	4	0	0	0	100%	0
	RCDoubleMatrix1DTest	3	0	0	0	100%	0
	SparseDoubleMatrixTest	24	0	0	0	100%	0.01
	DenseDoubleMatrixTest	39	0	0	0	100%	0.036
	SparseRaggedDoubleMatrixTest	10	0	0	0	100%	0.001
	DenseDouble3dMatrixTest	4	0	0	0	100%	0.002
	CompressedNamedBitMatrixTest	9	0	0	0	100%	0.001
	FastRowAccessDoubleMatrixTest	39	0	0	0	100%	0.112
	MatrixUtilTest	7	0	0	0	100%	0.012
	CompressedSparseDoubleMatrixTest	38	0	0	0	100%	0.091
	IntegerMatrixTest	16	0	0	0	100%	0

ubic.basecode.math

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	TestMatrixRowStats	6	0	0	0	100%	0.001
	TestROC	3	0	0	0	100%	0.051
	RandomChooserTest	7	0	0	0	100%	1.201
	TestSpecFunc	7	0	0	0	100%	0
	CorrelationStatsTest	18	0	0	0	100%	0.07
	TestWilcoxon	15	0	0	0	100%	3.391
	SingularValueDecompositionTest	1	0	0	0	100%	0.099
	TestMathUtil	5	0	0	0	100%	0.001
	TestRank	14	0	0	0	100%	0
	MultipleTestCorrectionTest	5	0	0	0	100%	0.137
	PrecisionRecallTest	5	0	0	0	100%	0.001
	DistanceTest	12	0	0	0	100%	0
	TestDescriptiveWithMissing	38	0	0	0	100%	0
	KruskalWallisTest	1	0	0	0	100%	0
	TestMatrixStats	15	0	0	0	100%	0
	StringDistanceTest	16	0	0	0	100%	0.001
	TestMatrixNormalizer	2	0	0	0	100%	0
	TestKSTest	2	0	0	0	100%	0.001
	TestStats	14	0	0	0	100%	0.001

ubic.basecode.io.reader

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	TestSparseRaggedDouble2DNamedMatrixReader	3	0	0	0	100%	0.569
	TestDoubleMatrixReader	15	0	0	0	100%	0.047
	TestStringMatrixReader	4	0	0	0	100%	0
	TestMapReader	3	0	0	0	100%	0.001
	HistogramReaderTest	2	0	0	0	100%	0.001
	TestSparseDoubleMatrixReader	2	0	0	0	100%	0

ubic.basecode.datafilter

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	TestRowMissingFilter	11	0	0	0	100%	0.03
	TestItemLevelFilter	1	0	0	0	100%	0.03
	TestRowAbsentFilter	9	0	0	0	100%	0.117
	TestRowAffyNameFilter	2	0	0	0	100%	0.021
	TestRowLevelFilter	23	0	0	0	100%	0.114
	TestRowNameFilter	4	0	0	0	100%	0.036

ubic.basecode.ontology

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	OntologyTermTest	5	0	0	0	100%	1.681

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
	BitUtilTest	5	0	0	0	100%	0.001
	CountingMapTest	6	0	0	0	100%	0.001
	StringToStringSetMapTest	6	0	0	0	100%	0.001

ubic.basecode.io.excel

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	ExcelUtilTest	3	0	0	0	100%	0.203

Test Cases

[Summary] [Package List] [Test Cases]

TestRowMissingFilter

	testFilterPresentCountInvalid	0
	testFilterWithMissingLowMaxFraction	0.004
	testFilterWithMissing	0.004
	testFilterWithMissingLessStringent	0.003
	testFilterFractionInvalid2	0.002
	testFilterFractionInvalid	0.003
	testFilterStringMatrix	0.003
	testFilterFraction	0.002
	testFilter	0.002
	testMaxFractionRemovedInvalid	0.002
	testFilterNoFiltering	0.003

OntologyTermTest

	testGetParentsHasProperPart	0.08
	testGetChildren	0.821
	testGetChildrenHasProperPart	0.027
	testGetParents	0.342
	testRejectNonEnglish	0.395

BinaryTreeTest

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

StringMatrixTest

	testToString	0
	testSubsetColumns	0
	testGetColObj	0
	testSubset	0

NormalProbabilityComputerTest

	testProbabilityDoubleBoolean	0
	testProbabilityDoubleBooleanLower	0
	testInvalidVariance	0
	testProbabilityDouble	0

UberonOntologySearchTest

	testScore	0.04
	testOmitDefinition	0.018

TestMatrixRowStats

	testSumOfSquaresDoubleMatrixNamed	0.001
	testMeans	0
	testSums	0
	testMeans2	0
	testStandardDeviations	0
	testSumOfSquaresDoubleMatrixNamedDoubleArrayList	0

TestByteArrayConverter

	testDoubleArrayToByteArrayConversionSpeed	0.009
	testByteArrayToBooleans	0.007
	testStringToDoubleArrayConversionSpeed	0.008
	testByteArrayToDoubleConversionSpeed	0.008
	testByteArrayToTabbedString	0.008
	testDoubleArrayToBytes	0.007
	testIntsToBytes	0.007
	testBooleansToLongArray	0.006
	testByteArrayToSquareDoubleMatrix	0.005
	testByteArrayToDoubles	0.004
	testStringArrayToBytes	0.004
	testDoubleArrayToDelimitedStringConversionSpeed	0.009
	testStringArrayToTabbedBytes	0.006
	testObjectToBytes	0.008
	testBooleansToByteArray	0.008
	testByteArrayToLongs	0.007
	testByteArrayToDoubleMatrix	0.006

TestSparseRaggedDouble2DNamedMatrixReader

	testReadStreamAdjList	0
	testReadInputStream	0
	testReadStreamAdjListBig	0.568

LeastSquaresFitTest

	testTwoWayAnovaUnfittable	0.001
	testThreeWaySingular	0.125
	testEstrogen	4.366
	testVectorWeightedRegress	0.001
	testNHBE	5.676
	testLSFTwoLevels2	0.033
	testLSFTwoLevels3	0.024
	testSingular2	0.004
	testVectorWeightedRegressWithMissing	0.005
	testVectorRegress	0
	testLSFThreeLevelsOneContinuousWithMissing3	0.003
	testTwoWayAnovaWithInteractions	0.003
	testLSFTwoLevels	0.003
	testOneWayAnova	0.014
	testTwoWayTwoLevelsOneContinousInteractionC	0.005
	testLSFThreeLevelsOnecontinous2	0.003
	testMatrixWeightedRegress	0
	testSingular	0.013
	testLSFTwoLevelsOneContinuous	0.005
	testLSFOneContinuousWithMissing3	0.004

RCDoubleMatrix1DTest

	testZSum	0
	testAssignAr	0
	testAssign	0

OntologyLoaderTest

	testCacheOntologyToDisk	0.695
	testHasChanged	0.008

TestROC

	testBig	0.05
	testAroc	0.001
	testArocPvalue	0

OntologySearchTest

	testPersistence	0.469
	testOmitDefinitions2	0.152
	testOmitDefinitions3	0.041
	testOmitDefinitions4	1.291
	testOmitBadPredicates2	0.042
	testOmitBadPredicates	2.017
	testIndexing	0.528
	testOmitDefinitions	0.041
	testStemming	0.284

TestItemLevelFilter

testFilter

0.03

RandomChooserTest

	testChooseRandomDeck	0
	testRepeatSubset	0.651
	testChooserandomInts	0.022
	testChooserandomWrep	0
	testRandomSubset	0.001
	testChooserandomInt	0.058
	testRepeat	0.469

SQLUtilsTest

testBlobToString

0

TestDoubleMatrixReader

	testReadChooseRowsBadfileName	0
	testReadInputStreamMissingBad	0
	testReadInputStreamGotColNameSkipColumn	0
	testReadInputStreamRowCount	0
	testReadInputStreamGotColName	0
	testReadInputStreamGotRowName	0
	testSmallNumbers	0.032
	testReadInputStreamMissingSpaces	0.006
	testReadBad	0.001
	testBadFileName	0.001
	testReadChooseRowsSkipcols	0.001
	testReadBlankCorner	0.001
	testReadInputStreamMissing	0.001
	testReadChooseRows	0.001
	testReadInputStreamColumnCount	0.001

HistogramTest

	testGetBiggestBinSize	0
	testGetApproximateQuantile	0

TestSpecFunc

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

DateUtilTest

	testgetRelative5yearsFromnow	0.004
	testRange	0.003
	testgetRelative5yearsago	0
	testgetRelativeTomorrow	0.001
	testgetRelativeDateDayago	0
	testRangeBad	0

MatrixDisplayTest

	testWriteOutAsPNG2	0.138
	testWriteOutAsPNG	0.011
	testSaveImage	0.007
	testSaveImageStandardize	0.017

DesignMatrixTest

	testInteractionC	0
	test2	0
	testA	0
	testB	0
	testInteractionAndRelevel	0.003

SparseDoubleMatrixTest

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

TestHistogramWriter

testWriter

0

DoubleAddingMapTest

test

0

CorrelationStatsTest

	testSpearmanPvalueA	0
	testSpearmanPvalueB	0
	testSpearmanPvalueD	0
	testSpearmanPvalueE	0.016
	testSpearmanPvalueF	0
	testSpearmanPvalueG	0.034
	testCorrelationForPvalue	0.001
	testCorrelTooSmall	0
	testInverseFisherTransform	0
	testSpearmanPvalueTDist	0
	testCorrel	0
	testCorrelAsByte	0
	testPvalue	0
	testSpearmanPvalueA2	0
	testSpearmanPvalueD2	0
	testSpearmanPvalueEh	0.001
	testSpearmanPvalueEm	0.017
	testSpearmanPvalueG2	0

DenseDoubleMatrixTest

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

TestWilcoxon

	testWilxcoxonPExactB	0
	testWilxcoxonPExactC	0
	testWilxcoxonPExactD	3.375
	testWilxcoxonPGaussB	0
	testBGaussian	0
	testFVolume	0.002
	testWilxcoxonPVolume	0.006
	testBig	0
	testWilxcoxonPGauss	0
	testWilcoxonPExactA	0.001
	testCGaussian	0
	testDVolume	0.001
	testAExact	0.005
	testWilxcoxonPWithTies	0
	testEVolume	0.001

SingularValueDecompositionTest

testSingularValueDecomposition

0.099

JRIClientTest

	testExec	0.002
	testListEvalA	0
	testListEvalB	0
	testExecError	0.001
	testDataFrameA	0
	testAssignAndRetrieveMatrix	0
	testAnovaA	0
	testAnovaB	0
	testAnovaC	0.001
	testAnovaD	0
	testAnovaE	0
	testAnovaF	0.001
	testLimmaA	0
	testExecDoubleArray	0.001
	testAssignAndRetrieveMatrixB	0
	testAssignAndRetrieveMatrixD	0.002
	testLinearModelA	0.001
	testLinearModelB	0
	testLinearModelC	0.001
	testLinearModelD	0.001
	testStringListEvalB	0

TestRowAbsentFilter

	testFilterKeepMarginal	0.011
	testFilterPresentCountInvalid	0.011
	testFilterWithMissing	0.009
	testFilterNullFlags	0.006
	testFilterWithMissingLessStringent	0.009
	testFilterFractionInvalid	0.007
	testFilterStringMatrix	0.009
	testFilterFraction	0.009
	testFilter	0.045

TestStringMatrixReader

	testReadInputStreamRowCount	0
	testReadInputStreamGotColName	0
	testReadInputStreamGotRowName	0
	testReadInputStreamColumnCount	0

TestMathUtil

	testMax	0
	testSumArray	0
	testFillRangeDown	0
	testFillRange	0
	testFillRangeNo	0

BitUtilTest

	testGet	0.001
	testSet	0
	testClear	0
	testCount	0
	testToBool	0

StringUtilTest

	testMakeUnique	0
	testCommonPrefixNone	0
	testCommonSuffixNone	0
	testCommonPrefix	0
	testCommonSuffix	0
	testMakeNames	0

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.

MatrixWriterTest

	testWriteMatrixB	0
	testWriteMatrix	0
	testWrite3DMatrix	0

BatchIteratorTest

	testBatches	0
	testBatchIterator	0
	testConcurrentModificationException	0

UniformDensityComputerTest

testDensity

0

SparseRaggedDoubleMatrixTest

	testSubsetRows	0
	testSubsetRowsFail	0
	testRows	0
	testGetRowMatrix1D	0
	testGetRowArrayList	0
	testColumns	0
	testGetColRange	0
	testAddrow	0
	testGetRow	0
	testGetRowRange	0

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

ExcelUtilTest

	testGetSheetFromFile	0.199
	testGetSet	0.001
	testSetFormula	0.002

HistogramSamplerTest

testNextSample

0.027

ModeratedTstatTest

	testLimmaMissing	0.148
	testFdist	0.001
	testLimma	0.062
	testSqueezeVarB	0.189
	testSqueezeVar	0
	testSqueezeVarWMissing	0

DenseDouble3dMatrixTest

	testget	0
	testtostring	0.002
	testgetcolobj	0
	testgetrowobj	0

CountingMapTest

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

MultipleTestCorrectionTest

	testBenjaminiYekuteliCut	0.02
	testBenjaminiHochbergCut	0.022
	testBenjaminiHochberg	0.03
	testBenjaminiHochbergM	0.037
	testBonferroniCut	0.028

TestMapReader

	testRead	0
	testReadNoHeader	0.001
	testReadNoHeaderFile	0

TestMeanDifferenceMetaAnalysis

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

PrettyPrinterTest

testPrintBeans

0

FileToolsTest

	testHasImageExtension	0.691
	testTestDir	0
	testGetWithoutExtension	0.002
	testGetLines	0.005
	testTouch	0.002
	testListDirectoryFiles	0.013
	testAddImageExtension	0.002
	testChangeExtension	0.001
	testDeleteFilesAndDir	0.016
	testCleanFileName	0.002
	testgetStringListFromFile	0.003
	testGetWithoutExtensionB	0.001
	testGetWithoutExtensionC	0.001
	testResourcetoPath	0.002
	testCleanFileNameErr	0.001
	testIsGZipped	0.002
	testUnGzipFile	0.003
	testCopyFileFailOnDirectoryOutput	0.001
	testTestFileString	0.001
	testGetCompressedFile	0.003
	testCopyFile	0.001
	testGetExtension	0.001
	testCheckPathIsReadableFile	0.001
	testIsZipped	0.002
	testAddDataExtension	0.001
	testGetCompressedFileZip	0.002
	testTestFileFile	0.001
	testCheckPathIsReadableFileNot	0.001
	testCopyFileFailOnDirectoryInput	0.001
	testGetInputStreamFromPlainOrCompressedFile	0.001
	testHasXMLExtension	0.001
	testUnzipFile	0.013

TestRowAffyNameFilter

	testStringFilter	0.011
	testFilter	0.01

TestCorrelationEffectMetaAnalysis

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

NetUtilsTest

	testFtpFileSize	1.012
	testCheckForFile	0.913
	testFtpFileSizeDoesntExist	1.318
	testDownloadFile	1.245

PrecisionRecallTest

	testAveragePrecisionB	0
	testAveragePrecisionWithTie	0
	testAveragePrecisionNotInOrder	0
	testAveragePrecision	0
	testAveragePrecisionBNotInOrder	0

TestRowLevelFilter

	testFilterMinHigh	0.006
	testFilterFractionMaxRemoveHighAndLowBothFraction	0.008
	testFilterMaxTooHigh	0.004
	testFilterMedian	0.005
	testFilterNoFilter	0.004
	testFilterFractionMaxRemoveHighAndLowBothLevelsNegLow	0.004
	testFilterFractionMaxRemoveNegHigh	0.003
	testFilterMax	0.005
	testFilterMin	0.006
	testFilterMaxFractionNoneRemoveNeg	0.005
	testFilterMedianHigh	0.006
	testFilterFractionMaxRemoveHighAndLowBothLevelsNoNegRemove	0.005
	testFilterFractionMaxRemoveNeg	0.005
	testFilterMaxFractionAll	0.005
	testFilterFractionMaxRemoveHighAndLowBothLevels	0.005
	testFilterMaxFraction	0.005
	testFilterBadFraction	0.004
	testFilterMaxFractionHigh	0.005
	testFilterMaxFractionNone	0.005
	testFilterFractionMaxRemoveHighAndLow	0.004
	testFilterMeanHigh	0.005
	testFilterMean	0.005
	testFilterMaxHigh	0.004

ParameterKeeperTest

test

0.246

DistanceTest

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

JenaUtilsTest

testInferenceCapabilities

0.644

TestDescriptiveWithMissing

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

ConfigUtilsTest

	testLoadConfigURL	0.113
	testGetConfigBuilderFile	0.157
	testGetConfigBuilderString	0.004
	testGetConfigBuilderURLNew	0.001
	testGetConfigBuilderStringNew	0.003
	testLoadConfigString	0.002
	testLoadConfigURLNew	0.003
	testLoadConfigStringNewName	0.012
	testGetConfigBuilderURL	0.001
	testLoadConfigStringNew	0.002
	testLoadConfigFile	0.001
	testGetConfigBuilderFileNew	0.002
	testLoadConfigFileNew	0.001

RServeClientTest

	testExec	0.334
	testListEvalA	0.307
	testListEvalB	0.31
	testExecError	0.308
	testDataFrameA	0.307
	testAssignAndRetrieveMatrix	0.307
	testAnovaA	0.306
	testAnovaB	0.306
	testAnovaC	0.306
	testAnovaD	0.306
	testAnovaE	0.306
	testAnovaF	0.305
	testLimmaA	0.305
	testExecDoubleArray	0.305
	testAssignAndRetrieveMatrixB	0.306
	testAssignAndRetrieveMatrixD	0.309
	testLinearModelA	0.305
	testLinearModelB	0.305
	testLinearModelC	0.305
	testLinearModelD	0.305
	testStringListEvalB	0.304

MetaAnalysisTest

	testFisherCombinePvaluesB	0
	testFisherCombinePvalues	0

CompressedNamedBitMatrixTest

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

FastRowAccessDoubleMatrixTest

	testConstructFromArray	0.001
	testSubsetRows	0.005
	testToArray	0.003
	testSortByColumnAbsoluteValue	0.018
	testGet	0.004
	testSet	0.003
	testRows2	0.003
	testCopy	0.003
	testGet2	0.002
	testRows	0.002
	testSet2	0.003
	testSize	0.002
	testToString	0.003
	testGetRowByNameFail	0.003
	testGetRowByNameNull	0.002
	testSetIntIntObject	0.003
	testGetRow2	0.002
	testSubsetColumns	0.003
	testViewRow	0.003
	testColumns	0.002
	testGetColRange	0.002
	testGetByKeys	0.003
	testGetColObj	0.002
	testGetColumn	0.002
	testIsMissing	0.004
	testViewColumn	0.002
	testGetColObj2	0.002
	testGetObject	0.002
	testGetRow	0.002
	testGetRowObj	0.002
	testGetRowRange	0.002
	testGetRowByName	0.002
	testIsMissing2	0.002
	testGetColByNameFail	0.002
	testGetColByNameNull	0.002
	testGetRowObj2	0.001
	testGetColByName	0.002
	testGetRowArrayList2	0.002
	testViewRow2	0.002

HistogramReaderTest

	testHistogramReaderIs	0
	testHistogramReaderString	0

KruskalWallisTest

testKW

0

TestSparseDoubleMatrixReader

	testReadStream	0
	testReadJW	0

QRDecompositionTest

	testScaledDesign	0.01
	testSingular2	0.006
	test1	0.007
	test3	0.006
	test2NoPivoting	0

TestWishart

testNextDoubleMatrix

0

TestDirectedGraph

	testDeleteLeaf1	0
	testDeleteLeafFail	0
	testGetChildren	0
	testToString	0
	testAddChild	0
	testTopoSort	0
	testAddParent	0
	testDeleteLeafNotLeaf	0
	testAddChildFail	0
	testAddParentFail	0
	testTreeView	0.294

StringToStringSetMapTest

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

MatrixUtilTest

	testSelectColumnsAndRowsBad	0
	testSelectColumns	0
	testDropColumn	0
	testSelectColumnsAndRows	0.006
	testRemoveMissing1	0.003
	testRemoveMissing2	0.001
	testSelectRows	0.002

CompressedSparseDoubleMatrixTest

	testSubsetRows	0.008
	testToArray	0.002
	testSortByColumnAbsoluteValue	0.007
	testGet	0.003
	testSet	0.002
	testRows2	0.002
	testCopy	0.003
	testGet2	0.002
	testRows	0.002
	testSet2	0.002
	testSize	0.002
	testToString	0.003
	testGetRowByNameFail	0.002
	testGetRowByNameNull	0.002
	testSetIntIntObject	0.002
	testGetRow2	0.003
	testSubsetColumns	0.002
	testViewRow	0.002
	testColumns	0.002
	testGetColRange	0.002
	testGetByKeys	0.002
	testGetColObj	0.002
	testGetColumn	0.002
	testIsMissing	0.003
	testViewColumn	0.002
	testGetColObj2	0.002
	testGetObject	0.002
	testGetRow	0.002
	testGetRowObj	0.002
	testGetRowRange	0.002
	testGetRowByName	0.002
	testIsMissing2	0.002
	testGetColByNameFail	0.002
	testGetColByNameNull	0.002
	testGetRowObj2	0.002
	testGetColByName	0.001
	testGetRowArrayList2	0.002
	testViewRow2	0.002

MeanVarianceEstimatorTest

	testVoom	0.025
	testMeanVarianceNoDesignWithColsRowAllMissing	0
	testDuplicateRows	0.013
	testInterpolate	0
	testMeanVarianceNoDesignWithMissing	0.001

TestMatrixStats

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

IntegerMatrixTest

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

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

ParamGrabberTest

test

0

TestStringUtil

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

TestMatrixNormalizer

	testQuantileNormalize	0
	testQuantileNormalizeWithMissing	0

TestKSTest

	testKSTestTwoSample	0
	testKSTestOneSample	0.001

TestStats

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

TestRowNameFilter

	testFilterString	0.006
	testFilterExclude	0.009
	testFilter	0.009
	testFilterStringExclude	0.011

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.