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.math.linalg

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	QRDecompositionTest	5	0	0	0	100%	0.031

ubic.basecode.io

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	TestByteArrayConverter	15	0	0	0	100%	0.117

ubic.basecode.util

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	BatchIteratorTest	3	0	0	0	100%	0.001
	StringUtilTest	5	0	0	0	100%	0
	NetUtilsTest	4	0	0	0	100%	3.911
	FileToolsTest	32	0	0	0	100%	0.067
	ConfigUtilsTest	13	0	0	0	100%	0.096
	DateUtilTest	6	0	0	0	100%	0.012
	TestStringUtil	8	0	0	0	100%	0.005
	PrettyPrinterTest	1	0	0	0	100%	0.001
	SQLUtilsTest	1	0	0	0	100%	0.001

ubic.basecode.dataStructure.params

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	ParameterKeeperTest	1	0	0	0	100%	0.001
	ParamGrabberTest	1	0	0	0	100%	0.001

ubic.basecode.graphics

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	MatrixDisplayTest	4	0	0	0	100%	0.214

ubic.basecode.io.writer

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	MatrixWriterTest	3	0	0	0	100%	0.009
	TestHistogramWriter	1	0	0	0	100%	0.001

ubic.basecode.ontology.ncbo

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	AnnotatorClientTest	3	0	0	3	0%	0.002

ubic.basecode.math.distribution

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	NormalProbabilityComputerTest	4	0	0	0	100%	0.001
	HistogramSamplerTest	1	0	0	0	100%	0.028
	TestWishart	1	0	0	0	100%	0
	UniformDensityComputerTest	1	0	0	0	100%	0
	HistogramTest	2	0	0	0	100%	0

ubic.basecode.math.linearmodels

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	ModeratedTstatTest	6	0	0	0	100%	0.312
	LeastSquaresFitTest	20	0	0	0	100%	11.217
	MeanVarianceEstimatorTest	5	0	0	0	100%	0.056
	DesignMatrixTest	5	0	0	0	100%	0.011

ubic.basecode.util.r

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	JRIClientTest	21	0	0	0	100%	0.006
	RServeClientTest	21	0	0	0	100%	6.394

ubic.basecode.math.metaanalysis

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

ubic.basecode.ontology.jena

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	UberonOntologySearchTest	2	0	0	0	100%	18.178
	OntologySearchTest	11	0	0	0	100%	4.359
	OntologyLoaderTest	2	0	0	0	100%	0.134
	JenaUtilsTest	1	0	0	0	100%	0.174

ubic.basecode.dataStructure.graph

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	TestDirectedGraph	11	0	0	0	100%	0.282

ubic.basecode.dataStructure.matrix

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	CompressedSparseDoubleMatrixTest	38	0	0	0	100%	0.05
	FastRowAccessDoubleMatrixTest	39	0	0	0	100%	0.053
	StringMatrixTest	4	0	0	0	100%	0.001
	SparseDoubleMatrixTest	24	0	0	0	100%	0.011
	IntegerMatrixTest	16	0	0	0	100%	0.001
	DenseDouble3dMatrixTest	4	0	0	0	100%	0.001
	RCDoubleMatrix1DTest	3	0	0	0	100%	0
	CompressedNamedBitMatrixTest	9	0	0	0	100%	0.005
	MatrixUtilTest	7	0	0	0	100%	0.011
	DenseDoubleMatrixTest	39	0	0	0	100%	0.039
	SparseRaggedDoubleMatrixTest	10	0	0	0	100%	0.001

ubic.basecode.math

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	SingularValueDecompositionTest	1	0	0	0	100%	0.1
	DistanceTest	12	0	0	0	100%	0.001
	TestKSTest	2	0	0	0	100%	0
	TestMatrixRowStats	6	0	0	0	100%	0
	MultipleTestCorrectionTest	5	0	0	0	100%	0.19
	RandomChooserTest	7	0	0	0	100%	1.843
	TestMatrixNormalizer	2	0	0	0	100%	0.003
	TestDescriptiveWithMissing	44	0	0	0	100%	0.002
	TestMathUtil	5	0	0	0	100%	0
	KruskalWallisTest	1	0	0	0	100%	0.001
	TestSpecFunc	7	0	0	0	100%	0.001
	TestMatrixStats	15	0	0	0	100%	0.024
	TestWilcoxon	15	0	0	0	100%	3.602
	TestROC	3	0	0	0	100%	0.035
	TestRank	14	0	0	0	100%	0.001
	TestStats	14	0	0	0	100%	0.001
	PrecisionRecallTest	5	0	0	0	100%	0
	StringDistanceTest	16	0	0	0	100%	0.001
	CorrelationStatsTest	18	0	0	0	100%	0.086

ubic.basecode.io.reader

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	HistogramReaderTest	2	0	0	0	100%	0.001
	TestSparseDoubleMatrixReader	2	0	0	0	100%	0.012
	TestMapReader	3	0	0	0	100%	0.001
	TestStringMatrixReader	4	0	0	0	100%	0.001
	TestDoubleMatrixReader	15	0	0	0	100%	0.095
	TestSparseRaggedDouble2DNamedMatrixReader	3	0	0	0	100%	0.754

ubic.basecode.datafilter

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	TestRowAffyNameFilter	2	0	0	0	100%	0.003
	TestRowLevelFilter	23	0	0	0	100%	0.154
	TestRowAbsentFilter	9	0	0	0	100%	0.045
	TestRowNameFilter	4	0	0	0	100%	0.01
	TestRowMissingFilter	11	0	0	0	100%	0.046
	TestItemLevelFilter	1	0	0	0	100%	0.001

ubic.basecode.ontology

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	OntologyTermTest	5	0	0	0	100%	5.744

ubic.basecode.dataStructure

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

ubic.basecode.dataStructure.tree

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

ubic.basecode.io.excel

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	ExcelUtilTest	3	0	0	0	100%	0.434

Test Cases

[Summary] [Package List] [Test Cases]

ModeratedTstatTest

	testLimmaMissing	0.121
	testFdist	0.001
	testLimma	0.045
	testSqueezeVarB	0.144
	testSqueezeVar	0
	testSqueezeVarWMissing	0.001

LeastSquaresFitTest

	testTwoWayAnovaUnfittable	0.002
	testThreeWaySingular	0.101
	testEstrogen	4.856
	testVectorWeightedRegress	0.002
	testNHBE	6.119
	testLSFTwoLevels2	0.032
	testLSFTwoLevels3	0.026
	testSingular2	0.004
	testVectorWeightedRegressWithMissing	0.002
	testVectorRegress	0
	testLSFThreeLevelsOneContinuousWithMissing3	0.004
	testTwoWayAnovaWithInteractions	0.003
	testLSFTwoLevels	0.003
	testOneWayAnova	0.015
	testTwoWayTwoLevelsOneContinousInteractionC	0.007
	testLSFThreeLevelsOnecontinous2	0.004
	testMatrixWeightedRegress	0
	testSingular	0.018
	testLSFTwoLevelsOneContinuous	0.007
	testLSFOneContinuousWithMissing3	0.004

CountingMapTest

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

NormalProbabilityComputerTest

	testProbabilityDoubleBoolean	0
	testProbabilityDoubleBooleanLower	0
	testInvalidVariance	0
	testProbabilityDouble	0

TestRowAffyNameFilter

	testStringFilter	0.001
	testFilter	0

BatchIteratorTest

	testBatches	0
	testBatchIterator	0
	testConcurrentModificationException	0.001

CompressedSparseDoubleMatrixTest

	testSubsetRows	0
	testToArray	0
	testSortByColumnAbsoluteValue	0.004
	testGet	0.002
	testSet	0.001
	testRows2	0.002
	testCopy	0.002
	testGet2	0.001
	testRows	0.001
	testSet2	0.001
	testSize	0.002
	testToString	0.001
	testGetRowByNameFail	0.002
	testGetRowByNameNull	0.001
	testSetIntIntObject	0.001
	testGetRow2	0.002
	testSubsetColumns	0.001
	testViewRow	0.001
	testColumns	0.001
	testGetColRange	0.001
	testGetByKeys	0.001
	testGetColObj	0.001
	testGetColumn	0.002
	testIsMissing	0.001
	testViewColumn	0.002
	testGetColObj2	0.001
	testGetObject	0.001
	testGetRow	0.001
	testGetRowObj	0.001
	testGetRowRange	0.002
	testGetRowByName	0.001
	testIsMissing2	0.001
	testGetColByNameFail	0.001
	testGetColByNameNull	0.001
	testGetRowObj2	0.001
	testGetColByName	0.002
	testGetRowArrayList2	0.001
	testViewRow2	0.001

MatrixWriterTest

	testWriteMatrixB	0
	testWriteMatrix	0.002
	testWrite3DMatrix	0.005

SingularValueDecompositionTest

testSingularValueDecomposition

0.099

DistanceTest

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

TestKSTest

	testKSTestTwoSample	0
	testKSTestOneSample	0

TestMatrixRowStats

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

TestRowLevelFilter

	testFilterMinHigh	0.037
	testFilterFractionMaxRemoveHighAndLowBothFraction	0.009
	testFilterMaxTooHigh	0.008
	testFilterMedian	0.008
	testFilterNoFilter	0.007
	testFilterFractionMaxRemoveHighAndLowBothLevelsNegLow	0.005
	testFilterFractionMaxRemoveNegHigh	0.005
	testFilterMax	0.004
	testFilterMin	0.004
	testFilterMaxFractionNoneRemoveNeg	0.006
	testFilterMedianHigh	0.005
	testFilterFractionMaxRemoveHighAndLowBothLevelsNoNegRemove	0.004
	testFilterFractionMaxRemoveNeg	0.005
	testFilterMaxFractionAll	0.004
	testFilterFractionMaxRemoveHighAndLowBothLevels	0.005
	testFilterMaxFraction	0.005
	testFilterBadFraction	0.004
	testFilterMaxFractionHigh	0.004
	testFilterMaxFractionNone	0.005
	testFilterFractionMaxRemoveHighAndLow	0.004
	testFilterMeanHigh	0.004
	testFilterMean	0.004
	testFilterMaxHigh	0.004

FastRowAccessDoubleMatrixTest

	testConstructFromArray	0
	testSubsetRows	0.001
	testToArray	0.001
	testSortByColumnAbsoluteValue	0.011
	testGet	0.001
	testSet	0.001
	testRows2	0.001
	testCopy	0.001
	testGet2	0
	testRows	0
	testSet2	0.001
	testSize	0.001
	testToString	0.001
	testGetRowByNameFail	0.001
	testGetRowByNameNull	0.001
	testSetIntIntObject	0.001
	testGetRow2	0
	testSubsetColumns	0.001
	testViewRow	0.001
	testColumns	0.001
	testGetColRange	0
	testGetByKeys	0.001
	testGetColObj	0.001
	testGetColumn	0.001
	testIsMissing	0.002
	testViewColumn	0.002
	testGetColObj2	0.001
	testGetObject	0
	testGetRow	0.001
	testGetRowObj	0.001
	testGetRowRange	0.001
	testGetRowByName	0.001
	testIsMissing2	0
	testGetColByNameFail	0.001
	testGetColByNameNull	0.001
	testGetRowObj2	0.001
	testGetColByName	0.001
	testGetRowArrayList2	0
	testViewRow2	0.009

MultipleTestCorrectionTest

	testBenjaminiYekuteliCut	0.001
	testBenjaminiHochbergCut	0.118
	testBenjaminiHochberg	0.033
	testBenjaminiHochbergM	0.023
	testBonferroniCut	0.014

StringMatrixTest

	testToString	0
	testSubsetColumns	0
	testGetColObj	0
	testSubset	0

MatrixDisplayTest

	testWriteOutAsPNG2	0.178
	testWriteOutAsPNG	0.01
	testSaveImage	0.008
	testSaveImageStandardize	0.016

HistogramSamplerTest

testNextSample

0.028

StringUtilTest

	testMakeRnames	0
	testCommonPrefixNone	0
	testCommonSuffixNone	0
	testCommonPrefix	0
	testCommonSuffix	0

JRIClientTest

	testExec	0.002
	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	0.001
	testLinearModelC	0
	testLinearModelD	0
	testStringListEvalB	0.001

TestWishart

testNextDoubleMatrix

0

TestMeanDifferenceMetaAnalysis

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

UniformDensityComputerTest

testDensity

0

ParameterKeeperTest

test

0.001

SparseDoubleMatrixTest

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

NetUtilsTest

	testFtpFileSize	0.734
	testCheckForFile	0.699
	testFtpFileSizeDoesntExist	1.497
	testDownloadFile	0.981

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	0.001

RandomChooserTest

	testChooseRandomDeck	0.076
	testRepeatSubset	0.944
	testChooserandomInts	0.023
	testChooserandomWrep	0.001
	testRandomSubset	0
	testChooserandomInt	0.068
	testRepeat	0.731

TestMatrixNormalizer

	testQuantileNormalize	0.001
	testQuantileNormalizeWithMissing	0.002

HistogramReaderTest

	testHistogramReaderIs	0
	testHistogramReaderString	0

FileToolsTest

	testHasImageExtension	0
	testTestDir	0.001
	testGetWithoutExtension	0.002
	testGetLines	0.002
	testTouch	0.002
	testListDirectoryFiles	0.008
	testAddImageExtension	0.002
	testChangeExtension	0.001
	testDeleteFilesAndDir	0.004
	testCleanFileName	0.002
	testgetStringListFromFile	0.002
	testGetWithoutExtensionB	0.001
	testGetWithoutExtensionC	0.001
	testResourcetoPath	0.001
	testCleanFileNameErr	0.002
	testIsGZipped	0.002
	testUnGzipFile	0.002
	testCopyFileFailOnDirectoryOutput	0.001
	testTestFileString	0.001
	testGetCompressedFile	0.002
	testCopyFile	0.001
	testGetExtension	0.001
	testCheckPathIsReadableFile	0
	testIsZipped	0.002
	testAddDataExtension	0.001
	testGetCompressedFileZip	0.002
	testTestFileFile	0.001
	testCheckPathIsReadableFileNot	0.001
	testCopyFileFailOnDirectoryInput	0.002
	testGetInputStreamFromPlainOrCompressedFile	0.001
	testHasXMLExtension	0.001
	testUnzipFile	0.014

DenseDouble3dMatrixTest

	testget	0
	testtostring	0.001
	testgetcolobj	0
	testgetrowobj	0

QRDecompositionTest

	testScaledDesign	0.003
	testSingular2	0.014
	test1	0.007
	test3	0.006
	test2NoPivoting	0.001

RCDoubleMatrix1DTest

	testZSum	0
	testAssignAr	0
	testAssign	0

TestSparseDoubleMatrixReader

	testReadStream	0
	testReadJW	0.011

MetaAnalysisTest

	testFisherCombinePvaluesB	0
	testFisherCombinePvalues	0

TestDescriptiveWithMissing

	testRankInterpolated	0
	testKurtosis	0
	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
	testDurbinWatsonTwo	0
	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
	testAutoCorrelation	0

StringToStringSetMapTest

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

TestCorrelationEffectMetaAnalysis

	testRunUFEffect	0.002
	testRunZFEffect	0
	testRunZRQval	0
	testRunUFZscore	0
	testRunZFZscore	0.001
	testRunUFVar	0
	testRunURBSV	0
	testRunZFVar	0
	testRunZRBSV	0

BinaryTreeTest

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

TestByteArrayConverter

	testDoubleArrayToByteArrayConversionSpeed	0.004
	testByteArrayToBooleans	0.006
	testStringToDoubleArrayConversionSpeed	0.009
	testByteArrayToDoubleConversionSpeed	0.009
	testByteArrayToTabbedString	0.008
	testDoubleArrayToBytes	0.013
	testIntsToBytes	0.007
	testBooleansToLongArray	0.006
	testByteArrayToDoubles	0.005
	testStringToBytes	0.008
	testDoubleArrayToDelimitedStringConversionSpeed	0.017
	testObjectToBytes	0.007
	testBooleansToByteArray	0.006
	testByteArrayToLongs	0.007
	testByteArrayToDoubleMatrix	0.005

CompressedNamedBitMatrixTest

	testGetOutOfBounds	0
	testOverlap	0
	testGet	0
	testTotalBitCount	0.001
	testOutOfBounds	0
	testOutOfBounds2	0
	testGetRowBitCount	0
	testBitMatrix	0.003
	testBitCount	0.001

UberonOntologySearchTest

	testScore	0.037
	testOmitDefinition	0.017

TestMathUtil

	testMax	0
	testSumArray	0
	testFillRangeDown	0
	testFillRange	0
	testFillRangeNo	0

OntologySearchTest

	testPersistence	0.609
	matchIndividuals_whenIndexRaisesJenaException_thenWrapItWithOntologyJenaSearchException	1.216
	testOmitDefinitions2	0.073
	testOmitDefinitions3	0.062
	testOmitDefinitions4	1.442
	testOmitBadPredicates2	0.061
	testOmitBadPredicates	0.071
	testIndexing	0.696
	matchClasses_whenIndexRaisesJenaException_thenWrapItWithOntologyJenaSearchException	0.005
	matchResources_whenIndexRaisesJenaException_thenWrapItWithOntologyJenaSearchException	0.007
	testOmitDefinitions	0.078

ConfigUtilsTest

	testLoadConfigURL	0
	testGetConfigBuilderFile	0.077
	testGetConfigBuilderString	0.002
	testGetConfigBuilderURLNew	0.002
	testGetConfigBuilderStringNew	0.001
	testLoadConfigString	0.001
	testLoadConfigURLNew	0.002
	testLoadConfigStringNewName	0.005
	testGetConfigBuilderURL	0
	testLoadConfigStringNew	0.002
	testLoadConfigFile	0.001
	testGetConfigBuilderFileNew	0.002
	testLoadConfigFileNew	0

MatrixUtilTest

	testSelectColumnsAndRowsBad	0
	testSelectColumns	0
	testDropColumn	0
	testSelectColumnsAndRows	0.004
	testRemoveMissing1	0.005
	testRemoveMissing2	0.001
	testSelectRows	0.001

OntologyLoaderTest

	testCacheOntologyToDisk	0.103
	testHasChanged	0.006

TestMapReader

	testRead	0
	testReadNoHeader	0
	testReadNoHeaderFile	0

KruskalWallisTest

testKW

0

JenaUtilsTest

testInferenceCapabilities

0.173

TestSpecFunc

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

TestRowAbsentFilter

	testFilterKeepMarginal	0.004
	testFilterPresentCountInvalid	0.004
	testFilterWithMissing	0.007
	testFilterNullFlags	0.004
	testFilterWithMissingLessStringent	0.006
	testFilterFractionInvalid	0.004
	testFilterStringMatrix	0.005
	testFilterFraction	0.005
	testFilter	0.005

DateUtilTest

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

TestRowNameFilter

	testFilterString	0.001
	testFilterExclude	0
	testFilter	0.003
	testFilterStringExclude	0.005

TestMatrixStats

	testRbfNormalize	0
	testSelfSquare	0
	testStandardize	0
	testCorrelationMatrix	0.004
	testMax	0.001
	testMin	0
	testNan	0.001
	testColSumsWithMissing	0.001
	testLogTransform	0
	testDoubleStandardize	0.007
	testCov2Cor	0.003
	testConvertToLog2Cpm	0.001
	testConvertLog	0.001
	testCountsPerMillionWithMissing	0.001
	testCorrelationMatrixThreshold	0.003

TestRowMissingFilter

	testFilterPresentCountInvalid	0.002
	testFilterWithMissingLowMaxFraction	0.007
	testFilterWithMissing	0.005
	testFilterWithMissingLessStringent	0.005
	testFilterFractionInvalid2	0.004
	testFilterFractionInvalid	0.003
	testFilterStringMatrix	0.005
	testFilterFraction	0.004
	testFilter	0.004
	testMaxFractionRemovedInvalid	0.004
	testFilterNoFiltering	0.003

OntologyTermTest

	testGetParentsHasProperPart	1.037
	testGetChildren	2.229
	testGetChildrenHasProperPart	0.064
	testGetParents	0.399
	testRejectNonEnglish	0.865

TestStringUtil

	testTwoStringHashKey	0
	testCsvSplitA	0.002
	testCsvSplitB	0
	testCsvSplitC	0
	testCsvSplitD	0.001
	testCsvSplitE	0
	testCsvSplitF	0
	testTwoStringHashKeyB	0

TestWilcoxon

	testWilxcoxonPExactB	0
	testWilxcoxonPExactC	0
	testWilxcoxonPExactD	3.585
	testWilxcoxonPGaussB	0.001
	testBGaussian	0
	testFVolume	0.001
	testWilxcoxonPVolume	0.005
	testBig	0
	testWilxcoxonPGauss	0
	testWilcoxonPExactA	0.001
	testCGaussian	0
	testDVolume	0.001
	testAExact	0.007
	testWilxcoxonPWithTies	0.001
	testEVolume	0

DenseDoubleMatrixTest

	testConstructFromArray	0
	testSubsetRows	0
	testToArray	0
	testSortByColumnAbsoluteValue	0.005
	testGet	0.001
	testSet	0.001
	testRows2	0
	testCopy	0.001
	testGet2	0.001
	testRows	0.001
	testSet2	0
	testSize	0.001
	testToString	0.001
	testGetRowByNameFail	0.001
	testGetRowByNameNull	0
	testSetIntIntObject	0.002
	testGetRow2	0.001
	testSubsetColumns	0.001
	testViewRow	0.001
	testColumns	0.001
	testGetColRange	0.001
	testGetByKeys	0.001
	testGetColObj	0.001
	testGetColumn	0.001
	testIsMissing	0.001
	testViewColumn	0.001
	testGetColObj2	0.001
	testGetObject	0.001
	testGetRow	0.001
	testGetRowObj	0.001
	testGetRowRange	0.001
	testGetRowByName	0.001
	testIsMissing2	0.001
	testGetColByNameFail	0.001
	testGetColByNameNull	0.002
	testGetRowObj2	0
	testGetColByName	0.001
	testGetRowArrayList2	0.001
	testViewRow2	0.001

SparseRaggedDoubleMatrixTest

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

RServeClientTest

	testExec	0.311
	testListEvalA	0.302
	testListEvalB	0.304
	testExecError	0.305
	testDataFrameA	0.304
	testAssignAndRetrieveMatrix	0.304
	testAnovaA	0.304
	testAnovaB	0.304
	testAnovaC	0.304
	testAnovaD	0.304
	testAnovaE	0.305
	testAnovaF	0.303
	testLimmaA	0.303
	testExecDoubleArray	0.304
	testAssignAndRetrieveMatrixB	0.308
	testAssignAndRetrieveMatrixD	0.305
	testLinearModelA	0.304
	testLinearModelB	0.304
	testLinearModelC	0.303
	testLinearModelD	0.303
	testStringListEvalB	0.304

ParamGrabberTest

test

0

PrettyPrinterTest

testPrintBeans

0.001

TestStringMatrixReader

	testReadInputStreamRowCount	0
	testReadInputStreamGotColName	0
	testReadInputStreamGotRowName	0
	testReadInputStreamColumnCount	0

DoubleAddingMapTest

test

0

TestROC

	testBig	0.03
	testAroc	0
	testArocPvalue	0.005

SQLUtilsTest

testBlobToString

0

BitUtilTest

	testGet	0
	testSet	0
	testClear	0
	testCount	0
	testToBool	0

TestHistogramWriter

testWriter

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.

TestRank

	testRankTransformMapDesc	0
	testRankTransformDoubleArrayListDesc	0.001
	testRankTransformMap	0
	testOrder	0
	testRankWithTies	0
	testWithNaNs	0
	testRankTransformDoubleArrayList	0
	testRankWithTiesB	0
	testRankWithTiesC	0
	testRankWithTiesD	0
	testRankWithTiesE	0
	testWithNaNs2	0
	testWithNaNs3	0
	testOrderB	0

MeanVarianceEstimatorTest

	testVoom	0.034
	testMeanVarianceNoDesignWithColsRowAllMissing	0.001
	testDuplicateRows	0.019
	testInterpolate	0
	testMeanVarianceNoDesignWithMissing	0.002

ExcelUtilTest

	testGetSheetFromFile	0.421
	testGetSet	0.002
	testSetFormula	0.011

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

TestDoubleMatrixReader

	testReadChooseRowsBadfileName	0
	testReadInputStreamMissingBad	0
	testReadInputStreamGotColNameSkipColumn	0
	testReadInputStreamRowCount	0
	testReadInputStreamGotColName	0.001
	testReadInputStreamGotRowName	0.002
	testSmallNumbers	0.068
	testReadInputStreamMissingSpaces	0.011
	testReadBad	0.002
	testBadFileName	0.001
	testReadChooseRowsSkipcols	0.001
	testReadBlankCorner	0.001
	testReadInputStreamMissing	0.001
	testReadChooseRows	0.001
	testReadInputStreamColumnCount	0.002

PrecisionRecallTest

	testAveragePrecisionB	0
	testAveragePrecisionWithTie	0
	testAveragePrecisionNotInOrder	0
	testAveragePrecision	0
	testAveragePrecisionBNotInOrder	0

TestDirectedGraph

	testDeleteLeaf1	0
	testDeleteLeafFail	0
	testGetChildren	0.003
	testToString	0
	testAddChild	0
	testTopoSort	0.001
	testAddParent	0
	testDeleteLeafNotLeaf	0
	testAddChildFail	0
	testAddParentFail	0
	testTreeView	0.277

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

TestSparseRaggedDouble2DNamedMatrixReader

	testReadStreamAdjList	0.012
	testReadInputStream	0.004
	testReadStreamAdjListBig	0.737

DesignMatrixTest

	testInteractionC	0
	test2	0.001
	testA	0.001
	testB	0.002
	testInteractionAndRelevel	0.007

CorrelationStatsTest

	testSpearmanPvalueA	0
	testSpearmanPvalueB	0
	testSpearmanPvalueD	0
	testSpearmanPvalueE	0.014
	testSpearmanPvalueF	0
	testSpearmanPvalueG	0.06
	testCorrelationForPvalue	0.001
	testCorrelTooSmall	0
	testInverseFisherTransform	0
	testSpearmanPvalueTDist	0
	testCorrel	0
	testCorrelAsByte	0
	testPvalue	0
	testSpearmanPvalueA2	0
	testSpearmanPvalueD2	0
	testSpearmanPvalueEh	0
	testSpearmanPvalueEm	0.009
	testSpearmanPvalueG2	0

TestItemLevelFilter

testFilter

0

HistogramTest

	testGetBiggestBinSize	0
	testGetApproximateQuantile	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.