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%	0.072

ubic.basecode.io

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	TestByteArrayConverter	17	0	0	0	100%	0.115

ubic.basecode.dataStructure.params

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	ParameterKeeperTest	1	0	0	0	100%	0.219
	ParamGrabberTest	1	0	0	0	100%	0

ubic.basecode.util

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	BatchIteratorTest	3	0	0	0	100%	0.001
	NetUtilsTest	4	0	0	0	100%	4.197
	FileToolsTest	32	0	0	0	100%	0.083
	TestStringUtil	8	0	0	0	100%	0.023
	DateUtilTest	6	0	0	0	100%	0
	ConfigUtilsTest	13	0	0	0	100%	0.158
	SQLUtilsTest	1	0	0	0	100%	0.001
	PrettyPrinterTest	1	0	0	0	100%	0.001
	StringUtilTest	5	0	0	0	100%	0

ubic.basecode.graphics

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	MatrixDisplayTest	4	0	0	0	100%	0.196

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

ubic.basecode.ontology.ncbo

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	AnnotatorClientTest	3	0	0	3	0%	0.005

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%	0.018
	TestWishart	1	0	0	0	100%	0.676
	UniformDensityComputerTest	1	0	0	0	100%	0.058
	HistogramTest	2	0	0	0	100%	0

ubic.basecode.util.r

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	JRIClientTest	21	0	0	0	100%	0.004
	RServeClientTest	21	0	0	0	100%	6.356

ubic.basecode.math.metaanalysis

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

ubic.basecode.math.linearmodels

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	DesignMatrixTest	5	0	0	0	100%	0.001
	ModeratedTstatTest	6	0	0	0	100%	0.365
	MeanVarianceEstimatorTest	5	0	0	0	100%	0.043
	LeastSquaresFitTest	20	0	0	0	100%	8.889

ubic.basecode.ontology.jena

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	OntologySearchTest	9	0	0	0	100%	2.64
	OntologyLoaderTest	2	0	0	0	100%	0.208
	JenaUtilsTest	1	0	0	0	100%	0.104
	UberonOntologySearchTest	2	0	0	0	100%	22.369

ubic.basecode.dataStructure.graph

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	TestDirectedGraph	11	0	0	0	100%	0.345

ubic.basecode.dataStructure.matrix

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	IntegerMatrixTest	16	0	0	0	100%	0.001
	CompressedNamedBitMatrixTest	9	0	0	0	100%	0.005
	SparseDoubleMatrixTest	24	0	0	0	100%	0.01
	SparseRaggedDoubleMatrixTest	10	0	0	0	100%	0.005
	RCDoubleMatrix1DTest	3	0	0	0	100%	0.001
	DenseDoubleMatrixTest	39	0	0	0	100%	0.025
	DenseDouble3dMatrixTest	4	0	0	0	100%	0.002
	CompressedSparseDoubleMatrixTest	38	0	0	0	100%	0.04
	MatrixUtilTest	7	0	0	0	100%	0.001
	FastRowAccessDoubleMatrixTest	39	0	0	0	100%	0.041
	StringMatrixTest	4	0	0	0	100%	0

ubic.basecode.math

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	CorrelationStatsTest	18	0	0	0	100%	0.098
	MultipleTestCorrectionTest	5	0	0	0	100%	0.263
	DistanceTest	12	0	0	0	100%	0.001
	TestMatrixRowStats	6	0	0	0	100%	0.015
	SingularValueDecompositionTest	1	0	0	0	100%	0.096
	RandomChooserTest	7	0	0	0	100%	1.307
	TestDescriptiveWithMissing	38	0	0	0	100%	0.003
	TestROC	3	0	0	0	100%	0.041
	StringDistanceTest	16	0	0	0	100%	0.007
	TestMatrixStats	15	0	0	0	100%	0.046
	TestMathUtil	5	0	0	0	100%	0.001
	KruskalWallisTest	1	0	0	0	100%	0.001
	TestWilcoxon	15	0	0	0	100%	3.175
	TestSpecFunc	7	0	0	0	100%	0.022
	TestMatrixNormalizer	2	0	0	0	100%	0
	TestKSTest	2	0	0	0	100%	0
	TestRank	14	0	0	0	100%	0.006
	TestStats	14	0	0	0	100%	0.001
	PrecisionRecallTest	5	0	0	0	100%	0.001

ubic.basecode.io.reader

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	TestSparseDoubleMatrixReader	2	0	0	0	100%	0
	TestStringMatrixReader	4	0	0	0	100%	0
	TestDoubleMatrixReader	15	0	0	0	100%	0.046
	HistogramReaderTest	2	0	0	0	100%	0.002
	TestSparseRaggedDouble2DNamedMatrixReader	3	0	0	0	100%	0.604
	TestMapReader	3	0	0	0	100%	0.001

ubic.basecode.datafilter

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	TestItemLevelFilter	1	0	0	0	100%	0.002
	TestRowAbsentFilter	9	0	0	0	100%	0.071
	TestRowAffyNameFilter	2	0	0	0	100%	0.005
	TestRowMissingFilter	11	0	0	0	100%	0.074
	TestRowNameFilter	4	0	0	0	100%	0.007
	TestRowLevelFilter	23	0	0	0	100%	0.098

ubic.basecode.ontology

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	OntologyTermTest	5	0	0	0	100%	4.09

ubic.basecode.dataStructure.tree

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

ubic.basecode.dataStructure

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

ubic.basecode.io.excel

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	ExcelUtilTest	3	0	0	0	100%	0.231

Test Cases

[Summary] [Package List] [Test Cases]

IntegerMatrixTest

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

TestItemLevelFilter

testFilter

0

BinaryTreeTest

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

OntologySearchTest

	testPersistence	0.366
	testOmitDefinitions2	0.167
	testOmitDefinitions3	0.036
	testOmitDefinitions4	1.043
	testOmitBadPredicates2	0.046
	testOmitBadPredicates	0.043
	testIndexing	0.535
	testOmitDefinitions	0.042
	testStemming	0.331

ParameterKeeperTest

test

0.219

CorrelationStatsTest

	testSpearmanPvalueA	0
	testSpearmanPvalueB	0
	testSpearmanPvalueD	0
	testSpearmanPvalueE	0.037
	testSpearmanPvalueF	0
	testSpearmanPvalueG	0.042
	testCorrelationForPvalue	0
	testCorrelTooSmall	0.001
	testInverseFisherTransform	0
	testSpearmanPvalueTDist	0
	testCorrel	0
	testCorrelAsByte	0
	testPvalue	0.001
	testSpearmanPvalueA2	0
	testSpearmanPvalueD2	0
	testSpearmanPvalueEh	0.001
	testSpearmanPvalueEm	0.015
	testSpearmanPvalueG2	0.001

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
	testLinearModelA	0
	testLinearModelB	0
	testLinearModelC	0
	testLinearModelD	0
	testStringListEvalB	0

OntologyLoaderTest

	testCacheOntologyToDisk	0.191
	testHasChanged	0.009

TestHistogramWriter

testWriter

0

ParamGrabberTest

test

0

NormalProbabilityComputerTest

	testProbabilityDoubleBoolean	0
	testProbabilityDoubleBooleanLower	0
	testInvalidVariance	0
	testProbabilityDouble	0

TestSparseDoubleMatrixReader

	testReadStream	0
	testReadJW	0

TestCorrelationEffectMetaAnalysis

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

CompressedNamedBitMatrixTest

	testGetOutOfBounds	0.001
	testOverlap	0
	testGet	0
	testTotalBitCount	0
	testOutOfBounds	0.001
	testOutOfBounds2	0
	testGetRowBitCount	0
	testBitMatrix	0.002
	testBitCount	0.001

BatchIteratorTest

	testBatches	0
	testBatchIterator	0
	testConcurrentModificationException	0

StringToStringSetMapTest

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

MultipleTestCorrectionTest

	testBenjaminiYekuteliCut	0.069
	testBenjaminiHochbergCut	0.075
	testBenjaminiHochberg	0.071
	testBenjaminiHochbergM	0.028
	testBonferroniCut	0.02

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

BitUtilTest

	testGet	0
	testSet	0
	testClear	0
	testCount	0
	testToBool	0

TestDirectedGraph

	testDeleteLeaf1	0
	testDeleteLeafFail	0
	testGetChildren	0
	testToString	0
	testAddChild	0
	testTopoSort	0
	testAddParent	0
	testDeleteLeafNotLeaf	0
	testAddChildFail	0
	testAddParentFail	0
	testTreeView	0.344

NetUtilsTest

	testFtpFileSize	0.711
	testCheckForFile	0.844
	testFtpFileSizeDoesntExist	1.315
	testDownloadFile	1.327

TestMatrixRowStats

	testSumOfSquaresDoubleMatrixNamed	0
	testMeans	0.002
	testSums	0.003
	testMeans2	0.004
	testStandardDeviations	0.003
	testSumOfSquaresDoubleMatrixNamedDoubleArrayList	0.003

SingularValueDecompositionTest

testSingularValueDecomposition

0.096

TestMeanDifferenceMetaAnalysis

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

TestStringMatrixReader

	testReadInputStreamRowCount	0
	testReadInputStreamGotColName	0
	testReadInputStreamGotRowName	0
	testReadInputStreamColumnCount	0

OntologyTermTest

	testGetParentsHasProperPart	1.127
	testGetChildren	1.444
	testGetChildrenHasProperPart	0.063
	testGetParents	0.609
	testRejectNonEnglish	0.776

DoubleAddingMapTest

test

0

TestRowAbsentFilter

	testFilterKeepMarginal	0.001
	testFilterPresentCountInvalid	0.01
	testFilterWithMissing	0.012
	testFilterNullFlags	0.01
	testFilterWithMissingLessStringent	0.009
	testFilterFractionInvalid	0.007
	testFilterStringMatrix	0.007
	testFilterFraction	0.006
	testFilter	0.006

FileToolsTest

	testHasImageExtension	0.01
	testTestDir	0.001
	testGetWithoutExtension	0.001
	testGetLines	0.003
	testTouch	0.001
	testListDirectoryFiles	0.012
	testAddImageExtension	0.002
	testChangeExtension	0.001
	testDeleteFilesAndDir	0.004
	testCleanFileName	0.002
	testgetStringListFromFile	0.001
	testGetWithoutExtensionB	0.002
	testGetWithoutExtensionC	0.001
	testResourcetoPath	0.002
	testCleanFileNameErr	0.002
	testIsGZipped	0.003
	testUnGzipFile	0.002
	testCopyFileFailOnDirectoryOutput	0.002
	testTestFileString	0.002
	testGetCompressedFile	0.002
	testCopyFile	0.002
	testGetExtension	0.002
	testCheckPathIsReadableFile	0.001
	testIsZipped	0.001
	testAddDataExtension	0.002
	testGetCompressedFileZip	0.003
	testTestFileFile	0.001
	testCheckPathIsReadableFileNot	0.002
	testCopyFileFailOnDirectoryInput	0.001
	testGetInputStreamFromPlainOrCompressedFile	0.001
	testHasXMLExtension	0.002
	testUnzipFile	0.008

DesignMatrixTest

	testInteractionC	0.001
	test2	0
	testA	0
	testB	0
	testInteractionAndRelevel	0

SparseDoubleMatrixTest

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

SparseRaggedDoubleMatrixTest

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

QRDecompositionTest

	testScaledDesign	0.025
	testSingular2	0.022
	test1	0.016
	test3	0.008
	test2NoPivoting	0

TestDoubleMatrixReader

	testReadChooseRowsBadfileName	0
	testReadInputStreamMissingBad	0
	testReadInputStreamGotColNameSkipColumn	0
	testReadInputStreamRowCount	0
	testReadInputStreamGotColName	0
	testReadInputStreamGotRowName	0.002
	testSmallNumbers	0.027
	testReadInputStreamMissingSpaces	0.006
	testReadBad	0.002
	testBadFileName	0.001
	testReadChooseRowsSkipcols	0.001
	testReadBlankCorner	0.002
	testReadInputStreamMissing	0.001
	testReadChooseRows	0.001
	testReadInputStreamColumnCount	0.001

TestByteArrayConverter

	testDoubleArrayToByteArrayConversionSpeed	0.004
	testByteArrayToBooleans	0.005
	testStringToDoubleArrayConversionSpeed	0.007
	testByteArrayToDoubleConversionSpeed	0.007
	testByteArrayToTabbedString	0.005
	testDoubleArrayToBytes	0.005
	testIntsToBytes	0.004
	testBooleansToLongArray	0.004
	testByteArrayToSquareDoubleMatrix	0.005
	testByteArrayToDoubles	0.003
	testStringArrayToBytes	0.005
	testDoubleArrayToDelimitedStringConversionSpeed	0.011
	testStringArrayToTabbedBytes	0.005
	testObjectToBytes	0.019
	testBooleansToByteArray	0.007
	testByteArrayToLongs	0.01
	testByteArrayToDoubleMatrix	0.008

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.

RandomChooserTest

	testChooseRandomDeck	0.045
	testRepeatSubset	0.623
	testChooserandomInts	0.018
	testChooserandomWrep	0
	testRandomSubset	0
	testChooserandomInt	0.084
	testRepeat	0.534

JenaUtilsTest

testInferenceCapabilities

0.103

TestStringUtil

	testTwoStringHashKey	0
	testCsvSplitA	0.021
	testCsvSplitB	0
	testCsvSplitC	0
	testCsvSplitD	0.001
	testCsvSplitE	0
	testCsvSplitF	0
	testTwoStringHashKeyB	0

HistogramSamplerTest

testNextSample

0.017

TestDescriptiveWithMissing

	testRankInterpolated	0
	testKurtosis	0
	testCorrelationA	0
	testCorrelationB	0
	testQuantileInverse	0
	testStandardize	0.001
	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

TestWishart

testNextDoubleMatrix

0.676

ModeratedTstatTest

	testLimmaMissing	0.111
	testFdist	0.001
	testLimma	0.055
	testSqueezeVarB	0.196
	testSqueezeVar	0.001
	testSqueezeVarWMissing	0

TestROC

	testBig	0.035
	testAroc	0.001
	testArocPvalue	0.004

RCDoubleMatrix1DTest

	testZSum	0
	testAssignAr	0
	testAssign	0

TestRowAffyNameFilter

	testStringFilter	0.001
	testFilter	0.003

HistogramReaderTest

	testHistogramReaderIs	0
	testHistogramReaderString	0

StringDistanceTest

	testWeightedHammingA	0
	testWeightedHammingB	0
	testWeightedHammingC	0
	testHammingDistance	0
	testBadMatch	0.002
	testEditDistanceA	0
	testEditDistanceB	0.001
	testEditDistanceC	0
	testEditDistanceD	0
	testEditDistanceE	0
	testEditDistanceF	0
	testEditDistanceG	0
	testEditDistanceH	0
	testWeightedSuffixHammingA	0
	testWeightedSuffixHammingB	0
	testWeightedSuffixHammingC	0.001

TestMatrixStats

	testRbfNormalize	0
	testSelfSquare	0
	testStandardize	0.003
	testCorrelationMatrix	0.005
	testMax	0.001
	testMin	0.001
	testNan	0.002
	testColSumsWithMissing	0.003
	testLogTransform	0.001
	testDoubleStandardize	0.011
	testCov2Cor	0.008
	testConvertToLog2Cpm	0.001
	testConvertLog	0.002
	testCountsPerMillionWithMissing	0.001
	testCorrelationMatrixThreshold	0.006

TestMathUtil

	testMax	0
	testSumArray	0
	testFillRangeDown	0
	testFillRange	0
	testFillRangeNo	0

KruskalWallisTest

testKW

0

UniformDensityComputerTest

testDensity

0.006

DenseDoubleMatrixTest

	testConstructFromArray	0
	testSubsetRows	0
	testToArray	0
	testSortByColumnAbsoluteValue	0.002
	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
	testGetRowByNameNull	0
	testSetIntIntObject	0.001
	testGetRow2	0.001
	testSubsetColumns	0.001
	testViewRow	0
	testColumns	0.001
	testGetColRange	0
	testGetByKeys	0.001
	testGetColObj	0.001
	testGetColumn	0
	testIsMissing	0.001
	testViewColumn	0.001
	testGetColObj2	0
	testGetObject	0.001
	testGetRow	0
	testGetRowObj	0.001
	testGetRowRange	0
	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	3.154
	testWilxcoxonPGaussB	0
	testBGaussian	0
	testFVolume	0.001
	testWilxcoxonPVolume	0.005
	testBig	0
	testWilxcoxonPGauss	0.001
	testWilcoxonPExactA	0
	testCGaussian	0
	testDVolume	0.001
	testAExact	0.011
	testWilxcoxonPWithTies	0
	testEVolume	0.001

TestSparseRaggedDouble2DNamedMatrixReader

	testReadStreamAdjList	0
	testReadInputStream	0
	testReadStreamAdjListBig	0.604

RServeClientTest

	testExec	0.29
	testListEvalA	0.302
	testListEvalB	0.303
	testExecError	0.303
	testDataFrameA	0.304
	testAssignAndRetrieveMatrix	0.303
	testAnovaA	0.303
	testAnovaB	0.305
	testAnovaC	0.303
	testAnovaD	0.302
	testAnovaE	0.303
	testAnovaF	0.303
	testLimmaA	0.304
	testExecDoubleArray	0.303
	testAssignAndRetrieveMatrixB	0.303
	testAssignAndRetrieveMatrixD	0.305
	testLinearModelA	0.303
	testLinearModelB	0.304
	testLinearModelC	0.303
	testLinearModelD	0.303
	testStringListEvalB	0.303

DenseDouble3dMatrixTest

	testget	0
	testtostring	0.002
	testgetcolobj	0
	testgetrowobj	0

TestRowMissingFilter

	testFilterPresentCountInvalid	0
	testFilterWithMissingLowMaxFraction	0.003
	testFilterWithMissing	0
	testFilterWithMissingLessStringent	0.003
	testFilterFractionInvalid2	0.008
	testFilterFractionInvalid	0.007
	testFilterStringMatrix	0.008
	testFilterFraction	0.01
	testFilter	0.011
	testMaxFractionRemovedInvalid	0.01
	testFilterNoFiltering	0.009

TestSpecFunc

	testdBinom	0
	testCumHyperGeometricB	0
	testTrigammaInverse	0.02
	testCumHyperGeometric	0
	testTrigammaInverseB	0.001
	testHypergeometric	0
	testCumHyperGeometricUT	0.001

DateUtilTest

	testgetRelative5yearsFromnow	0
	testRange	0
	testgetRelative5yearsago	0
	testgetRelativeTomorrow	0
	testgetRelativeDateDayago	0
	testRangeBad	0

TestMatrixNormalizer

	testQuantileNormalize	0
	testQuantileNormalizeWithMissing	0

TestKSTest

	testKSTestTwoSample	0
	testKSTestOneSample	0

ConfigUtilsTest

	testLoadConfigURL	0.065
	testGetConfigBuilderFile	0.074
	testGetConfigBuilderString	0.002
	testGetConfigBuilderURLNew	0.003
	testGetConfigBuilderStringNew	0.001
	testLoadConfigString	0.001
	testLoadConfigURLNew	0.001
	testLoadConfigStringNewName	0.005
	testGetConfigBuilderURL	0.001
	testLoadConfigStringNew	0.001
	testLoadConfigFile	0.001
	testGetConfigBuilderFileNew	0.001
	testLoadConfigFileNew	0.001

CompressedSparseDoubleMatrixTest

	testSubsetRows	0
	testToArray	0
	testSortByColumnAbsoluteValue	0.005
	testGet	0.001
	testSet	0.001
	testRows2	0.001
	testCopy	0.002
	testGet2	0.001
	testRows	0.001
	testSet2	0.001
	testSize	0.001
	testToString	0.001
	testGetRowByNameFail	0.001
	testGetRowByNameNull	0.001
	testSetIntIntObject	0.001
	testGetRow2	0.002
	testSubsetColumns	0.001
	testViewRow	0.001
	testColumns	0.002
	testGetColRange	0
	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
	testGetRowRange	0.001
	testGetRowByName	0.001
	testIsMissing2	0.001
	testGetColByNameFail	0.001
	testGetColByNameNull	0.001
	testGetRowObj2	0
	testGetColByName	0.001
	testGetRowArrayList2	0.001
	testViewRow2	0.001

MatrixUtilTest

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

MeanVarianceEstimatorTest

	testVoom	0.024
	testMeanVarianceNoDesignWithColsRowAllMissing	0.001
	testDuplicateRows	0.015
	testInterpolate	0.001
	testMeanVarianceNoDesignWithMissing	0.001

MatrixDisplayTest

	testWriteOutAsPNG2	0.16
	testWriteOutAsPNG	0.01
	testSaveImage	0.007
	testSaveImageStandardize	0.018

SQLUtilsTest

testBlobToString

0

TestRank

	testRankTransformMapDesc	0
	testRankTransformDoubleArrayListDesc	0
	testRankTransformMap	0
	testOrder	0.002
	testRankWithTies	0
	testWithNaNs	0
	testRankTransformDoubleArrayList	0
	testRankWithTiesB	0
	testRankWithTiesC	0
	testRankWithTiesD	0.001
	testRankWithTiesE	0
	testWithNaNs2	0
	testWithNaNs3	0
	testOrderB	0

CountingMapTest

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

UberonOntologySearchTest

	testScore	0.031
	testOmitDefinition	0.017

LeastSquaresFitTest

	testTwoWayAnovaUnfittable	0.002
	testThreeWaySingular	0.081
	testEstrogen	3.935
	testVectorWeightedRegress	0.001
	testNHBE	4.751
	testLSFTwoLevels2	0.03
	testLSFTwoLevels3	0.023
	testSingular2	0.005
	testVectorWeightedRegressWithMissing	0.003
	testVectorRegress	0
	testLSFThreeLevelsOneContinuousWithMissing3	0.003
	testTwoWayAnovaWithInteractions	0.003
	testLSFTwoLevels	0.004
	testOneWayAnova	0.015
	testTwoWayTwoLevelsOneContinousInteractionC	0.005
	testLSFThreeLevelsOnecontinous2	0.003
	testMatrixWeightedRegress	0
	testSingular	0.014
	testLSFTwoLevelsOneContinuous	0.005
	testLSFOneContinuousWithMissing3	0.005

TestRowNameFilter

	testFilterString	0.001
	testFilterExclude	0
	testFilter	0.002
	testFilterStringExclude	0.004

ExcelUtilTest

	testGetSheetFromFile	0.226
	testGetSet	0.001
	testSetFormula	0.003

FastRowAccessDoubleMatrixTest

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

MetaAnalysisTest

	testFisherCombinePvaluesB	0
	testFisherCombinePvalues	0

TestRowLevelFilter

	testFilterMinHigh	0.001
	testFilterFractionMaxRemoveHighAndLowBothFraction	0.003
	testFilterMaxTooHigh	0.006
	testFilterMedian	0.005
	testFilterNoFilter	0.004
	testFilterFractionMaxRemoveHighAndLowBothLevelsNegLow	0.005
	testFilterFractionMaxRemoveNegHigh	0.004
	testFilterMax	0.004
	testFilterMin	0.005
	testFilterMaxFractionNoneRemoveNeg	0.004
	testFilterMedianHigh	0.004
	testFilterFractionMaxRemoveHighAndLowBothLevelsNoNegRemove	0.005
	testFilterFractionMaxRemoveNeg	0.004
	testFilterMaxFractionAll	0.004
	testFilterFractionMaxRemoveHighAndLowBothLevels	0.004
	testFilterMaxFraction	0.005
	testFilterBadFraction	0.004
	testFilterMaxFractionHigh	0.005
	testFilterMaxFractionNone	0.004
	testFilterFractionMaxRemoveHighAndLow	0.004
	testFilterMeanHigh	0.004
	testFilterMean	0.004
	testFilterMaxHigh	0.004

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

MatrixWriterTest

	testWriteMatrixB	0
	testWriteMatrix	0
	testWrite3DMatrix	0

PrecisionRecallTest

	testAveragePrecisionB	0
	testAveragePrecisionWithTie	0
	testAveragePrecisionNotInOrder	0
	testAveragePrecision	0
	testAveragePrecisionBNotInOrder	0

PrettyPrinterTest

testPrintBeans

0

StringUtilTest

	testMakeRnames	0
	testCommonPrefixNone	0
	testCommonSuffixNone	0
	testCommonPrefix	0
	testCommonSuffix	0

HistogramTest

	testGetBiggestBinSize	0
	testGetApproximateQuantile	0

TestMapReader

	testRead	0
	testReadNoHeader	0
	testReadNoHeaderFile	0

StringMatrixTest

	testToString	0
	testSubsetColumns	0
	testGetColObj	0
	testSubset	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.