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%	0.151

ubic.basecode.math.linalg

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	QRDecompositionTest	5	0	0	0	100%	0.073

ubic.basecode.dataStructure.params

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	ParamGrabberTest	1	0	0	0	100%	0.001
	ParameterKeeperTest	1	0	0	0	100%	0.024

ubic.basecode.util

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	ConfigUtilsTest	13	0	0	0	100%	0.385
	NetUtilsTest	4	0	0	0	100%	3.898
	StringUtilTest	5	0	0	0	100%	0
	FileToolsTest	32	0	0	0	100%	0.078
	BatchIteratorTest	3	0	0	0	100%	0
	PrettyPrinterTest	1	0	0	0	100%	0
	DateUtilTest	6	0	0	0	100%	0.017
	TestStringUtil	8	0	0	0	100%	0.001
	SQLUtilsTest	1	0	0	0	100%	0.001

ubic.basecode.graphics

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	MatrixDisplayTest	4	0	0	0	100%	0.52

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%	0.023

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
	HistogramSamplerTest	1	0	0	0	100%	0.043
	NormalProbabilityComputerTest	4	0	0	0	100%	0.001
	HistogramTest	2	0	0	0	100%	0.001
	UniformDensityComputerTest	1	0	0	0	100%	0
	TestWishart	1	0	0	0	100%	0.001

ubic.basecode.math.linearmodels

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	DesignMatrixTest	5	0	0	0	100%	0.035
	MeanVarianceEstimatorTest	5	0	0	0	100%	0.059
	LeastSquaresFitTest	20	0	0	0	100%	15.579
	ModeratedTstatTest	6	0	0	0	100%	0.233

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%	0.001

ubic.basecode.util.r

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	RServeClientTest	21	0	0	0	100%	6.409
	JRIClientTest	21	0	0	0	100%	0.024

ubic.basecode.ontology.jena

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	OntologyLoaderTest	2	0	0	0	100%	0.18
	OntologySearchTest	9	0	0	0	100%	4.912
	UberonOntologySearchTest	2	0	0	0	100%	39.062
	JenaUtilsTest	1	0	0	0	100%	0.185

ubic.basecode.dataStructure.graph

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	TestDirectedGraph	11	0	0	0	100%	0.042

ubic.basecode.dataStructure.matrix

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	FastRowAccessDoubleMatrixTest	39	0	0	0	100%	0.027
	SparseDoubleMatrixTest	24	0	0	0	100%	0.007
	MatrixUtilTest	7	0	0	0	100%	0.012
	IntegerMatrixTest	16	0	0	0	100%	0.001
	CompressedSparseDoubleMatrixTest	38	0	0	0	100%	0.139
	DenseDouble3dMatrixTest	4	0	0	0	100%	0.001
	SparseRaggedDoubleMatrixTest	10	0	0	0	100%	0
	DenseDoubleMatrixTest	39	0	0	0	100%	0.049
	StringMatrixTest	4	0	0	0	100%	0
	CompressedNamedBitMatrixTest	9	0	0	0	100%	0
	RCDoubleMatrix1DTest	3	0	0	0	100%	0

ubic.basecode.math

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	StringDistanceTest	16	0	0	0	100%	0.009
	TestMatrixStats	15	0	0	0	100%	0.079
	TestROC	3	0	0	0	100%	0.064
	DistanceTest	12	0	0	0	100%	0.105
	PrecisionRecallTest	5	0	0	0	100%	0.025
	RandomChooserTest	7	0	0	0	100%	2.722
	TestRank	14	0	0	0	100%	0.004
	CorrelationStatsTest	18	0	0	0	100%	0.127
	TestKSTest	2	0	0	0	100%	0.001
	TestMathUtil	5	0	0	0	100%	0.001
	SingularValueDecompositionTest	1	0	0	0	100%	0.096
	TestWilcoxon	15	0	0	0	100%	7.028
	TestDescriptiveWithMissing	45	0	0	0	100%	0.027
	TestSpecFunc	7	0	0	0	100%	0.024
	TestMatrixNormalizer	2	0	0	0	100%	0.005
	KruskalWallisTest	1	0	0	0	100%	0.003
	TestStats	14	0	0	0	100%	0.003
	TestMatrixRowStats	6	0	0	0	100%	0.03
	MultipleTestCorrectionTest	5	0	0	0	100%	2.246

ubic.basecode.io.reader

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	TestStringMatrixReader	4	0	0	0	100%	0.003
	TestDoubleMatrixReader	15	0	0	0	100%	0.064
	TestSparseDoubleMatrixReader	2	0	0	0	100%	0.014
	TestMapReader	3	0	0	0	100%	0.003
	TestSparseRaggedDouble2DNamedMatrixReader	3	0	0	0	100%	0.819
	HistogramReaderTest	2	0	0	0	100%	0

ubic.basecode.ontology

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	OntologyTermTest	5	0	0	0	100%	1.938

ubic.basecode.datafilter

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	TestRowMissingFilter	11	0	0	0	100%	0.026
	TestItemLevelFilter	1	0	0	0	100%	0.001
	TestRowLevelFilter	23	0	0	0	100%	0.111
	TestRowNameFilter	4	0	0	0	100%	0.011
	TestRowAbsentFilter	9	0	0	0	100%	0.063
	TestRowAffyNameFilter	2	0	0	0	100%	0.002

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
	BitUtilTest	5	0	0	0	100%	0.001
	StringToStringSetMapTest	6	0	0	0	100%	0
	DoubleAddingMapTest	1	0	0	0	100%	0
	CountingMapTest	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%	0.637

Test Cases

[Summary] [Package List] [Test Cases]

ParamGrabberTest

test

0

FastRowAccessDoubleMatrixTest

	testConstructFromArray	0
	testSubsetRows	0
	testToArray	0
	testSortByColumnAbsoluteValue	0
	testGet	0
	testSet	0
	testRows2	0.001
	testCopy	0
	testGet2	0.001
	testRows	0.001
	testSet2	0
	testSize	0.001
	testToString	0.001
	testGetRowByNameFail	0.001
	testGetRowByNameNull	0
	testSetIntIntObject	0.002
	testGetRow2	0
	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	0.001
	testGetObject	0.001
	testGetRow	0.001
	testGetRowObj	0
	testGetRowRange	0.001
	testGetRowByName	0.001
	testIsMissing2	0.001
	testGetColByNameFail	0.001
	testGetColByNameNull	0.001
	testGetRowObj2	0.001
	testGetColByName	0.001
	testGetRowArrayList2	0.001
	testViewRow2	0

HistogramSamplerTest

testNextSample

0.043

StringDistanceTest

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

NormalProbabilityComputerTest

	testProbabilityDoubleBoolean	0.001
	testProbabilityDoubleBooleanLower	0
	testInvalidVariance	0
	testProbabilityDouble	0

TestByteArrayConverter

	testDoubleArrayToByteArrayConversionSpeed	0.028
	testByteArrayToBooleans	0.015
	testStringToDoubleArrayConversionSpeed	0.026
	testByteArrayToDoubleConversionSpeed	0.021
	testByteArrayToTabbedString	0.006
	testDoubleArrayToBytes	0.004
	testIntsToBytes	0.005
	testBooleansToLongArray	0.004
	testByteArrayToDoubles	0.004
	testStringToBytes	0.005
	testDoubleArrayToDelimitedStringConversionSpeed	0.015
	testObjectToBytes	0.005
	testBooleansToByteArray	0.004
	testByteArrayToLongs	0.004
	testByteArrayToDoubleMatrix	0.004

TestMatrixStats

	testRbfNormalize	0
	testSelfSquare	0.001
	testStandardize	0.006
	testCorrelationMatrix	0.011
	testMax	0.002
	testMin	0.004
	testNan	0.002
	testColSumsWithMissing	0.005
	testLogTransform	0.003
	testDoubleStandardize	0.012
	testCov2Cor	0.015
	testConvertToLog2Cpm	0.002
	testConvertLog	0.001
	testCountsPerMillionWithMissing	0.001
	testCorrelationMatrixThreshold	0.011

TestStringMatrixReader

	testReadInputStreamRowCount	0
	testReadInputStreamGotColName	0
	testReadInputStreamGotRowName	0.002
	testReadInputStreamColumnCount	0.001

SparseDoubleMatrixTest

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

DesignMatrixTest

	testInteractionC	0.014
	test2	0.002
	testA	0.002
	testB	0.006
	testInteractionAndRelevel	0.011

TestCorrelationEffectMetaAnalysis

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

TestROC

	testBig	0.063
	testAroc	0
	testArocPvalue	0.001

TestDirectedGraph

	testDeleteLeaf1	0
	testDeleteLeafFail	0
	testGetChildren	0
	testToString	0
	testAddChild	0
	testTopoSort	0
	testAddParent	0
	testDeleteLeafNotLeaf	0
	testAddChildFail	0
	testAddParentFail	0
	testTreeView	0.042

MatrixUtilTest

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

HistogramTest

	testGetBiggestBinSize	0
	testGetApproximateQuantile	0

OntologyTermTest

	testGetParentsHasProperPart	0.081
	testGetChildren	0.874
	testGetChildrenHasProperPart	0.035
	testGetParents	0.446
	testRejectNonEnglish	0.487

ConfigUtilsTest

	testLoadConfigURL	0.109
	testGetConfigBuilderFile	0.105
	testGetConfigBuilderString	0.002
	testGetConfigBuilderURLNew	0.002
	testGetConfigBuilderStringNew	0.001
	testLoadConfigString	0.002
	testLoadConfigURLNew	0.002
	testLoadConfigStringNewName	0.151
	testGetConfigBuilderURL	0.001
	testLoadConfigStringNew	0.002
	testLoadConfigFile	0.002
	testGetConfigBuilderFileNew	0.002
	testLoadConfigFileNew	0.001

TestDoubleMatrixReader

	testReadChooseRowsBadfileName	0
	testReadInputStreamMissingBad	0
	testReadInputStreamGotColNameSkipColumn	0.001
	testReadInputStreamRowCount	0.001
	testReadInputStreamGotColName	0.001
	testReadInputStreamGotRowName	0.001
	testSmallNumbers	0.033
	testReadInputStreamMissingSpaces	0.01
	testReadBad	0.002
	testBadFileName	0.001
	testReadChooseRowsSkipcols	0.001
	testReadBlankCorner	0.005
	testReadInputStreamMissing	0
	testReadChooseRows	0.002
	testReadInputStreamColumnCount	0.002

RServeClientTest

	testExec	0.313
	testListEvalA	0.305
	testListEvalB	0.305
	testExecError	0.305
	testDataFrameA	0.305
	testAssignAndRetrieveMatrix	0.304
	testAnovaA	0.305
	testAnovaB	0.304
	testAnovaC	0.304
	testAnovaD	0.304
	testAnovaE	0.304
	testAnovaF	0.305
	testLimmaA	0.305
	testExecDoubleArray	0.305
	testAssignAndRetrieveMatrixB	0.304
	testAssignAndRetrieveMatrixD	0.306
	testLinearModelA	0.305
	testLinearModelB	0.305
	testLinearModelC	0.304
	testLinearModelD	0.304
	testStringListEvalB	0.305

BinaryTreeTest

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

DistanceTest

	testSpearmanRankCorrelation	0.017
	testCorrelationOfStandardizedDoubleArrayDoubleArray	0.001
	testSpearmanRankCorrelation2	0.002
	testSpearmanRankCorrelation3	0.001
	testManhattanDistance	0.001
	testSpearmanRankCorrelationNaN	0.001
	testEuclDistance	0
	testSpearmanOneList1	0
	testSpearmanOneList2	0.001
	testSpearmanOneList3	0
	testSpearmanOneList4	0.001
	testCorrelationOfStandardizedDoubleArrayListDoubleArrayList	0

PrecisionRecallTest

	testAveragePrecisionB	0.014
	testAveragePrecisionWithTie	0
	testAveragePrecisionNotInOrder	0
	testAveragePrecision	0
	testAveragePrecisionBNotInOrder	0

RandomChooserTest

	testChooseRandomDeck	0.044
	testRepeatSubset	1.177
	testChooserandomInts	0.029
	testChooserandomWrep	0.001
	testRandomSubset	0
	testChooserandomInt	0.172
	testRepeat	1.299

OntologyLoaderTest

	testCacheOntologyToDisk	0.141
	testHasChanged	0.008

TestRank

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

NetUtilsTest

	testFtpFileSize	0.758
	testCheckForFile	0.779
	testFtpFileSizeDoesntExist	1.261
	testDownloadFile	1.099

StringUtilTest

	testMakeRnames	0
	testCommonPrefixNone	0
	testCommonSuffixNone	0
	testCommonPrefix	0
	testCommonSuffix	0

BitUtilTest

	testGet	0
	testSet	0
	testClear	0
	testCount	0
	testToBool	0

OntologySearchTest

	testPersistence	0.757
	testOmitDefinitions2	0.236
	testOmitDefinitions3	0.07
	testOmitDefinitions4	2.005
	testOmitBadPredicates2	0.08
	testOmitBadPredicates	0.057
	testIndexing	0.997
	testOmitDefinitions	0.059
	testStemming	0.576

ParameterKeeperTest

test

0.022

MatrixDisplayTest

	testWriteOutAsPNG2	0.435
	testWriteOutAsPNG	0.013
	testSaveImage	0.008
	testSaveImageStandardize	0.064

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.

TestSparseDoubleMatrixReader

	testReadStream	0.004
	testReadJW	0.01

StringToStringSetMapTest

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

TestHistogramWriter

testWriter

0

TestMeanDifferenceMetaAnalysis

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

FileToolsTest

	testHasImageExtension	0.005
	testTestDir	0.002
	testGetWithoutExtension	0.001
	testGetLines	0.002
	testTouch	0.002
	testListDirectoryFiles	0.01
	testAddImageExtension	0.002
	testChangeExtension	0.001
	testDeleteFilesAndDir	0.006
	testCleanFileName	0.003
	testgetStringListFromFile	0.003
	testGetWithoutExtensionB	0.001
	testGetWithoutExtensionC	0.001
	testResourcetoPath	0.001
	testCleanFileNameErr	0.002
	testIsGZipped	0.002
	testUnGzipFile	0.002
	testCopyFileFailOnDirectoryOutput	0.002
	testTestFileString	0.001
	testGetCompressedFile	0.003
	testCopyFile	0.002
	testGetExtension	0.002
	testCheckPathIsReadableFile	0.001
	testIsZipped	0.001
	testAddDataExtension	0.001
	testGetCompressedFileZip	0.005
	testTestFileFile	0.001
	testCheckPathIsReadableFileNot	0.001
	testCopyFileFailOnDirectoryInput	0.001
	testGetInputStreamFromPlainOrCompressedFile	0.001
	testHasXMLExtension	0.001
	testUnzipFile	0.008

DoubleAddingMapTest

test

0

TestMapReader

	testRead	0
	testReadNoHeader	0
	testReadNoHeaderFile	0.003

TestRowMissingFilter

	testFilterPresentCountInvalid	0
	testFilterWithMissingLowMaxFraction	0.002
	testFilterWithMissing	0
	testFilterWithMissingLessStringent	0.001
	testFilterFractionInvalid2	0.002
	testFilterFractionInvalid	0.011
	testFilterStringMatrix	0
	testFilterFraction	0
	testFilter	0.003
	testMaxFractionRemovedInvalid	0.003
	testFilterNoFiltering	0.004

MatrixWriterTest

	testWriteMatrixB	0.013
	testWriteMatrix	0.002
	testWrite3DMatrix	0.008

CorrelationStatsTest

	testSpearmanPvalueA	0
	testSpearmanPvalueB	0
	testSpearmanPvalueD	0
	testSpearmanPvalueE	0.048
	testSpearmanPvalueF	0
	testSpearmanPvalueG	0.064
	testCorrelationForPvalue	0
	testCorrelTooSmall	0.001
	testInverseFisherTransform	0
	testSpearmanPvalueTDist	0
	testCorrel	0.001
	testCorrelAsByte	0
	testPvalue	0
	testSpearmanPvalueA2	0.001
	testSpearmanPvalueD2	0
	testSpearmanPvalueEh	0.001
	testSpearmanPvalueEm	0.01
	testSpearmanPvalueG2	0.001

TestKSTest

	testKSTestTwoSample	0
	testKSTestOneSample	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

BatchIteratorTest

	testBatches	0
	testBatchIterator	0
	testConcurrentModificationException	0

CompressedSparseDoubleMatrixTest

	testSubsetRows	0
	testToArray	0.003
	testSortByColumnAbsoluteValue	0.018
	testGet	0.004
	testSet	0.002
	testRows2	0.004
	testCopy	0.004
	testGet2	0.004
	testRows	0.003
	testSet2	0.003
	testSize	0.003
	testToString	0.004
	testGetRowByNameFail	0.003
	testGetRowByNameNull	0.003
	testSetIntIntObject	0.003
	testGetRow2	0.004
	testSubsetColumns	0.003
	testViewRow	0.003
	testColumns	0.003
	testGetColRange	0.002
	testGetByKeys	0.004
	testGetColObj	0.005
	testGetColumn	0.004
	testIsMissing	0.008
	testViewColumn	0.003
	testGetColObj2	0.003
	testGetObject	0.002
	testGetRow	0.003
	testGetRowObj	0.004
	testGetRowRange	0.004
	testGetRowByName	0.003
	testIsMissing2	0.002
	testGetColByNameFail	0.003
	testGetColByNameNull	0.002
	testGetRowObj2	0.003
	testGetColByName	0.002
	testGetRowArrayList2	0.003
	testViewRow2	0.003

CountingMapTest

	testSummation	0
	testCount	0.001
	testSeen	0
	testIncrement	0
	testSortedKeyList	0
	testSortedKeyListBoolean	0

TestItemLevelFilter

testFilter

0

DenseDouble3dMatrixTest

	testget	0
	testtostring	0.001
	testgetcolobj	0
	testgetrowobj	0

ExcelUtilTest

	testGetSheetFromFile	0.618
	testGetSet	0.004
	testSetFormula	0.015

TestSparseRaggedDouble2DNamedMatrixReader

	testReadStreamAdjList	0.006
	testReadInputStream	0.018
	testReadStreamAdjListBig	0.794

MetaAnalysisTest

	testFisherCombinePvaluesB	0
	testFisherCombinePvalues	0

JRIClientTest

	testExec	0.004
	testListEvalA	0
	testListEvalB	0.001
	testExecError	0.001
	testDataFrameA	0
	testAssignAndRetrieveMatrix	0.001
	testAnovaA	0
	testAnovaB	0.001
	testAnovaC	0
	testAnovaD	0.001
	testAnovaE	0.001
	testAnovaF	0
	testLimmaA	0.001
	testExecDoubleArray	0
	testAssignAndRetrieveMatrixB	0.001
	testAssignAndRetrieveMatrixD	0.003
	testLinearModelA	0.001
	testLinearModelB	0.002
	testLinearModelC	0
	testLinearModelD	0.003
	testStringListEvalB	0.001

UniformDensityComputerTest

testDensity

0

TestMathUtil

	testMax	0
	testSumArray	0
	testFillRangeDown	0
	testFillRange	0
	testFillRangeNo	0

SparseRaggedDoubleMatrixTest

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

UberonOntologySearchTest

	testScore	0.089
	testOmitDefinition	0.017

PrettyPrinterTest

testPrintBeans

0

SingularValueDecompositionTest

testSingularValueDecomposition

0.096

TestRowLevelFilter

	testFilterMinHigh	0.001
	testFilterFractionMaxRemoveHighAndLowBothFraction	0.005
	testFilterMaxTooHigh	0.006
	testFilterMedian	0.005
	testFilterNoFilter	0.003
	testFilterFractionMaxRemoveHighAndLowBothLevelsNegLow	0.005
	testFilterFractionMaxRemoveNegHigh	0.004
	testFilterMax	0.004
	testFilterMin	0.004
	testFilterMaxFractionNoneRemoveNeg	0.003
	testFilterMedianHigh	0.004
	testFilterFractionMaxRemoveHighAndLowBothLevelsNoNegRemove	0.005
	testFilterFractionMaxRemoveNeg	0.007
	testFilterMaxFractionAll	0.006
	testFilterFractionMaxRemoveHighAndLowBothLevels	0.006
	testFilterMaxFraction	0.006
	testFilterBadFraction	0.004
	testFilterMaxFractionHigh	0.005
	testFilterMaxFractionNone	0.006
	testFilterFractionMaxRemoveHighAndLow	0.01
	testFilterMeanHigh	0.004
	testFilterMean	0.004
	testFilterMaxHigh	0.003

TestWilcoxon

	testWilxcoxonPExactB	0
	testWilxcoxonPExactC	0
	testWilxcoxonPExactD	6.999
	testWilxcoxonPGaussB	0
	testBGaussian	0
	testFVolume	0.003
	testWilxcoxonPVolume	0.008
	testBig	0
	testWilxcoxonPGauss	0
	testWilcoxonPExactA	0
	testCGaussian	0
	testDVolume	0.002
	testAExact	0.011
	testWilxcoxonPWithTies	0.001
	testEVolume	0.001

TestDescriptiveWithMissing

	testRankInterpolated	0
	testKurtosis	0
	testCorrelationA	0
	testCorrelationB	0
	testQuantileInverse	0
	testStandardize	0
	testIncrementalWeightedUpdate	0.001
	testSumOfPowerDeviationsA	0.001
	testOptimizedCorrelation	0
	testMad	0
	testMax	0
	testMin	0
	testSum	0
	testMeanDoubleArB	0.001
	testSumOfInversions	0
	testLag1	0.002
	testMean	0.001
	testSkew	0
	testDurbinWatson	0
	testMeanAboveQuantile	0.001
	testSumOfSquares	0
	testProduct	0.001
	testGeometricMean	0.005
	testMeanDoubleAr	0
	testSampleSkew	0
	testQuantile	0
	testVariance	0
	testQuantiles	0
	testSampleKurtosis	0
	testStandardizeNoVariance	0
	testDurbinWatsonTwo	0
	testKurtosisList	0.001
	testSumOfSquaredDeviations	0
	testSampleStandardDeviation	0
	testMeanEff	0
	testSumOfPowers	0.001
	testSampleVariance	0
	testWeightedMean	0
	testCovariance	0
	testIncrementalUpdate	0
	testMedian	0.001
	testTrimmedMean	0
	testIncrementalUpdateSums	0
	testDurbinWatsonShort	0
	testAutoCorrelation	0.001

DateUtilTest

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

MeanVarianceEstimatorTest

	testVoom	0.041
	testMeanVarianceNoDesignWithColsRowAllMissing	0
	testDuplicateRows	0.016
	testInterpolate	0
	testMeanVarianceNoDesignWithMissing	0.001

TestSpecFunc

	testdBinom	0
	testCumHyperGeometricB	0
	testTrigammaInverse	0.021
	testCumHyperGeometric	0
	testTrigammaInverseB	0.001
	testHypergeometric	0.001
	testCumHyperGeometricUT	0

QRDecompositionTest

	testScaledDesign	0.01
	testSingular2	0.017
	test1	0.028
	test3	0.014
	test2NoPivoting	0.004

DenseDoubleMatrixTest

	testConstructFromArray	0
	testSubsetRows	0
	testToArray	0
	testSortByColumnAbsoluteValue	0.002
	testGet	0.002
	testSet	0.002
	testRows2	0.001
	testCopy	0.002
	testGet2	0.002
	testRows	0.002
	testSet2	0.002
	testSize	0.002
	testToString	0.002
	testGetRowByNameFail	0.002
	testGetRowByNameNull	0.002
	testSetIntIntObject	0.002
	testGetRow2	0.001
	testSubsetColumns	0.002
	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	0.001
	testGetRowObj2	0.001
	testGetColByName	0
	testGetRowArrayList2	0.001
	testViewRow2	0.001

TestMatrixNormalizer

	testQuantileNormalize	0.002
	testQuantileNormalizeWithMissing	0.003

TestWishart

testNextDoubleMatrix

0.001

KruskalWallisTest

testKW

0.003

JenaUtilsTest

testInferenceCapabilities

0.184

LeastSquaresFitTest

	testTwoWayAnovaUnfittable	0.062
	testThreeWaySingular	0.259
	testEstrogen	7.31
	testVectorWeightedRegress	0.001
	testNHBE	7.741
	testLSFTwoLevels2	0.056
	testLSFTwoLevels3	0.04
	testSingular2	0.01
	testVectorWeightedRegressWithMissing	0.005
	testVectorRegress	0
	testLSFThreeLevelsOneContinuousWithMissing3	0.004
	testTwoWayAnovaWithInteractions	0.008
	testLSFTwoLevels	0.005
	testOneWayAnova	0.023
	testTwoWayTwoLevelsOneContinousInteractionC	0.009
	testLSFThreeLevelsOnecontinous2	0.008
	testMatrixWeightedRegress	0.001
	testSingular	0.022
	testLSFTwoLevelsOneContinuous	0.007
	testLSFOneContinuousWithMissing3	0.007

TestStringUtil

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

TestRowNameFilter

	testFilterString	0.001
	testFilterExclude	0.001
	testFilter	0.004
	testFilterStringExclude	0.004

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

SQLUtilsTest

testBlobToString

0

TestRowAbsentFilter

	testFilterKeepMarginal	0.001
	testFilterPresentCountInvalid	0.017
	testFilterWithMissing	0.007
	testFilterNullFlags	0.018
	testFilterWithMissingLessStringent	0.005
	testFilterFractionInvalid	0.003
	testFilterStringMatrix	0.004
	testFilterFraction	0.003
	testFilter	0.004

HistogramReaderTest

	testHistogramReaderIs	0
	testHistogramReaderString	0

TestRowAffyNameFilter

	testStringFilter	0.001
	testFilter	0

ModeratedTstatTest

	testLimmaMissing	0.01
	testFdist	0.001
	testLimma	0.046
	testSqueezeVarB	0.175
	testSqueezeVar	0
	testSqueezeVarWMissing	0.001

TestMatrixRowStats

	testSumOfSquaresDoubleMatrixNamed	0.006
	testMeans	0.006
	testSums	0.006
	testMeans2	0.005
	testStandardDeviations	0.002
	testSumOfSquaresDoubleMatrixNamedDoubleArrayList	0.002

StringMatrixTest

	testToString	0
	testSubsetColumns	0
	testGetColObj	0
	testSubset	0

CompressedNamedBitMatrixTest

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

RCDoubleMatrix1DTest

	testZSum	0
	testAssignAr	0
	testAssign	0

MultipleTestCorrectionTest

	testBenjaminiYekuteliCut	1.706
	testBenjaminiHochbergCut	0.143
	testBenjaminiHochberg	0.111
	testBenjaminiHochbergM	0.104
	testBonferroniCut	0.174

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.