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%	0.127

ubic.basecode.math.linalg

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	QRDecompositionTest	5	0	0	0	100%	0.005

ubic.basecode.dataStructure.params

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	ParamGrabberTest	1	0	0	0	100%	0.031
	ParameterKeeperTest	1	0	0	0	100%	0.084

ubic.basecode.util

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	TestStringUtil	8	0	0	0	100%	0.027
	BatchIteratorTest	3	0	0	0	100%	0.001
	NetUtilsTest	4	0	0	0	100%	3.88
	ConfigUtilsTest	13	0	0	0	100%	0.239
	DateUtilTest	6	0	0	0	100%	0.008
	PrettyPrinterTest	1	0	0	0	100%	0.001
	FileToolsTest	32	0	0	0	100%	0.096
	StringUtilTest	5	0	0	0	100%	0
	SQLUtilsTest	1	0	0	0	100%	0

ubic.basecode.graphics

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	MatrixDisplayTest	4	0	0	0	100%	0.589

ubic.basecode.io.writer

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	MatrixWriterTest	3	0	0	0	100%	0.021
	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
	HistogramTest	2	0	0	0	100%	0
	NormalProbabilityComputerTest	4	0	0	0	100%	0
	HistogramSamplerTest	1	0	0	0	100%	0.029
	UniformDensityComputerTest	1	0	0	0	100%	0
	TestWishart	1	0	0	0	100%	0.005

ubic.basecode.math.linearmodels

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	MeanVarianceEstimatorTest	5	0	0	0	100%	0.074
	DesignMatrixTest	5	0	0	0	100%	0.009
	LeastSquaresFitTest	20	0	0	0	100%	10.504
	ModeratedTstatTest	6	0	0	0	100%	0.403

ubic.basecode.util.r

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	JRIClientTest	21	0	0	0	100%	0.021
	RServeClientTest	21	0	0	0	100%	6.657

ubic.basecode.math.metaanalysis

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

ubic.basecode.ontology.jena

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	OntologySearchTest	9	0	0	0	100%	5.111
	OntologyLoaderTest	2	0	0	0	100%	0.261
	UberonOntologySearchTest	2	0	0	0	100%	26.864
	JenaUtilsTest	1	0	0	0	100%	0.162

ubic.basecode.dataStructure.graph

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	TestDirectedGraph	11	0	0	0	100%	0.032

ubic.basecode.math

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	DistanceTest	12	0	0	0	100%	0.001
	RandomChooserTest	7	0	0	0	100%	1.652
	StringDistanceTest	16	0	0	0	100%	0.007
	TestStats	14	0	0	0	100%	0.001
	CorrelationStatsTest	18	0	0	0	100%	0.09
	SingularValueDecompositionTest	1	0	0	0	100%	0.098
	TestKSTest	2	0	0	0	100%	0
	TestSpecFunc	7	0	0	0	100%	0.019
	PrecisionRecallTest	5	0	0	0	100%	0
	MultipleTestCorrectionTest	5	0	0	0	100%	0.09
	TestWilcoxon	15	0	0	0	100%	3.767
	TestMatrixStats	15	0	0	0	100%	0.035
	TestROC	3	0	0	0	100%	0.045
	TestMathUtil	5	0	0	0	100%	0
	TestMatrixRowStats	6	0	0	0	100%	0
	TestMatrixNormalizer	2	0	0	0	100%	0.008
	TestDescriptiveWithMissing	38	0	0	0	100%	0.007
	KruskalWallisTest	1	0	0	0	100%	0
	TestRank	14	0	0	0	100%	0

ubic.basecode.dataStructure.matrix

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	CompressedNamedBitMatrixTest	9	0	0	0	100%	0.001
	FastRowAccessDoubleMatrixTest	39	0	0	0	100%	0.061
	SparseRaggedDoubleMatrixTest	10	0	0	0	100%	0.006
	CompressedSparseDoubleMatrixTest	38	0	0	0	100%	0.148
	DenseDoubleMatrixTest	39	0	0	0	100%	0.057
	RCDoubleMatrix1DTest	3	0	0	0	100%	0
	SparseDoubleMatrixTest	24	0	0	0	100%	0.003
	DenseDouble3dMatrixTest	4	0	0	0	100%	0.002
	StringMatrixTest	4	0	0	0	100%	0
	MatrixUtilTest	7	0	0	0	100%	0.001
	IntegerMatrixTest	16	0	0	0	100%	0.002

ubic.basecode.io.reader

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	TestMapReader	3	0	0	0	100%	0
	TestSparseRaggedDouble2DNamedMatrixReader	3	0	0	0	100%	0.693
	TestStringMatrixReader	4	0	0	0	100%	0.006
	TestDoubleMatrixReader	15	0	0	0	100%	0.076
	HistogramReaderTest	2	0	0	0	100%	0
	TestSparseDoubleMatrixReader	2	0	0	0	100%	0.004

ubic.basecode.datafilter

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	TestRowMissingFilter	11	0	0	0	100%	0.058
	TestRowAffyNameFilter	2	0	0	0	100%	0.007
	TestRowAbsentFilter	9	0	0	0	100%	0.066
	TestRowNameFilter	4	0	0	0	100%	0.017
	TestItemLevelFilter	1	0	0	0	100%	0.001
	TestRowLevelFilter	23	0	0	0	100%	0.142

ubic.basecode.ontology

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	OntologyTermTest	5	0	0	0	100%	1.173

ubic.basecode.dataStructure

	Class	Tests	Errors	Failures	Skipped	Success Rate	Time
	BitUtilTest	5	0	0	0	100%	0
	StringToStringSetMapTest	6	0	0	0	100%	0
	CountingMapTest	6	0	0	0	100%	0.001
	DoubleAddingMapTest	1	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%	0.528

Test Cases

[Summary] [Package List] [Test Cases]

ParamGrabberTest

test

0.029

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

TestRowMissingFilter

	testFilterPresentCountInvalid	0
	testFilterWithMissingLowMaxFraction	0.005
	testFilterWithMissing	0.005
	testFilterWithMissingLessStringent	0.006
	testFilterFractionInvalid2	0.006
	testFilterFractionInvalid	0.006
	testFilterStringMatrix	0.006
	testFilterFraction	0.006
	testFilter	0.006
	testMaxFractionRemovedInvalid	0.005
	testFilterNoFiltering	0.005

TestMapReader

	testRead	0
	testReadNoHeader	0
	testReadNoHeaderFile	0

MeanVarianceEstimatorTest

	testVoom	0.056
	testMeanVarianceNoDesignWithColsRowAllMissing	0
	testDuplicateRows	0.016
	testInterpolate	0
	testMeanVarianceNoDesignWithMissing	0.001

TestByteArrayConverter

	testDoubleArrayToByteArrayConversionSpeed	0.026
	testByteArrayToBooleans	0.007
	testStringToDoubleArrayConversionSpeed	0.009
	testByteArrayToDoubleConversionSpeed	0.008
	testByteArrayToTabbedString	0.006
	testDoubleArrayToBytes	0.006
	testIntsToBytes	0.006
	testBooleansToLongArray	0.005
	testByteArrayToSquareDoubleMatrix	0.006
	testByteArrayToDoubles	0.005
	testStringArrayToBytes	0.004
	testDoubleArrayToDelimitedStringConversionSpeed	0.009
	testStringArrayToTabbedBytes	0.005
	testObjectToBytes	0.007
	testBooleansToByteArray	0.006
	testByteArrayToLongs	0.006
	testByteArrayToDoubleMatrix	0.005

OntologySearchTest

	testPersistence	0.504
	testOmitDefinitions2	0.194
	testOmitDefinitions3	0.047
	testOmitDefinitions4	1.133
	testOmitBadPredicates2	0.063
	testOmitBadPredicates	2.095
	testIndexing	0.599
	testOmitDefinitions	0.06
	testStemming	0.379

RandomChooserTest

	testChooseRandomDeck	0.026
	testRepeatSubset	0.581
	testChooserandomInts	0.017
	testChooserandomWrep	0
	testRandomSubset	0.001
	testChooserandomInt	0.064
	testRepeat	0.962

TestSparseRaggedDouble2DNamedMatrixReader

	testReadStreamAdjList	0
	testReadInputStream	0
	testReadStreamAdjListBig	0.693

MatrixDisplayTest

	testWriteOutAsPNG2	0.531
	testWriteOutAsPNG	0.015
	testSaveImage	0.01
	testSaveImageStandardize	0.032

OntologyLoaderTest

	testCacheOntologyToDisk	0.227
	testHasChanged	0.008

TestStringUtil

	testTwoStringHashKey	0
	testCsvSplitA	0.024
	testCsvSplitB	0
	testCsvSplitC	0
	testCsvSplitD	0.001
	testCsvSplitE	0
	testCsvSplitF	0
	testTwoStringHashKeyB	0.001

TestDirectedGraph

	testDeleteLeaf1	0
	testDeleteLeafFail	0
	testGetChildren	0
	testToString	0
	testAddChild	0
	testTopoSort	0
	testAddParent	0
	testDeleteLeafNotLeaf	0
	testAddChildFail	0
	testAddParentFail	0
	testTreeView	0.032

MatrixWriterTest

	testWriteMatrixB	0.006
	testWriteMatrix	0.007
	testWrite3DMatrix	0.007

TestHistogramWriter

testWriter

0

UberonOntologySearchTest

	testScore	0.081
	testOmitDefinition	0.016

JRIClientTest

	testExec	0.019
	testListEvalA	0
	testListEvalB	0
	testExecError	0
	testDataFrameA	0
	testAssignAndRetrieveMatrix	0.001
	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	0.001
	testLinearModelD	0
	testStringListEvalB	0

OntologyTermTest

	testGetParentsHasProperPart	0.076
	testGetChildren	0.522
	testGetChildrenHasProperPart	0.023
	testGetParents	0.251
	testRejectNonEnglish	0.29

CompressedNamedBitMatrixTest

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

TestMeanDifferenceMetaAnalysis

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

FastRowAccessDoubleMatrixTest

	testConstructFromArray	0
	testSubsetRows	0
	testToArray	0
	testSortByColumnAbsoluteValue	0.005
	testGet	0.001
	testSet	0.002
	testRows2	0.001
	testCopy	0.002
	testGet2	0.002
	testRows	0.001
	testSet2	0.001
	testSize	0.002
	testToString	0.002
	testGetRowByNameFail	0.001
	testGetRowByNameNull	0.002
	testSetIntIntObject	0.002
	testGetRow2	0.001
	testSubsetColumns	0.002
	testViewRow	0.001
	testColumns	0.002
	testGetColRange	0.001
	testGetByKeys	0.002
	testGetColObj	0.001
	testGetColumn	0.002
	testIsMissing	0.003
	testViewColumn	0.001
	testGetColObj2	0.002
	testGetObject	0.001
	testGetRow	0.002
	testGetRowObj	0.001
	testGetRowRange	0.002
	testGetRowByName	0.001
	testIsMissing2	0.001
	testGetColByNameFail	0.002
	testGetColByNameNull	0.001
	testGetRowObj2	0.002
	testGetColByName	0.002
	testGetRowArrayList2	0.001
	testViewRow2	0.002

TestStringMatrixReader

	testReadInputStreamRowCount	0.002
	testReadInputStreamGotColName	0.001
	testReadInputStreamGotRowName	0.001
	testReadInputStreamColumnCount	0.001

BitUtilTest

	testGet	0
	testSet	0
	testClear	0
	testCount	0
	testToBool	0

HistogramTest

	testGetBiggestBinSize	0
	testGetApproximateQuantile	0

BatchIteratorTest

	testBatches	0.001
	testBatchIterator	0
	testConcurrentModificationException	0

DesignMatrixTest

	testInteractionC	0
	test2	0
	testA	0
	testB	0.002
	testInteractionAndRelevel	0.006

RServeClientTest

	testExec	0.308
	testListEvalA	0.304
	testListEvalB	0.307
	testExecError	0.307
	testDataFrameA	0.306
	testAssignAndRetrieveMatrix	0.306
	testAnovaA	0.306
	testAnovaB	0.308
	testAnovaC	0.307
	testAnovaD	0.306
	testAnovaE	0.306
	testAnovaF	0.351
	testLimmaA	0.306
	testExecDoubleArray	0.304
	testAssignAndRetrieveMatrixB	0.399
	testAssignAndRetrieveMatrixD	0.307
	testLinearModelA	0.307
	testLinearModelB	0.394
	testLinearModelC	0.304
	testLinearModelD	0.304
	testStringListEvalB	0.305

SparseRaggedDoubleMatrixTest

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

StringDistanceTest

	testWeightedHammingA	0
	testWeightedHammingB	0
	testWeightedHammingC	0
	testHammingDistance	0
	testBadMatch	0.004
	testEditDistanceA	0
	testEditDistanceB	0
	testEditDistanceC	0
	testEditDistanceD	0
	testEditDistanceE	0
	testEditDistanceF	0
	testEditDistanceG	0
	testEditDistanceH	0
	testWeightedSuffixHammingA	0
	testWeightedSuffixHammingB	0
	testWeightedSuffixHammingC	0.002

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

CorrelationStatsTest

	testSpearmanPvalueA	0
	testSpearmanPvalueB	0
	testSpearmanPvalueD	0
	testSpearmanPvalueE	0.013
	testSpearmanPvalueF	0
	testSpearmanPvalueG	0.061
	testCorrelationForPvalue	0.001
	testCorrelTooSmall	0
	testInverseFisherTransform	0
	testSpearmanPvalueTDist	0
	testCorrel	0
	testCorrelAsByte	0.001
	testPvalue	0
	testSpearmanPvalueA2	0
	testSpearmanPvalueD2	0
	testSpearmanPvalueEh	0.001
	testSpearmanPvalueEm	0.013
	testSpearmanPvalueG2	0

SingularValueDecompositionTest

testSingularValueDecomposition

0.098

TestDoubleMatrixReader

	testReadChooseRowsBadfileName	0
	testReadInputStreamMissingBad	0
	testReadInputStreamGotColNameSkipColumn	0
	testReadInputStreamRowCount	0
	testReadInputStreamGotColName	0
	testReadInputStreamGotRowName	0.002
	testSmallNumbers	0.051
	testReadInputStreamMissingSpaces	0.011
	testReadBad	0.001
	testBadFileName	0.001
	testReadChooseRowsSkipcols	0.002
	testReadBlankCorner	0.002
	testReadInputStreamMissing	0.002
	testReadChooseRows	0.001
	testReadInputStreamColumnCount	0.002

TestKSTest

	testKSTestTwoSample	0
	testKSTestOneSample	0

CompressedSparseDoubleMatrixTest

	testSubsetRows	0.012
	testToArray	0.004
	testSortByColumnAbsoluteValue	0.017
	testGet	0.004
	testSet	0.003
	testRows2	0.004
	testCopy	0.004
	testGet2	0.004
	testRows	0.003
	testSet2	0.003
	testSize	0.003
	testToString	0.004
	testGetRowByNameFail	0.004
	testGetRowByNameNull	0.003
	testSetIntIntObject	0.003
	testGetRow2	0.004
	testSubsetColumns	0.004
	testViewRow	0.004
	testColumns	0.003
	testGetColRange	0.003
	testGetByKeys	0.003
	testGetColObj	0.003
	testGetColumn	0.004
	testIsMissing	0.005
	testViewColumn	0.003
	testGetColObj2	0.003
	testGetObject	0.004
	testGetRow	0.003
	testGetRowObj	0.003
	testGetRowRange	0.003
	testGetRowByName	0.003
	testIsMissing2	0.004
	testGetColByNameFail	0.003
	testGetColByNameNull	0.002
	testGetRowObj2	0.002
	testGetColByName	0.001
	testGetRowArrayList2	0.002
	testViewRow2	0.003

NetUtilsTest

	testFtpFileSize	0.896
	testCheckForFile	0.727
	testFtpFileSizeDoesntExist	1.292
	testDownloadFile	0.965

NormalProbabilityComputerTest

	testProbabilityDoubleBoolean	0
	testProbabilityDoubleBooleanLower	0
	testInvalidVariance	0
	testProbabilityDouble	0

HistogramSamplerTest

testNextSample

0.029

TestSpecFunc

	testdBinom	0
	testCumHyperGeometricB	0
	testTrigammaInverse	0.019
	testCumHyperGeometric	0
	testTrigammaInverseB	0
	testHypergeometric	0
	testCumHyperGeometricUT	0

ConfigUtilsTest

	testLoadConfigURL	0.103
	testGetConfigBuilderFile	0.086
	testGetConfigBuilderString	0.003
	testGetConfigBuilderURLNew	0
	testGetConfigBuilderStringNew	0.001
	testLoadConfigString	0.002
	testLoadConfigURLNew	0.003
	testLoadConfigStringNewName	0.034
	testGetConfigBuilderURL	0.001
	testLoadConfigStringNew	0.001
	testLoadConfigFile	0.002
	testGetConfigBuilderFileNew	0.001
	testLoadConfigFileNew	0.001

DateUtilTest

	testgetRelative5yearsFromnow	0
	testRange	0.006
	testgetRelative5yearsago	0
	testgetRelativeTomorrow	0
	testgetRelativeDateDayago	0.001
	testRangeBad	0

PrecisionRecallTest

	testAveragePrecisionB	0
	testAveragePrecisionWithTie	0
	testAveragePrecisionNotInOrder	0
	testAveragePrecision	0
	testAveragePrecisionBNotInOrder	0

TestRowAffyNameFilter

	testStringFilter	0.002
	testFilter	0.004

PrettyPrinterTest

testPrintBeans

0

DenseDoubleMatrixTest

	testConstructFromArray	0
	testSubsetRows	0
	testToArray	0
	testSortByColumnAbsoluteValue	0.005
	testGet	0.002
	testSet	0.001
	testRows2	0.001
	testCopy	0.002
	testGet2	0.001
	testRows	0.002
	testSet2	0.001
	testSize	0.002
	testToString	0.001
	testGetRowByNameFail	0.002
	testGetRowByNameNull	0.001
	testSetIntIntObject	0.002
	testGetRow2	0.002
	testSubsetColumns	0.001
	testViewRow	0.001
	testColumns	0.001
	testGetColRange	0.002
	testGetByKeys	0.001
	testGetColObj	0.001
	testGetColumn	0.001
	testIsMissing	0.003
	testViewColumn	0.002
	testGetColObj2	0.001
	testGetObject	0.001
	testGetRow	0.002
	testGetRowObj	0.002
	testGetRowRange	0.001
	testGetRowByName	0.002
	testIsMissing2	0.001
	testGetColByNameFail	0.002
	testGetColByNameNull	0.001
	testGetRowObj2	0.002
	testGetColByName	0.001
	testGetRowArrayList2	0.002
	testViewRow2	0.001

TestCorrelationEffectMetaAnalysis

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

TestRowAbsentFilter

	testFilterKeepMarginal	0.003
	testFilterPresentCountInvalid	0.007
	testFilterWithMissing	0.007
	testFilterNullFlags	0.006
	testFilterWithMissingLessStringent	0.008
	testFilterFractionInvalid	0.006
	testFilterStringMatrix	0.009
	testFilterFraction	0.009
	testFilter	0.009

FileToolsTest

	testHasImageExtension	0
	testTestDir	0
	testGetWithoutExtension	0
	testGetLines	0.001
	testTouch	0.002
	testListDirectoryFiles	0.033
	testAddImageExtension	0.001
	testChangeExtension	0.001
	testDeleteFilesAndDir	0.005
	testCleanFileName	0.003
	testgetStringListFromFile	0.003
	testGetWithoutExtensionB	0.001
	testGetWithoutExtensionC	0.002
	testResourcetoPath	0.001
	testCleanFileNameErr	0.002
	testIsGZipped	0.003
	testUnGzipFile	0.002
	testCopyFileFailOnDirectoryOutput	0.001
	testTestFileString	0.002
	testGetCompressedFile	0.003
	testCopyFile	0.003
	testGetExtension	0.001
	testCheckPathIsReadableFile	0.001
	testIsZipped	0.001
	testAddDataExtension	0.001
	testGetCompressedFileZip	0.003
	testTestFileFile	0.002
	testCheckPathIsReadableFileNot	0.001
	testCopyFileFailOnDirectoryInput	0.002
	testGetInputStreamFromPlainOrCompressedFile	0.001
	testHasXMLExtension	0.002
	testUnzipFile	0.008

MultipleTestCorrectionTest

	testBenjaminiYekuteliCut	0.008
	testBenjaminiHochbergCut	0.018
	testBenjaminiHochberg	0.026
	testBenjaminiHochbergM	0.022
	testBonferroniCut	0.015

StringUtilTest

	testMakeRnames	0
	testCommonPrefixNone	0
	testCommonSuffixNone	0
	testCommonPrefix	0
	testCommonSuffix	0

TestWilcoxon

	testWilxcoxonPExactB	0
	testWilxcoxonPExactC	0.001
	testWilxcoxonPExactD	3.728
	testWilxcoxonPGaussB	0
	testBGaussian	0
	testFVolume	0.002
	testWilxcoxonPVolume	0.008
	testBig	0
	testWilxcoxonPGauss	0
	testWilcoxonPExactA	0
	testCGaussian	0
	testDVolume	0.002
	testAExact	0.024
	testWilxcoxonPWithTies	0
	testEVolume	0.001

RCDoubleMatrix1DTest

	testZSum	0
	testAssignAr	0
	testAssign	0

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
	testIsMissing	0
	testViewColumn	0
	testGetObject	0
	testGetRow	0
	testGetRowObj	0
	testGetRowRange	0.001
	testGetRowByName	0.001
	testGetColByName	0.001

ExcelUtilTest

	testGetSheetFromFile	0.515
	testGetSet	0.003
	testSetFormula	0.01

TestMatrixStats

	testRbfNormalize	0.005
	testSelfSquare	0.001
	testStandardize	0.002
	testCorrelationMatrix	0.004
	testMax	0.001
	testMin	0.001
	testNan	0
	testColSumsWithMissing	0.001
	testLogTransform	0.001
	testDoubleStandardize	0.009
	testCov2Cor	0.004
	testConvertToLog2Cpm	0.001
	testConvertLog	0.001
	testCountsPerMillionWithMissing	0.001
	testCorrelationMatrixThreshold	0.003

TestRowNameFilter

	testFilterString	0.001
	testFilterExclude	0.003
	testFilter	0.005
	testFilterStringExclude	0.006

DenseDouble3dMatrixTest

	testget	0
	testtostring	0.001
	testgetcolobj	0
	testgetrowobj	0

TestROC

	testBig	0.041
	testAroc	0
	testArocPvalue	0.004

TestMathUtil

	testMax	0
	testSumArray	0
	testFillRangeDown	0
	testFillRange	0
	testFillRangeNo	0

BinaryTreeTest

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

HistogramReaderTest

	testHistogramReaderIs	0
	testHistogramReaderString	0

TestMatrixRowStats

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

UniformDensityComputerTest

testDensity

0

TestWishart

testNextDoubleMatrix

0.005

TestMatrixNormalizer

	testQuantileNormalize	0.005
	testQuantileNormalizeWithMissing	0.003

TestItemLevelFilter

testFilter

0

LeastSquaresFitTest

	testTwoWayAnovaUnfittable	0.001
	testThreeWaySingular	0.085
	testEstrogen	4.504
	testVectorWeightedRegress	0.001
	testNHBE	5.738
	testLSFTwoLevels2	0.05
	testLSFTwoLevels3	0.04
	testSingular2	0.007
	testVectorWeightedRegressWithMissing	0.005
	testVectorRegress	0
	testLSFThreeLevelsOneContinuousWithMissing3	0.003
	testTwoWayAnovaWithInteractions	0.003
	testLSFTwoLevels	0.014
	testOneWayAnova	0.014
	testTwoWayTwoLevelsOneContinousInteractionC	0.007
	testLSFThreeLevelsOnecontinous2	0.006
	testMatrixWeightedRegress	0
	testSingular	0.014
	testLSFTwoLevelsOneContinuous	0.007
	testLSFOneContinuousWithMissing3	0.004

TestDescriptiveWithMissing

	testRankInterpolated	0
	testKurtosis	0.001
	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	0.001
	testDurbinWatson	0
	testMeanAboveQuantile	0
	testSumOfSquares	0
	testProduct	0
	testGeometricMean	0
	testMeanDoubleAr	0
	testSampleSkew	0
	testQuantile	0
	testQuantiles	0
	testSampleKurtosis	0.001
	testStandardizeNoVariance	0
	testDurbinWatsonTwo	0
	testKurtosisList	0
	testSumOfSquaredDeviations	0
	testMeanEff	0
	testSumOfPowers	0.001
	testSampleVariance	0
	testWeightedMean	0
	testCovariance	0
	testMedian	0
	testTrimmedMean	0
	testDurbinWatsonShort	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.

MetaAnalysisTest

	testFisherCombinePvaluesB	0
	testFisherCombinePvalues	0

TestRowLevelFilter

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

StringToStringSetMapTest

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

ParameterKeeperTest

test

0.084

QRDecompositionTest

	testScaledDesign	0
	testSingular2	0
	test1	0
	test3	0.004
	test2NoPivoting	0

TestSparseDoubleMatrixReader

	testReadStream	0
	testReadJW	0.004

StringMatrixTest

	testToString	0
	testSubsetColumns	0
	testGetColObj	0
	testSubset	0

KruskalWallisTest

testKW

0

JenaUtilsTest

testInferenceCapabilities

0.16

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

MatrixUtilTest

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

CountingMapTest

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

DoubleAddingMapTest

test

0

SQLUtilsTest

testBlobToString

0

ModeratedTstatTest

	testLimmaMissing	0.154
	testFdist	0.001
	testLimma	0.061
	testSqueezeVarB	0.186
	testSqueezeVar	0.001
	testSqueezeVarWMissing	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	0.001

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.