├── .github ├── build.sh ├── setup.sh └── workflows │ ├── build-main.yml │ └── build-pr.yml ├── .gitignore ├── .mailmap ├── LICENSE.txt ├── README.md ├── images ├── composite.png ├── gradient.png ├── readme.txt └── sinusoid.png ├── pom.xml ├── src ├── main │ ├── groovy │ │ └── generate.groovy │ ├── java │ │ └── net │ │ │ └── imagej │ │ │ └── ops │ │ │ ├── AbstractNamespace.java │ │ │ ├── AbstractOp.java │ │ │ ├── Contingent.java │ │ │ ├── CustomOpEnvironment.java │ │ │ ├── DefaultNamespaceService.java │ │ │ ├── DefaultOpMatchingService.java │ │ │ ├── DefaultOpService.java │ │ │ ├── Environmental.java │ │ │ ├── Initializable.java │ │ │ ├── Main.java │ │ │ ├── MetadataUtil.java │ │ │ ├── Namespace.java │ │ │ ├── NamespacePreprocessor.java │ │ │ ├── NamespaceService.java │ │ │ ├── Op.java │ │ │ ├── OpCandidate.java │ │ │ ├── OpEnvironment.java │ │ │ ├── OpEnvironmentPreprocessor.java │ │ │ ├── OpInfo.java │ │ │ ├── OpListing.java │ │ │ ├── OpListingInfo.java │ │ │ ├── OpListingModule.java │ │ │ ├── OpMatchingService.java │ │ │ ├── OpMatchingUtil.java │ │ │ ├── OpMethod.java │ │ │ ├── OpRef.java │ │ │ ├── OpService.java │ │ │ ├── OpUtils.java │ │ │ ├── Parallel.java │ │ │ ├── Threadable.java │ │ │ ├── bufferfactories │ │ │ ├── ImgImgFactory.java │ │ │ ├── ImgImgSameTypeFactory.java │ │ │ └── LabelingLabelingFactory.java │ │ │ ├── cached │ │ │ └── CachedOpEnvironment.java │ │ │ ├── coloc │ │ │ ├── ColocNamespace.java │ │ │ ├── ColocUtil.java │ │ │ ├── IntArraySorter.java │ │ │ ├── IntComparator.java │ │ │ ├── MergeSort.java │ │ │ ├── ShuffledView.java │ │ │ ├── icq │ │ │ │ └── LiICQ.java │ │ │ ├── kendallTau │ │ │ │ └── KendallTauBRank.java │ │ │ ├── maxTKendallTau │ │ │ │ └── MTKT.java │ │ │ ├── pValue │ │ │ │ ├── DefaultPValue.java │ │ │ │ └── PValueResult.java │ │ │ └── pearsons │ │ │ │ └── DefaultPearsons.java │ │ │ ├── commands │ │ │ ├── coloc │ │ │ │ └── Colocalize.java │ │ │ ├── convert │ │ │ │ └── ConvertImgPlus.java │ │ │ ├── convolve │ │ │ │ └── Convolve.java │ │ │ ├── filter │ │ │ │ └── FrangiVesselness.java │ │ │ ├── morphology │ │ │ │ └── FillHoles.java │ │ │ ├── project │ │ │ │ ├── ProjectCommand.java │ │ │ │ └── ProjectMethod.java │ │ │ └── threshold │ │ │ │ └── GlobalThresholder.java │ │ │ ├── convert │ │ │ ├── ConvertNamespace.java │ │ │ ├── ConvertTypes.java │ │ │ ├── RealTypeConverter.java │ │ │ ├── Types.java │ │ │ ├── clip │ │ │ │ └── ClipRealTypes.java │ │ │ ├── copy │ │ │ │ └── CopyRealTypes.java │ │ │ ├── imageType │ │ │ │ └── ConvertIIs.java │ │ │ ├── normalizeScale │ │ │ │ └── NormalizeScaleRealTypes.java │ │ │ └── scale │ │ │ │ └── ScaleRealTypes.java │ │ │ ├── copy │ │ │ ├── CopyArrayImg.java │ │ │ ├── CopyBooleanType.java │ │ │ ├── CopyII.java │ │ │ ├── CopyImg.java │ │ │ ├── CopyImgLabeling.java │ │ │ ├── CopyLabelingMapping.java │ │ │ ├── CopyNamespace.java │ │ │ ├── CopyRAI.java │ │ │ └── CopyType.java │ │ │ ├── create │ │ │ ├── CreateNamespace.java │ │ │ ├── img │ │ │ │ ├── CreateImgFromDimsAndType.java │ │ │ │ ├── CreateImgFromII.java │ │ │ │ ├── CreateImgFromImg.java │ │ │ │ ├── CreateImgFromInterval.java │ │ │ │ ├── CreateImgFromRAI.java │ │ │ │ └── Imgs.java │ │ │ ├── imgFactory │ │ │ │ ├── CreateImgFactoryFromImg.java │ │ │ │ └── DefaultCreateImgFactory.java │ │ │ ├── imgLabeling │ │ │ │ ├── CreateImgLabelingFromInterval.java │ │ │ │ └── DefaultCreateImgLabeling.java │ │ │ ├── imgPlus │ │ │ │ └── DefaultCreateImgPlus.java │ │ │ ├── integerType │ │ │ │ └── DefaultCreateIntegerType.java │ │ │ ├── kernel │ │ │ │ └── CreateKernel2D.java │ │ │ ├── kernelBiGauss │ │ │ │ ├── CreateKernel2ndDerivBiGaussDoubleType.java │ │ │ │ ├── CreateKernelBiGaussDoubleType.java │ │ │ │ ├── DefaultCreateKernel2ndDerivBiGauss.java │ │ │ │ └── DefaultCreateKernelBiGauss.java │ │ │ ├── kernelDiffraction │ │ │ │ └── DefaultCreateKernelGibsonLanni.java │ │ │ ├── kernelGabor │ │ │ │ ├── CreateKernelGaborComplexDoubleType.java │ │ │ │ ├── CreateKernelGaborDoubleType.java │ │ │ │ ├── CreateKernelGaborIsotropic.java │ │ │ │ ├── CreateKernelGaborIsotropicComplexDoubleType.java │ │ │ │ ├── CreateKernelGaborIsotropicDoubleType.java │ │ │ │ └── DefaultCreateKernelGabor.java │ │ │ ├── kernelGauss │ │ │ │ ├── CreateKernelGaussDoubleType.java │ │ │ │ ├── CreateKernelGaussSymmetric.java │ │ │ │ ├── CreateKernelGaussSymmetricDoubleType.java │ │ │ │ └── DefaultCreateKernelGauss.java │ │ │ ├── kernelLog │ │ │ │ ├── CreateKernelLogDoubleType.java │ │ │ │ ├── CreateKernelLogSymmetric.java │ │ │ │ ├── CreateKernelLogSymmetricDoubleType.java │ │ │ │ └── DefaultCreateKernelLog.java │ │ │ ├── kernelSobel │ │ │ │ └── CreateKernelSobel.java │ │ │ ├── labelingMapping │ │ │ │ └── DefaultCreateLabelingMapping.java │ │ │ ├── nativeType │ │ │ │ ├── CreateNativeTypeFromClass.java │ │ │ │ └── DefaultCreateNativeType.java │ │ │ └── object │ │ │ │ └── CreateObjectFromClass.java │ │ │ ├── deconvolve │ │ │ ├── DeconvolveNamespace.java │ │ │ ├── NonCirculantFirstGuess.java │ │ │ ├── NonCirculantNormalizationFactor.java │ │ │ ├── PadAndRichardsonLucy.java │ │ │ ├── PadAndRichardsonLucyTV.java │ │ │ ├── RichardsonLucyC.java │ │ │ ├── RichardsonLucyCorrection.java │ │ │ ├── RichardsonLucyTVUpdate.java │ │ │ ├── RichardsonLucyUpdate.java │ │ │ └── accelerate │ │ │ │ └── VectorAccelerator.java │ │ │ ├── eval │ │ │ ├── DefaultEval.java │ │ │ └── OpEvaluator.java │ │ │ ├── features │ │ │ ├── haralick │ │ │ │ ├── AbstractHaralickFeature.java │ │ │ │ ├── DefaultASM.java │ │ │ │ ├── DefaultClusterPromenence.java │ │ │ │ ├── DefaultClusterShade.java │ │ │ │ ├── DefaultContrast.java │ │ │ │ ├── DefaultCorrelation.java │ │ │ │ ├── DefaultDifferenceEntropy.java │ │ │ │ ├── DefaultDifferenceVariance.java │ │ │ │ ├── DefaultEntropy.java │ │ │ │ ├── DefaultICM1.java │ │ │ │ ├── DefaultICM2.java │ │ │ │ ├── DefaultIFDM.java │ │ │ │ ├── DefaultMaxProbability.java │ │ │ │ ├── DefaultSumAverage.java │ │ │ │ ├── DefaultSumEntropy.java │ │ │ │ ├── DefaultSumVariance.java │ │ │ │ ├── DefaultTextureHomogeneity.java │ │ │ │ ├── DefaultVariance.java │ │ │ │ ├── HaralickFeature.java │ │ │ │ ├── HaralickNamespace.java │ │ │ │ └── helper │ │ │ │ │ ├── CoocHXY.java │ │ │ │ │ ├── CoocMeanX.java │ │ │ │ │ ├── CoocMeanY.java │ │ │ │ │ ├── CoocPX.java │ │ │ │ │ ├── CoocPXMinusY.java │ │ │ │ │ ├── CoocPXPlusY.java │ │ │ │ │ ├── CoocPY.java │ │ │ │ │ ├── CoocStdX.java │ │ │ │ │ └── CoocStdY.java │ │ │ ├── hog │ │ │ │ ├── HistogramOfOrientedGradients2D.java │ │ │ │ └── HogNamespace.java │ │ │ ├── lbp2d │ │ │ │ ├── AbstractLBP2DFeature.java │ │ │ │ ├── DefaultLBP2D.java │ │ │ │ ├── LBP2DFeature.java │ │ │ │ └── LBPNamespace.java │ │ │ ├── tamura2d │ │ │ │ ├── AbstractTamuraFeature.java │ │ │ │ ├── DefaultCoarsenessFeature.java │ │ │ │ ├── DefaultContrastFeature.java │ │ │ │ ├── DefaultDirectionalityFeature.java │ │ │ │ ├── TamuraFeature.java │ │ │ │ └── TamuraNamespace.java │ │ │ └── zernike │ │ │ │ ├── AbstractZernikeFeature.java │ │ │ │ ├── DefaultMagnitudeFeature.java │ │ │ │ ├── DefaultPhaseFeature.java │ │ │ │ ├── ZernikeFeature.java │ │ │ │ ├── ZernikeNamespace.java │ │ │ │ └── helper │ │ │ │ ├── Polynom.java │ │ │ │ ├── ZernikeComputer.java │ │ │ │ └── ZernikeMoment.java │ │ │ ├── filter │ │ │ ├── AbstractCenterAwareNeighborhoodBasedFilter.java │ │ │ ├── AbstractFFTFilterC.java │ │ │ ├── AbstractIterativeFFTFilterC.java │ │ │ ├── AbstractNeighborhoodBasedFilter.java │ │ │ ├── AbstractPadAndFFTFilter.java │ │ │ ├── FFTMethodsLinearFFTFilterC.java │ │ │ ├── FilterNamespace.java │ │ │ ├── addNoise │ │ │ │ ├── AddNoiseRealType.java │ │ │ │ └── AddNoiseRealTypeCFI.java │ │ │ ├── addPoissonNoise │ │ │ │ ├── AddPoissonNoiseMap.java │ │ │ │ └── AddPoissonNoiseRealType.java │ │ │ ├── bilateral │ │ │ │ └── DefaultBilateral.java │ │ │ ├── convolve │ │ │ │ ├── ConvolveFFTC.java │ │ │ │ ├── ConvolveNaiveC.java │ │ │ │ ├── ConvolveNaiveF.java │ │ │ │ ├── PadAndConvolveFFT.java │ │ │ │ └── PadAndConvolveFFTF.java │ │ │ ├── correlate │ │ │ │ ├── CorrelateFFTC.java │ │ │ │ └── PadAndCorrelateFFT.java │ │ │ ├── derivative │ │ │ │ ├── PartialDerivativeRAI.java │ │ │ │ └── PartialDerivativesRAI.java │ │ │ ├── derivativeGauss │ │ │ │ └── DefaultDerivativeGauss.java │ │ │ ├── dog │ │ │ │ ├── DefaultDoG.java │ │ │ │ ├── DoGSingleSigmas.java │ │ │ │ └── DoGVaryingSigmas.java │ │ │ ├── fft │ │ │ │ ├── CreateOutputFFTMethods.java │ │ │ │ ├── FFTMethodsOpC.java │ │ │ │ ├── FFTMethodsOpF.java │ │ │ │ └── FFTMethodsUtility.java │ │ │ ├── fftSize │ │ │ │ ├── ComputeFFTMethodsSize.java │ │ │ │ ├── DefaultComputeFFTSize.java │ │ │ │ ├── NextPowerOfTwo.java │ │ │ │ └── NextSmoothNumber.java │ │ │ ├── findEdges │ │ │ │ └── DefaultFindEdges.java │ │ │ ├── gauss │ │ │ │ ├── DefaultGaussRA.java │ │ │ │ ├── DefaultGaussRAI.java │ │ │ │ └── GaussRAISingleSigma.java │ │ │ ├── hessian │ │ │ │ └── HessianRAI.java │ │ │ ├── ifft │ │ │ │ ├── IFFTMethodsOpC.java │ │ │ │ └── IFFTMethodsOpI.java │ │ │ ├── max │ │ │ │ ├── DefaultMaxFilter.java │ │ │ │ └── MaxFilterOp.java │ │ │ ├── mean │ │ │ │ ├── DefaultMeanFilter.java │ │ │ │ └── MeanFilterOp.java │ │ │ ├── median │ │ │ │ ├── DefaultMedianFilter.java │ │ │ │ └── MedianFilterOp.java │ │ │ ├── min │ │ │ │ ├── DefaultMinFilter.java │ │ │ │ └── MinFilterOp.java │ │ │ ├── pad │ │ │ │ ├── DefaultPadInputFFT.java │ │ │ │ ├── DefaultPadShiftKernelFFT.java │ │ │ │ ├── PadInput.java │ │ │ │ ├── PadInputFFT.java │ │ │ │ ├── PadInputFFTMethods.java │ │ │ │ ├── PadShiftKernel.java │ │ │ │ ├── PadShiftKernelFFTMethods.java │ │ │ │ ├── PaddingIntervalCentered.java │ │ │ │ └── PaddingIntervalOrigin.java │ │ │ ├── sigma │ │ │ │ ├── DefaultSigmaFilter.java │ │ │ │ └── SigmaFilterOp.java │ │ │ ├── sobel │ │ │ │ └── SobelRAI.java │ │ │ ├── tubeness │ │ │ │ └── DefaultTubeness.java │ │ │ ├── variance │ │ │ │ ├── DefaultVarianceFilter.java │ │ │ │ └── VarianceFilterOp.java │ │ │ └── vesselness │ │ │ │ └── DefaultFrangi.java │ │ │ ├── geom │ │ │ ├── AbstractBoundarySizeConvexHull.java │ │ │ ├── AbstractBoxivity.java │ │ │ ├── AbstractConvexity.java │ │ │ ├── AbstractSizeConvexHull.java │ │ │ ├── AbstractSolidity.java │ │ │ ├── CentroidII.java │ │ │ ├── CentroidLabelRegion.java │ │ │ ├── CentroidMesh.java │ │ │ ├── CentroidPolygon.java │ │ │ ├── DefaultCenterOfGravity.java │ │ │ ├── GeomNamespace.java │ │ │ ├── GeomUtils.java │ │ │ ├── GeometricOp.java │ │ │ ├── SizeII.java │ │ │ ├── geom2d │ │ │ │ ├── DefaultBoundarySizeConvexHullPolygon.java │ │ │ │ ├── DefaultBoundingBox.java │ │ │ │ ├── DefaultBoxivityPolygon.java │ │ │ │ ├── DefaultCircularity.java │ │ │ │ ├── DefaultContour.java │ │ │ │ ├── DefaultConvexHull2D.java │ │ │ │ ├── DefaultConvexityPolygon.java │ │ │ │ ├── DefaultEccentricity.java │ │ │ │ ├── DefaultElongation.java │ │ │ │ ├── DefaultFeretsAngle.java │ │ │ │ ├── DefaultFeretsDiameter.java │ │ │ │ ├── DefaultFeretsDiameterForAngle.java │ │ │ │ ├── DefaultMajorAxis.java │ │ │ │ ├── DefaultMaximumFeret.java │ │ │ │ ├── DefaultMaximumFeretAngle.java │ │ │ │ ├── DefaultMaximumFeretDiameter.java │ │ │ │ ├── DefaultMinimumFeret.java │ │ │ │ ├── DefaultMinimumFeretAngle.java │ │ │ │ ├── DefaultMinimumFeretDiameter.java │ │ │ │ ├── DefaultMinorAxis.java │ │ │ │ ├── DefaultMinorMajorAxis.java │ │ │ │ ├── DefaultPerimeterLength.java │ │ │ │ ├── DefaultRoundness.java │ │ │ │ ├── DefaultSizeConvexHullPolygon.java │ │ │ │ ├── DefaultSizePolygon.java │ │ │ │ ├── DefaultSmallestEnclosingRectangle.java │ │ │ │ ├── DefaultSolidityPolygon.java │ │ │ │ ├── DefaultVerticesCountConvexHullPolygon.java │ │ │ │ ├── DefaultVerticesCountPolygon.java │ │ │ │ └── LabelRegionToPolygonConverter.java │ │ │ └── geom3d │ │ │ │ ├── DefaultBoxivityMesh.java │ │ │ │ ├── DefaultCompactness.java │ │ │ │ ├── DefaultConvexHull3D.java │ │ │ │ ├── DefaultConvexityMesh.java │ │ │ │ ├── DefaultInertiaTensor3D.java │ │ │ │ ├── DefaultInertiaTensor3DMesh.java │ │ │ │ ├── DefaultMainElongation.java │ │ │ │ ├── DefaultMarchingCubes.java │ │ │ │ ├── DefaultMedianElongation.java │ │ │ │ ├── DefaultSolidityMesh.java │ │ │ │ ├── DefaultSparenessMesh.java │ │ │ │ ├── DefaultSphericity.java │ │ │ │ ├── DefaultSurfaceArea.java │ │ │ │ ├── DefaultSurfaceAreaConvexHullMesh.java │ │ │ │ ├── DefaultVerticesCountConvexHullMesh.java │ │ │ │ ├── DefaultVerticesCountMesh.java │ │ │ │ ├── DefaultVolumeConvexHullMesh.java │ │ │ │ ├── DefaultVolumeMesh.java │ │ │ │ ├── DefaultVoxelization3D.java │ │ │ │ └── mesh │ │ │ │ ├── AbstractVertexInterpolator.java │ │ │ │ ├── BitTypeVertexInterpolator.java │ │ │ │ ├── DefaultSmallestOrientedBoundingBox.java │ │ │ │ ├── DefaultVertexInterpolator.java │ │ │ │ ├── Facet.java │ │ │ │ ├── Horizon.java │ │ │ │ ├── RAIToMeshConverter.java │ │ │ │ ├── TriangularFacet.java │ │ │ │ ├── UpdateablePointSet.java │ │ │ │ ├── Vertex.java │ │ │ │ └── VertexInterpolator.java │ │ │ ├── help │ │ │ ├── AbstractHelp.java │ │ │ ├── HelpCandidates.java │ │ │ ├── HelpForNamespace.java │ │ │ └── HelpForOp.java │ │ │ ├── identity │ │ │ ├── AbstractIdentity.java │ │ │ ├── DefaultIdentity.java │ │ │ └── IdentityOp.java │ │ │ ├── image │ │ │ ├── ImageNamespace.java │ │ │ ├── ascii │ │ │ │ └── DefaultASCII.java │ │ │ ├── cooccurrenceMatrix │ │ │ │ ├── CooccurrenceMatrix2D.java │ │ │ │ ├── CooccurrenceMatrix3D.java │ │ │ │ ├── MatrixOrientation.java │ │ │ │ ├── MatrixOrientation2D.java │ │ │ │ └── MatrixOrientation3D.java │ │ │ ├── distancetransform │ │ │ │ ├── DefaultDistanceTransform.java │ │ │ │ ├── DefaultDistanceTransformCalibration.java │ │ │ │ ├── DistanceTransform2D.java │ │ │ │ ├── DistanceTransform2DCalibration.java │ │ │ │ ├── DistanceTransform3D.java │ │ │ │ └── DistanceTransform3DCalibration.java │ │ │ ├── equation │ │ │ │ ├── CoordinatesEquationOp.java │ │ │ │ ├── DefaultCoordinatesEquation.java │ │ │ │ ├── DefaultEquation.java │ │ │ │ ├── DefaultXYEquation.java │ │ │ │ ├── DoubleBinaryEquationOp.java │ │ │ │ └── EquationOp.java │ │ │ ├── fill │ │ │ │ └── DefaultFill.java │ │ │ ├── histogram │ │ │ │ └── HistogramCreate.java │ │ │ ├── integral │ │ │ │ ├── AbstractIntegralImg.java │ │ │ │ ├── DefaultIntegralImg.java │ │ │ │ ├── IntegralAdd.java │ │ │ │ ├── IntegralCursor.java │ │ │ │ ├── IntegralSquareAndAdd.java │ │ │ │ ├── SquareIntegralImg.java │ │ │ │ └── WrappedIntegralImg.java │ │ │ ├── invert │ │ │ │ ├── InvertII.java │ │ │ │ └── InvertIIInteger.java │ │ │ ├── normalize │ │ │ │ ├── NormalizeIIComputer.java │ │ │ │ ├── NormalizeIIFunction.java │ │ │ │ └── NormalizeRealTypeComputer.java │ │ │ └── watershed │ │ │ │ ├── Watershed.java │ │ │ │ ├── WatershedBinary.java │ │ │ │ ├── WatershedBinarySingleSigma.java │ │ │ │ └── WatershedSeeded.java │ │ │ ├── imagemoments │ │ │ ├── AbstractImageMomentOp.java │ │ │ ├── ImageMomentOp.java │ │ │ ├── ImageMomentsNamespace.java │ │ │ ├── centralmoments │ │ │ │ ├── DefaultCentralMoment00.java │ │ │ │ ├── DefaultCentralMoment01.java │ │ │ │ ├── DefaultCentralMoment02.java │ │ │ │ ├── DefaultCentralMoment03.java │ │ │ │ ├── DefaultCentralMoment10.java │ │ │ │ ├── DefaultCentralMoment11.java │ │ │ │ ├── DefaultCentralMoment12.java │ │ │ │ ├── DefaultCentralMoment20.java │ │ │ │ ├── DefaultCentralMoment21.java │ │ │ │ ├── DefaultCentralMoment30.java │ │ │ │ ├── IterableCentralMoment00.java │ │ │ │ └── IterableCentralMoment11.java │ │ │ ├── hu │ │ │ │ ├── DefaultHuMoment1.java │ │ │ │ ├── DefaultHuMoment2.java │ │ │ │ ├── DefaultHuMoment3.java │ │ │ │ ├── DefaultHuMoment4.java │ │ │ │ ├── DefaultHuMoment5.java │ │ │ │ ├── DefaultHuMoment6.java │ │ │ │ └── DefaultHuMoment7.java │ │ │ ├── moments │ │ │ │ ├── DefaultMoment00.java │ │ │ │ ├── DefaultMoment01.java │ │ │ │ ├── DefaultMoment10.java │ │ │ │ └── DefaultMoment11.java │ │ │ └── normalizedcentralmoments │ │ │ │ ├── DefaultNormalizedCentralMoment02.java │ │ │ │ ├── DefaultNormalizedCentralMoment03.java │ │ │ │ ├── DefaultNormalizedCentralMoment11.java │ │ │ │ ├── DefaultNormalizedCentralMoment12.java │ │ │ │ ├── DefaultNormalizedCentralMoment20.java │ │ │ │ ├── DefaultNormalizedCentralMoment21.java │ │ │ │ └── DefaultNormalizedCentralMoment30.java │ │ │ ├── join │ │ │ ├── BufferFactory.java │ │ │ ├── DefaultJoin2Computers.java │ │ │ ├── DefaultJoin2Inplaces.java │ │ │ ├── DefaultJoinComputerAndInplace.java │ │ │ ├── DefaultJoinInplaceAndComputer.java │ │ │ ├── DefaultJoinNComputers.java │ │ │ ├── DefaultJoinNInplaces.java │ │ │ ├── Join2Computers.java │ │ │ ├── Join2Inplaces.java │ │ │ ├── Join2Ops.java │ │ │ ├── JoinComputerAndInplace.java │ │ │ ├── JoinInplaceAndComputer.java │ │ │ ├── JoinNComputers.java │ │ │ ├── JoinNInplaces.java │ │ │ └── JoinNOps.java │ │ │ ├── labeling │ │ │ ├── LabelingNamespace.java │ │ │ ├── MergeLabeling.java │ │ │ └── cca │ │ │ │ └── DefaultCCA.java │ │ │ ├── linalg │ │ │ ├── LinAlgNamespace.java │ │ │ └── rotate │ │ │ │ ├── Rotate3d.java │ │ │ │ └── Rotate3f.java │ │ │ ├── logic │ │ │ ├── BooleanTypeLogic.java │ │ │ ├── Default.java │ │ │ ├── If.java │ │ │ └── LogicNamespace.java │ │ │ ├── lookup │ │ │ ├── LookupByName.java │ │ │ └── LookupByType.java │ │ │ ├── loop │ │ │ ├── DefaultLoopComputer.java │ │ │ ├── DefaultLoopInplace.java │ │ │ ├── LoopComputer.java │ │ │ ├── LoopInplace.java │ │ │ └── LoopOp.java │ │ │ ├── map │ │ │ ├── AbstractMapBinaryComputer.java │ │ │ ├── AbstractMapBinaryInplace.java │ │ │ ├── AbstractMapBinaryInplace1.java │ │ │ ├── AbstractMapComputer.java │ │ │ ├── AbstractMapInplace.java │ │ │ ├── AbstractMapIterableInplace.java │ │ │ ├── AbstractMapNullaryComputer.java │ │ │ ├── AbstractMapView.java │ │ │ ├── MapBinaryComputer.java │ │ │ ├── MapBinaryInplace.java │ │ │ ├── MapBinaryInplace1.java │ │ │ ├── MapIIAndIIInplace.java │ │ │ ├── MapIIAndIIInplaceParallel.java │ │ │ ├── MapIIInplaceParallel.java │ │ │ ├── MapInplace.java │ │ │ ├── MapIterableInplace.java │ │ │ ├── MapIterableToIterable.java │ │ │ ├── MapNullaryComputer.java │ │ │ ├── MapNullaryII.java │ │ │ ├── MapNullaryIterable.java │ │ │ ├── MapOp.java │ │ │ ├── MapUnaryComputer.java │ │ │ ├── MapView.java │ │ │ ├── MapViewIIToII.java │ │ │ ├── MapViewRAIToRAI.java │ │ │ ├── MapViewRandomAccessToRandomAccess.java │ │ │ ├── Maps.java │ │ │ └── neighborhood │ │ │ │ ├── AbstractCenterAwareComputerOp.java │ │ │ │ ├── AbstractMapNeighborhood.java │ │ │ │ ├── CenterAwareComputerOp.java │ │ │ │ ├── CenterAwareIntegralComputerOp.java │ │ │ │ ├── DefaultMapNeighborhood.java │ │ │ │ ├── MapNeighborhood.java │ │ │ │ └── MapNeighborhoodWithCenter.java │ │ │ ├── math │ │ │ ├── BinaryRealTypeMath.java │ │ │ ├── MathNamespace.java │ │ │ ├── NullaryNumericTypeMath.java │ │ │ ├── UnaryRealTypeMath.java │ │ │ └── multiply │ │ │ │ ├── ComplexConjugateMultiplyMap.java │ │ │ │ └── ComplexConjugateMultiplyOp.java │ │ │ ├── morphology │ │ │ ├── Morphologies.java │ │ │ ├── MorphologyNamespace.java │ │ │ ├── blackTopHat │ │ │ │ └── ListBlackTopHat.java │ │ │ ├── close │ │ │ │ └── ListClose.java │ │ │ ├── dilate │ │ │ │ ├── DefaultDilate.java │ │ │ │ └── ListDilate.java │ │ │ ├── erode │ │ │ │ ├── DefaultErode.java │ │ │ │ └── ListErode.java │ │ │ ├── extractHoles │ │ │ │ ├── DefaultExtractHolesComputer.java │ │ │ │ └── DefaultExtractHolesFunction.java │ │ │ ├── fillHoles │ │ │ │ └── DefaultFillHoles.java │ │ │ ├── floodFill │ │ │ │ └── DefaultFloodFill.java │ │ │ ├── open │ │ │ │ └── ListOpen.java │ │ │ ├── outline │ │ │ │ └── Outline.java │ │ │ ├── thin │ │ │ │ ├── Abstract3x3NeighbourhoodThinning.java │ │ │ │ ├── AbstractThin.java │ │ │ │ ├── GuoHallThinningStrategy.java │ │ │ │ ├── HilditchThinningStrategy.java │ │ │ │ ├── MorphologicalThinningStrategy.java │ │ │ │ ├── ThinGuoHall.java │ │ │ │ ├── ThinHilditch.java │ │ │ │ ├── ThinMorphological.java │ │ │ │ ├── ThinZhangSuen.java │ │ │ │ ├── ThinningStrategy.java │ │ │ │ └── ZhangSuenThinningStrategy.java │ │ │ └── topHat │ │ │ │ └── ListTopHat.java │ │ │ ├── run │ │ │ ├── RunByName.java │ │ │ ├── RunByOp.java │ │ │ └── RunByType.java │ │ │ ├── search │ │ │ ├── OpSearchResult.java │ │ │ ├── OpSearcher.java │ │ │ └── RunOpSearchActionFactory.java │ │ │ ├── segment │ │ │ ├── SegmentNamespace.java │ │ │ ├── detectJunctions │ │ │ │ └── DefaultDetectJunctions.java │ │ │ └── detectRidges │ │ │ │ ├── DefaultDetectRidges.java │ │ │ │ ├── RidgeDetectionMetadata.java │ │ │ │ └── RidgeDetectionUtils.java │ │ │ ├── slice │ │ │ ├── SliceOp.java │ │ │ ├── SliceRAI2RAI.java │ │ │ ├── SliceUtils.java │ │ │ └── SlicesII.java │ │ │ ├── special │ │ │ ├── AbstractBinaryOp.java │ │ │ ├── AbstractNullaryOp.java │ │ │ ├── AbstractUnaryOp.java │ │ │ ├── BinaryInput.java │ │ │ ├── BinaryOp.java │ │ │ ├── BinaryOutputFactory.java │ │ │ ├── NullaryOp.java │ │ │ ├── NullaryOutputFactory.java │ │ │ ├── Output.java │ │ │ ├── OutputMutable.java │ │ │ ├── SpecialOp.java │ │ │ ├── UnaryInput.java │ │ │ ├── UnaryOp.java │ │ │ ├── UnaryOutputFactory.java │ │ │ ├── chain │ │ │ │ ├── BCViaBC.java │ │ │ │ ├── BCViaBCAllSame.java │ │ │ │ ├── BCViaBCSameIO.java │ │ │ │ ├── BFViaBC.java │ │ │ │ ├── BFViaBCAllSame.java │ │ │ │ ├── BFViaBCSameIO.java │ │ │ │ ├── BFViaBF.java │ │ │ │ ├── BFViaBFAllSame.java │ │ │ │ ├── BFViaBFSameIO.java │ │ │ │ ├── BHCFViaBC.java │ │ │ │ ├── BHCFViaBCAllSame.java │ │ │ │ ├── BHCFViaBCSameIO.java │ │ │ │ ├── BHCFViaBHCF.java │ │ │ │ ├── BHCFViaBHCFAllSame.java │ │ │ │ ├── BHCFViaBHCFSameIO.java │ │ │ │ ├── BIOViaBI.java │ │ │ │ ├── BIOViaBISame.java │ │ │ │ ├── DelegatingBinaryOp.java │ │ │ │ ├── DelegatingUnaryOp.java │ │ │ │ ├── IIs.java │ │ │ │ ├── RAIs.java │ │ │ │ ├── RTs.java │ │ │ │ ├── UCViaUC.java │ │ │ │ ├── UCViaUCAllSame.java │ │ │ │ ├── UCViaUCSameIO.java │ │ │ │ ├── UFViaUC.java │ │ │ │ ├── UFViaUCAllSame.java │ │ │ │ ├── UFViaUCSameIO.java │ │ │ │ ├── UFViaUF.java │ │ │ │ ├── UFViaUFAllSame.java │ │ │ │ ├── UFViaUFSameIO.java │ │ │ │ ├── UHCFViaUC.java │ │ │ │ ├── UHCFViaUCAllSame.java │ │ │ │ ├── UHCFViaUCSameIO.java │ │ │ │ ├── UHCFViaUHCF.java │ │ │ │ ├── UHCFViaUHCFAllSame.java │ │ │ │ ├── UHCFViaUHCFSameIO.java │ │ │ │ ├── UIOViaUI.java │ │ │ │ └── UIOViaUISame.java │ │ │ ├── computer │ │ │ │ ├── AbstractBinaryComputerOp.java │ │ │ │ ├── AbstractNullaryComputerOp.java │ │ │ │ ├── AbstractUnaryComputerOp.java │ │ │ │ ├── BinaryComputerOp.java │ │ │ │ ├── ComputerConverter.java │ │ │ │ ├── Computers.java │ │ │ │ ├── NullaryComputerOp.java │ │ │ │ └── UnaryComputerOp.java │ │ │ ├── function │ │ │ │ ├── AbstractBinaryFunctionOp.java │ │ │ │ ├── AbstractNullaryFunctionOp.java │ │ │ │ ├── AbstractUnaryFunctionOp.java │ │ │ │ ├── BinaryFunctionOp.java │ │ │ │ ├── Functions.java │ │ │ │ ├── NullaryFunctionOp.java │ │ │ │ └── UnaryFunctionOp.java │ │ │ ├── hybrid │ │ │ │ ├── AbstractBinaryHybridC.java │ │ │ │ ├── AbstractBinaryHybridCF.java │ │ │ │ ├── AbstractBinaryHybridCFI.java │ │ │ │ ├── AbstractBinaryHybridCFI1.java │ │ │ │ ├── AbstractBinaryHybridCI.java │ │ │ │ ├── AbstractBinaryHybridCI1.java │ │ │ │ ├── AbstractNullaryHybridCF.java │ │ │ │ ├── AbstractUnaryHybridC.java │ │ │ │ ├── AbstractUnaryHybridCF.java │ │ │ │ ├── AbstractUnaryHybridCFI.java │ │ │ │ ├── AbstractUnaryHybridCI.java │ │ │ │ ├── BinaryHybridCF.java │ │ │ │ ├── BinaryHybridCFI.java │ │ │ │ ├── BinaryHybridCFI1.java │ │ │ │ ├── BinaryHybridCI.java │ │ │ │ ├── BinaryHybridCI1.java │ │ │ │ ├── Hybrids.java │ │ │ │ ├── NullaryHybridCF.java │ │ │ │ ├── UnaryHybridCF.java │ │ │ │ ├── UnaryHybridCFI.java │ │ │ │ └── UnaryHybridCI.java │ │ │ └── inplace │ │ │ │ ├── AbstractBinaryInplace1Op.java │ │ │ │ ├── AbstractBinaryInplaceOp.java │ │ │ │ ├── AbstractUnaryInplaceOp.java │ │ │ │ ├── BinaryInplace1OnlyOp.java │ │ │ │ ├── BinaryInplace1Op.java │ │ │ │ ├── BinaryInplaceOnlyOp.java │ │ │ │ ├── BinaryInplaceOp.java │ │ │ │ ├── Inplaces.java │ │ │ │ ├── UnaryInplaceOnlyOp.java │ │ │ │ └── UnaryInplaceOp.java │ │ │ ├── stats │ │ │ ├── AbstractStatsOp.java │ │ │ ├── DefaultGeometricMean.java │ │ │ ├── DefaultHarmonicMean.java │ │ │ ├── DefaultKurtosis.java │ │ │ ├── DefaultMean.java │ │ │ ├── DefaultMedian.java │ │ │ ├── DefaultMinMax.java │ │ │ ├── DefaultMoment1AboutMean.java │ │ │ ├── DefaultMoment2AboutMean.java │ │ │ ├── DefaultMoment3AboutMean.java │ │ │ ├── DefaultMoment4AboutMean.java │ │ │ ├── DefaultPercentile.java │ │ │ ├── DefaultQuantile.java │ │ │ ├── DefaultSize.java │ │ │ ├── DefaultSkewness.java │ │ │ ├── DefaultStandardDeviation.java │ │ │ ├── DefaultSum.java │ │ │ ├── DefaultSumOfInverses.java │ │ │ ├── DefaultSumOfLogs.java │ │ │ ├── DefaultSumOfSquares.java │ │ │ ├── DefaultVariance.java │ │ │ ├── IISize.java │ │ │ ├── IntegralMean.java │ │ │ ├── IntegralSum.java │ │ │ ├── IntegralVariance.java │ │ │ ├── IterableGeometricMean.java │ │ │ ├── IterableHarmonicMean.java │ │ │ ├── IterableMax.java │ │ │ ├── IterableMean.java │ │ │ ├── IterableMin.java │ │ │ ├── IterableStandardDeviation.java │ │ │ ├── IterableVariance.java │ │ │ ├── StatsNamespace.java │ │ │ ├── StatsOp.java │ │ │ └── regression │ │ │ │ └── leastSquares │ │ │ │ └── Quadric.java │ │ │ ├── thread │ │ │ ├── ThreadNamespace.java │ │ │ └── chunker │ │ │ │ ├── AbstractChunker.java │ │ │ │ ├── Chunk.java │ │ │ │ ├── ChunkerInterleaved.java │ │ │ │ ├── ChunkerOp.java │ │ │ │ ├── CursorBasedChunk.java │ │ │ │ └── DefaultChunker.java │ │ │ ├── threshold │ │ │ ├── AbstractApplyThresholdImg.java │ │ │ ├── AbstractApplyThresholdIterable.java │ │ │ ├── AbstractComputeThresholdHistogram.java │ │ │ ├── ApplyThreshold.java │ │ │ ├── ApplyThresholdIterable.java │ │ │ ├── ComputeThreshold.java │ │ │ ├── ComputeThresholdHistogram.java │ │ │ ├── LocalThresholdMethod.java │ │ │ ├── LocalThresholdMethodHistogram.java │ │ │ ├── ThresholdNamespace.java │ │ │ ├── Thresholds.java │ │ │ ├── apply │ │ │ │ ├── ApplyConstantThreshold.java │ │ │ │ ├── ApplyManualThreshold.java │ │ │ │ ├── ApplyThresholdComparable.java │ │ │ │ ├── ApplyThresholdComparator.java │ │ │ │ ├── LocalThreshold.java │ │ │ │ └── LocalThresholdIntegral.java │ │ │ ├── huang │ │ │ │ └── ComputeHuangThreshold.java │ │ │ ├── ij1 │ │ │ │ └── ComputeIJ1Threshold.java │ │ │ ├── intermodes │ │ │ │ └── ComputeIntermodesThreshold.java │ │ │ ├── isoData │ │ │ │ └── ComputeIsoDataThreshold.java │ │ │ ├── li │ │ │ │ └── ComputeLiThreshold.java │ │ │ ├── localBernsen │ │ │ │ └── LocalBernsenThreshold.java │ │ │ ├── localContrast │ │ │ │ └── LocalContrastThreshold.java │ │ │ ├── localMean │ │ │ │ ├── LocalMeanThreshold.java │ │ │ │ └── LocalMeanThresholdIntegral.java │ │ │ ├── localMedian │ │ │ │ └── LocalMedianThreshold.java │ │ │ ├── localMidGrey │ │ │ │ └── LocalMidGreyThreshold.java │ │ │ ├── localNiblack │ │ │ │ ├── LocalNiblackThreshold.java │ │ │ │ └── LocalNiblackThresholdIntegral.java │ │ │ ├── localPhansalkar │ │ │ │ ├── LocalPhansalkarThreshold.java │ │ │ │ └── LocalPhansalkarThresholdIntegral.java │ │ │ ├── localSauvola │ │ │ │ ├── LocalSauvolaThreshold.java │ │ │ │ └── LocalSauvolaThresholdIntegral.java │ │ │ ├── maxEntropy │ │ │ │ └── ComputeMaxEntropyThreshold.java │ │ │ ├── maxLikelihood │ │ │ │ └── ComputeMaxLikelihoodThreshold.java │ │ │ ├── mean │ │ │ │ └── ComputeMeanThreshold.java │ │ │ ├── minError │ │ │ │ └── ComputeMinErrorThreshold.java │ │ │ ├── minimum │ │ │ │ └── ComputeMinimumThreshold.java │ │ │ ├── moments │ │ │ │ └── ComputeMomentsThreshold.java │ │ │ ├── otsu │ │ │ │ └── ComputeOtsuThreshold.java │ │ │ ├── percentile │ │ │ │ └── ComputePercentileThreshold.java │ │ │ ├── renyiEntropy │ │ │ │ └── ComputeRenyiEntropyThreshold.java │ │ │ ├── rosin │ │ │ │ └── ComputeRosinThreshold.java │ │ │ ├── shanbhag │ │ │ │ └── ComputeShanbhagThreshold.java │ │ │ ├── triangle │ │ │ │ └── ComputeTriangleThreshold.java │ │ │ └── yen │ │ │ │ └── ComputeYenThreshold.java │ │ │ ├── topology │ │ │ ├── BoxCount.java │ │ │ ├── TopologyNamespace.java │ │ │ └── eulerCharacteristic │ │ │ │ ├── EulerCharacteristic26N.java │ │ │ │ ├── EulerCharacteristic26NFloating.java │ │ │ │ └── EulerCorrection.java │ │ │ └── transform │ │ │ ├── TransformNamespace.java │ │ │ ├── addDimensionView │ │ │ ├── AddDimensionViewMinMax.java │ │ │ └── DefaultAddDimensionView.java │ │ │ ├── collapseNumericView │ │ │ ├── DefaultCollapseNumeric2CompositeIntervalView.java │ │ │ └── DefaultCollapseNumeric2CompositeView.java │ │ │ ├── collapseRealView │ │ │ ├── DefaultCollapseReal2CompositeIntervalView.java │ │ │ └── DefaultCollapseReal2CompositeView.java │ │ │ ├── collapseView │ │ │ ├── DefaultCollapse2CompositeIntervalView.java │ │ │ └── DefaultCollapse2CompositeView.java │ │ │ ├── concatenateView │ │ │ ├── ConcatenateViewWithAccessMode.java │ │ │ └── DefaultConcatenateView.java │ │ │ ├── crop │ │ │ ├── CropImgPlus.java │ │ │ └── CropRAI.java │ │ │ ├── dropSingletonDimensionsView │ │ │ └── DefaultDropSingletonDimensionsView.java │ │ │ ├── extendBorderView │ │ │ └── DefaultExtendBorderView.java │ │ │ ├── extendMirrorDoubleView │ │ │ └── DefaultExtendMirrorDoubleView.java │ │ │ ├── extendMirrorSingleView │ │ │ └── DefaultExtendMirrorSingleView.java │ │ │ ├── extendPeriodicView │ │ │ └── DefaultExtendPeriodicView.java │ │ │ ├── extendRandomView │ │ │ └── DefaultExtendRandomView.java │ │ │ ├── extendValueView │ │ │ └── DefaultExtendValueView.java │ │ │ ├── extendView │ │ │ └── DefaultExtendView.java │ │ │ ├── extendZeroView │ │ │ └── DefaultExtendZeroView.java │ │ │ ├── flatIterableView │ │ │ └── DefaultFlatIterableView.java │ │ │ ├── hyperSliceView │ │ │ ├── DefaultHyperSliceView.java │ │ │ └── IntervalHyperSliceView.java │ │ │ ├── interpolateView │ │ │ └── DefaultInterpolateView.java │ │ │ ├── intervalView │ │ │ ├── DefaultIntervalView.java │ │ │ └── IntervalViewMinMax.java │ │ │ ├── invertAxisView │ │ │ ├── DefaultInvertAxisView.java │ │ │ └── IntervalInvertAxisView.java │ │ │ ├── offsetView │ │ │ ├── DefaultOffsetView.java │ │ │ ├── OffsetViewInterval.java │ │ │ └── OffsetViewOriginSize.java │ │ │ ├── permuteCoordinatesInverseView │ │ │ ├── DefaultPermuteCoordinatesInverseView.java │ │ │ └── PermuteCoordinateInverseViewOfDimension.java │ │ │ ├── permuteCoordinatesView │ │ │ ├── DefaultPermuteCoordinatesView.java │ │ │ └── PermuteCoordinatesViewOfDimension.java │ │ │ ├── permuteView │ │ │ ├── DefaultPermuteView.java │ │ │ └── IntervalPermuteView.java │ │ │ ├── project │ │ │ ├── DefaultProjectParallel.java │ │ │ ├── ProjectRAIToII.java │ │ │ └── ProjectRAIToIterableInterval.java │ │ │ ├── rasterView │ │ │ └── DefaultRasterView.java │ │ │ ├── rotateView │ │ │ ├── DefaultRotateView.java │ │ │ └── IntervalRotateView.java │ │ │ ├── scaleView │ │ │ └── DefaultScaleView.java │ │ │ ├── shearView │ │ │ ├── DefaultShearView.java │ │ │ └── ShearViewInterval.java │ │ │ ├── stackView │ │ │ ├── DefaultStackView.java │ │ │ └── StackViewWithAccessMode.java │ │ │ ├── subsampleView │ │ │ ├── DefaultSubsampleView.java │ │ │ ├── IntervalSubsampleView.java │ │ │ ├── SubsampleIntervalViewStepsForDims.java │ │ │ └── SubsampleViewStepsForDims.java │ │ │ ├── translateView │ │ │ ├── DefaultTranslateView.java │ │ │ └── IntervalTranslateView.java │ │ │ ├── unshearView │ │ │ ├── DefaultUnshearView.java │ │ │ └── UnshearViewInterval.java │ │ │ └── zeroMinView │ │ │ └── DefaultZeroMinView.java │ └── templates │ │ └── net │ │ └── imagej │ │ └── ops │ │ ├── Ops.list │ │ ├── Ops.vm │ │ ├── convert │ │ ├── ConvertImages.list │ │ └── ConvertImages.vm │ │ ├── logic │ │ ├── IIToIIOutputII.list │ │ ├── IIToIIOutputII.vm │ │ ├── IIToRAIOutputII.list │ │ ├── IIToRAIOutputII.vm │ │ ├── PrimitiveLogic.list │ │ └── PrimitiveLogic.vm │ │ ├── map │ │ ├── MapBinaryComputers.list │ │ ├── MapBinaryComputers.vm │ │ ├── MapBinaryInplace1s.list │ │ ├── MapBinaryInplace1s.vm │ │ ├── MapUnaryComputers.list │ │ └── MapUnaryComputers.vm │ │ ├── math │ │ ├── ConstantToArrayImage.list │ │ ├── ConstantToArrayImage.vm │ │ ├── ConstantToArrayImageP.list │ │ ├── ConstantToArrayImageP.vm │ │ ├── ConstantToIIOutputII.list │ │ ├── ConstantToIIOutputII.vm │ │ ├── ConstantToIIOutputRAI.list │ │ ├── ConstantToIIOutputRAI.vm │ │ ├── ConstantToPlanarImage.list │ │ ├── ConstantToPlanarImage.vm │ │ ├── IIToIIOutputII.list │ │ ├── IIToIIOutputII.vm │ │ ├── IIToRAIOutputII.list │ │ ├── IIToRAIOutputII.vm │ │ ├── NumericTypeBinaryMath.list │ │ ├── NumericTypeBinaryMath.vm │ │ ├── PrimitiveMath.list │ │ └── PrimitiveMath.vm │ │ └── threshold │ │ ├── ApplyThresholdMethod.list │ │ ├── ApplyThresholdMethod.vm │ │ ├── ApplyThresholdMethodLocal.list │ │ └── ApplyThresholdMethodLocal.vm └── test │ ├── java │ └── net │ │ └── imagej │ │ └── ops │ │ ├── AbstractNamespaceTest.java │ │ ├── AbstractOpTest.java │ │ ├── GlobalNamespaceTest.java │ │ ├── OpConformanceTest.java │ │ ├── OpListingTest.java │ │ ├── OpMatchingServiceTest.java │ │ ├── OpSearcherTest.java │ │ ├── OpServiceTest.java │ │ ├── ReadmeExampleTest.java │ │ ├── RunningOpAsCommandTest.java │ │ ├── TemplateTest.java │ │ ├── benchmark │ │ ├── AbstractOpBenchmark.java │ │ ├── AddConstantInplace.java │ │ ├── AddOpBenchmarkTest.java │ │ └── MappersBenchmarkTest.java │ │ ├── cached │ │ └── CachedOpEnvironmentTest.java │ │ ├── coloc │ │ ├── AbstractColocalisationTest.java │ │ ├── ColocNamespaceTest.java │ │ ├── MergeSortTest.java │ │ ├── ShuffledViewTest.java │ │ ├── icq │ │ │ └── LiICQTest.java │ │ ├── kendallTau │ │ │ └── KendallTauBRankTest.java │ │ ├── maxTKendallTau │ │ │ └── MTKTTest.java │ │ ├── pValue │ │ │ └── DefaultPValueTest.java │ │ └── pearsons │ │ │ └── DefaultPearsonsTest.java │ │ ├── convert │ │ ├── ConvertIIsTest.java │ │ ├── ConvertMapTest.java │ │ └── ConvertNamespaceTest.java │ │ ├── copy │ │ ├── CopyArrayImgTest.java │ │ ├── CopyIITest.java │ │ ├── CopyImgLabelingTest.java │ │ ├── CopyImgTest.java │ │ ├── CopyLabelingMappingTest.java │ │ ├── CopyNamespaceTest.java │ │ ├── CopyRAITest.java │ │ └── CopyTypeTest.java │ │ ├── create │ │ ├── CreateImgPlusTest.java │ │ ├── CreateImgTest.java │ │ ├── CreateIntegerTypeTest.java │ │ ├── CreateLabelingTest.java │ │ ├── CreateNamespaceTest.java │ │ ├── CreateNativeTypeTest.java │ │ ├── kernelBiGauss │ │ │ ├── CreateKernel2ndDerivBiGaussTest.java │ │ │ └── CreateKernelBiGaussTest.java │ │ ├── kernelDiffraction │ │ │ └── CreateKernelDiffractionTest.java │ │ ├── kernelGabor │ │ │ └── CreateKernelGaborTest.java │ │ ├── kernelGauss │ │ │ └── CreateKernelGaussTest.java │ │ └── kernelLog │ │ │ └── CreateKernelLogTest.java │ │ ├── deconvolve │ │ ├── DeconvolveNamespaceTest.java │ │ └── DeconvolveTest.java │ │ ├── eval │ │ └── EvalTest.java │ │ ├── features │ │ ├── AbstractFeatureTest.java │ │ ├── haralick │ │ │ ├── HaralickFeatureTest.java │ │ │ └── HaralickNamespaceTest.java │ │ ├── hog │ │ │ ├── HistogramOfOrientedGradients2DTest.java │ │ │ └── HogNamespaceTest.java │ │ ├── lbp2d │ │ │ ├── LBP2dFeatureTest.java │ │ │ └── LBPNamespaceTest.java │ │ ├── tamura2d │ │ │ ├── Tamura2dFeatureTest.java │ │ │ └── Tamura2dNamespaceTest.java │ │ └── zernike │ │ │ ├── ZernikeFeatureTest.java │ │ │ └── ZernikeNamespaceTest.java │ │ ├── filter │ │ ├── DefaultBilateralTest.java │ │ ├── FFTTest.java │ │ ├── FilterNamespaceTest.java │ │ ├── NonLinearFiltersTest.java │ │ ├── convolve │ │ │ ├── ConvolveTest.java │ │ │ └── PaddingTest.java │ │ ├── derivative │ │ │ └── PartialDerivativeFilterTest.java │ │ ├── derivativeGauss │ │ │ └── DefaultDerivativeGaussTest.java │ │ ├── dog │ │ │ └── DoGTest.java │ │ ├── findEdges │ │ │ └── DefaultFindEdgesTest.java │ │ ├── gauss │ │ │ └── GaussTest.java │ │ ├── hessian │ │ │ └── HessianFilterTest.java │ │ ├── sobel │ │ │ └── SobelFilterTest.java │ │ ├── tubeness │ │ │ └── TubenessTest.java │ │ └── vesselness │ │ │ └── FrangiVesselnessTest.java │ │ ├── geom │ │ ├── BitTypeVertexInterpolatorTest.java │ │ ├── DefaultVertexInterpolatorTest.java │ │ ├── GeomNamespaceTest.java │ │ ├── MeshFeatureTests.java │ │ ├── PolygonFeatureTests.java │ │ └── QuickHull3DTest.java │ │ ├── help │ │ └── HelpCandidatesTest.java │ │ ├── identity │ │ └── IdentityTest.java │ │ ├── image │ │ ├── ImageNamespaceTest.java │ │ ├── ascii │ │ │ └── ASCIITest.java │ │ ├── distancetransform │ │ │ ├── DefaultDistanceTransformTest.java │ │ │ ├── DistanceTransform2DTest.java │ │ │ └── DistanceTransform3DTest.java │ │ ├── equation │ │ │ └── CoordinateEquationTest.java │ │ ├── fill │ │ │ └── FillTest.java │ │ ├── integral │ │ │ ├── IntegralCursorTest.java │ │ │ ├── IntegralImgTest.java │ │ │ └── SquareIntegralImgTest.java │ │ ├── invert │ │ │ └── InvertTest.java │ │ ├── normalize │ │ │ └── NormalizeTest.java │ │ └── watershed │ │ │ ├── WatershedBinarySingleSigmaTest.java │ │ │ ├── WatershedBinaryTest.java │ │ │ ├── WatershedSeededTest.java │ │ │ └── WatershedTest.java │ │ ├── imagemoments │ │ ├── ImageMomentsNamespaceTest.java │ │ └── ImageMomentsTest.java │ │ ├── join │ │ └── JoinTest.java │ │ ├── labeling │ │ ├── LabelingNamespaceTest.java │ │ └── MergeLabelingTest.java │ │ ├── linalg │ │ └── rotate │ │ │ ├── Rotate3dTest.java │ │ │ └── Rotate3fTest.java │ │ ├── logic │ │ ├── BooleanTypeLogicTest.java │ │ ├── ConditionalTest.java │ │ └── LogicNamespaceTest.java │ │ ├── loop │ │ └── LoopTest.java │ │ ├── map │ │ ├── MapCompatibleTest.java │ │ ├── MapTest.java │ │ ├── MapViewTest.java │ │ └── neighborhood │ │ │ └── MapNeighborhoodTest.java │ │ ├── math │ │ ├── MathBenchmarkTest.java │ │ ├── MathNamespaceTest.java │ │ ├── UnaryRealTypeMathTest.java │ │ └── add │ │ │ ├── AddNumericTypeBinaryMathAddTest.java │ │ │ └── StupidSimpleMathAddTest.java │ │ ├── morphology │ │ ├── MorphologyNamespaceTest.java │ │ ├── MorphologyOpsTest.java │ │ ├── blackTopHat │ │ │ └── BlackTopHatTest.java │ │ ├── close │ │ │ └── ClosingTest.java │ │ ├── dilate │ │ │ └── DilationTest.java │ │ ├── erode │ │ │ └── ErosionTest.java │ │ ├── open │ │ │ └── OpeningTest.java │ │ ├── outline │ │ │ └── OutlineTest.java │ │ ├── thin │ │ │ └── ThinningTest.java │ │ └── topHat │ │ │ └── TopHatTest.java │ │ ├── segment │ │ ├── SegmentNamespaceTest.java │ │ ├── detectJunctions │ │ │ └── DefaultDetectJunctionsTest.java │ │ └── detectRidges │ │ │ └── DefaultDetectRidgesTest.java │ │ ├── slice │ │ └── SliceTest.java │ │ ├── special │ │ └── SpecialOpMatchingTest.java │ │ ├── stats │ │ ├── DefaultMedianTest.java │ │ ├── MeanTest.java │ │ ├── StatisticsTest.java │ │ ├── StatsNamespaceTest.java │ │ └── regression │ │ │ └── leastSquares │ │ │ └── QuadricTest.java │ │ ├── thread │ │ ├── ChunkerBenchmarkTest.java │ │ ├── RunDefaultChunker.java │ │ ├── RunDefaultChunkerArray.java │ │ ├── RunInterleavedChunker.java │ │ └── RunInterleavedChunkerArray.java │ │ ├── threshold │ │ ├── AbstractThresholdTest.java │ │ ├── ThresholdNamespaceTest.java │ │ └── apply │ │ │ ├── ApplyManualThresholdTest.java │ │ │ └── LocalThresholdTest.java │ │ ├── topology │ │ ├── BoxCountTest.java │ │ ├── TopologyNamespaceTest.java │ │ └── eulerCharacteristic │ │ │ ├── EulerCharacteristic26NFloatingTest.java │ │ │ ├── EulerCharacteristic26NTest.java │ │ │ ├── EulerCorrectionTest.java │ │ │ └── TestHelper.java │ │ └── transform │ │ ├── TransformNamespaceTest.java │ │ ├── addDimensionView │ │ └── AddDimensionViewTest.java │ │ ├── collapseNumericView │ │ └── CollapseNumericViewTest.java │ │ ├── collapseRealView │ │ └── CollapseRealViewTest.java │ │ ├── collapseView │ │ └── CollapseViewTest.java │ │ ├── concatenateView │ │ └── ConcatenateViewTest.java │ │ ├── crop │ │ └── CropTest.java │ │ ├── dropSingleDimensionsView │ │ └── DropSingletonDimensionsViewTest.java │ │ ├── extendBorderView │ │ └── ExtendBorderViewTest.java │ │ ├── extendMirrorDoubleView │ │ └── ExtendMirrorDoubleViewTest.java │ │ ├── extendMirrorSingleView │ │ └── ExtendMirrorSingleViewTest.java │ │ ├── extendPeriodicView │ │ └── ExtendPeriodicViewTest.java │ │ ├── extendRandomView │ │ └── ExtendRandomViewTest.java │ │ ├── extendValueView │ │ └── ExtendValueViewTest.java │ │ ├── extendView │ │ └── ExtendViewTest.java │ │ ├── extendZeroView │ │ └── ExtendZeroViewTest.java │ │ ├── flatIterableView │ │ └── FlatIterableViewTest.java │ │ ├── hyperSliceView │ │ └── HyperSliceViewTest.java │ │ ├── interpolateView │ │ └── InterpolateViewTest.java │ │ ├── intervalView │ │ └── IntervalViewTest.java │ │ ├── invertAxisView │ │ └── InvertAxisViewTest.java │ │ ├── offsetView │ │ └── OffsetViewTest.java │ │ ├── permuteView │ │ └── PermuteViewTest.java │ │ ├── project │ │ └── ProjectTest.java │ │ ├── rasterView │ │ └── RasterViewTest.java │ │ ├── rotateView │ │ └── RotateViewTest.java │ │ ├── scaleView │ │ └── ScaleViewTest.java │ │ ├── shearView │ │ └── ShearViewTest.java │ │ ├── stackView │ │ └── StackViewTest.java │ │ ├── subsampleView │ │ └── SubsampleViewTest.java │ │ ├── translateView │ │ └── TranslateViewTest.java │ │ ├── unshearView │ │ └── UnshearViewTest.java │ │ └── zeroMinView │ │ └── ZeroMinViewTest.java │ ├── resources │ └── net │ │ └── imagej │ │ └── ops │ │ ├── TubesInput.png │ │ ├── coloc │ │ ├── colocsample1b-green.tif │ │ ├── colocsample1b-red.tif │ │ ├── greenZstack.tif │ │ └── redZstack.tif │ │ ├── create │ │ └── kernelDiffraction │ │ │ └── kern3d1.tif │ │ ├── features │ │ ├── 2d_geometric_features_polygon.txt │ │ ├── 2d_geometric_features_testlabel.tif │ │ ├── 3d_geometric_features_mesh.txt │ │ ├── 3d_geometric_features_testlabel.tif │ │ ├── haralick_test_img.tif │ │ └── hog │ │ │ ├── HoG2DInput.png │ │ │ └── HoG2DResult.tif │ │ ├── filter │ │ ├── findEdges │ │ │ └── DefaultFindEdgesExpected.png │ │ ├── tubeness │ │ │ └── tube.tif │ │ └── vesselness │ │ │ └── Result.tif │ │ ├── image │ │ └── watershed │ │ │ └── watershed_test_image.png │ │ └── morphology │ │ ├── img_with_holes.png │ │ ├── img_without_holes.png │ │ ├── inverted_img_with_filled_holes.png │ │ └── thin │ │ ├── result_guoHall.tif │ │ ├── result_hilditch.tif │ │ ├── result_morphological.tif │ │ └── result_zhangSuen.tif │ └── templates │ ├── Test.list │ ├── Test.vm │ ├── TestTypes.list │ ├── TestTypes.vm │ └── net │ └── imagej │ └── ops │ ├── convert │ ├── ConvertImagesTest.list │ ├── ConvertImagesTest.vm │ ├── TestConvertType.list │ └── TestConvertType.vm │ ├── logic │ ├── IIToIIOutputIITest.list │ ├── IIToIIOutputIITest.vm │ ├── IIToRAIOutputIITest.list │ ├── IIToRAIOutputIITest.vm │ ├── PrimitiveLogicTest.list │ └── PrimitiveLogicTest.vm │ ├── map │ ├── MapBinaryComputersTest.list │ ├── MapBinaryComputersTest.vm │ ├── MapBinaryInplace1sTest.list │ ├── MapBinaryInplace1sTest.vm │ ├── MapUnaryComputersTest.list │ └── MapUnaryComputersTest.vm │ ├── math │ ├── ConstantToArrayImageTest.list │ ├── ConstantToArrayImageTest.vm │ ├── ConstantToIIOutputIITest.list │ ├── ConstantToIIOutputIITest.vm │ ├── ConstantToIIOutputRAITest.list │ ├── ConstantToIIOutputRAITest.vm │ ├── ConstantToPlanarImageTest.list │ ├── ConstantToPlanarImageTest.vm │ ├── IIToIIOutputIITest.list │ ├── IIToIIOutputIITest.vm │ ├── IIToRAIOutputIITest.list │ ├── IIToRAIOutputIITest.vm │ ├── NumericTypeBinaryMathTest.list │ ├── NumericTypeBinaryMathTest.vm │ ├── PrimitiveMathTest.list │ └── PrimitiveMathTest.vm │ └── threshold │ ├── ComputeThresholdTest.list │ └── ComputeThresholdTest.vm └── tubeness-generator.groovy 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