- let hist = ImgTools.histogramImg filteredGreenWithoutInfection 300
- ImgTools.otsu hist
- filteredGreenWithoutInfection.Cmp(-(float mean_bg) * config.Parameters.darkStainLevel + (float mean_fg), CvEnum.CmpType.LessThan)
-
- let marker (img: Image<Gray, float32>) (closed: Image<Gray, float32>) (level: float) : Image<Gray, byte> =
- let diff = img.Copy()
- diff._Mul(level)
- CvInvoke.Subtract(closed, diff, diff)
- diff._ThresholdBinary(Gray(0.0), Gray(255.))
- diff.Convert<Gray, byte>()
-
- let infectionMarker = marker filteredGreen filteredGreenWithoutInfection (1. / config.Parameters.infectionSensitivity)
- let stainMarker = marker filteredGreenWithoutInfection filteredGreenWithoutStain (1. / config.Parameters.stainSensitivity)
-
- // TODO: comprendre pourquoi des valeurs sont negatives!?!?
- (*
- let blackTopHat = filteredGreen.CopyBlank()
- CvInvoke.Subtract(filteredGreenWithoutInfection, filteredGreen, blackTopHat)
- ImgTools.saveImg (ImgTools.normalizeAndConvert blackTopHat) "BottomHat.png"
- *)
-
- { darkStain = darkStain
- infection = infectionMarker
- stain = stainMarker },
- filteredGreenWithoutStain
+ let hist = histogramImg imgWithoutNucleus 300
+ otsu hist
+ imgWithoutNucleus.Cmp (float mean_fg - config.Parameters.darkStainLevel * float (mean_bg - mean_fg), CvEnum.CmpType.LessThan)
+
+ let marker (img : Image<Gray, float32>) (closed : Image<Gray, float32>) (level : float) : Image<Gray, byte> =
+ let diff = img.Copy ()
+ diff._Mul level
+ CvInvoke.Subtract (closed, diff, diff)
+ diff._ThresholdBinary (Gray 0.0, Gray 255.)
+ diff.Convert<Gray, byte> ()
+
+ // Nucleus.
+ let nucleusMarker = marker img imgWithoutNucleus (1. / config.Parameters.infectionSensitivity)
+
+ // Cytoplasm.
+ let imgWithoutParasite = img.CopyBlank ()
+ let kernelSize =
+ let size = roundInt config.RBCRadius.CytoplasmSize
+ if size % 2 = 0 then size + 1 else size
+ use kernel =
+ if kernelSize <= 3 then
+ CvInvoke.GetStructuringElement (CvEnum.ElementShape.Rectangle, Size (3, 3), Point (-1, -1))
+ else
+ CvInvoke.GetStructuringElement (CvEnum.ElementShape.Ellipse, Size (kernelSize, kernelSize), Point (-1, -1))
+
+ CvInvoke.MorphologyEx (img, imgWithoutParasite, CvEnum.MorphOp.Close, kernel, Point(-1, -1), 1, CvEnum.BorderType.Replicate, MCvScalar())
+ let parasiteMarker = marker img imgWithoutParasite (1. / config.Parameters.cytoplasmSensitivity)
+
+ {
+ darkStain = darkStain
+ nucleus = nucleusMarker
+ parasite = parasiteMarker
+ },
+ imgWithoutParasite,
+ imgWithoutNucleus