Use real unit (um and ppi) instead of pixel in the parameters.

[master-thesis.git] / Parasitemia / Parasitemia / Config.fs

diff --git a/Parasitemia/Parasitemia/Config.fs b/Parasitemia/Parasitemia/Config.fs
index 701a3fd..9c23d83 100644 (file)
--- a/Parasitemia/Parasitemia/Config.fs
+++ b/Parasitemia/Parasitemia/Config.fs
@@ -3,50 +3,96 @@
 open System
 
 open Const
+open UnitsOfMeasure
 
 type Debug =
     | DebugOff
     | DebugOn of string // Output directory.
 
 type Parameters = {
-    initialAreaOpen: int
+    rbcDiameter: float<μm>
+    resolution: float<ppi>
 
-    minRbcRadius: float32
-    maxRbcRadius: float32
+    ratioAreaPaleCenter: float32 // The area of the second opening is 'ratioSecondAreaOpen' * mean RBC area. It's applied only if greater than 'initialAreaOpen'.
 
-    preFilterSigma: float
+    granulometryRange: float32 // The radius will be seeked from radius - granulometryRange * radius to radius + granulometryRange * radius.
+
+    minRbcRadius: float32 // Factor of the mean RBC radius.
+    maxRbcRadius: float32 // Factor of the mean RBC radius.
+
+    LPFStandardDeviation: float<μm> // Sigma parameter of the gaussian to remove the high frequency noise.
 
     // Ellipse.
-    factorNbPick: float
+    factorNbPick: float // The number of computed ellipse per edge pixel.
 
     // Parasites detection.
-    darkStainLevel: float
-    maxDarkStainRatio: float
+    darkStainLevel: float // Lower -> more sensitive. Careful about illumination on the borders.
+    maxDarkStainRatio: float // When a cell must own less than this ratio to be a RBC.
 
     stainArea: float32 // Factor of a RBC area. 0.5 means the half of RBC area.
     stainLevel: float // > 1
-    maxStainRatio: float // [0, 1]
+    maxStainRatio: float // When a cell must own less than this ratio to be a RBC.
 
     infectionArea: float32 // Factor of a RBC area. 0.5 means the half of RBC area.
     infectionLevel: float // > 1
 
     standardDeviationMaxRatio: float // The standard deviation of the pixel values of a cell can't be greater than standardDeviationMaxRatio * global standard deviation
-    minimumCellArea: float32 // Factor of the nominal RBC area.
+    minimumCellAreaFactor: float32 // Factor of the mean RBC area.
 }
 
+let defaultParameters = {
+    rbcDiameter = 8.<μm>
+    resolution = 200.e3<ppi> // Correspond to 50X.
+
+    ratioAreaPaleCenter = 1.f / 3.f // The ratio between an RBC area and the area of the its pale center.
+
+    granulometryRange = 0.5f
+
+    minRbcRadius = -0.3f
+    maxRbcRadius = 0.3f
+
+    LPFStandardDeviation = 0.2<μm> // 8.5e-6<inch>.
+
+    factorNbPick = 1.0
+
+    darkStainLevel = 0.25 // 0.3
+    maxDarkStainRatio = 0.1 // 10 %
+
+    infectionArea = 0.012f // 1.2 %
+    infectionLevel = 1.12 // Lower -> more sensitive.
+
+    stainArea = 0.08f // 8 %
+    stainLevel = 1.1 // Lower -> more sensitive.
+    maxStainRatio = 0.12 // 12 %
+
+    standardDeviationMaxRatio = 0.5 // 0.5
+    minimumCellAreaFactor = 0.4f }
+
 type Config (param: Parameters) =
+    let initialRBCRadius : float32 =
+        let rbcRadiusInch: float<inch> = μm.ConvertToInch(param.rbcDiameter) / 2.
+        let rbcRadiusPx: float<px> = param.resolution * rbcRadiusInch
+        float32 rbcRadiusPx
+
     member this.Parameters = param
     member val Debug = DebugOff with get, set
-    member val RBCRadius = 30.f with get, set
+
+    member this.LPFStandardDeviation =
+        let stdDeviation: float<px> = μm.ConvertToInch(param.LPFStandardDeviation) * param.resolution
+        float stdDeviation
+
+    // Mean RBC radius.
+    member val RBCRadius : float32 = initialRBCRadius with get, set
 
     member this.RBCMinRadius = this.RBCRadius + param.minRbcRadius * this.RBCRadius
     member this.RBCMaxRadius = this.RBCRadius + param.maxRbcRadius * this.RBCRadius
 
     member this.RBCArea = PI * this.RBCRadius ** 2.f
-    member this.RBCMinArea = param.minimumCellArea * this.RBCArea
+    member this.RBCMinArea = param.minimumCellAreaFactor * this.RBCArea
 
     member this.InfectionArea = param.infectionArea * this.RBCArea
     member this.StainArea = param.stainArea * this.RBCArea
 
     member this.Copy () =
         this.MemberwiseClone() :?> Config
+