Use float32 to reduce memory footprint.

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

diff --git a/Parasitemia/Parasitemia/ParasitesMarker.fs b/Parasitemia/Parasitemia/ParasitesMarker.fs
index 20dbf4c..f1a94e1 100644 (file)
--- a/Parasitemia/Parasitemia/ParasitesMarker.fs
+++ b/Parasitemia/Parasitemia/ParasitesMarker.fs
@@ -20,9 +20,9 @@ type Result = {
 let findMa (green: Image<Gray, float32>) (filteredGreen: Image<Gray, float32>) (config: Config.Config) : Result * Image<Gray, byte> * Image<Gray, byte> =
 
     // We use the filtered image to find the dark stain.
-    let kmediansResults = logTime "Finding fg/bg (k-medians)" (fun () -> KMedians.kmedians filteredGreen 1.0)
+    let kmediansResults = logTime "Finding fg/bg (k-medians)" (fun () -> KMedians.kmedians filteredGreen)
     let { KMedians.fg = fg; KMedians.median_bg = median_bg; KMedians.median_fg = median_fg; KMedians.d_fg = d_fg } = kmediansResults
-    let darkStain = d_fg.Cmp(median_bg * config.Parameters.darkStainLevel, CvEnum.CmpType.GreaterThan)
+    let darkStain = d_fg.Cmp(median_bg * float config.Parameters.darkStainLevel, CvEnum.CmpType.GreaterThan)
     darkStain._And(filteredGreen.Cmp(median_fg, CvEnum.CmpType.LessThan))
     darkStain._And(fg)
 
@@ -50,24 +50,33 @@ let findMa (green: Image<Gray, float32>) (filteredGreen: Image<Gray, float32>) (
 // * 'Dark stain' corresponds to the colored pixel, it's independent of the size of the areas.
 // * 'Stain' corresponds to the stain around the parasites.
 // * 'Infection' corresponds to the parasite. It shouldn't contain thrombocytes.
-let find (filteredGreen: Image<Gray, byte>) (filteredGreenFloat: Image<Gray, float32>) (config: Config.Config) : Result * Image<Gray, byte> * Image<Gray, byte> =
+let find (filteredGreen: Image<Gray, float32>) (config: Config.Config) : Result * Image<Gray, float32> =
 
-    let filteredGreenWithoutInfection = filteredGreen.Copy()
-    ImgTools.areaClose filteredGreenWithoutInfection (int config.InfectionArea)
+    use filteredGreenWithoutInfection = filteredGreen.Copy()
+    ImgTools.areaCloseF filteredGreenWithoutInfection (int config.InfectionArea)
 
     let filteredGreenWithoutStain = filteredGreenWithoutInfection.Copy()
-    ImgTools.areaClose filteredGreenWithoutStain (int config.StainArea)
+    ImgTools.areaCloseF filteredGreenWithoutStain (int config.StainArea)
 
     // We use the filtered image to find the dark stain.
-    let kmediansResults = logTime "Finding fg/bg (k-medians)" (fun () -> KMedians.kmedians (filteredGreenWithoutInfection.Convert<Gray, float32>()) 1.0) // FIXME: avoid converting again this in MainAnalysis
-    let { KMedians.fg = fg; KMedians.median_bg = median_bg; KMedians.median_fg = median_fg; KMedians.d_fg = d_fg } = kmediansResults
-    let darkStain = d_fg.Cmp(median_bg * config.Parameters.darkStainLevel, CvEnum.CmpType.GreaterThan)
-    darkStain._And(filteredGreenWithoutInfection.Cmp(median_fg, CvEnum.CmpType.LessThan))
 
-    let marker (img: Image<Gray, byte>) (closed: Image<Gray, byte>) (level: float) : Image<Gray, byte> =
-        let diff = closed - (img * level)
+    // With K-Means.
+    let kmeansResults = logTime "Finding fg/bg (k-means)" (fun () -> KMeans.kmeans (filteredGreenWithoutInfection))
+    let { KMeans.mean_bg = value_bg; KMeans.mean_fg = value_fg; KMeans.d_fg = d_fg } = kmeansResults
+
+    // With K-Medians.
+    (* let kmediansResults = logTime "Finding fg/bg (k-medians)" (fun () -> KMedians.kmedians (filteredGreenWithoutInfection)) // FIXME: avoid converting this again in MainAnalysis
+    let { KMedians.median_bg = value_bg; KMedians.median_fg = value_fg; KMedians.d_fg = d_fg } = kmediansResults *)
+
+    let darkStain = d_fg.Cmp((float value_bg) * config.Parameters.darkStainLevel, CvEnum.CmpType.GreaterThan)
+    darkStain._And(filteredGreenWithoutInfection.Cmp(float value_fg, CvEnum.CmpType.LessThan))
+
+    let marker (img: Image<Gray, float32>) (closed: Image<Gray, float32>) (level: float) : Image<Gray, byte> =
+        let diff = img.Copy() // closed - (img * level)
+        diff._Mul(level)
+        CvInvoke.Subtract(closed, diff, diff)
         diff._ThresholdBinary(Gray(0.0), Gray(255.))
-        diff
+        diff.Convert<Gray, byte>()
 
     let infectionMarker = marker filteredGreen filteredGreenWithoutInfection config.Parameters.infectionLevel
     let stainMarker = marker filteredGreenWithoutInfection filteredGreenWithoutStain config.Parameters.stainLevel
@@ -75,13 +84,6 @@ let find (filteredGreen: Image<Gray, byte>) (filteredGreenFloat: Image<Gray, flo
     { darkStain = darkStain
       infection = infectionMarker
       stain = stainMarker },
-    filteredGreenWithoutInfection,
     filteredGreenWithoutStain
 
 
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