// * 'Stain' corresponds to the stain around the parasites.
// * 'Infection' corresponds to the parasite. It shouldn't contain thrombocytes.
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)
let { KMedians.fg = fg; KMedians.median_bg = median_bg; KMedians.median_fg = median_fg; KMedians.d_fg = d_fg } = kmediansResults
// * 'Stain' corresponds to the stain around the parasites.
// * 'Infection' corresponds to the parasite. It shouldn't contain thrombocytes.
let find (filteredGreen: Image<Gray, float32>) (config: Config.Config) : Result * Image<Gray, float32> =
-
use filteredGreenWithoutInfection = filteredGreen.Copy()
ImgTools.areaCloseF filteredGreenWithoutInfection (int config.InfectionArea)
ImgTools.areaCloseF filteredGreenWithoutStain (int config.StainArea)
// We use the filtered image to find the dark stain.
+ let _, mean_fg, mean_bg =
+ let hist = ImgTools.histogramImg filteredGreenWithoutInfection 300
+ ImgTools.otsu hist
- // 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 darkStain = 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() // closed - (img * level)
+ let diff = img.Copy()
diff._Mul(level)
CvInvoke.Subtract(closed, diff, diff)
diff._ThresholdBinary(Gray(0.0), Gray(255.))