let logWithName mess = Log.User(buildLogWithName mess)
let inline logTimeWithName (text: string) (f: unit -> 'a option) : 'a option = Log.LogWithTime((buildLogWithName text), Severity.USER, f)
+ // Monadic construction to be able to abort the progress when running.
maybe {
do! report 0
use img_float = img.Convert<Bgr, float32>()
- use img_RBC = img_float.[1] // mergeChannelsWithProjection img_float config.Parameters.averageColor_RBC config.Parameters.averageColor_BG 255.
+ use img_RBC = img_float.[1] // Green.
use img_RBC_filtered = gaussianFilter img_RBC config.LPFStandardDeviationRBC
- use img_parasites = img_float.[2] // mergeChannelsWithProjection img_float config.Parameters.averageColor_Parasite config.Parameters.averageColor_RBC 255.
+ use img_parasites = img_float.[2] // Red.
use img_parasites_filtered = gaussianFilter img_parasites config.LPFStandardDeviationParasite
logWithName (sprintf "Nominal erythrocyte diameter: %A" config.RBCRadiusByResolution)
let! prunedEllipses = logTimeWithName "Ellipses pruning" (fun () -> reportWithVal 80 (matchingEllipses.PrunedEllipses))
- let! cells = logTimeWithName "Classifier" (fun () -> reportWithVal 100 (Classifier.findCells prunedEllipses parasites img_RBC_filtered config))
+ let! cells = logTimeWithName "Classifier" (fun () -> reportWithVal 100 (Classifier.findCells prunedEllipses parasites img.Width img.Height config))
logWithName "Analysis finished"
Drawing.drawCells imgCells' true cells
IO.saveImg imgCells' (buildFileName " - cells - full.png")
- let filteredGreenMaxima = gaussianFilter img_RBC config.LPFStandardDeviationRBC
- for m in findMaxima filteredGreenMaxima do
- Drawing.drawPoints filteredGreenMaxima m 255.f
- IO.saveImg filteredGreenMaxima (buildFileName " - filtered - maxima.png")
+ (* let filteredRBCMaxima = gaussianFilter img_RBC config.LPFStandardDeviationRBC
+ for m in findMaxima filteredRBCMaxima do
+ Drawing.drawPoints filteredRBCMaxima m 255.f
+ IO.saveImg filteredRBCMaxima (buildFileName " - filtered - maxima.png") *)
IO.saveImg imgWhitoutParasite (buildFileName " - filtered closed stain.png")
IO.saveImg imgWithoutNucleus (buildFileName " - filtered closed infection.png")
IO.saveImg img_RBC_filtered (buildFileName " - source - RBC.png")
IO.saveImg img_parasites_filtered (buildFileName " - source - parasites.png")
- IO.saveImg (normalize img_float.[2] 255.) (buildFileName " - source - red.png")
- IO.saveImg (normalize img_float.[1] 255.) (buildFileName " - source - green.png")
- IO.saveImg (normalize img_float.[0] 255.) (buildFileName " - source - blue.png")
+ IO.saveImg img_float.[2] (buildFileName " - source - red.png")
+ IO.saveImg img_float.[1] (buildFileName " - source - green.png")
+ IO.saveImg img_float.[0] (buildFileName " - source - blue.png")
| _ -> ()
return cells }
imgs
|> PSeq.choose (
fun (id, config, img) ->
- match doAnalysis img id config (Some (fun p -> reportProgressImg id p)) with
- | Some result -> Some (id, result)
- | None -> None)
+ try
+ match doAnalysis img id config (Some (fun p -> reportProgressImg id p)) with
+ | Some result -> Some (id, result)
+ | None -> None
+ with
+ | ex ->
+ Log.Error("Analysis {0} failed: {1}", id, ex)
+ None)
|> PSeq.withDegreeOfParallelism n
|> PSeq.toList