1
module Parasitemia.Main
17 | CmdLine of Input * string
20 type Arguments = RunningMode * bool
22 let parseArgs (args
: string[]) : Arguments =
24 let output = Array.tryFindIndex
((=) "--output") args
27 match Array.tryFindIndex
((=) "--folder") args
, output with
28 | Some i
, Some i_output when i
< args
.Length - 2 && i_output < args
.Length - 2 ->
29 CmdLine ((Dir args
.[i
+1]), args
.[i_output + 1])
31 match Array.tryFindIndex
((=) "--file") args
, output with
32 | Some i
, Some i_output when i
< args
.Length - 2 && i_output < args
.Length - 2 ->
33 CmdLine ((File args.[i
+1]), args.[i_output + 1])
37 runningMode, Array.exists
((=) "--debug") args
43 match parseArgs args with
48 initialAreaOpen
= 2000
49 ratioSecondAreaOpen
= 1.f
/ 3.f
54 preFilterSigma
= 1.7 // 1.5
58 darkStainLevel
= 0.25 // 0.3
59 maxDarkStainRatio
= 0.1 // 10 %
61 infectionArea
= 0.012f // 1.2 %
62 infectionLevel
= 1.12 // Lower -> more sensitive.
64 stainArea
= 0.08f // 8 %
65 stainLevel
= 1.1 // Lower -> more sensitive.
66 maxStainRatio
= 0.12 // 12 %
68 standardDeviationMaxRatio
= 0.5 // 0.55
69 minimumCellAreaFactor
= 0.5f })
72 | CmdLine (input
, output) ->
75 config.Debug <- DebugOn output
77 Directory.CreateDirectory output |> ignore
79 use logFile = new StreamWriter(new FileStream(Path.Combine(output, "log.txt"), FileMode.Append, FileAccess.Write))
80 Utils.log
<- (fun m
-> logFile.WriteLine(m
))
81 Utils.log
(sprintf
"=== New run : %A %A ===" DateTime.Now (if debug
then "[DEBUG]" else "[RELEASE]"))
83 let files = match input
with
84 | File file
-> [ file
]
85 | Dir dir
-> Directory.EnumerateFiles dir |> List.ofSeq
87 use resultFile = new StreamWriter(new FileStream(Path.Combine(output, "results.txt"), FileMode.Append, FileAccess.Write))
90 let images = [ for file
in files -> Path.GetFileNameWithoutExtension(FileInfo(file
).Name), new Image<Bgr, byte
>(file
) ]
93 Utils.logTime
"Whole analyze" (fun () ->
94 let results = ImageAnalysis.doMultipleAnalysis
images config None
96 for id
, _, cells
in results do
97 let total, infected
= Utils.countCells
cells
98 fprintf
resultFile "File: %s %d %d %.2f\n" id
total infected (100. * (float infected) / (float total)))
100 //Utils.log (sprintf "== File: %A" file)
102 //| :? IOException as ex -> Utils.log (sprintf "Unable to open the image '%A': %A" file ex)
106 (*let display (window : Views.MainWindow) (img : IImage) =
107 let imgControl = window.Root.FindName("img") :?> Controls.Image
108 imgControl.Source <- BitmapSourceConvert.ToBitmapSource(img)
110 let log (window : Views.MainWindow) (mess : string) =
111 let txtLog = window.Root.FindName("txtLog") :?> Controls.TextBlock
112 txtLog.Text <- txtLog.Text + mess + "\n"*)
114 if debug
then config.Debug <- DebugOn "."