1
module ParasitemiaUI.Main
12 open ParasitemiaCore.Utils
13 open ParasitemiaCore.Config
20 | CmdLine of Input * string // A file or a directory to process and the output directory.
21 | Window of string option // An optional path to a file to open can be given in window mode.
23 type Arguments = RunningMode * bool
25 let parseArgs (args
: string[]) : Arguments =
27 let output = Array.tryFindIndex
((=) "--output") args
30 match Array.tryFindIndex
((=) "--folder") args
, output with
31 | Some i
, Some i_output when i
< args
.Length - 2 && i_output < args
.Length - 2 ->
32 CmdLine ((Dir args
.[i
+ 1]), args
.[i_output + 1])
34 match Array.tryFindIndex
((=) "--file") args
, output with
35 | Some i
, Some i_output when i
< args
.Length - 2 && i_output < args
.Length - 2 ->
36 CmdLine ((File args.[i
+ 1]), args.[i_output + 1])
38 Window (if args.Length > 0 && not
(args.[0].StartsWith("--")) then Some args.[0] else None)
40 runningMode, Array.exists
((=) "--debug") args
43 printfn
"Usage of Parasitemia :"
44 printfn
"Non-interactive mode:"
45 printfn
" %s (--folder <folder>|--file <file>) --output <folder> [--debug]" System.AppDomain.CurrentDomain.FriendlyName
46 printfn
" --folder <folder> : an input folder containing images to analyze"
47 printfn
" --file <file> : an image file to be analyzed"
48 printfn
" --output <folder> : a folder to put the results"
49 printfn
" --debug: output more information like intermediate images if set"
51 printfn
"Interactive mode:"
52 printfn
" %s [<document-file>] [--debug]" System.AppDomain.CurrentDomain.FriendlyName
53 printfn
" <document-file> : a PIAZ file to automatically open at startup"
54 printfn
" --debug : output information like intermediate images if set in the current directory"
56 [<System.Runtime.InteropServices.DllImport("kernel32.dll")>]
57 extern
bool AttachConsole(int dwProcessId)
62 // To redirect stdout to the attached console.
63 AttachConsole(-1) |> ignore
// -1 to attach to the parent process.
65 if Array.exists
(fun e
-> e
= "--help" || e = "-h") args
71 Log.User("Starting of Parasitemia UI ...")
74 match parseArgs args with
76 let config = Config(defaultParameters
)
79 | CmdLine (input
, output) ->
82 config.Debug <- DebugOn output
84 Directory.CreateDirectory output |> ignore
86 use logFile = new StreamWriter(new FileStream(Path.Combine(output, "log.txt"), FileMode.Append, FileAccess.Write))
87 let listener = { new IListener with member this
.NewEntry severity mess
= logFile.WriteLine(mess
) }
88 Log.AddListener(listener)
90 Log.User (sprintf
"=== New run : %A %A ===" DateTime.Now (if debug
then "[DEBUG]" else "[RELEASE]"))
92 let files = match input
with
93 | File file -> [ file ]
94 | Dir dir
-> Directory.EnumerateFiles dir |> List.ofSeq
96 use resultFile = new StreamWriter(new FileStream(Path.Combine(output, "results.txt"), FileMode.Append, FileAccess.Write))
98 let images = [ for file in files -> Path.GetFileNameWithoutExtension(FileInfo(file).Name), config.Copy(), new Image<Bgr, byte
>(file) ]
100 Log.LogWithTime("Whole analyze", Severity.USER, (fun () ->
101 match ParasitemiaCore.Analysis.doMultipleAnalysis
images None with
103 for id
, cells
in results
do
104 let config, img
= images |> List.pick
(fun (id
', config', img
') -> if id' = id
then Some (config', img') else None)
106 let total, infected
= countCells
cells
107 fprintf
resultFile "File: %s %d %d %.2f (diameter: %A)\n" id
total infected (100. * (float infected) / (float total)) config.RBCRadius
109 fprintf
resultFile "Analysis aborted"
112 Log.RmListener(listener)
115 | Window fileToOpen
->
116 if debug
then config.Debug <- DebugOn "."
117 GUI.run
config fileToOpen
119 Log.User("Parasitemia UI closed")
124 Log.Fatal("Error: {0}", ex)