X-Git-Url: https://git.creatis.insa-lyon.fr/pubgit/?a=blobdiff_plain;f=bbtk_Slicer_PKG%2Fsrc%2FbbSlicerN4ITKMRIBiascorrection.h;fp=bbtk_Slicer_PKG%2Fsrc%2FbbSlicerN4ITKMRIBiascorrection.h;h=288c385be2ff55a792570d453a6de4746c6b4403;hb=e7b4e2c9254e9e431f74acc92e3f0d40fc5e7ef6;hp=0000000000000000000000000000000000000000;hpb=cd590ce5fff20d69c7060340235a35e9c2a9ef86;p=creaCLI.git

diff --git a/bbtk_Slicer_PKG/src/bbSlicerN4ITKMRIBiascorrection.h b/bbtk_Slicer_PKG/src/bbSlicerN4ITKMRIBiascorrection.h
new file mode 100644
index 0000000..288c385
--- /dev/null
+++ b/bbtk_Slicer_PKG/src/bbSlicerN4ITKMRIBiascorrection.h
@@ -0,0 +1,80 @@
+#ifndef __bbSlicerN4ITKMRIBiascorrection_h_INCLUDED__
+#define __bbSlicerN4ITKMRIBiascorrection_h_INCLUDED__
+
+#include "bbSlicer_EXPORT.h"
+#include "bbtkAtomicBlackBox.h"
+
+#include <vector>
+#include <cstdlib>
+#include <dlfcn.h>
+#include <sstream>
+#include <fstream>
+#include <iostream>
+
+#include <ModuleDescriptionUtilities.h>
+#include <ModuleDescriptionParser.h>
+#include <ModuleParameterGroup.h>
+#include <ModuleDescription.h>
+#include <ModuleParameter.h>
+
+#include "CreationTool.h"
+
+namespace bbSlicer {
+
+    class bbSlicer_EXPORT N4ITKMRIBiascorrection
+    :
+    public bbtk::AtomicBlackBox {
+        BBTK_BLACK_BOX_INTERFACE ( N4ITKMRIBiascorrection , bbtk::AtomicBlackBox ) ;
+
+        // GENERATED ARGS        
+        
+BBTK_DECLARE_INPUT ( inputImageName , std::string );
+BBTK_DECLARE_INPUT ( maskImageName , std::string );
+BBTK_DECLARE_INPUT ( outputImageName , std::string );
+BBTK_DECLARE_INPUT ( outputBiasFieldName , std::string );
+BBTK_DECLARE_INPUT ( numberOfIterations , std::vector<int> );
+BBTK_DECLARE_INPUT ( convergenceThreshold , float );
+BBTK_DECLARE_INPUT ( initialMeshResolution , std::vector<float> );
+BBTK_DECLARE_INPUT ( splineDistance , float );
+BBTK_DECLARE_INPUT ( shrinkFactor , int );
+BBTK_DECLARE_INPUT ( bsplineOrder , int );
+BBTK_DECLARE_INPUT ( weightImageName , std::string );
+BBTK_DECLARE_INPUT ( histogramSharpening , std::vector<float> );
+
+        // EO GENERATED ARGS
+
+        BBTK_PROCESS ( Process ) ;
+        void Process ( ) ;
+    private:
+        void execute ( std::string lib , int _argc , char * _argv[] ) ;
+    } ;
+
+    BBTK_BEGIN_DESCRIBE_BLACK_BOX ( N4ITKMRIBiascorrection , bbtk::AtomicBlackBox ) ;
+    BBTK_NAME ( "N4ITKMRIBiascorrection" ) ;
+    BBTK_AUTHOR ( "Nick Tustison algorithm and ITK implementation, Andrey Fedorov Slicer wrapping, Ron Kikinis PI" ) ;
+    BBTK_DESCRIPTION ( "Performs MRI bias correction using N4 algorithm. This module is based on the ITK filters contributed in the following publication:  Tustison N, Gee J 'N4ITK: Nick's N3 ITK Implementation For MRI Bias Field Correction', The Insight Journal 2009 January-June, http://hdl.handle.net/10380/3053" ) ;
+    BBTK_CATEGORY ( "Filtering" ) ;
+
+    // GENERATED DESCRPTION
+    
+BBTK_INPUT(N4ITKMRIBiascorrection , inputImageName , "inputImageName" , std::string, "");
+BBTK_INPUT(N4ITKMRIBiascorrection , maskImageName , "maskImageName" , std::string, "");
+BBTK_INPUT(N4ITKMRIBiascorrection , outputImageName , "outputImageName" , std::string, "");
+BBTK_INPUT(N4ITKMRIBiascorrection , outputBiasFieldName , "outputBiasFieldName" , std::string, "");
+BBTK_INPUT(N4ITKMRIBiascorrection , numberOfIterations , "numberOfIterations" , std::vector<int>, "");
+BBTK_INPUT(N4ITKMRIBiascorrection , convergenceThreshold , "convergenceThreshold" , float, "");
+BBTK_INPUT(N4ITKMRIBiascorrection , initialMeshResolution , "initialMeshResolution" , std::vector<float>, "");
+BBTK_INPUT(N4ITKMRIBiascorrection , splineDistance , "splineDistance" , float, "");
+BBTK_INPUT(N4ITKMRIBiascorrection , shrinkFactor , "shrinkFactor" , int, "");
+BBTK_INPUT(N4ITKMRIBiascorrection , bsplineOrder , "bsplineOrder" , int, "");
+BBTK_INPUT(N4ITKMRIBiascorrection , weightImageName , "weightImageName" , std::string, "");
+BBTK_INPUT(N4ITKMRIBiascorrection , histogramSharpening , "histogramSharpening" , std::vector<float>, "");
+
+    // EO GENERATED DESCRIPTION
+
+    BBTK_END_DESCRIBE_BLACK_BOX ( N4ITKMRIBiascorrection ) ;
+}
+
+#endif // __bbSlicerN4ITKMRIBiascorrection_h_INCLUDED__
+
+