X-Git-Url: https://git.creatis.insa-lyon.fr/pubgit/?a=blobdiff_plain;f=bbtk_Slicer_PKG%2Fsrc%2FbbSlicerGeneralRegistrationBRAINS.cxx;fp=bbtk_Slicer_PKG%2Fsrc%2FbbSlicerGeneralRegistrationBRAINS.cxx;h=43a0846b66414c6f038324bed94da30bb98cd152;hb=e7b4e2c9254e9e431f74acc92e3f0d40fc5e7ef6;hp=0000000000000000000000000000000000000000;hpb=cd590ce5fff20d69c7060340235a35e9c2a9ef86;p=creaCLI.git

diff --git a/bbtk_Slicer_PKG/src/bbSlicerGeneralRegistrationBRAINS.cxx b/bbtk_Slicer_PKG/src/bbSlicerGeneralRegistrationBRAINS.cxx
new file mode 100644
index 0000000..43a0846
--- /dev/null
+++ b/bbtk_Slicer_PKG/src/bbSlicerGeneralRegistrationBRAINS.cxx
@@ -0,0 +1,114 @@
+#include "bbSlicerGeneralRegistrationBRAINS.h"
+#include "bbSlicerPackage.h"
+
+namespace bbSlicer {
+    BBTK_ADD_BLACK_BOX_TO_PACKAGE ( Slicer, GeneralRegistrationBRAINS )
+    BBTK_BLACK_BOX_IMPLEMENTATION ( GeneralRegistrationBRAINS, bbtk::AtomicBlackBox );
+
+    void GeneralRegistrationBRAINS::Process ( ) {
+
+        // GENERATED
+
+int _argc =60;
+std::string lib = "/home/riveros/.slicer/Slicer4-bin/Slicer-build/lib/Slicer-4.0/cli-modules/libBRAINSFitLib.so";
+char * _argv[ ] = { Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--fixedVolume"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputfixedVolume( ) ) ) ,"@@@@@"," --fixedVolume ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--movingVolume"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputmovingVolume( ) ) ) ,"@@@@@"," --movingVolume ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--bsplineTransform"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputbsplineTransform( ) ) ) ,"@@@@@"," --bsplineTransform ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--linearTransform"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputlinearTransform( ) ) ) ,"@@@@@"," --linearTransform ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--outputVolume"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputoutputVolume( ) ) ) ,"@@@@@"," --outputVolume ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--initialTransform"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputinitialTransform( ) ) ) ,"@@@@@"," --initialTransform ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--initializeTransformMode"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputinitializeTransformMode( ) ) ) ,"@@@@@"," --initializeTransformMode ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--useRigid"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputuseRigid( ) ) ) ,"@@@@@"," --useRigid ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--useScaleVersor3D"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputuseScaleVersor3D( ) ) ) ,"@@@@@"," --useScaleVersor3D ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--useScaleSkewVersor3D"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputuseScaleSkewVersor3D( ) ) ) ,"@@@@@"," --useScaleSkewVersor3D ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--useAffine"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputuseAffine( ) ) ) ,"@@@@@"," --useAffine ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--useBSpline"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputuseBSpline( ) ) ) ,"@@@@@"," --useBSpline ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--numberOfSamples"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputnumberOfSamples( ) ) ) ,"@@@@@"," --numberOfSamples ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--splineGridSize"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputsplineGridSize( ) ) ) ,"@@@@@"," --splineGridSize ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--numberOfIterations"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputnumberOfIterations( ) ) ) ,"@@@@@"," --numberOfIterations ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--maskProcessingMode"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputmaskProcessingMode( ) ) ) ,"@@@@@"," --maskProcessingMode ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--fixedBinaryVolume"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputfixedBinaryVolume( ) ) ) ,"@@@@@"," --fixedBinaryVolume ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--movingBinaryVolume"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputmovingBinaryVolume( ) ) ) ,"@@@@@"," --movingBinaryVolume ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--outputFixedVolumeROI"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputoutputFixedVolumeROI( ) ) ) ,"@@@@@"," --outputFixedVolumeROI ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--outputMovingVolumeROI"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputoutputMovingVolumeROI( ) ) ) ,"@@@@@"," --outputMovingVolumeROI ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--outputVolumePixelType"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputoutputVolumePixelType( ) ) ) ,"@@@@@"," --outputVolumePixelType ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--backgroundFillValue"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputbackgroundFillValue( ) ) ) ,"@@@@@"," --backgroundFillValue ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--maskInferiorCutOffFromCenter"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputmaskInferiorCutOffFromCenter( ) ) ) ,"@@@@@"," --maskInferiorCutOffFromCenter ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--scaleOutputValues"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputscaleOutputValues( ) ) ) ,"@@@@@"," --scaleOutputValues ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--interpolationMode"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputinterpolationMode( ) ) ) ,"@@@@@"," --interpolationMode ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--minimumStepLength"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputminimumStepLength( ) ) ) ,"@@@@@"," --minimumStepLength ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--translationScale"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputtranslationScale( ) ) ) ,"@@@@@"," --translationScale ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--reproportionScale"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputreproportionScale( ) ) ) ,"@@@@@"," --reproportionScale ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--skewScale"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputskewScale( ) ) ) ,"@@@@@"," --skewScale ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--maxBSplineDisplacement"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputmaxBSplineDisplacement( ) ) ) ,"@@@@@"," --maxBSplineDisplacement ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "-e"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputhistogramMatch( ) ) ) ,"@@@@@"," -e ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--numberOfHistogramBins"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputnumberOfHistogramBins( ) ) ) ,"@@@@@"," --numberOfHistogramBins ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--numberOfMatchPoints"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputnumberOfMatchPoints( ) ) ) ,"@@@@@"," --numberOfMatchPoints ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--strippedOutputTransform"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputstrippedOutputTransform( ) ) ) ,"@@@@@"," --strippedOutputTransform ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--transformType"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputtransformType( ) ) ) ,"@@@@@"," --transformType ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--outputTransform"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputoutputTransform( ) ) ) ,"@@@@@"," --outputTransform ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--fixedVolumeTimeIndex"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputfixedVolumeTimeIndex( ) ) ) ,"@@@@@"," --fixedVolumeTimeIndex ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--movingVolumeTimeIndex"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputmovingVolumeTimeIndex( ) ) ) ,"@@@@@"," --movingVolumeTimeIndex ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--medianFilterSize"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputmedianFilterSize( ) ) ) ,"@@@@@"," --medianFilterSize ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--removeIntensityOutliers"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputremoveIntensityOutliers( ) ) ) ,"@@@@@"," --removeIntensityOutliers ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--useCachingOfBSplineWeightsMode"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputuseCachingOfBSplineWeightsMode( ) ) ) ,"@@@@@"," --useCachingOfBSplineWeightsMode ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--useExplicitPDFDerivativesMode"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputuseExplicitPDFDerivativesMode( ) ) ) ,"@@@@@"," --useExplicitPDFDerivativesMode ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--ROIAutoDilateSize"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputROIAutoDilateSize( ) ) ) ,"@@@@@"," --ROIAutoDilateSize ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--ROIAutoClosingSize"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputROIAutoClosingSize( ) ) ) ,"@@@@@"," --ROIAutoClosingSize ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--relaxationFactor"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputrelaxationFactor( ) ) ) ,"@@@@@"," --relaxationFactor ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--maximumStepLength"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputmaximumStepLength( ) ) ) ,"@@@@@"," --maximumStepLength ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--failureExitCode"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputfailureExitCode( ) ) ) ,"@@@@@"," --failureExitCode ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--writeTransformOnFailure"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputwriteTransformOnFailure( ) ) ) ,"@@@@@"," --writeTransformOnFailure ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--numberOfThreads"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputnumberOfThreads( ) ) ) ,"@@@@@"," --numberOfThreads ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--forceMINumberOfThreads"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputforceMINumberOfThreads( ) ) ) ,"@@@@@"," --forceMINumberOfThreads ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--debugLevel"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputdebugLevel( ) ) ) ,"@@@@@"," --debugLevel ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--costFunctionConvergenceFactor"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputcostFunctionConvergenceFactor( ) ) ) ,"@@@@@"," --costFunctionConvergenceFactor ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--projectedGradientTolerance"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputprojectedGradientTolerance( ) ) ) ,"@@@@@"," --projectedGradientTolerance ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "-G"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputUseDebugImageViewer( ) ) ) ,"@@@@@"," -G ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "-p"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputPromptAfterImageSend( ) ) ) ,"@@@@@"," -p ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--NEVER_USE_THIS_FLAG_IT_IS_OUTDATED_00"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputuseMomentsAlign( ) ) ) ,"@@@@@"," --NEVER_USE_THIS_FLAG_IT_IS_OUTDATED_00 ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--NEVER_USE_THIS_FLAG_IT_IS_OUTDATED_01"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputuseGeometryAlign( ) ) ) ,"@@@@@"," --NEVER_USE_THIS_FLAG_IT_IS_OUTDATED_01 ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--NEVER_USE_THIS_FLAG_IT_IS_OUTDATED_02"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputuseCenterOfHeadAlign( ) ) ) ,"@@@@@"," --NEVER_USE_THIS_FLAG_IT_IS_OUTDATED_02 ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--permitParameterVariation"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputpermitParameterVariation( ) ) ) ,"@@@@@"," --permitParameterVariation ") ),
+Mthd::Aux::toCharArrray( Mthd::Aux::toString( "--costMetric"  ) + Mthd::Aux::replace_str ( ( Mthd::Aux::toString( bbGetInputcostMetric( ) ) ) ,"@@@@@"," --costMetric ") ) };
+
+        // EO GENERATED
+        this->execute( lib, _argc, _argv );
+
+    }
+
+    void GeneralRegistrationBRAINS::execute ( std::string lib, int _argc, char * _argv[] ) {
+        void* handle = dlopen( lib.c_str( ), RTLD_NOW | RTLD_GLOBAL );
+        if ( ! handle ) {
+            std::cerr << "CAN'T OPEN LIBRARY: " << dlerror( ) << '\n';
+            return;
+        }
+        typedef int (*method_t )( int argc, char * argv[] );
+        // RESET ERROR
+        dlerror( );
+        // PROTOTYPE
+        method_t myMethod = ( method_t ) dlsym( handle, "ModuleEntryPoint" );
+        const char *dlsym_error = dlerror( );
+        if ( dlsym_error ) {
+            std::cerr << "CAN'T LOAD SYMBOL 'ModuleEntryPoint':" << dlsym_error << '\n';
+            dlclose( handle );
+            return;
+        }
+        // METHOD CALL
+        myMethod( _argc, _argv );
+        // CLOSING LIB
+        dlclose( handle );
+    }
+
+    void GeneralRegistrationBRAINS::bbUserSetDefaultValues ( ) {
+    }
+
+    void GeneralRegistrationBRAINS::bbUserInitializeProcessing ( ) {
+    }
+
+    void GeneralRegistrationBRAINS::bbUserFinalizeProcessing ( ) {
+    }
+}
+// EO namespace bbSlicer
+
+