Cat image tool

diff --git a/tools/CMakeLists.txt b/tools/CMakeLists.txt
index 2484c48ed5c8c478db63e1cdda7cdbd22c23bcee..e71e7829a0d765b0c572103acd8a2c47532c3c66 100644 (file)
--- a/tools/CMakeLists.txt
+++ b/tools/CMakeLists.txt
@@ -359,6 +359,11 @@ IF (CLITK_BUILD_TOOLS)
   TARGET_LINK_LIBRARIES(clitkPadImage clitkCommon ${ITK_LIBRARIES})
   SET(TOOLS_INSTALL ${TOOLS_INSTALL} clitkPadImage)
 
+  WRAP_GGO(clitkCatImage_GGO_C clitkCatImage.ggo)
+  ADD_EXECUTABLE(clitkCatImage clitkCatImage.cxx ${clitkCatImage_GGO_C})
+  TARGET_LINK_LIBRARIES(clitkCatImage clitkCommon ${ITK_LIBRARIES})
+  SET(TOOLS_INSTALL ${TOOLS_INSTALL} clitkCatImage)
+
   IF(CLITK_EXPERIMENTAL)
 
     WRAP_GGO(clitkBinaryImageToMesh_GGO_C clitkBinaryImageToMesh.ggo)

diff --git a/tools/clitkCatImage.cxx b/tools/clitkCatImage.cxx
new file mode 100644 (file)
index 0000000..e16e61b
--- /dev/null
+++ b/tools/clitkCatImage.cxx
@@ -0,0 +1,42 @@
+/*=========================================================================
+  Program:   vv                     http://www.creatis.insa-lyon.fr/rio/vv
+
+  Authors belong to:
+  - University of LYON              http://www.universite-lyon.fr/
+  - Léon Bérard cancer center       http://www.centreleonberard.fr
+  - CREATIS CNRS laboratory         http://www.creatis.insa-lyon.fr
+
+  This software is distributed WITHOUT ANY WARRANTY; without even
+  the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+  PURPOSE.  See the copyright notices for more information.
+
+  It is distributed under dual licence
+
+  - BSD        See included LICENSE.txt file
+  - CeCILL-B   http://www.cecill.info/licences/Licence_CeCILL-B_V1-en.html
+===========================================================================**/
+
+// clitk
+#include "clitkCatImage_ggo.h"
+#include "clitkCatImageGenericFilter.h"
+
+//--------------------------------------------------------------------
+int main(int argc, char * argv[])
+{
+
+  // Init command line
+  GGO(clitkCatImage, args_info);
+  CLITK_INIT;
+
+  // Filter
+  typedef clitk::CatImageGenericFilter<args_info_clitkCatImage> FilterType;
+  FilterType::Pointer filter = FilterType::New();
+
+  filter->SetArgsInfo(args_info);
+  CLITK_TRY_CATCH_EXIT(filter->Update());
+
+
+  return EXIT_SUCCESS;
+}// end main
+
+//--------------------------------------------------------------------

diff --git a/tools/clitkCatImage.ggo b/tools/clitkCatImage.ggo
new file mode 100644 (file)
index 0000000..deb0058
--- /dev/null
+++ b/tools/clitkCatImage.ggo
@@ -0,0 +1,14 @@
+#File clitkCatImage.ggo
+package "clitkCatImage"
+version "1.0"
+purpose "Concatenate two images along chosen direction"
+
+option "config"                -       "Config file"                         string  optional
+option "verbose"       v "Verbose"                               flag          off
+
+option "imagetypes"    -       "Display allowed image types"     flag          off
+
+option "input1"                  i     "First input image filename"    string  required
+option "input2"                  j     "Second input image filename"   string  required
+option "output"        o "Output image filename"       string  required
+option "dimension"  d "Dimension on which to concatenate" int required

diff --git a/tools/clitkCatImageGenericFilter.h b/tools/clitkCatImageGenericFilter.h
new file mode 100644 (file)
index 0000000..bee6ebc
--- /dev/null
+++ b/tools/clitkCatImageGenericFilter.h
@@ -0,0 +1,69 @@
+/*=========================================================================
+  Program:   vv                     http://www.creatis.insa-lyon.fr/rio/vv
+
+  Authors belong to:
+  - University of LYON              http://www.universite-lyon.fr/
+  - Léon Bérard cancer center       http://www.centreleonberard.fr
+  - CREATIS CNRS laboratory         http://www.creatis.insa-lyon.fr
+
+  This software is distributed WITHOUT ANY WARRANTY; without even
+  the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+  PURPOSE.  See the copyright notices for more information.
+
+  It is distributed under dual licence
+
+  - BSD        See included LICENSE.txt file
+  - CeCILL-B   http://www.cecill.info/licences/Licence_CeCILL-B_V1-en.html
+===========================================================================**/
+#ifndef CLITKCatImageGENERICFILTER_H
+#define CLITKCatImageGENERICFILTER_H
+#include "clitkIO.h"
+#include "clitkImageToImageGenericFilter.h"
+
+//--------------------------------------------------------------------
+namespace clitk
+{
+
+template<class args_info_type>
+class ITK_EXPORT CatImageGenericFilter:
+        public ImageToImageGenericFilter<CatImageGenericFilter<args_info_type> >
+{
+
+public:
+
+    //--------------------------------------------------------------------
+    CatImageGenericFilter();
+
+    //--------------------------------------------------------------------
+    typedef CatImageGenericFilter         Self;
+    typedef itk::SmartPointer<Self>            Pointer;
+    typedef itk::SmartPointer<const Self>      ConstPointer;
+
+    //--------------------------------------------------------------------
+    // Method for creation through the object factory
+    // and Run-time type information (and related methods)
+    itkNewMacro(Self);
+    itkTypeMacro(CatImageGenericFilter, LightObject);
+
+    //--------------------------------------------------------------------
+    void SetArgsInfo(const args_info_type & a);
+
+    //--------------------------------------------------------------------
+    // Main function called each time the filter is updated
+    template<class InputImageType>
+    void UpdateWithInputImageType();
+
+protected:
+    template<unsigned int Dim> void InitializeImageType();
+    args_info_type mArgsInfo;
+
+}; // end class
+//--------------------------------------------------------------------
+
+} // end namespace clitk
+
+#ifndef ITK_MANUAL_INSTANTIATION
+#include "clitkCatImageGenericFilter.txx"
+#endif
+
+#endif // #define clitkCatImageGenericFilter_h

diff --git a/tools/clitkCatImageGenericFilter.txx b/tools/clitkCatImageGenericFilter.txx
new file mode 100644 (file)
index 0000000..0355bff
--- /dev/null
+++ b/tools/clitkCatImageGenericFilter.txx
@@ -0,0 +1,121 @@
+/*=========================================================================
+  Program:   vv                     http://www.creatis.insa-lyon.fr/rio/vv
+
+  Authors belong to:
+  - University of LYON              http://www.universite-lyon.fr/
+  - Léon Bérard cancer center       http://www.centreleonberard.fr
+  - CREATIS CNRS laboratory         http://www.creatis.insa-lyon.fr
+
+  This software is distributed WITHOUT ANY WARRANTY; without even
+  the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+  PURPOSE.  See the copyright notices for more information.
+
+  It is distributed under dual licence
+
+  - BSD        See included LICENSE.txt file
+  - CeCILL-B   http://www.cecill.info/licences/Licence_CeCILL-B_V1-en.html
+===========================================================================**/
+#ifndef clitkCatImageGenericFilter_txx
+#define clitkCatImageGenericFilter_txx
+
+#include <itkConstantPadImageFilter.h>
+#include <itkPasteImageFilter.h>
+#include <clitkCommon.h>
+
+namespace clitk
+{
+
+//--------------------------------------------------------------------
+template<class args_info_type>
+CatImageGenericFilter<args_info_type>::CatImageGenericFilter():
+  ImageToImageGenericFilter<Self>("CatImage")
+{
+  InitializeImageType<2>();
+  InitializeImageType<3>();
+  InitializeImageType<4>();
+}
+//--------------------------------------------------------------------
+
+
+//--------------------------------------------------------------------
+template<class args_info_type>
+template<unsigned int Dim>
+void CatImageGenericFilter<args_info_type>::InitializeImageType()
+{
+  ADD_DEFAULT_IMAGE_TYPES(Dim);
+  ADD_VEC_IMAGE_TYPE(2,2,float);
+  ADD_VEC_IMAGE_TYPE(2,3,float);
+  ADD_VEC_IMAGE_TYPE(3,3,float);
+}
+//--------------------------------------------------------------------
+
+
+//--------------------------------------------------------------------
+template<class args_info_type>
+void CatImageGenericFilter<args_info_type>::SetArgsInfo(const args_info_type & a)
+{
+  mArgsInfo=a;
+  SetIOVerbose(mArgsInfo.verbose_flag);
+  if (mArgsInfo.imagetypes_flag) this->PrintAvailableImageTypes();
+
+  if (mArgsInfo.input1_given)
+    AddInputFilename(mArgsInfo.input1_arg);
+  if (mArgsInfo.input2_given)
+    AddInputFilename(mArgsInfo.input2_arg);
+  if (mArgsInfo.output_given)
+    SetOutputFilename(mArgsInfo.output_arg);
+}
+//--------------------------------------------------------------------
+
+//--------------------------------------------------------------------
+// Update with the number of dimensions and the pixeltype
+//--------------------------------------------------------------------
+template<class args_info_type>
+template<class InputImageType>
+void
+CatImageGenericFilter<args_info_type>::UpdateWithInputImageType()
+{
+
+  // Reading input 1
+  typename InputImageType::Pointer input1 = this->template GetInput<InputImageType>(0);
+  typename InputImageType::Pointer input2 = this->template GetInput<InputImageType>(1);
+
+  // Main filter
+  typedef typename InputImageType::PixelType PixelType;
+  typedef itk::Image<char, InputImageType::ImageDimension> OutputImageType;
+
+  typename InputImageType::RegionType region;
+  region = input2->GetLargestPossibleRegion();
+
+  // Filter
+  typename InputImageType::SizeType upperBound;
+  upperBound.Fill(0);
+  upperBound[mArgsInfo.dimension_arg] = region.GetSize()[mArgsInfo.dimension_arg];
+  typedef itk::ConstantPadImageFilter<InputImageType, InputImageType> PadImageFilterType;
+  typename PadImageFilterType::Pointer pad= PadImageFilterType::New();
+  pad->SetInput(input1);
+  pad->SetPadUpperBound(upperBound);
+
+  typename InputImageType::IndexType index;
+  index.Fill(0);
+  index[mArgsInfo.dimension_arg] = input1->GetLargestPossibleRegion().GetSize(mArgsInfo.dimension_arg);
+
+  typedef itk::PasteImageFilter<InputImageType, InputImageType, InputImageType> PasteImageFilterType;
+  typename PasteImageFilterType::Pointer pasteFilter=PasteImageFilterType::New();
+  pasteFilter->SetSourceImage(input2);
+  pasteFilter->SetDestinationImage(pad->GetOutput());
+  pasteFilter->SetDestinationIndex(index);
+  pasteFilter->SetSourceRegion(region);
+  pasteFilter->InPlaceOn();
+  pasteFilter->Update();
+
+  typename InputImageType::Pointer output = pasteFilter->GetOutput();
+
+  this->template SetNextOutput<InputImageType>(output);
+}
+//--------------------------------------------------------------------
+
+
+}//end clitk
+
+#endif //#define clitkCatImageGenericFilter_txx