+/*=========================================================================
+ 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 clitkPadImageGenericFilter_cxx
+#define clitkPadImageGenericFilter_cxx
+
+/* =================================================
+ * @file clitkPadImageGenericFilter.cxx
+ * @author
+ * @date
+ *
+ * @brief
+ *
+ ===================================================*/
+
+#include "clitkPadImageGenericFilter.h"
+
+// itk
+#include <itkConstantPadImageFilter.h>
+
+
+namespace clitk
+{
+
+
+ //-----------------------------------------------------------
+ // Constructor
+ //-----------------------------------------------------------
+ PadImageGenericFilter::PadImageGenericFilter():
+ ImageToImageGenericFilter<Self>("PadImage")
+ {
+ cmdline_parser_clitkPadImage_init(&mArgsInfo);
+ InitializeImageType<2>();
+ InitializeImageType<3>();
+ //InitializeImageType<4>();
+ }
+
+ //--------------------------------------------------------------------
+ template<unsigned int Dim>
+ void PadImageGenericFilter::InitializeImageType()
+ {
+ ADD_DEFAULT_IMAGE_TYPES(Dim);
+ //ADD_IMAGE_TYPE(Dim, uchar);
+ //ADD_IMAGE_TYPE(Dim, short);
+ // ADD_IMAGE_TYPE(Dim, uint);
+ // ADD_IMAGE_TYPE(Dim, ulong);
+ // ADD_IMAGE_TYPE(Dim, int);
+ // ADD_IMAGE_TYPE(Dim, float);
+ }
+ //--------------------------------------------------------------------
+
+ //--------------------------------------------------------------------
+ void PadImageGenericFilter::SetArgsInfo(const args_info_type& a)
+ {
+ mArgsInfo=a;
+ SetIOVerbose(mArgsInfo.verbose_flag);
+ if (mArgsInfo.input_given) AddInputFilename(mArgsInfo.input_arg);
+ if (mArgsInfo.output_given) AddOutputFilename(mArgsInfo.output_arg);
+ }
+ //--------------------------------------------------------------------
+
+ //--------------------------------------------------------------------
+ // Update with the number of dimensions and the pixeltype
+ //--------------------------------------------------------------------
+ template<class ImageType>
+ void PadImageGenericFilter::UpdateWithInputImageType()
+ {
+ typedef itk::ConstantPadImageFilter<ImageType, ImageType> PadFilterType;
+ typedef typename PadFilterType::SizeValueType PadBoundType;
+
+ // Reading input
+ typename ImageType::Pointer input = this->template GetInput<ImageType>(0);
+
+ const unsigned int dim = ImageType::ImageDimension;
+ PadBoundType pad_lower[dim], pad_upper[dim];
+ if (mArgsInfo.like_given) {
+ int err = PadLike<ImageType, PadBoundType, ImageType::ImageDimension>(input, pad_lower, pad_upper);
+ if (err) {
+ std::cerr << "Error processing like image." << std::endl;
+ return;
+ }
+ }
+ else {
+ if (mArgsInfo.lower_given != dim || mArgsInfo.upper_given != dim)
+ {
+ std::cerr << "The number of lower and upper padding parameters must be equal to the image dimension." << std::endl;
+ return;
+ }
+
+ for (unsigned int i = 0; i < dim; i++) {
+ pad_lower[i] = mArgsInfo.lower_arg[i];
+ pad_upper[i] = mArgsInfo.upper_arg[i];
+ }
+ }
+
+ typename PadFilterType::Pointer filter = PadFilterType::New();
+ filter->SetPadLowerBound(pad_lower);
+ filter->SetPadUpperBound(pad_upper);
+ filter->SetInput(input);
+ filter->SetConstant(mArgsInfo.value_arg);
+ filter->Update();
+
+ // Prepare output
+ typename ImageType::Pointer output;
+ output = filter->GetOutput();
+
+ // Write/Save results
+ this->template SetNextOutput<ImageType>(output);
+ }
+ //--------------------------------------------------------------------
+
+ //--------------------------------------------------------------------
+ // Update with the number of dimensions and the pixeltype
+ //--------------------------------------------------------------------
+ template <class ImageType, class PadBoundType, unsigned int dim>
+ int PadImageGenericFilter::PadLike(typename ImageType::Pointer input, PadBoundType* padLower, PadBoundType* padUpper)
+ {
+ if (mArgsInfo.verbose_flag)
+ std::cout << "PadLike - IN" << std::endl;
+
+ typedef typename ImageType::SpacingType SpacingType;
+ typedef typename ImageType::RegionType RegionType;
+ typedef typename ImageType::SizeType SizeType;
+ typedef typename ImageType::IndexType IndexType;
+ typedef typename ImageType::PointType PointType;
+ typedef typename ImageType::PointValueType PointValueType;
+
+ if (mArgsInfo.verbose_flag)
+ std::cout << "Reading like image: " << mArgsInfo.like_arg << ::endl;
+
+ typedef itk::ImageFileReader<ImageType> ImageReaderType;
+ typename ImageReaderType::Pointer reader = ImageReaderType::New();
+ reader->SetFileName(mArgsInfo.like_arg);
+ reader->Update();
+
+ typename ImageType::Pointer like_image = reader->GetOutput();
+
+ if (mArgsInfo.verbose_flag)
+ std::cout << "Calculating padding." << std::endl;
+
+ SpacingType spacing = input->GetSpacing(), like_spacing = like_image->GetSpacing();
+ if (spacing != like_spacing) {
+ std::cerr << "Like-image must have same spacing as input: " << spacing << " " << like_spacing << std::endl;
+ return ERR_NOT_SAME_SPACING;
+ }
+
+ SizeType size = input->GetLargestPossibleRegion().GetSize(), like_size = like_image->GetLargestPossibleRegion().GetSize();
+ PointType origin = input->GetOrigin(), like_origin = like_image->GetOrigin();
+
+ PointType lower_bound, like_lower_bound;
+ PointType upper_bound, like_upper_bound;
+ PointValueType auxl = 0, auxu = 0;
+ for (unsigned int i = 0; i < dim; i++) {
+ lower_bound[i] = origin[i];
+ like_lower_bound[i] = like_origin[i];
+ auxl = itk::Math::Round<PointValueType>(((lower_bound[i] - like_lower_bound[i])/spacing[i]));
+
+ upper_bound[i] = (lower_bound[i] + size[i]*spacing[i]);
+ like_upper_bound[i] = (like_lower_bound[i] + like_size[i]*spacing[i]);
+ auxu = itk::Math::Round<PointValueType>(((like_upper_bound[i] - upper_bound[i])/spacing[i]));
+
+ if (auxl < 0 || auxu < 0) {
+ std::cerr << "Like-image's bounding box must be larger than input's" << std::endl;
+ return ERR_NOT_LIKE_LARGER;
+ }
+
+ padLower[i] = (PadBoundType)auxl;
+ padUpper[i] = (PadBoundType)auxu;
+ }
+
+ if (mArgsInfo.verbose_flag)
+ std::cout << "PadLike - OUT" << std::endl;
+ return ERR_SUCCESS;
+ }
+} //end clitk
+
+#endif //#define clitkPadImageGenericFilter_cxx