filters/clitkImageArithmGenericFilter.txx

   1 /*=========================================================================
   2   Program:   vv                     http://www.creatis.insa-lyon.fr/rio/vv
   3
   4   Authors belong to:
   5   - University of LYON              http://www.universite-lyon.fr/
   6   - Léon Bérard cancer center       http://oncora1.lyon.fnclcc.fr
   7   - CREATIS CNRS laboratory         http://www.creatis.insa-lyon.fr
   8
   9   This software is distributed WITHOUT ANY WARRANTY; without even
  10   the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR
  11   PURPOSE.  See the copyright notices for more information.
  12
  13   It is distributed under dual licence
  14
  15   - BSD        See included LICENSE.txt file
  16   - CeCILL-B   http://www.cecill.info/licences/Licence_CeCILL-B_V1-en.html
  17 ======================================================================-====*/
  18 #ifndef CLITKIMAGEARITHMGENERICFILTER_TXX
  19 #define CLITKIMAGEARITHMGENERICFILTER_TXX
  20 namespace clitk
  21 {
  22
  23   //--------------------------------------------------------------------
  24   template<class args_info_type>
  25   ImageArithmGenericFilter<args_info_type>::ImageArithmGenericFilter()
  26     :ImageToImageGenericFilter<Self>("ImageArithmGenericFilter"),mTypeOfOperation(0) {
  27     InitializeImageType<2>();
  28     InitializeImageType<3>();
  29     InitializeImageType<4>();
  30     mIsOperationUseASecondImage = false;
  31     mOverwriteInputImage = true;
  32   }
  33   //--------------------------------------------------------------------
  34
  35
  36   //--------------------------------------------------------------------
  37   template<class args_info_type>
  38   template<unsigned int Dim>
  39   void ImageArithmGenericFilter<args_info_type>::InitializeImageType() {
  40     ADD_IMAGE_TYPE(Dim, char);
  41     ADD_IMAGE_TYPE(Dim, uchar);
  42     ADD_IMAGE_TYPE(Dim, short);
  43     ADD_IMAGE_TYPE(Dim, ushort);
  44     ADD_IMAGE_TYPE(Dim, int);
  45     ADD_IMAGE_TYPE(Dim, float);
  46     ADD_IMAGE_TYPE(Dim, double);
  47   }
  48   //--------------------------------------------------------------------
  49
  50
  51   //--------------------------------------------------------------------
  52   template<class args_info_type>
  53   void ImageArithmGenericFilter<args_info_type>::EnableOverwriteInputImage(bool b) {
  54     mOverwriteInputImage = b;
  55   }
  56   //--------------------------------------------------------------------
  57
  58
  59   //--------------------------------------------------------------------
  60   template<class args_info_type>
  61   void ImageArithmGenericFilter<args_info_type>::SetArgsInfo(const args_info_type & a) {
  62     mArgsInfo=a;
  63
  64     // Set value
  65     SetIOVerbose(mArgsInfo.verbose_flag);
  66     mTypeOfOperation = mArgsInfo.operation_arg;
  67     mDefaultPixelValue = mArgsInfo.pixelValue_arg;
  68     mScalar = mArgsInfo.scalar_arg;
  69     mOutputIsFloat = mArgsInfo.setFloatOutput_flag;
  70
  71     if (mArgsInfo.imagetypes_flag) this->PrintAvailableImageTypes();
  72
  73     if (mArgsInfo.input1_given) AddInputFilename(mArgsInfo.input1_arg);
  74     if (mArgsInfo.input2_given) {
  75       mIsOperationUseASecondImage = true;
  76       AddInputFilename(mArgsInfo.input2_arg);
  77     }
  78
  79     if (mArgsInfo.output_given) SetOutputFilename(mArgsInfo.output_arg);
  80
  81     // Check type of operation (with scalar or with other image)
  82     if ((mArgsInfo.input2_given) && (mArgsInfo.scalar_given)) {
  83       std::cerr << "ERROR : you cannot provide both --scalar and --input2 option" << std::endl;
  84       exit(-1);
  85     }
  86     if ((!mArgsInfo.input2_given) && (!mArgsInfo.scalar_given)) {
  87       if (mArgsInfo.operation_arg < 5) {
  88         std::cerr << "Such operation need the --scalar option." << std::endl;
  89         exit(-1);
  90       }
  91     }
  92   }
  93   //--------------------------------------------------------------------
  94
  95
  96   //--------------------------------------------------------------------
  97   template<class args_info_type>
  98   template<class ImageType>
  99   void ImageArithmGenericFilter<args_info_type>::UpdateWithInputImageType() {
 100     // Read input1
 101     typename ImageType::Pointer input1 = this->template GetInput<ImageType>(0);
 102
 103     // Set input image iterator
 104     typedef itk::ImageRegionIterator<ImageType> IteratorType;
 105     IteratorType it(input1, input1->GetLargestPossibleRegion());
 106
 107     // typedef input2
 108     typename ImageType::Pointer input2 = this->template GetInput<ImageType>(1);
 109     IteratorType it2;
 110
 111     if (mIsOperationUseASecondImage) {
 112       // Read input2
 113       input2 = this->template GetInput<ImageType>(1);
 114       // Set input image iterator
 115       it2 = IteratorType(input2, input2->GetLargestPossibleRegion());
 116     }
 117
 118     // Check if overwrite and outputisfloat and pixeltype is not float -> do not overwrite
 119     if (mOverwriteInputImage && mOutputIsFloat && (typeid(ImageType::PixelType) != typeid(float))) {
 120       // std::cerr << "Warning. Could not use both mOverwriteInputImage and mOutputIsFloat, because input is "
 121       //                     << typeid(PixelType).name()
 122       //                     << std::endl;
 123       mOverwriteInputImage = false;
 124     }
 125
 126     // ---------------- Overwrite input Image ---------------------
 127     if (mOverwriteInputImage) {
 128       // Set output iterator (to input1)
 129       IteratorType ito = IteratorType(input1, input1->GetLargestPossibleRegion());
 130       if (mIsOperationUseASecondImage) ComputeImage(it, it2, ito);
 131       else ComputeImage(it, ito);
 132       this->template SetNextOutput<ImageType>(input1);
 133     }
 134
 135     // ---------------- Create new output Image ---------------------
 136     else {
 137       if (mOutputIsFloat) {
 138         // Create output image
 139         typedef itk::Image<float,ImageType::ImageDimension> OutputImageType;
 140         typename OutputImageType::Pointer output = OutputImageType::New();
 141         output->SetRegions(input1->GetLargestPossibleRegion());
 142         output->SetOrigin(input1->GetOrigin());
 143         output->SetSpacing(input1->GetSpacing());
 144         output->Allocate();
 145         // Set output iterator
 146         typedef itk::ImageRegionIterator<OutputImageType> IteratorOutputType;
 147         IteratorOutputType ito = IteratorOutputType(output, output->GetLargestPossibleRegion());
 148         if (mIsOperationUseASecondImage) ComputeImage(it, it2, ito);
 149         else ComputeImage(it, ito);
 150         this->template SetNextOutput<OutputImageType>(output);
 151       }
 152       else {
 153         // Create output image
 154         typedef ImageType OutputImageType;
 155         typename OutputImageType::Pointer output = OutputImageType::New();
 156         output->SetRegions(input1->GetLargestPossibleRegion());
 157         output->SetOrigin(input1->GetOrigin());
 158         output->SetSpacing(input1->GetSpacing());
 159         output->Allocate();
 160         // Set output iterator
 161         typedef itk::ImageRegionIterator<OutputImageType> IteratorOutputType;
 162         IteratorOutputType ito = IteratorOutputType(output, output->GetLargestPossibleRegion());
 163         if (mIsOperationUseASecondImage) ComputeImage(it, it2, ito);
 164         else ComputeImage(it, ito);
 165         this->template SetNextOutput<OutputImageType>(output);
 166       }
 167     }
 168   }
 169   //--------------------------------------------------------------------
 170
 171   //--------------------------------------------------------------------
 172   template<class args_info_type>
 173   template<class Iter1, class Iter2, class Iter3>
 174   void  ImageArithmGenericFilter<args_info_type>::ComputeImage(Iter1 it1, Iter2 it2, Iter3 ito) {
 175     it1.GoToBegin();
 176     it2.GoToBegin();
 177     ito.GoToBegin();
 178     typedef typename Iter3::PixelType PixelType;
 179
 180     switch (mTypeOfOperation) {
 181     case 0: // Addition
 182       while (!ito.IsAtEnd()) {
 183         ito.Set(PixelTypeDownCast<double, PixelType>((double)it1.Get() + (double)it2.Get()) );
 184         ++it1; ++it2; ++ito;
 185       }
 186       break;
 187     case 1: // Multiply
 188       while (!ito.IsAtEnd()) {
 189         ito.Set(PixelTypeDownCast<double, PixelType>((double)it1.Get() * (double)it2.Get()) );
 190         ++it1; ++it2; ++ito;
 191       }
 192       break;
 193     case 2: // Divide
 194       while (!ito.IsAtEnd()) {
 195         if (it1.Get() != 0)
 196           ito.Set(PixelTypeDownCast<double, PixelType>((double)it1.Get() / (double)it2.Get()));
 197         else ito.Set(mDefaultPixelValue);
 198         ++it1; ++it2; ++ito;
 199       }
 200       break;
 201     case 3: // Max
 202       while (!ito.IsAtEnd()) {
 203         if (it1.Get() < it2.Get()) ito.Set(PixelTypeDownCast<double, PixelType>(it2.Get()));
 204         ++it1; ++it2; ++ito;
 205       }
 206       break;
 207     case 4: // Min
 208       while (!ito.IsAtEnd()) {
 209         if (it1.Get() > it2.Get()) ito.Set(PixelTypeDownCast<double, PixelType>(it2.Get()));
 210         ++it1; ++it2; ++ito;
 211       }
 212       break;
 213     case 5: // Absolute difference
 214       while (!ito.IsAtEnd()) {
 215         ito.Set(PixelTypeDownCast<double, PixelType>(fabs((double)it2.Get()-(double)it1.Get())));
 216         ++it1; ++it2; ++ito;
 217       }
 218       break;
 219     case 6: // Squared differences
 220       while (!ito.IsAtEnd()) {
 221         ito.Set(PixelTypeDownCast<double, PixelType>(pow((double)it1.Get()-(double)it2.Get(),2)));
 222         ++it1; ++it2; ++ito;
 223       }
 224       break;
 225     case 7: // Difference
 226       while (!ito.IsAtEnd()) {
 227         ito.Set(PixelTypeDownCast<double, PixelType>((double)it1.Get()-(double)it2.Get()));
 228         ++it1; ++it2; ++ito;
 229       }
 230       break;
 231     case 8: // Relative Difference
 232       while (!ito.IsAtEnd()) {
 233         if (it1.Get() != 0) ito.Set(PixelTypeDownCast<double, PixelType>(((double)it1.Get()-(double)it2.Get()))/(double)it1.Get());
 234         else ito.Set(0.0);
 235         ++it1; ++it2; ++ito;
 236       }
 237       break;
 238     default: // error ?
 239       std::cerr << "ERROR : the operation number (" << mTypeOfOperation << ") is not known." << std::endl;
 240       exit(-1);
 241     }
 242   }
 243   //--------------------------------------------------------------------
 244
 245
 246   //--------------------------------------------------------------------
 247   template<class args_info_type>
 248   template<class Iter1, class Iter2>
 249   void clitk::ImageArithmGenericFilter<args_info_type>::ComputeImage(Iter1 it, Iter2 ito) {
 250     ito.GoToBegin();
 251     it.GoToBegin();
 252     typedef typename Iter2::PixelType PixelType;
 253
 254     // Perform operation
 255     switch (mTypeOfOperation) {
 256     case 0: // Addition
 257       while (!it.IsAtEnd()) {
 258         ito.Set(clitk::PixelTypeDownCast<double, PixelType>((double)it.Get() + mScalar) );
 259         ++it; ++ito;
 260       }
 261       break;
 262     case 1: // Multiply
 263       while (!it.IsAtEnd()) {
 264         ito.Set(PixelTypeDownCast<double, PixelType>((double)it.Get() * mScalar) );
 265         ++it; ++ito;
 266       }
 267       break;
 268     case 2: // Inverse
 269       while (!it.IsAtEnd()) {
 270         if (it.Get() != 0)
 271           ito.Set(PixelTypeDownCast<double, PixelType>(mScalar / (double)it.Get()));
 272         else ito.Set(mDefaultPixelValue);
 273         ++it; ++ito;
 274       }
 275       break;
 276     case 3: // Max
 277       while (!it.IsAtEnd()) {
 278         if (it.Get() < mScalar) ito.Set(PixelTypeDownCast<double, PixelType>(mScalar));
 279         else ito.Set(PixelTypeDownCast<double, PixelType>(it.Get()));
 280         ++it; ++ito;
 281       }
 282       break;
 283     case 4: // Min
 284       while (!it.IsAtEnd()) {
 285         if (it.Get() > mScalar) ito.Set(PixelTypeDownCast<double, PixelType>(mScalar));
 286         else ito.Set(PixelTypeDownCast<double, PixelType>(it.Get()));
 287         ++it; ++ito;
 288       }
 289       break;
 290     case 5: // Absolute value
 291       while (!it.IsAtEnd()) {
 292         if (it.Get() <= 0) ito.Set(PixelTypeDownCast<double, PixelType>(-it.Get()));
 293         // <= zero to avoid warning for unsigned types
 294         else ito.Set(PixelTypeDownCast<double, PixelType>(it.Get()));
 295         ++it; ++ito;
 296       }
 297       break;
 298     case 6: // Squared value
 299       while (!it.IsAtEnd()) {
 300         ito.Set(PixelTypeDownCast<double, PixelType>((double)it.Get()*(double)it.Get()));
 301         ++it; ++ito;
 302       }
 303       break;
 304     case 7: // Log
 305       while (!it.IsAtEnd()) {
 306         if (it.Get() > 0)
 307           ito.Set(PixelTypeDownCast<double, PixelType>(log((double)it.Get())));
 308         else ito.Set(mDefaultPixelValue);
 309         ++it; ++ito;
 310       }
 311       break;
 312     case 8: // exp
 313       while (!it.IsAtEnd()) {
 314         ito.Set(PixelTypeDownCast<double, PixelType>(exp((double)it.Get())));
 315         ++it; ++ito;
 316       }
 317       break;
 318     case 9: // sqrt
 319       while (!it.IsAtEnd()) {
 320         if (it.Get() > 0)
 321           ito.Set(PixelTypeDownCast<double, PixelType>(sqrt((double)it.Get())));
 322         else {
 323           if (it.Get() ==0) ito.Set(0);
 324           else ito.Set(mDefaultPixelValue);
 325         }
 326         ++it; ++ito;
 327       }
 328       break;
 329     default: // error ?
 330       std::cerr << "ERROR : the operation number (" << mTypeOfOperation << ") is not known." << std::endl;
 331       exit(-1);
 332     }
 333   }
 334   //--------------------------------------------------------------------
 335
 336 } // end namespace
 337
 338 #endif  //#define CLITKIMAGEARITHMGENERICFILTER_TXX