vv/vvSlicer.cxx

   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://www.centreleonberard.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
  19 #include <QMessageBox>
  20 #include <QString>
  21
  22 #include "vvSlicer.h"
  23 #include "vvImage.h"
  24 #include "vvSlicerManagerCommand.h"
  25 #include "vvGlyphSource.h"
  26 #include "vvGlyph2D.h"
  27
  28 #include <vtkVersion.h>
  29 #include <vtkExtentTranslator.h>
  30 #include <vtkAlgorithm.h>
  31 #include <vtkExecutive.h>
  32 #include <vtkStreamingDemandDrivenPipeline.h>
  33 #include <vtkInformation.h>
  34 #include <vtkTextProperty.h>
  35 #include <vtkTextActor.h>
  36 #include <vtkTextSource.h>
  37 #include <vtkActor2D.h>
  38 #include <vtkCursor2D.h>
  39 #include <vtkPolyDataMapper2D.h>
  40 #include <vtkProperty2D.h>
  41 #include <vtkCornerAnnotation.h>
  42 #include <vtkImageMapToWindowLevelColors.h>
  43 #include <vtkImageData.h>
  44 #include <vtkImageActor.h>
  45 #include <vvBlendImageActor.h>
  46 #include <vtkToolkits.h>
  47 #include <vtkObjectFactory.h>
  48 #include <vtkPointData.h>
  49 #include <vtkDataArray.h>
  50 #include <vtkFloatArray.h>
  51 #include <vtkClipPolyData.h>
  52 #include <vtkActor2DCollection.h>
  53 #include <vtkGlyph3D.h>
  54 #include <vtkMath.h>
  55 #include <vtkCursor3D.h>
  56 #include <vtkProperty.h>
  57 #include <vtkLight.h>
  58 #include <vtkLightCollection.h>
  59 #include <vtkScalarBarActor.h>
  60 #include <vtkLookupTable.h>
  61
  62 #include <vtkRenderer.h>
  63 #include <vtkRendererCollection.h>
  64 #include <vtkRenderWindow.h>
  65 #include <vtkRenderWindowInteractor.h>
  66 #include <vtkCamera.h>
  67 #include <vtkCallbackCommand.h>
  68 #include <vtkCommand.h>
  69 #include <vtkPolyDataMapper.h>
  70 #include <vtkBox.h>
  71
  72 #include <vtkExtractVOI.h>
  73 #include <vtkSphereSource.h>
  74 #include <vtkCutter.h>
  75 #include <vtkAssignAttribute.h>
  76 #include <vtkImageAccumulate.h>
  77 #include <vtkImageReslice.h>
  78 #include <vtkOpenGLImageSliceMapper.h>
  79 #if VTK_MAJOR_VERSION >= 6 || (VTK_MAJOR_VERSION >= 5 && VTK_MINOR_VERSION >= 10)
  80 #  include <vtkImageMapper3D.h>
  81 #  include <vtkImageSliceMapper.h>
  82 #endif
  83
  84 vtkStandardNewMacro(vvSlicer);
  85 static void copyExtent(int* in, int* to){
  86  for(int i=0; i<6; ++i)
  87  {
  88         to[i]=in[i];
  89  }
  90 }
  91 //------------------------------------------------------------------------------
  92 vvSlicer::vvSlicer()
  93 { //out << __func__ << endl;
  94         mFusionSequenceCode = -1;
  95   this->UnInstallPipeline();
  96   mImage = NULL;
  97   mReducedExtent = new int[6];
  98   mRegisterExtent = new int[6];
  99   mCurrentTSlice = 0;
 100   mCurrentFusionTSlice = 0;
 101   mCurrentOverlayTSlice = 0;
 102   mUseReducedExtent = false;
 103
 104   mCurrent[0] = -VTK_DOUBLE_MAX;
 105   mCurrent[1] = -VTK_DOUBLE_MAX;
 106   mCurrent[2] = -VTK_DOUBLE_MAX;
 107
 108   mCursor[0] = 0;//-VTK_DOUBLE_MAX;
 109   mCursor[1] = 0;//-VTK_DOUBLE_MAX;
 110   mCursor[2] = 0;//-VTK_DOUBLE_MAX;
 111   mCursor[3] = 0;//-VTK_DOUBLE_MAX;
 112
 113   mSubSampling = 5;
 114   mScale = 1;
 115   mVFLog = 0;
 116   mVFWidth = 1;
 117   mVFColor[0] = 0;
 118   mVFColor[1] = 1;
 119   mVFColor[2] = 0;
 120
 121   crossCursor = vtkSmartPointer<vtkCursor2D>::New();
 122   crossCursor->AllOff();
 123   crossCursor->AxesOn();
 124   crossCursor->SetTranslationMode(1);
 125   crossCursor->SetRadius(2);
 126
 127   pdm = vtkSmartPointer<vtkPolyDataMapper2D>::New();
 128 #if VTK_MAJOR_VERSION <= 5
 129   pdm->SetInput(crossCursor->GetOutput());
 130 #else
 131   pdm->SetInputConnection(crossCursor->GetOutputPort(0));
 132 #endif
 133
 134   pdmA = vtkSmartPointer<vtkActor2D>::New();
 135   pdmA->SetMapper(pdm);
 136   pdmA->GetProperty()->SetColor(255,10,212);
 137   pdmA->SetVisibility(0);
 138   pdmA->SetPickable(0);
 139
 140   ca = vtkSmartPointer<vtkCornerAnnotation>::New();
 141   ca->GetTextProperty()->SetColor(255,10,212);
 142   ca->SetVisibility(1);
 143   mFileName = "";
 144
 145   mVF = NULL;
 146   mOverlay = NULL;
 147   mFusion = NULL;
 148   mLandmarks = NULL;
 149
 150   legend = vtkSmartPointer<vtkScalarBarActor>::New();
 151   //legend->SetTitle("test!");
 152   legend->SetPosition(0.82,0.18);
 153   legend->SetWidth(0.1);
 154   legend->SetVisibility(0);
 155   legend->SetLabelFormat("%.1f");
 156   this->GetRenderer()->AddActor(legend);
 157   showFusionLegend = false;
 158
 159   this->InstallPipeline();
 160
 161   mLinkOverlayWindowLevel = true;
 162   mImageVisibility = true;
 163
 164 #if VTK_MAJOR_VERSION >= 6 || (VTK_MAJOR_VERSION >= 5 && VTK_MINOR_VERSION >= 10)
 165   this->GetImageActor()->GetMapper()->BorderOn();
 166 #endif
 167
 168   mSlicingTransform = vtkSmartPointer<vtkTransform>::New();
 169   mConcatenatedTransform = vtkSmartPointer<vtkTransform>::New();
 170   mConcatenatedFusionTransform = vtkSmartPointer<vtkTransform>::New();
 171   mConcatenatedOverlayTransform = vtkSmartPointer<vtkTransform>::New();
 172   mFirstSetSliceOrientation = true;
 173 }
 174 //------------------------------------------------------------------------------
 175
 176
 177 //------------------------------------------------------------------------------
 178 vtkImageMapToWindowLevelColors* vvSlicer::GetOverlayMapper()
 179 { //out << __func__ << endl;
 180   return mOverlayMapper.GetPointer();
 181 }
 182 //------------------------------------------------------------------------------
 183
 184
 185 //------------------------------------------------------------------------------
 186 vvBlendImageActor* vvSlicer::GetOverlayActor()
 187 { //out << __func__ << endl;
 188   return mOverlayActor.GetPointer();
 189 }
 190 //------------------------------------------------------------------------------
 191
 192
 193 //------------------------------------------------------------------------------
 194 vtkImageMapToColors* vvSlicer::GetFusionMapper()
 195 { //out << __func__ << endl;
 196   return mFusionMapper.GetPointer();
 197 }
 198 //------------------------------------------------------------------------------
 199
 200
 201 //------------------------------------------------------------------------------
 202 vtkImageActor* vvSlicer::GetFusionActor()
 203 { //out << __func__ << endl;
 204   return mFusionActor.GetPointer();
 205 }
 206 //------------------------------------------------------------------------------
 207
 208
 209 //------------------------------------------------------------------------------
 210 vtkActor* vvSlicer::GetVFActor()
 211 { //out << __func__ << endl;
 212   return mVFActor.GetPointer();
 213 }
 214 //------------------------------------------------------------------------------
 215
 216
 217 //------------------------------------------------------------------------------
 218 vtkCornerAnnotation* vvSlicer::GetAnnotation()
 219 { //out << __func__ << endl;
 220   return ca.GetPointer();
 221 }
 222 //------------------------------------------------------------------------------
 223
 224
 225 //------------------------------------------------------------------------------
 226 void vvSlicer::EnableReducedExtent(bool b)
 227 { //out << __func__ << endl;
 228   mUseReducedExtent = b;
 229 }
 230 //------------------------------------------------------------------------------
 231
 232
 233 //------------------------------------------------------------------------------
 234 void vvSlicer::SetReducedExtent(int * ext)
 235 { //out << __func__ << endl;
 236   copyExtent(ext, mReducedExtent);
 237 }
 238 //------------------------------------------------------------------------------
 239
 240
 241 //------------------------------------------------------------------------------
 242 void vvSlicer::AddContour(vvMesh::Pointer contour,bool propagate)
 243 { //out << __func__ << endl;
 244
 245   mSurfaceCutActors.push_back(new vvMeshActor());
 246   if (propagate)
 247     mSurfaceCutActors.back()->Init(contour,mCurrentTSlice,mVF);
 248   else
 249     mSurfaceCutActors.back()->Init(contour,mCurrentTSlice);
 250   mSurfaceCutActors.back()->SetSlicingOrientation(SliceOrientation);
 251   this->GetRenderer()->AddActor(mSurfaceCutActors.back()->GetActor());
 252
 253   SetContourSlice();
 254 }
 255 //------------------------------------------------------------------------------
 256
 257
 258 //------------------------------------------------------------------------------
 259 void vvSlicer::ToggleContourSuperposition()
 260 { //out << __func__ << endl;
 261   for (std::vector<vvMeshActor*>::iterator i=mSurfaceCutActors.begin();
 262        i!=mSurfaceCutActors.end(); i++)
 263     (*i)->ToggleSuperposition();
 264 }
 265 //------------------------------------------------------------------------------
 266
 267
 268 //------------------------------------------------------------------------------
 269 void vvSlicer::SetCursorColor(int r,int g, int b)
 270 { //out << __func__ << endl;
 271   pdmA->GetProperty()->SetColor(r,g,b);
 272 }
 273 //------------------------------------------------------------------------------
 274
 275
 276 //------------------------------------------------------------------------------
 277 void vvSlicer::SetCursorVisibility(bool s)
 278 { //out << __func__ << endl;
 279   pdmA->SetVisibility(s);
 280 }
 281 //------------------------------------------------------------------------------
 282
 283
 284 //------------------------------------------------------------------------------
 285 bool vvSlicer::GetCursorVisibility()
 286 { //out << __func__ << endl;
 287   return pdmA->GetVisibility();
 288 }
 289 //------------------------------------------------------------------------------
 290
 291
 292 //------------------------------------------------------------------------------
 293 void vvSlicer::SetCornerAnnotationVisibility(bool s)
 294 { //out << __func__ << endl;
 295   ca->SetVisibility(s);
 296 }
 297 //------------------------------------------------------------------------------
 298
 299
 300 //------------------------------------------------------------------------------
 301 bool vvSlicer::GetCornerAnnotationVisibility()
 302 { //out << __func__ << endl;
 303   return ca->GetVisibility();
 304 }
 305 //------------------------------------------------------------------------------
 306
 307
 308 //------------------------------------------------------------------------------
 309 vvSlicer::~vvSlicer()
 310 { //out << __func__ << endl;
 311   for (std::vector<vvMeshActor*>::iterator i=mSurfaceCutActors.begin();
 312        i!=mSurfaceCutActors.end(); i++)
 313     delete (*i);
 314   delete [] mReducedExtent;
 315   delete [] mRegisterExtent;
 316 }
 317 //------------------------------------------------------------------------------
 318
 319 //------------------------------------------------------------------------------
 320 double* vvSlicer::GetCurrentPosition()
 321 { //out << __func__ << endl;
 322   return mCurrentBeforeSlicingTransform;
 323 }
 324 //------------------------------------------------------------------------------
 325
 326 //------------------------------------------------------------------------------
 327 void vvSlicer::SetCurrentPosition(double x, double y, double z, int t)
 328 { //out << __func__ << endl;
 329   mCurrentBeforeSlicingTransform[0]=x;
 330   mCurrentBeforeSlicingTransform[1]=y;
 331   mCurrentBeforeSlicingTransform[2]=z;
 332   mSlicingTransform->GetInverse()->TransformPoint(mCurrentBeforeSlicingTransform,mCurrent);
 333   if (t>=0) SetTSlice(t);
 334 }
 335 //------------------------------------------------------------------------------
 336
 337
 338 //------------------------------------------------------------------------------
 339 void vvSlicer::SetImage(vvImage::Pointer image)
 340 { //out << __func__ << endl;
 341   if (image->GetVTKImages().size()) {
 342     mImage = image;
 343
 344     if (!mImageReslice) {
 345       mImageReslice = vtkSmartPointer<vtkImageReslice>::New();
 346       mImageReslice->SetInterpolationModeToLinear();
 347       mImageReslice->AutoCropOutputOn();
 348       mImageReslice->SetBackgroundColor(-1000,-1000,-1000,1);
 349     }
 350
 351     mConcatenatedTransform->Identity();
 352     mConcatenatedTransform->Concatenate(mImage->GetTransform()[0]);
 353     mConcatenatedTransform->Concatenate(mSlicingTransform);
 354     mImageReslice->SetResliceTransform(mConcatenatedTransform);
 355 #if VTK_MAJOR_VERSION <= 5
 356     mImageReslice->SetInput(0, mImage->GetFirstVTKImageData());
 357 #else
 358     mImageReslice->SetInputData(0, mImage->GetFirstVTKImageData());
 359 #endif
 360     mImageReslice->UpdateInformation();
 361
 362 #if VTK_MAJOR_VERSION <= 5
 363     this->Superclass::SetInput(mImageReslice->GetOutput());
 364 #else
 365     this->Superclass::SetInputConnection(mImageReslice->GetOutputPort());
 366 #endif
 367
 368     int extent[6];
 369 #if VTK_MAJOR_VERSION <= 5
 370     this->GetInput()->GetWholeExtent(extent);
 371 #else
 372     int* ext = mImageReslice->GetInputInformation()->Get(vtkStreamingDemandDrivenPipeline::WHOLE_EXTENT());
 373     copyExtent(ext, extent);
 374 #endif
 375
 376     // Prevent crash when reload -> change slice if outside extent
 377     if (Slice < extent[SliceOrientation*2] || Slice>=extent[SliceOrientation*2+1]) {
 378       Slice = (extent[SliceOrientation*2+1]+extent[SliceOrientation*2])/2.0;
 379     }
 380
 381     // Make sure that the required part image has been computed
 382     extent[SliceOrientation*2] = Slice;
 383     extent[SliceOrientation*2+1] = Slice;
 384
 385 #if VTK_MAJOR_VERSION <= 5
 386     mImageReslice->GetOutput()->SetUpdateExtent(extent);
 387     mImageReslice->GetOutput()->Update();
 388 #else
 389     mImageReslice->SetUpdateExtent(extent);
 390     mImageReslice->Update();
 391 #endif
 392
 393     this->UpdateDisplayExtent();
 394
 395     mCurrentTSlice = 0;
 396     ca->SetText(0,mFileName.c_str());
 397   }
 398 }
 399 //------------------------------------------------------------------------------
 400
 401
 402 //------------------------------------------------------------------------------
 403 void vvSlicer::SetOverlay(vvImage::Pointer overlay)
 404 { //out << __func__ << endl;
 405   if (overlay->GetVTKImages().size()) {
 406     mOverlay = overlay;
 407     mOverlayVisibility = true;
 408
 409     if (!mOverlayReslice) {
 410       mOverlayReslice = vtkSmartPointer<vtkImageReslice>::New();
 411       mOverlayReslice->SetInterpolationModeToLinear();
 412       mOverlayReslice->AutoCropOutputOn();
 413       mOverlayReslice->SetBackgroundColor(-1000,-1000,-1000,1);
 414     }
 415
 416     mConcatenatedOverlayTransform->Identity();
 417     mConcatenatedOverlayTransform->Concatenate(mOverlay->GetTransform()[0]);
 418     mConcatenatedOverlayTransform->Concatenate(mSlicingTransform);
 419     mOverlayReslice->SetResliceTransform(mConcatenatedOverlayTransform);
 420 #if VTK_MAJOR_VERSION <= 5
 421     mOverlayReslice->SetInput(0, mOverlay->GetFirstVTKImageData());
 422 #else
 423     mOverlayReslice->SetInputData(0, mOverlay->GetFirstVTKImageData());
 424 #endif
 425     mOverlayReslice->Update();
 426
 427     if (!mOverlayMapper)
 428       mOverlayMapper = vtkSmartPointer<vtkImageMapToWindowLevelColors>::New();
 429 #if VTK_MAJOR_VERSION <= 5
 430     mOverlayMapper->SetInput(mOverlayReslice->GetOutput());
 431 #else
 432     mOverlayMapper->SetInputConnection(mOverlayReslice->GetOutputPort(0));
 433 #endif
 434
 435     if (!mOverlayActor) {
 436       mOverlayActor = vtkSmartPointer<vvBlendImageActor>::New();
 437 #if VTK_MAJOR_VERSION <= 5
 438       mOverlayActor->SetInput(mOverlayMapper->GetOutput());
 439 #else
 440       mOverlayActor->GetMapper()->SetInputConnection(mOverlayMapper->GetOutputPort());
 441 #endif
 442       mOverlayActor->SetPickable(0);
 443       mOverlayActor->SetVisibility(true);
 444       mOverlayActor->SetOpacity(0.5);
 445 #if VTK_MAJOR_VERSION >= 6 || (VTK_MAJOR_VERSION >= 5 && VTK_MINOR_VERSION >= 10)
 446       mOverlayActor->GetMapper()->BorderOn();
 447 #endif
 448       }
 449
 450     //stupid but necessary : the Overlay need to be rendered before fusion
 451     if (mFusionActor) {
 452       this->GetRenderer()->RemoveActor(mFusionActor);
 453       this->GetRenderer()->AddActor(mOverlayActor);
 454       this->GetRenderer()->AddActor(mFusionActor);
 455     } else
 456       this->GetRenderer()->AddActor(mOverlayActor);
 457
 458     //Synchronize orientation and slice
 459     AdjustResliceToSliceOrientation(mOverlayReslice);
 460     this->UpdateDisplayExtent();
 461     this->SetTSlice(mCurrentTSlice);
 462   }
 463 }
 464 //------------------------------------------------------------------------------
 465
 466
 467 //------------------------------------------------------------------------------
 468 void vvSlicer::SetFusion(vvImage::Pointer fusion, int fusionSequenceCode)
 469 { //out << __func__ << endl;
 470         mFusionSequenceCode = fusionSequenceCode;
 471   if (fusion->GetVTKImages().size()) {
 472     mFusion = fusion;
 473     mFusionVisibility = true;
 474
 475     if (!mFusionReslice) {
 476       mFusionReslice = vtkSmartPointer<vtkImageReslice>::New();
 477       mFusionReslice->SetInterpolationModeToLinear();
 478       mFusionReslice->AutoCropOutputOn();
 479       mFusionReslice->SetBackgroundColor(-1000,-1000,-1000,1);
 480     }
 481
 482     mConcatenatedFusionTransform->Identity();
 483     mConcatenatedFusionTransform->Concatenate(mFusion->GetTransform()[0]);
 484     mConcatenatedFusionTransform->Concatenate(mSlicingTransform);
 485     mFusionReslice->SetResliceTransform(mConcatenatedFusionTransform);
 486 #if VTK_MAJOR_VERSION <= 5
 487     mFusionReslice->SetInput(0, mFusion->GetFirstVTKImageData());
 488 #else
 489     mFusionReslice->SetInputData(0, mFusion->GetFirstVTKImageData());
 490 #endif
 491     mFusionReslice->Update();
 492
 493     if (!mFusionMapper)
 494       mFusionMapper = vtkSmartPointer<vtkImageMapToColors>::New();
 495
 496     vtkSmartPointer<vtkLookupTable> lut = vtkLookupTable::New();
 497     lut->SetRange(0, 1);
 498     lut->SetValueRange(0, 1);
 499     lut->SetSaturationRange(0, 0);
 500     lut->Build();
 501     mFusionMapper->SetLookupTable(lut);
 502 #if VTK_MAJOR_VERSION <= 5
 503     mFusionMapper->SetInput(mFusionReslice->GetOutput());
 504 #else
 505     mFusionMapper->SetInputConnection(mFusionReslice->GetOutputPort(0));
 506 #endif
 507
 508     if (!mFusionActor) {
 509       mFusionActor = vtkSmartPointer<vtkImageActor>::New();
 510 #if VTK_MAJOR_VERSION <= 5
 511       mFusionActor->SetInput(mFusionMapper->GetOutput());
 512 #else
 513       mFusionActor->GetMapper()->SetInputConnection(mFusionMapper->GetOutputPort());
 514 #endif
 515       mFusionActor->SetPickable(0);
 516       mFusionActor->SetVisibility(true);
 517       mFusionActor->SetOpacity(0.7);
 518 #if VTK_MAJOR_VERSION >= 6 || (VTK_MAJOR_VERSION >= 5 && VTK_MINOR_VERSION >= 10)
 519       mFusionActor->GetMapper()->BorderOn();
 520 #endif
 521
 522       this->GetRenderer()->AddActor(mFusionActor);
 523     }
 524
 525     //Synchronize orientation and slice
 526     AdjustResliceToSliceOrientation(mFusionReslice);
 527     this->UpdateDisplayExtent();
 528     this->SetTSlice(mCurrentTSlice);
 529   }
 530 }
 531 //------------------------------------------------------------------------------
 532
 533
 534 //------------------------------------------------------------------------------
 535 bool vvSlicer::GetActorVisibility(const std::string& actor_type, int overlay_index)
 536 { //out << __func__ << endl;
 537   bool vis = false;
 538   if (actor_type == "image")
 539     vis = mImageVisibility;
 540   else if (actor_type == "vector")
 541     vis = mVFVisibility;
 542   else if (actor_type == "overlay")
 543     vis = mOverlayVisibility;
 544   else if ( (actor_type == "fusion") || (actor_type == "fusionSequence") )
 545     vis = mFusionVisibility;
 546   else if (actor_type == "contour")
 547     vis = this->mSurfaceCutActors[overlay_index]->GetActor()->GetVisibility();
 548   return vis;
 549 }
 550 //------------------------------------------------------------------------------
 551
 552 //------------------------------------------------------------------------------
 553 void vvSlicer::SetActorVisibility(const std::string& actor_type, int overlay_index ,bool vis)
 554 { //out << __func__ << endl;
 555   if (actor_type == "image")
 556     mImageVisibility = vis;
 557   else if (actor_type == "vector")
 558     mVFVisibility = vis;
 559   else if (actor_type == "overlay")
 560     mOverlayVisibility = vis;
 561   else if ( (actor_type == "fusion") || (actor_type == "fusionSequence") )
 562     mFusionVisibility = vis;
 563   else if (actor_type == "contour")
 564     this->mSurfaceCutActors[overlay_index]->GetActor()->SetVisibility(vis);
 565   UpdateDisplayExtent();
 566 }
 567 //------------------------------------------------------------------------------
 568
 569 //------------------------------------------------------------------------------
 570 void vvSlicer::SetVF(vvImage::Pointer vf)
 571 { //out << __func__ << endl;
 572   if (vf->GetVTKImages().size()) {
 573     mVF = vf;
 574     mVFVisibility = true;
 575
 576     if (!mAAFilter) {
 577       mAAFilter= vtkSmartPointer<vtkAssignAttribute>::New();
 578       mVOIFilter = vtkSmartPointer<vtkExtractVOI>::New();
 579       mVOIFilter->SetSampleRate(mSubSampling,mSubSampling,mSubSampling);
 580     }
 581 #if VTK_MAJOR_VERSION <= 5
 582     mVOIFilter->SetInput(vf->GetFirstVTKImageData());
 583     mAAFilter->SetInput(mVOIFilter->GetOutput());
 584 #else
 585     mVOIFilter->SetInputData(vf->GetFirstVTKImageData());
 586     mAAFilter->SetInputData(mVOIFilter->GetOutput());
 587 #endif
 588     ///This tells VTK to use the scalar (pixel) data of the image to draw the little arrows
 589     mAAFilter->Assign(vtkDataSetAttributes::SCALARS, vtkDataSetAttributes::VECTORS, vtkAssignAttribute::POINT_DATA);
 590
 591     if (!mArrow)
 592       mArrow = vtkSmartPointer<vvGlyphSource>::New();
 593     mArrow->SetGlyphTypeToSpecificArrow();
 594     mArrow->SetScale(mScale);
 595     mArrow->FilledOff();
 596
 597     // Glyph the gradient vector (with arrows)
 598     if (!mGlyphFilter)
 599       mGlyphFilter = vtkSmartPointer<vvGlyph2D>::New();
 600 #if VTK_MAJOR_VERSION <= 5
 601     mGlyphFilter->SetInput(mAAFilter->GetOutput());
 602     mGlyphFilter->SetSource(mArrow->GetOutput());
 603 #else
 604     mGlyphFilter->SetInputData(mAAFilter->GetOutput());
 605     mGlyphFilter->SetSourceData(mArrow->GetOutput());
 606 #endif
 607     mGlyphFilter->ScalingOn();
 608     mGlyphFilter->SetScaleModeToScaleByVector();
 609     mGlyphFilter->OrientOn();
 610     mGlyphFilter->SetVectorModeToUseVector();
 611     mGlyphFilter->SetColorModeToColorByVector();
 612
 613     if (!mVFColorLUT)
 614       mVFColorLUT = vtkSmartPointer<vtkLookupTable>::New();
 615
 616     double mVFColorHSV[3];
 617     vtkMath::RGBToHSV(mVFColor, mVFColorHSV);
 618     mVFColorLUT->SetHueRange(mVFColorHSV[0], mVFColorHSV[0]);
 619     mVFColorLUT->SetSaturationRange(mVFColorHSV[1],mVFColorHSV[1]);
 620     mVFColorLUT->SetValueRange(mVFColorHSV[2], mVFColorHSV[2]);
 621
 622     if (!mVFMapper)
 623       mVFMapper = vtkSmartPointer<vtkPolyDataMapper>::New();
 624 #if VTK_MAJOR_VERSION <= 5
 625     mVFMapper->SetInput(mGlyphFilter->GetOutput());
 626 #else
 627     mVFMapper->SetInputData(mGlyphFilter->GetOutput());
 628 #endif
 629     mVFMapper->ImmediateModeRenderingOn();
 630     mVFMapper->SetLookupTable(mVFColorLUT);
 631
 632     if (!mVFActor)
 633       mVFActor = vtkSmartPointer<vtkActor>::New();
 634     mVFActor->SetMapper(mVFMapper);
 635     mVFActor->SetPickable(0);
 636     mVFActor->GetProperty()->SetLineWidth(mVFWidth);
 637     this->UpdateDisplayExtent();
 638     this->GetRenderer()->AddActor(mVFActor);
 639
 640     //Synchronize slice
 641     SetTSlice(mCurrentTSlice);
 642   }
 643 }
 644 //------------------------------------------------------------------------------
 645
 646
 647 //------------------------------------------------------------------------------
 648 void vvSlicer::SetLandmarks(vvLandmarks* landmarks)
 649 { //out << __func__ << endl;
 650   mLandmarks = landmarks;
 651   if (landmarks) {
 652
 653     if (!mCross)
 654       mCross = vtkSmartPointer<vtkCursor3D>::New();
 655         if (!mClipBox)
 656       mClipBox = vtkSmartPointer<vtkBox>::New();
 657     if (!mLandClipper)
 658       mLandClipper = vtkSmartPointer<vvClipPolyData>::New();
 659     if (!mLandGlyph)
 660       mLandGlyph = vtkSmartPointer<vtkGlyph3D>::New();
 661     if (!mLandMapper)
 662       mLandMapper = vtkSmartPointer<vtkPolyDataMapper>::New();
 663     if (!mLandActor)
 664       mLandActor = vtkSmartPointer<vtkActor>::New();
 665
 666     mCross->SetFocalPoint(0.0,0.0,0.0);
 667     mCross->SetModelBounds(-10,10,-10,10,-10,10);
 668     mCross->AllOff();
 669     mCross->AxesOn();
 670
 671     mLandClipper->SetClipFunction(mClipBox);
 672     mLandClipper->InsideOutOn();
 673 #if VTK_MAJOR_VERSION <= 5
 674     mLandClipper->SetInput(mLandmarks->GetOutput());
 675
 676     mLandGlyph->SetSource(mCross->GetOutput());
 677     mLandGlyph->SetInput(mLandClipper->GetOutput());
 678 #else
 679     mLandClipper->SetInputData(mLandmarks->GetOutput());
 680
 681     mLandGlyph->SetSourceData(mCross->GetOutput());
 682     mLandGlyph->SetInputData(mLandClipper->GetOutput());
 683 #endif
 684     //mLandGlyph->SetIndexModeToScalar();
 685     //mLandGlyph->SetRange(0,1);
 686     //mLandGlyph->ScalingOff();
 687
 688     //mLandGlyph->SetColorModeToColorByScalar();
 689
 690     mLandGlyph->SetScaleModeToDataScalingOff();
 691     mLandGlyph->SetIndexModeToOff();
 692
 693     mLandMapper->SetInputConnection(mLandGlyph->GetOutputPort());
 694     //mLandMapper->ScalarVisibilityOff();
 695
 696     mLandActor->SetMapper(mLandMapper);
 697     mLandActor->GetProperty()->SetColor(255,10,212);
 698     mLandActor->SetPickable(0);
 699     mLandActor->SetVisibility(true);
 700     this->UpdateDisplayExtent();
 701     this->GetRenderer()->AddActor(mLandActor);
 702   }
 703 }
 704 //------------------------------------------------------------------------------
 705
 706 //------------------------------------------------------------------------------
 707 //FIXME: this function leaks memory, we should fix it someday :)
 708 void vvSlicer::RemoveActor(const std::string& actor_type, int overlay_index)
 709 { //out << __func__ << endl;
 710   if (actor_type == "vector") {
 711     Renderer->RemoveActor(mVFActor);
 712     mGlyphFilter=NULL;
 713     mVF = NULL;
 714     mArrow = NULL;
 715     mAAFilter=NULL;
 716     mVOIFilter = NULL;
 717     mVFMapper = NULL;
 718     mVFActor = NULL;
 719   }
 720   if (actor_type == "overlay") {
 721     Renderer->RemoveActor(mOverlayActor);
 722     mOverlay = NULL;
 723     mOverlayActor = NULL;
 724     mOverlayMapper = NULL;
 725   }
 726   if ( (actor_type == "fusion") || (actor_type == "fusionSequence") ) {
 727     Renderer->RemoveActor(mFusionActor);
 728     mFusion = NULL;
 729     mFusionActor = NULL;
 730     mFusionMapper = NULL;
 731   }
 732   if (actor_type == "contour") {
 733     Renderer->RemoveActor(this->mSurfaceCutActors[overlay_index]->GetActor());
 734     mSurfaceCutActors.erase(mSurfaceCutActors.begin()+overlay_index);
 735   }
 736 }
 737 //------------------------------------------------------------------------------
 738
 739
 740 //------------------------------------------------------------------------------
 741 void vvSlicer::SetVFSubSampling(int sub)
 742 { //out << __func__ << endl;
 743   if (mVOIFilter) {
 744     mVOIFilter->SetSampleRate(mSubSampling,mSubSampling,mSubSampling);
 745     mSubSampling = sub;
 746   }
 747   UpdateDisplayExtent();
 748   Render();
 749 }
 750 //------------------------------------------------------------------------------
 751
 752
 753 //------------------------------------------------------------------------------
 754 void vvSlicer::SetVFScale(int scale)
 755 { //out << __func__ << endl;
 756   mScale = scale;
 757   if (mArrow)
 758     mArrow->SetScale(mScale);
 759   UpdateDisplayExtent();
 760   Render();
 761 }
 762 //------------------------------------------------------------------------------
 763
 764 //------------------------------------------------------------------------------
 765 void vvSlicer::SetVFWidth(int width)
 766 { //out << __func__ << endl;
 767   mVFWidth = width;
 768   if (mVFActor)
 769     mVFActor->GetProperty()->SetLineWidth(mVFWidth);
 770   UpdateDisplayExtent();
 771   Render();
 772 }
 773 //------------------------------------------------------------------------------
 774
 775
 776 //------------------------------------------------------------------------------
 777 void vvSlicer::SetVFLog(int log)
 778 { //out << __func__ << endl;
 779   mVFLog = log;
 780   if (mGlyphFilter) {
 781     mGlyphFilter->SetUseLog(mVFLog);
 782     mGlyphFilter->Modified();
 783   }
 784   UpdateDisplayExtent();
 785   Render();
 786 }
 787 //------------------------------------------------------------------------------
 788
 789
 790 //------------------------------------------------------------------------------
 791 void vvSlicer::SetTSlice(int t, bool updateLinkedImages)
 792 { //out << __func__ << endl;
 793         if (!updateLinkedImages) {
 794                 mCurrentTSlice = t;
 795 #if VTK_MAJOR_VERSION <= 5
 796                 mImageReslice->SetInput( mImage->GetVTKImages()[mCurrentTSlice] );
 797 #else
 798                 mImageReslice->SetInputData( mImage->GetVTKImages()[mCurrentTSlice] );
 799 #endif
 800                 // Update transform
 801                 mConcatenatedTransform->Identity();
 802                 mConcatenatedTransform->Concatenate(mImage->GetTransform()[mCurrentTSlice]);
 803                 mConcatenatedTransform->Concatenate(mSlicingTransform);
 804                 UpdateDisplayExtent();
 805                 return;
 806         }
 807   if (t < 0)
 808     mCurrentTSlice = 0;
 809   else if ((unsigned int)t >= mImage->GetVTKImages().size())
 810     mCurrentTSlice = mImage->GetVTKImages().size() -1;
 811   else
 812     mCurrentTSlice = t;
 813
 814   // Update transform
 815   mConcatenatedTransform->Identity();
 816   mConcatenatedTransform->Concatenate(mImage->GetTransform()[mCurrentTSlice]);
 817   mConcatenatedTransform->Concatenate(mSlicingTransform);
 818
 819   // Update image data
 820 #if VTK_MAJOR_VERSION <= 5
 821    mImageReslice->SetInput( mImage->GetVTKImages()[mCurrentTSlice] );
 822 #else
 823   mImageReslice->SetInputData( mImage->GetVTKImages()[mCurrentTSlice] );
 824 #endif
 825   if (mVF && mVFActor->GetVisibility()) {
 826     if (mVF->GetVTKImages().size() > (unsigned int)mCurrentTSlice)
 827 #if VTK_MAJOR_VERSION <= 5
 828       mVOIFilter->SetInput(mVF->GetVTKImages()[mCurrentTSlice]);
 829 #else
 830       mVOIFilter->SetInputData(mVF->GetVTKImages()[mCurrentTSlice]);
 831 #endif
 832   }
 833   //update the overlay
 834   if (mOverlay && mOverlayActor->GetVisibility()) {
 835     if (mOverlay->GetVTKImages().size() > (unsigned int)t) {
 836       mCurrentOverlayTSlice = t;
 837 #if VTK_MAJOR_VERSION <= 5
 838       mOverlayReslice->SetInput( mOverlay->GetVTKImages()[mCurrentOverlayTSlice] );
 839 #else
 840       mOverlayReslice->SetInputData( mOverlay->GetVTKImages()[mCurrentOverlayTSlice] );
 841 #endif
 842       // Update overlay transform
 843       mConcatenatedOverlayTransform->Identity();
 844       mConcatenatedOverlayTransform->Concatenate(mOverlay->GetTransform()[mCurrentOverlayTSlice]);
 845       mConcatenatedOverlayTransform->Concatenate(mSlicingTransform);
 846     }
 847   }
 848   //update the fusion ; except in case this is a fusionSequence, in which case both 'times' should be independent.
 849   if (mFusion && mFusionActor->GetVisibility() && (mFusionSequenceCode<0)) {
 850     if (mFusion->GetVTKImages().size() > (unsigned int)t) {
 851       mCurrentFusionTSlice = t;
 852 #if VTK_MAJOR_VERSION <= 5
 853       mFusionReslice->SetInput( mFusion->GetVTKImages()[mCurrentFusionTSlice]);
 854 #else
 855       mFusionReslice->SetInputData( mFusion->GetVTKImages()[mCurrentFusionTSlice]);
 856 #endif
 857
 858       // Update fusion transform
 859       mConcatenatedFusionTransform->Identity();
 860       mConcatenatedFusionTransform->Concatenate(mFusion->GetTransform()[mCurrentFusionTSlice]);
 861       mConcatenatedFusionTransform->Concatenate(mSlicingTransform);
 862     }
 863   }
 864   if (mSurfaceCutActors.size() > 0)
 865     for (std::vector<vvMeshActor*>::iterator i=mSurfaceCutActors.begin();
 866          i!=mSurfaceCutActors.end(); i++)
 867       (*i)->SetTimeSlice(mCurrentTSlice);
 868   UpdateDisplayExtent();
 869 }
 870 //------------------------------------------------------------------------------
 871
 872
 873 //------------------------------------------------------------------------------
 874 void vvSlicer::SetFusionSequenceTSlice(int t)
 875 { //out << __func__ << endl;
 876   if (mFusion && mFusionActor->GetVisibility() && (mFusionSequenceCode>=0)) {
 877     if (mFusion->GetVTKImages().size() > (unsigned int)t) {
 878       mCurrentFusionTSlice = t;
 879 #if VTK_MAJOR_VERSION <= 5
 880       mFusionReslice->SetInput( mFusion->GetVTKImages()[mCurrentFusionTSlice] );
 881 #else
 882       mFusionReslice->SetInputData( mFusion->GetVTKImages()[mCurrentFusionTSlice] );
 883 #endif
 884       // Update fusion transform
 885       mConcatenatedFusionTransform->Identity();
 886       mConcatenatedFusionTransform->Concatenate(mFusion->GetTransform()[mCurrentFusionTSlice]); //not really useful...
 887       mConcatenatedFusionTransform->Concatenate(mSlicingTransform);
 888     }
 889   }
 890
 891   UpdateDisplayExtent();
 892 }
 893 //------------------------------------------------------------------------------
 894
 895
 896 //------------------------------------------------------------------------------
 897 int vvSlicer::GetTSlice()
 898 { //out << __func__ << endl;
 899   return mCurrentTSlice;
 900 }
 901 //------------------------------------------------------------------------------
 902
 903 //------------------------------------------------------------------------------
 904 int vvSlicer::GetMaxCurrentTSlice()
 905 { //out << __func__ << endl;
 906   int t = mCurrentTSlice;
 907   if(mOverlay)
 908     t = std::max(t, mCurrentOverlayTSlice);
 909   if(mFusion&& (mFusionSequenceCode<0)) //ignore fusionSequence data: for these, the times are not to be related (this way)
 910     t = std::max(t, mCurrentFusionTSlice);
 911   return t;
 912 }
 913 //------------------------------------------------------------------------------
 914
 915 //------------------------------------------------------------------------------
 916 int vvSlicer::GetFusionTSlice()
 917 { //out << __func__ << endl;
 918   return mCurrentFusionTSlice;
 919 }
 920 //------------------------------------------------------------------------------
 921
 922 //------------------------------------------------------------------------------
 923 int vvSlicer::GetOverlayTSlice()
 924 { //out << __func__ << endl;
 925   return mCurrentOverlayTSlice;
 926 }
 927 //------------------------------------------------------------------------------
 928
 929 //------------------------------------------------------------------------------
 930 void vvSlicer::SetSliceOrientation(int orientation)
 931 { //out << __func__ << endl;
 932   //if 2D image, force to watch in Axial View
 933   int extent[6];
 934 #if VTK_MAJOR_VERSION <= 5
 935     this->GetInput()->GetWholeExtent(extent);
 936 #else
 937     int* ext = mImageReslice->GetInputInformation()->Get(vtkStreamingDemandDrivenPipeline::WHOLE_EXTENT());
 938     copyExtent(ext, extent);
 939 #endif
 940
 941   if (extent[5]-extent[4] <= 2)
 942     orientation = vtkImageViewer2::SLICE_ORIENTATION_XY;
 943
 944   if (orientation < vtkImageViewer2::SLICE_ORIENTATION_YZ ||
 945       orientation > vtkImageViewer2::SLICE_ORIENTATION_XY) {
 946     vtkErrorMacro("Error - invalid slice orientation " << orientation);
 947     return;
 948   }
 949
 950   this->SliceOrientation = orientation;
 951
 952   if(mFusion)
 953     AdjustResliceToSliceOrientation(mFusionReslice);
 954
 955   if(mOverlay)
 956     AdjustResliceToSliceOrientation(mOverlayReslice);
 957
 958   // Update the viewer
 959
 960   // Go to current cursor position
 961   // double* cursorPos = GetCursorPosition();
 962   // DDV(cursorPos, 3);
 963   // SetCurrentPosition(cursorPos[0],cursorPos[1],cursorPos[2],cursorPos[3]);
 964
 965   if (mFirstSetSliceOrientation) {
 966     int *range = this->GetSliceRange();
 967     if (range)
 968       this->Slice = static_cast<int>((range[0] + range[1]) * 0.5);
 969 #if VTK_MAJOR_VERSION <= 5
 970       mFirstSetSliceOrientation = false;
 971 #endif
 972   }
 973   else if (this->Renderer && this->GetInput()) {
 974     double s = mCursor[orientation];
 975     double sCursor = (s - this->GetInput()->GetOrigin()[orientation])/this->GetInput()->GetSpacing()[orientation];
 976     this->Slice = static_cast<int>(sCursor);
 977   }
 978
 979   this->UpdateOrientation();
 980
 981   this->UpdateDisplayExtent();
 982
 983   if (mFirstSetSliceOrientation) {
 984     mFirstSetSliceOrientation = false;
 985   }
 986
 987   if (this->Renderer && this->GetInput()) {
 988     double scale = this->Renderer->GetActiveCamera()->GetParallelScale();
 989     this->Renderer->ResetCamera();
 990     this->Renderer->GetActiveCamera()->SetParallelScale(scale);
 991   }
 992
 993   SetContourSlice();
 994 }
 995 //----------------------------------------------------------------------------
 996
 997 //------------------------------------------------------------------------------
 998 // This function ensures that we sample the slices of a vtkImageReslice filter
 999 // in the direction of the slicer (SliceOrientation) similarly as mImageReslice.
1000 // In other words, we change the grid of the reslice in the same way as the grid
1001 // of the displayed image in the slicing direction.
1002 void vvSlicer::AdjustResliceToSliceOrientation(vtkImageReslice *reslice)
1003 { //out << __func__ << endl;
1004   // Reset autocrop and update output information
1005   reslice->SetOutputOriginToDefault();
1006   reslice->SetOutputSpacingToDefault();
1007 #if VTK_MAJOR_VERSION <= 5
1008   reslice->GetOutput()->UpdateInformation();
1009 #else
1010   reslice->UpdateInformation();
1011 #endif
1012
1013   // Ge new origin / spacing
1014   double origin[3];
1015   double spacing[3];
1016   reslice->GetOutput()->GetOrigin(origin);
1017   reslice->GetOutput()->GetSpacing(spacing);
1018
1019   // Use similar spacing as the image in the direction SliceOrientation
1020   spacing[this->SliceOrientation] = mImageReslice->GetOutput()->GetSpacing()[this->SliceOrientation];
1021
1022   // Modify origin to be on the image grid in the direction SliceOrientation in 3 steps
1023   // Step 1: from world coordinates to image coordinates
1024   origin[this->SliceOrientation] -= mImageReslice->GetOutput()->GetOrigin()[this->SliceOrientation];
1025   origin[this->SliceOrientation] /= mImageReslice->GetOutput()->GetSpacing()[this->SliceOrientation];
1026
1027   // Step 2: round to nearest grid positionInc. This has been validated as the only
1028   // way to have something consistent with the thickness of a 2D slice visible on the
1029   // other slices. The thickness is accounted for so if the 2D slice is to thin and
1030   // between two slices, one will never be able to see this 2D slice (bug #1883).
1031   origin[this->SliceOrientation] = itk::Math::Round<double>(origin[this->SliceOrientation]);
1032
1033   // Step 3: back to world coordinates
1034   origin[this->SliceOrientation] *= mImageReslice->GetOutput()->GetSpacing()[this->SliceOrientation];
1035   origin[this->SliceOrientation] += mImageReslice->GetOutput()->GetOrigin()[this->SliceOrientation];
1036
1037   // Set new spacing and origin
1038   reslice->SetOutputOrigin(origin);
1039   reslice->SetOutputSpacing(spacing);
1040   reslice->UpdateInformation();
1041 }
1042 //------------------------------------------------------------------------------
1043
1044 //----------------------------------------------------------------------------
1045 int * vvSlicer::GetExtent()
1046 { //out << __func__ << endl;
1047   int *w_ext;
1048   if (mUseReducedExtent) {
1049     w_ext = mReducedExtent;
1050   }
1051   else {
1052 #if VTK_MAJOR_VERSION <= 5
1053     w_ext = GetInput()->GetWholeExtent();
1054 #else
1055     w_ext = mImageReslice->GetInputInformation()->Get(vtkStreamingDemandDrivenPipeline::WHOLE_EXTENT());
1056 #endif
1057   }
1058   return w_ext;
1059 }
1060 //----------------------------------------------------------------------------
1061
1062
1063 //----------------------------------------------------------------------------
1064 int vvSlicer::GetOrientation()
1065 { //out << __func__ << endl;
1066   return this->SliceOrientation;
1067 }
1068 //----------------------------------------------------------------------------
1069
1070
1071 //----------------------------------------------------------------------------
1072 void vvSlicer::UpdateDisplayExtent()
1073 { //out << __func__ << endl;
1074   vtkImageData *input = this->GetInput();
1075
1076   if (!input || !this->ImageActor) {
1077     return;
1078   }
1079
1080 #if VTK_MAJOR_VERSION <= 5
1081   input->UpdateInformation();
1082 #endif
1083   this->SetSlice( this->GetSlice() ); //SR: make sure the update let the slice in extents
1084
1085   // Local copy of extent
1086   int w_ext[6];
1087   int* ext = GetExtent();
1088   copyExtent(ext, w_ext);
1089
1090   // Set slice value
1091
1092   w_ext[ this->SliceOrientation*2   ] = this->Slice;
1093   w_ext[ this->SliceOrientation*2+1 ] = this->Slice;
1094
1095   // Image actor
1096   this->ImageActor->SetVisibility(mImageVisibility);
1097   this->ImageActor->SetDisplayExtent(w_ext);
1098 #if VTK_MAJOR_VERSION >= 6
1099   vtkSmartPointer<vtkOpenGLImageSliceMapper> mapperOpenGL= vtkSmartPointer<vtkOpenGLImageSliceMapper>::New();
1100
1101   try {
1102         mapperOpenGL = dynamic_cast<vtkOpenGLImageSliceMapper*>(GetImageActor()->GetMapper());
1103   } catch (const std::bad_cast& e) {
1104                 std::cerr << e.what() << std::endl;
1105                 std::cerr << "Conversion error" << std::endl;
1106                 return;
1107   }
1108   if (mFirstSetSliceOrientation) {
1109     copyExtent(ext, mRegisterExtent);
1110   } else {
1111     int w_croppingRegion[6];
1112     if (mUseReducedExtent) {
1113         copyExtent(mReducedExtent, w_croppingRegion);
1114     } else {
1115         copyExtent(mRegisterExtent, w_croppingRegion);
1116     }
1117     this->ImageActor->SetDisplayExtent(w_ext);
1118     w_croppingRegion[ this->SliceOrientation*2   ] = this->Slice;
1119     w_croppingRegion[ this->SliceOrientation*2+1 ] = this->Slice;
1120     mapperOpenGL->SetCroppingRegion(w_croppingRegion);
1121   }
1122 #endif
1123
1124 #if VTK_MAJOR_VERSION >= 6 || (VTK_MAJOR_VERSION >= 5 && VTK_MINOR_VERSION >= 10)
1125   // Fix for bug #1882
1126   dynamic_cast<vtkImageSliceMapper *>(this->ImageActor->GetMapper())->SetOrientation(this->GetOrientation());
1127 #endif
1128
1129   // Overlay image actor
1130   if (mOverlay && mOverlayVisibility) {
1131     AdjustResliceToSliceOrientation(mOverlayReslice);
1132     int overExtent[6];
1133     this->ConvertImageToImageDisplayExtent(input, w_ext, mOverlayReslice->GetOutput(), overExtent);
1134 #if VTK_MAJOR_VERSION <= 5
1135     bool out = ClipDisplayedExtent(overExtent, mOverlayMapper->GetInput()->GetWholeExtent());
1136 #else
1137     bool out = ClipDisplayedExtent(overExtent, mImage->GetVTKImages()[mCurrentTSlice]->GetInformation()->Get(vtkDataObject::DATA_EXTENT()));
1138 #endif
1139     mOverlayActor->SetVisibility(!out);
1140     mOverlayActor->SetDisplayExtent( overExtent );
1141 #if VTK_MAJOR_VERSION >= 6 || (VTK_MAJOR_VERSION >= 5 && VTK_MINOR_VERSION >= 10)
1142     // Fix for bug #1882
1143     dynamic_cast<vtkImageSliceMapper *>(mOverlayActor->GetMapper())->SetOrientation(this->GetOrientation());
1144 #endif
1145   }
1146   else if(mOverlay)
1147     mOverlayActor->SetVisibility(false);
1148
1149   // Fusion image actor
1150   if (mFusion && mFusionVisibility) {
1151     AdjustResliceToSliceOrientation(mFusionReslice);
1152     int fusExtent[6];
1153     this->ConvertImageToImageDisplayExtent(input, w_ext, mFusionReslice->GetOutput(), fusExtent);
1154 #if VTK_MAJOR_VERSION <= 5
1155     bool out = ClipDisplayedExtent(fusExtent, mFusionMapper->GetInput()->GetWholeExtent());
1156 #else
1157     bool out = ClipDisplayedExtent(fusExtent, mImage->GetVTKImages()[mCurrentTSlice]->GetInformation()->Get(vtkDataObject::DATA_EXTENT()));
1158 #endif
1159     mFusionActor->SetVisibility(!out);
1160     mFusionActor->SetDisplayExtent( fusExtent );
1161 #if VTK_MAJOR_VERSION >= 6 || (VTK_MAJOR_VERSION >= 5 && VTK_MINOR_VERSION >= 10)
1162     // Fix for bug #1882
1163     dynamic_cast<vtkImageSliceMapper *>(mFusionActor->GetMapper())->SetOrientation(this->GetOrientation());
1164 #endif
1165   }
1166   else if(mFusion)
1167     mFusionActor->SetVisibility(false);
1168   // Vector field actor
1169   double* camera = Renderer->GetActiveCamera()->GetPosition();
1170   double* image_bounds = ImageActor->GetBounds();
1171   double position[3] = {0, 0, 0};
1172   position[this->SliceOrientation] = image_bounds[this->SliceOrientation*2];
1173
1174   //print_vector<double, 6>("camera", camera);
1175   //print_vector<double, 6>("image_bounds", image_bounds);
1176   //print_vector<double, 3>("position", position);
1177
1178   // find where to place the VF actor. to deal with
1179   // z-buffer issues, the VF is placed right in front of the image,
1180   // subject to a small offset. the position actually depends on the
1181   // the location of the camera relative to the image.
1182   double offset = 1;
1183   if (camera[this->SliceOrientation] < image_bounds[this->SliceOrientation*2])
1184     offset = -1;
1185
1186   if (mVF && mVFVisibility) {
1187     int vfExtent[6];
1188 #if VTK_MAJOR_VERSION <= 5
1189     mVF->GetVTKImages()[0]->UpdateInformation();
1190 #else
1191     //this->UpdateInformation();
1192 #endif
1193     this->ConvertImageToImageDisplayExtent(input, w_ext, mVF->GetVTKImages()[0], vfExtent);
1194 #if VTK_MAJOR_VERSION <= 5
1195     bool out = ClipDisplayedExtent(vfExtent, mVOIFilter->GetInput()->GetWholeExtent());
1196 #else
1197     bool out = ClipDisplayedExtent(vfExtent, mVOIFilter->GetInput()->GetInformation()->Get(vtkDataObject::DATA_EXTENT()));
1198 #endif
1199     mVFActor->SetVisibility(!out);
1200     mVOIFilter->SetVOI(vfExtent);
1201     int orientation[3] = {1,1,1};
1202     orientation[this->SliceOrientation] = 0;
1203     mGlyphFilter->SetOrientation(orientation[0], orientation[1], orientation[2]);
1204     mVFMapper->Update();
1205
1206     position[this->SliceOrientation] += offset;
1207     mVFActor->SetPosition(position);
1208   }
1209   else if(mVF)
1210     mVFActor->SetVisibility(false);
1211
1212   // Landmarks actor
1213   if (mLandActor) {
1214     if (mClipBox) {
1215       double bounds [6];
1216       for(unsigned int i=0; i<6; i++)
1217         bounds[i] = ImageActor->GetBounds()[i];
1218       bounds[ this->SliceOrientation*2   ] = ImageActor->GetBounds()[ this->SliceOrientation*2  ]-fabs(this->GetInput()->GetSpacing()[this->SliceOrientation]);
1219       bounds[ this->SliceOrientation*2+1 ] = ImageActor->GetBounds()[ this->SliceOrientation*2+1 ]+fabs(this->GetInput()->GetSpacing()[this->SliceOrientation]);
1220       mClipBox->SetBounds(bounds);
1221       UpdateLandmarks();
1222     }
1223
1224     position[this->SliceOrientation] = offset;
1225     mLandActor->SetPosition(position);
1226   }
1227
1228   // Figure out the correct clipping range
1229   if (this->Renderer) {
1230     if (this->InteractorStyle &&
1231         this->InteractorStyle->GetAutoAdjustCameraClippingRange()) {
1232       this->Renderer->ResetCameraClippingRange();
1233     } else {
1234       vtkCamera *cam = this->Renderer->GetActiveCamera();
1235       if (cam) {
1236         double bounds[6];
1237         this->ImageActor->GetBounds(bounds);
1238         double spos = (double)bounds[this->SliceOrientation * 2];
1239         double cpos = (double)cam->GetPosition()[this->SliceOrientation];
1240         double range = fabs(spos - cpos);
1241         double *spacing = input->GetSpacing();
1242         double sumSpacing = spacing[0] + spacing[1] + spacing[2];
1243         cam->SetClippingRange(range - sumSpacing, range + sumSpacing);
1244       }
1245     }
1246   }
1247 }
1248 //----------------------------------------------------------------------------
1249
1250 //----------------------------------------------------------------------------
1251 void vvSlicer::ConvertImageToImageDisplayExtent(vtkImageData *sourceImage, const int sourceExtent[6],
1252                                                 vtkImageData *targetImage, int targetExtent[6])
1253 { //out << __func__ << endl;
1254   double dExtents[6];
1255   for(unsigned int i=0; i<6; i++) {
1256     // From source voxel coordinates to world coordinates
1257     dExtents[i] = sourceImage->GetOrigin()[i/2] + sourceImage->GetSpacing()[i/2] * sourceExtent[i];
1258
1259     // From world coordinates to floating point target voxel coordinates
1260     dExtents[i] = (dExtents[i]- targetImage->GetOrigin()[i/2]) / targetImage->GetSpacing()[i/2];
1261
1262     // Round to current slice or larger extent
1263     if(i/2==this->GetOrientation())
1264       targetExtent[i] = itk::Math::Round<double>(dExtents[i]);
1265     else if(i%2==1)
1266       targetExtent[i] = itk::Math::Ceil<double>(dExtents[i]);
1267     else
1268       targetExtent[i] = itk::Math::Floor<double>(dExtents[i]);
1269   }
1270 }
1271 //----------------------------------------------------------------------------
1272
1273 //----------------------------------------------------------------------------
1274 bool vvSlicer::ClipDisplayedExtent(int extent[6], int refExtent[6])
1275 { //out << __func__ << endl;
1276   bool out = false;
1277   int maxBound = 6;
1278
1279   for (int i = 0; i < maxBound; i = i+2) {
1280     //if we are totally outside the image
1281     if ( extent[i] > refExtent[i+1] || extent[i+1] < refExtent[i] ) {
1282       out = true;
1283       break;
1284     }
1285     //crop to the limit of the image
1286     extent[i] = std::max(extent[i], refExtent[i]);
1287     extent[i] = std::min(extent[i], refExtent[i+1]);;
1288     extent[i+1] = std::max(extent[i+1], refExtent[i]);
1289     extent[i+1] = std::min(extent[i+1], refExtent[i+1]);;
1290   }
1291   if (out)
1292     for (int i = 0; i < maxBound; i = i+2) {
1293       extent[i] = refExtent[i];
1294       extent[i+1] = refExtent[i];
1295     }
1296   return out;
1297 }
1298 //----------------------------------------------------------------------------
1299
1300
1301 //----------------------------------------------------------------------------
1302 void vvSlicer::UpdateOrientation()
1303 { //out << __func__ << endl;
1304   // Set the camera position
1305   vtkCamera *cam = this->Renderer ? this->Renderer->GetActiveCamera() : NULL;
1306   if (cam) {
1307     switch (this->SliceOrientation) {
1308     case vtkImageViewer2::SLICE_ORIENTATION_XY:
1309       cam->SetFocalPoint(0,0,0);
1310       cam->SetPosition(0,0,-1); // -1 if medical ?
1311       cam->SetViewUp(0,-1,0);
1312       break;
1313
1314     case vtkImageViewer2::SLICE_ORIENTATION_XZ:
1315       cam->SetFocalPoint(0,0,0);
1316       cam->SetPosition(0,-1,0); // 1 if medical ?
1317       cam->SetViewUp(0,0,1);
1318       break;
1319
1320     case vtkImageViewer2::SLICE_ORIENTATION_YZ:
1321       cam->SetFocalPoint(0,0,0);
1322       cam->SetPosition(-1,0,0); // -1 if medical ?
1323       cam->SetViewUp(0,0,1);
1324       break;
1325     }
1326   }
1327 }
1328 //----------------------------------------------------------------------------
1329
1330
1331 //----------------------------------------------------------------------------
1332 void vvSlicer::SetOpacity(double s)
1333 { //out << __func__ << endl;
1334   this->GetImageActor()->SetOpacity(s);
1335 }
1336 //----------------------------------------------------------------------------
1337
1338
1339 //----------------------------------------------------------------------------
1340 void vvSlicer::SetRenderWindow(int orientation, vtkRenderWindow * rw)
1341 { //out << __func__ << endl;
1342   this->Superclass::SetRenderWindow(rw);
1343   this->SetupInteractor(rw->GetInteractor());
1344   ca->SetImageActor(this->GetImageActor());
1345   ca->SetWindowLevel(this->GetWindowLevel());
1346   ca->SetText(3, "<window>\n<level>");
1347
1348   double bounds[6];
1349   double max = 65000;
1350
1351   bounds[0] = -max;
1352   bounds[1] = max;
1353   bounds[2] = -max;
1354   bounds[3] = max;
1355   bounds[4] = -max;
1356   bounds[5] = max;
1357   crossCursor->SetModelBounds(bounds);
1358
1359   this->GetRenderer()->AddActor(pdmA);
1360   this->GetRenderer()->AddActor(ca);
1361   this->GetRenderer()->ResetCamera();
1362
1363   //this is just a mapping between the labeling of the orientations presented to the user and
1364   //the one used by vtk
1365   SetSliceOrientation(2-(orientation%3));
1366   ResetCamera();
1367 }
1368 //----------------------------------------------------------------------------
1369
1370
1371 //----------------------------------------------------------------------------
1372 void vvSlicer::ResetCamera()
1373 { //out << __func__ << endl;
1374   this->GetRenderer()->ResetCamera();
1375 }
1376 //----------------------------------------------------------------------------
1377
1378
1379 //----------------------------------------------------------------------------
1380 void vvSlicer::SetDisplayMode(bool i)
1381 { //out << __func__ << endl;
1382         this->GetRenderer()->SetDraw(i);
1383         if (i) UpdateDisplayExtent();
1384 }
1385 //----------------------------------------------------------------------------
1386
1387
1388 //----------------------------------------------------------------------------
1389 void vvSlicer::FlipHorizontalView()
1390 { //out << __func__ << endl;
1391   vtkCamera *cam = this->Renderer ? this->Renderer->GetActiveCamera() : NULL;
1392   if (cam) {
1393     double *position = cam->GetPosition();
1394     double factor[3] = {1, 1, 1};
1395     factor[this->SliceOrientation] = -1;
1396     cam->SetPosition(factor[0]*position[0],factor[1]*position[1],factor[2]*position[2]);
1397
1398 /*    switch (this->SliceOrientation) {
1399     case vtkImageViewer2::SLICE_ORIENTATION_XY:
1400       cam->SetPosition(position[0],position[1],-position[2]);
1401       break;
1402
1403     case vtkImageViewer2::SLICE_ORIENTATION_XZ:
1404       cam->SetPosition(position[0],-position[1],position[2]);
1405       break;
1406
1407     case vtkImageViewer2::SLICE_ORIENTATION_YZ:
1408       cam->SetPosition(-position[0],position[1],position[2]);
1409       break;
1410     }*/
1411
1412     this->Renderer->ResetCameraClippingRange();
1413     this->UpdateDisplayExtent();
1414   }
1415 }
1416 //----------------------------------------------------------------------------
1417
1418
1419 //----------------------------------------------------------------------------
1420 void vvSlicer::FlipVerticalView()
1421 { //out << __func__ << endl;
1422   vtkCamera *cam = this->Renderer ? this->Renderer->GetActiveCamera() : NULL;
1423   if (cam) {
1424     FlipHorizontalView();
1425     double *viewup = cam->GetViewUp();
1426     cam->SetViewUp(-viewup[0],-viewup[1],-viewup[2]);
1427     this->UpdateDisplayExtent();
1428   }
1429 }
1430 //----------------------------------------------------------------------------
1431
1432
1433 //----------------------------------------------------------------------------
1434 void vvSlicer::SetColorWindow(double window)
1435 { //out << __func__ << endl;
1436   vtkLookupTable* LUT = static_cast<vtkLookupTable*>(this->GetWindowLevel()->GetLookupTable());
1437   if ( LUT ) {
1438     double level = this->GetWindowLevel()->GetLevel();
1439     LUT->SetTableRange(level-fabs(window)/2,level+fabs(window)/2);
1440     LUT->Build();
1441   }
1442   this->vtkImageViewer2::SetColorWindow(window);
1443 }
1444 //----------------------------------------------------------------------------
1445
1446 //----------------------------------------------------------------------------
1447 void vvSlicer::SetColorLevel(double level)
1448 { //out << __func__ << endl;
1449   vtkLookupTable* LUT = static_cast<vtkLookupTable*>(this->GetWindowLevel()->GetLookupTable());
1450   if ( LUT ) {
1451     double window = this->GetWindowLevel()->GetWindow();
1452     LUT->SetTableRange(level-fabs(window)/2,level+fabs(window)/2);
1453     LUT->Build();
1454   }
1455   this->vtkImageViewer2::SetColorLevel(level);
1456 }
1457 //----------------------------------------------------------------------------
1458
1459 //----------------------------------------------------------------------------
1460 double vvSlicer::GetOverlayColorWindow()
1461 { //out << __func__ << endl;
1462   if(mOverlayMapper)
1463     return mOverlayMapper->GetWindow();
1464   else
1465     return 0.;
1466 }
1467 //----------------------------------------------------------------------------
1468
1469 //----------------------------------------------------------------------------
1470 double vvSlicer::GetOverlayColorLevel()
1471 { //out << __func__ << endl;
1472   if(mOverlayMapper)
1473     return mOverlayMapper->GetLevel();
1474   else
1475     return 0.;
1476 }
1477 //----------------------------------------------------------------------------
1478
1479 //----------------------------------------------------------------------------
1480 void vvSlicer::SetOverlayColorWindow(double window)
1481 { //out << __func__ << endl;
1482   if(mOverlayMapper)
1483     mOverlayMapper->SetWindow(window);
1484 }
1485 //----------------------------------------------------------------------------
1486
1487 //----------------------------------------------------------------------------
1488 void vvSlicer::SetOverlayColorLevel(double level)
1489 { //out << __func__ << endl;
1490   if(mOverlayMapper)
1491     mOverlayMapper->SetLevel(level);
1492 }
1493 //----------------------------------------------------------------------------
1494
1495 //----------------------------------------------------------------------------
1496 // Returns the min an the max value in a 20%x20% region around the mouse pointer
1497 void vvSlicer::GetExtremasAroundMousePointer(double & min, double & max, vtkImageData *image, vtkTransform *transform)
1498 { //out << __func__ << endl;
1499   //Get mouse pointer position in view coordinates
1500   double corner1[3];
1501   double corner2[3];
1502   for(int i=0; i<3; i++) {
1503     corner1[i] = mCurrent[i];
1504     corner2[i] = mCurrent[i];
1505   }
1506
1507   this->Renderer->WorldToView(corner1[0], corner1[1], corner1[2]);
1508   this->Renderer->WorldToView(corner2[0], corner2[1], corner2[2]);
1509
1510   // In view coordinates, x is the slicer width and y is the slicer height are the in-plane axis
1511   int w, h;
1512   this->Renderer->GetTiledSize(&w, &h);
1513   corner1[0] -= 0.2*h/(double)w;
1514   corner2[0] += 0.2*h/(double)w;
1515   corner1[1] -= 0.2;
1516   corner2[1] += 0.2;
1517   this->Renderer->ViewToWorld(corner1[0], corner1[1], corner1[2]);
1518   this->Renderer->ViewToWorld(corner2[0], corner2[1], corner2[2]);
1519
1520   //Convert to image pixel coordinates (rounded)
1521   transform->TransformPoint(corner1, corner1);
1522   transform->TransformPoint(corner2, corner2);
1523   int iLocalExtents[6];
1524   for(int i=0; i<3; i++) {
1525     corner1[i] = (corner1[i] - image->GetOrigin()[i])/image->GetSpacing()[i];
1526     corner2[i] = (corner2[i] - image->GetOrigin()[i])/image->GetSpacing()[i];
1527
1528     iLocalExtents[i*2  ] = lrint(corner1[i]);
1529     iLocalExtents[i*2+1] = lrint(corner2[i]);
1530
1531     if(iLocalExtents[i*2  ]>iLocalExtents[i*2+1])
1532       std::swap(iLocalExtents[i*2], iLocalExtents[i*2+1]);
1533   }
1534
1535   vtkSmartPointer<vtkExtractVOI> voiFilter = vtkSmartPointer<vtkExtractVOI>::New();
1536 #if VTK_MAJOR_VERSION <= 5
1537   voiFilter->SetInput(image);
1538 #else
1539   voiFilter->SetInputData(image);
1540 #endif
1541   voiFilter->SetVOI(iLocalExtents);
1542   voiFilter->Update();
1543   if (!voiFilter->GetOutput()->GetNumberOfPoints()) {
1544     min = 0;
1545     max = 0;
1546     return;
1547   }
1548
1549   vtkSmartPointer<vtkImageAccumulate> accFilter = vtkSmartPointer<vtkImageAccumulate>::New();
1550 #if VTK_MAJOR_VERSION <= 5
1551   accFilter->SetInput(voiFilter->GetOutput());
1552 #else
1553   accFilter->SetInputConnection(voiFilter->GetOutputPort(0));
1554 #endif
1555   accFilter->Update();
1556
1557   min = *(accFilter->GetMin());
1558   max = *(accFilter->GetMax());
1559 }
1560 //----------------------------------------------------------------------------
1561
1562 //----------------------------------------------------------------------------
1563 double vvSlicer::GetScalarComponentAsDouble(vtkImageData *image, double X, double Y, double Z, int &ix, int &iy, int &iz, int component)
1564 { //out << __func__ << endl;
1565   ix = lrint(X);
1566   iy = lrint(Y);
1567   iz = lrint(Z);
1568 #if VTK_MAJOR_VERSION <= 5
1569   if (ix < image->GetWholeExtent()[0] ||
1570       ix > image->GetWholeExtent()[1] ||
1571       iy < image->GetWholeExtent()[2] ||
1572       iy > image->GetWholeExtent()[3] ||
1573       iz < image->GetWholeExtent()[4] ||
1574       iz > image->GetWholeExtent()[5] )
1575     return std::numeric_limits<double>::quiet_NaN();
1576   image->SetUpdateExtent(ix, ix, iy, iy, iz, iz);
1577   image->Update();
1578 #else
1579   if (ix < image->GetInformation()->Get(vtkDataObject::DATA_EXTENT())[0] ||
1580       ix > image->GetInformation()->Get(vtkDataObject::DATA_EXTENT())[1] ||
1581       iy < image->GetInformation()->Get(vtkDataObject::DATA_EXTENT())[2] ||
1582       iy > image->GetInformation()->Get(vtkDataObject::DATA_EXTENT())[3] ||
1583       iz < image->GetInformation()->Get(vtkDataObject::DATA_EXTENT())[4] ||
1584       iz > image->GetInformation()->Get(vtkDataObject::DATA_EXTENT())[5] )
1585     return std::numeric_limits<double>::quiet_NaN();
1586   //image->SetUpdateExtent(ix, ix, iy, iy, iz, iz);
1587   //image->Update();
1588 #endif
1589
1590   return image->GetScalarComponentAsDouble(ix, iy, iz, component);
1591 }
1592 //----------------------------------------------------------------------------
1593
1594 //----------------------------------------------------------------------------
1595 void vvSlicer::Render()
1596 { //out << __func__ << endl;
1597
1598   if (this->mFusion && mFusionActor->GetVisibility() && showFusionLegend) {
1599     legend->SetLookupTable(this->GetFusionMapper()->GetLookupTable());
1600     legend->UseOpacityOn();
1601     legend->SetVisibility(1);
1602   }
1603   else if (this->GetWindowLevel()->GetLookupTable() && !this->mOverlay)  {
1604     legend->SetLookupTable(this->GetWindowLevel()->GetLookupTable());
1605     legend->UseOpacityOff();
1606     legend->SetVisibility(1);
1607   } else legend->SetVisibility(0);
1608
1609   if (ca->GetVisibility()) {
1610     std::stringstream worldPos(" ");
1611     double pt[3];
1612     mConcatenatedTransform->TransformPoint(mCurrent, pt);
1613     double X = (pt[0] - mImage->GetVTKImages()[mCurrentTSlice]->GetOrigin()[0])/mImage->GetVTKImages()[mCurrentTSlice]->GetSpacing()[0];
1614     double Y = (pt[1] - mImage->GetVTKImages()[mCurrentTSlice]->GetOrigin()[1])/mImage->GetVTKImages()[mCurrentTSlice]->GetSpacing()[1];
1615     double Z = (pt[2] - mImage->GetVTKImages()[mCurrentTSlice]->GetOrigin()[2])/mImage->GetVTKImages()[mCurrentTSlice]->GetSpacing()[2];
1616 #if VTK_MAJOR_VERSION <= 5
1617     if (X >= mImage->GetVTKImages()[mCurrentTSlice]->GetWholeExtent()[0]-0.5 &&
1618         X <= mImage->GetVTKImages()[mCurrentTSlice]->GetWholeExtent()[1]+0.5 &&
1619         Y >= mImage->GetVTKImages()[mCurrentTSlice]->GetWholeExtent()[2]-0.5 &&
1620         Y <= mImage->GetVTKImages()[mCurrentTSlice]->GetWholeExtent()[3]+0.5 &&
1621         Z >= mImage->GetVTKImages()[mCurrentTSlice]->GetWholeExtent()[4]-0.5 &&
1622         Z <= mImage->GetVTKImages()[mCurrentTSlice]->GetWholeExtent()[5]+0.5) {
1623
1624
1625       int ix, iy, iz;
1626       double value = this->GetScalarComponentAsDouble(mImage->GetVTKImages()[mCurrentTSlice], X, Y, Z, ix, iy, iz);
1627
1628       if(ImageActor->GetVisibility())
1629         worldPos << "data value : " << value << std::endl;
1630
1631       worldPos << "mm : " << lrint(mCurrentBeforeSlicingTransform[0]) << ' '
1632                           << lrint(mCurrentBeforeSlicingTransform[1]) << ' '
1633                           << lrint(mCurrentBeforeSlicingTransform[2]) << ' '
1634                           << mCurrentTSlice
1635                           << std::endl;
1636       worldPos << "pixel : " << ix << ' '
1637                              << iy << ' '
1638                              << iz << ' '
1639                              << mCurrentTSlice
1640                              << std::endl;
1641     }
1642 #else
1643     if (X >= mImage->GetVTKImages()[mCurrentTSlice]->GetInformation()->Get(vtkDataObject::DATA_EXTENT())[0]-0.5 &&
1644         X <= mImage->GetVTKImages()[mCurrentTSlice]->GetInformation()->Get(vtkDataObject::DATA_EXTENT())[1]+0.5 &&
1645         Y >= mImage->GetVTKImages()[mCurrentTSlice]->GetInformation()->Get(vtkDataObject::DATA_EXTENT())[2]-0.5 &&
1646         Y <= mImage->GetVTKImages()[mCurrentTSlice]->GetInformation()->Get(vtkDataObject::DATA_EXTENT())[3]+0.5 &&
1647         Z >= mImage->GetVTKImages()[mCurrentTSlice]->GetInformation()->Get(vtkDataObject::DATA_EXTENT())[4]-0.5 &&
1648         Z <= mImage->GetVTKImages()[mCurrentTSlice]->GetInformation()->Get(vtkDataObject::DATA_EXTENT())[5]+0.5) {
1649
1650       int ix, iy, iz;
1651       double value = this->GetScalarComponentAsDouble(mImage->GetVTKImages()[mCurrentTSlice], X, Y, Z, ix, iy, iz);
1652
1653       if(ImageActor->GetVisibility())
1654         worldPos << "data value : " << value << std::endl;
1655
1656       worldPos << "mm : " << lrint(mCurrentBeforeSlicingTransform[0]) << ' '
1657                           << lrint(mCurrentBeforeSlicingTransform[1]) << ' '
1658                           << lrint(mCurrentBeforeSlicingTransform[2]) << ' '
1659                           << mCurrentTSlice
1660                           << std::endl;
1661       worldPos << "pixel : " << ix << ' '
1662                              << iy << ' '
1663                              << iz << ' '
1664                              << mCurrentTSlice
1665                              << std::endl;
1666
1667     }
1668 #endif
1669     ca->SetText(1,worldPos.str().c_str());
1670
1671     std::stringstream slicePos;
1672     slicePos << "Slice: " << this->GetSlice();
1673     ca->SetText(2, slicePos.str().c_str());
1674   }
1675
1676   if (pdmA->GetVisibility()) {
1677     double x = mCursor[0];
1678     double y = mCursor[1];
1679     double z = mCursor[2];
1680     double xCursor = (x - this->GetInput()->GetOrigin()[0])/this->GetInput()->GetSpacing()[0];
1681     double yCursor = (y - this->GetInput()->GetOrigin()[1])/this->GetInput()->GetSpacing()[1];
1682     double zCursor = (z - this->GetInput()->GetOrigin()[2])/this->GetInput()->GetSpacing()[2];
1683 #if VTK_MAJOR_VERSION <= 5
1684     if (xCursor >= this->GetImageActor()->GetDisplayExtent()[0]-0.5 &&
1685         xCursor < this->GetImageActor()->GetDisplayExtent()[1]+0.5 &&
1686         yCursor >= this->GetImageActor()->GetDisplayExtent()[2]-0.5 &&
1687         yCursor < this->GetImageActor()->GetDisplayExtent()[3]+0.5 &&
1688         zCursor >= this->GetImageActor()->GetDisplayExtent()[4]-0.5 &&
1689         zCursor < this->GetImageActor()->GetDisplayExtent()[5]+0.5 ) {
1690       vtkRenderer * renderer = this->Renderer;
1691
1692       renderer->WorldToView(x,y,z);
1693       renderer->ViewToNormalizedViewport(x,y,z);
1694       renderer->NormalizedViewportToViewport(x,y);
1695       renderer->ViewportToNormalizedDisplay(x,y);
1696       renderer->NormalizedDisplayToDisplay(x,y);
1697       crossCursor->SetFocalPoint(x,y,z);
1698     } else
1699       crossCursor->SetFocalPoint(-1,-1,z);
1700     crossCursor->Update();
1701   }
1702 #else
1703     vtkSmartPointer<vtkOpenGLImageSliceMapper> mapperOpenGL= vtkSmartPointer<vtkOpenGLImageSliceMapper>::New();
1704     try {
1705         mapperOpenGL = dynamic_cast<vtkOpenGLImageSliceMapper*>(GetImageActor()->GetMapper());
1706     } catch (const std::bad_cast& e) {
1707                 std::cerr << e.what() << std::endl;
1708                 std::cerr << "Conversion error" << std::endl;
1709                 return;
1710         }
1711     if (xCursor >= mapperOpenGL->GetCroppingRegion()[0]-0.5 &&
1712         xCursor < mapperOpenGL->GetCroppingRegion()[1]+0.5 &&
1713         yCursor >= mapperOpenGL->GetCroppingRegion()[2]-0.5 &&
1714         yCursor < mapperOpenGL->GetCroppingRegion()[3]+0.5 &&
1715         zCursor >= mapperOpenGL->GetCroppingRegion()[4]-0.5 &&
1716         zCursor < mapperOpenGL->GetCroppingRegion()[5]+0.5 ) {
1717       vtkRenderer * renderer = this->Renderer;
1718
1719       renderer->WorldToView(x,y,z);
1720       renderer->ViewToNormalizedViewport(x,y,z);
1721       renderer->NormalizedViewportToViewport(x,y);
1722       renderer->ViewportToNormalizedDisplay(x,y);
1723       renderer->NormalizedDisplayToDisplay(x,y);
1724       crossCursor->SetFocalPoint(x,y,z);
1725     } else
1726       crossCursor->SetFocalPoint(-1,-1,z);
1727     crossCursor->Update();
1728   }
1729 #endif
1730
1731   if (mOverlay && mOverlayActor->GetVisibility()) {
1732     if(mLinkOverlayWindowLevel) {
1733       mOverlayMapper->SetWindow(this->GetColorWindow());
1734       mOverlayMapper->SetLevel(this->GetColorLevel());
1735     }
1736 #if VTK_MAJOR_VERSION <= 5
1737     mOverlayMapper->GetOutput()->SetUpdateExtent(mOverlayActor->GetDisplayExtent());
1738 #else
1739     mOverlayMapper->SetUpdateExtent(mOverlayActor->GetDisplayExtent());
1740 #endif
1741     mOverlayMapper->Update();
1742   }
1743   if (mFusion && mFusionActor->GetVisibility()) {
1744 #if VTK_MAJOR_VERSION <= 5
1745     mFusionMapper->GetOutput()->SetUpdateExtent(mFusionActor->GetDisplayExtent());
1746 #else
1747     mFusionMapper->SetUpdateExtent(mFusionActor->GetDisplayExtent());
1748 #endif
1749     mFusionMapper->Update();
1750   }
1751   if (mLandMapper)
1752     UpdateLandmarks();
1753
1754     this->GetRenderWindow()->Render();
1755 }
1756 //----------------------------------------------------------------------------
1757
1758
1759 //----------------------------------------------------------------------------
1760 void vvSlicer::UpdateCursorPosition()
1761 { //out << __func__ << endl;
1762   pdmA->SetVisibility(true);
1763   mCursor[0] = mCurrent[0];
1764   mCursor[1] = mCurrent[1];
1765   mCursor[2] = mCurrent[2];
1766   mCursor[3] = mCurrentTSlice;
1767 }
1768 //----------------------------------------------------------------------------
1769
1770
1771 //----------------------------------------------------------------------------
1772 void vvSlicer::UpdateLandmarks()
1773 { //out << __func__ << endl;
1774   vtkPolyData *pd = static_cast<vtkPolyData*>(mLandClipper->GetInput());
1775   if (pd->GetPoints()) {
1776     //mLandGlyph->SetRange(0,1);
1777     //mLandGlyph->Modified();
1778     //mLandGlyph->Update();
1779
1780     mClipBox->Modified();
1781     mLandClipper->Update();
1782     mLandMapper->Update();
1783     //Let's add the captions
1784     //First remove all captions:
1785     for(unsigned int i=0;i<mLandLabelActors.size();i++) {
1786         this->Renderer->RemoveActor2D(mLandLabelActors[i]);
1787         //allActors2D->Remove (mLandLabelActors[i]);
1788     }
1789     mLandLabelActors.clear();
1790     //Next add the captions to the displayed points
1791     for (vtkIdType id=0; id<mLandClipper->GetOutput()->GetNumberOfPoints(); id++) {
1792           double *position = mLandClipper->GetOutput()->GetPoint(id);
1793       vtkStdString label = static_cast<vtkStringArray*>(mLandClipper->GetOutput()->GetPointData()->GetAbstractArray("labels"))->GetValue(id);
1794       vtkSmartPointer<vtkCaptionActor2D> label_actor = vtkSmartPointer<vtkCaptionActor2D>::New();
1795       label_actor->SetCaption(label);
1796       label_actor->SetAttachmentPoint(position);
1797       label_actor->GetCaptionTextProperty()->SetColor(1,0,0);
1798       label_actor->GetCaptionTextProperty()->SetOrientation(33.333333);
1799       label_actor->GetCaptionTextProperty()->SetFontFamilyToTimes();
1800       label_actor->GetCaptionTextProperty()->SetBold(0);
1801       label_actor->GetCaptionTextProperty()->SetFontSize(6);
1802       label_actor->BorderOff();
1803       label_actor->LeaderOff();
1804       label_actor->ThreeDimensionalLeaderOff();
1805       mLandLabelActors.push_back(label_actor);
1806       this->Renderer->AddActor2D(mLandLabelActors[id]);
1807      }
1808   }
1809
1810 }
1811 //----------------------------------------------------------------------------
1812
1813
1814 //----------------------------------------------------------------------------
1815 void vvSlicer::SetSlice(int slice)
1816 { //out << __func__ << endl;
1817   int *range = this->GetSliceRange();
1818   if (range) {
1819     if (slice < range[0]) {
1820       slice = range[0];
1821     } else if (slice > range[1]) {
1822       slice = range[1];
1823     }
1824   }
1825
1826   if (this->Slice == slice) {
1827     return;
1828   }
1829
1830   this->Slice = slice;
1831   SetContourSlice();
1832   this->Modified();
1833   this->UpdateDisplayExtent();
1834
1835   // Seems to work without this line
1836   //this->Render();
1837 }
1838 //----------------------------------------------------------------------------
1839
1840 //----------------------------------------------------------------------------
1841 int vvSlicer::GetTMax()
1842 { //out << __func__ << endl;
1843   int tmax = (int)mImage->GetVTKImages().size() - 1;
1844   if(mOverlay)
1845     tmax = std::max(tmax, (int)mOverlay->GetVTKImages().size()-1);
1846   return tmax;
1847 }
1848 //----------------------------------------------------------------------------
1849
1850 //----------------------------------------------------------------------------
1851 void vvSlicer::SetContourSlice()
1852 { //out << __func__ << endl;
1853   if (mSurfaceCutActors.size() > 0)
1854     for (std::vector<vvMeshActor*>::iterator i=mSurfaceCutActors.begin();
1855          i!=mSurfaceCutActors.end(); i++) {
1856
1857       (*i)->SetSlicingOrientation(this->SliceOrientation);
1858       (*i)->SetCutSlice((this->Slice)*this->GetImage()->GetSpacing()[this->SliceOrientation]+
1859                         this->GetImage()->GetOrigin()[this->SliceOrientation]);
1860     }
1861 }
1862 //----------------------------------------------------------------------------
1863
1864
1865 //----------------------------------------------------------------------------
1866 void vvSlicer::ForceUpdateDisplayExtent()
1867 { //out << __func__ << endl;
1868   this->UpdateDisplayExtent();
1869 }
1870 //----------------------------------------------------------------------------
1871
1872
1873 //----------------------------------------------------------------------------
1874 int* vvSlicer::GetDisplayExtent()
1875 { //out << __func__ << endl;
1876   return this->GetImageActor()->GetDisplayExtent();
1877 }
1878 //----------------------------------------------------------------------------
1879
1880
1881 //----------------------------------------------------------------------------
1882 void vvSlicer::PrintSelf(ostream& os, vtkIndent indent)
1883 { //out << __func__ << endl;
1884   this->Superclass::PrintSelf(os, indent);
1885 }
1886 //----------------------------------------------------------------------------
1887
1888
1889 //----------------------------------------------------------------------------
1890 void vvSlicer::SetVFColor(double r, double g, double b)
1891 { //out << __func__ << endl;
1892   double mVFColorHSV[3];
1893   mVFColor[0] = r;
1894   mVFColor[1] = g;
1895   mVFColor[2] = b;
1896
1897   vtkMath::RGBToHSV(mVFColor, mVFColorHSV);
1898   mVFColorLUT->SetHueRange(mVFColorHSV[0], mVFColorHSV[0]);
1899   mVFColorLUT->SetSaturationRange(mVFColorHSV[1],mVFColorHSV[1]);
1900   mVFColorLUT->SetValueRange(mVFColorHSV[2], mVFColorHSV[2]);
1901
1902   this->Render();
1903 }
1904 //----------------------------------------------------------------------------
1905
1906
1907 //----------------------------------------------------------------------------
1908 void vvSlicer::SetRegisterExtent(int ext[6])
1909 { //out << __func__ << endl;
1910     copyExtent(ext, mRegisterExtent);
1911 }
1912 //----------------------------------------------------------------------------
1913
1914
1915 //----------------------------------------------------------------------------
1916 void vvSlicer::GetRegisterExtent(int ext[6])
1917 { //out << __func__ << endl;
1918     copyExtent(mRegisterExtent, ext);
1919 }
1920 //----------------------------------------------------------------------------
1921