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 "vvSlicer.h"
  20 #include "vvImage.h"
  21 #include "vvSlicerManagerCommand.h"
  22 #include "vvGlyphSource.h"
  23 #include "vvGlyph2D.h"
  24 #include "vvImageMapToWLColors.h"
  25
  26 #include <vtkTextProperty.h>
  27 #include <vtkTextActor.h>
  28 #include <vtkTextSource.h>
  29 #include <vtkActor2D.h>
  30 #include <vtkCursor2D.h>
  31 #include <vtkPolyDataMapper2D.h>
  32 #include <vtkProperty2D.h>
  33 #include <vtkCornerAnnotation.h>
  34 #include <vtkImageMapToWindowLevelColors.h>
  35 #include <vtkImageData.h>
  36 #include <vtkImageActor.h>
  37 #include <vvBlendImageActor.h>
  38 #include <vtkToolkits.h>
  39 #include <vtkObjectFactory.h>
  40 #include <vtkPointData.h>
  41 #include <vtkDataArray.h>
  42 #include <vtkFloatArray.h>
  43 #include <vtkClipPolyData.h>
  44 #include <vtkGlyph3D.h>
  45 #include <vtkMath.h>
  46 #include <vtkCursor3D.h>
  47 #include <vtkProperty.h>
  48 #include <vtkLight.h>
  49 #include <vtkLightCollection.h>
  50 #include <vtkScalarBarActor.h>
  51 #include <vtkLookupTable.h>
  52
  53 #include <vtkRenderer.h>
  54 #include <vtkRendererCollection.h>
  55 #include <vtkRenderWindow.h>
  56 #include <vtkRenderWindowInteractor.h>
  57 #include <vtkCamera.h>
  58 #include <vtkCallbackCommand.h>
  59 #include <vtkCommand.h>
  60 #include <vtkPolyDataMapper.h>
  61 #include <vtkBox.h>
  62
  63 #include <vtkExtractVOI.h>
  64 #include <vtkSphereSource.h>
  65 #include <vtkCutter.h>
  66 #include <vtkAssignAttribute.h>
  67 #include <vtkImageAccumulate.h>
  68 #include <vtkImageReslice.h>
  69 #if VTK_MAJOR_VERSION >= 6 || (VTK_MAJOR_VERSION >= 5 && VTK_MINOR_VERSION >= 10)
  70 #  include <vtkImageMapper3D.h>
  71 #endif
  72
  73 vtkCxxRevisionMacro(vvSlicer, "DummyRevision");
  74 vtkStandardNewMacro(vvSlicer);
  75 static void copyExtent(int* in, int* to){
  76  for(int i=0; i<6; ++i) to[i]=in[i];
  77 }
  78 //------------------------------------------------------------------------------
  79 vvSlicer::vvSlicer()
  80 {
  81   this->UnInstallPipeline();
  82   mImage = NULL;
  83   mReducedExtent = new int[6];
  84   mCurrentTSlice = 0;
  85   mUseReducedExtent = false;
  86
  87   mCurrent[0] = -VTK_DOUBLE_MAX;
  88   mCurrent[1] = -VTK_DOUBLE_MAX;
  89   mCurrent[2] = -VTK_DOUBLE_MAX;
  90
  91   mCursor[0] = -VTK_DOUBLE_MAX;
  92   mCursor[1] = -VTK_DOUBLE_MAX;
  93   mCursor[2] = -VTK_DOUBLE_MAX;
  94   mCursor[3] = -VTK_DOUBLE_MAX;
  95
  96   mSubSampling = 5;
  97   mScale = 1;
  98   mVFLog = 0;
  99   mVFWidth = 1;
 100   mVFColor[0] = 0;
 101   mVFColor[1] = 1;
 102   mVFColor[2] = 0;
 103
 104   crossCursor = vtkSmartPointer<vtkCursor2D>::New();
 105   crossCursor->AllOff();
 106   crossCursor->AxesOn();
 107   crossCursor->SetTranslationMode(1);
 108   crossCursor->SetRadius(2);
 109
 110   pdm = vtkSmartPointer<vtkPolyDataMapper2D>::New();
 111   pdm->SetInput(crossCursor->GetOutput());
 112
 113   pdmA = vtkSmartPointer<vtkActor2D>::New();
 114   pdmA->SetMapper(pdm);
 115   pdmA->GetProperty()->SetColor(255,10,212);
 116   pdmA->SetVisibility(0);
 117   pdmA->SetPickable(0);
 118
 119   ca = vtkSmartPointer<vtkCornerAnnotation>::New();
 120   ca->GetTextProperty()->SetColor(255,10,212);
 121   ca->SetVisibility(1);
 122   mFileName = "";
 123
 124   mVF = NULL;
 125   mOverlay = NULL;
 126   mFusion = NULL;
 127   mLandmarks = NULL;
 128
 129   legend = vtkSmartPointer<vtkScalarBarActor>::New();
 130   //legend->SetTitle("test!");
 131   legend->SetPosition(0.82,0.18);
 132   legend->SetWidth(0.1);
 133   legend->SetVisibility(0);
 134   legend->SetLabelFormat("%.1f");
 135   this->GetRenderer()->AddActor(legend);
 136   showFusionLegend = false;
 137
 138   this->WindowLevel->Delete();
 139   this->WindowLevel = vvImageMapToWLColors::New();
 140
 141   this->InstallPipeline();
 142
 143   mLinkOverlayWindowLevel = true;
 144
 145 #if VTK_MAJOR_VERSION >= 6 || (VTK_MAJOR_VERSION >= 5 && VTK_MINOR_VERSION >= 10)
 146   this->GetImageActor()->GetMapper()->BorderOn();
 147 #endif
 148 }
 149 //------------------------------------------------------------------------------
 150
 151
 152 //------------------------------------------------------------------------------
 153 vtkImageMapToWindowLevelColors* vvSlicer::GetOverlayMapper()
 154 {
 155   return mOverlayMapper.GetPointer();
 156 }
 157 //------------------------------------------------------------------------------
 158
 159
 160 //------------------------------------------------------------------------------
 161 vvBlendImageActor* vvSlicer::GetOverlayActor()
 162 {
 163   return mOverlayActor.GetPointer();
 164 }
 165 //------------------------------------------------------------------------------
 166
 167
 168 //------------------------------------------------------------------------------
 169 vtkImageMapToColors* vvSlicer::GetFusionMapper()
 170 {
 171   return mFusionMapper.GetPointer();
 172 }
 173 //------------------------------------------------------------------------------
 174
 175
 176 //------------------------------------------------------------------------------
 177 vtkImageActor* vvSlicer::GetFusionActor()
 178 {
 179   return mFusionActor.GetPointer();
 180 }
 181 //------------------------------------------------------------------------------
 182
 183
 184 //------------------------------------------------------------------------------
 185 vtkActor* vvSlicer::GetVFActor()
 186 {
 187   return mVFActor.GetPointer();
 188 }
 189 //------------------------------------------------------------------------------
 190
 191
 192 //------------------------------------------------------------------------------
 193 vtkCornerAnnotation* vvSlicer::GetAnnotation()
 194 {
 195   return ca.GetPointer();
 196 }
 197 //------------------------------------------------------------------------------
 198
 199
 200 //------------------------------------------------------------------------------
 201 void vvSlicer::EnableReducedExtent(bool b)
 202 {
 203   mUseReducedExtent = b;
 204 }
 205 //------------------------------------------------------------------------------
 206
 207
 208 //------------------------------------------------------------------------------
 209 void vvSlicer::SetReducedExtent(int * ext)
 210 {
 211   copyExtent(ext, mReducedExtent);
 212 }
 213 //------------------------------------------------------------------------------
 214
 215
 216 //------------------------------------------------------------------------------
 217 void vvSlicer::AddContour(vvMesh::Pointer contour,bool propagate)
 218 {
 219
 220   mSurfaceCutActors.push_back(new vvMeshActor());
 221   if (propagate)
 222     mSurfaceCutActors.back()->Init(contour,mCurrentTSlice,mVF);
 223   else
 224     mSurfaceCutActors.back()->Init(contour,mCurrentTSlice);
 225   mSurfaceCutActors.back()->SetSlicingOrientation(SliceOrientation);
 226   this->GetRenderer()->AddActor(mSurfaceCutActors.back()->GetActor());
 227
 228   SetContourSlice();
 229 }
 230 //------------------------------------------------------------------------------
 231
 232
 233 //------------------------------------------------------------------------------
 234 void vvSlicer::ToggleContourSuperposition()
 235 {
 236   for (std::vector<vvMeshActor*>::iterator i=mSurfaceCutActors.begin();
 237        i!=mSurfaceCutActors.end(); i++)
 238     (*i)->ToggleSuperposition();
 239 }
 240 //------------------------------------------------------------------------------
 241
 242
 243 //------------------------------------------------------------------------------
 244 void vvSlicer::SetCursorColor(int r,int g, int b)
 245 {
 246   pdmA->GetProperty()->SetColor(r,g,b);
 247 }
 248 //------------------------------------------------------------------------------
 249
 250
 251 //------------------------------------------------------------------------------
 252 void vvSlicer::SetCursorVisibility(bool s)
 253 {
 254   pdmA->SetVisibility(s);
 255 }
 256 //------------------------------------------------------------------------------
 257
 258
 259 //------------------------------------------------------------------------------
 260 bool vvSlicer::GetCursorVisibility()
 261 {
 262   return pdmA->GetVisibility();
 263 }
 264 //------------------------------------------------------------------------------
 265
 266
 267 //------------------------------------------------------------------------------
 268 void vvSlicer::SetCornerAnnotationVisibility(bool s)
 269 {
 270   ca->SetVisibility(s);
 271 }
 272 //------------------------------------------------------------------------------
 273
 274
 275 //------------------------------------------------------------------------------
 276 bool vvSlicer::GetCornerAnnotationVisibility()
 277 {
 278   return ca->GetVisibility();
 279 }
 280 //------------------------------------------------------------------------------
 281
 282
 283 //------------------------------------------------------------------------------
 284 vvSlicer::~vvSlicer()
 285 {
 286   for (std::vector<vvMeshActor*>::iterator i=mSurfaceCutActors.begin();
 287        i!=mSurfaceCutActors.end(); i++)
 288     delete (*i);
 289   delete [] mReducedExtent;
 290 }
 291 //------------------------------------------------------------------------------
 292
 293
 294 //------------------------------------------------------------------------------
 295 void vvSlicer::SetCurrentPosition(double x, double y, double z, int t)
 296 {
 297   mCurrent[0] = x;
 298   mCurrent[1] = y;
 299   mCurrent[2] = z;
 300   mCurrentTSlice = t;
 301 }
 302 //------------------------------------------------------------------------------
 303
 304
 305 //------------------------------------------------------------------------------
 306 void vvSlicer::SetImage(vvImage::Pointer image)
 307 {
 308   if (image->GetVTKImages().size()) {
 309     mImage = image;
 310
 311     if (!mImageReslice) {
 312       mImageReslice = vtkSmartPointer<vtkImageReslice>::New();
 313       mImageReslice->SetInterpolationModeToLinear();
 314       mImageReslice->AutoCropOutputOn();
 315       mImageReslice->SetBackgroundColor(-1000,-1000,-1000,1);
 316     }
 317     mImageReslice->SetResliceTransform(mImage->GetTransform());
 318     mImageReslice->SetInput(0, mImage->GetFirstVTKImageData());
 319     mImageReslice->UpdateInformation();
 320
 321     this->Superclass::SetInput(mImageReslice->GetOutput());
 322
 323     int extent[6];
 324     this->GetInput()->GetWholeExtent(extent);
 325
 326     // Prevent crash when reload -> change slice if outside extent
 327     if (Slice < extent[SliceOrientation*2] || Slice>=extent[SliceOrientation*2+1]) {
 328       Slice = (extent[SliceOrientation*2+1]+extent[SliceOrientation*2])/2.0;
 329     }
 330
 331     // Make sure that the required part image has been computed
 332     extent[SliceOrientation*2] = Slice;
 333     extent[SliceOrientation*2+1] = Slice;
 334     mImageReslice->GetOutput()->SetUpdateExtent(extent);
 335     mImageReslice->GetOutput()->Update();
 336
 337     this->UpdateDisplayExtent();
 338
 339     mCurrentTSlice = 0;
 340     ca->SetText(0,mFileName.c_str());
 341   }
 342 }
 343 //------------------------------------------------------------------------------
 344
 345
 346 //------------------------------------------------------------------------------
 347 void vvSlicer::SetOverlay(vvImage::Pointer overlay)
 348 {
 349   if (overlay->GetVTKImages().size()) {
 350     mOverlay = overlay;
 351
 352     if (!mOverlayReslice) {
 353       mOverlayReslice = vtkSmartPointer<vtkImageReslice>::New();
 354       mOverlayReslice->SetInterpolationModeToLinear();
 355       mOverlayReslice->AutoCropOutputOn();
 356       mOverlayReslice->SetBackgroundColor(-1000,-1000,-1000,1);
 357     }
 358     mOverlayReslice->SetResliceTransform(mOverlay->GetTransform());
 359     mOverlayReslice->SetInput(0, mOverlay->GetFirstVTKImageData());
 360
 361     if (!mOverlayMapper)
 362       mOverlayMapper = vtkSmartPointer<vtkImageMapToWindowLevelColors>::New();
 363     mOverlayMapper->SetInput(mOverlayReslice->GetOutput());
 364
 365     if (!mOverlayActor) {
 366       mOverlayActor = vtkSmartPointer<vvBlendImageActor>::New();
 367       mOverlayActor->SetInput(mOverlayMapper->GetOutput());
 368       mOverlayActor->SetPickable(0);
 369       mOverlayActor->SetVisibility(true);
 370       mOverlayActor->SetOpacity(0.5);
 371 #if VTK_MAJOR_VERSION >= 6 || (VTK_MAJOR_VERSION >= 5 && VTK_MINOR_VERSION >= 10)
 372       mOverlayActor->GetMapper()->BorderOn();
 373 #endif
 374       }
 375
 376     //stupid but necessary : the Overlay need to be rendered before fusion
 377     if (mFusionActor) {
 378       this->GetRenderer()->RemoveActor(mFusionActor);
 379       this->GetRenderer()->AddActor(mOverlayActor);
 380       this->GetRenderer()->AddActor(mFusionActor);
 381     } else
 382       this->GetRenderer()->AddActor(mOverlayActor);
 383
 384     //Synchronize orientation and slice
 385     AdjustResliceToSliceOrientation(mOverlayReslice);
 386     this->UpdateDisplayExtent();
 387     this->SetTSlice(mCurrentTSlice);
 388   }
 389 }
 390 //------------------------------------------------------------------------------
 391
 392
 393 //------------------------------------------------------------------------------
 394 void vvSlicer::SetFusion(vvImage::Pointer fusion)
 395 {
 396   if (fusion->GetVTKImages().size()) {
 397     mFusion = fusion;
 398
 399     if (!mFusionReslice) {
 400       mFusionReslice = vtkSmartPointer<vtkImageReslice>::New();
 401       mFusionReslice->SetInterpolationModeToLinear();
 402       mFusionReslice->AutoCropOutputOn();
 403       mFusionReslice->SetBackgroundColor(-1000,-1000,-1000,1);
 404     }
 405     mFusionReslice->SetResliceTransform(mFusion->GetTransform());
 406     mFusionReslice->SetInput(0, mFusion->GetFirstVTKImageData());
 407
 408     if (!mFusionMapper)
 409       mFusionMapper = vtkSmartPointer<vtkImageMapToColors>::New();
 410
 411     vtkSmartPointer<vtkLookupTable> lut = vtkLookupTable::New();
 412     lut->SetRange(0, 1);
 413     lut->SetValueRange(0, 1);
 414     lut->SetSaturationRange(0, 0);
 415     lut->Build();
 416     mFusionMapper->SetLookupTable(lut);
 417     mFusionMapper->SetInput(mFusionReslice->GetOutput());
 418
 419     if (!mFusionActor) {
 420       mFusionActor = vtkSmartPointer<vtkImageActor>::New();
 421       mFusionActor->SetInput(mFusionMapper->GetOutput());
 422       mFusionActor->SetPickable(0);
 423       mFusionActor->SetVisibility(true);
 424       mFusionActor->SetOpacity(0.7);
 425 #if VTK_MAJOR_VERSION >= 6 || (VTK_MAJOR_VERSION >= 5 && VTK_MINOR_VERSION >= 10)
 426       mFusionActor->GetMapper()->BorderOn();
 427 #endif
 428       this->GetRenderer()->AddActor(mFusionActor);
 429     }
 430
 431     //Synchronize orientation and slice
 432     AdjustResliceToSliceOrientation(mFusionReslice);
 433     this->UpdateDisplayExtent();
 434     this->SetTSlice(mCurrentTSlice);
 435   }
 436 }
 437 //------------------------------------------------------------------------------
 438
 439
 440 //------------------------------------------------------------------------------
 441 bool vvSlicer::GetActorVisibility(const std::string& actor_type, int overlay_index)
 442 {
 443   bool vis = false;
 444   if (actor_type == "image") {
 445     vis = this->ImageActor->GetVisibility();
 446   }
 447   else if (actor_type == "vector") {
 448     vis = this->mVFActor->GetVisibility();
 449   }
 450   else if (actor_type == "overlay") {
 451     vis = this->mOverlayActor->GetVisibility();
 452   }
 453   else if (actor_type == "fusion") {
 454     vis = this->mFusionActor->GetVisibility();
 455   }
 456   else if (actor_type == "contour")
 457     vis = this->mSurfaceCutActors[overlay_index]->GetActor()->GetVisibility();
 458
 459   return vis;
 460 }
 461 //------------------------------------------------------------------------------
 462
 463 //------------------------------------------------------------------------------
 464 void vvSlicer::SetActorVisibility(const std::string& actor_type, int overlay_index ,bool vis)
 465 {
 466   if (actor_type == "image") {
 467     this->ImageActor->SetVisibility(vis);
 468   }
 469   else if (actor_type == "vector") {
 470     this->mVFActor->SetVisibility(vis);
 471   }
 472   else if (actor_type == "overlay") {
 473     this->mOverlayActor->SetVisibility(vis);
 474   }
 475   else if (actor_type == "fusion") {
 476     this->mFusionActor->SetVisibility(vis);
 477   }
 478   else if (actor_type == "contour")
 479     this->mSurfaceCutActors[overlay_index]->GetActor()->SetVisibility(vis);
 480   UpdateDisplayExtent();
 481 }
 482 //------------------------------------------------------------------------------
 483
 484 //------------------------------------------------------------------------------
 485 void vvSlicer::SetVF(vvImage::Pointer vf)
 486 {
 487   if (vf->GetVTKImages().size()) {
 488     mVF = vf;
 489
 490     if (!mAAFilter) {
 491       mAAFilter= vtkSmartPointer<vtkAssignAttribute>::New();
 492       mVOIFilter = vtkSmartPointer<vtkExtractVOI>::New();
 493       mVOIFilter->SetSampleRate(mSubSampling,mSubSampling,mSubSampling);
 494     }
 495     mVOIFilter->SetInput(vf->GetFirstVTKImageData());
 496     mAAFilter->SetInput(mVOIFilter->GetOutput());
 497     ///This tells VTK to use the scalar (pixel) data of the image to draw the little arrows
 498     mAAFilter->Assign(vtkDataSetAttributes::SCALARS, vtkDataSetAttributes::VECTORS, vtkAssignAttribute::POINT_DATA);
 499
 500     if (!mArrow)
 501       mArrow = vtkSmartPointer<vvGlyphSource>::New();
 502     mArrow->SetGlyphTypeToSpecificArrow();
 503     mArrow->SetScale(mScale);
 504     mArrow->FilledOff();
 505
 506     // Glyph the gradient vector (with arrows)
 507     if (!mGlyphFilter)
 508       mGlyphFilter = vtkSmartPointer<vvGlyph2D>::New();
 509     mGlyphFilter->SetInput(mAAFilter->GetOutput());
 510     mGlyphFilter->SetSource(mArrow->GetOutput());
 511     mGlyphFilter->ScalingOn();
 512     mGlyphFilter->SetScaleModeToScaleByVector();
 513     mGlyphFilter->OrientOn();
 514     mGlyphFilter->SetVectorModeToUseVector();
 515     mGlyphFilter->SetColorModeToColorByVector();
 516
 517     if (!mVFColorLUT)
 518       mVFColorLUT = vtkSmartPointer<vtkLookupTable>::New();
 519
 520     double mVFColorHSV[3];
 521     vtkMath::RGBToHSV(mVFColor, mVFColorHSV);
 522     mVFColorLUT->SetHueRange(mVFColorHSV[0], mVFColorHSV[0]);
 523     mVFColorLUT->SetSaturationRange(mVFColorHSV[1],mVFColorHSV[1]);
 524     mVFColorLUT->SetValueRange(mVFColorHSV[2], mVFColorHSV[2]);
 525
 526     if (!mVFMapper)
 527       mVFMapper = vtkSmartPointer<vtkPolyDataMapper>::New();
 528     mVFMapper->SetInput(mGlyphFilter->GetOutput());
 529     mVFMapper->ImmediateModeRenderingOn();
 530     mVFMapper->SetLookupTable(mVFColorLUT);
 531
 532     if (!mVFActor)
 533       mVFActor = vtkSmartPointer<vtkActor>::New();
 534     mVFActor->SetMapper(mVFMapper);
 535     mVFActor->SetPickable(0);
 536     mVFActor->GetProperty()->SetLineWidth(mVFWidth);
 537     this->UpdateDisplayExtent();
 538     this->GetRenderer()->AddActor(mVFActor);
 539
 540     //Synchronize slice
 541     SetTSlice(mCurrentTSlice);
 542   }
 543 }
 544 //------------------------------------------------------------------------------
 545
 546
 547 //------------------------------------------------------------------------------
 548 void vvSlicer::SetLandmarks(vvLandmarks* landmarks)
 549 {
 550   mLandmarks = landmarks;
 551   if (landmarks) {
 552
 553     if (!mCross)
 554       mCross = vtkSmartPointer<vtkCursor3D>::New();
 555     mCross->SetFocalPoint(0.0,0.0,0.0);
 556     mCross->SetModelBounds(-10,10,-10,10,-10,10);
 557     mCross->AllOff();
 558     mCross->AxesOn();
 559
 560     if (!mLandGlyph)
 561       mLandGlyph = vtkSmartPointer<vtkGlyph3D>::New();
 562     mLandGlyph->SetSource(mCross->GetOutput());
 563     mLandGlyph->SetInput(landmarks->GetOutput());
 564     //mLandGlyph->SetIndexModeToScalar();
 565     mLandGlyph->SetRange(0,1);
 566     mLandGlyph->ScalingOff();
 567
 568     mLandGlyph->SetColorModeToColorByScalar();
 569
 570     if (!mClipBox)
 571       mClipBox = vtkSmartPointer<vtkBox>::New();
 572     if (!mLandClipper)
 573       mLandClipper = vtkSmartPointer<vtkClipPolyData>::New();
 574     mLandClipper->InsideOutOn();
 575     mLandClipper->SetInput(mLandGlyph->GetOutput());
 576     mLandClipper->SetClipFunction(mClipBox);
 577
 578     if (!mLandMapper)
 579       mLandMapper = vtkSmartPointer<vtkPolyDataMapper>::New();
 580     mLandMapper->SetInputConnection(mLandClipper->GetOutputPort());
 581     //mLandMapper->ScalarVisibilityOff();
 582
 583     if (!mLandActor)
 584       mLandActor = vtkSmartPointer<vtkActor>::New();
 585     mLandActor->SetMapper(mLandMapper);
 586     mLandActor->GetProperty()->SetColor(255,10,212);
 587     mLandActor->SetPickable(0);
 588     mLandActor->SetVisibility(true);
 589     this->UpdateDisplayExtent();
 590     this->GetRenderer()->AddActor(mLandActor);
 591   }
 592 }
 593 //------------------------------------------------------------------------------
 594
 595 //------------------------------------------------------------------------------
 596 //FIXME: this function leaks memory, we should fix it someday :)
 597 void vvSlicer::RemoveActor(const std::string& actor_type, int overlay_index)
 598 {
 599   if (actor_type == "vector") {
 600     Renderer->RemoveActor(mVFActor);
 601     mGlyphFilter=NULL;
 602     mVF = NULL;
 603     mArrow = NULL;
 604     mAAFilter=NULL;
 605     mVOIFilter = NULL;
 606     mVFMapper = NULL;
 607     mVFActor = NULL;
 608   }
 609   if (actor_type == "overlay") {
 610     Renderer->RemoveActor(mOverlayActor);
 611     mOverlay = NULL;
 612     mOverlayActor = NULL;
 613     mOverlayMapper = NULL;
 614   }
 615   if (actor_type == "fusion") {
 616     Renderer->RemoveActor(mFusionActor);
 617     mFusion = NULL;
 618     mFusionActor = NULL;
 619     mFusionMapper = NULL;
 620   }
 621   if (actor_type == "contour") {
 622     Renderer->RemoveActor(this->mSurfaceCutActors[overlay_index]->GetActor());
 623     mSurfaceCutActors.erase(mSurfaceCutActors.begin()+overlay_index);
 624   }
 625 }
 626 //------------------------------------------------------------------------------
 627
 628
 629 //------------------------------------------------------------------------------
 630 void vvSlicer::SetVFSubSampling(int sub)
 631 {
 632   if (mVOIFilter) {
 633     mVOIFilter->SetSampleRate(mSubSampling,mSubSampling,mSubSampling);
 634     mSubSampling = sub;
 635   }
 636   UpdateDisplayExtent();
 637   Render();
 638 }
 639 //------------------------------------------------------------------------------
 640
 641
 642 //------------------------------------------------------------------------------
 643 void vvSlicer::SetVFScale(int scale)
 644 {
 645   mScale = scale;
 646   if (mArrow)
 647     mArrow->SetScale(mScale);
 648   UpdateDisplayExtent();
 649   Render();
 650 }
 651 //------------------------------------------------------------------------------
 652
 653 //------------------------------------------------------------------------------
 654 void vvSlicer::SetVFWidth(int width)
 655 {
 656   mVFWidth = width;
 657   if (mVFActor)
 658     mVFActor->GetProperty()->SetLineWidth(mVFWidth);
 659   UpdateDisplayExtent();
 660   Render();
 661 }
 662 //------------------------------------------------------------------------------
 663
 664
 665 //------------------------------------------------------------------------------
 666 void vvSlicer::SetVFLog(int log)
 667 {
 668   mVFLog = log;
 669   if (mGlyphFilter) {
 670     mGlyphFilter->SetUseLog(mVFLog);
 671     mGlyphFilter->Modified();
 672   }
 673   UpdateDisplayExtent();
 674   Render();
 675 }
 676 //------------------------------------------------------------------------------
 677
 678
 679 //------------------------------------------------------------------------------
 680 void vvSlicer::SetTSlice(int t)
 681 {
 682   if (t < 0)
 683     t = 0;
 684   else if ((unsigned int)t >= mImage->GetVTKImages().size())
 685     t = mImage->GetVTKImages().size() -1;
 686
 687   mCurrentTSlice = t;
 688   mImageReslice->SetInput( mImage->GetVTKImages()[mCurrentTSlice] );
 689   if (mVF && mVFActor->GetVisibility()) {
 690     if (mVF->GetVTKImages().size() > (unsigned int)mCurrentTSlice)
 691       mVOIFilter->SetInput(mVF->GetVTKImages()[mCurrentTSlice]);
 692   }
 693   if (mOverlay && mOverlayActor->GetVisibility()) {
 694     if (mOverlay->GetVTKImages().size() > (unsigned int)mCurrentTSlice)
 695       mOverlayReslice->SetInput( mOverlay->GetVTKImages()[mCurrentTSlice] );
 696   }
 697   if (mFusion && mFusionActor->GetVisibility()) {
 698     if (mFusion->GetVTKImages().size() > (unsigned int)mCurrentTSlice)
 699       mFusionReslice->SetInput( mFusion->GetVTKImages()[mCurrentTSlice]);
 700   }
 701   if (mSurfaceCutActors.size() > 0)
 702     for (std::vector<vvMeshActor*>::iterator i=mSurfaceCutActors.begin();
 703          i!=mSurfaceCutActors.end(); i++)
 704       (*i)->SetTimeSlice(mCurrentTSlice);
 705   UpdateDisplayExtent();
 706 }
 707 //------------------------------------------------------------------------------
 708
 709
 710 //------------------------------------------------------------------------------
 711 int vvSlicer::GetTSlice()
 712 {
 713   return mCurrentTSlice;
 714 }
 715 //------------------------------------------------------------------------------
 716
 717 //------------------------------------------------------------------------------
 718 void vvSlicer::SetSliceOrientation(int orientation)
 719 {
 720   //if 2D image, force to watch in Axial View
 721   int extent[6];
 722   this->GetInput()->GetWholeExtent(extent);
 723   if (extent[5]-extent[4] <= 2)
 724     orientation = vtkImageViewer2::SLICE_ORIENTATION_XY;
 725
 726   if (orientation < vtkImageViewer2::SLICE_ORIENTATION_YZ ||
 727       orientation > vtkImageViewer2::SLICE_ORIENTATION_XY) {
 728     vtkErrorMacro("Error - invalid slice orientation " << orientation);
 729     return;
 730   }
 731
 732   this->SliceOrientation = orientation;
 733
 734   if(mFusion)
 735     AdjustResliceToSliceOrientation(mFusionReslice);
 736
 737   if(mOverlay)
 738     AdjustResliceToSliceOrientation(mOverlayReslice);
 739
 740   // Update the viewer
 741   int *range = this->GetSliceRange();
 742   if (range)
 743     this->Slice = static_cast<int>((range[0] + range[1]) * 0.5);
 744
 745   // Go to current cursor position
 746   // double* cursorPos = GetCursorPosition();
 747   // DDV(cursorPos, 3);
 748   // SetCurrentPosition(cursorPos[0],cursorPos[1],cursorPos[2],cursorPos[3]);
 749
 750   this->UpdateOrientation();
 751   this->UpdateDisplayExtent();
 752
 753   if (this->Renderer && this->GetInput()) {
 754     double scale = this->Renderer->GetActiveCamera()->GetParallelScale();
 755     this->Renderer->ResetCamera();
 756     this->Renderer->GetActiveCamera()->SetParallelScale(scale);
 757   }
 758
 759   SetContourSlice();
 760 }
 761 //----------------------------------------------------------------------------
 762
 763 //------------------------------------------------------------------------------
 764 // This function ensures that we sample the slices of a vtkImageReslice filter
 765 // in the direction of the slicer (SliceOrientation) similarly as mImageReslice.
 766 // In other words, we change the grid of the reslice in the same way as the grid
 767 // of the displayed image in the slicing direction.
 768 void vvSlicer::AdjustResliceToSliceOrientation(vtkImageReslice *reslice)
 769 {
 770   // Reset autocrop and update output information
 771   reslice->SetOutputOriginToDefault();
 772   reslice->SetOutputSpacingToDefault();
 773   reslice->GetOutput()->UpdateInformation();
 774
 775   // Ge new origin / spacing
 776   double origin[3];
 777   double spacing[3];
 778   reslice->GetOutput()->GetOrigin(origin);
 779   reslice->GetOutput()->GetSpacing(spacing);
 780
 781   // Use similar spacing as the image in the direction SliceOrientation
 782   spacing[this->SliceOrientation] = mImageReslice->GetOutput()->GetSpacing()[this->SliceOrientation];
 783
 784   // Modify origin to be on the image grid in the direction SliceOrientation in 3 steps
 785   // Step 1: from world coordinates to image coordinates
 786   origin[this->SliceOrientation] -= mImageReslice->GetOutput()->GetOrigin()[this->SliceOrientation];
 787   origin[this->SliceOrientation] /= mImageReslice->GetOutput()->GetSpacing()[this->SliceOrientation];
 788   // Step 2: round to superior grid positionInc
 789   origin[this->SliceOrientation] = itk::Math::Ceil<double>(origin[this->SliceOrientation]);
 790   // Step 3: back to world coordinates
 791   origin[this->SliceOrientation] *= mImageReslice->GetOutput()->GetSpacing()[this->SliceOrientation];
 792   origin[this->SliceOrientation] += mImageReslice->GetOutput()->GetOrigin()[this->SliceOrientation];
 793
 794   // Set new spacing and origin
 795   reslice->SetOutputOrigin(origin);
 796   reslice->SetOutputSpacing(spacing);
 797   reslice->UpdateInformation();
 798   reslice->GetOutput()->UpdateInformation();
 799 }
 800 //------------------------------------------------------------------------------
 801
 802 //----------------------------------------------------------------------------
 803 int * vvSlicer::GetExtent(){
 804   int *w_ext;
 805   if (mUseReducedExtent) {
 806     w_ext = mReducedExtent;
 807   } else w_ext = GetInput()->GetWholeExtent();
 808   return w_ext;
 809 }
 810 //----------------------------------------------------------------------------
 811
 812
 813 //----------------------------------------------------------------------------
 814 int vvSlicer::GetOrientation()
 815 {
 816   return this->SliceOrientation;
 817 }
 818 //----------------------------------------------------------------------------
 819
 820
 821 //----------------------------------------------------------------------------
 822 void vvSlicer::UpdateDisplayExtent()
 823 {
 824   vtkImageData *input = this->GetInput();
 825   if (!input || !this->ImageActor) {
 826     return;
 827   }
 828   input->UpdateInformation();
 829
 830   // Local copy of extent
 831   int w_ext[6];
 832   int* ext = GetExtent();
 833   copyExtent(ext, w_ext);
 834   // Set slice value
 835   int s = this->Slice > ext[this->SliceOrientation*2+1] ? ext[this->SliceOrientation*2 + 1] : this->Slice;
 836   w_ext[ this->SliceOrientation*2   ] = s;
 837   w_ext[ this->SliceOrientation*2+1 ] = s;
 838
 839   // Image actor
 840   this->ImageActor->SetDisplayExtent(w_ext);
 841
 842   // Overlay image actor
 843   if (mOverlay && mOverlayActor->GetVisibility()) {
 844     AdjustResliceToSliceOrientation(mOverlayReslice);
 845     int overExtent[6];
 846     this->ConvertImageToImageDisplayExtent(input, w_ext, mOverlayReslice->GetOutput(), overExtent);
 847     ClipDisplayedExtent(overExtent, mOverlayMapper->GetInput()->GetWholeExtent());
 848     mOverlayActor->SetDisplayExtent( overExtent );
 849   }
 850
 851   // Fusion image actor
 852   if (mFusion && mFusionActor->GetVisibility()) {
 853     AdjustResliceToSliceOrientation(mFusionReslice);
 854     int fusExtent[6];
 855     this->ConvertImageToImageDisplayExtent(input, w_ext, mFusionReslice->GetOutput(), fusExtent);
 856     ClipDisplayedExtent(fusExtent, mFusionMapper->GetInput()->GetWholeExtent());
 857     mFusionActor->SetDisplayExtent(fusExtent);
 858   }
 859
 860   // Vector field actor
 861   double* camera = Renderer->GetActiveCamera()->GetPosition();
 862   double* image_bounds = ImageActor->GetBounds();
 863   double position[3] = {0, 0, 0};
 864   position[this->SliceOrientation] = image_bounds[this->SliceOrientation*2];
 865
 866   //print_vector<double, 6>("camera", camera);
 867   //print_vector<double, 6>("image_bounds", image_bounds);
 868   //print_vector<double, 3>("position", position);
 869
 870   // find where to place the VF actor. to deal with
 871   // z-buffer issues, the VF is placed right in front of the image,
 872   // subject to a small offset. the position actually depends on the
 873   // the location of the camera relative to the image.
 874   double offset = 1;
 875   if (camera[this->SliceOrientation] < image_bounds[this->SliceOrientation*2])
 876     offset = -1;
 877
 878   if (mVF && mVFActor->GetVisibility()) {
 879     int vfExtent[6];
 880     mVF->GetVTKImages()[0]->UpdateInformation();
 881     this->ConvertImageToImageDisplayExtent(input, w_ext, mVF->GetVTKImages()[0], vfExtent);
 882     ClipDisplayedExtent(vfExtent, mVOIFilter->GetInput()->GetWholeExtent());
 883     mVOIFilter->SetVOI(vfExtent);
 884     int orientation[3] = {1,1,1};
 885     orientation[this->SliceOrientation] = 0;
 886     mGlyphFilter->SetOrientation(orientation[0], orientation[1], orientation[2]);
 887     mVFMapper->Update();
 888
 889     position[this->SliceOrientation] += offset;
 890     mVFActor->SetPosition(position);
 891   }
 892
 893   // Landmarks actor
 894   if (mLandActor) {
 895     if (mClipBox) {
 896       double bounds [6];
 897       for(unsigned int i=0; i<6; i++)
 898         bounds[i] = ImageActor->GetBounds()[i];
 899       bounds[ this->SliceOrientation*2   ] = ImageActor->GetBounds()[ this->SliceOrientation*2  ]-fabs(this->GetInput()->GetSpacing()[this->SliceOrientation]);
 900       bounds[ this->SliceOrientation*2+1 ] = ImageActor->GetBounds()[ this->SliceOrientation*2+1 ]+fabs(this->GetInput()->GetSpacing()[this->SliceOrientation]);
 901       mClipBox->SetBounds(bounds);
 902       UpdateLandmarks();
 903     }
 904
 905     position[this->SliceOrientation] = offset;
 906     mLandActor->SetPosition(position);
 907   }
 908
 909   // Figure out the correct clipping range
 910   if (this->Renderer) {
 911     if (this->InteractorStyle &&
 912         this->InteractorStyle->GetAutoAdjustCameraClippingRange()) {
 913       this->Renderer->ResetCameraClippingRange();
 914     } else {
 915       vtkCamera *cam = this->Renderer->GetActiveCamera();
 916       if (cam) {
 917         double bounds[6];
 918         this->ImageActor->GetBounds(bounds);
 919         double spos = (double)bounds[this->SliceOrientation * 2];
 920         double cpos = (double)cam->GetPosition()[this->SliceOrientation];
 921         double range = fabs(spos - cpos);
 922         double *spacing = input->GetSpacing();
 923         double sumSpacing = spacing[0] + spacing[1] + spacing[2];
 924         cam->SetClippingRange(range - sumSpacing, range + sumSpacing);
 925       }
 926     }
 927   }
 928
 929 }
 930 //----------------------------------------------------------------------------
 931
 932 //----------------------------------------------------------------------------
 933 void vvSlicer::ConvertImageToImageDisplayExtent(vtkImageData *sourceImage, const int sourceExtent[6],
 934                                                 vtkImageData *targetImage, int targetExtent[6])
 935 {
 936   double dExtents[6];
 937   for(unsigned int i=0; i<6; i++) {
 938     // From source voxel coordinates to world coordinates
 939     dExtents[i] = sourceImage->GetOrigin()[i/2] + sourceImage->GetSpacing()[i/2] * sourceExtent[i];
 940
 941     // From world coordinates to floating point target voxel coordinates
 942     dExtents[i] = (dExtents[i]- targetImage->GetOrigin()[i/2]) / targetImage->GetSpacing()[i/2];
 943
 944     // Round to nearest
 945     //targetExtent[i] = itk::Math::Round<double>(dExtents[i]);
 946     targetExtent[i] = itk::Math::Floor<double>(dExtents[i]);
 947   }
 948 }
 949 //----------------------------------------------------------------------------
 950
 951 //----------------------------------------------------------------------------
 952 void vvSlicer::ClipDisplayedExtent(int extent[6], int refExtent[6])
 953 {
 954   bool out = false;
 955   int maxBound = 6;
 956
 957   //2D overlay on 3D image specific case
 958   if (refExtent[4] == refExtent[5]) {
 959     maxBound = 4;
 960     extent[4] = refExtent[4];
 961     extent[5] = refExtent[5];
 962   }
 963
 964   for (int i = 0; i < maxBound; i = i+2) {
 965     //if we are totally outside the image
 966     if ( extent[i] > refExtent[i+1] || extent[i+1] < refExtent[i] ) {
 967       out = true;
 968       break;
 969     }
 970     //crop to the limit of the image
 971     extent[i] = (extent[i] > refExtent[i]) ? extent[i] : refExtent[i];
 972     extent[i] = (extent[i] < refExtent[i+1]) ? extent[i] : refExtent[i+1];
 973     extent[i+1] = (extent[i+1] > refExtent[i]) ? extent[i+1] : refExtent[i];
 974     extent[i+1] = (extent[i+1] < refExtent[i+1]) ? extent[i+1] : refExtent[i+1];
 975   }
 976   if (out)
 977     for (int i = 0; i < maxBound; i = i+2) {
 978       extent[i] = refExtent[i];
 979       extent[i+1] = refExtent[i];
 980     }
 981 }
 982 //----------------------------------------------------------------------------
 983
 984
 985 //----------------------------------------------------------------------------
 986 void vvSlicer::UpdateOrientation()
 987 {
 988   // Set the camera position
 989   vtkCamera *cam = this->Renderer ? this->Renderer->GetActiveCamera() : NULL;
 990   if (cam) {
 991     switch (this->SliceOrientation) {
 992     case vtkImageViewer2::SLICE_ORIENTATION_XY:
 993       cam->SetFocalPoint(0,0,0);
 994       cam->SetPosition(0,0,-1); // -1 if medical ?
 995       cam->SetViewUp(0,-1,0);
 996       break;
 997
 998     case vtkImageViewer2::SLICE_ORIENTATION_XZ:
 999       cam->SetFocalPoint(0,0,0);
1000       cam->SetPosition(0,-1,0); // 1 if medical ?
1001       cam->SetViewUp(0,0,1);
1002       break;
1003
1004     case vtkImageViewer2::SLICE_ORIENTATION_YZ:
1005       cam->SetFocalPoint(0,0,0);
1006       cam->SetPosition(-1,0,0); // -1 if medical ?
1007       cam->SetViewUp(0,0,1);
1008       break;
1009     }
1010   }
1011 }
1012 //----------------------------------------------------------------------------
1013
1014
1015 //----------------------------------------------------------------------------
1016 void vvSlicer::SetOpacity(double s)
1017 {
1018   this->GetImageActor()->SetOpacity(s);
1019 }
1020 //----------------------------------------------------------------------------
1021
1022
1023 //----------------------------------------------------------------------------
1024 void vvSlicer::SetRenderWindow(int orientation, vtkRenderWindow * rw)
1025 {
1026   this->Superclass::SetRenderWindow(rw);
1027   this->SetupInteractor(rw->GetInteractor());
1028   ca->SetImageActor(this->GetImageActor());
1029   ca->SetWindowLevel(this->GetWindowLevel());
1030   ca->SetText(2, "<slice>");
1031   ca->SetText(3, "<window>\n<level>");
1032
1033   double bounds[6];
1034   double max = 65000;
1035
1036   bounds[0] = -max;
1037   bounds[1] = max;
1038   bounds[2] = -max;
1039   bounds[3] = max;
1040   bounds[4] = -max;
1041   bounds[5] = max;
1042
1043   crossCursor->SetModelBounds(bounds);
1044   this->GetRenderer()->AddActor(pdmA);
1045   this->GetRenderer()->AddActor(ca);
1046   this->GetRenderer()->ResetCamera();
1047
1048   //this is just a mapping between the labeling of the orientations presented to the user and
1049   //the one used by vtk
1050   SetSliceOrientation(2-(orientation%3));
1051   ResetCamera();
1052 }
1053 //----------------------------------------------------------------------------
1054
1055
1056 //----------------------------------------------------------------------------
1057 void vvSlicer::ResetCamera()
1058 {
1059   this->GetRenderer()->ResetCamera();
1060 }
1061 //----------------------------------------------------------------------------
1062
1063
1064 //----------------------------------------------------------------------------
1065 void vvSlicer::SetDisplayMode(bool i)
1066 {
1067   this->GetRenderer()->SetDraw(i);
1068   if (i)
1069     UpdateDisplayExtent();
1070 }
1071 //----------------------------------------------------------------------------
1072
1073
1074 //----------------------------------------------------------------------------
1075 void vvSlicer::FlipHorizontalView()
1076 {
1077   vtkCamera *cam = this->Renderer ? this->Renderer->GetActiveCamera() : NULL;
1078   if (cam) {
1079     double *position = cam->GetPosition();
1080     double factor[3] = {1, 1, 1};
1081     factor[this->SliceOrientation] = -1;
1082     cam->SetPosition(factor[0]*position[0],factor[1]*position[1],factor[2]*position[2]);
1083
1084 /*    switch (this->SliceOrientation) {
1085     case vtkImageViewer2::SLICE_ORIENTATION_XY:
1086       cam->SetPosition(position[0],position[1],-position[2]);
1087       break;
1088
1089     case vtkImageViewer2::SLICE_ORIENTATION_XZ:
1090       cam->SetPosition(position[0],-position[1],position[2]);
1091       break;
1092
1093     case vtkImageViewer2::SLICE_ORIENTATION_YZ:
1094       cam->SetPosition(-position[0],position[1],position[2]);
1095       break;
1096     }*/
1097
1098     this->Renderer->ResetCameraClippingRange();
1099     this->UpdateDisplayExtent();
1100   }
1101 }
1102 //----------------------------------------------------------------------------
1103
1104
1105 //----------------------------------------------------------------------------
1106 void vvSlicer::FlipVerticalView()
1107 {
1108   vtkCamera *cam = this->Renderer ? this->Renderer->GetActiveCamera() : NULL;
1109   if (cam) {
1110     FlipHorizontalView();
1111     double *viewup = cam->GetViewUp();
1112     cam->SetViewUp(-viewup[0],-viewup[1],-viewup[2]);
1113     this->UpdateDisplayExtent();
1114   }
1115 }
1116 //----------------------------------------------------------------------------
1117
1118
1119 //----------------------------------------------------------------------------
1120 void vvSlicer::SetColorWindow(double window)
1121 {
1122   vtkLookupTable* LUT = static_cast<vtkLookupTable*>(this->GetWindowLevel()->GetLookupTable());
1123   if ( LUT ) {
1124     double level = this->GetWindowLevel()->GetLevel();
1125     LUT->SetTableRange(level-fabs(window)/2,level+fabs(window)/2);
1126     LUT->Build();
1127   }
1128   this->vtkImageViewer2::SetColorWindow(window);
1129 }
1130 //----------------------------------------------------------------------------
1131
1132 //----------------------------------------------------------------------------
1133 void vvSlicer::SetColorLevel(double level)
1134 {
1135   vtkLookupTable* LUT = static_cast<vtkLookupTable*>(this->GetWindowLevel()->GetLookupTable());
1136   if ( LUT ) {
1137     double window = this->GetWindowLevel()->GetWindow();
1138     LUT->SetTableRange(level-fabs(window)/2,level+fabs(window)/2);
1139     LUT->Build();
1140   }
1141   this->vtkImageViewer2::SetColorLevel(level);
1142 }
1143 //----------------------------------------------------------------------------
1144
1145 //----------------------------------------------------------------------------
1146 double vvSlicer::GetOverlayColorWindow()
1147 {
1148   if(mOverlayMapper)
1149     return mOverlayMapper->GetWindow();
1150   else
1151     return 0.;
1152 }
1153 //----------------------------------------------------------------------------
1154
1155 //----------------------------------------------------------------------------
1156 double vvSlicer::GetOverlayColorLevel()
1157 {
1158   if(mOverlayMapper)
1159     return mOverlayMapper->GetLevel();
1160   else
1161     return 0.;
1162 }
1163 //----------------------------------------------------------------------------
1164
1165 //----------------------------------------------------------------------------
1166 void vvSlicer::SetOverlayColorWindow(double window)
1167 {
1168   mOverlayMapper->SetWindow(window);
1169 }
1170 //----------------------------------------------------------------------------
1171
1172 //----------------------------------------------------------------------------
1173 void vvSlicer::SetOverlayColorLevel(double level)
1174 {
1175   mOverlayMapper->SetLevel(level);
1176 }
1177 //----------------------------------------------------------------------------
1178
1179 //----------------------------------------------------------------------------
1180 // Returns the min an the max value in a 41x41 region around the mouse pointer
1181 void vvSlicer::GetExtremasAroundMousePointer(double & min, double & max, vtkImageData *image, vtkTransform *transform)
1182 {
1183   //Get mouse pointer position in view coordinates
1184   double corner1[3];
1185   double corner2[3];
1186   for(int i=0; i<3; i++) {
1187     corner1[i] = mCurrent[i];
1188     corner2[i] = mCurrent[i];
1189   }
1190
1191   this->Renderer->WorldToView(corner1[0], corner1[1], corner1[2]);
1192   this->Renderer->WorldToView(corner2[0], corner2[1], corner2[2]);
1193
1194   // In view coordinates, x is the slicer width and y is the slicer height are the in-plane axis
1195   int w, h;
1196   this->Renderer->GetTiledSize(&w, &h);
1197   corner1[0] -= 0.2*h/(double)w;
1198   corner2[0] += 0.2*h/(double)w;
1199   corner1[1] -= 0.2;
1200   corner2[1] += 0.2;
1201   this->Renderer->ViewToWorld(corner1[0], corner1[1], corner1[2]);
1202   this->Renderer->ViewToWorld(corner2[0], corner2[1], corner2[2]);
1203
1204   //Convert to image pixel coordinates (rounded)
1205   transform->TransformPoint(corner1, corner1);
1206   transform->TransformPoint(corner2, corner2);
1207   int iLocalExtents[6];
1208   for(int i=0; i<3; i++) {
1209     corner1[i] = (corner1[i] - image->GetOrigin()[i])/image->GetSpacing()[i];
1210     corner2[i] = (corner2[i] - image->GetOrigin()[i])/image->GetSpacing()[i];
1211
1212     iLocalExtents[i*2  ] = lrint(corner1[i]);
1213     iLocalExtents[i*2+1] = lrint(corner2[i]);
1214
1215     if(iLocalExtents[i*2  ]>iLocalExtents[i*2+1])
1216       std::swap(iLocalExtents[i*2], iLocalExtents[i*2+1]);
1217   }
1218
1219   vtkSmartPointer<vtkExtractVOI> voiFilter = vtkSmartPointer<vtkExtractVOI>::New();
1220   voiFilter->SetInput(image);
1221   voiFilter->SetVOI(iLocalExtents);
1222   voiFilter->Update();
1223   if (!voiFilter->GetOutput()->GetNumberOfPoints()) {
1224     min = 0;
1225     max = 0;
1226     return;
1227   }
1228
1229   vtkSmartPointer<vtkImageAccumulate> accFilter = vtkSmartPointer<vtkImageAccumulate>::New();
1230   accFilter->SetInput(voiFilter->GetOutput());
1231   accFilter->Update();
1232
1233   min = *(accFilter->GetMin());
1234   max = *(accFilter->GetMax());
1235 }
1236 //----------------------------------------------------------------------------
1237
1238 //----------------------------------------------------------------------------
1239 double vvSlicer::GetScalarComponentAsDouble(vtkImageData *image, double X, double Y, double Z, int &ix, int &iy, int &iz, int component)
1240 {
1241   ix = lrint(X);
1242   iy = lrint(Y);
1243   iz = lrint(Z);
1244   if (ix < image->GetWholeExtent()[0] ||
1245       ix > image->GetWholeExtent()[1] ||
1246       iy < image->GetWholeExtent()[2] ||
1247       iy > image->GetWholeExtent()[3] ||
1248       iz < image->GetWholeExtent()[4] ||
1249       iz > image->GetWholeExtent()[5] )
1250     return std::numeric_limits<double>::quiet_NaN();
1251
1252   image->SetUpdateExtent(ix, ix, iy, iy, iz, iz);
1253   image->Update();
1254   return image->GetScalarComponentAsDouble(ix, iy, iz, component);
1255 }
1256 //----------------------------------------------------------------------------
1257
1258 //----------------------------------------------------------------------------
1259 void vvSlicer::Render()
1260 {
1261   if (this->mFusion && mFusionActor->GetVisibility() && showFusionLegend) {
1262     legend->SetLookupTable(this->GetFusionMapper()->GetLookupTable());
1263     legend->UseOpacityOn();
1264     legend->SetVisibility(1);
1265   }
1266   else if (this->GetWindowLevel()->GetLookupTable() && !this->mOverlay)  {
1267     legend->SetLookupTable(this->GetWindowLevel()->GetLookupTable());
1268     legend->UseOpacityOff();
1269     legend->SetVisibility(1);
1270   } else legend->SetVisibility(0);
1271
1272   if (ca->GetVisibility()) {
1273     std::stringstream worldPos;
1274     double X = (mCurrent[0] - this->GetInput()->GetOrigin()[0])/this->GetInput()->GetSpacing()[0];
1275     double Y = (mCurrent[1] - this->GetInput()->GetOrigin()[1])/this->GetInput()->GetSpacing()[1];
1276     double Z = (mCurrent[2] - this->GetInput()->GetOrigin()[2])/this->GetInput()->GetSpacing()[2];
1277
1278 //     if (X < this->GetInput()->GetWholeExtent()[0]) X = this->GetInput()->GetWholeExtent()[0];
1279 //     else if (X > this->GetInput()->GetWholeExtent()[1]) X = this->GetInput()->GetWholeExtent()[1];
1280 //     if (Y < this->GetInput()->GetWholeExtent()[2]) Y = this->GetInput()->GetWholeExtent()[2];
1281 //     else if (Y > this->GetInput()->GetWholeExtent()[3]) Y = this->GetInput()->GetWholeExtent()[3];
1282 //     if (Z < this->GetInput()->GetWholeExtent()[4]) Z = this->GetInput()->GetWholeExtent()[4];
1283 //     else if (Z > this->GetInput()->GetWholeExtent()[5]) Z = this->GetInput()->GetWholeExtent()[5];
1284
1285     if (X >= this->GetInput()->GetWholeExtent()[0] &&
1286         X <= this->GetInput()->GetWholeExtent()[1] &&
1287         Y >= this->GetInput()->GetWholeExtent()[2] &&
1288         Y <= this->GetInput()->GetWholeExtent()[3] &&
1289         Z >= this->GetInput()->GetWholeExtent()[4] &&
1290         Z <= this->GetInput()->GetWholeExtent()[5]) {
1291
1292
1293       int ix, iy, iz;
1294       double value = this->GetScalarComponentAsDouble(this->GetInput(), X, Y, Z, ix, iy, iz);
1295
1296       if(ImageActor->GetVisibility())
1297         worldPos << "data value : " << value << std::endl;
1298
1299       worldPos << "mm : " << lrint(mCurrent[0]) << ' '
1300                           << lrint(mCurrent[1]) << ' '
1301                           << lrint(mCurrent[2]) << ' '
1302                           << mCurrentTSlice
1303                           << std::endl;
1304       worldPos << "pixel : " << ix << ' '
1305                              << iy << ' '
1306                              << iz << ' '
1307                              << mCurrentTSlice
1308                              << std::endl;
1309     }
1310     ca->SetText(1,worldPos.str().c_str());
1311   }
1312
1313   if (pdmA->GetVisibility()) {
1314     double x = mCursor[0];
1315     double y = mCursor[1];
1316     double z = mCursor[2];
1317     double xCursor = (x - this->GetInput()->GetOrigin()[0])/this->GetInput()->GetSpacing()[0];
1318     double yCursor = (y - this->GetInput()->GetOrigin()[1])/this->GetInput()->GetSpacing()[1];
1319     double zCursor = (z - this->GetInput()->GetOrigin()[2])/this->GetInput()->GetSpacing()[2];
1320
1321     if (xCursor >= this->GetImageActor()->GetDisplayExtent()[0] &&
1322         xCursor < this->GetImageActor()->GetDisplayExtent()[1]+1 &&
1323         yCursor >= this->GetImageActor()->GetDisplayExtent()[2] &&
1324         yCursor < this->GetImageActor()->GetDisplayExtent()[3]+1 &&
1325         zCursor >= this->GetImageActor()->GetDisplayExtent()[4] &&
1326         zCursor < this->GetImageActor()->GetDisplayExtent()[5]+1 ) {
1327       vtkRenderer * renderer = this->Renderer;
1328
1329       renderer->WorldToView(x,y,z);
1330       renderer->ViewToNormalizedViewport(x,y,z);
1331       renderer->NormalizedViewportToViewport(x,y);
1332       renderer->ViewportToNormalizedDisplay(x,y);
1333       renderer->NormalizedDisplayToDisplay(x,y);
1334       crossCursor->SetFocalPoint(x,y,z);
1335     } else
1336       crossCursor->SetFocalPoint(-1,-1,z);
1337   }
1338
1339
1340   if (mOverlay && mOverlayActor->GetVisibility()) {
1341     if(mLinkOverlayWindowLevel) {
1342       mOverlayMapper->SetWindow(this->GetColorWindow());
1343       mOverlayMapper->SetLevel(this->GetColorLevel());
1344     }
1345     mOverlayMapper->GetOutput()->SetUpdateExtent(mOverlayActor->GetDisplayExtent());
1346     mOverlayMapper->GetOutput()->Update();
1347     mOverlayMapper->Update();
1348   }
1349   if (mLandMapper)
1350     UpdateLandmarks();
1351
1352   this->GetRenderWindow()->Render();
1353 }
1354 //----------------------------------------------------------------------------
1355
1356
1357 //----------------------------------------------------------------------------
1358 void vvSlicer::UpdateCursorPosition()
1359 {
1360   pdmA->SetVisibility(true);
1361   mCursor[0] = mCurrent[0];
1362   mCursor[1] = mCurrent[1];
1363   mCursor[2] = mCurrent[2];
1364   mCursor[3] = mCurrentTSlice;
1365 }
1366 //----------------------------------------------------------------------------
1367
1368
1369 //----------------------------------------------------------------------------
1370 void vvSlicer::UpdateLandmarks()
1371 {
1372   vtkPolyData *pd = static_cast<vtkPolyData*>(mLandClipper->GetInput());
1373   if (pd->GetPoints()) {
1374     mLandGlyph->SetRange(0,1);
1375     mLandGlyph->Modified();
1376     mLandGlyph->Update();
1377
1378     mClipBox->Modified();
1379     mLandClipper->Update();
1380     mLandMapper->Update();
1381   }
1382
1383 }
1384 //----------------------------------------------------------------------------
1385
1386
1387 //----------------------------------------------------------------------------
1388 void vvSlicer::SetSlice(int slice)
1389 {
1390   int *range = this->GetSliceRange();
1391   if (range) {
1392     if (slice < range[0]) {
1393       slice = range[0];
1394     } else if (slice > range[1]) {
1395       slice = range[1];
1396     }
1397   }
1398
1399   if (this->Slice == slice) {
1400     return;
1401   }
1402
1403   this->Slice = slice;
1404   SetContourSlice();
1405   this->Modified();
1406   this->UpdateDisplayExtent();
1407
1408   // Seems to work without this line
1409   //this->Render();
1410 }
1411 //----------------------------------------------------------------------------
1412
1413
1414 //----------------------------------------------------------------------------
1415 void vvSlicer::SetContourSlice()
1416 {
1417   if (mSurfaceCutActors.size() > 0)
1418     for (std::vector<vvMeshActor*>::iterator i=mSurfaceCutActors.begin();
1419          i!=mSurfaceCutActors.end(); i++) {
1420
1421       (*i)->SetSlicingOrientation(this->SliceOrientation);
1422       (*i)->SetCutSlice((this->Slice)*this->GetImage()->GetSpacing()[this->SliceOrientation]+
1423                         this->GetImage()->GetOrigin()[this->SliceOrientation]);
1424     }
1425 }
1426 //----------------------------------------------------------------------------
1427
1428
1429 //----------------------------------------------------------------------------
1430 void vvSlicer::ForceUpdateDisplayExtent()
1431 {
1432   this->UpdateDisplayExtent();
1433 }
1434 //----------------------------------------------------------------------------
1435
1436
1437 //----------------------------------------------------------------------------
1438 int* vvSlicer::GetDisplayExtent()
1439 {
1440   return this->GetImageActor()->GetDisplayExtent();
1441 }
1442 //----------------------------------------------------------------------------
1443
1444
1445 //----------------------------------------------------------------------------
1446 void vvSlicer::PrintSelf(ostream& os, vtkIndent indent)
1447 {
1448   this->Superclass::PrintSelf(os, indent);
1449 }
1450 //----------------------------------------------------------------------------
1451
1452 //----------------------------------------------------------------------------
1453 void vvSlicer::SetVFColor(double r, double g, double b)
1454 {
1455   double mVFColorHSV[3];
1456   mVFColor[0] = r;
1457   mVFColor[1] = g;
1458   mVFColor[2] = b;
1459
1460   vtkMath::RGBToHSV(mVFColor, mVFColorHSV);
1461   mVFColorLUT->SetHueRange(mVFColorHSV[0], mVFColorHSV[0]);
1462   mVFColorLUT->SetSaturationRange(mVFColorHSV[1],mVFColorHSV[1]);
1463   mVFColorLUT->SetValueRange(mVFColorHSV[2], mVFColorHSV[2]);
1464
1465   this->Render();
1466 }
1467