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
  70 // template <class T, unsigned int dim>
  71 // void print_vector(const char* pmsg, T* pvec)
  72 // {
  73 //   std::cout << pmsg << ": ";
  74 //   for (unsigned int i = 0; i < dim; i++)
  75 //     std::cout << pvec[i] << " ";
  76 //   std::cout << std::endl;
  77 // }
  78
  79
  80 vtkCxxRevisionMacro(vvSlicer, "DummyRevision");
  81 vtkStandardNewMacro(vvSlicer);
  82
  83 //------------------------------------------------------------------------------
  84 vvSlicer::vvSlicer()
  85 {
  86   this->UnInstallPipeline();
  87   mImage = NULL;
  88   mCurrentTSlice = 0;
  89   mUseReducedExtent = false;
  90
  91   mCurrent[0] = -VTK_DOUBLE_MAX;
  92   mCurrent[1] = -VTK_DOUBLE_MAX;
  93   mCurrent[2] = -VTK_DOUBLE_MAX;
  94
  95   mCursor[0] = -VTK_DOUBLE_MAX;
  96   mCursor[1] = -VTK_DOUBLE_MAX;
  97   mCursor[2] = -VTK_DOUBLE_MAX;
  98   mCursor[3] = -VTK_DOUBLE_MAX;
  99
 100   mSubSampling = 5;
 101   mScale = 1;
 102   mVFLog = 0;
 103   mVFWidth = 1;
 104   mVFColor[0] = 0;
 105   mVFColor[1] = 1;
 106   mVFColor[2] = 0;
 107
 108   std::string text = "F1 = sagital; F2 = coronal; F3 = axial\n";
 109   text += "F5 = horizontal flip; F6 = vertical flip\n\n";
 110   text += "0,1,2,3,4,5 : preset windowing\n";
 111   text += "6,7,8,9 : preset colormap\n";
 112   text += "z : local windowing\n";
 113   text += "r : reset view\n";
 114   text += "l : reload image\n";
 115   text += "f : fly to mouse position\n";
 116   text += "g : go to cross hair position\n\n";
 117   text += "Up,down : change slice\n";
 118   text += "Left,right : change tenporal slice\n\n";
 119   text += "Scrollbar (or w/x) : zoom in/out\n";
 120   text += "left button : synchronize all views\n";
 121   text += "middle button : grab image\n";
 122   text += "right button : change windowing\n";
 123
 124   crossCursor = vtkSmartPointer<vtkCursor2D>::New();
 125   crossCursor->AllOff();
 126   crossCursor->AxesOn();
 127   crossCursor->SetTranslationMode(1);
 128   crossCursor->SetRadius(2);
 129
 130   pdm = vtkSmartPointer<vtkPolyDataMapper2D>::New();
 131   pdm->SetInput(crossCursor->GetOutput());
 132
 133   pdmA = vtkSmartPointer<vtkActor2D>::New();
 134   pdmA->SetMapper(pdm);
 135   pdmA->GetProperty()->SetColor(255,10,212);
 136   pdmA->SetVisibility(0);
 137   pdmA->SetPickable(0);
 138
 139   ca = vtkSmartPointer<vtkCornerAnnotation>::New();
 140   ca->GetTextProperty()->SetColor(255,10,212);
 141   ca->SetVisibility(1);
 142   mFileName = "";
 143
 144   mVF = NULL;
 145   mOverlay = NULL;
 146   mFusion = NULL;
 147   mLandmarks = NULL;
 148
 149   legend = vtkSmartPointer<vtkScalarBarActor>::New();
 150   //legend->SetTitle("test!");
 151   legend->SetPosition(0.82,0.18);
 152   legend->SetWidth(0.1);
 153   legend->SetVisibility(0);
 154   legend->SetLabelFormat("%.1f");
 155   this->GetRenderer()->AddActor(legend);
 156
 157   this->WindowLevel->Delete();
 158   this->WindowLevel = vvImageMapToWLColors::New();
 159
 160   this->InstallPipeline();
 161 }
 162 //------------------------------------------------------------------------------
 163
 164
 165 //------------------------------------------------------------------------------
 166 vtkImageMapToWindowLevelColors* vvSlicer::GetOverlayMapper()
 167 {
 168   return mOverlayMapper.GetPointer();
 169 }
 170 //------------------------------------------------------------------------------
 171
 172
 173 //------------------------------------------------------------------------------
 174 vvBlendImageActor* vvSlicer::GetOverlayActor()
 175 {
 176   return mOverlayActor.GetPointer();
 177 }
 178 //------------------------------------------------------------------------------
 179
 180
 181 //------------------------------------------------------------------------------
 182 vtkImageMapToWindowLevelColors* vvSlicer::GetFusionMapper()
 183 {
 184   return mFusionMapper.GetPointer();
 185 }
 186 //------------------------------------------------------------------------------
 187
 188
 189 //------------------------------------------------------------------------------
 190 vtkImageActor* vvSlicer::GetFusionActor()
 191 {
 192   return mFusionActor.GetPointer();
 193 }
 194 //------------------------------------------------------------------------------
 195
 196
 197 //------------------------------------------------------------------------------
 198 vtkActor* vvSlicer::GetVFActor()
 199 {
 200   return mVFActor.GetPointer();
 201 }
 202 //------------------------------------------------------------------------------
 203
 204
 205 //------------------------------------------------------------------------------
 206 vtkCornerAnnotation* vvSlicer::GetAnnotation()
 207 {
 208   return ca.GetPointer();
 209 }
 210 //------------------------------------------------------------------------------
 211
 212
 213 //------------------------------------------------------------------------------
 214 void vvSlicer::EnableReducedExtent(bool b)
 215 {
 216   mUseReducedExtent = b;
 217 }
 218 //------------------------------------------------------------------------------
 219
 220
 221 //------------------------------------------------------------------------------
 222 void vvSlicer::SetReducedExtent(int * ext)
 223 {
 224   mReducedExtent = ext;
 225 }
 226 //------------------------------------------------------------------------------
 227
 228
 229 //------------------------------------------------------------------------------
 230 void vvSlicer::AddContour(vvMesh::Pointer contour,bool propagate)
 231 {
 232
 233   mSurfaceCutActors.push_back(new vvMeshActor());
 234   if (propagate)
 235     mSurfaceCutActors.back()->Init(contour,mCurrentTSlice,mVF);
 236   else
 237     mSurfaceCutActors.back()->Init(contour,mCurrentTSlice);
 238   mSurfaceCutActors.back()->SetSlicingOrientation(SliceOrientation);
 239   this->GetRenderer()->AddActor(mSurfaceCutActors.back()->GetActor());
 240
 241   SetContourSlice();
 242 }
 243 //------------------------------------------------------------------------------
 244
 245
 246 //------------------------------------------------------------------------------
 247 void vvSlicer::ToggleContourSuperposition()
 248 {
 249   for (std::vector<vvMeshActor*>::iterator i=mSurfaceCutActors.begin();
 250        i!=mSurfaceCutActors.end(); i++)
 251     (*i)->ToggleSuperposition();
 252 }
 253 //------------------------------------------------------------------------------
 254
 255
 256 //------------------------------------------------------------------------------
 257 void vvSlicer::SetCursorColor(int r,int g, int b)
 258 {
 259   pdmA->GetProperty()->SetColor(r,g,b);
 260 }
 261 //------------------------------------------------------------------------------
 262
 263
 264 //------------------------------------------------------------------------------
 265 void vvSlicer::SetCursorVisibility(bool s)
 266 {
 267   pdmA->SetVisibility(s);
 268 }
 269 //------------------------------------------------------------------------------
 270
 271
 272 //------------------------------------------------------------------------------
 273 bool vvSlicer::GetCursorVisibility()
 274 {
 275   return pdmA->GetVisibility();
 276 }
 277 //------------------------------------------------------------------------------
 278
 279
 280 //------------------------------------------------------------------------------
 281 void vvSlicer::SetCornerAnnotationVisibility(bool s)
 282 {
 283   ca->SetVisibility(s);
 284 }
 285 //------------------------------------------------------------------------------
 286
 287
 288 //------------------------------------------------------------------------------
 289 bool vvSlicer::GetCornerAnnotationVisibility()
 290 {
 291   return ca->GetVisibility();
 292 }
 293 //------------------------------------------------------------------------------
 294
 295
 296 //------------------------------------------------------------------------------
 297 vvSlicer::~vvSlicer()
 298 {
 299   for (std::vector<vvMeshActor*>::iterator i=mSurfaceCutActors.begin();
 300        i!=mSurfaceCutActors.end(); i++)
 301     delete (*i);
 302 }
 303 //------------------------------------------------------------------------------
 304
 305
 306 //------------------------------------------------------------------------------
 307 void vvSlicer::SetCurrentPosition(double x, double y, double z, int t)
 308 {
 309   mCurrent[0] = x;
 310   mCurrent[1] = y;
 311   mCurrent[2] = z;
 312   mCurrentTSlice = t;
 313 }
 314 //------------------------------------------------------------------------------
 315
 316
 317 //------------------------------------------------------------------------------
 318 void vvSlicer::SetImage(vvImage::Pointer image)
 319 {
 320   if (image->GetVTKImages().size()) {
 321     mImage = image;
 322
 323     if (!mImageReslice) {
 324       mImageReslice = vtkSmartPointer<vtkImageReslice>::New();
 325       mImageReslice->SetInterpolationModeToLinear();
 326       mImageReslice->AutoCropOutputOn();
 327       mImageReslice->SetBackgroundColor(-1000,-1000,-1000,1);
 328     }
 329     mImageReslice->SetResliceTransform(mImage->GetTransform());
 330     mImageReslice->SetInput(0, mImage->GetFirstVTKImageData());
 331     mImageReslice->UpdateInformation();
 332
 333     this->Superclass::SetInput(mImageReslice->GetOutput());
 334
 335     int extent[6];
 336     this->GetInput()->GetWholeExtent(extent);
 337
 338     // Prevent crash when reload -> change slice if outside extent
 339     if (Slice < extent[SliceOrientation*2] || Slice>=extent[SliceOrientation*2+1]) {
 340       Slice = (extent[SliceOrientation*2+1]-extent[SliceOrientation*2])/2.0;
 341     }
 342
 343     // Make sure that the required part image has been computed
 344     extent[SliceOrientation*2] = Slice;
 345     extent[SliceOrientation*2+1] = Slice;
 346     mImageReslice->GetOutput()->SetUpdateExtent(extent);
 347     mImageReslice->GetOutput()->Update();
 348
 349     this->UpdateDisplayExtent();
 350
 351     mCurrentTSlice = 0;
 352     ca->SetText(0,mFileName.c_str());
 353   }
 354 }
 355 //------------------------------------------------------------------------------
 356
 357
 358 //------------------------------------------------------------------------------
 359 void vvSlicer::SetOverlay(vvImage::Pointer overlay)
 360 {
 361   if (overlay->GetVTKImages().size()) {
 362     mOverlay = overlay;
 363
 364     if (!mOverlayReslice) {
 365       mOverlayReslice = vtkSmartPointer<vtkImageReslice>::New();
 366       mOverlayReslice->SetInterpolationModeToLinear();
 367       mOverlayReslice->AutoCropOutputOn();
 368       mOverlayReslice->SetBackgroundColor(-1000,-1000,-1000,1);
 369     }
 370     mOverlayReslice->SetResliceTransform(mOverlay->GetTransform());
 371     mOverlayReslice->SetInput(0, mOverlay->GetFirstVTKImageData());
 372
 373     if (!mOverlayMapper)
 374       mOverlayMapper = vtkSmartPointer<vtkImageMapToWindowLevelColors>::New();
 375     mOverlayMapper->SetInput(mOverlayReslice->GetOutput());
 376
 377     if (!mOverlayActor) {
 378       mOverlayActor = vtkSmartPointer<vvBlendImageActor>::New();
 379       mOverlayActor->SetInput(mOverlayMapper->GetOutput());
 380       mOverlayActor->SetPickable(0);
 381       mOverlayActor->SetVisibility(false);
 382       mOverlayActor->SetOpacity(0.5);
 383     }
 384
 385     //stupid but necessary : the Overlay need to be rendered before fusion
 386     if (mFusionActor) {
 387       this->GetRenderer()->RemoveActor(mFusionActor);
 388       this->GetRenderer()->AddActor(mOverlayActor);
 389       this->GetRenderer()->AddActor(mFusionActor);
 390     } else
 391       this->GetRenderer()->AddActor(mOverlayActor);
 392
 393     //Synchronize orientation and slice
 394     this->SetSliceOrientation(this->SliceOrientation);
 395     this->SetTSlice(mCurrentTSlice);
 396   }
 397 }
 398 //------------------------------------------------------------------------------
 399
 400
 401 //------------------------------------------------------------------------------
 402 void vvSlicer::SetFusion(vvImage::Pointer fusion)
 403 {
 404   if (fusion->GetVTKImages().size()) {
 405     mFusion = fusion;
 406
 407     if (!mFusionReslice) {
 408       mFusionReslice = vtkSmartPointer<vtkImageReslice>::New();
 409       mFusionReslice->SetInterpolationModeToLinear();
 410       mFusionReslice->AutoCropOutputOn();
 411       mFusionReslice->SetBackgroundColor(-1000,-1000,-1000,1);
 412     }
 413     mFusionReslice->SetResliceTransform(mFusion->GetTransform());
 414     mFusionReslice->SetInput(0, mFusion->GetFirstVTKImageData());
 415
 416     if (!mFusionMapper)
 417       mFusionMapper = vtkSmartPointer<vtkImageMapToWindowLevelColors>::New();
 418     mFusionMapper->SetInput(mFusionReslice->GetOutput());
 419
 420     if (!mFusionActor) {
 421       mFusionActor = vtkSmartPointer<vtkImageActor>::New();
 422       mFusionActor->SetInput(mFusionMapper->GetOutput());
 423       mFusionActor->SetPickable(0);
 424       mFusionActor->SetVisibility(false);
 425       mFusionActor->SetOpacity(0.7);
 426       this->GetRenderer()->AddActor(mFusionActor);
 427     }
 428
 429     //Synchronize orientation and slice
 430     this->SetSliceOrientation(this->SliceOrientation);
 431     this->SetTSlice(mCurrentTSlice);
 432   }
 433 }
 434 //------------------------------------------------------------------------------
 435
 436
 437 //------------------------------------------------------------------------------
 438 void vvSlicer::SetActorVisibility(const std::string& actor_type, int overlay_index ,bool vis)
 439 {
 440   if (actor_type == "vector") {
 441     this->mVFActor->SetVisibility(vis);
 442   }
 443   if (actor_type == "overlay") {
 444     this->mOverlayActor->SetVisibility(vis);
 445   }
 446   if (actor_type == "fusion") {
 447     this->mFusionActor->SetVisibility(vis);
 448   }
 449   if (actor_type == "contour")
 450     this->mSurfaceCutActors[overlay_index]->GetActor()->SetVisibility(vis);
 451   UpdateDisplayExtent();
 452 }
 453 //------------------------------------------------------------------------------
 454
 455
 456 //------------------------------------------------------------------------------
 457 void vvSlicer::SetVF(vvImage::Pointer vf)
 458 {
 459   if (vf->GetVTKImages().size()) {
 460     mVF = vf;
 461
 462     if (!mAAFilter) {
 463       mAAFilter= vtkSmartPointer<vtkAssignAttribute>::New();
 464       mVOIFilter = vtkSmartPointer<vtkExtractVOI>::New();
 465       mVOIFilter->SetSampleRate(mSubSampling,mSubSampling,mSubSampling);
 466     }
 467     mVOIFilter->SetInput(vf->GetFirstVTKImageData());
 468     mAAFilter->SetInput(mVOIFilter->GetOutput());
 469     ///This tells VTK to use the scalar (pixel) data of the image to draw the little arrows
 470     mAAFilter->Assign(vtkDataSetAttributes::SCALARS, vtkDataSetAttributes::VECTORS, vtkAssignAttribute::POINT_DATA);
 471
 472     if (!mArrow)
 473       mArrow = vtkSmartPointer<vvGlyphSource>::New();
 474     mArrow->SetGlyphTypeToSpecificArrow();
 475     mArrow->SetScale(mScale);
 476     mArrow->FilledOff();
 477
 478     // Glyph the gradient vector (with arrows)
 479     if (!mGlyphFilter)
 480       mGlyphFilter = vtkSmartPointer<vvGlyph2D>::New();
 481     mGlyphFilter->SetInput(mAAFilter->GetOutput());
 482     mGlyphFilter->SetSource(mArrow->GetOutput());
 483     mGlyphFilter->ScalingOn();
 484     mGlyphFilter->SetScaleModeToScaleByVector();
 485     mGlyphFilter->OrientOn();
 486     mGlyphFilter->SetVectorModeToUseVector();
 487     mGlyphFilter->SetColorModeToColorByVector();
 488
 489     if (!mVFColorLUT)
 490       mVFColorLUT = vtkSmartPointer<vtkLookupTable>::New();
 491
 492     double mVFColorHSV[3];
 493     vtkMath::RGBToHSV(mVFColor, mVFColorHSV);
 494     mVFColorLUT->SetHueRange(mVFColorHSV[0], mVFColorHSV[0]);
 495     mVFColorLUT->SetSaturationRange(mVFColorHSV[1],mVFColorHSV[1]);
 496     mVFColorLUT->SetValueRange(mVFColorHSV[2], mVFColorHSV[2]);
 497
 498     if (!mVFMapper)
 499       mVFMapper = vtkSmartPointer<vtkPolyDataMapper>::New();
 500     mVFMapper->SetInput(mGlyphFilter->GetOutput());
 501     mVFMapper->ImmediateModeRenderingOn();
 502     mVFMapper->SetLookupTable(mVFColorLUT);
 503
 504     if (!mVFActor)
 505       mVFActor = vtkSmartPointer<vtkActor>::New();
 506     mVFActor->SetMapper(mVFMapper);
 507     mVFActor->SetPickable(0);
 508     mVFActor->GetProperty()->SetLineWidth(mVFWidth);
 509     this->UpdateDisplayExtent();
 510     this->GetRenderer()->AddActor(mVFActor);
 511
 512     //Synchronize slice
 513     SetTSlice(mCurrentTSlice);
 514   }
 515 }
 516 //------------------------------------------------------------------------------
 517
 518
 519 //------------------------------------------------------------------------------
 520 void vvSlicer::SetLandmarks(vvLandmarks* landmarks)
 521 {
 522   mLandmarks = landmarks;
 523   if (landmarks) {
 524
 525     if (!mCross)
 526       mCross = vtkSmartPointer<vtkCursor3D>::New();
 527     mCross->SetFocalPoint(0.0,0.0,0.0);
 528     mCross->SetModelBounds(-10,10,-10,10,-10,10);
 529     mCross->AllOff();
 530     mCross->AxesOn();
 531
 532     if (!mLandGlyph)
 533       mLandGlyph = vtkSmartPointer<vtkGlyph3D>::New();
 534     mLandGlyph->SetSource(mCross->GetOutput());
 535     mLandGlyph->SetInput(landmarks->GetOutput());
 536     //mLandGlyph->SetIndexModeToScalar();
 537     mLandGlyph->SetRange(0,1);
 538     mLandGlyph->ScalingOff();
 539
 540     mLandGlyph->SetColorModeToColorByScalar();
 541
 542     if (!mClipBox)
 543       mClipBox = vtkSmartPointer<vtkBox>::New();
 544     if (!mLandClipper)
 545       mLandClipper = vtkSmartPointer<vtkClipPolyData>::New();
 546     mLandClipper->InsideOutOn();
 547     mLandClipper->SetInput(mLandGlyph->GetOutput());
 548     mLandClipper->SetClipFunction(mClipBox);
 549
 550     if (!mLandMapper)
 551       mLandMapper = vtkSmartPointer<vtkPolyDataMapper>::New();
 552     mLandMapper->SetInputConnection(mLandClipper->GetOutputPort());
 553     //mLandMapper->ScalarVisibilityOff();
 554
 555     if (!mLandActor)
 556       mLandActor = vtkSmartPointer<vtkActor>::New();
 557     mLandActor->SetMapper(mLandMapper);
 558     mLandActor->GetProperty()->SetColor(255,10,212);
 559     mLandActor->SetPickable(0);
 560     mLandActor->SetVisibility(true);
 561     this->UpdateDisplayExtent();
 562     this->GetRenderer()->AddActor(mLandActor);
 563   }
 564 }
 565 //------------------------------------------------------------------------------
 566
 567 //------------------------------------------------------------------------------
 568 //FIXME: this function leaks memory, we should fix it someday :)
 569 void vvSlicer::RemoveActor(const std::string& actor_type, int overlay_index)
 570 {
 571   if (actor_type == "vector") {
 572     Renderer->RemoveActor(mVFActor);
 573     mGlyphFilter=NULL;
 574     mVF = NULL;
 575     mArrow = NULL;
 576     mAAFilter=NULL;
 577     mVOIFilter = NULL;
 578     mVFMapper = NULL;
 579     mVFActor = NULL;
 580   }
 581   if (actor_type == "overlay") {
 582     Renderer->RemoveActor(mOverlayActor);
 583     mOverlay = NULL;
 584     mOverlayActor = NULL;
 585     mOverlayMapper = NULL;
 586   }
 587   if (actor_type == "fusion") {
 588     Renderer->RemoveActor(mFusionActor);
 589     mFusion = NULL;
 590     mFusionActor = NULL;
 591     mFusionMapper = NULL;
 592   }
 593   if (actor_type == "contour") {
 594     Renderer->RemoveActor(this->mSurfaceCutActors[overlay_index]->GetActor());
 595     mSurfaceCutActors.erase(mSurfaceCutActors.begin()+overlay_index);
 596   }
 597 }
 598 //------------------------------------------------------------------------------
 599
 600
 601 //------------------------------------------------------------------------------
 602 void vvSlicer::SetVFSubSampling(int sub)
 603 {
 604   if (mVOIFilter) {
 605     mVOIFilter->SetSampleRate(mSubSampling,mSubSampling,mSubSampling);
 606     mSubSampling = sub;
 607   }
 608   UpdateDisplayExtent();
 609   Render();
 610 }
 611 //------------------------------------------------------------------------------
 612
 613
 614 //------------------------------------------------------------------------------
 615 void vvSlicer::SetVFScale(int scale)
 616 {
 617   mScale = scale;
 618   if (mArrow)
 619     mArrow->SetScale(mScale);
 620   UpdateDisplayExtent();
 621   Render();
 622 }
 623 //------------------------------------------------------------------------------
 624
 625 //------------------------------------------------------------------------------
 626 void vvSlicer::SetVFWidth(int width)
 627 {
 628   mVFWidth = width;
 629   if (mVFActor)
 630     mVFActor->GetProperty()->SetLineWidth(mVFWidth);
 631   UpdateDisplayExtent();
 632   Render();
 633 }
 634 //------------------------------------------------------------------------------
 635
 636
 637 //------------------------------------------------------------------------------
 638 void vvSlicer::SetVFLog(int log)
 639 {
 640   mVFLog = log;
 641   if (mGlyphFilter) {
 642     mGlyphFilter->SetUseLog(mVFLog);
 643     mGlyphFilter->Modified();
 644   }
 645   UpdateDisplayExtent();
 646   Render();
 647 }
 648 //------------------------------------------------------------------------------
 649
 650
 651 //------------------------------------------------------------------------------
 652 void vvSlicer::SetTSlice(int t)
 653 {
 654   if (t < 0)
 655     t = 0;
 656   else if ((unsigned int)t >= mImage->GetVTKImages().size())
 657     t = mImage->GetVTKImages().size() -1;
 658
 659   if (mCurrentTSlice == t) return;
 660
 661   mCurrentTSlice = t;
 662   mImageReslice->SetInput( mImage->GetVTKImages()[mCurrentTSlice] );
 663   if (mVF && mVFActor->GetVisibility()) {
 664     if (mVF->GetVTKImages().size() > (unsigned int)mCurrentTSlice)
 665       mVOIFilter->SetInput(mVF->GetVTKImages()[mCurrentTSlice]);
 666   }
 667   if (mOverlay && mOverlayActor->GetVisibility()) {
 668     if (mOverlay->GetVTKImages().size() > (unsigned int)mCurrentTSlice)
 669       mOverlayReslice->SetInput( mOverlay->GetVTKImages()[mCurrentTSlice] );
 670   }
 671   if (mFusion && mFusionActor->GetVisibility()) {
 672     if (mFusion->GetVTKImages().size() > (unsigned int)mCurrentTSlice)
 673       mFusionReslice->SetInput( mFusion->GetVTKImages()[mCurrentTSlice]);
 674   }
 675   if (mSurfaceCutActors.size() > 0)
 676     for (std::vector<vvMeshActor*>::iterator i=mSurfaceCutActors.begin();
 677          i!=mSurfaceCutActors.end(); i++)
 678       (*i)->SetTimeSlice(mCurrentTSlice);
 679   UpdateDisplayExtent();
 680 }
 681 //------------------------------------------------------------------------------
 682
 683
 684 //------------------------------------------------------------------------------
 685 int vvSlicer::GetTSlice()
 686 {
 687   return mCurrentTSlice;
 688 }
 689 //------------------------------------------------------------------------------
 690
 691 //------------------------------------------------------------------------------
 692 void vvSlicer::SetSliceOrientation(int orientation)
 693 {
 694   //if 2D image, force to watch in Axial View
 695   int extent[6];
 696   this->GetInput()->GetWholeExtent(extent);
 697   if (extent[5]-extent[4] <= 2)
 698     orientation = vtkImageViewer2::SLICE_ORIENTATION_XY;
 699
 700   if (orientation < vtkImageViewer2::SLICE_ORIENTATION_YZ ||
 701       orientation > vtkImageViewer2::SLICE_ORIENTATION_XY) {
 702     vtkErrorMacro("Error - invalid slice orientation " << orientation);
 703     return;
 704   }
 705
 706   this->SliceOrientation = orientation;
 707
 708   if(mFusion)
 709     AdjustResliceToSliceOrientation(mFusionReslice);
 710
 711   if(mOverlay)
 712     AdjustResliceToSliceOrientation(mOverlayReslice);
 713
 714   // Update the viewer
 715   int *range = this->GetSliceRange();
 716   if (range)
 717     this->Slice = static_cast<int>((range[0] + range[1]) * 0.5);
 718
 719   // Go to current cursor position
 720   // double* cursorPos = GetCursorPosition();
 721   // DDV(cursorPos, 3);
 722   // SetCurrentPosition(cursorPos[0],cursorPos[1],cursorPos[2],cursorPos[3]);
 723
 724   this->UpdateOrientation();
 725   this->UpdateDisplayExtent();
 726
 727   if (this->Renderer && this->GetInput()) {
 728     double scale = this->Renderer->GetActiveCamera()->GetParallelScale();
 729     this->Renderer->ResetCamera();
 730     this->Renderer->GetActiveCamera()->SetParallelScale(scale);
 731   }
 732
 733   SetContourSlice();
 734 }
 735 //----------------------------------------------------------------------------
 736
 737 //------------------------------------------------------------------------------
 738 // This function ensures that we sample the slices of a vtkImageReslice filter
 739 // in the direction of the slicer (SliceOrientation) similarly as mImageReslice.
 740 // In other words, we change the grid of the reslice in the same way as the grid
 741 // of the displayed image in the slicing direction.
 742 void vvSlicer::AdjustResliceToSliceOrientation(vtkImageReslice *reslice)
 743 {
 744   // Reset autocrop
 745   double origin[3] = {VTK_DOUBLE_MAX, VTK_DOUBLE_MAX, VTK_DOUBLE_MAX};
 746   double spacing[3] = {VTK_DOUBLE_MAX, VTK_DOUBLE_MAX, VTK_DOUBLE_MAX};
 747   reslice->SetOutputOrigin(origin);
 748   reslice->SetOutputSpacing(spacing);
 749   reslice->GetOutput()->UpdateInformation();
 750   reslice->GetOutput()->GetOrigin(origin);
 751   reslice->GetOutput()->GetSpacing(spacing);
 752
 753   // Use similar spacing as the image in the direction SliceOrientation
 754   spacing[this->SliceOrientation] = mImageReslice->GetOutput()->GetSpacing()[this->SliceOrientation];
 755
 756   // Modify origin to be on the image grid in the direction SliceOrientation in 3 steps
 757   // Step 1: from world coordinates to image coordinates
 758   origin[this->SliceOrientation] -= mImageReslice->GetOutput()->GetOrigin()[this->SliceOrientation];
 759   origin[this->SliceOrientation] /= mImageReslice->GetOutput()->GetSpacing()[this->SliceOrientation];
 760   // Step 2: round to superior grid positionInc
 761   origin[this->SliceOrientation] = itk::Math::Ceil<double>(origin[this->SliceOrientation]);
 762   // Step 3: back to world coordinates
 763   origin[this->SliceOrientation] *= mImageReslice->GetOutput()->GetSpacing()[this->SliceOrientation];
 764   origin[this->SliceOrientation] += mImageReslice->GetOutput()->GetOrigin()[this->SliceOrientation];
 765
 766   // Set new spacing and origin
 767   reslice->SetOutputOrigin(origin);
 768   reslice->SetOutputSpacing(spacing);
 769   reslice->UpdateInformation();
 770 }
 771 //------------------------------------------------------------------------------
 772
 773 //----------------------------------------------------------------------------
 774 int * vvSlicer::GetExtent()
 775 {
 776   int *w_ext;
 777   if (mUseReducedExtent) {
 778     w_ext = mReducedExtent;
 779   } else w_ext = GetInput()->GetWholeExtent();
 780   return w_ext;
 781 }
 782 //----------------------------------------------------------------------------
 783
 784
 785 //----------------------------------------------------------------------------
 786 int vvSlicer::GetOrientation()
 787 {
 788   return this->SliceOrientation;
 789 }
 790 //----------------------------------------------------------------------------
 791
 792
 793 //----------------------------------------------------------------------------
 794 void vvSlicer::UpdateDisplayExtent()
 795 {
 796   vtkImageData *input = this->GetInput();
 797   if (!input || !this->ImageActor) {
 798     return;
 799   }
 800   input->UpdateInformation();
 801
 802   // Local copy of extent
 803   int w_ext[6];
 804   for(unsigned int i=0; i<6; i++){
 805     if (mUseReducedExtent)
 806       w_ext[i] = mReducedExtent[i];
 807     else
 808       w_ext[i] = input->GetWholeExtent()[i];
 809   }
 810
 811   // Set slice value
 812   w_ext[ this->SliceOrientation*2   ] = this->Slice;
 813   w_ext[ this->SliceOrientation*2+1 ] = this->Slice;
 814
 815   // Image actor
 816   this->ImageActor->SetDisplayExtent(w_ext);
 817
 818   // Overlay image actor
 819   if (mOverlay && mOverlayActor->GetVisibility()) {
 820     int overExtent[6];
 821     mOverlayReslice->GetOutput()->UpdateInformation();
 822     this->ConvertImageToImageDisplayExtent(input, w_ext, mOverlayReslice->GetOutput(), overExtent);
 823     ClipDisplayedExtent(overExtent, mOverlayMapper->GetInput()->GetWholeExtent());
 824     mOverlayActor->SetDisplayExtent( overExtent );
 825   }
 826
 827   // Fusion image actor
 828   if (mFusion && mFusionActor->GetVisibility()) {
 829     int fusExtent[6];
 830     mFusionReslice->GetOutput()->UpdateInformation();
 831     this->ConvertImageToImageDisplayExtent(input, w_ext, mFusionReslice->GetOutput(), fusExtent);
 832     ClipDisplayedExtent(fusExtent, mFusionMapper->GetInput()->GetWholeExtent());
 833     mFusionActor->SetDisplayExtent(fusExtent);
 834   }
 835
 836   // Vector field actor
 837   double* camera = Renderer->GetActiveCamera()->GetPosition();
 838   double* image_bounds = ImageActor->GetBounds();
 839   double position[3] = {0, 0, 0};
 840   position[this->SliceOrientation] = image_bounds[this->SliceOrientation*2];
 841
 842   //print_vector<double, 6>("camera", camera);
 843   //print_vector<double, 6>("image_bounds", image_bounds);
 844   //print_vector<double, 3>("position", position);
 845
 846   // find where to place the VF actor. to deal with
 847   // z-buffer issues, the VF is placed right in front of the image,
 848   // subject to a small offset. the position actually depends on the
 849   // the location of the camera relative to the image.
 850   double offset = 1;
 851   if (camera[this->SliceOrientation] < image_bounds[this->SliceOrientation*2])
 852     offset = -1;
 853
 854   if (mVF && mVFActor->GetVisibility()) {
 855     int vfExtent[6];
 856     mVF->GetVTKImages()[0]->UpdateInformation();
 857     this->ConvertImageToImageDisplayExtent(input, w_ext, mVF->GetVTKImages()[0], vfExtent);
 858     ClipDisplayedExtent(vfExtent, mVOIFilter->GetInput()->GetWholeExtent());
 859     mVOIFilter->SetVOI(vfExtent);
 860     int orientation[3] = {1,1,1};
 861     orientation[this->SliceOrientation] = 0;
 862     mGlyphFilter->SetOrientation(orientation[0], orientation[1], orientation[2]);
 863     mVFMapper->Update();
 864
 865     position[this->SliceOrientation] += offset;
 866     mVFActor->SetPosition(position);
 867   }
 868
 869   // Landmarks actor
 870   if (mLandActor) {
 871     if (mClipBox) {
 872       double bounds [6];
 873       for(unsigned int i=0; i<6; i++)
 874         bounds[i] = ImageActor->GetBounds()[i];
 875       bounds[ this->SliceOrientation*2   ] = ImageActor->GetBounds()[ this->SliceOrientation*2  ]-fabs(this->GetInput()->GetSpacing()[this->SliceOrientation]);
 876       bounds[ this->SliceOrientation*2+1 ] = ImageActor->GetBounds()[ this->SliceOrientation*2+1 ]+fabs(this->GetInput()->GetSpacing()[this->SliceOrientation]);
 877       mClipBox->SetBounds(bounds);
 878       UpdateLandmarks();
 879     }
 880
 881     position[this->SliceOrientation] = offset;
 882     mLandActor->SetPosition(position);
 883   }
 884
 885   // Figure out the correct clipping range
 886   if (this->Renderer) {
 887     if (this->InteractorStyle &&
 888         this->InteractorStyle->GetAutoAdjustCameraClippingRange()) {
 889       this->Renderer->ResetCameraClippingRange();
 890     } else {
 891       vtkCamera *cam = this->Renderer->GetActiveCamera();
 892       if (cam) {
 893         double bounds[6];
 894         this->ImageActor->GetBounds(bounds);
 895         double spos = (double)bounds[this->SliceOrientation * 2];
 896         double cpos = (double)cam->GetPosition()[this->SliceOrientation];
 897         double range = fabs(spos - cpos);
 898         double *spacing = input->GetSpacing();
 899         double avg_spacing =
 900           ((double)spacing[0] + (double)spacing[1] + (double)spacing[2]) / 3.0;
 901         cam->SetClippingRange(range - avg_spacing * 3.0, range + avg_spacing * 3.0);
 902       }
 903     }
 904   }
 905
 906 }
 907 //----------------------------------------------------------------------------
 908
 909 //----------------------------------------------------------------------------
 910 void vvSlicer::ConvertImageToImageDisplayExtent(vtkImageData *sourceImage, const int sourceExtent[6],
 911                                                 vtkImageData *targetImage, int targetExtent[6])
 912 {
 913   double dExtents[6];
 914   for(unsigned int i=0; i<6; i++) {
 915     // From source voxel coordinates to world coordinates
 916     dExtents[i] = sourceImage->GetOrigin()[i/2] + sourceImage->GetSpacing()[i/2] * sourceExtent[i];
 917
 918     // From world coordinates to floating point target voxel coordinates
 919     dExtents[i] = (dExtents[i]- targetImage->GetOrigin()[i/2]) / targetImage->GetSpacing()[i/2];
 920
 921     // Round to nearest
 922     targetExtent[i] = itk::Math::Round<double>(dExtents[i]);
 923   }
 924 }
 925 //----------------------------------------------------------------------------
 926
 927 //----------------------------------------------------------------------------
 928 void vvSlicer::ClipDisplayedExtent(int extent[6], int refExtent[6])
 929 {
 930   bool out = false;
 931   int maxBound = 6;
 932
 933   //2D overlay on 3D image specific case
 934   if (refExtent[4] == refExtent[5]) {
 935     maxBound = 4;
 936     extent[4] = refExtent[4];
 937     extent[5] = refExtent[5];
 938   }
 939
 940   for (int i = 0; i < maxBound; i = i+2) {
 941     //if we are totally outside the image
 942     if ( extent[i] > refExtent[i+1] || extent[i+1] < refExtent[i] ) {
 943       out = true;
 944       break;
 945     }
 946     //crop to the limit of the image
 947     extent[i] = (extent[i] > refExtent[i]) ? extent[i] : refExtent[i];
 948     extent[i] = (extent[i] < refExtent[i+1]) ? extent[i] : refExtent[i+1];
 949     extent[i+1] = (extent[i+1] > refExtent[i]) ? extent[i+1] : refExtent[i];
 950     extent[i+1] = (extent[i+1] < refExtent[i+1]) ? extent[i+1] : refExtent[i+1];
 951   }
 952   if (out)
 953     for (int i = 0; i < maxBound; i = i+2) {
 954       extent[i] = refExtent[i];
 955       extent[i+1] = refExtent[i];
 956     }
 957 }
 958 //----------------------------------------------------------------------------
 959
 960
 961 //----------------------------------------------------------------------------
 962 void vvSlicer::UpdateOrientation()
 963 {
 964   // Set the camera position
 965   vtkCamera *cam = this->Renderer ? this->Renderer->GetActiveCamera() : NULL;
 966   if (cam) {
 967     switch (this->SliceOrientation) {
 968     case vtkImageViewer2::SLICE_ORIENTATION_XY:
 969       cam->SetFocalPoint(0,0,0);
 970       cam->SetPosition(0,0,-1); // -1 if medical ?
 971       cam->SetViewUp(0,-1,0);
 972       break;
 973
 974     case vtkImageViewer2::SLICE_ORIENTATION_XZ:
 975       cam->SetFocalPoint(0,0,0);
 976       cam->SetPosition(0,-1,0); // 1 if medical ?
 977       cam->SetViewUp(0,0,1);
 978       break;
 979
 980     case vtkImageViewer2::SLICE_ORIENTATION_YZ:
 981       cam->SetFocalPoint(0,0,0);
 982       cam->SetPosition(-1,0,0); // -1 if medical ?
 983       cam->SetViewUp(0,0,1);
 984       break;
 985     }
 986   }
 987 }
 988 //----------------------------------------------------------------------------
 989
 990
 991 //----------------------------------------------------------------------------
 992 void vvSlicer::SetOpacity(double s)
 993 {
 994   this->GetImageActor()->SetOpacity(s);
 995 }
 996 //----------------------------------------------------------------------------
 997
 998
 999 //----------------------------------------------------------------------------
1000 void vvSlicer::SetRenderWindow(int orientation, vtkRenderWindow * rw)
1001 {
1002   this->Superclass::SetRenderWindow(rw);
1003   this->SetupInteractor(rw->GetInteractor());
1004   ca->SetImageActor(this->GetImageActor());
1005   ca->SetWindowLevel(this->GetWindowLevel());
1006   ca->SetText(2, "<slice>");
1007   ca->SetText(3, "<window>\n<level>");
1008
1009   double bounds[6];
1010   double max = 65000;
1011
1012   bounds[0] = -max;
1013   bounds[1] = max;
1014   bounds[2] = -max;
1015   bounds[3] = max;
1016   bounds[4] = -max;
1017   bounds[5] = max;
1018
1019   crossCursor->SetModelBounds(bounds);
1020   this->GetRenderer()->AddActor(pdmA);
1021   this->GetRenderer()->AddActor(ca);
1022   this->GetRenderer()->ResetCamera();
1023
1024   //this is just a mapping between the labeling of the orientations presented to the user and
1025   //the one used by vtk
1026   SetSliceOrientation(2-(orientation%3));
1027   ResetCamera();
1028 }
1029 //----------------------------------------------------------------------------
1030
1031
1032 //----------------------------------------------------------------------------
1033 void vvSlicer::ResetCamera()
1034 {
1035   this->GetRenderer()->ResetCamera();
1036 }
1037 //----------------------------------------------------------------------------
1038
1039
1040 //----------------------------------------------------------------------------
1041 void vvSlicer::SetDisplayMode(bool i)
1042 {
1043   this->GetImageActor()->SetVisibility(i);
1044   this->GetAnnotation()->SetVisibility(i);
1045   this->GetRenderer()->SetDraw(i);
1046   if (mLandActor)
1047     mLandActor->SetVisibility(i);
1048   pdmA->SetVisibility(i);
1049   if (i)
1050     UpdateDisplayExtent();
1051 }
1052 //----------------------------------------------------------------------------
1053
1054
1055 //----------------------------------------------------------------------------
1056 void vvSlicer::FlipHorizontalView()
1057 {
1058   vtkCamera *cam = this->Renderer ? this->Renderer->GetActiveCamera() : NULL;
1059   if (cam) {
1060     double *position = cam->GetPosition();
1061     switch (this->SliceOrientation) {
1062     case vtkImageViewer2::SLICE_ORIENTATION_XY:
1063       cam->SetPosition(position[0],position[1],-position[2]);
1064       break;
1065
1066     case vtkImageViewer2::SLICE_ORIENTATION_XZ:
1067       cam->SetPosition(position[0],-position[1],position[2]);
1068       break;
1069
1070     case vtkImageViewer2::SLICE_ORIENTATION_YZ:
1071       cam->SetPosition(-position[0],position[1],position[2]);
1072       break;
1073     }
1074     this->Renderer->ResetCameraClippingRange();
1075     this->UpdateDisplayExtent();
1076   }
1077 }
1078 //----------------------------------------------------------------------------
1079
1080
1081 //----------------------------------------------------------------------------
1082 void vvSlicer::FlipVerticalView()
1083 {
1084   vtkCamera *cam = this->Renderer ? this->Renderer->GetActiveCamera() : NULL;
1085   if (cam) {
1086     FlipHorizontalView();
1087     double *viewup = cam->GetViewUp();
1088     cam->SetViewUp(-viewup[0],-viewup[1],-viewup[2]);
1089     this->UpdateDisplayExtent();
1090   }
1091 }
1092 //----------------------------------------------------------------------------
1093
1094
1095 //----------------------------------------------------------------------------
1096 void vvSlicer::SetColorWindow(double window)
1097 {
1098   vtkLookupTable* LUT = static_cast<vtkLookupTable*>(this->GetWindowLevel()->GetLookupTable());
1099   if ( LUT ) {
1100     double level = this->GetWindowLevel()->GetLevel();
1101     LUT->SetTableRange(level-fabs(window)/4,level+fabs(window)/4);
1102     LUT->Build();
1103   }
1104   this->vtkImageViewer2::SetColorWindow(window);
1105 }
1106 //----------------------------------------------------------------------------
1107
1108
1109 //----------------------------------------------------------------------------
1110 void vvSlicer::SetColorLevel(double level)
1111 {
1112   vtkLookupTable* LUT = static_cast<vtkLookupTable*>(this->GetWindowLevel()->GetLookupTable());
1113   if ( LUT ) {
1114     double window = this->GetWindowLevel()->GetWindow();
1115     LUT->SetTableRange(level-fabs(window)/4,level+fabs(window)/4);
1116     LUT->Build();
1117   }
1118   this->vtkImageViewer2::SetColorLevel(level);
1119 }
1120 //----------------------------------------------------------------------------
1121
1122 //----------------------------------------------------------------------------
1123 // Returns the min an the max value in a 41x41 region around the mouse pointer
1124 void vvSlicer::GetExtremasAroundMousePointer(double & min, double & max)
1125 {
1126   //Get mouse pointer position in view coordinates
1127   double fLocalExtents[6];
1128   for(int i=0; i<3; i++) {
1129     fLocalExtents[i*2  ] = mCurrent[i];
1130     fLocalExtents[i*2+1] = mCurrent[i];
1131   }
1132   this->Renderer->WorldToView(fLocalExtents[0], fLocalExtents[2], fLocalExtents[4]);
1133   this->Renderer->WorldToView(fLocalExtents[1], fLocalExtents[3], fLocalExtents[5]);
1134   for(int i=0; i<3; i++) {
1135     if (i!=SliceOrientation) { //SR: assumes that SliceOrientation is valid in ViewCoordinates (???)
1136       fLocalExtents[i*2  ] -= 0.2;
1137       fLocalExtents[i*2+1] += 0.2;
1138     }
1139   }
1140   this->Renderer->ViewToWorld(fLocalExtents[0], fLocalExtents[2], fLocalExtents[4]);
1141   this->Renderer->ViewToWorld(fLocalExtents[1], fLocalExtents[3], fLocalExtents[5]);
1142
1143   //Convert to image pixel coordinates (rounded)
1144   int iLocalExtents[6];
1145   for(int i=0; i<3; i++) {
1146     fLocalExtents[i*2  ] = (fLocalExtents[i*2  ] - this->GetInput()->GetOrigin()[i])/this->GetInput()->GetSpacing()[i];
1147     fLocalExtents[i*2+1] = (fLocalExtents[i*2+1] - this->GetInput()->GetOrigin()[i])/this->GetInput()->GetSpacing()[i];
1148
1149     iLocalExtents[i*2  ] = lrint(fLocalExtents[i*2  ]);
1150     iLocalExtents[i*2+1] = lrint(fLocalExtents[i*2+1]);
1151
1152     if(iLocalExtents[i*2  ]>iLocalExtents[i*2+1])
1153       std::swap(iLocalExtents[i*2], iLocalExtents[i*2+1]);
1154   }
1155
1156   vtkSmartPointer<vtkExtractVOI> voiFilter = vtkSmartPointer<vtkExtractVOI>::New();
1157   voiFilter->SetInput(this->GetInput());
1158   voiFilter->SetVOI(iLocalExtents);
1159   voiFilter->Update();
1160   if (!voiFilter->GetOutput()->GetNumberOfPoints()) {
1161     min = 0;
1162     max = 0;
1163     return;
1164   }
1165
1166   vtkSmartPointer<vtkImageAccumulate> accFilter = vtkSmartPointer<vtkImageAccumulate>::New();
1167   accFilter->SetInput(voiFilter->GetOutput());
1168   accFilter->Update();
1169
1170   min = *(accFilter->GetMin());
1171   max = *(accFilter->GetMax());
1172 }
1173 //----------------------------------------------------------------------------
1174
1175 //----------------------------------------------------------------------------
1176 double vvSlicer::GetScalarComponentAsDouble(vtkImageData *image, double X, double Y, double Z, int &ix, int &iy, int &iz, int component)
1177 {
1178   ix = lrint(X);
1179   iy = lrint(Y);
1180   iz = lrint(Z);
1181   if (ix < image->GetWholeExtent()[0] ||
1182       ix > image->GetWholeExtent()[1] ||
1183       iy < image->GetWholeExtent()[2] ||
1184       iy > image->GetWholeExtent()[3] ||
1185       iz < image->GetWholeExtent()[4] ||
1186       iz > image->GetWholeExtent()[5] )
1187     return std::numeric_limits<double>::quiet_NaN();
1188
1189   image->SetUpdateExtent(ix, ix, iy, iy, iz, iz);
1190   image->Update();
1191   return image->GetScalarComponentAsDouble(ix, iy, iz, component);
1192 }
1193 //----------------------------------------------------------------------------
1194
1195 //----------------------------------------------------------------------------
1196 void vvSlicer::Render()
1197 {
1198   if (this->GetWindowLevel()->GetLookupTable() && !this->mOverlay && !this->mFusion) {
1199     legend->SetLookupTable(this->GetWindowLevel()->GetLookupTable());
1200     legend->SetVisibility(1);
1201   } else legend->SetVisibility(0);
1202
1203   if (ca->GetVisibility()) {
1204     std::stringstream worldPos;
1205     double X = (mCurrent[0] - this->GetInput()->GetOrigin()[0])/this->GetInput()->GetSpacing()[0];
1206     double Y = (mCurrent[1] - this->GetInput()->GetOrigin()[1])/this->GetInput()->GetSpacing()[1];
1207     double Z = (mCurrent[2] - this->GetInput()->GetOrigin()[2])/this->GetInput()->GetSpacing()[2];
1208
1209 //     if (X < this->GetInput()->GetWholeExtent()[0]) X = this->GetInput()->GetWholeExtent()[0];
1210 //     else if (X > this->GetInput()->GetWholeExtent()[1]) X = this->GetInput()->GetWholeExtent()[1];
1211 //     if (Y < this->GetInput()->GetWholeExtent()[2]) Y = this->GetInput()->GetWholeExtent()[2];
1212 //     else if (Y > this->GetInput()->GetWholeExtent()[3]) Y = this->GetInput()->GetWholeExtent()[3];
1213 //     if (Z < this->GetInput()->GetWholeExtent()[4]) Z = this->GetInput()->GetWholeExtent()[4];
1214 //     else if (Z > this->GetInput()->GetWholeExtent()[5]) Z = this->GetInput()->GetWholeExtent()[5];
1215
1216     if (X >= this->GetInput()->GetWholeExtent()[0] &&
1217         X <= this->GetInput()->GetWholeExtent()[1] &&
1218         Y >= this->GetInput()->GetWholeExtent()[2] &&
1219         Y <= this->GetInput()->GetWholeExtent()[3] &&
1220         Z >= this->GetInput()->GetWholeExtent()[4] &&
1221         Z <= this->GetInput()->GetWholeExtent()[5]) {
1222
1223
1224       int ix, iy, iz;
1225       double value = this->GetScalarComponentAsDouble(this->GetInput(), X, Y, Z, ix, iy, iz);
1226
1227       worldPos << "data value : " << value << std::endl;
1228       worldPos << "mm : " << lrint(mCurrent[0]) << ' '
1229                           << lrint(mCurrent[1]) << ' '
1230                           << lrint(mCurrent[2]) << ' '
1231                           << mCurrentTSlice
1232                           << std::endl;
1233       worldPos << "pixel : " << ix << ' '
1234                              << iy << ' '
1235                              << iz << ' '
1236                              << mCurrentTSlice
1237                              << std::endl;
1238     }
1239     ca->SetText(1,worldPos.str().c_str());
1240   }
1241
1242   if (pdmA->GetVisibility()) {
1243     double x = mCursor[0];
1244     double y = mCursor[1];
1245     double z = mCursor[2];
1246     double xCursor = (x - this->GetInput()->GetOrigin()[0])/this->GetInput()->GetSpacing()[0];
1247     double yCursor = (y - this->GetInput()->GetOrigin()[1])/this->GetInput()->GetSpacing()[1];
1248     double zCursor = (z - this->GetInput()->GetOrigin()[2])/this->GetInput()->GetSpacing()[2];
1249
1250     if (xCursor >= this->GetImageActor()->GetDisplayExtent()[0] &&
1251         xCursor < this->GetImageActor()->GetDisplayExtent()[1]+1 &&
1252         yCursor >= this->GetImageActor()->GetDisplayExtent()[2] &&
1253         yCursor < this->GetImageActor()->GetDisplayExtent()[3]+1 &&
1254         zCursor >= this->GetImageActor()->GetDisplayExtent()[4] &&
1255         zCursor < this->GetImageActor()->GetDisplayExtent()[5]+1 ) {
1256       vtkRenderer * renderer = this->Renderer;
1257
1258       renderer->WorldToView(x,y,z);
1259       renderer->ViewToNormalizedViewport(x,y,z);
1260       renderer->NormalizedViewportToViewport(x,y);
1261       renderer->ViewportToNormalizedDisplay(x,y);
1262       renderer->NormalizedDisplayToDisplay(x,y);
1263       crossCursor->SetFocalPoint(x,y,z);
1264     } else
1265       crossCursor->SetFocalPoint(-1,-1,z);
1266   }
1267
1268
1269   if (mOverlay && mOverlayActor->GetVisibility()) {
1270     mOverlayMapper->SetWindow(this->GetColorWindow());
1271     mOverlayMapper->SetLevel(this->GetColorLevel());
1272     mOverlayMapper->GetOutput()->SetUpdateExtent(mOverlayActor->GetDisplayExtent());
1273     mOverlayMapper->GetOutput()->Update();
1274     mOverlayMapper->Update();
1275   }
1276   if (mLandMapper)
1277     UpdateLandmarks();
1278
1279   this->GetRenderWindow()->Render();
1280 }
1281 //----------------------------------------------------------------------------
1282
1283
1284 //----------------------------------------------------------------------------
1285 void vvSlicer::UpdateCursorPosition()
1286 {
1287   if (this->GetImageActor()->GetVisibility()) {
1288     pdmA->SetVisibility(true);
1289     mCursor[0] = mCurrent[0];
1290     mCursor[1] = mCurrent[1];
1291     mCursor[2] = mCurrent[2];
1292     mCursor[3] = mCurrentTSlice;
1293   }
1294 }
1295 //----------------------------------------------------------------------------
1296
1297
1298 //----------------------------------------------------------------------------
1299 void vvSlicer::UpdateLandmarks()
1300 {
1301   vtkPolyData *pd = static_cast<vtkPolyData*>(mLandClipper->GetInput());
1302   if (pd->GetPoints()) {
1303     mLandGlyph->SetRange(0,1);
1304     mLandGlyph->Modified();
1305     mLandGlyph->Update();
1306
1307     mClipBox->Modified();
1308     mLandClipper->Update();
1309     mLandMapper->Update();
1310   }
1311
1312 }
1313 //----------------------------------------------------------------------------
1314
1315
1316 //----------------------------------------------------------------------------
1317 void vvSlicer::SetSlice(int slice)
1318 {
1319   int *range = this->GetSliceRange();
1320   if (range) {
1321     if (slice < range[0]) {
1322       slice = range[0];
1323     } else if (slice > range[1]) {
1324       slice = range[1];
1325     }
1326   }
1327
1328   if (this->Slice == slice) {
1329     return;
1330   }
1331
1332   this->Slice = slice;
1333   SetContourSlice();
1334   this->Modified();
1335   this->UpdateDisplayExtent();
1336
1337   // Seems to work without this line
1338   //this->Render();
1339 }
1340 //----------------------------------------------------------------------------
1341
1342
1343 //----------------------------------------------------------------------------
1344 void vvSlicer::SetContourSlice()
1345 {
1346   if (mSurfaceCutActors.size() > 0)
1347     for (std::vector<vvMeshActor*>::iterator i=mSurfaceCutActors.begin();
1348          i!=mSurfaceCutActors.end(); i++)
1349       (*i)->SetCutSlice((this->Slice)*this->GetImage()->GetSpacing()[this->SliceOrientation]+
1350                         this->GetImage()->GetOrigin()[this->SliceOrientation]);
1351 }
1352 //----------------------------------------------------------------------------
1353
1354
1355 //----------------------------------------------------------------------------
1356 void vvSlicer::ForceUpdateDisplayExtent()
1357 {
1358   this->UpdateDisplayExtent();
1359 }
1360 //----------------------------------------------------------------------------
1361
1362
1363 //----------------------------------------------------------------------------
1364 int* vvSlicer::GetDisplayExtent()
1365 {
1366   return this->GetImageActor()->GetDisplayExtent();
1367 }
1368 //----------------------------------------------------------------------------
1369
1370
1371 //----------------------------------------------------------------------------
1372 void vvSlicer::PrintSelf(ostream& os, vtkIndent indent)
1373 {
1374   this->Superclass::PrintSelf(os, indent);
1375 }
1376 //----------------------------------------------------------------------------
1377
1378 //----------------------------------------------------------------------------
1379 void vvSlicer::SetVFColor(double r, double g, double b)
1380 {
1381   double mVFColorHSV[3];
1382   mVFColor[0] = r;
1383   mVFColor[1] = g;
1384   mVFColor[2] = b;
1385
1386   vtkMath::RGBToHSV(mVFColor, mVFColorHSV);
1387   mVFColorLUT->SetHueRange(mVFColorHSV[0], mVFColorHSV[0]);
1388   mVFColorLUT->SetSaturationRange(mVFColorHSV[1],mVFColorHSV[1]);
1389   mVFColorLUT->SetValueRange(mVFColorHSV[2], mVFColorHSV[2]);
1390
1391   this->Render();
1392 }
1393