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 vtkCxxRevisionMacro(vvSlicer, "DummyRevision");
  71 vtkStandardNewMacro(vvSlicer);
  72 static void copyExtent(int* in, int* to){
  73  for(int i=0; i<6; ++i) to[i]=in[i];
  74 }
  75 //------------------------------------------------------------------------------
  76 vvSlicer::vvSlicer()
  77 {
  78   this->UnInstallPipeline();
  79   mImage = NULL;
  80   mReducedExtent = new int[6];
  81   mCurrentTSlice = 0;
  82   mUseReducedExtent = false;
  83
  84   mCurrent[0] = -VTK_DOUBLE_MAX;
  85   mCurrent[1] = -VTK_DOUBLE_MAX;
  86   mCurrent[2] = -VTK_DOUBLE_MAX;
  87
  88   mCursor[0] = -VTK_DOUBLE_MAX;
  89   mCursor[1] = -VTK_DOUBLE_MAX;
  90   mCursor[2] = -VTK_DOUBLE_MAX;
  91   mCursor[3] = -VTK_DOUBLE_MAX;
  92
  93   mSubSampling = 5;
  94   mScale = 1;
  95   mVFLog = 0;
  96   mVFWidth = 1;
  97   mVFColor[0] = 0;
  98   mVFColor[1] = 1;
  99   mVFColor[2] = 0;
 100
 101   crossCursor = vtkSmartPointer<vtkCursor2D>::New();
 102   crossCursor->AllOff();
 103   crossCursor->AxesOn();
 104   crossCursor->SetTranslationMode(1);
 105   crossCursor->SetRadius(2);
 106
 107   pdm = vtkSmartPointer<vtkPolyDataMapper2D>::New();
 108   pdm->SetInput(crossCursor->GetOutput());
 109
 110   pdmA = vtkSmartPointer<vtkActor2D>::New();
 111   pdmA->SetMapper(pdm);
 112   pdmA->GetProperty()->SetColor(255,10,212);
 113   pdmA->SetVisibility(0);
 114   pdmA->SetPickable(0);
 115
 116   ca = vtkSmartPointer<vtkCornerAnnotation>::New();
 117   ca->GetTextProperty()->SetColor(255,10,212);
 118   ca->SetVisibility(1);
 119   mFileName = "";
 120
 121   mVF = NULL;
 122   mOverlay = NULL;
 123   mFusion = NULL;
 124   mLandmarks = NULL;
 125
 126   legend = vtkSmartPointer<vtkScalarBarActor>::New();
 127   //legend->SetTitle("test!");
 128   legend->SetPosition(0.82,0.18);
 129   legend->SetWidth(0.1);
 130   legend->SetVisibility(0);
 131   legend->SetLabelFormat("%.1f");
 132   this->GetRenderer()->AddActor(legend);
 133
 134   this->WindowLevel->Delete();
 135   this->WindowLevel = vvImageMapToWLColors::New();
 136
 137   this->InstallPipeline();
 138 }
 139 //------------------------------------------------------------------------------
 140
 141
 142 //------------------------------------------------------------------------------
 143 vtkImageMapToWindowLevelColors* vvSlicer::GetOverlayMapper()
 144 {
 145   return mOverlayMapper.GetPointer();
 146 }
 147 //------------------------------------------------------------------------------
 148
 149
 150 //------------------------------------------------------------------------------
 151 vvBlendImageActor* vvSlicer::GetOverlayActor()
 152 {
 153   return mOverlayActor.GetPointer();
 154 }
 155 //------------------------------------------------------------------------------
 156
 157
 158 //------------------------------------------------------------------------------
 159 vtkImageMapToColors* vvSlicer::GetFusionMapper()
 160 {
 161   return mFusionMapper.GetPointer();
 162 }
 163 //------------------------------------------------------------------------------
 164
 165
 166 //------------------------------------------------------------------------------
 167 vtkImageActor* vvSlicer::GetFusionActor()
 168 {
 169   return mFusionActor.GetPointer();
 170 }
 171 //------------------------------------------------------------------------------
 172
 173
 174 //------------------------------------------------------------------------------
 175 vtkActor* vvSlicer::GetVFActor()
 176 {
 177   return mVFActor.GetPointer();
 178 }
 179 //------------------------------------------------------------------------------
 180
 181
 182 //------------------------------------------------------------------------------
 183 vtkCornerAnnotation* vvSlicer::GetAnnotation()
 184 {
 185   return ca.GetPointer();
 186 }
 187 //------------------------------------------------------------------------------
 188
 189
 190 //------------------------------------------------------------------------------
 191 void vvSlicer::EnableReducedExtent(bool b)
 192 {
 193   mUseReducedExtent = b;
 194 }
 195 //------------------------------------------------------------------------------
 196
 197
 198 //------------------------------------------------------------------------------
 199 void vvSlicer::SetReducedExtent(int * ext)
 200 {
 201   copyExtent(ext, mReducedExtent);
 202 }
 203 //------------------------------------------------------------------------------
 204
 205
 206 //------------------------------------------------------------------------------
 207 void vvSlicer::AddContour(vvMesh::Pointer contour,bool propagate)
 208 {
 209
 210   mSurfaceCutActors.push_back(new vvMeshActor());
 211   if (propagate)
 212     mSurfaceCutActors.back()->Init(contour,mCurrentTSlice,mVF);
 213   else
 214     mSurfaceCutActors.back()->Init(contour,mCurrentTSlice);
 215   mSurfaceCutActors.back()->SetSlicingOrientation(SliceOrientation);
 216   this->GetRenderer()->AddActor(mSurfaceCutActors.back()->GetActor());
 217
 218   SetContourSlice();
 219 }
 220 //------------------------------------------------------------------------------
 221
 222
 223 //------------------------------------------------------------------------------
 224 void vvSlicer::ToggleContourSuperposition()
 225 {
 226   for (std::vector<vvMeshActor*>::iterator i=mSurfaceCutActors.begin();
 227        i!=mSurfaceCutActors.end(); i++)
 228     (*i)->ToggleSuperposition();
 229 }
 230 //------------------------------------------------------------------------------
 231
 232
 233 //------------------------------------------------------------------------------
 234 void vvSlicer::SetCursorColor(int r,int g, int b)
 235 {
 236   pdmA->GetProperty()->SetColor(r,g,b);
 237 }
 238 //------------------------------------------------------------------------------
 239
 240
 241 //------------------------------------------------------------------------------
 242 void vvSlicer::SetCursorVisibility(bool s)
 243 {
 244   pdmA->SetVisibility(s);
 245 }
 246 //------------------------------------------------------------------------------
 247
 248
 249 //------------------------------------------------------------------------------
 250 bool vvSlicer::GetCursorVisibility()
 251 {
 252   return pdmA->GetVisibility();
 253 }
 254 //------------------------------------------------------------------------------
 255
 256
 257 //------------------------------------------------------------------------------
 258 void vvSlicer::SetCornerAnnotationVisibility(bool s)
 259 {
 260   ca->SetVisibility(s);
 261 }
 262 //------------------------------------------------------------------------------
 263
 264
 265 //------------------------------------------------------------------------------
 266 bool vvSlicer::GetCornerAnnotationVisibility()
 267 {
 268   return ca->GetVisibility();
 269 }
 270 //------------------------------------------------------------------------------
 271
 272
 273 //------------------------------------------------------------------------------
 274 vvSlicer::~vvSlicer()
 275 {
 276   for (std::vector<vvMeshActor*>::iterator i=mSurfaceCutActors.begin();
 277        i!=mSurfaceCutActors.end(); i++)
 278     delete (*i);
 279   delete [] mReducedExtent;
 280 }
 281 //------------------------------------------------------------------------------
 282
 283
 284 //------------------------------------------------------------------------------
 285 void vvSlicer::SetCurrentPosition(double x, double y, double z, int t)
 286 {
 287   mCurrent[0] = x;
 288   mCurrent[1] = y;
 289   mCurrent[2] = z;
 290   mCurrentTSlice = t;
 291 }
 292 //------------------------------------------------------------------------------
 293
 294
 295 //------------------------------------------------------------------------------
 296 void vvSlicer::SetImage(vvImage::Pointer image)
 297 {
 298   if (image->GetVTKImages().size()) {
 299     mImage = image;
 300
 301     if (!mImageReslice) {
 302       mImageReslice = vtkSmartPointer<vtkImageReslice>::New();
 303       mImageReslice->SetInterpolationModeToLinear();
 304       mImageReslice->AutoCropOutputOn();
 305       mImageReslice->SetBackgroundColor(-1000,-1000,-1000,1);
 306     }
 307     mImageReslice->SetResliceTransform(mImage->GetTransform());
 308     mImageReslice->SetInput(0, mImage->GetFirstVTKImageData());
 309     mImageReslice->UpdateInformation();
 310
 311     this->Superclass::SetInput(mImageReslice->GetOutput());
 312
 313     int extent[6];
 314     this->GetInput()->GetWholeExtent(extent);
 315
 316     // Prevent crash when reload -> change slice if outside extent
 317     if (Slice < extent[SliceOrientation*2] || Slice>=extent[SliceOrientation*2+1]) {
 318       Slice = (extent[SliceOrientation*2+1]+extent[SliceOrientation*2])/2.0;
 319     }
 320
 321     // Make sure that the required part image has been computed
 322     extent[SliceOrientation*2] = Slice;
 323     extent[SliceOrientation*2+1] = Slice;
 324     mImageReslice->GetOutput()->SetUpdateExtent(extent);
 325     mImageReslice->GetOutput()->Update();
 326
 327     this->UpdateDisplayExtent();
 328
 329     mCurrentTSlice = 0;
 330     ca->SetText(0,mFileName.c_str());
 331   }
 332 }
 333 //------------------------------------------------------------------------------
 334
 335
 336 //------------------------------------------------------------------------------
 337 void vvSlicer::SetOverlay(vvImage::Pointer overlay)
 338 {
 339   if (overlay->GetVTKImages().size()) {
 340     mOverlay = overlay;
 341
 342     if (!mOverlayReslice) {
 343       mOverlayReslice = vtkSmartPointer<vtkImageReslice>::New();
 344       mOverlayReslice->SetInterpolationModeToLinear();
 345       mOverlayReslice->AutoCropOutputOn();
 346       mOverlayReslice->SetBackgroundColor(-1000,-1000,-1000,1);
 347     }
 348     mOverlayReslice->SetResliceTransform(mOverlay->GetTransform());
 349     mOverlayReslice->SetInput(0, mOverlay->GetFirstVTKImageData());
 350
 351     if (!mOverlayMapper)
 352       mOverlayMapper = vtkSmartPointer<vtkImageMapToWindowLevelColors>::New();
 353     mOverlayMapper->SetInput(mOverlayReslice->GetOutput());
 354
 355     if (!mOverlayActor) {
 356       mOverlayActor = vtkSmartPointer<vvBlendImageActor>::New();
 357       mOverlayActor->SetInput(mOverlayMapper->GetOutput());
 358       mOverlayActor->SetPickable(0);
 359       mOverlayActor->SetVisibility(true);
 360       mOverlayActor->SetOpacity(0.5);
 361     }
 362
 363     //stupid but necessary : the Overlay need to be rendered before fusion
 364     if (mFusionActor) {
 365       this->GetRenderer()->RemoveActor(mFusionActor);
 366       this->GetRenderer()->AddActor(mOverlayActor);
 367       this->GetRenderer()->AddActor(mFusionActor);
 368     } else
 369       this->GetRenderer()->AddActor(mOverlayActor);
 370
 371     //Synchronize orientation and slice
 372     AdjustResliceToSliceOrientation(mOverlayReslice);
 373     this->UpdateDisplayExtent();
 374     this->SetTSlice(mCurrentTSlice);
 375   }
 376 }
 377 //------------------------------------------------------------------------------
 378
 379
 380 //------------------------------------------------------------------------------
 381 void vvSlicer::SetFusion(vvImage::Pointer fusion)
 382 {
 383   if (fusion->GetVTKImages().size()) {
 384     mFusion = fusion;
 385
 386     if (!mFusionReslice) {
 387       mFusionReslice = vtkSmartPointer<vtkImageReslice>::New();
 388       mFusionReslice->SetInterpolationModeToLinear();
 389       mFusionReslice->AutoCropOutputOn();
 390       mFusionReslice->SetBackgroundColor(-1000,-1000,-1000,1);
 391     }
 392     mFusionReslice->SetResliceTransform(mFusion->GetTransform());
 393     mFusionReslice->SetInput(0, mFusion->GetFirstVTKImageData());
 394
 395     if (!mFusionMapper)
 396       mFusionMapper = vtkSmartPointer<vtkImageMapToColors>::New();
 397
 398     vtkSmartPointer<vtkLookupTable> lut = vtkLookupTable::New();
 399     lut->SetRange(0, 1);
 400     lut->SetValueRange(0, 1);
 401     lut->SetSaturationRange(0, 0);
 402     lut->Build();
 403     mFusionMapper->SetLookupTable(lut);
 404     mFusionMapper->SetInput(mFusionReslice->GetOutput());
 405
 406     if (!mFusionActor) {
 407       mFusionActor = vtkSmartPointer<vtkImageActor>::New();
 408       mFusionActor->SetInput(mFusionMapper->GetOutput());
 409       mFusionActor->SetPickable(0);
 410       mFusionActor->SetVisibility(true);
 411       mFusionActor->SetOpacity(0.7);
 412       this->GetRenderer()->AddActor(mFusionActor);
 413     }
 414
 415     //Synchronize orientation and slice
 416     AdjustResliceToSliceOrientation(mFusionReslice);
 417     this->UpdateDisplayExtent();
 418     this->SetTSlice(mCurrentTSlice);
 419   }
 420 }
 421 //------------------------------------------------------------------------------
 422
 423
 424 //------------------------------------------------------------------------------
 425 bool vvSlicer::GetActorVisibility(const std::string& actor_type, int overlay_index)
 426 {
 427   bool vis = false;
 428   if (actor_type == "image") {
 429     vis = this->ImageActor->GetVisibility();
 430   }
 431   else if (actor_type == "vector") {
 432     vis = this->mVFActor->GetVisibility();
 433   }
 434   else if (actor_type == "overlay") {
 435     vis = this->mOverlayActor->GetVisibility();
 436   }
 437   else if (actor_type == "fusion") {
 438     vis = this->mFusionActor->GetVisibility();
 439   }
 440   else if (actor_type == "contour")
 441     vis = this->mSurfaceCutActors[overlay_index]->GetActor()->GetVisibility();
 442
 443   return vis;
 444 }
 445 //------------------------------------------------------------------------------
 446
 447 //------------------------------------------------------------------------------
 448 void vvSlicer::SetActorVisibility(const std::string& actor_type, int overlay_index ,bool vis)
 449 {
 450   if (actor_type == "image") {
 451     this->ImageActor->SetVisibility(vis);
 452   }
 453   else if (actor_type == "vector") {
 454     this->mVFActor->SetVisibility(vis);
 455   }
 456   else if (actor_type == "overlay") {
 457     this->mOverlayActor->SetVisibility(vis);
 458   }
 459   else if (actor_type == "fusion") {
 460     this->mFusionActor->SetVisibility(vis);
 461   }
 462   else if (actor_type == "contour")
 463     this->mSurfaceCutActors[overlay_index]->GetActor()->SetVisibility(vis);
 464   UpdateDisplayExtent();
 465 }
 466 //------------------------------------------------------------------------------
 467
 468 //------------------------------------------------------------------------------
 469 void vvSlicer::SetVF(vvImage::Pointer vf)
 470 {
 471   if (vf->GetVTKImages().size()) {
 472     mVF = vf;
 473
 474     if (!mAAFilter) {
 475       mAAFilter= vtkSmartPointer<vtkAssignAttribute>::New();
 476       mVOIFilter = vtkSmartPointer<vtkExtractVOI>::New();
 477       mVOIFilter->SetSampleRate(mSubSampling,mSubSampling,mSubSampling);
 478     }
 479     mVOIFilter->SetInput(vf->GetFirstVTKImageData());
 480     mAAFilter->SetInput(mVOIFilter->GetOutput());
 481     ///This tells VTK to use the scalar (pixel) data of the image to draw the little arrows
 482     mAAFilter->Assign(vtkDataSetAttributes::SCALARS, vtkDataSetAttributes::VECTORS, vtkAssignAttribute::POINT_DATA);
 483
 484     if (!mArrow)
 485       mArrow = vtkSmartPointer<vvGlyphSource>::New();
 486     mArrow->SetGlyphTypeToSpecificArrow();
 487     mArrow->SetScale(mScale);
 488     mArrow->FilledOff();
 489
 490     // Glyph the gradient vector (with arrows)
 491     if (!mGlyphFilter)
 492       mGlyphFilter = vtkSmartPointer<vvGlyph2D>::New();
 493     mGlyphFilter->SetInput(mAAFilter->GetOutput());
 494     mGlyphFilter->SetSource(mArrow->GetOutput());
 495     mGlyphFilter->ScalingOn();
 496     mGlyphFilter->SetScaleModeToScaleByVector();
 497     mGlyphFilter->OrientOn();
 498     mGlyphFilter->SetVectorModeToUseVector();
 499     mGlyphFilter->SetColorModeToColorByVector();
 500
 501     if (!mVFColorLUT)
 502       mVFColorLUT = vtkSmartPointer<vtkLookupTable>::New();
 503
 504     double mVFColorHSV[3];
 505     vtkMath::RGBToHSV(mVFColor, mVFColorHSV);
 506     mVFColorLUT->SetHueRange(mVFColorHSV[0], mVFColorHSV[0]);
 507     mVFColorLUT->SetSaturationRange(mVFColorHSV[1],mVFColorHSV[1]);
 508     mVFColorLUT->SetValueRange(mVFColorHSV[2], mVFColorHSV[2]);
 509
 510     if (!mVFMapper)
 511       mVFMapper = vtkSmartPointer<vtkPolyDataMapper>::New();
 512     mVFMapper->SetInput(mGlyphFilter->GetOutput());
 513     mVFMapper->ImmediateModeRenderingOn();
 514     mVFMapper->SetLookupTable(mVFColorLUT);
 515
 516     if (!mVFActor)
 517       mVFActor = vtkSmartPointer<vtkActor>::New();
 518     mVFActor->SetMapper(mVFMapper);
 519     mVFActor->SetPickable(0);
 520     mVFActor->GetProperty()->SetLineWidth(mVFWidth);
 521     this->UpdateDisplayExtent();
 522     this->GetRenderer()->AddActor(mVFActor);
 523
 524     //Synchronize slice
 525     SetTSlice(mCurrentTSlice);
 526   }
 527 }
 528 //------------------------------------------------------------------------------
 529
 530
 531 //------------------------------------------------------------------------------
 532 void vvSlicer::SetLandmarks(vvLandmarks* landmarks)
 533 {
 534   mLandmarks = landmarks;
 535   if (landmarks) {
 536
 537     if (!mCross)
 538       mCross = vtkSmartPointer<vtkCursor3D>::New();
 539     mCross->SetFocalPoint(0.0,0.0,0.0);
 540     mCross->SetModelBounds(-10,10,-10,10,-10,10);
 541     mCross->AllOff();
 542     mCross->AxesOn();
 543
 544     if (!mLandGlyph)
 545       mLandGlyph = vtkSmartPointer<vtkGlyph3D>::New();
 546     mLandGlyph->SetSource(mCross->GetOutput());
 547     mLandGlyph->SetInput(landmarks->GetOutput());
 548     //mLandGlyph->SetIndexModeToScalar();
 549     mLandGlyph->SetRange(0,1);
 550     mLandGlyph->ScalingOff();
 551
 552     mLandGlyph->SetColorModeToColorByScalar();
 553
 554     if (!mClipBox)
 555       mClipBox = vtkSmartPointer<vtkBox>::New();
 556     if (!mLandClipper)
 557       mLandClipper = vtkSmartPointer<vtkClipPolyData>::New();
 558     mLandClipper->InsideOutOn();
 559     mLandClipper->SetInput(mLandGlyph->GetOutput());
 560     mLandClipper->SetClipFunction(mClipBox);
 561
 562     if (!mLandMapper)
 563       mLandMapper = vtkSmartPointer<vtkPolyDataMapper>::New();
 564     mLandMapper->SetInputConnection(mLandClipper->GetOutputPort());
 565     //mLandMapper->ScalarVisibilityOff();
 566
 567     if (!mLandActor)
 568       mLandActor = vtkSmartPointer<vtkActor>::New();
 569     mLandActor->SetMapper(mLandMapper);
 570     mLandActor->GetProperty()->SetColor(255,10,212);
 571     mLandActor->SetPickable(0);
 572     mLandActor->SetVisibility(true);
 573     this->UpdateDisplayExtent();
 574     this->GetRenderer()->AddActor(mLandActor);
 575   }
 576 }
 577 //------------------------------------------------------------------------------
 578
 579 //------------------------------------------------------------------------------
 580 //FIXME: this function leaks memory, we should fix it someday :)
 581 void vvSlicer::RemoveActor(const std::string& actor_type, int overlay_index)
 582 {
 583   if (actor_type == "vector") {
 584     Renderer->RemoveActor(mVFActor);
 585     mGlyphFilter=NULL;
 586     mVF = NULL;
 587     mArrow = NULL;
 588     mAAFilter=NULL;
 589     mVOIFilter = NULL;
 590     mVFMapper = NULL;
 591     mVFActor = NULL;
 592   }
 593   if (actor_type == "overlay") {
 594     Renderer->RemoveActor(mOverlayActor);
 595     mOverlay = NULL;
 596     mOverlayActor = NULL;
 597     mOverlayMapper = NULL;
 598   }
 599   if (actor_type == "fusion") {
 600     Renderer->RemoveActor(mFusionActor);
 601     mFusion = NULL;
 602     mFusionActor = NULL;
 603     mFusionMapper = NULL;
 604   }
 605   if (actor_type == "contour") {
 606     Renderer->RemoveActor(this->mSurfaceCutActors[overlay_index]->GetActor());
 607     mSurfaceCutActors.erase(mSurfaceCutActors.begin()+overlay_index);
 608   }
 609 }
 610 //------------------------------------------------------------------------------
 611
 612
 613 //------------------------------------------------------------------------------
 614 void vvSlicer::SetVFSubSampling(int sub)
 615 {
 616   if (mVOIFilter) {
 617     mVOIFilter->SetSampleRate(mSubSampling,mSubSampling,mSubSampling);
 618     mSubSampling = sub;
 619   }
 620   UpdateDisplayExtent();
 621   Render();
 622 }
 623 //------------------------------------------------------------------------------
 624
 625
 626 //------------------------------------------------------------------------------
 627 void vvSlicer::SetVFScale(int scale)
 628 {
 629   mScale = scale;
 630   if (mArrow)
 631     mArrow->SetScale(mScale);
 632   UpdateDisplayExtent();
 633   Render();
 634 }
 635 //------------------------------------------------------------------------------
 636
 637 //------------------------------------------------------------------------------
 638 void vvSlicer::SetVFWidth(int width)
 639 {
 640   mVFWidth = width;
 641   if (mVFActor)
 642     mVFActor->GetProperty()->SetLineWidth(mVFWidth);
 643   UpdateDisplayExtent();
 644   Render();
 645 }
 646 //------------------------------------------------------------------------------
 647
 648
 649 //------------------------------------------------------------------------------
 650 void vvSlicer::SetVFLog(int log)
 651 {
 652   mVFLog = log;
 653   if (mGlyphFilter) {
 654     mGlyphFilter->SetUseLog(mVFLog);
 655     mGlyphFilter->Modified();
 656   }
 657   UpdateDisplayExtent();
 658   Render();
 659 }
 660 //------------------------------------------------------------------------------
 661
 662
 663 //------------------------------------------------------------------------------
 664 void vvSlicer::SetTSlice(int t)
 665 {
 666   if (t < 0)
 667     t = 0;
 668   else if ((unsigned int)t >= mImage->GetVTKImages().size())
 669     t = mImage->GetVTKImages().size() -1;
 670
 671   if (mCurrentTSlice == t) return;
 672
 673   mCurrentTSlice = t;
 674   mImageReslice->SetInput( mImage->GetVTKImages()[mCurrentTSlice] );
 675   if (mVF && mVFActor->GetVisibility()) {
 676     if (mVF->GetVTKImages().size() > (unsigned int)mCurrentTSlice)
 677       mVOIFilter->SetInput(mVF->GetVTKImages()[mCurrentTSlice]);
 678   }
 679   if (mOverlay && mOverlayActor->GetVisibility()) {
 680     if (mOverlay->GetVTKImages().size() > (unsigned int)mCurrentTSlice)
 681       mOverlayReslice->SetInput( mOverlay->GetVTKImages()[mCurrentTSlice] );
 682   }
 683   if (mFusion && mFusionActor->GetVisibility()) {
 684     if (mFusion->GetVTKImages().size() > (unsigned int)mCurrentTSlice)
 685       mFusionReslice->SetInput( mFusion->GetVTKImages()[mCurrentTSlice]);
 686   }
 687   if (mSurfaceCutActors.size() > 0)
 688     for (std::vector<vvMeshActor*>::iterator i=mSurfaceCutActors.begin();
 689          i!=mSurfaceCutActors.end(); i++)
 690       (*i)->SetTimeSlice(mCurrentTSlice);
 691   UpdateDisplayExtent();
 692 }
 693 //------------------------------------------------------------------------------
 694
 695
 696 //------------------------------------------------------------------------------
 697 int vvSlicer::GetTSlice()
 698 {
 699   return mCurrentTSlice;
 700 }
 701 //------------------------------------------------------------------------------
 702
 703 //------------------------------------------------------------------------------
 704 void vvSlicer::SetSliceOrientation(int orientation)
 705 {
 706   //if 2D image, force to watch in Axial View
 707   int extent[6];
 708   this->GetInput()->GetWholeExtent(extent);
 709   if (extent[5]-extent[4] <= 2)
 710     orientation = vtkImageViewer2::SLICE_ORIENTATION_XY;
 711
 712   if (orientation < vtkImageViewer2::SLICE_ORIENTATION_YZ ||
 713       orientation > vtkImageViewer2::SLICE_ORIENTATION_XY) {
 714     vtkErrorMacro("Error - invalid slice orientation " << orientation);
 715     return;
 716   }
 717
 718   this->SliceOrientation = orientation;
 719
 720   if(mFusion)
 721     AdjustResliceToSliceOrientation(mFusionReslice);
 722
 723   if(mOverlay)
 724     AdjustResliceToSliceOrientation(mOverlayReslice);
 725
 726   // Update the viewer
 727   int *range = this->GetSliceRange();
 728   if (range)
 729     this->Slice = static_cast<int>((range[0] + range[1]) * 0.5);
 730
 731   // Go to current cursor position
 732   // double* cursorPos = GetCursorPosition();
 733   // DDV(cursorPos, 3);
 734   // SetCurrentPosition(cursorPos[0],cursorPos[1],cursorPos[2],cursorPos[3]);
 735
 736   this->UpdateOrientation();
 737   this->UpdateDisplayExtent();
 738
 739   if (this->Renderer && this->GetInput()) {
 740     double scale = this->Renderer->GetActiveCamera()->GetParallelScale();
 741     this->Renderer->ResetCamera();
 742     this->Renderer->GetActiveCamera()->SetParallelScale(scale);
 743   }
 744
 745   SetContourSlice();
 746 }
 747 //----------------------------------------------------------------------------
 748
 749 //------------------------------------------------------------------------------
 750 // This function ensures that we sample the slices of a vtkImageReslice filter
 751 // in the direction of the slicer (SliceOrientation) similarly as mImageReslice.
 752 // In other words, we change the grid of the reslice in the same way as the grid
 753 // of the displayed image in the slicing direction.
 754 void vvSlicer::AdjustResliceToSliceOrientation(vtkImageReslice *reslice)
 755 {
 756   // Reset autocrop
 757   double origin[3] = {VTK_DOUBLE_MAX, VTK_DOUBLE_MAX, VTK_DOUBLE_MAX};
 758   double spacing[3] = {VTK_DOUBLE_MAX, VTK_DOUBLE_MAX, VTK_DOUBLE_MAX};
 759   reslice->SetOutputOrigin(origin);
 760   reslice->SetOutputSpacing(spacing);
 761   reslice->GetOutput()->UpdateInformation();
 762   reslice->GetOutput()->GetOrigin(origin);
 763   reslice->GetOutput()->GetSpacing(spacing);
 764
 765   // Use similar spacing as the image in the direction SliceOrientation
 766   spacing[this->SliceOrientation] = mImageReslice->GetOutput()->GetSpacing()[this->SliceOrientation];
 767
 768   // Modify origin to be on the image grid in the direction SliceOrientation in 3 steps
 769   // Step 1: from world coordinates to image coordinates
 770   origin[this->SliceOrientation] -= mImageReslice->GetOutput()->GetOrigin()[this->SliceOrientation];
 771   origin[this->SliceOrientation] /= mImageReslice->GetOutput()->GetSpacing()[this->SliceOrientation];
 772   // Step 2: round to superior grid positionInc
 773   origin[this->SliceOrientation] = itk::Math::Ceil<double>(origin[this->SliceOrientation]);
 774   // Step 3: back to world coordinates
 775   origin[this->SliceOrientation] *= mImageReslice->GetOutput()->GetSpacing()[this->SliceOrientation];
 776   origin[this->SliceOrientation] += mImageReslice->GetOutput()->GetOrigin()[this->SliceOrientation];
 777
 778   // Set new spacing and origin
 779   reslice->SetOutputOrigin(origin);
 780   reslice->SetOutputSpacing(spacing);
 781   reslice->UpdateInformation();
 782   reslice->GetOutput()->UpdateInformation();
 783 }
 784 //------------------------------------------------------------------------------
 785
 786 //----------------------------------------------------------------------------
 787 int * vvSlicer::GetExtent(){
 788   int *w_ext;
 789   if (mUseReducedExtent) {
 790     w_ext = mReducedExtent;
 791   } else w_ext = GetInput()->GetWholeExtent();
 792   return w_ext;
 793 }
 794 //----------------------------------------------------------------------------
 795
 796
 797 //----------------------------------------------------------------------------
 798 int vvSlicer::GetOrientation()
 799 {
 800   return this->SliceOrientation;
 801 }
 802 //----------------------------------------------------------------------------
 803
 804
 805 //----------------------------------------------------------------------------
 806 void vvSlicer::UpdateDisplayExtent()
 807 {
 808   vtkImageData *input = this->GetInput();
 809   if (!input || !this->ImageActor) {
 810     return;
 811   }
 812   input->UpdateInformation();
 813
 814   // Local copy of extent
 815   int w_ext[6];
 816   copyExtent(GetExtent(), w_ext);
 817   // Set slice value
 818   w_ext[ this->SliceOrientation*2   ] = this->Slice;
 819   w_ext[ this->SliceOrientation*2+1 ] = this->Slice;
 820
 821   // Image actor
 822   this->ImageActor->SetDisplayExtent(w_ext);
 823
 824   // Overlay image actor
 825   if (mOverlay && mOverlayActor->GetVisibility()) {
 826     AdjustResliceToSliceOrientation(mOverlayReslice);
 827     int overExtent[6];
 828     this->ConvertImageToImageDisplayExtent(input, w_ext, mOverlayReslice->GetOutput(), overExtent);
 829     ClipDisplayedExtent(overExtent, mOverlayMapper->GetInput()->GetWholeExtent());
 830     mOverlayActor->SetDisplayExtent( overExtent );
 831   }
 832
 833   // Fusion image actor
 834   if (mFusion && mFusionActor->GetVisibility()) {
 835     AdjustResliceToSliceOrientation(mFusionReslice);
 836     int fusExtent[6];
 837     this->ConvertImageToImageDisplayExtent(input, w_ext, mFusionReslice->GetOutput(), fusExtent);
 838     ClipDisplayedExtent(fusExtent, mFusionMapper->GetInput()->GetWholeExtent());
 839     mFusionActor->SetDisplayExtent(fusExtent);
 840   }
 841
 842   // Vector field actor
 843   double* camera = Renderer->GetActiveCamera()->GetPosition();
 844   double* image_bounds = ImageActor->GetBounds();
 845   double position[3] = {0, 0, 0};
 846   position[this->SliceOrientation] = image_bounds[this->SliceOrientation*2];
 847
 848   //print_vector<double, 6>("camera", camera);
 849   //print_vector<double, 6>("image_bounds", image_bounds);
 850   //print_vector<double, 3>("position", position);
 851
 852   // find where to place the VF actor. to deal with
 853   // z-buffer issues, the VF is placed right in front of the image,
 854   // subject to a small offset. the position actually depends on the
 855   // the location of the camera relative to the image.
 856   double offset = 1;
 857   if (camera[this->SliceOrientation] < image_bounds[this->SliceOrientation*2])
 858     offset = -1;
 859
 860   if (mVF && mVFActor->GetVisibility()) {
 861     int vfExtent[6];
 862     mVF->GetVTKImages()[0]->UpdateInformation();
 863     this->ConvertImageToImageDisplayExtent(input, w_ext, mVF->GetVTKImages()[0], vfExtent);
 864     ClipDisplayedExtent(vfExtent, mVOIFilter->GetInput()->GetWholeExtent());
 865     mVOIFilter->SetVOI(vfExtent);
 866     int orientation[3] = {1,1,1};
 867     orientation[this->SliceOrientation] = 0;
 868     mGlyphFilter->SetOrientation(orientation[0], orientation[1], orientation[2]);
 869     mVFMapper->Update();
 870
 871     position[this->SliceOrientation] += offset;
 872     mVFActor->SetPosition(position);
 873   }
 874
 875   // Landmarks actor
 876   if (mLandActor) {
 877     if (mClipBox) {
 878       double bounds [6];
 879       for(unsigned int i=0; i<6; i++)
 880         bounds[i] = ImageActor->GetBounds()[i];
 881       bounds[ this->SliceOrientation*2   ] = ImageActor->GetBounds()[ this->SliceOrientation*2  ]-fabs(this->GetInput()->GetSpacing()[this->SliceOrientation]);
 882       bounds[ this->SliceOrientation*2+1 ] = ImageActor->GetBounds()[ this->SliceOrientation*2+1 ]+fabs(this->GetInput()->GetSpacing()[this->SliceOrientation]);
 883       mClipBox->SetBounds(bounds);
 884       UpdateLandmarks();
 885     }
 886
 887     position[this->SliceOrientation] = offset;
 888     mLandActor->SetPosition(position);
 889   }
 890
 891   // Figure out the correct clipping range
 892   if (this->Renderer) {
 893     if (this->InteractorStyle &&
 894         this->InteractorStyle->GetAutoAdjustCameraClippingRange()) {
 895       this->Renderer->ResetCameraClippingRange();
 896     } else {
 897       vtkCamera *cam = this->Renderer->GetActiveCamera();
 898       if (cam) {
 899         double bounds[6];
 900         this->ImageActor->GetBounds(bounds);
 901         double spos = (double)bounds[this->SliceOrientation * 2];
 902         double cpos = (double)cam->GetPosition()[this->SliceOrientation];
 903         double range = fabs(spos - cpos);
 904         double *spacing = input->GetSpacing();
 905         double avg_spacing =
 906           ((double)spacing[0] + (double)spacing[1] + (double)spacing[2]) / 3.0;
 907         cam->SetClippingRange(range - avg_spacing * 3.0, range + avg_spacing * 3.0);
 908       }
 909     }
 910   }
 911
 912 }
 913 //----------------------------------------------------------------------------
 914
 915 //----------------------------------------------------------------------------
 916 void vvSlicer::ConvertImageToImageDisplayExtent(vtkImageData *sourceImage, const int sourceExtent[6],
 917                                                 vtkImageData *targetImage, int targetExtent[6])
 918 {
 919   double dExtents[6];
 920   for(unsigned int i=0; i<6; i++) {
 921     // From source voxel coordinates to world coordinates
 922     dExtents[i] = sourceImage->GetOrigin()[i/2] + sourceImage->GetSpacing()[i/2] * sourceExtent[i];
 923
 924     // From world coordinates to floating point target voxel coordinates
 925     dExtents[i] = (dExtents[i]- targetImage->GetOrigin()[i/2]) / targetImage->GetSpacing()[i/2];
 926
 927     // Round to nearest
 928     targetExtent[i] = itk::Math::Round<double>(dExtents[i]);
 929   }
 930 }
 931 //----------------------------------------------------------------------------
 932
 933 //----------------------------------------------------------------------------
 934 void vvSlicer::ClipDisplayedExtent(int extent[6], int refExtent[6])
 935 {
 936   bool out = false;
 937   int maxBound = 6;
 938
 939   //2D overlay on 3D image specific case
 940   if (refExtent[4] == refExtent[5]) {
 941     maxBound = 4;
 942     extent[4] = refExtent[4];
 943     extent[5] = refExtent[5];
 944   }
 945
 946   for (int i = 0; i < maxBound; i = i+2) {
 947     //if we are totally outside the image
 948     if ( extent[i] > refExtent[i+1] || extent[i+1] < refExtent[i] ) {
 949       out = true;
 950       break;
 951     }
 952     //crop to the limit of the image
 953     extent[i] = (extent[i] > refExtent[i]) ? extent[i] : refExtent[i];
 954     extent[i] = (extent[i] < refExtent[i+1]) ? extent[i] : refExtent[i+1];
 955     extent[i+1] = (extent[i+1] > refExtent[i]) ? extent[i+1] : refExtent[i];
 956     extent[i+1] = (extent[i+1] < refExtent[i+1]) ? extent[i+1] : refExtent[i+1];
 957   }
 958   if (out)
 959     for (int i = 0; i < maxBound; i = i+2) {
 960       extent[i] = refExtent[i];
 961       extent[i+1] = refExtent[i];
 962     }
 963 }
 964 //----------------------------------------------------------------------------
 965
 966
 967 //----------------------------------------------------------------------------
 968 void vvSlicer::UpdateOrientation()
 969 {
 970   // Set the camera position
 971   vtkCamera *cam = this->Renderer ? this->Renderer->GetActiveCamera() : NULL;
 972   if (cam) {
 973     switch (this->SliceOrientation) {
 974     case vtkImageViewer2::SLICE_ORIENTATION_XY:
 975       cam->SetFocalPoint(0,0,0);
 976       cam->SetPosition(0,0,-1); // -1 if medical ?
 977       cam->SetViewUp(0,-1,0);
 978       break;
 979
 980     case vtkImageViewer2::SLICE_ORIENTATION_XZ:
 981       cam->SetFocalPoint(0,0,0);
 982       cam->SetPosition(0,-1,0); // 1 if medical ?
 983       cam->SetViewUp(0,0,1);
 984       break;
 985
 986     case vtkImageViewer2::SLICE_ORIENTATION_YZ:
 987       cam->SetFocalPoint(0,0,0);
 988       cam->SetPosition(-1,0,0); // -1 if medical ?
 989       cam->SetViewUp(0,0,1);
 990       break;
 991     }
 992   }
 993 }
 994 //----------------------------------------------------------------------------
 995
 996
 997 //----------------------------------------------------------------------------
 998 void vvSlicer::SetOpacity(double s)
 999 {
1000   this->GetImageActor()->SetOpacity(s);
1001 }
1002 //----------------------------------------------------------------------------
1003
1004
1005 //----------------------------------------------------------------------------
1006 void vvSlicer::SetRenderWindow(int orientation, vtkRenderWindow * rw)
1007 {
1008   this->Superclass::SetRenderWindow(rw);
1009   this->SetupInteractor(rw->GetInteractor());
1010   ca->SetImageActor(this->GetImageActor());
1011   ca->SetWindowLevel(this->GetWindowLevel());
1012   ca->SetText(2, "<slice>");
1013   ca->SetText(3, "<window>\n<level>");
1014
1015   double bounds[6];
1016   double max = 65000;
1017
1018   bounds[0] = -max;
1019   bounds[1] = max;
1020   bounds[2] = -max;
1021   bounds[3] = max;
1022   bounds[4] = -max;
1023   bounds[5] = max;
1024
1025   crossCursor->SetModelBounds(bounds);
1026   this->GetRenderer()->AddActor(pdmA);
1027   this->GetRenderer()->AddActor(ca);
1028   this->GetRenderer()->ResetCamera();
1029
1030   //this is just a mapping between the labeling of the orientations presented to the user and
1031   //the one used by vtk
1032   SetSliceOrientation(2-(orientation%3));
1033   ResetCamera();
1034 }
1035 //----------------------------------------------------------------------------
1036
1037
1038 //----------------------------------------------------------------------------
1039 void vvSlicer::ResetCamera()
1040 {
1041   this->GetRenderer()->ResetCamera();
1042 }
1043 //----------------------------------------------------------------------------
1044
1045
1046 //----------------------------------------------------------------------------
1047 void vvSlicer::SetDisplayMode(bool i)
1048 {
1049   this->GetRenderer()->SetDraw(i);
1050   if (i)
1051     UpdateDisplayExtent();
1052 }
1053 //----------------------------------------------------------------------------
1054
1055
1056 //----------------------------------------------------------------------------
1057 void vvSlicer::FlipHorizontalView()
1058 {
1059   vtkCamera *cam = this->Renderer ? this->Renderer->GetActiveCamera() : NULL;
1060   if (cam) {
1061     double *position = cam->GetPosition();
1062     double factor[3] = {1, 1, 1};
1063     factor[this->SliceOrientation] = -1;
1064     cam->SetPosition(factor[0]*position[0],factor[1]*position[1],factor[2]*position[2]);
1065
1066 /*    switch (this->SliceOrientation) {
1067     case vtkImageViewer2::SLICE_ORIENTATION_XY:
1068       cam->SetPosition(position[0],position[1],-position[2]);
1069       break;
1070
1071     case vtkImageViewer2::SLICE_ORIENTATION_XZ:
1072       cam->SetPosition(position[0],-position[1],position[2]);
1073       break;
1074
1075     case vtkImageViewer2::SLICE_ORIENTATION_YZ:
1076       cam->SetPosition(-position[0],position[1],position[2]);
1077       break;
1078     }*/
1079
1080     this->Renderer->ResetCameraClippingRange();
1081     this->UpdateDisplayExtent();
1082   }
1083 }
1084 //----------------------------------------------------------------------------
1085
1086
1087 //----------------------------------------------------------------------------
1088 void vvSlicer::FlipVerticalView()
1089 {
1090   vtkCamera *cam = this->Renderer ? this->Renderer->GetActiveCamera() : NULL;
1091   if (cam) {
1092     FlipHorizontalView();
1093     double *viewup = cam->GetViewUp();
1094     cam->SetViewUp(-viewup[0],-viewup[1],-viewup[2]);
1095     this->UpdateDisplayExtent();
1096   }
1097 }
1098 //----------------------------------------------------------------------------
1099
1100
1101 //----------------------------------------------------------------------------
1102 void vvSlicer::SetColorWindow(double window)
1103 {
1104   vtkLookupTable* LUT = static_cast<vtkLookupTable*>(this->GetWindowLevel()->GetLookupTable());
1105   if ( LUT ) {
1106     double level = this->GetWindowLevel()->GetLevel();
1107     LUT->SetTableRange(level-fabs(window)/4,level+fabs(window)/4);
1108     LUT->Build();
1109   }
1110   this->vtkImageViewer2::SetColorWindow(window);
1111 }
1112 //----------------------------------------------------------------------------
1113
1114
1115 //----------------------------------------------------------------------------
1116 void vvSlicer::SetColorLevel(double level)
1117 {
1118   vtkLookupTable* LUT = static_cast<vtkLookupTable*>(this->GetWindowLevel()->GetLookupTable());
1119   if ( LUT ) {
1120     double window = this->GetWindowLevel()->GetWindow();
1121     LUT->SetTableRange(level-fabs(window)/4,level+fabs(window)/4);
1122     LUT->Build();
1123   }
1124   this->vtkImageViewer2::SetColorLevel(level);
1125 }
1126 //----------------------------------------------------------------------------
1127
1128 //----------------------------------------------------------------------------
1129 // Returns the min an the max value in a 41x41 region around the mouse pointer
1130 void vvSlicer::GetExtremasAroundMousePointer(double & min, double & max)
1131 {
1132   //Get mouse pointer position in view coordinates
1133   double fLocalExtents[6];
1134   for(int i=0; i<3; i++) {
1135     fLocalExtents[i*2  ] = mCurrent[i];
1136     fLocalExtents[i*2+1] = mCurrent[i];
1137   }
1138   this->Renderer->WorldToView(fLocalExtents[0], fLocalExtents[2], fLocalExtents[4]);
1139   this->Renderer->WorldToView(fLocalExtents[1], fLocalExtents[3], fLocalExtents[5]);
1140   for(int i=0; i<3; i++) {
1141     if (i!=SliceOrientation) { //SR: assumes that SliceOrientation is valid in ViewCoordinates (???)
1142       fLocalExtents[i*2  ] -= 0.2;
1143       fLocalExtents[i*2+1] += 0.2;
1144     }
1145   }
1146   this->Renderer->ViewToWorld(fLocalExtents[0], fLocalExtents[2], fLocalExtents[4]);
1147   this->Renderer->ViewToWorld(fLocalExtents[1], fLocalExtents[3], fLocalExtents[5]);
1148
1149   //Convert to image pixel coordinates (rounded)
1150   int iLocalExtents[6];
1151   for(int i=0; i<3; i++) {
1152     fLocalExtents[i*2  ] = (fLocalExtents[i*2  ] - this->GetInput()->GetOrigin()[i])/this->GetInput()->GetSpacing()[i];
1153     fLocalExtents[i*2+1] = (fLocalExtents[i*2+1] - this->GetInput()->GetOrigin()[i])/this->GetInput()->GetSpacing()[i];
1154
1155     iLocalExtents[i*2  ] = lrint(fLocalExtents[i*2  ]);
1156     iLocalExtents[i*2+1] = lrint(fLocalExtents[i*2+1]);
1157
1158     if(iLocalExtents[i*2  ]>iLocalExtents[i*2+1])
1159       std::swap(iLocalExtents[i*2], iLocalExtents[i*2+1]);
1160   }
1161
1162   vtkSmartPointer<vtkExtractVOI> voiFilter = vtkSmartPointer<vtkExtractVOI>::New();
1163   voiFilter->SetInput(this->GetInput());
1164   voiFilter->SetVOI(iLocalExtents);
1165   voiFilter->Update();
1166   if (!voiFilter->GetOutput()->GetNumberOfPoints()) {
1167     min = 0;
1168     max = 0;
1169     return;
1170   }
1171
1172   vtkSmartPointer<vtkImageAccumulate> accFilter = vtkSmartPointer<vtkImageAccumulate>::New();
1173   accFilter->SetInput(voiFilter->GetOutput());
1174   accFilter->Update();
1175
1176   min = *(accFilter->GetMin());
1177   max = *(accFilter->GetMax());
1178 }
1179 //----------------------------------------------------------------------------
1180
1181 //----------------------------------------------------------------------------
1182 double vvSlicer::GetScalarComponentAsDouble(vtkImageData *image, double X, double Y, double Z, int &ix, int &iy, int &iz, int component)
1183 {
1184   ix = lrint(X);
1185   iy = lrint(Y);
1186   iz = lrint(Z);
1187   if (ix < image->GetWholeExtent()[0] ||
1188       ix > image->GetWholeExtent()[1] ||
1189       iy < image->GetWholeExtent()[2] ||
1190       iy > image->GetWholeExtent()[3] ||
1191       iz < image->GetWholeExtent()[4] ||
1192       iz > image->GetWholeExtent()[5] )
1193     return std::numeric_limits<double>::quiet_NaN();
1194
1195   image->SetUpdateExtent(ix, ix, iy, iy, iz, iz);
1196   image->Update();
1197   return image->GetScalarComponentAsDouble(ix, iy, iz, component);
1198 }
1199 //----------------------------------------------------------------------------
1200
1201 //----------------------------------------------------------------------------
1202 void vvSlicer::Render()
1203 {
1204   if (this->GetWindowLevel()->GetLookupTable() && !this->mOverlay && !this->mFusion) {
1205     legend->SetLookupTable(this->GetWindowLevel()->GetLookupTable());
1206     legend->SetVisibility(1);
1207   } else legend->SetVisibility(0);
1208
1209   if (ca->GetVisibility()) {
1210     std::stringstream worldPos;
1211     double X = (mCurrent[0] - this->GetInput()->GetOrigin()[0])/this->GetInput()->GetSpacing()[0];
1212     double Y = (mCurrent[1] - this->GetInput()->GetOrigin()[1])/this->GetInput()->GetSpacing()[1];
1213     double Z = (mCurrent[2] - this->GetInput()->GetOrigin()[2])/this->GetInput()->GetSpacing()[2];
1214
1215 //     if (X < this->GetInput()->GetWholeExtent()[0]) X = this->GetInput()->GetWholeExtent()[0];
1216 //     else if (X > this->GetInput()->GetWholeExtent()[1]) X = this->GetInput()->GetWholeExtent()[1];
1217 //     if (Y < this->GetInput()->GetWholeExtent()[2]) Y = this->GetInput()->GetWholeExtent()[2];
1218 //     else if (Y > this->GetInput()->GetWholeExtent()[3]) Y = this->GetInput()->GetWholeExtent()[3];
1219 //     if (Z < this->GetInput()->GetWholeExtent()[4]) Z = this->GetInput()->GetWholeExtent()[4];
1220 //     else if (Z > this->GetInput()->GetWholeExtent()[5]) Z = this->GetInput()->GetWholeExtent()[5];
1221
1222     if (X >= this->GetInput()->GetWholeExtent()[0] &&
1223         X <= this->GetInput()->GetWholeExtent()[1] &&
1224         Y >= this->GetInput()->GetWholeExtent()[2] &&
1225         Y <= this->GetInput()->GetWholeExtent()[3] &&
1226         Z >= this->GetInput()->GetWholeExtent()[4] &&
1227         Z <= this->GetInput()->GetWholeExtent()[5]) {
1228
1229
1230       int ix, iy, iz;
1231       double value = this->GetScalarComponentAsDouble(this->GetInput(), X, Y, Z, ix, iy, iz);
1232
1233       if(ImageActor->GetVisibility())
1234         worldPos << "data value : " << value << std::endl;
1235
1236       worldPos << "mm : " << lrint(mCurrent[0]) << ' '
1237                           << lrint(mCurrent[1]) << ' '
1238                           << lrint(mCurrent[2]) << ' '
1239                           << mCurrentTSlice
1240                           << std::endl;
1241       worldPos << "pixel : " << ix << ' '
1242                              << iy << ' '
1243                              << iz << ' '
1244                              << mCurrentTSlice
1245                              << std::endl;
1246     }
1247     ca->SetText(1,worldPos.str().c_str());
1248   }
1249
1250   if (pdmA->GetVisibility()) {
1251     double x = mCursor[0];
1252     double y = mCursor[1];
1253     double z = mCursor[2];
1254     double xCursor = (x - this->GetInput()->GetOrigin()[0])/this->GetInput()->GetSpacing()[0];
1255     double yCursor = (y - this->GetInput()->GetOrigin()[1])/this->GetInput()->GetSpacing()[1];
1256     double zCursor = (z - this->GetInput()->GetOrigin()[2])/this->GetInput()->GetSpacing()[2];
1257
1258     if (xCursor >= this->GetImageActor()->GetDisplayExtent()[0] &&
1259         xCursor < this->GetImageActor()->GetDisplayExtent()[1]+1 &&
1260         yCursor >= this->GetImageActor()->GetDisplayExtent()[2] &&
1261         yCursor < this->GetImageActor()->GetDisplayExtent()[3]+1 &&
1262         zCursor >= this->GetImageActor()->GetDisplayExtent()[4] &&
1263         zCursor < this->GetImageActor()->GetDisplayExtent()[5]+1 ) {
1264       vtkRenderer * renderer = this->Renderer;
1265
1266       renderer->WorldToView(x,y,z);
1267       renderer->ViewToNormalizedViewport(x,y,z);
1268       renderer->NormalizedViewportToViewport(x,y);
1269       renderer->ViewportToNormalizedDisplay(x,y);
1270       renderer->NormalizedDisplayToDisplay(x,y);
1271       crossCursor->SetFocalPoint(x,y,z);
1272     } else
1273       crossCursor->SetFocalPoint(-1,-1,z);
1274   }
1275
1276
1277   if (mOverlay && mOverlayActor->GetVisibility()) {
1278     mOverlayMapper->SetWindow(this->GetColorWindow());
1279     mOverlayMapper->SetLevel(this->GetColorLevel());
1280     mOverlayMapper->GetOutput()->SetUpdateExtent(mOverlayActor->GetDisplayExtent());
1281     mOverlayMapper->GetOutput()->Update();
1282     mOverlayMapper->Update();
1283   }
1284   if (mLandMapper)
1285     UpdateLandmarks();
1286
1287   this->GetRenderWindow()->Render();
1288 }
1289 //----------------------------------------------------------------------------
1290
1291
1292 //----------------------------------------------------------------------------
1293 void vvSlicer::UpdateCursorPosition()
1294 {
1295   pdmA->SetVisibility(true);
1296   mCursor[0] = mCurrent[0];
1297   mCursor[1] = mCurrent[1];
1298   mCursor[2] = mCurrent[2];
1299   mCursor[3] = mCurrentTSlice;
1300 }
1301 //----------------------------------------------------------------------------
1302
1303
1304 //----------------------------------------------------------------------------
1305 void vvSlicer::UpdateLandmarks()
1306 {
1307   vtkPolyData *pd = static_cast<vtkPolyData*>(mLandClipper->GetInput());
1308   if (pd->GetPoints()) {
1309     mLandGlyph->SetRange(0,1);
1310     mLandGlyph->Modified();
1311     mLandGlyph->Update();
1312
1313     mClipBox->Modified();
1314     mLandClipper->Update();
1315     mLandMapper->Update();
1316   }
1317
1318 }
1319 //----------------------------------------------------------------------------
1320
1321
1322 //----------------------------------------------------------------------------
1323 void vvSlicer::SetSlice(int slice)
1324 {
1325   int *range = this->GetSliceRange();
1326   if (range) {
1327     if (slice < range[0]) {
1328       slice = range[0];
1329     } else if (slice > range[1]) {
1330       slice = range[1];
1331     }
1332   }
1333
1334   if (this->Slice == slice) {
1335     return;
1336   }
1337
1338   this->Slice = slice;
1339   SetContourSlice();
1340   this->Modified();
1341   this->UpdateDisplayExtent();
1342
1343   // Seems to work without this line
1344   //this->Render();
1345 }
1346 //----------------------------------------------------------------------------
1347
1348
1349 //----------------------------------------------------------------------------
1350 void vvSlicer::SetContourSlice()
1351 {
1352   if (mSurfaceCutActors.size() > 0)
1353     for (std::vector<vvMeshActor*>::iterator i=mSurfaceCutActors.begin();
1354          i!=mSurfaceCutActors.end(); i++) {
1355
1356       (*i)->SetSlicingOrientation(this->SliceOrientation);
1357       (*i)->SetCutSlice((this->Slice)*this->GetImage()->GetSpacing()[this->SliceOrientation]+
1358                         this->GetImage()->GetOrigin()[this->SliceOrientation]);
1359     }
1360 }
1361 //----------------------------------------------------------------------------
1362
1363
1364 //----------------------------------------------------------------------------
1365 void vvSlicer::ForceUpdateDisplayExtent()
1366 {
1367   this->UpdateDisplayExtent();
1368 }
1369 //----------------------------------------------------------------------------
1370
1371
1372 //----------------------------------------------------------------------------
1373 int* vvSlicer::GetDisplayExtent()
1374 {
1375   return this->GetImageActor()->GetDisplayExtent();
1376 }
1377 //----------------------------------------------------------------------------
1378
1379
1380 //----------------------------------------------------------------------------
1381 void vvSlicer::PrintSelf(ostream& os, vtkIndent indent)
1382 {
1383   this->Superclass::PrintSelf(os, indent);
1384 }
1385 //----------------------------------------------------------------------------
1386
1387 //----------------------------------------------------------------------------
1388 void vvSlicer::SetVFColor(double r, double g, double b)
1389 {
1390   double mVFColorHSV[3];
1391   mVFColor[0] = r;
1392   mVFColor[1] = g;
1393   mVFColor[2] = b;
1394
1395   vtkMath::RGBToHSV(mVFColor, mVFColorHSV);
1396   mVFColorLUT->SetHueRange(mVFColorHSV[0], mVFColorHSV[0]);
1397   mVFColorLUT->SetSaturationRange(mVFColorHSV[1],mVFColorHSV[1]);
1398   mVFColorLUT->SetValueRange(mVFColorHSV[2], mVFColorHSV[2]);
1399
1400   this->Render();
1401 }
1402