vv/vvSlicerManager.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://oncora1.lyon.fnclcc.fr
   7   - CREATIS CNRS laboratory         http://www.creatis.insa-lyon.fr
   8
   9   This software is distributed WITHOUT ANY WARRANTY; without even
  10   the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR
  11   PURPOSE.  See the copyright notices for more information.
  12
  13   It is distributed under dual licence
  14
  15   - BSD        See included LICENSE.txt file
  16   - CeCILL-B   http://www.cecill.info/licences/Licence_CeCILL-B_V1-en.html
  17   ======================================================================-====*/
  18
  19 #include "vvSlicerManager.h"
  20 #include "vvSlicer.h"
  21 #include "vvImage.h"
  22 #include "vvSlicerManagerCommand.h"
  23 #include "vvInteractorStyleNavigator.h"
  24 #include "vvLandmarks.h"
  25 #include "vvMesh.h"
  26 #include "vvImageMapToWLColors.h"
  27 #include "vvBlendImageActor.h"
  28
  29 #include <vtkImageActor.h>
  30 #include <vtkImageData.h>
  31 #include <vtkRenderWindow.h>
  32 #include <vtkRendererCollection.h>
  33 #include <vtkRenderWindowInteractor.h>
  34 #include <vtkImageMapToWindowLevelColors.h>
  35 #include <vtkWindowLevelLookupTable.h>
  36 #include <vtkColorTransferFunction.h>
  37 #include <vtkImageClip.h>
  38 #include <vtkLODActor.h>
  39 #include <vtkPointData.h>
  40 #include <vtksys/SystemTools.hxx>
  41 #include <vtkCamera.h>
  42
  43 #include <qfileinfo.h>
  44
  45 //----------------------------------------------------------------------------
  46 vvSlicerManager::vvSlicerManager(int numberOfSlicers)
  47 {
  48   mFileName = "";
  49   mId = "";
  50   mVFName = "";
  51   mOverlayName = "";
  52   mFusionName = "";
  53   mVFId = "";
  54   mLastError = "";
  55   mType = vvImageReader::UNDEFINEDIMAGETYPE;
  56   mColorMap = 0;
  57   mPreset = 0;
  58   mOverlayColor = 130;
  59
  60   mFusionOpacity = 70;
  61   mFusionThresOpacity = 0;
  62   mFusionColorMap = 3;
  63   mFusionWindow = 1000;
  64   mFusionLevel = 1000;
  65
  66   mLandmarks = NULL;
  67   mLinkedId.resize(0);
  68
  69   for ( int i = 0; i < numberOfSlicers; i++)
  70     mSlicers.push_back(vtkSmartPointer<vvSlicer>::New());
  71
  72   mPreviousSlice.resize(numberOfSlicers);
  73   mPreviousTSlice.resize(numberOfSlicers);
  74 }
  75 //----------------------------------------------------------------------------
  76
  77
  78 //----------------------------------------------------------------------------
  79 vvSlicerManager::~vvSlicerManager()
  80 {
  81   if (mLandmarks)
  82     delete mLandmarks;
  83 }
  84 //----------------------------------------------------------------------------
  85
  86
  87 //------------------------------------------------------------------------------
  88 void vvSlicerManager::SetFilename(std::string filename, int number)
  89 {
  90   mFileName = filename;
  91   mFileName = vtksys::SystemTools::GetFilenameName(mFileName);
  92   mBaseFileName = vtksys::SystemTools::GetFilenameName(vtksys::SystemTools::GetFilenameWithoutLastExtension(mFileName));
  93   mBaseFileNameNumber = number;
  94
  95   mFileName = mBaseFileName;
  96   if (number != 0) {
  97     mFileName.append("_"+clitk::toString(number));
  98   }
  99   mFileName.append(vtksys::SystemTools::GetFilenameLastExtension(filename));
 100
 101   for(unsigned int i=0; i<mSlicers.size(); i++) {
 102     mSlicers[i]->SetFileName(mFileName);//vtksys::SystemTools::GetFilenameWithoutLastExtension(filename));
 103   }
 104
 105 }
 106 //------------------------------------------------------------------------------
 107
 108
 109 //----------------------------------------------------------------------------
 110 void vvSlicerManager::AddContour(vvMesh::Pointer contour,bool propagate)
 111 {
 112   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 113     mSlicers[i]->AddContour(contour,propagate);
 114   }
 115 }
 116 //----------------------------------------------------------------------------
 117
 118
 119 //----------------------------------------------------------------------------
 120 void vvSlicerManager::ToggleContourSuperposition()
 121 {
 122   for ( unsigned int i = 0; i < mSlicers.size(); i++)
 123     mSlicers[i]->ToggleContourSuperposition();
 124 }
 125 //----------------------------------------------------------------------------
 126
 127 //----------------------------------------------------------------------------
 128 std::string vvSlicerManager::GetListOfAbsoluteFilePathInOneString(const std::string &actorType)
 129 {
 130   vvImageReader *reader = NULL;
 131
 132   if(actorType=="image")
 133     reader = mReader;
 134   else if(actorType=="overlay")
 135     reader = mOverlayReader;
 136   else if(actorType=="fusion")
 137     reader = mFusionReader;
 138   else if(actorType=="vector")
 139     reader = mVectorReader;
 140
 141   if(!reader)
 142     return "";
 143
 144   std::string list;
 145   for(unsigned int i=0; i<reader->GetInputFilenames().size(); i++){
 146     QFileInfo fileinfo(reader->GetInputFilenames()[i].c_str()); //Do not show the path
 147     if(i)
 148       list += '\n';
 149     list += fileinfo.absoluteFilePath().toStdString();
 150   }
 151   return list;
 152 }
 153 //----------------------------------------------------------------------------
 154
 155
 156 //----------------------------------------------------------------------------
 157 bool vvSlicerManager::SetImage(std::string filename, vvImageReader::LoadedImageType type, int n, unsigned int slice)
 158 {
 159   mType = type;
 160   if (mReader.IsNull())
 161     mReader = vvImageReader::New();
 162   std::vector<std::string> filenames;
 163   filenames.push_back(filename);
 164   mReader->SetInputFilenames(filenames);
 165   mReader->SetSlice(slice); // Only used for SLICED type
 166   mReader->Update(type);
 167
 168   SetFilename(filename, n);
 169   //  mFileName = vtksys::SystemTools::GetFilenameName(mFileName);
 170   //mBaseFileName = vtksys::SystemTools::GetFilenameName(vtksys::SystemTools::GetFilenameWithoutLastExtension(mFileName));
 171   //mBaseFileNameNumber = n;
 172
 173   if (mReader->GetLastError().size() == 0) {
 174     mImage=mReader->GetOutput();
 175     for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 176       mSlicers[i]->SetFileName(vtksys::SystemTools::GetFilenameWithoutLastExtension(filename));
 177       mSlicers[i]->SetImage(mReader->GetOutput());
 178     }
 179   } else {
 180     mLastError = mReader->GetLastError();
 181     return false;
 182   }
 183   // if (n!=0) {
 184   //   mFileName.append("_"+clitk::toString(n));
 185   // }
 186   return true;
 187 }
 188 //----------------------------------------------------------------------------
 189
 190
 191 //----------------------------------------------------------------------------
 192 void vvSlicerManager::SetImage(vvImage::Pointer image)
 193 {
 194   mImage=image;
 195   for (unsigned int i = 0; i < mSlicers.size(); i++) {
 196     mSlicers[i]->SetImage(image);
 197   }
 198 }
 199 //----------------------------------------------------------------------------
 200
 201
 202 //----------------------------------------------------------------------------
 203 bool vvSlicerManager::SetImages(std::vector<std::string> filenames, vvImageReader::LoadedImageType type, int n)
 204 {
 205   mType = type;
 206   std::string fileWithoutExtension = vtksys::SystemTools::GetFilenameWithoutExtension(filenames[0]);
 207   if (type == vvImageReader::DICOM)
 208     fileWithoutExtension += "_dicom";
 209   else if (type == vvImageReader::MERGED)
 210     fileWithoutExtension += "_merged";
 211   else if (type == vvImageReader::MERGEDWITHTIME)
 212     fileWithoutExtension += "_merged_wt";
 213
 214   mFileName = vtksys::SystemTools::GetFilenameName(mFileName);
 215   mFileName = fileWithoutExtension + vtksys::SystemTools::GetFilenameExtension(filenames[0]);
 216   if (mReader.IsNull())
 217     mReader = vvImageReader::New();
 218   mReader->SetInputFilenames(filenames);
 219   mReader->Update(type);
 220
 221   mBaseFileName = vtksys::SystemTools::GetFilenameName(vtksys::SystemTools::GetFilenameWithoutLastExtension(mFileName));
 222   mBaseFileNameNumber = n;
 223
 224   if (mReader->GetLastError().size() == 0) {
 225     mImage=mReader->GetOutput();
 226     for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 227       mSlicers[i]->SetFileName(fileWithoutExtension);
 228       mSlicers[i]->SetImage(mReader->GetOutput());
 229     }
 230   } else {
 231     mLastError = mReader->GetLastError();
 232     return false;
 233   }
 234   if (n!=0) {
 235     mFileName.append("_"+clitk::toString(n));
 236   }
 237   return true;
 238 }
 239 //----------------------------------------------------------------------------
 240
 241
 242 //----------------------------------------------------------------------------
 243 bool vvSlicerManager::SetOverlay(std::string filename,int dim, std::string component)
 244 {
 245   mOverlayName = filename;
 246   mOverlayComponent = component;
 247   if (dim > mImage->GetNumberOfDimensions()) {
 248     mLastError = " Overlay dimension cannot be greater then reference image!";
 249     return false;
 250   }
 251   if (mOverlayReader.IsNull())
 252     mOverlayReader = vvImageReader::New();
 253   std::vector<std::string> filenames;
 254   filenames.push_back(filename);
 255   mOverlayReader->SetInputFilenames(filenames);
 256   mOverlayReader->Update(mImage->GetNumberOfDimensions(),component.c_str(),mType);
 257   if (mOverlayReader->GetLastError().size() == 0) {
 258     for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 259       mSlicers[i]->SetOverlay(mOverlayReader->GetOutput());
 260     }
 261   } else {
 262     mLastError = mOverlayReader->GetLastError();
 263     return false;
 264   }
 265   return true;
 266 }
 267 //----------------------------------------------------------------------------
 268
 269
 270 //----------------------------------------------------------------------------
 271 bool vvSlicerManager::SetFusion(std::string filename,int dim, std::string component)
 272 {
 273   mFusionName = filename;
 274   mFusionComponent = component;
 275   if (dim > mImage->GetNumberOfDimensions()) {
 276     mLastError = " Overlay dimension cannot be greater then reference image!";
 277     return false;
 278   }
 279   if (mFusionReader.IsNull())
 280     mFusionReader = vvImageReader::New();
 281   std::vector<std::string> filenames;
 282   filenames.push_back(filename);
 283   mFusionReader->SetInputFilenames(filenames);
 284   mFusionReader->Update(mImage->GetNumberOfDimensions(),component.c_str(),mType);
 285   if (mFusionReader->GetLastError().size() == 0) {
 286     for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 287       mSlicers[i]->SetFusion(mFusionReader->GetOutput());
 288     }
 289   } else {
 290     mLastError = mFusionReader->GetLastError();
 291     return false;
 292   }
 293   double *fusRange = mFusionReader->GetOutput()->GetVTKImages()[0]->GetScalarRange();
 294   mFusionLevel = (fusRange[0]+fusRange[1])/2;
 295   mFusionWindow = fusRange[1]-fusRange[0];
 296
 297   return true;
 298 }
 299 //----------------------------------------------------------------------------
 300
 301
 302 //----------------------------------------------------------------------------
 303 bool vvSlicerManager::SetVF(std::string filename)
 304 {
 305   if (mVectorReader.IsNull())
 306     mVectorReader = vvImageReader::New();
 307   mVectorReader->SetInputFilename(filename);
 308
 309   if (mType == vvImageReader::IMAGEWITHTIME)
 310     mVectorReader->Update(vvImageReader::VECTORFIELDWITHTIME);
 311   else
 312     mVectorReader->Update(vvImageReader::VECTORFIELD);
 313   if (mVectorReader->GetLastError().size() != 0) {
 314     mLastError = mVectorReader->GetLastError();
 315     return false;
 316   } else
 317     return SetVF(mVectorReader->GetOutput(),filename);
 318 }
 319 //----------------------------------------------------------------------------
 320
 321
 322 //----------------------------------------------------------------------------
 323 bool vvSlicerManager::SetVF(vvImage::Pointer vf,std::string filename)
 324 {
 325   if (vf->GetNumberOfDimensions() > mImage->GetNumberOfDimensions()) {
 326     mLastError = "Sorry, vector field dimension cannot be greater then reference image.";
 327     return false;
 328   }
 329   if (vf->GetNumberOfDimensions() == 4) {
 330     if (vf->GetSpacing()[3] != mImage->GetSpacing()[3]) {
 331       mLastError = "Sorry, vector field time spacing cannot be different from time spacing of the reference image.";
 332       return false;
 333     }
 334     if (vf->GetOrigin()[3] != mImage->GetOrigin()[3]) {
 335       mLastError = "Sorry, vector field time origin cannot be different from time origin of the reference image.";
 336       return false;
 337     }
 338   }
 339   mVF=vf;
 340   mVFName = filename;
 341   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 342     mSlicers[i]->SetVF(vf);
 343   }
 344   return true;
 345 }
 346 //----------------------------------------------------------------------------
 347
 348
 349 //----------------------------------------------------------------------------
 350 vvSlicer* vvSlicerManager::GetSlicer(int i)
 351 {
 352   return mSlicers[i];
 353 }
 354 //----------------------------------------------------------------------------
 355
 356
 357 //----------------------------------------------------------------------------
 358 void vvSlicerManager::UpdateSlicer(int num, bool state)
 359 {
 360   if (mSlicers[num]->GetImage())
 361     mSlicers[num]->SetDisplayMode(state);
 362 }
 363 //----------------------------------------------------------------------------
 364
 365
 366 //----------------------------------------------------------------------------
 367 void vvSlicerManager::SetSlicerWindow(int i, vtkRenderWindow* RW)
 368 {
 369   mSlicers[i]->SetRenderWindow(i,RW);
 370 }
 371 //----------------------------------------------------------------------------
 372
 373
 374 //----------------------------------------------------------------------------
 375 void vvSlicerManager::SetInteractorStyleNavigator(int i, vtkInteractorStyle* style)
 376 {
 377   vvSlicerManagerCommand *smc = vvSlicerManagerCommand::New();
 378   smc->SM = this;
 379   smc->SetSlicerNumber(i);
 380   mSlicers[i]->GetRenderWindow()->GetInteractor()->SetInteractorStyle(style);
 381
 382   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 383     GetInteractorStyle()->AddObserver(vtkCommand::KeyPressEvent, smc);
 384   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 385     GetInteractorStyle()->AddObserver(vtkCommand::WindowLevelEvent, smc);
 386   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 387     GetInteractorStyle()->AddObserver(vtkCommand::EndWindowLevelEvent, smc);
 388   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 389     GetInteractorStyle()->AddObserver(vtkCommand::StartWindowLevelEvent, smc);
 390   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 391     GetInteractorStyle()->AddObserver(vtkCommand::PickEvent, smc);
 392   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 393     GetInteractorStyle()->AddObserver(vtkCommand::StartPickEvent, smc);
 394   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 395     GetInteractorStyle()->AddObserver(vtkCommand::LeaveEvent, smc);
 396   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 397     GetInteractorStyle()->AddObserver(vtkCommand::UserEvent, smc);
 398   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 399     GetInteractorStyle()->AddObserver(vtkCommand::MouseWheelForwardEvent, smc);
 400   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 401     GetInteractorStyle()->AddObserver(vtkCommand::MouseWheelBackwardEvent, smc);
 402   // mSlicers[i]->GetRenderWindow()->GetInteractor()->
 403   //   GetInteractorStyle()->AddObserver(vtkCommand::LeftButtonReleaseEvent, smc);
 404   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 405     GetInteractorStyle()->AddObserver(vtkCommand::EndPickEvent, smc);
 406   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 407     GetInteractorStyle()->AddObserver(vtkCommand::EndInteractionEvent, smc);
 408   smc->Delete();
 409 }
 410 //----------------------------------------------------------------------------
 411
 412
 413 //----------------------------------------------------------------------------
 414 void vvSlicerManager::LeftButtonReleaseEvent(int slicer)
 415 {
 416   emit LeftButtonReleaseSignal(slicer);
 417 }
 418 //----------------------------------------------------------------------------
 419
 420 //----------------------------------------------------------------------------
 421 void vvSlicerManager::SetSliceOrientation(int slicer, int orientation)
 422 {
 423   mSlicers[slicer]->SetSliceOrientation(orientation);
 424   emit UpdateOrientation(slicer, orientation);
 425 }
 426 //----------------------------------------------------------------------------
 427
 428 //----------------------------------------------------------------------------
 429 void vvSlicerManager::SetTSlice(int slice)
 430 {
 431   if (slice < 0)
 432     slice = 0;
 433   else if (slice > mSlicers[0]->GetTMax())
 434     slice = mSlicers[0]->GetTMax();
 435   if (mLandmarks)
 436     mLandmarks->SetTime(slice);
 437   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 438     if (slice != mSlicers[i]->GetTSlice()) {
 439       mSlicers[i]->SetTSlice(slice);
 440         UpdateTSlice(i);
 441     }
 442   }
 443 }
 444 //----------------------------------------------------------------------------
 445
 446
 447 //----------------------------------------------------------------------------
 448 void vvSlicerManager::SetNextTSlice(int originating_slicer)
 449 {
 450   int t = mSlicers[0]->GetTSlice();
 451   t++;
 452   if (t > mSlicers[0]->GetTMax())
 453     t = 0;
 454   //std::cout << "vvSlicerManager::SetNextTSlice" << std::endl;
 455   emit UpdateTSlice(originating_slicer,t);
 456 }
 457 //----------------------------------------------------------------------------
 458
 459
 460 //----------------------------------------------------------------------------
 461 void vvSlicerManager::SetPreviousTSlice(int originating_slicer)
 462 {
 463   int t = mSlicers[0]->GetTSlice();
 464   t--;
 465   if (t < 0)
 466     t = mSlicers[0]->GetTMax();
 467   //std::cout << "vvSlicerManager::SetPreviousTSlice" << std::endl;
 468   emit UpdateTSlice(originating_slicer,t);
 469 }
 470 //----------------------------------------------------------------------------
 471
 472
 473 //----------------------------------------------------------------------------
 474 void vvSlicerManager::ToggleInterpolation()
 475 {
 476   bool interpolate=!(mSlicers[0]->GetImageActor()->GetInterpolate());
 477   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 478     mSlicers[i]->GetImageActor()->SetInterpolate(interpolate);
 479     if (mSlicers[i]->GetOverlayActor())
 480       mSlicers[i]->GetOverlayActor()->SetInterpolate(interpolate);
 481     if (mSlicers[i]->GetFusionActor())
 482       mSlicers[i]->GetFusionActor()->SetInterpolate(interpolate);
 483   }
 484 }
 485 //----------------------------------------------------------------------------
 486
 487
 488 //----------------------------------------------------------------------------
 489 void vvSlicerManager::SetTSliceInSlicer(int tslice, int slicer)
 490 {
 491   if (tslice < 0)
 492     tslice = 0;
 493   else if (tslice > mSlicers[slicer]->GetTMax())
 494     tslice = mSlicers[slicer]->GetTMax();
 495   if (mLandmarks)
 496     mLandmarks->SetTime(tslice);
 497
 498   if (mSlicers[slicer]->GetTSlice() == tslice) return;
 499
 500   mSlicers[slicer]->SetTSlice(tslice);
 501   UpdateTSlice(slicer);
 502 }
 503 //----------------------------------------------------------------------------
 504
 505
 506 //----------------------------------------------------------------------------
 507 void vvSlicerManager::SetColorWindow(double s)
 508 {
 509   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 510     mSlicers[i]->SetColorWindow(s);
 511   }
 512 }
 513 //----------------------------------------------------------------------------
 514
 515 //----------------------------------------------------------------------------
 516 void vvSlicerManager::SetColorLevel(double s)
 517 {
 518   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 519     mSlicers[i]->SetColorLevel(s);
 520   }
 521 }
 522 //----------------------------------------------------------------------------
 523
 524 //----------------------------------------------------------------------------
 525 void vvSlicerManager::SetOverlayColorWindow(double s)
 526 {
 527   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 528     mSlicers[i]->SetOverlayColorWindow(s);
 529   }
 530 }
 531 //----------------------------------------------------------------------------
 532
 533 //----------------------------------------------------------------------------
 534 void vvSlicerManager::SetOverlayColorLevel(double s)
 535 {
 536   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 537     mSlicers[i]->SetOverlayColorLevel(s);
 538   }
 539 }
 540 //----------------------------------------------------------------------------
 541
 542 //----------------------------------------------------------------------------
 543 void vvSlicerManager::SetLinkOverlayWindowLevel(bool b)
 544 {
 545   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 546     mSlicers[i]->SetLinkOverlayWindowLevel(b);
 547   }
 548 }
 549 //----------------------------------------------------------------------------
 550
 551 //----------------------------------------------------------------------------
 552 void vvSlicerManager::SetCursorAndCornerAnnotationVisibility(int s)
 553 {
 554   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 555     mSlicers[i]->SetCursorVisibility(s);
 556     mSlicers[i]->SetCornerAnnotationVisibility(s);
 557   }
 558 }
 559 //----------------------------------------------------------------------------
 560
 561 //----------------------------------------------------------------------------
 562 void vvSlicerManager::SetOpacity(int i, double factor)
 563 {
 564   mSlicers[i]->SetOpacity(1/factor);
 565 }
 566 //----------------------------------------------------------------------------
 567
 568
 569 //----------------------------------------------------------------------------
 570 void vvSlicerManager::UpdateViews(int current,int slicer)
 571 {
 572   double x = (mSlicers[slicer]->GetCurrentPosition()[0] - mSlicers[slicer]->GetInput()->GetOrigin()[0])
 573     /mSlicers[slicer]->GetInput()->GetSpacing()[0];
 574   double y = (mSlicers[slicer]->GetCurrentPosition()[1] - mSlicers[slicer]->GetInput()->GetOrigin()[1])
 575     /mSlicers[slicer]->GetInput()->GetSpacing()[1];
 576   double z = (mSlicers[slicer]->GetCurrentPosition()[2] - mSlicers[slicer]->GetInput()->GetOrigin()[2])
 577     /mSlicers[slicer]->GetInput()->GetSpacing()[2];
 578
 579   if (x >= mSlicers[slicer]->GetInput()->GetWholeExtent()[0] &&
 580       x <= mSlicers[slicer]->GetInput()->GetWholeExtent()[1] &&
 581       y >= mSlicers[slicer]->GetInput()->GetWholeExtent()[2] &&
 582       y <= mSlicers[slicer]->GetInput()->GetWholeExtent()[3] &&
 583       z >= mSlicers[slicer]->GetInput()->GetWholeExtent()[4] &&
 584       z <= mSlicers[slicer]->GetInput()->GetWholeExtent()[5]) {
 585     mSlicers[slicer]->UpdateCursorPosition();
 586     mSlicers[slicer]->SetCursorColor(10,212,255);
 587
 588     switch (mSlicers[slicer]->GetSliceOrientation()) {
 589     case vtkImageViewer2::SLICE_ORIENTATION_XY:
 590       if (mSlicers[slicer]->GetSlice() != (int)floor(z))
 591         mSlicers[slicer]->SetSlice((int)floor(z));
 592       break;
 593
 594     case vtkImageViewer2::SLICE_ORIENTATION_XZ:
 595       if (mSlicers[slicer]->GetSlice() != (int)floor(y))
 596         mSlicers[slicer]->SetSlice((int)floor(y));
 597       break;
 598
 599     case vtkImageViewer2::SLICE_ORIENTATION_YZ:
 600       if (mSlicers[slicer]->GetSlice() != (int)floor(x))
 601         mSlicers[slicer]->SetSlice((int)floor(x));
 602       break;
 603     }
 604     mSlicers[slicer]->Render();
 605
 606     for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 607       if (i != (unsigned int)slicer
 608           && mSlicers[i]->GetRenderer()->GetDraw()
 609           && mSlicers[i]->GetRenderWindow()->GetSize()[0] > 2
 610           && mSlicers[i]->GetRenderWindow()->GetSize()[1] > 2) {
 611         mSlicers[i]->SetCurrentPosition(mSlicers[slicer]->GetCurrentPosition()[0],
 612                                         mSlicers[slicer]->GetCurrentPosition()[1],
 613                                         mSlicers[slicer]->GetCurrentPosition()[2],
 614                                         mSlicers[slicer]->GetTSlice());
 615         mSlicers[i]->UpdateCursorPosition();
 616         if (current) { //do not display corner annotation if image is the one picked
 617           mSlicers[i]->SetCurrentPosition(-VTK_DOUBLE_MAX,-VTK_DOUBLE_MAX,
 618                                           -VTK_DOUBLE_MAX, mSlicers[slicer]->GetTSlice());
 619           mSlicers[i]->SetCursorColor(255,10,212);
 620         } else {
 621           mSlicers[i]->SetCursorColor(150,10,282);
 622         }
 623         switch (mSlicers[i]->GetSliceOrientation()) {
 624         case vtkImageViewer2::SLICE_ORIENTATION_XY:
 625           if (mSlicers[i]->GetSlice() != (int)floor(z))
 626             mSlicers[i]->SetSlice((int)floor(z));
 627           break;
 628
 629         case vtkImageViewer2::SLICE_ORIENTATION_XZ:
 630           if (mSlicers[i]->GetSlice() != (int)floor(y))
 631             mSlicers[i]->SetSlice((int)floor(y));
 632           break;
 633
 634         case vtkImageViewer2::SLICE_ORIENTATION_YZ:
 635           if (mSlicers[i]->GetSlice() != (int)floor(x))
 636             mSlicers[i]->SetSlice((int)floor(x));
 637           break;
 638         }
 639
 640         mSlicers[i]->Render();
 641
 642         UpdateSlice(i);
 643         UpdateTSlice(i);
 644       }
 645     }
 646   }
 647 }
 648 //----------------------------------------------------------------------------
 649
 650
 651 //----------------------------------------------------------------------------
 652 void vvSlicerManager::UpdateLinked(int slicer)
 653 {
 654   double x = (mSlicers[slicer]->GetCurrentPosition()[0] - mSlicers[slicer]->GetInput()->GetOrigin()[0])
 655     /mSlicers[slicer]->GetInput()->GetSpacing()[0];
 656   double y = (mSlicers[slicer]->GetCurrentPosition()[1] - mSlicers[slicer]->GetInput()->GetOrigin()[1])
 657     /mSlicers[slicer]->GetInput()->GetSpacing()[1];
 658   double z = (mSlicers[slicer]->GetCurrentPosition()[2] - mSlicers[slicer]->GetInput()->GetOrigin()[2])
 659     /mSlicers[slicer]->GetInput()->GetSpacing()[2];
 660
 661   if (x >= mSlicers[slicer]->GetInput()->GetWholeExtent()[0] &&
 662       x <= mSlicers[slicer]->GetInput()->GetWholeExtent()[1] &&
 663       y >= mSlicers[slicer]->GetInput()->GetWholeExtent()[2] &&
 664       y <= mSlicers[slicer]->GetInput()->GetWholeExtent()[3] &&
 665       z >= mSlicers[slicer]->GetInput()->GetWholeExtent()[4] &&
 666       z <= mSlicers[slicer]->GetInput()->GetWholeExtent()[5]) {
 667     for (std::list<std::string>::const_iterator i = mLinkedId.begin(); i != mLinkedId.end(); i++) {
 668       emit UpdateLinkManager(*i, slicer,mSlicers[slicer]->GetCurrentPosition()[0],
 669                              mSlicers[slicer]->GetCurrentPosition()[1],
 670                              mSlicers[slicer]->GetCurrentPosition()[2],mSlicers[slicer]->GetTSlice());
 671     }
 672   }
 673 }
 674 //----------------------------------------------------------------------------
 675
 676 //----------------------------------------------------------------------------
 677 void vvSlicerManager::UpdateLinkedNavigation(vvSlicer *refSlicer, bool bPropagate)
 678 {
 679   vtkCamera *refCam = refSlicer->GetRenderer()->GetActiveCamera();
 680   double refPosition[3], refFocal[3];
 681   refCam->GetPosition(refPosition);
 682   refCam->GetFocalPoint(refFocal);
 683
 684   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 685     vtkCamera *camera = mSlicers[i]->GetRenderer()->GetActiveCamera();
 686     camera->SetParallelScale(refCam->GetParallelScale());
 687
 688     double position[3], focal[3];
 689     camera->GetPosition(position);
 690     camera->GetFocalPoint(focal);
 691
 692     if(refSlicer->GetSliceOrientation()==mSlicers[i]->GetSliceOrientation()) {
 693       for(int i=0; i<3; i++) {
 694         position[i] = refPosition[i];
 695         focal[i]    = refFocal[i];
 696       }
 697     }
 698
 699     if(refSlicer->GetSliceOrientation()==vtkImageViewer2::SLICE_ORIENTATION_XY) {
 700       if(mSlicers[i]->GetSliceOrientation()==vtkImageViewer2::SLICE_ORIENTATION_XZ) {
 701         position[0] = refPosition[0];
 702         focal[0]    = refFocal[0];
 703       }
 704       if(mSlicers[i]->GetSliceOrientation()==vtkImageViewer2::SLICE_ORIENTATION_YZ) {
 705         position[1] = refPosition[1];
 706         focal[1]    = refFocal[1];
 707       }
 708     }
 709
 710     if(refSlicer->GetSliceOrientation()==vtkImageViewer2::SLICE_ORIENTATION_XZ) {
 711       if(mSlicers[i]->GetSliceOrientation()==vtkImageViewer2::SLICE_ORIENTATION_YZ) {
 712         position[2] = refPosition[2];
 713         focal[2]    = refFocal[2];
 714       }
 715       if(mSlicers[i]->GetSliceOrientation()==vtkImageViewer2::SLICE_ORIENTATION_XY) {
 716         position[0] = refPosition[0];
 717         focal[0]    = refFocal[0];
 718       }
 719     }
 720
 721     if(refSlicer->GetSliceOrientation()==vtkImageViewer2::SLICE_ORIENTATION_YZ) {
 722       if(mSlicers[i]->GetSliceOrientation()==vtkImageViewer2::SLICE_ORIENTATION_XY) {
 723         position[1] = refPosition[1];
 724         focal[1]    = refFocal[1];
 725       }
 726       if(mSlicers[i]->GetSliceOrientation()==vtkImageViewer2::SLICE_ORIENTATION_XZ) {
 727         position[2] = refPosition[2];
 728         focal[2]    = refFocal[2];
 729       }
 730     }
 731
 732     camera->SetFocalPoint(focal);
 733     camera->SetPosition(position);
 734
 735     //Fix for bug #243
 736     mSlicers[i]->ForceUpdateDisplayExtent();
 737   }
 738
 739   Render();
 740   if(bPropagate)
 741     for (std::list<std::string>::const_iterator i = mLinkedId.begin(); i != mLinkedId.end(); i++)
 742       emit UpdateLinkedNavigation(*i, this, refSlicer);
 743 }
 744 //----------------------------------------------------------------------------
 745
 746 //----------------------------------------------------------------------------
 747 double vvSlicerManager::GetColorWindow()
 748 {
 749   if (mSlicers.size())
 750     return mSlicers[0]->GetColorWindow();
 751   return -1;
 752 }
 753 //----------------------------------------------------------------------------
 754
 755
 756 //----------------------------------------------------------------------------
 757 double vvSlicerManager::GetColorLevel()
 758 {
 759   if (mSlicers.size())
 760     return mSlicers[0]->GetColorLevel();
 761   return -1;
 762 }
 763 //----------------------------------------------------------------------------
 764
 765 //----------------------------------------------------------------------------
 766 double vvSlicerManager::GetOverlayColorWindow()
 767 {
 768   if (mSlicers.size())
 769     return mSlicers[0]->GetOverlayColorWindow();
 770   return -1;
 771 }
 772 //----------------------------------------------------------------------------
 773
 774 //----------------------------------------------------------------------------
 775 double vvSlicerManager::GetOverlayColorLevel()
 776 {
 777   if (mSlicers.size())
 778     return mSlicers[0]->GetOverlayColorLevel();
 779   return -1;
 780 }
 781 //----------------------------------------------------------------------------
 782
 783 //----------------------------------------------------------------------------
 784 bool vvSlicerManager::GetLinkOverlayWindowLevel()
 785 {
 786   if (mSlicers.size())
 787     return mSlicers[0]->GetLinkOverlayWindowLevel();
 788   return -1;
 789 }
 790 //----------------------------------------------------------------------------
 791
 792 //------------------------------------------------------------------------------
 793 void vvSlicerManager::ResetTransformationToIdentity(const std::string actorType)
 794 {
 795   if(actorType == "image")
 796     this->GetImage()->GetTransform()->Identity();
 797   else if(actorType == "overlay")
 798     this->GetSlicer(0)->GetOverlay()->GetTransform()->Identity();
 799   else if(actorType == "fusion")
 800     this->GetSlicer(0)->GetFusion()->GetTransform()->Identity();
 801   else if(actorType == "vf")
 802     this->GetVF()->GetTransform()->Identity();
 803   else
 804     return;
 805
 806   for(int i=0; i< this->GetNumberOfSlicers(); i++){
 807     this->GetSlicer(i)->ForceUpdateDisplayExtent();
 808     this->GetSlicer(i)->ResetCamera();
 809     this->GetSlicer(i)->Render();
 810   }
 811 }
 812 //------------------------------------------------------------------------------
 813
 814 //----------------------------------------------------------------------------
 815 void vvSlicerManager::Render()
 816 {
 817   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 818     mSlicers[i]->Render();
 819   }
 820 }
 821 //----------------------------------------------------------------------------
 822
 823
 824 //----------------------------------------------------------------------------
 825 void vvSlicerManager::GenerateDefaultLookupTable()
 826 {
 827   SetPreset(mPreset);
 828   SetColorMap(mColorMap);
 829 }
 830 //----------------------------------------------------------------------------
 831
 832
 833 //----------------------------------------------------------------------------
 834 void vvSlicerManager::Reload()
 835 {
 836   mReader->Update(mType);
 837   mImage=mReader->GetOutput();
 838   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 839     mSlicers[i]->SetImage(mImage);
 840   }
 841 }
 842 //----------------------------------------------------------------------------
 843
 844
 845 //----------------------------------------------------------------------------
 846 void vvSlicerManager::ReloadFusion()
 847 {
 848   mFusionReader->Update();
 849   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 850     mSlicers[i]->SetFusion(mFusionReader->GetOutput());
 851     mSlicers[i]->Render();
 852   }
 853 }
 854 //----------------------------------------------------------------------------
 855
 856
 857 //----------------------------------------------------------------------------
 858 void vvSlicerManager::ReloadOverlay()
 859 {
 860   mOverlayReader->Update();
 861   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 862     mSlicers[i]->SetOverlay(mOverlayReader->GetOutput());
 863     mSlicers[i]->Render();
 864   }
 865 }
 866 //----------------------------------------------------------------------------
 867
 868
 869 //----------------------------------------------------------------------------
 870 void vvSlicerManager::ReloadVF()
 871 {
 872   mVectorReader->Update(vvImageReader::VECTORFIELD); //deletes the old images through the VF::Init() function
 873   mVF=mVectorReader->GetOutput();
 874   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 875     mSlicers[i]->SetVF(mVF);
 876     mSlicers[i]->Render();
 877   }
 878 }
 879 //----------------------------------------------------------------------------
 880
 881
 882 //----------------------------------------------------------------------------
 883 void vvSlicerManager::RemoveActor(const std::string& actor_type, int overlay_index)
 884 {
 885   if (actor_type =="overlay")
 886     mOverlayReader = NULL;
 887
 888   if (actor_type =="fusion")
 889     mFusionReader = NULL;
 890
 891   for (unsigned int i = 0; i < mSlicers.size(); i++)
 892     mSlicers[i]->RemoveActor(actor_type,overlay_index);
 893
 894   if (actor_type=="vector") {
 895     mVF=NULL;
 896     mVectorReader=NULL;
 897   }
 898 }
 899 //----------------------------------------------------------------------------
 900
 901
 902 //----------------------------------------------------------------------------
 903 void vvSlicerManager::RemoveActors()
 904 {
 905   ///This method leaks a few objects. See RemoveActor for what a
 906   ///correct implementation would look like
 907   //DS -> probably due to the reader (now released in the
 908   //RemoveActor() function. (I hope)
 909   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 910     mSlicers[i]->SetDisplayMode(0);
 911     mSlicers[i]->GetRenderer()->RemoveActor(mSlicers[i]->GetImageActor());
 912   }
 913 }
 914 //----------------------------------------------------------------------------
 915
 916
 917 //----------------------------------------------------------------------------
 918 void vvSlicerManager::UpdateInfoOnCursorPosition(int slicer)
 919 {
 920   //  int view = mSlicers[slicer]->GetSliceOrientation();
 921   //  int slice = mSlicers[slicer]->GetSlice();
 922   double x = mSlicers[slicer]->GetCursorPosition()[0];
 923   double y = mSlicers[slicer]->GetCursorPosition()[1];
 924   double z = mSlicers[slicer]->GetCursorPosition()[2];
 925   double X = (x - mSlicers[slicer]->GetInput()->GetOrigin()[0])/
 926     mSlicers[slicer]->GetInput()->GetSpacing()[0];
 927   double Y = (y - mSlicers[slicer]->GetInput()->GetOrigin()[1])/
 928     mSlicers[slicer]->GetInput()->GetSpacing()[1];
 929   double Z = (z - mSlicers[slicer]->GetInput()->GetOrigin()[2])/
 930     mSlicers[slicer]->GetInput()->GetSpacing()[2];
 931   double value = -VTK_DOUBLE_MAX;
 932   int displayVec = 0;
 933   double xVec=0, yVec=0, zVec=0, valueVec=0;
 934   int displayOver = 0;
 935   int displayFus = 0;
 936   double valueOver=0, valueFus=0;
 937   if (X >= mSlicers[slicer]->GetInput()->GetWholeExtent()[0] &&
 938       X <= mSlicers[slicer]->GetInput()->GetWholeExtent()[1] &&
 939       Y >= mSlicers[slicer]->GetInput()->GetWholeExtent()[2] &&
 940       Y <= mSlicers[slicer]->GetInput()->GetWholeExtent()[3] &&
 941       Z >= mSlicers[slicer]->GetInput()->GetWholeExtent()[4] &&
 942       Z <= mSlicers[slicer]->GetInput()->GetWholeExtent()[5]) {
 943     value = this->GetScalarComponentAsDouble(mSlicers[slicer]->GetInput(), X, Y, Z);
 944
 945     if (mSlicers[slicer]->GetVFActor() ) {
 946       displayVec = 1;
 947       unsigned int currentTime = mSlicers[slicer]->GetTSlice();
 948       vtkImageData *vf = NULL;
 949
 950       if (mSlicers[slicer]->GetVF()->GetVTKImages().size() > currentTime)
 951         vf = mSlicers[slicer]->GetVF()->GetVTKImages()[currentTime];
 952       else
 953         vf = mSlicers[slicer]->GetVF()->GetVTKImages()[0];
 954
 955       if (vf) {
 956         double Xvf = (x - vf->GetOrigin()[0])/ vf->GetSpacing()[0];
 957         double Yvf = (y - vf->GetOrigin()[1])/ vf->GetSpacing()[1];
 958         double Zvf = (z - vf->GetOrigin()[2])/ vf->GetSpacing()[2];
 959         xVec = this->GetScalarComponentAsDouble( vf, Xvf, Yvf, Zvf, 0);
 960         yVec = this->GetScalarComponentAsDouble( vf, Xvf, Yvf, Zvf, 1);
 961         zVec = this->GetScalarComponentAsDouble( vf, Xvf, Yvf, Zvf, 2);
 962         valueVec = sqrt(xVec*xVec + yVec*yVec + zVec*zVec);
 963       }
 964     }
 965     if (mSlicers[slicer]->GetOverlayActor() ) {
 966       displayOver = 1;
 967       vtkImageData *overlay = dynamic_cast<vtkImageData*>(mSlicers[slicer]->GetOverlayMapper()->GetInput());
 968       double Xover = (x - overlay->GetOrigin()[0]) / overlay->GetSpacing()[0];
 969       double Yover = (y - overlay->GetOrigin()[1]) / overlay->GetSpacing()[1];
 970       double Zover = (z - overlay->GetOrigin()[2]) / overlay->GetSpacing()[2];
 971       valueOver = this->GetScalarComponentAsDouble(overlay, Xover, Yover, Zover);
 972     }
 973     if (mSlicers[slicer]->GetFusionActor() ) {
 974       displayFus = 1;
 975       vtkImageData *fusion = dynamic_cast<vtkImageData*>(mSlicers[slicer]->GetFusionMapper()->GetInput());
 976       double Xover = (x - fusion->GetOrigin()[0]) / fusion->GetSpacing()[0];
 977       double Yover = (y - fusion->GetOrigin()[1]) / fusion->GetSpacing()[1];
 978       double Zover = (z - fusion->GetOrigin()[2]) / fusion->GetSpacing()[2];
 979       valueFus = this->GetScalarComponentAsDouble(fusion, Xover, Yover, Zover);
 980     }
 981     emit UpdatePosition(mSlicers[slicer]->GetCursorVisibility(),
 982                         x,y,z,X,Y,Z,value);
 983     emit UpdateVector(displayVec,xVec, yVec, zVec, valueVec);
 984     emit UpdateOverlay(displayOver,valueOver,value);
 985     emit UpdateFusion(displayFus,valueFus);
 986   }
 987 }
 988 //----------------------------------------------------------------------------
 989
 990
 991 //----------------------------------------------------------------------------
 992 void vvSlicerManager::Activated()
 993 {
 994   emit currentImageChanged(mId);
 995 }
 996 //----------------------------------------------------------------------------
 997
 998
 999 //----------------------------------------------------------------------------
1000 void vvSlicerManager::Picked()
1001 {
1002   emit currentPickedImageChanged(mId);
1003 }
1004 //----------------------------------------------------------------------------
1005
1006
1007 //----------------------------------------------------------------------------
1008 void vvSlicerManager::UpdateWindowLevel()
1009 {
1010   emit WindowLevelChanged();
1011 }
1012 //----------------------------------------------------------------------------
1013
1014
1015 //----------------------------------------------------------------------------
1016 void vvSlicerManager::UpdateSlice(int slicer)
1017 {
1018   if (mPreviousSlice[slicer] == mSlicers[slicer]->GetSlice()) {
1019     //DD("============= NOTHING");
1020     return;
1021   }
1022   //std::cout << "vvSlicerManager::UpdateSlice " << slicer << " " << mSlicers[slicer]->GetSlice() << std::endl;
1023   emit UpdateSlice(slicer, mSlicers[slicer]->GetSlice());
1024   mSlicers[slicer]->Render(); // DS <-- I add this, this could/must be the only Render ...
1025   mPreviousSlice[slicer] = mSlicers[slicer]->GetSlice();
1026 }
1027 //----------------------------------------------------------------------------
1028
1029
1030 //----------------------------------------------------------------------------
1031 void vvSlicerManager::UpdateTSlice(int slicer)
1032 {
1033   int slice = mSlicers[slicer]->GetSlice();
1034   int tslice = mSlicers[slicer]->GetTSlice();
1035   if (mPreviousSlice[slicer] == slice) {
1036     if (mPreviousTSlice[slicer] == tslice) {
1037       //      DD("************** NOTHING ***********");
1038       return;
1039     }
1040   }
1041   mPreviousSlice[slicer] = slice;
1042   mPreviousTSlice[slicer] = tslice;
1043   //std::cout << "vvSlicerManager::UpdateTSlice " << slicer << " " << tslice << std::endl;
1044   emit UpdateTSlice(slicer, tslice);
1045 }
1046 //----------------------------------------------------------------------------
1047
1048
1049 //----------------------------------------------------------------------------
1050 void vvSlicerManager::UpdateSliceRange(int slicer)
1051 {
1052   emit UpdateSliceRange(slicer,
1053                         mSlicers[slicer]->GetSliceRange()[0], mSlicers[slicer]->GetSliceRange()[1],
1054                         0,mSlicers[slicer]->GetTMax());
1055 }
1056 //----------------------------------------------------------------------------
1057
1058
1059 //----------------------------------------------------------------------------
1060 void vvSlicerManager::SetPreset(int preset)
1061 {
1062   //vtkLookupTable* LUT = static_cast<vtkLookupTable*>(mSlicers[0]->GetWindowLevel()->GetLookupTable());
1063   double window = mSlicers[0]->GetColorWindow();
1064   double level = mSlicers[0]->GetColorLevel();
1065
1066   std::string component_type=mImage->GetScalarTypeAsITKString();
1067   switch (preset) {
1068   case 0:
1069     double range[2];
1070     mImage->GetScalarRange(range);
1071     window = range[1] - range[0];
1072     level = (range[1] + range[0])* 0.5;
1073     break;
1074   case 1:
1075     window = 2000;
1076     level = 0;
1077     break;
1078   case 2:
1079     window = 400;
1080     level = 20;
1081     break;
1082   case 3:
1083     window = 1500;
1084     level = -500;
1085     break;
1086   case 4:
1087     window = 1000;
1088     level = 500;
1089     break;
1090   case 5:
1091     window = 1;
1092     level = 0.5;
1093     break;
1094   case 6:
1095     break;
1096   case 7:
1097     window=1.;
1098     level=0.;
1099     break;
1100   }
1101   mPreset = preset;
1102   this->SetColorWindow(window);
1103   this->SetColorLevel(level);
1104
1105   //if (LUT)
1106   //{
1107   //    SetColorMap(-1);
1108   //}
1109 }
1110 //----------------------------------------------------------------------------
1111
1112
1113 //----------------------------------------------------------------------------
1114 void vvSlicerManager::SetLocalColorWindowing(const int slicer, const bool bCtrlKey)
1115 {
1116   double min, max;
1117   int t = this->mSlicers[slicer]->GetTSlice();
1118   if(bCtrlKey && this->mSlicers[slicer]->GetFusion()) {
1119     this->mSlicers[slicer]->GetExtremasAroundMousePointer(min, max, this->mSlicers[slicer]->GetFusion()->GetVTKImages()[t]);
1120     this->SetFusionWindow(max-min);
1121     this->SetFusionLevel(0.5*(min+max));
1122     this->SetColorMap(mColorMap);
1123   }
1124   else if(bCtrlKey && this->mSlicers[slicer]->GetOverlay()) {
1125     this->mSlicers[slicer]->GetExtremasAroundMousePointer(min, max, this->mSlicers[slicer]->GetOverlay()->GetVTKImages()[t]);
1126     if(this->mSlicers[slicer]->GetLinkOverlayWindowLevel()){
1127       this->SetColorWindow(max-min);
1128       this->SetColorLevel(0.5*(min+max));
1129     } else {
1130       this->SetOverlayColorWindow(max-min);
1131       this->SetOverlayColorLevel(0.5*(min+max));
1132     }
1133   }
1134   else {
1135     this->mSlicers[slicer]->GetExtremasAroundMousePointer(min, max, this->mSlicers[slicer]->GetInput());
1136     this->SetColorWindow(max-min);
1137     this->SetColorLevel(0.5*(min+max));
1138     this->SetPreset(6);
1139   }
1140   this->Render();
1141   this->UpdateWindowLevel();
1142 }
1143 //----------------------------------------------------------------------------
1144
1145
1146 //----------------------------------------------------------------------------
1147 void vvSlicerManager::SetColorMap(int colormap)
1148 {
1149   double range[2];
1150   range[0] = mSlicers[0]->GetInput()->GetScalarRange()[0];
1151   range[1] = mSlicers[0]->GetInput()->GetScalarRange()[1];
1152
1153   double window = mSlicers[0]->GetWindowLevel()->GetWindow();
1154   double level = mSlicers[0]->GetWindowLevel()->GetLevel();
1155
1156   vtkLookupTable* LUT = static_cast<vtkLookupTable*>(mSlicers[0]->GetWindowLevel()->GetLookupTable());
1157   switch (colormap) {
1158   case -1:
1159     break;
1160   case 0:
1161     LUT = NULL;
1162     break;
1163   case 1:
1164     if (LUT == NULL)
1165       LUT = vtkLookupTable::New();
1166     LUT->SetValueRange(0,1);
1167     LUT->SetSaturationRange(1,1);
1168     LUT->SetHueRange(0,0.18);
1169     break;
1170   case 2:
1171     if (LUT == NULL)
1172       LUT = vtkLookupTable::New();
1173     LUT->SetValueRange(0,1);
1174     LUT->SetSaturationRange(1,1);
1175     LUT->SetHueRange(0.4,0.80);
1176     break;
1177   case 3:
1178     if (LUT == NULL)
1179       LUT = vtkLookupTable::New();
1180     LUT->SetValueRange(0.5,1);
1181     LUT->SetSaturationRange(1,1);
1182     LUT->SetHueRange(0.666,0);
1183     break;
1184   case 4:
1185     if (LUT == NULL)
1186       LUT = vtkLookupTable::New();
1187     LUT->SetValueRange(0,1);
1188     LUT->SetSaturationRange(1,1);
1189     LUT->SetHueRange(0,1);
1190     break;
1191   case 5:
1192     if (LUT == NULL)
1193       LUT = vtkLookupTable::New();
1194     LUT->SetValueRange(0.,1);
1195     LUT->SetSaturationRange(1,1);
1196     LUT->SetHueRange(1,0.1);
1197     //LUT->SetRampToLinear();
1198     break;
1199   }
1200   if (LUT) {
1201     LUT->SetTableRange(level-fabs(window)/2,level+fabs(window)/2);
1202     LUT->Build();
1203   }
1204   vtkWindowLevelLookupTable* fusLUT = NULL;
1205   if (mSlicers[0]->GetFusion()) { // && mFusionColorMap >= 0) {
1206     fusLUT = vtkWindowLevelLookupTable::New();
1207     double fusRange [2];
1208     fusRange[0] = mFusionLevel - mFusionWindow/2;
1209     fusRange[1] = mFusionLevel + mFusionWindow/2;
1210     double* frange = mFusionReader->GetOutput()->GetVTKImages()[0]->GetScalarRange();
1211     fusLUT->SetTableRange(frange);
1212     fusLUT->SetValueRange(1,1);
1213     fusLUT->SetSaturationRange(1,1);
1214     fusLUT->SetAlphaRange(1, 1);
1215     fusLUT->SetWindow(mFusionWindow);
1216     fusLUT->SetLevel(mFusionLevel);
1217     if (mFusionColorMap == 1)
1218       fusLUT->SetHueRange(0,0.18);
1219     else if (mFusionColorMap == 2)
1220       fusLUT->SetHueRange(0.4,0.80);
1221     else if (mFusionColorMap == 3)
1222     {
1223       fusLUT->SetHueRange(0.666, 0);
1224       fusLUT->SetValueRange(0.5, 1);
1225     }
1226     else if (mFusionColorMap == 4)
1227       fusLUT->SetHueRange(0,1);
1228     else if (mFusionColorMap <= 0)
1229     {
1230       fusLUT->SetValueRange(0,1);
1231       fusLUT->SetSaturationRange(0,0);
1232     }
1233
1234     fusLUT->ForceBuild();
1235
1236     // set color table transparency
1237     double alpha_range_end = frange[0] + (double)mFusionThresOpacity*(frange[1] - frange[0])/100;
1238     for (double i = frange[0]; i < alpha_range_end; i++) {
1239       double v[4];
1240       vtkIdType index = fusLUT->GetIndex(i);
1241       fusLUT->GetTableValue(index, v);
1242       v[3] = 0;
1243       fusLUT->SetTableValue(index, v);
1244     }
1245   }
1246   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
1247
1248     if (mSlicers[i]->GetOverlay()) {
1249       vtkLookupTable* supLUT = vtkLookupTable::New();
1250       supLUT->SetTableRange(range[0],range[1]);
1251       supLUT->SetValueRange(1,1);
1252       supLUT->SetSaturationRange(1,1);
1253       supLUT->SetHueRange(double(mOverlayColor)/360,double(mOverlayColor)/360);
1254       supLUT->Build();
1255       vtkLookupTable* invLUT = vtkLookupTable::New();
1256       invLUT->SetTableRange(range[0],range[1]);
1257       invLUT->SetValueRange(1,1);
1258       invLUT->SetSaturationRange(1,1);
1259       invLUT->SetHueRange(double((mOverlayColor+180)%360)/360,double((mOverlayColor+180)%360)/360);
1260       invLUT->Build();
1261       dynamic_cast<vvImageMapToWLColors*>(mSlicers[i]->GetWindowLevel())
1262         ->SetWindowLevelMode(true);
1263       mSlicers[i]->GetWindowLevel()->SetLookupTable(supLUT);
1264       mSlicers[i]->GetOverlayMapper()->SetLookupTable(invLUT);
1265       invLUT->Delete();
1266       supLUT->Delete();
1267     } else if (mSlicers[i]->GetOverlay()) {
1268       //dynamic_cast<vvImageMapToWLColors*>(mSlicers[i]->GetWindowLevel())
1269       //->SetWindowLevelMode(false);
1270       mSlicers[i]->GetWindowLevel()->SetLookupTable(LUT);
1271     } else {
1272       mSlicers[i]->GetWindowLevel()->SetLookupTable(LUT);
1273     }
1274
1275     if (mSlicers[i]->GetFusion()) {
1276       mSlicers[i]->GetFusionMapper()->SetLookupTable(fusLUT);
1277       mSlicers[i]->GetFusionActor()->SetOpacity(double(mFusionOpacity)/100);
1278     }
1279   }
1280   if (fusLUT)
1281     fusLUT->Delete();
1282   if (colormap >= 0)
1283     mColorMap = colormap;
1284 }
1285 //----------------------------------------------------------------------------
1286
1287
1288 //----------------------------------------------------------------------------
1289 vvLandmarks* vvSlicerManager::GetLandmarks()
1290 {
1291   if (mLandmarks == NULL) {
1292     mLandmarks = new vvLandmarks(mSlicers[0]->GetTMax()+1);
1293     for (unsigned int i = 0; i < mSlicers.size(); i++)
1294       mSlicers[i]->SetLandmarks(mLandmarks);
1295   }
1296   return mLandmarks;
1297 }
1298 //----------------------------------------------------------------------------
1299
1300
1301 //----------------------------------------------------------------------------
1302 void vvSlicerManager::AddLandmark(float x,float y,float z,float t)
1303 {
1304   double x_index = (x - mSlicers[0]->GetInput()->GetOrigin()[0])/mSlicers[0]->GetInput()->GetSpacing()[0];
1305   double y_index = (y - mSlicers[0]->GetInput()->GetOrigin()[1])/mSlicers[0]->GetInput()->GetSpacing()[1];
1306   double z_index = (z - mSlicers[0]->GetInput()->GetOrigin()[2])/mSlicers[0]->GetInput()->GetSpacing()[2];
1307   if (x_index >= mSlicers[0]->GetInput()->GetWholeExtent()[0] &&
1308       x_index <= mSlicers[0]->GetInput()->GetWholeExtent()[1] &&
1309       y_index >= mSlicers[0]->GetInput()->GetWholeExtent()[2] &&
1310       y_index <= mSlicers[0]->GetInput()->GetWholeExtent()[3] &&
1311       z_index >= mSlicers[0]->GetInput()->GetWholeExtent()[4] &&
1312       z_index <= mSlicers[0]->GetInput()->GetWholeExtent()[5]) {
1313     double value = this->GetScalarComponentAsDouble(mSlicers[0]->GetInput(), x_index, y_index, z_index);
1314     this->GetLandmarks()->AddLandmark(x,y,z,t,value);
1315     emit LandmarkAdded();
1316   }
1317 }
1318 //----------------------------------------------------------------------------
1319
1320 //----------------------------------------------------------------------------
1321 void vvSlicerManager::PrevImage(int slicer)
1322 {
1323   emit ChangeImageWithIndexOffset(this, slicer, -1);
1324 }
1325 //----------------------------------------------------------------------------
1326
1327 //----------------------------------------------------------------------------
1328 void vvSlicerManager::NextImage(int slicer)
1329 {
1330   emit ChangeImageWithIndexOffset(this, slicer,  1);
1331 }
1332 //----------------------------------------------------------------------------
1333
1334 //----------------------------------------------------------------------------
1335 void vvSlicerManager::VerticalSliderHasChanged(int slicer, int slice)
1336 {
1337   emit AVerticalSliderHasChanged(slicer, slice);
1338 }
1339
1340 //----------------------------------------------------------------------------
1341
1342 //----------------------------------------------------------------------------
1343 double vvSlicerManager::GetScalarComponentAsDouble(vtkImageData *image, double X, double Y, double Z, int component)
1344 {
1345   int ix, iy, iz;
1346   return mSlicers[0]->GetScalarComponentAsDouble(image, X, Y, Z, ix, iy, iz, component);
1347 }
1348 //----------------------------------------------------------------------------