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 = 30;
  61   mFusionThresOpacity = 1;
  62   mFusionColorMap = 3;
  63   mFusionWindow = 1000;
  64   mFusionLevel = 1000;
  65   mFusionShowLegend = true;
  66
  67   mLandmarks = NULL;
  68   mLinkedId.resize(0);
  69
  70   for ( int i = 0; i < numberOfSlicers; i++)
  71     mSlicers.push_back(vtkSmartPointer<vvSlicer>::New());
  72
  73   mPreviousSlice.resize(numberOfSlicers);
  74   mPreviousTSlice.resize(numberOfSlicers);
  75 }
  76 //----------------------------------------------------------------------------
  77
  78
  79 //----------------------------------------------------------------------------
  80 vvSlicerManager::~vvSlicerManager()
  81 {
  82   if (mLandmarks)
  83     delete mLandmarks;
  84 }
  85 //----------------------------------------------------------------------------
  86
  87
  88 //------------------------------------------------------------------------------
  89 void vvSlicerManager::SetFilename(std::string filename, int number)
  90 {
  91   mFileName = filename;
  92   mFileName = vtksys::SystemTools::GetFilenameName(mFileName);
  93   mBaseFileName = vtksys::SystemTools::GetFilenameName(vtksys::SystemTools::GetFilenameWithoutLastExtension(mFileName));
  94   mBaseFileNameNumber = number;
  95
  96   mFileName = mBaseFileName;
  97   if (number != 0) {
  98     mFileName.append("_"+clitk::toString(number));
  99   }
 100   mFileName.append(vtksys::SystemTools::GetFilenameLastExtension(filename));
 101
 102   for(unsigned int i=0; i<mSlicers.size(); i++) {
 103     mSlicers[i]->SetFileName(mFileName);//vtksys::SystemTools::GetFilenameWithoutLastExtension(filename));
 104   }
 105
 106 }
 107 //------------------------------------------------------------------------------
 108
 109
 110 //----------------------------------------------------------------------------
 111 void vvSlicerManager::AddContour(vvMesh::Pointer contour,bool propagate)
 112 {
 113   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 114     mSlicers[i]->AddContour(contour,propagate);
 115   }
 116 }
 117 //----------------------------------------------------------------------------
 118
 119
 120 //----------------------------------------------------------------------------
 121 void vvSlicerManager::ToggleContourSuperposition()
 122 {
 123   for ( unsigned int i = 0; i < mSlicers.size(); i++)
 124     mSlicers[i]->ToggleContourSuperposition();
 125 }
 126 //----------------------------------------------------------------------------
 127
 128 //----------------------------------------------------------------------------
 129 std::string vvSlicerManager::GetListOfAbsoluteFilePathInOneString(const std::string &actorType)
 130 {
 131   vvImageReader *reader = NULL;
 132
 133   if(actorType=="image")
 134     reader = mReader;
 135   else if(actorType=="overlay")
 136     reader = mOverlayReader;
 137   else if(actorType=="fusion")
 138     reader = mFusionReader;
 139   else if(actorType=="vector")
 140     reader = mVectorReader;
 141
 142   if(!reader)
 143     return "";
 144
 145   std::string list;
 146   for(unsigned int i=0; i<reader->GetInputFilenames().size(); i++){
 147     QFileInfo fileinfo(reader->GetInputFilenames()[i].c_str()); //Do not show the path
 148     if(i)
 149       list += '\n';
 150     list += fileinfo.absoluteFilePath().toStdString();
 151   }
 152   return list;
 153 }
 154 //----------------------------------------------------------------------------
 155
 156
 157 //----------------------------------------------------------------------------
 158 bool vvSlicerManager::SetImage(std::string filename, vvImageReader::LoadedImageType type, int n, unsigned int slice)
 159 {
 160   mType = type;
 161   if (mReader.IsNull())
 162     mReader = vvImageReader::New();
 163   std::vector<std::string> filenames;
 164   filenames.push_back(filename);
 165   mReader->SetInputFilenames(filenames);
 166   mReader->SetSlice(slice); // Only used for SLICED type
 167   mReader->Update(type);
 168
 169   SetFilename(filename, n);
 170   //  mFileName = vtksys::SystemTools::GetFilenameName(mFileName);
 171   //mBaseFileName = vtksys::SystemTools::GetFilenameName(vtksys::SystemTools::GetFilenameWithoutLastExtension(mFileName));
 172   //mBaseFileNameNumber = n;
 173
 174   if (mReader->GetLastError().size() == 0) {
 175     mImage=mReader->GetOutput();
 176     for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 177       mSlicers[i]->SetFileName(vtksys::SystemTools::GetFilenameWithoutLastExtension(filename));
 178       mSlicers[i]->SetImage(mReader->GetOutput());
 179     }
 180   } else {
 181     mLastError = mReader->GetLastError();
 182     return false;
 183   }
 184   // if (n!=0) {
 185   //   mFileName.append("_"+clitk::toString(n));
 186   // }
 187   return true;
 188 }
 189 //----------------------------------------------------------------------------
 190
 191
 192 //----------------------------------------------------------------------------
 193 void vvSlicerManager::SetImage(vvImage::Pointer image)
 194 {
 195   mImage=image;
 196   for (unsigned int i = 0; i < mSlicers.size(); i++) {
 197     mSlicers[i]->SetImage(image);
 198   }
 199 }
 200 //----------------------------------------------------------------------------
 201
 202
 203 //----------------------------------------------------------------------------
 204 bool vvSlicerManager::SetImages(std::vector<std::string> filenames, vvImageReader::LoadedImageType type, int n)
 205 {
 206   mType = type;
 207   std::string fileWithoutExtension = vtksys::SystemTools::GetFilenameWithoutExtension(filenames[0]);
 208   if (type == vvImageReader::DICOM)
 209     fileWithoutExtension += "_dicom";
 210   else if (type == vvImageReader::MERGED)
 211     fileWithoutExtension += "_merged";
 212   else if (type == vvImageReader::MERGEDWITHTIME)
 213     fileWithoutExtension += "_merged_wt";
 214
 215   mFileName = vtksys::SystemTools::GetFilenameName(mFileName);
 216   mFileName = fileWithoutExtension + vtksys::SystemTools::GetFilenameExtension(filenames[0]);
 217   if (mReader.IsNull())
 218     mReader = vvImageReader::New();
 219   mReader->SetInputFilenames(filenames);
 220   mReader->Update(type);
 221
 222   mBaseFileName = vtksys::SystemTools::GetFilenameName(vtksys::SystemTools::GetFilenameWithoutLastExtension(mFileName));
 223   mBaseFileNameNumber = n;
 224
 225   if (mReader->GetLastError().size() == 0) {
 226     mImage=mReader->GetOutput();
 227     for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 228       mSlicers[i]->SetFileName(fileWithoutExtension);
 229       mSlicers[i]->SetImage(mReader->GetOutput());
 230     }
 231   } else {
 232     mLastError = mReader->GetLastError();
 233     return false;
 234   }
 235   if (n!=0) {
 236     mFileName.append("_"+clitk::toString(n));
 237   }
 238   return true;
 239 }
 240 //----------------------------------------------------------------------------
 241
 242
 243 //----------------------------------------------------------------------------
 244 bool vvSlicerManager::SetOverlay(std::string filename,int dim, std::string component)
 245 {
 246   mOverlayName = filename;
 247   mOverlayComponent = component;
 248   if (dim > mImage->GetNumberOfDimensions()) {
 249     mLastError = " Overlay dimension cannot be greater then reference image!";
 250     return false;
 251   }
 252   if (mOverlayReader.IsNull())
 253     mOverlayReader = vvImageReader::New();
 254   std::vector<std::string> filenames;
 255   filenames.push_back(filename);
 256   mOverlayReader->SetInputFilenames(filenames);
 257   mOverlayReader->Update(mImage->GetNumberOfDimensions(),component.c_str(),mType);
 258   if (mOverlayReader->GetLastError().size() == 0) {
 259     for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 260       mSlicers[i]->SetOverlay(mOverlayReader->GetOutput());
 261     }
 262   } else {
 263     mLastError = mOverlayReader->GetLastError();
 264     return false;
 265   }
 266   return true;
 267 }
 268 //----------------------------------------------------------------------------
 269
 270
 271 //----------------------------------------------------------------------------
 272 bool vvSlicerManager::SetFusion(std::string filename,int dim, std::string component)
 273 {
 274   mFusionName = filename;
 275   mFusionComponent = component;
 276   if (dim > mImage->GetNumberOfDimensions()) {
 277     mLastError = " Overlay dimension cannot be greater then reference image!";
 278     return false;
 279   }
 280   if (mFusionReader.IsNull())
 281     mFusionReader = vvImageReader::New();
 282   std::vector<std::string> filenames;
 283   filenames.push_back(filename);
 284   mFusionReader->SetInputFilenames(filenames);
 285   mFusionReader->Update(mImage->GetNumberOfDimensions(),component.c_str(),mType);
 286   if (mFusionReader->GetLastError().size() == 0) {
 287     for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 288       mSlicers[i]->SetFusion(mFusionReader->GetOutput());
 289     }
 290   } else {
 291     mLastError = mFusionReader->GetLastError();
 292     return false;
 293   }
 294   double *fusRange = mFusionReader->GetOutput()->GetVTKImages()[0]->GetScalarRange();
 295   mFusionLevel = (fusRange[0]+fusRange[1])/2;
 296   mFusionWindow = fusRange[1]-fusRange[0];
 297
 298   return true;
 299 }
 300 //----------------------------------------------------------------------------
 301
 302
 303 //----------------------------------------------------------------------------
 304 bool vvSlicerManager::SetVF(std::string filename)
 305 {
 306   if (mVectorReader.IsNull())
 307     mVectorReader = vvImageReader::New();
 308   mVectorReader->SetInputFilename(filename);
 309
 310   if (mType == vvImageReader::IMAGEWITHTIME)
 311     mVectorReader->Update(vvImageReader::VECTORFIELDWITHTIME);
 312   else
 313     mVectorReader->Update(vvImageReader::VECTORFIELD);
 314   if (mVectorReader->GetLastError().size() != 0) {
 315     mLastError = mVectorReader->GetLastError();
 316     return false;
 317   } else
 318     return SetVF(mVectorReader->GetOutput(),filename);
 319 }
 320 //----------------------------------------------------------------------------
 321
 322
 323 //----------------------------------------------------------------------------
 324 bool vvSlicerManager::SetVF(vvImage::Pointer vf,std::string filename)
 325 {
 326   if (vf->GetNumberOfDimensions() > mImage->GetNumberOfDimensions()) {
 327     mLastError = "Sorry, vector field dimension cannot be greater then reference image.";
 328     return false;
 329   }
 330   if (vf->GetNumberOfDimensions() == 4) {
 331     if (vf->GetSpacing()[3] != mImage->GetSpacing()[3]) {
 332       mLastError = "Sorry, vector field time spacing cannot be different from time spacing of the reference image.";
 333       return false;
 334     }
 335     if (vf->GetOrigin()[3] != mImage->GetOrigin()[3]) {
 336       mLastError = "Sorry, vector field time origin cannot be different from time origin of the reference image.";
 337       return false;
 338     }
 339   }
 340   mVF=vf;
 341   mVFName = filename;
 342   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 343     mSlicers[i]->SetVF(vf);
 344   }
 345   return true;
 346 }
 347 //----------------------------------------------------------------------------
 348
 349
 350 //----------------------------------------------------------------------------
 351 vvSlicer* vvSlicerManager::GetSlicer(int i)
 352 {
 353   return mSlicers[i];
 354 }
 355 //----------------------------------------------------------------------------
 356
 357
 358 //----------------------------------------------------------------------------
 359 void vvSlicerManager::UpdateSlicer(int num, bool state)
 360 {
 361   if (mSlicers[num]->GetImage())
 362     mSlicers[num]->SetDisplayMode(state);
 363 }
 364 //----------------------------------------------------------------------------
 365
 366
 367 //----------------------------------------------------------------------------
 368 void vvSlicerManager::SetSlicerWindow(int i, vtkRenderWindow* RW)
 369 {
 370   mSlicers[i]->SetRenderWindow(i,RW);
 371 }
 372 //----------------------------------------------------------------------------
 373
 374
 375 //----------------------------------------------------------------------------
 376 void vvSlicerManager::SetInteractorStyleNavigator(int i, vtkInteractorStyle* style)
 377 {
 378   vvSlicerManagerCommand *smc = vvSlicerManagerCommand::New();
 379   smc->SM = this;
 380   smc->SetSlicerNumber(i);
 381   mSlicers[i]->GetRenderWindow()->GetInteractor()->SetInteractorStyle(style);
 382
 383   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 384     GetInteractorStyle()->AddObserver(vtkCommand::KeyPressEvent, smc);
 385   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 386     GetInteractorStyle()->AddObserver(vtkCommand::WindowLevelEvent, smc);
 387   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 388     GetInteractorStyle()->AddObserver(vtkCommand::EndWindowLevelEvent, smc);
 389   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 390     GetInteractorStyle()->AddObserver(vtkCommand::StartWindowLevelEvent, smc);
 391   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 392     GetInteractorStyle()->AddObserver(vtkCommand::PickEvent, smc);
 393   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 394     GetInteractorStyle()->AddObserver(vtkCommand::StartPickEvent, smc);
 395   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 396     GetInteractorStyle()->AddObserver(vtkCommand::LeaveEvent, smc);
 397   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 398     GetInteractorStyle()->AddObserver(vtkCommand::UserEvent, smc);
 399   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 400     GetInteractorStyle()->AddObserver(vtkCommand::MouseWheelForwardEvent, smc);
 401   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 402     GetInteractorStyle()->AddObserver(vtkCommand::MouseWheelBackwardEvent, smc);
 403   // mSlicers[i]->GetRenderWindow()->GetInteractor()->
 404   //   GetInteractorStyle()->AddObserver(vtkCommand::LeftButtonReleaseEvent, smc);
 405   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 406     GetInteractorStyle()->AddObserver(vtkCommand::EndPickEvent, smc);
 407   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 408     GetInteractorStyle()->AddObserver(vtkCommand::EndInteractionEvent, smc);
 409   smc->Delete();
 410 }
 411 //----------------------------------------------------------------------------
 412
 413
 414 //----------------------------------------------------------------------------
 415 void vvSlicerManager::LeftButtonReleaseEvent(int slicer)
 416 {
 417   emit LeftButtonReleaseSignal(slicer);
 418 }
 419 //----------------------------------------------------------------------------
 420
 421 //----------------------------------------------------------------------------
 422 void vvSlicerManager::SetSliceOrientation(int slicer, int orientation)
 423 {
 424   mSlicers[slicer]->SetSliceOrientation(orientation);
 425   emit UpdateOrientation(slicer, orientation);
 426 }
 427 //----------------------------------------------------------------------------
 428
 429 //----------------------------------------------------------------------------
 430 void vvSlicerManager::SetTSlice(int slice)
 431 {
 432   if (slice < 0)
 433     slice = 0;
 434   else if (slice > mSlicers[0]->GetTMax())
 435     slice = mSlicers[0]->GetTMax();
 436   if (mLandmarks)
 437     mLandmarks->SetTime(slice);
 438   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 439     if (slice != mSlicers[i]->GetTSlice()) {
 440       mSlicers[i]->SetTSlice(slice);
 441         UpdateTSlice(i);
 442     }
 443   }
 444 }
 445 //----------------------------------------------------------------------------
 446
 447
 448 //----------------------------------------------------------------------------
 449 void vvSlicerManager::SetNextTSlice(int originating_slicer)
 450 {
 451   int t = mSlicers[0]->GetTSlice();
 452   t++;
 453   if (t > mSlicers[0]->GetTMax())
 454     t = 0;
 455   //std::cout << "vvSlicerManager::SetNextTSlice" << std::endl;
 456   emit UpdateTSlice(originating_slicer,t);
 457 }
 458 //----------------------------------------------------------------------------
 459
 460
 461 //----------------------------------------------------------------------------
 462 void vvSlicerManager::SetPreviousTSlice(int originating_slicer)
 463 {
 464   int t = mSlicers[0]->GetTSlice();
 465   t--;
 466   if (t < 0)
 467     t = mSlicers[0]->GetTMax();
 468   //std::cout << "vvSlicerManager::SetPreviousTSlice" << std::endl;
 469   emit UpdateTSlice(originating_slicer,t);
 470 }
 471 //----------------------------------------------------------------------------
 472
 473
 474 //----------------------------------------------------------------------------
 475 void vvSlicerManager::ToggleInterpolation()
 476 {
 477   bool interpolate=!(mSlicers[0]->GetImageActor()->GetInterpolate());
 478   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 479     mSlicers[i]->GetImageActor()->SetInterpolate(interpolate);
 480     if (mSlicers[i]->GetOverlayActor())
 481       mSlicers[i]->GetOverlayActor()->SetInterpolate(interpolate);
 482     if (mSlicers[i]->GetFusionActor())
 483       mSlicers[i]->GetFusionActor()->SetInterpolate(interpolate);
 484   }
 485 }
 486 //----------------------------------------------------------------------------
 487
 488
 489 //----------------------------------------------------------------------------
 490 void vvSlicerManager::SetTSliceInSlicer(int tslice, int slicer)
 491 {
 492   if (tslice < 0)
 493     tslice = 0;
 494   else if (tslice > mSlicers[slicer]->GetTMax())
 495     tslice = mSlicers[slicer]->GetTMax();
 496   if (mLandmarks)
 497     mLandmarks->SetTime(tslice);
 498
 499   if (mSlicers[slicer]->GetTSlice() == tslice) return;
 500
 501   mSlicers[slicer]->SetTSlice(tslice);
 502   UpdateTSlice(slicer);
 503 }
 504 //----------------------------------------------------------------------------
 505
 506
 507 //----------------------------------------------------------------------------
 508 void vvSlicerManager::SetColorWindow(double s)
 509 {
 510   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 511     mSlicers[i]->SetColorWindow(s);
 512   }
 513 }
 514 //----------------------------------------------------------------------------
 515
 516 //----------------------------------------------------------------------------
 517 void vvSlicerManager::SetColorLevel(double s)
 518 {
 519   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 520     mSlicers[i]->SetColorLevel(s);
 521   }
 522 }
 523 //----------------------------------------------------------------------------
 524
 525 //----------------------------------------------------------------------------
 526 void vvSlicerManager::SetOverlayColorWindow(double s)
 527 {
 528   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 529     mSlicers[i]->SetOverlayColorWindow(s);
 530   }
 531 }
 532 //----------------------------------------------------------------------------
 533
 534 //----------------------------------------------------------------------------
 535 void vvSlicerManager::SetOverlayColorLevel(double s)
 536 {
 537   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 538     mSlicers[i]->SetOverlayColorLevel(s);
 539   }
 540 }
 541 //----------------------------------------------------------------------------
 542
 543 //----------------------------------------------------------------------------
 544 void vvSlicerManager::SetLinkOverlayWindowLevel(bool b)
 545 {
 546   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 547     mSlicers[i]->SetLinkOverlayWindowLevel(b);
 548   }
 549 }
 550 //----------------------------------------------------------------------------
 551
 552 //----------------------------------------------------------------------------
 553 void vvSlicerManager::SetCursorAndCornerAnnotationVisibility(int s)
 554 {
 555   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 556     mSlicers[i]->SetCursorVisibility(s);
 557     mSlicers[i]->SetCornerAnnotationVisibility(s);
 558   }
 559 }
 560 //----------------------------------------------------------------------------
 561
 562 //----------------------------------------------------------------------------
 563 void vvSlicerManager::SetOpacity(int i, double factor)
 564 {
 565   mSlicers[i]->SetOpacity(1/factor);
 566 }
 567 //----------------------------------------------------------------------------
 568
 569
 570 //----------------------------------------------------------------------------
 571 void vvSlicerManager::UpdateViews(int current,int slicer)
 572 {
 573   double x = (mSlicers[slicer]->GetCurrentPosition()[0] - mSlicers[slicer]->GetInput()->GetOrigin()[0])
 574     /mSlicers[slicer]->GetInput()->GetSpacing()[0];
 575   double y = (mSlicers[slicer]->GetCurrentPosition()[1] - mSlicers[slicer]->GetInput()->GetOrigin()[1])
 576     /mSlicers[slicer]->GetInput()->GetSpacing()[1];
 577   double z = (mSlicers[slicer]->GetCurrentPosition()[2] - mSlicers[slicer]->GetInput()->GetOrigin()[2])
 578     /mSlicers[slicer]->GetInput()->GetSpacing()[2];
 579
 580   if (x >= mSlicers[slicer]->GetInput()->GetWholeExtent()[0] &&
 581       x <= mSlicers[slicer]->GetInput()->GetWholeExtent()[1] &&
 582       y >= mSlicers[slicer]->GetInput()->GetWholeExtent()[2] &&
 583       y <= mSlicers[slicer]->GetInput()->GetWholeExtent()[3] &&
 584       z >= mSlicers[slicer]->GetInput()->GetWholeExtent()[4] &&
 585       z <= mSlicers[slicer]->GetInput()->GetWholeExtent()[5]) {
 586     mSlicers[slicer]->UpdateCursorPosition();
 587     mSlicers[slicer]->SetCursorColor(10,212,255);
 588
 589     switch (mSlicers[slicer]->GetSliceOrientation()) {
 590     case vtkImageViewer2::SLICE_ORIENTATION_XY:
 591       if (mSlicers[slicer]->GetSlice() != (int)floor(z))
 592         mSlicers[slicer]->SetSlice((int)floor(z));
 593       break;
 594
 595     case vtkImageViewer2::SLICE_ORIENTATION_XZ:
 596       if (mSlicers[slicer]->GetSlice() != (int)floor(y))
 597         mSlicers[slicer]->SetSlice((int)floor(y));
 598       break;
 599
 600     case vtkImageViewer2::SLICE_ORIENTATION_YZ:
 601       if (mSlicers[slicer]->GetSlice() != (int)floor(x))
 602         mSlicers[slicer]->SetSlice((int)floor(x));
 603       break;
 604     }
 605     mSlicers[slicer]->Render();
 606
 607     for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 608       if (i != (unsigned int)slicer
 609           && mSlicers[i]->GetRenderer()->GetDraw()
 610           && mSlicers[i]->GetRenderWindow()->GetSize()[0] > 2
 611           && mSlicers[i]->GetRenderWindow()->GetSize()[1] > 2) {
 612         mSlicers[i]->SetCurrentPosition(mSlicers[slicer]->GetCurrentPosition()[0],
 613                                         mSlicers[slicer]->GetCurrentPosition()[1],
 614                                         mSlicers[slicer]->GetCurrentPosition()[2],
 615                                         mSlicers[slicer]->GetTSlice());
 616         mSlicers[i]->UpdateCursorPosition();
 617         if (current) { //do not display corner annotation if image is the one picked
 618           mSlicers[i]->SetCurrentPosition(-VTK_DOUBLE_MAX,-VTK_DOUBLE_MAX,
 619                                           -VTK_DOUBLE_MAX, mSlicers[slicer]->GetTSlice());
 620           mSlicers[i]->SetCursorColor(255,10,212);
 621         } else {
 622           mSlicers[i]->SetCursorColor(150,10,282);
 623         }
 624         switch (mSlicers[i]->GetSliceOrientation()) {
 625         case vtkImageViewer2::SLICE_ORIENTATION_XY:
 626           if (mSlicers[i]->GetSlice() != (int)floor(z))
 627             mSlicers[i]->SetSlice((int)floor(z));
 628           break;
 629
 630         case vtkImageViewer2::SLICE_ORIENTATION_XZ:
 631           if (mSlicers[i]->GetSlice() != (int)floor(y))
 632             mSlicers[i]->SetSlice((int)floor(y));
 633           break;
 634
 635         case vtkImageViewer2::SLICE_ORIENTATION_YZ:
 636           if (mSlicers[i]->GetSlice() != (int)floor(x))
 637             mSlicers[i]->SetSlice((int)floor(x));
 638           break;
 639         }
 640
 641         mSlicers[i]->Render();
 642
 643         UpdateSlice(i);
 644         UpdateTSlice(i);
 645       }
 646     }
 647   }
 648 }
 649 //----------------------------------------------------------------------------
 650
 651
 652 //----------------------------------------------------------------------------
 653 void vvSlicerManager::UpdateLinked(int slicer)
 654 {
 655   double x = (mSlicers[slicer]->GetCurrentPosition()[0] - mSlicers[slicer]->GetInput()->GetOrigin()[0])
 656     /mSlicers[slicer]->GetInput()->GetSpacing()[0];
 657   double y = (mSlicers[slicer]->GetCurrentPosition()[1] - mSlicers[slicer]->GetInput()->GetOrigin()[1])
 658     /mSlicers[slicer]->GetInput()->GetSpacing()[1];
 659   double z = (mSlicers[slicer]->GetCurrentPosition()[2] - mSlicers[slicer]->GetInput()->GetOrigin()[2])
 660     /mSlicers[slicer]->GetInput()->GetSpacing()[2];
 661
 662   if (x >= mSlicers[slicer]->GetInput()->GetWholeExtent()[0] &&
 663       x <= mSlicers[slicer]->GetInput()->GetWholeExtent()[1] &&
 664       y >= mSlicers[slicer]->GetInput()->GetWholeExtent()[2] &&
 665       y <= mSlicers[slicer]->GetInput()->GetWholeExtent()[3] &&
 666       z >= mSlicers[slicer]->GetInput()->GetWholeExtent()[4] &&
 667       z <= mSlicers[slicer]->GetInput()->GetWholeExtent()[5]) {
 668     for (std::list<std::string>::const_iterator i = mLinkedId.begin(); i != mLinkedId.end(); i++) {
 669       emit UpdateLinkManager(*i, slicer,mSlicers[slicer]->GetCurrentPosition()[0],
 670                              mSlicers[slicer]->GetCurrentPosition()[1],
 671                              mSlicers[slicer]->GetCurrentPosition()[2],mSlicers[slicer]->GetTSlice());
 672     }
 673   }
 674 }
 675 //----------------------------------------------------------------------------
 676
 677 //----------------------------------------------------------------------------
 678 void vvSlicerManager::UpdateLinkedNavigation(vvSlicer *refSlicer, bool bPropagate)
 679 {
 680   vtkCamera *refCam = refSlicer->GetRenderer()->GetActiveCamera();
 681   double refPosition[3], refFocal[3];
 682   refCam->GetPosition(refPosition);
 683   refCam->GetFocalPoint(refFocal);
 684
 685   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 686     vtkCamera *camera = mSlicers[i]->GetRenderer()->GetActiveCamera();
 687     camera->SetParallelScale(refCam->GetParallelScale());
 688
 689     double position[3], focal[3];
 690     camera->GetPosition(position);
 691     camera->GetFocalPoint(focal);
 692
 693     if(refSlicer->GetSliceOrientation()==mSlicers[i]->GetSliceOrientation()) {
 694       for(int i=0; i<3; i++) {
 695         position[i] = refPosition[i];
 696         focal[i]    = refFocal[i];
 697       }
 698     }
 699
 700     if(refSlicer->GetSliceOrientation()==vtkImageViewer2::SLICE_ORIENTATION_XY) {
 701       if(mSlicers[i]->GetSliceOrientation()==vtkImageViewer2::SLICE_ORIENTATION_XZ) {
 702         position[0] = refPosition[0];
 703         focal[0]    = refFocal[0];
 704       }
 705       if(mSlicers[i]->GetSliceOrientation()==vtkImageViewer2::SLICE_ORIENTATION_YZ) {
 706         position[1] = refPosition[1];
 707         focal[1]    = refFocal[1];
 708       }
 709     }
 710
 711     if(refSlicer->GetSliceOrientation()==vtkImageViewer2::SLICE_ORIENTATION_XZ) {
 712       if(mSlicers[i]->GetSliceOrientation()==vtkImageViewer2::SLICE_ORIENTATION_YZ) {
 713         position[2] = refPosition[2];
 714         focal[2]    = refFocal[2];
 715       }
 716       if(mSlicers[i]->GetSliceOrientation()==vtkImageViewer2::SLICE_ORIENTATION_XY) {
 717         position[0] = refPosition[0];
 718         focal[0]    = refFocal[0];
 719       }
 720     }
 721
 722     if(refSlicer->GetSliceOrientation()==vtkImageViewer2::SLICE_ORIENTATION_YZ) {
 723       if(mSlicers[i]->GetSliceOrientation()==vtkImageViewer2::SLICE_ORIENTATION_XY) {
 724         position[1] = refPosition[1];
 725         focal[1]    = refFocal[1];
 726       }
 727       if(mSlicers[i]->GetSliceOrientation()==vtkImageViewer2::SLICE_ORIENTATION_XZ) {
 728         position[2] = refPosition[2];
 729         focal[2]    = refFocal[2];
 730       }
 731     }
 732
 733     camera->SetFocalPoint(focal);
 734     camera->SetPosition(position);
 735
 736     //Fix for bug #243
 737     mSlicers[i]->ForceUpdateDisplayExtent();
 738   }
 739
 740   Render();
 741   if(bPropagate)
 742     for (std::list<std::string>::const_iterator i = mLinkedId.begin(); i != mLinkedId.end(); i++)
 743       emit UpdateLinkedNavigation(*i, this, refSlicer);
 744 }
 745 //----------------------------------------------------------------------------
 746
 747 //----------------------------------------------------------------------------
 748 double vvSlicerManager::GetColorWindow()
 749 {
 750   if (mSlicers.size())
 751     return mSlicers[0]->GetColorWindow();
 752   return -1;
 753 }
 754 //----------------------------------------------------------------------------
 755
 756
 757 //----------------------------------------------------------------------------
 758 double vvSlicerManager::GetColorLevel()
 759 {
 760   if (mSlicers.size())
 761     return mSlicers[0]->GetColorLevel();
 762   return -1;
 763 }
 764 //----------------------------------------------------------------------------
 765
 766 //----------------------------------------------------------------------------
 767 double vvSlicerManager::GetOverlayColorWindow() const
 768 {
 769   if (mSlicers.size())
 770     return mSlicers[0]->GetOverlayColorWindow();
 771   return -1;
 772 }
 773 //----------------------------------------------------------------------------
 774
 775 //----------------------------------------------------------------------------
 776 double vvSlicerManager::GetOverlayColorLevel() const
 777 {
 778   if (mSlicers.size())
 779     return mSlicers[0]->GetOverlayColorLevel();
 780   return -1;
 781 }
 782 //----------------------------------------------------------------------------
 783
 784 //----------------------------------------------------------------------------
 785 bool vvSlicerManager::GetLinkOverlayWindowLevel() const
 786 {
 787   if (mSlicers.size())
 788     return mSlicers[0]->GetLinkOverlayWindowLevel();
 789   return -1;
 790 }
 791 //----------------------------------------------------------------------------
 792
 793 //------------------------------------------------------------------------------
 794 void vvSlicerManager::ResetTransformationToIdentity(const std::string actorType)
 795 {
 796   if(actorType == "image")
 797     this->GetImage()->GetTransform()->Identity();
 798   else if(actorType == "overlay")
 799     this->GetSlicer(0)->GetOverlay()->GetTransform()->Identity();
 800   else if(actorType == "fusion")
 801     this->GetSlicer(0)->GetFusion()->GetTransform()->Identity();
 802   else if(actorType == "vf")
 803     this->GetVF()->GetTransform()->Identity();
 804   else
 805     return;
 806
 807   for(int i=0; i< this->GetNumberOfSlicers(); i++){
 808     this->GetSlicer(i)->ForceUpdateDisplayExtent();
 809     this->GetSlicer(i)->ResetCamera();
 810     this->GetSlicer(i)->Render();
 811   }
 812 }
 813 //------------------------------------------------------------------------------
 814
 815 //----------------------------------------------------------------------------
 816 void vvSlicerManager::Render()
 817 {
 818   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 819     mSlicers[i]->Render();
 820   }
 821 }
 822 //----------------------------------------------------------------------------
 823
 824
 825 //----------------------------------------------------------------------------
 826 void vvSlicerManager::GenerateDefaultLookupTable()
 827 {
 828   SetPreset(mPreset);
 829   SetColorMap(mColorMap);
 830 }
 831 //----------------------------------------------------------------------------
 832
 833
 834 //----------------------------------------------------------------------------
 835 void vvSlicerManager::Reload()
 836 {
 837   mReader->Update(mType);
 838   mImage=mReader->GetOutput();
 839   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 840     mSlicers[i]->SetImage(mImage);
 841   }
 842 }
 843 //----------------------------------------------------------------------------
 844
 845
 846 //----------------------------------------------------------------------------
 847 void vvSlicerManager::ReloadFusion()
 848 {
 849   mFusionReader->Update();
 850   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 851     mSlicers[i]->SetFusion(mFusionReader->GetOutput());
 852     mSlicers[i]->Render();
 853   }
 854 }
 855 //----------------------------------------------------------------------------
 856
 857
 858 //----------------------------------------------------------------------------
 859 void vvSlicerManager::ReloadOverlay()
 860 {
 861   mOverlayReader->Update();
 862   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 863     mSlicers[i]->SetOverlay(mOverlayReader->GetOutput());
 864     mSlicers[i]->Render();
 865   }
 866 }
 867 //----------------------------------------------------------------------------
 868
 869
 870 //----------------------------------------------------------------------------
 871 void vvSlicerManager::ReloadVF()
 872 {
 873   mVectorReader->Update(vvImageReader::VECTORFIELD); //deletes the old images through the VF::Init() function
 874   mVF=mVectorReader->GetOutput();
 875   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 876     mSlicers[i]->SetVF(mVF);
 877     mSlicers[i]->Render();
 878   }
 879 }
 880 //----------------------------------------------------------------------------
 881
 882
 883 //----------------------------------------------------------------------------
 884 void vvSlicerManager::RemoveActor(const std::string& actor_type, int overlay_index)
 885 {
 886   if (actor_type =="overlay")
 887     mOverlayReader = NULL;
 888
 889   if (actor_type =="fusion")
 890     mFusionReader = NULL;
 891
 892   for (unsigned int i = 0; i < mSlicers.size(); i++)
 893     mSlicers[i]->RemoveActor(actor_type,overlay_index);
 894
 895   if (actor_type=="vector") {
 896     mVF=NULL;
 897     mVectorReader=NULL;
 898   }
 899 }
 900 //----------------------------------------------------------------------------
 901
 902
 903 //----------------------------------------------------------------------------
 904 void vvSlicerManager::RemoveActors()
 905 {
 906   ///This method leaks a few objects. See RemoveActor for what a
 907   ///correct implementation would look like
 908   //DS -> probably due to the reader (now released in the
 909   //RemoveActor() function. (I hope)
 910   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 911     mSlicers[i]->SetDisplayMode(0);
 912     mSlicers[i]->GetRenderer()->RemoveActor(mSlicers[i]->GetImageActor());
 913   }
 914 }
 915 //----------------------------------------------------------------------------
 916
 917
 918 //----------------------------------------------------------------------------
 919 void vvSlicerManager::UpdateInfoOnCursorPosition(int slicer)
 920 {
 921   //  int view = mSlicers[slicer]->GetSliceOrientation();
 922   //  int slice = mSlicers[slicer]->GetSlice();
 923   double x = mSlicers[slicer]->GetCursorPosition()[0];
 924   double y = mSlicers[slicer]->GetCursorPosition()[1];
 925   double z = mSlicers[slicer]->GetCursorPosition()[2];
 926   double X = (x - mSlicers[slicer]->GetInput()->GetOrigin()[0])/
 927     mSlicers[slicer]->GetInput()->GetSpacing()[0];
 928   double Y = (y - mSlicers[slicer]->GetInput()->GetOrigin()[1])/
 929     mSlicers[slicer]->GetInput()->GetSpacing()[1];
 930   double Z = (z - mSlicers[slicer]->GetInput()->GetOrigin()[2])/
 931     mSlicers[slicer]->GetInput()->GetSpacing()[2];
 932   double value = -VTK_DOUBLE_MAX;
 933   int displayVec = 0;
 934   double xVec=0, yVec=0, zVec=0, valueVec=0;
 935   int displayOver = 0;
 936   int displayFus = 0;
 937   double valueOver=0, valueFus=0;
 938   if (X >= mSlicers[slicer]->GetInput()->GetWholeExtent()[0] &&
 939       X <= mSlicers[slicer]->GetInput()->GetWholeExtent()[1] &&
 940       Y >= mSlicers[slicer]->GetInput()->GetWholeExtent()[2] &&
 941       Y <= mSlicers[slicer]->GetInput()->GetWholeExtent()[3] &&
 942       Z >= mSlicers[slicer]->GetInput()->GetWholeExtent()[4] &&
 943       Z <= mSlicers[slicer]->GetInput()->GetWholeExtent()[5]) {
 944     value = this->GetScalarComponentAsDouble(mSlicers[slicer]->GetInput(), X, Y, Z);
 945
 946     if (mSlicers[slicer]->GetVFActor() ) {
 947       displayVec = 1;
 948       unsigned int currentTime = mSlicers[slicer]->GetTSlice();
 949       vtkImageData *vf = NULL;
 950
 951       if (mSlicers[slicer]->GetVF()->GetVTKImages().size() > currentTime)
 952         vf = mSlicers[slicer]->GetVF()->GetVTKImages()[currentTime];
 953       else
 954         vf = mSlicers[slicer]->GetVF()->GetVTKImages()[0];
 955
 956       if (vf) {
 957         double Xvf = (x - vf->GetOrigin()[0])/ vf->GetSpacing()[0];
 958         double Yvf = (y - vf->GetOrigin()[1])/ vf->GetSpacing()[1];
 959         double Zvf = (z - vf->GetOrigin()[2])/ vf->GetSpacing()[2];
 960         xVec = this->GetScalarComponentAsDouble( vf, Xvf, Yvf, Zvf, 0);
 961         yVec = this->GetScalarComponentAsDouble( vf, Xvf, Yvf, Zvf, 1);
 962         zVec = this->GetScalarComponentAsDouble( vf, Xvf, Yvf, Zvf, 2);
 963         valueVec = sqrt(xVec*xVec + yVec*yVec + zVec*zVec);
 964       }
 965     }
 966     if (mSlicers[slicer]->GetOverlayActor() ) {
 967       displayOver = 1;
 968       vtkImageData *overlay = dynamic_cast<vtkImageData*>(mSlicers[slicer]->GetOverlayMapper()->GetInput());
 969       double Xover = (x - overlay->GetOrigin()[0]) / overlay->GetSpacing()[0];
 970       double Yover = (y - overlay->GetOrigin()[1]) / overlay->GetSpacing()[1];
 971       double Zover = (z - overlay->GetOrigin()[2]) / overlay->GetSpacing()[2];
 972       valueOver = this->GetScalarComponentAsDouble(overlay, Xover, Yover, Zover);
 973     }
 974     if (mSlicers[slicer]->GetFusionActor() ) {
 975       displayFus = 1;
 976       vtkImageData *fusion = dynamic_cast<vtkImageData*>(mSlicers[slicer]->GetFusionMapper()->GetInput());
 977       double Xover = (x - fusion->GetOrigin()[0]) / fusion->GetSpacing()[0];
 978       double Yover = (y - fusion->GetOrigin()[1]) / fusion->GetSpacing()[1];
 979       double Zover = (z - fusion->GetOrigin()[2]) / fusion->GetSpacing()[2];
 980       valueFus = this->GetScalarComponentAsDouble(fusion, Xover, Yover, Zover);
 981     }
 982     emit UpdatePosition(mSlicers[slicer]->GetCursorVisibility(),
 983                         x,y,z,X,Y,Z,value);
 984     emit UpdateVector(displayVec,xVec, yVec, zVec, valueVec);
 985     emit UpdateOverlay(displayOver,valueOver,value);
 986     emit UpdateFusion(displayFus,valueFus);
 987   }
 988 }
 989 //----------------------------------------------------------------------------
 990
 991
 992 //----------------------------------------------------------------------------
 993 void vvSlicerManager::Activated()
 994 {
 995   emit currentImageChanged(mId);
 996 }
 997 //----------------------------------------------------------------------------
 998
 999
1000 //----------------------------------------------------------------------------
1001 void vvSlicerManager::Picked()
1002 {
1003   emit currentPickedImageChanged(mId);
1004 }
1005 //----------------------------------------------------------------------------
1006
1007
1008 //----------------------------------------------------------------------------
1009 void vvSlicerManager::UpdateWindowLevel()
1010 {
1011   emit WindowLevelChanged();
1012 }
1013 //----------------------------------------------------------------------------
1014
1015
1016 //----------------------------------------------------------------------------
1017 void vvSlicerManager::UpdateSlice(int slicer)
1018 {
1019   if (mPreviousSlice[slicer] == mSlicers[slicer]->GetSlice()) {
1020     //DD("============= NOTHING");
1021     return;
1022   }
1023   //std::cout << "vvSlicerManager::UpdateSlice " << slicer << " " << mSlicers[slicer]->GetSlice() << std::endl;
1024   emit UpdateSlice(slicer, mSlicers[slicer]->GetSlice());
1025   mSlicers[slicer]->Render(); // DS <-- I add this, this could/must be the only Render ...
1026   mPreviousSlice[slicer] = mSlicers[slicer]->GetSlice();
1027 }
1028 //----------------------------------------------------------------------------
1029
1030
1031 //----------------------------------------------------------------------------
1032 void vvSlicerManager::UpdateTSlice(int slicer)
1033 {
1034   int slice = mSlicers[slicer]->GetSlice();
1035   int tslice = mSlicers[slicer]->GetTSlice();
1036   if (mPreviousSlice[slicer] == slice) {
1037     if (mPreviousTSlice[slicer] == tslice) {
1038       //      DD("************** NOTHING ***********");
1039       return;
1040     }
1041   }
1042   mPreviousSlice[slicer] = slice;
1043   mPreviousTSlice[slicer] = tslice;
1044   //std::cout << "vvSlicerManager::UpdateTSlice " << slicer << " " << tslice << std::endl;
1045   emit UpdateTSlice(slicer, tslice);
1046 }
1047 //----------------------------------------------------------------------------
1048
1049
1050 //----------------------------------------------------------------------------
1051 void vvSlicerManager::UpdateSliceRange(int slicer)
1052 {
1053   emit UpdateSliceRange(slicer,
1054                         mSlicers[slicer]->GetSliceRange()[0], mSlicers[slicer]->GetSliceRange()[1],
1055                         0,mSlicers[slicer]->GetTMax());
1056 }
1057 //----------------------------------------------------------------------------
1058
1059
1060 //----------------------------------------------------------------------------
1061 void vvSlicerManager::SetPreset(int preset)
1062 {
1063   //vtkLookupTable* LUT = static_cast<vtkLookupTable*>(mSlicers[0]->GetWindowLevel()->GetLookupTable());
1064   double window = mSlicers[0]->GetColorWindow();
1065   double level = mSlicers[0]->GetColorLevel();
1066
1067   std::string component_type=mImage->GetScalarTypeAsITKString();
1068   switch (preset) {
1069   case 0:
1070     double range[2];
1071     mImage->GetScalarRange(range);
1072     window = range[1] - range[0];
1073     level = (range[1] + range[0])* 0.5;
1074     break;
1075   case 1:
1076     window = 2000;
1077     level = 0;
1078     break;
1079   case 2:
1080     window = 400;
1081     level = 20;
1082     break;
1083   case 3:
1084     window = 1500;
1085     level = -500;
1086     break;
1087   case 4:
1088     window = 1000;
1089     level = 500;
1090     break;
1091   case 5:
1092     window = 1;
1093     level = 0.5;
1094     break;
1095   case 6:
1096     break;
1097   case 7:
1098     window=1.;
1099     level=0.;
1100     break;
1101   }
1102   mPreset = preset;
1103   this->SetColorWindow(window);
1104   this->SetColorLevel(level);
1105
1106   //if (LUT)
1107   //{
1108   //    SetColorMap(-1);
1109   //}
1110 }
1111 //----------------------------------------------------------------------------
1112
1113
1114 //----------------------------------------------------------------------------
1115 void vvSlicerManager::SetLocalColorWindowing(const int slicer, const bool bCtrlKey)
1116 {
1117   double min, max;
1118   int t = this->mSlicers[slicer]->GetTSlice();
1119   if(bCtrlKey && this->mSlicers[slicer]->GetFusion()) {
1120     this->mSlicers[slicer]->GetExtremasAroundMousePointer(min, max, this->mSlicers[slicer]->GetFusion()->GetVTKImages()[t]);
1121     this->SetFusionWindow(max-min);
1122     this->SetFusionLevel(0.5*(min+max));
1123     this->SetColorMap(mColorMap);
1124   }
1125   else if(bCtrlKey && this->mSlicers[slicer]->GetOverlay()) {
1126     this->mSlicers[slicer]->GetExtremasAroundMousePointer(min, max, this->mSlicers[slicer]->GetOverlay()->GetVTKImages()[t]);
1127     if(this->mSlicers[slicer]->GetLinkOverlayWindowLevel()){
1128       this->SetColorWindow(max-min);
1129       this->SetColorLevel(0.5*(min+max));
1130     } else {
1131       this->SetOverlayColorWindow(max-min);
1132       this->SetOverlayColorLevel(0.5*(min+max));
1133     }
1134   }
1135   else {
1136     this->mSlicers[slicer]->GetExtremasAroundMousePointer(min, max, this->mSlicers[slicer]->GetInput());
1137     this->SetColorWindow(max-min);
1138     this->SetColorLevel(0.5*(min+max));
1139     this->SetPreset(6);
1140   }
1141   this->Render();
1142   this->UpdateWindowLevel();
1143 }
1144 //----------------------------------------------------------------------------
1145
1146
1147 //----------------------------------------------------------------------------
1148 void vvSlicerManager::SetColorMap(int colormap)
1149 {
1150   double range[2];
1151   range[0] = mSlicers[0]->GetInput()->GetScalarRange()[0];
1152   range[1] = mSlicers[0]->GetInput()->GetScalarRange()[1];
1153
1154   double window = mSlicers[0]->GetWindowLevel()->GetWindow();
1155   double level = mSlicers[0]->GetWindowLevel()->GetLevel();
1156
1157   vtkLookupTable* LUT = static_cast<vtkLookupTable*>(mSlicers[0]->GetWindowLevel()->GetLookupTable());
1158   switch (colormap) {
1159   case -1:
1160     break;
1161   case 0:
1162     LUT = NULL;
1163     break;
1164   case 1:
1165     if (LUT == NULL)
1166       LUT = vtkLookupTable::New();
1167     LUT->SetValueRange(0,1);
1168     LUT->SetSaturationRange(1,1);
1169     LUT->SetHueRange(0,0.18);
1170     break;
1171   case 2:
1172     if (LUT == NULL)
1173       LUT = vtkLookupTable::New();
1174     LUT->SetValueRange(0,1);
1175     LUT->SetSaturationRange(1,1);
1176     LUT->SetHueRange(0.4,0.80);
1177     break;
1178   case 3:
1179     if (LUT == NULL)
1180       LUT = vtkLookupTable::New();
1181     LUT->SetValueRange(0.5,1);
1182     LUT->SetSaturationRange(1,1);
1183     LUT->SetHueRange(0.666,0);
1184     break;
1185   case 4:
1186     if (LUT == NULL)
1187       LUT = vtkLookupTable::New();
1188     LUT->SetValueRange(1,1);
1189     LUT->SetSaturationRange(1,1);
1190     LUT->SetHueRange(0,1);
1191     LUT->SetAlphaRange(1, 1);
1192     break;
1193   case 5:
1194     if (LUT == NULL)
1195       LUT = vtkLookupTable::New();
1196     LUT->SetValueRange(1,1);
1197     LUT->SetSaturationRange(1,1);
1198     LUT->SetHueRange(1,0.1);
1199     //LUT->SetRampToLinear();
1200     break;
1201   }
1202   if (LUT) {
1203     LUT->SetTableRange(level-fabs(window)/2,level+fabs(window)/2);
1204     LUT->Build();
1205   }
1206   vtkWindowLevelLookupTable* fusLUT = NULL;
1207   if (mSlicers[0]->GetFusion()) { // && mFusionColorMap >= 0) {
1208     fusLUT = vtkWindowLevelLookupTable::New();
1209     double fusRange [2];
1210     fusRange[0] = mFusionLevel - mFusionWindow/2;
1211     fusRange[1] = mFusionLevel + mFusionWindow/2;
1212     double* frange = mFusionReader->GetOutput()->GetVTKImages()[0]->GetScalarRange();
1213     fusLUT->SetTableRange(frange);
1214     fusLUT->SetValueRange(1,1);
1215     fusLUT->SetSaturationRange(1,1);
1216     fusLUT->SetAlphaRange(1, 1);
1217     fusLUT->SetWindow(mFusionWindow);
1218     fusLUT->SetLevel(mFusionLevel);
1219     if (mFusionColorMap == 1)
1220       fusLUT->SetHueRange(0,0.18);
1221     else if (mFusionColorMap == 2)
1222       fusLUT->SetHueRange(0.4,0.80);
1223     else if (mFusionColorMap == 3)
1224     {
1225       fusLUT->SetHueRange(0.666, 0);
1226       fusLUT->SetValueRange(0.5, 1);
1227     }
1228     else if (mFusionColorMap == 4)
1229       fusLUT->SetHueRange(0,1);
1230     else if (mFusionColorMap <= 0)
1231     {
1232       fusLUT->SetValueRange(0,1);
1233       fusLUT->SetSaturationRange(0,0);
1234     }
1235
1236     fusLUT->ForceBuild();
1237     double v[4];
1238
1239     // set color table transparency
1240     //double alpha_range=(double)mFusionThresOpacity/10;
1241     double range_end = fusRange[0] + (double)mFusionThresOpacity*(fusRange[1] - fusRange[0])/100;
1242     double curr_value = fusRange[0];
1243     int nvalues = fusLUT->GetNumberOfTableValues();
1244     for (double i = 0; curr_value < range_end; i++) {
1245       fusLUT->GetTableValue(i, v);
1246       v[3] = 0;
1247       //if (curr_value >= -alpha_range && curr_value <= alpha_range) v[3] = pow(fabs(curr_value/alpha_range),2);
1248       //else v[3] = 1;
1249       fusLUT->SetTableValue(i, v);
1250       curr_value += (fusRange[1] - fusRange[0])/nvalues;
1251     }
1252   }
1253   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
1254
1255     if (mSlicers[i]->GetOverlay()) {
1256       vtkLookupTable* supLUT = vtkLookupTable::New();
1257       supLUT->SetTableRange(range[0],range[1]);
1258       supLUT->SetValueRange(1,1);
1259       supLUT->SetSaturationRange(1,1);
1260       supLUT->SetHueRange(double(mOverlayColor)/360,double(mOverlayColor)/360);
1261       supLUT->Build();
1262       vtkLookupTable* invLUT = vtkLookupTable::New();
1263       invLUT->SetTableRange(range[0],range[1]);
1264       invLUT->SetValueRange(1,1);
1265       invLUT->SetSaturationRange(1,1);
1266       invLUT->SetHueRange(double((mOverlayColor+180)%360)/360,double((mOverlayColor+180)%360)/360);
1267       invLUT->Build();
1268       dynamic_cast<vvImageMapToWLColors*>(mSlicers[i]->GetWindowLevel())
1269         ->SetWindowLevelMode(true);
1270       mSlicers[i]->GetWindowLevel()->SetLookupTable(supLUT);
1271       mSlicers[i]->GetOverlayMapper()->SetLookupTable(invLUT);
1272       invLUT->Delete();
1273       supLUT->Delete();
1274     } else if (mSlicers[i]->GetOverlay()) {
1275       //dynamic_cast<vvImageMapToWLColors*>(mSlicers[i]->GetWindowLevel())
1276       //->SetWindowLevelMode(false);
1277       mSlicers[i]->GetWindowLevel()->SetLookupTable(LUT);
1278     } else {
1279       mSlicers[i]->GetWindowLevel()->SetLookupTable(LUT);
1280     }
1281
1282     if (mSlicers[i]->GetFusion()) {
1283       mSlicers[i]->ShowFusionLegend(mFusionShowLegend);
1284       mSlicers[i]->GetFusionMapper()->SetLookupTable(fusLUT);
1285       mSlicers[i]->GetFusionActor()->SetOpacity(double(mFusionOpacity)/100);
1286     }
1287   }
1288   if (fusLUT)
1289     fusLUT->Delete();
1290   if (colormap >= 0)
1291     mColorMap = colormap;
1292 }
1293 //----------------------------------------------------------------------------
1294
1295
1296 //----------------------------------------------------------------------------
1297 vvLandmarks* vvSlicerManager::GetLandmarks()
1298 {
1299   if (mLandmarks == NULL) {
1300     mLandmarks = new vvLandmarks(mSlicers[0]->GetTMax()+1);
1301     for (unsigned int i = 0; i < mSlicers.size(); i++)
1302       mSlicers[i]->SetLandmarks(mLandmarks);
1303   }
1304   return mLandmarks;
1305 }
1306 //----------------------------------------------------------------------------
1307
1308
1309 //----------------------------------------------------------------------------
1310 void vvSlicerManager::AddLandmark(float x,float y,float z,float t)
1311 {
1312   double x_index = (x - mSlicers[0]->GetInput()->GetOrigin()[0])/mSlicers[0]->GetInput()->GetSpacing()[0];
1313   double y_index = (y - mSlicers[0]->GetInput()->GetOrigin()[1])/mSlicers[0]->GetInput()->GetSpacing()[1];
1314   double z_index = (z - mSlicers[0]->GetInput()->GetOrigin()[2])/mSlicers[0]->GetInput()->GetSpacing()[2];
1315   if (x_index >= mSlicers[0]->GetInput()->GetWholeExtent()[0] &&
1316       x_index <= mSlicers[0]->GetInput()->GetWholeExtent()[1] &&
1317       y_index >= mSlicers[0]->GetInput()->GetWholeExtent()[2] &&
1318       y_index <= mSlicers[0]->GetInput()->GetWholeExtent()[3] &&
1319       z_index >= mSlicers[0]->GetInput()->GetWholeExtent()[4] &&
1320       z_index <= mSlicers[0]->GetInput()->GetWholeExtent()[5]) {
1321     double value = this->GetScalarComponentAsDouble(mSlicers[0]->GetInput(), x_index, y_index, z_index);
1322     this->GetLandmarks()->AddLandmark(x,y,z,t,value);
1323     emit LandmarkAdded();
1324   }
1325 }
1326 //----------------------------------------------------------------------------
1327
1328 //----------------------------------------------------------------------------
1329 void vvSlicerManager::PrevImage(int slicer)
1330 {
1331   emit ChangeImageWithIndexOffset(this, slicer, -1);
1332 }
1333 //----------------------------------------------------------------------------
1334
1335 //----------------------------------------------------------------------------
1336 void vvSlicerManager::NextImage(int slicer)
1337 {
1338   emit ChangeImageWithIndexOffset(this, slicer,  1);
1339 }
1340 //----------------------------------------------------------------------------
1341
1342 //----------------------------------------------------------------------------
1343 void vvSlicerManager::VerticalSliderHasChanged(int slicer, int slice)
1344 {
1345   emit AVerticalSliderHasChanged(slicer, slice);
1346 }
1347
1348 //----------------------------------------------------------------------------
1349
1350 //----------------------------------------------------------------------------
1351 double vvSlicerManager::GetScalarComponentAsDouble(vtkImageData *image, double X, double Y, double Z, int component)
1352 {
1353   int ix, iy, iz;
1354   return mSlicers[0]->GetScalarComponentAsDouble(image, X, Y, Z, ix, iy, iz, component);
1355 }
1356 //----------------------------------------------------------------------------