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   mSelectedSlicer = -1;
  73
  74   mPreviousSlice.resize(numberOfSlicers);
  75   mPreviousTSlice.resize(numberOfSlicers);
  76   mSlicingPreset = WORLD_SLICING;
  77 }
  78 //----------------------------------------------------------------------------
  79
  80
  81 //----------------------------------------------------------------------------
  82 vvSlicerManager::~vvSlicerManager()
  83 {
  84   if (mLandmarks)
  85     delete mLandmarks;
  86 }
  87 //----------------------------------------------------------------------------
  88
  89
  90 //------------------------------------------------------------------------------
  91 void vvSlicerManager::SetFilename(std::string filename, int number)
  92 {
  93   mFileName = filename;
  94   mFileName = vtksys::SystemTools::GetFilenameName(mFileName);
  95   mBaseFileName = vtksys::SystemTools::GetFilenameName(vtksys::SystemTools::GetFilenameWithoutLastExtension(mFileName));
  96   mBaseFileNameNumber = number;
  97
  98   mFileName = mBaseFileName;
  99   if (number != 0) {
 100     mFileName.append("_"+clitk::toString(number));
 101   }
 102   mFileName.append(vtksys::SystemTools::GetFilenameLastExtension(filename));
 103
 104   for(unsigned int i=0; i<mSlicers.size(); i++) {
 105     mSlicers[i]->SetFileName(mFileName);//vtksys::SystemTools::GetFilenameWithoutLastExtension(filename));
 106   }
 107
 108 }
 109 //------------------------------------------------------------------------------
 110
 111
 112 //----------------------------------------------------------------------------
 113 void vvSlicerManager::AddContour(vvMesh::Pointer contour,bool propagate)
 114 {
 115   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 116     mSlicers[i]->AddContour(contour,propagate);
 117   }
 118 }
 119 //----------------------------------------------------------------------------
 120
 121
 122 //----------------------------------------------------------------------------
 123 void vvSlicerManager::ToggleContourSuperposition()
 124 {
 125   for ( unsigned int i = 0; i < mSlicers.size(); i++)
 126     mSlicers[i]->ToggleContourSuperposition();
 127 }
 128 //----------------------------------------------------------------------------
 129
 130 //----------------------------------------------------------------------------
 131 std::string vvSlicerManager::GetListOfAbsoluteFilePathInOneString(const std::string &actorType)
 132 {
 133   vvImageReader *reader = NULL;
 134
 135   if(actorType=="image")
 136     reader = mReader;
 137   else if(actorType=="overlay")
 138     reader = mOverlayReader;
 139   else if(actorType=="fusion")
 140     reader = mFusionReader;
 141   else if(actorType=="vector")
 142     reader = mVectorReader;
 143
 144   if(!reader)
 145     return "";
 146
 147   std::string list;
 148   for(unsigned int i=0; i<reader->GetInputFilenames().size(); i++){
 149     QFileInfo fileinfo(reader->GetInputFilenames()[i].c_str()); //Do not show the path
 150     if(i)
 151       list += '\n';
 152     list += fileinfo.absoluteFilePath().toStdString();
 153   }
 154   return list;
 155 }
 156 //----------------------------------------------------------------------------
 157
 158
 159 //----------------------------------------------------------------------------
 160 bool vvSlicerManager::SetImage(std::string filename, vvImageReader::LoadedImageType type, int n, unsigned int slice)
 161 {
 162   mType = type;
 163   if (mReader.IsNull())
 164     mReader = vvImageReader::New();
 165   std::vector<std::string> filenames;
 166   filenames.push_back(filename);
 167   mReader->SetInputFilenames(filenames);
 168   mReader->SetSlice(slice); // Only used for SLICED type
 169   mReader->Update(type);
 170
 171   SetFilename(filename, n);
 172   //  mFileName = vtksys::SystemTools::GetFilenameName(mFileName);
 173   //mBaseFileName = vtksys::SystemTools::GetFilenameName(vtksys::SystemTools::GetFilenameWithoutLastExtension(mFileName));
 174   //mBaseFileNameNumber = n;
 175
 176   if (mReader->GetLastError().size() == 0) {
 177     mImage=mReader->GetOutput();
 178     for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 179       mSlicers[i]->SetFileName(vtksys::SystemTools::GetFilenameWithoutLastExtension(filename));
 180       mSlicers[i]->SetImage(mReader->GetOutput());
 181     }
 182   } else {
 183     mLastError = mReader->GetLastError();
 184     return false;
 185   }
 186   // if (n!=0) {
 187   //   mFileName.append("_"+clitk::toString(n));
 188   // }
 189   return true;
 190 }
 191 //----------------------------------------------------------------------------
 192
 193
 194 //----------------------------------------------------------------------------
 195 void vvSlicerManager::SetImage(vvImage::Pointer image)
 196 {
 197   mImage=image;
 198   for (unsigned int i = 0; i < mSlicers.size(); i++) {
 199     mSlicers[i]->SetImage(image);
 200   }
 201 }
 202 //----------------------------------------------------------------------------
 203
 204
 205 //----------------------------------------------------------------------------
 206 bool vvSlicerManager::SetImages(std::vector<std::string> filenames, vvImageReader::LoadedImageType type, int n)
 207 {
 208   mType = type;
 209   std::string fileWithoutExtension = vtksys::SystemTools::GetFilenameWithoutExtension(filenames[0]);
 210   if (type == vvImageReader::DICOM)
 211     fileWithoutExtension += "_dicom";
 212   else if (type == vvImageReader::MERGED)
 213     fileWithoutExtension += "_merged";
 214   else if (type == vvImageReader::MERGEDWITHTIME)
 215     fileWithoutExtension += "_merged_wt";
 216
 217   mFileName = vtksys::SystemTools::GetFilenameName(mFileName);
 218   mFileName = fileWithoutExtension + vtksys::SystemTools::GetFilenameExtension(filenames[0]);
 219   if (mReader.IsNull())
 220     mReader = vvImageReader::New();
 221   mReader->SetInputFilenames(filenames);
 222   mReader->Update(type);
 223
 224   mBaseFileName = vtksys::SystemTools::GetFilenameName(vtksys::SystemTools::GetFilenameWithoutLastExtension(mFileName));
 225   mBaseFileNameNumber = n;
 226
 227   if (mReader->GetLastError().size() == 0) {
 228     mImage=mReader->GetOutput();
 229     for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 230       mSlicers[i]->SetFileName(fileWithoutExtension);
 231       mSlicers[i]->SetImage(mReader->GetOutput());
 232     }
 233   } else {
 234     mLastError = mReader->GetLastError();
 235     return false;
 236   }
 237   if (n!=0) {
 238     mFileName.append("_"+clitk::toString(n));
 239   }
 240   return true;
 241 }
 242 //----------------------------------------------------------------------------
 243
 244
 245 //----------------------------------------------------------------------------
 246 bool vvSlicerManager::SetOverlay(std::vector<std::string> filenames,int dim, std::string component, vvImageReader::LoadedImageType type)
 247 {
 248   mOverlayName = filenames[0];
 249   mOverlayComponent = component;
 250   if (dim > mImage->GetNumberOfDimensions()) {
 251     mLastError = " Overlay dimension cannot be greater than reference image!";
 252     return false;
 253   }
 254   if (mOverlayReader.IsNull())
 255     mOverlayReader = vvImageReader::New();
 256   mOverlayReader->SetInputFilenames(filenames);
 257   mOverlayReader->Update(type);
 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 //----------------------------------------------------------------------------
 423 void vvSlicerManager::EmitMousePositionUpdated(int slicer)
 424 {
 425   emit MousePositionUpdatedSignal(slicer);
 426 }
 427 //----------------------------------------------------------------------------
 428
 429
 430 //----------------------------------------------------------------------------
 431 void vvSlicerManager::EmitKeyPressed(std::string KeyPress)
 432 {
 433   emit KeyPressedSignal(KeyPress);
 434 }
 435 //----------------------------------------------------------------------------
 436
 437
 438 //----------------------------------------------------------------------------
 439 void vvSlicerManager::SetSliceOrientation(int slicer, int orientation)
 440 {
 441   mSlicers[slicer]->SetSliceOrientation(orientation);
 442   emit UpdateOrientation(slicer, orientation);
 443 }
 444 //----------------------------------------------------------------------------
 445
 446 //----------------------------------------------------------------------------
 447 int vvSlicerManager::GetTSlice()
 448 {
 449   return mSlicers[0]->GetTSlice();
 450 }
 451 //----------------------------------------------------------------------------
 452
 453 //----------------------------------------------------------------------------
 454 void vvSlicerManager::SetTSlice(int slice)
 455 {
 456   if (slice < 0)
 457     slice = 0;
 458   else if (slice > mSlicers[0]->GetTMax())
 459     slice = mSlicers[0]->GetTMax();
 460   if (mLandmarks)
 461     mLandmarks->SetTime(slice);
 462   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 463     if (slice != mSlicers[i]->GetMaxCurrentTSlice()) {
 464       mSlicers[i]->SetTSlice(slice);
 465       UpdateTSlice(i);
 466     }
 467   }
 468 }
 469 //----------------------------------------------------------------------------
 470
 471
 472 //----------------------------------------------------------------------------
 473 void vvSlicerManager::SetNextTSlice(int originating_slicer)
 474 {
 475   int t = mSlicers[0]->GetMaxCurrentTSlice();
 476   t++;
 477   if (t > mSlicers[0]->GetTMax())
 478     t = 0;
 479   //std::cout << "vvSlicerManager::SetNextTSlice" << std::endl;
 480   emit UpdateTSlice(originating_slicer,t);
 481 }
 482 //----------------------------------------------------------------------------
 483
 484
 485 //----------------------------------------------------------------------------
 486 void vvSlicerManager::SetPreviousTSlice(int originating_slicer)
 487 {
 488   int t = mSlicers[0]->GetMaxCurrentTSlice();
 489   t--;
 490   if (t < 0)
 491     t = mSlicers[0]->GetTMax();
 492   //std::cout << "vvSlicerManager::SetPreviousTSlice" << std::endl;
 493   emit UpdateTSlice(originating_slicer,t);
 494 }
 495 //----------------------------------------------------------------------------
 496
 497
 498 //----------------------------------------------------------------------------
 499 void vvSlicerManager::ToggleInterpolation()
 500 {
 501   bool interpolate=!(mSlicers[0]->GetImageActor()->GetInterpolate());
 502   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 503     mSlicers[i]->GetImageActor()->SetInterpolate(interpolate);
 504     if (mSlicers[i]->GetOverlayActor())
 505       mSlicers[i]->GetOverlayActor()->SetInterpolate(interpolate);
 506     if (mSlicers[i]->GetFusionActor())
 507       mSlicers[i]->GetFusionActor()->SetInterpolate(interpolate);
 508   }
 509 }
 510 //----------------------------------------------------------------------------
 511
 512
 513 //----------------------------------------------------------------------------
 514 void vvSlicerManager::SetTSliceInSlicer(int tslice, int slicer)
 515 {
 516   if (tslice < 0)
 517     tslice = 0;
 518   else if (tslice > mSlicers[slicer]->GetTMax())
 519     tslice = mSlicers[slicer]->GetTMax();
 520   if (mLandmarks)
 521     mLandmarks->SetTime(tslice);
 522
 523   if (mSlicers[slicer]->GetMaxCurrentTSlice() == tslice) return;
 524
 525   mSlicers[slicer]->SetTSlice(tslice);
 526
 527   if(mSlicingPreset==VOXELS_SLICING) {
 528     vtkMatrix4x4 *imageTransformInverse = vtkMatrix4x4::New();
 529     mImage->GetTransform()[mSlicers[slicer]->GetTSlice()]->GetInverse(imageTransformInverse);
 530     this->GetSlicer(slicer)->GetSlicingTransform()->SetMatrix(imageTransformInverse);
 531     imageTransformInverse->Delete();
 532   }
 533
 534   UpdateTSlice(slicer);
 535 }
 536 //----------------------------------------------------------------------------
 537
 538
 539 //----------------------------------------------------------------------------
 540 void vvSlicerManager::SetColorWindow(double s)
 541 {
 542   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 543     mSlicers[i]->SetColorWindow(s);
 544   }
 545 }
 546 //----------------------------------------------------------------------------
 547
 548 //----------------------------------------------------------------------------
 549 void vvSlicerManager::SetColorLevel(double s)
 550 {
 551   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 552     mSlicers[i]->SetColorLevel(s);
 553   }
 554 }
 555 //----------------------------------------------------------------------------
 556
 557 //----------------------------------------------------------------------------
 558 void vvSlicerManager::SetOverlayColorWindow(double s)
 559 {
 560   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 561     mSlicers[i]->SetOverlayColorWindow(s);
 562   }
 563 }
 564 //----------------------------------------------------------------------------
 565
 566 //----------------------------------------------------------------------------
 567 void vvSlicerManager::SetOverlayColorLevel(double s)
 568 {
 569   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 570     mSlicers[i]->SetOverlayColorLevel(s);
 571   }
 572 }
 573 //----------------------------------------------------------------------------
 574
 575 //----------------------------------------------------------------------------
 576 void vvSlicerManager::SetLinkOverlayWindowLevel(bool b)
 577 {
 578   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 579     mSlicers[i]->SetLinkOverlayWindowLevel(b);
 580   }
 581 }
 582 //----------------------------------------------------------------------------
 583
 584 //----------------------------------------------------------------------------
 585 void vvSlicerManager::SetCursorAndCornerAnnotationVisibility(int s)
 586 {
 587   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 588     mSlicers[i]->SetCursorVisibility(s);
 589     mSlicers[i]->SetCornerAnnotationVisibility(s);
 590   }
 591 }
 592 //----------------------------------------------------------------------------
 593
 594 //----------------------------------------------------------------------------
 595 void vvSlicerManager::SetOpacity(int i, double factor)
 596 {
 597   mSlicers[i]->SetOpacity(1/factor);
 598 }
 599 //----------------------------------------------------------------------------
 600
 601
 602 //----------------------------------------------------------------------------
 603 void vvSlicerManager::UpdateViews(int current,int slicer)
 604 {
 605   double p[3], pt[3];
 606   p[0] = mSlicers[slicer]->GetCurrentPosition()[0];
 607   p[1] = mSlicers[slicer]->GetCurrentPosition()[1];
 608   p[2] = mSlicers[slicer]->GetCurrentPosition()[2];
 609   mSlicers[slicer]->GetSlicingTransform()->GetInverse()->TransformPoint(p, pt);
 610
 611   double x = (pt[0] - mSlicers[slicer]->GetInput()->GetOrigin()[0])
 612     /mSlicers[slicer]->GetInput()->GetSpacing()[0];
 613   double y = (pt[1] - mSlicers[slicer]->GetInput()->GetOrigin()[1])
 614     /mSlicers[slicer]->GetInput()->GetSpacing()[1];
 615   double z = (pt[2] - mSlicers[slicer]->GetInput()->GetOrigin()[2])
 616     /mSlicers[slicer]->GetInput()->GetSpacing()[2];
 617
 618   if (x >= mSlicers[slicer]->GetInput()->GetWholeExtent()[0]-0.5 &&
 619       x <= mSlicers[slicer]->GetInput()->GetWholeExtent()[1]+0.5 &&
 620       y >= mSlicers[slicer]->GetInput()->GetWholeExtent()[2]-0.5 &&
 621       y <= mSlicers[slicer]->GetInput()->GetWholeExtent()[3]+0.5 &&
 622       z >= mSlicers[slicer]->GetInput()->GetWholeExtent()[4]-0.5 &&
 623       z <= mSlicers[slicer]->GetInput()->GetWholeExtent()[5]+0.5) {
 624     mSlicers[slicer]->UpdateCursorPosition();
 625     mSlicers[slicer]->SetCursorColor(10,212,255);
 626     mSelectedSlicer = slicer;
 627
 628     switch (mSlicers[slicer]->GetSliceOrientation()) {
 629     case vtkImageViewer2::SLICE_ORIENTATION_XY:
 630       if (mSlicers[slicer]->GetSlice() != (int)lrint(z))
 631         mSlicers[slicer]->SetSlice((int)lrint(z));
 632       break;
 633
 634     case vtkImageViewer2::SLICE_ORIENTATION_XZ:
 635       if (mSlicers[slicer]->GetSlice() != (int)lrint(y))
 636         mSlicers[slicer]->SetSlice((int)lrint(y));
 637       break;
 638
 639     case vtkImageViewer2::SLICE_ORIENTATION_YZ:
 640       if (mSlicers[slicer]->GetSlice() != (int)lrint(x))
 641         mSlicers[slicer]->SetSlice((int)lrint(x));
 642       break;
 643     }
 644     mSlicers[slicer]->Render();
 645
 646     for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 647       if (i != (unsigned int)slicer
 648           && mSlicers[i]->GetRenderer()->GetDraw()
 649           && mSlicers[i]->GetRenderWindow()->GetSize()[0] > 2
 650           && mSlicers[i]->GetRenderWindow()->GetSize()[1] > 2) {
 651         mSlicers[i]->SetCurrentPosition(p[0], p[1], p[2], mSlicers[slicer]->GetMaxCurrentTSlice());
 652         mSlicers[i]->UpdateCursorPosition();
 653         if (current) { //do not display corner annotation if image is the one picked
 654           mSlicers[i]->SetCurrentPosition(-VTK_DOUBLE_MAX,-VTK_DOUBLE_MAX,
 655                                           -VTK_DOUBLE_MAX, mSlicers[slicer]->GetMaxCurrentTSlice());
 656           mSlicers[i]->SetCursorColor(255,10,212);
 657         } else {
 658           mSlicers[i]->SetCursorColor(150,10,282);
 659         }
 660         switch (mSlicers[i]->GetSliceOrientation()) {
 661         case vtkImageViewer2::SLICE_ORIENTATION_XY:
 662           if (mSlicers[i]->GetSlice() != (int)lrint(z))
 663             mSlicers[i]->SetSlice((int)lrint(z));
 664           break;
 665
 666         case vtkImageViewer2::SLICE_ORIENTATION_XZ:
 667           if (mSlicers[i]->GetSlice() != (int)lrint(y))
 668             mSlicers[i]->SetSlice((int)lrint(y));
 669           break;
 670
 671         case vtkImageViewer2::SLICE_ORIENTATION_YZ:
 672           if (mSlicers[i]->GetSlice() != (int)lrint(x))
 673             mSlicers[i]->SetSlice((int)lrint(x));
 674           break;
 675         }
 676
 677         mSlicers[i]->Render();
 678
 679         UpdateSlice(i);
 680         UpdateTSlice(i);
 681       }
 682     }
 683   }
 684 }
 685 //----------------------------------------------------------------------------
 686
 687
 688 //----------------------------------------------------------------------------
 689 void vvSlicerManager::UpdateLinked(int slicer)
 690 {
 691   double p[3], pt[3];
 692   p[0] = mSlicers[slicer]->GetCurrentPosition()[0];
 693   p[1] = mSlicers[slicer]->GetCurrentPosition()[1];
 694   p[2] = mSlicers[slicer]->GetCurrentPosition()[2];
 695   mSlicers[slicer]->GetSlicingTransform()->GetInverse()->TransformPoint(p, pt);
 696   double x = (pt[0] - mSlicers[slicer]->GetInput()->GetOrigin()[0]) / mSlicers[slicer]->GetInput()->GetSpacing()[0];
 697   double y = (pt[1] - mSlicers[slicer]->GetInput()->GetOrigin()[1]) / mSlicers[slicer]->GetInput()->GetSpacing()[1];
 698   double z = (pt[2] - mSlicers[slicer]->GetInput()->GetOrigin()[2]) / mSlicers[slicer]->GetInput()->GetSpacing()[2];
 699
 700   if (x >= mSlicers[slicer]->GetInput()->GetWholeExtent()[0]-0.5 &&
 701       x <= mSlicers[slicer]->GetInput()->GetWholeExtent()[1]+0.5 &&
 702       y >= mSlicers[slicer]->GetInput()->GetWholeExtent()[2]-0.5 &&
 703       y <= mSlicers[slicer]->GetInput()->GetWholeExtent()[3]+0.5 &&
 704       z >= mSlicers[slicer]->GetInput()->GetWholeExtent()[4]-0.5 &&
 705       z <= mSlicers[slicer]->GetInput()->GetWholeExtent()[5]+0.5) {
 706     for (std::list<std::string>::const_iterator i = mLinkedId.begin(); i != mLinkedId.end(); i++) {
 707       emit UpdateLinkManager(*i, slicer, p[0], p[1], p[2], mSlicers[slicer]->GetMaxCurrentTSlice());
 708     }
 709   }
 710 }
 711 //----------------------------------------------------------------------------
 712
 713 //----------------------------------------------------------------------------
 714 void vvSlicerManager::UpdateLinkedNavigation(vvSlicer *refSlicer, bool bPropagate)
 715 {
 716   vtkCamera *refCam = refSlicer->GetRenderer()->GetActiveCamera();
 717
 718   double refPosition[3];
 719   refCam->GetPosition(refPosition);
 720   refPosition[refSlicer->GetSliceOrientation()] = refSlicer->GetSlice() *
 721       refSlicer->GetInput()->GetSpacing()[refSlicer->GetSliceOrientation()] +
 722       refSlicer->GetInput()->GetOrigin()[refSlicer->GetSliceOrientation()];
 723
 724   refSlicer->GetSlicingTransform()->TransformPoint(refPosition, refPosition);
 725   mSlicers[0]->GetSlicingTransform()->GetInverse()->TransformPoint(refPosition, refPosition);
 726
 727   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 728     vtkCamera *camera = mSlicers[i]->GetRenderer()->GetActiveCamera();
 729     camera->SetParallelScale(refCam->GetParallelScale());
 730
 731     double position[3], focal[3];
 732     camera->GetPosition(position);
 733     camera->GetFocalPoint(focal);
 734
 735     for(int j=0; j<3; j++) {
 736       if(j!=mSlicers[i]->GetSliceOrientation()) {
 737         position[j] = refPosition[j];
 738         focal[j]    = refPosition[j];
 739       }
 740     }
 741
 742     camera->SetFocalPoint(focal);
 743     camera->SetPosition(position);
 744
 745     //Fix for bug #243
 746     mSlicers[i]->ForceUpdateDisplayExtent();
 747   }
 748
 749   Render();
 750   if(bPropagate)
 751     for (std::list<std::string>::const_iterator i = mLinkedId.begin(); i != mLinkedId.end(); i++)
 752       emit UpdateLinkedNavigation(*i, this, refSlicer);
 753 }
 754 //----------------------------------------------------------------------------
 755
 756 //----------------------------------------------------------------------------
 757 double vvSlicerManager::GetColorWindow() const
 758 {
 759   if (mSlicers.size())
 760     return mSlicers[0]->GetColorWindow();
 761   return -1;
 762 }
 763 //----------------------------------------------------------------------------
 764
 765
 766 //----------------------------------------------------------------------------
 767 double vvSlicerManager::GetColorLevel() const
 768 {
 769   if (mSlicers.size())
 770     return mSlicers[0]->GetColorLevel();
 771   return -1;
 772 }
 773 //----------------------------------------------------------------------------
 774
 775 //----------------------------------------------------------------------------
 776 double vvSlicerManager::GetOverlayColorWindow() const
 777 {
 778   if (mSlicers.size())
 779     return mSlicers[0]->GetOverlayColorWindow();
 780   return -1;
 781 }
 782 //----------------------------------------------------------------------------
 783
 784 //----------------------------------------------------------------------------
 785 double vvSlicerManager::GetOverlayColorLevel() const
 786 {
 787   if (mSlicers.size())
 788     return mSlicers[0]->GetOverlayColorLevel();
 789   return -1;
 790 }
 791 //----------------------------------------------------------------------------
 792
 793 //----------------------------------------------------------------------------
 794 bool vvSlicerManager::GetLinkOverlayWindowLevel() const
 795 {
 796   if (mSlicers.size())
 797     return mSlicers[0]->GetLinkOverlayWindowLevel();
 798   return -1;
 799 }
 800 //----------------------------------------------------------------------------
 801
 802 //------------------------------------------------------------------------------
 803 void vvSlicerManager::ResetTransformationToIdentity(const std::string actorType)
 804 {
 805   if(actorType == "image")
 806     for(unsigned int i=0; i<this->GetImage()->GetTransform().size(); i++)
 807       this->GetImage()->GetTransform()[i]->Identity();
 808   else if(actorType == "overlay")
 809     for(unsigned int i=0; i<this->GetImage()->GetTransform().size(); i++)
 810       this->GetSlicer(0)->GetOverlay()->GetTransform()[i]->Identity();
 811   else if(actorType == "fusion")
 812     for(unsigned int i=0; i<this->GetImage()->GetTransform().size(); i++)
 813       this->GetSlicer(0)->GetFusion()->GetTransform()[i]->Identity();
 814   else if(actorType == "vf")
 815     for(unsigned int i=0; i<this->GetImage()->GetTransform().size(); i++)
 816       this->GetVF()->GetTransform()[i]->Identity();
 817   else
 818     return;
 819
 820   for(int i=0; i< this->GetNumberOfSlicers(); i++){
 821     this->GetSlicer(i)->ForceUpdateDisplayExtent();
 822     this->GetSlicer(i)->ResetCamera();
 823     this->GetSlicer(i)->Render();
 824   }
 825 }
 826 //------------------------------------------------------------------------------
 827
 828 //----------------------------------------------------------------------------
 829 void vvSlicerManager::Render()
 830 {
 831   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 832     mSlicers[i]->Render();
 833   }
 834 }
 835 //----------------------------------------------------------------------------
 836
 837
 838 //----------------------------------------------------------------------------
 839 void vvSlicerManager::GenerateDefaultLookupTable()
 840 {
 841   SetPreset(mPreset);
 842   SetColorMap(mColorMap);
 843 }
 844 //----------------------------------------------------------------------------
 845
 846
 847 //----------------------------------------------------------------------------
 848 void vvSlicerManager::Reload()
 849 {
 850   mReader->Update(mType);
 851   mImage=mReader->GetOutput();
 852   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 853     mSlicers[i]->SetImage(mImage);
 854   }
 855 }
 856 //----------------------------------------------------------------------------
 857
 858
 859 //----------------------------------------------------------------------------
 860 void vvSlicerManager::ReloadFusion()
 861 {
 862   mFusionReader->Update(mImage->GetNumberOfDimensions(),mFusionComponent.c_str(),mType);
 863
 864   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 865     mSlicers[i]->SetFusion(mFusionReader->GetOutput());
 866     mSlicers[i]->Render();
 867   }
 868 }
 869 //----------------------------------------------------------------------------
 870
 871
 872 //----------------------------------------------------------------------------
 873 void vvSlicerManager::ReloadOverlay()
 874 {
 875   mOverlayReader->Update(mImage->GetNumberOfDimensions(),mOverlayComponent.c_str(),mType);
 876   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 877     mSlicers[i]->SetOverlay(mOverlayReader->GetOutput());
 878     mSlicers[i]->Render();
 879   }
 880 }
 881 //----------------------------------------------------------------------------
 882
 883
 884 //----------------------------------------------------------------------------
 885 void vvSlicerManager::ReloadVF()
 886 {
 887   mVectorReader->Update(vvImageReader::VECTORFIELD); //deletes the old images through the VF::Init() function
 888   mVF=mVectorReader->GetOutput();
 889   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 890     mSlicers[i]->SetVF(mVF);
 891     mSlicers[i]->Render();
 892   }
 893 }
 894 //----------------------------------------------------------------------------
 895
 896
 897 //----------------------------------------------------------------------------
 898 void vvSlicerManager::RemoveActor(const std::string& actor_type, int overlay_index)
 899 {
 900   if (actor_type =="overlay")
 901     mOverlayReader = NULL;
 902
 903   if (actor_type =="fusion")
 904     mFusionReader = NULL;
 905
 906   for (unsigned int i = 0; i < mSlicers.size(); i++)
 907     mSlicers[i]->RemoveActor(actor_type,overlay_index);
 908
 909   if (actor_type=="vector") {
 910     mVF=NULL;
 911     mVectorReader=NULL;
 912   }
 913 }
 914 //----------------------------------------------------------------------------
 915
 916
 917 //----------------------------------------------------------------------------
 918 void vvSlicerManager::RemoveActors()
 919 {
 920   ///This method leaks a few objects. See RemoveActor for what a
 921   ///correct implementation would look like
 922   //DS -> probably due to the reader (now released in the
 923   //RemoveActor() function. (I hope)
 924   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 925     mSlicers[i]->SetDisplayMode(0);
 926     mSlicers[i]->GetRenderer()->RemoveActor(mSlicers[i]->GetImageActor());
 927   }
 928 }
 929 //----------------------------------------------------------------------------
 930
 931
 932 //----------------------------------------------------------------------------
 933 void vvSlicerManager::UpdateInfoOnCursorPosition(int slicer)
 934 {
 935   //  int view = mSlicers[slicer]->GetSliceOrientation();
 936   //  int slice = mSlicers[slicer]->GetSlice();
 937   double x = mSlicers[slicer]->GetCursorPosition()[0];
 938   double y = mSlicers[slicer]->GetCursorPosition()[1];
 939   double z = mSlicers[slicer]->GetCursorPosition()[2];
 940   double X = (x - mSlicers[slicer]->GetInput()->GetOrigin()[0])/
 941     mSlicers[slicer]->GetInput()->GetSpacing()[0];
 942   double Y = (y - mSlicers[slicer]->GetInput()->GetOrigin()[1])/
 943     mSlicers[slicer]->GetInput()->GetSpacing()[1];
 944   double Z = (z - mSlicers[slicer]->GetInput()->GetOrigin()[2])/
 945     mSlicers[slicer]->GetInput()->GetSpacing()[2];
 946   double value = -VTK_DOUBLE_MAX;
 947   int displayVec = 0;
 948   double xVec=0, yVec=0, zVec=0, valueVec=0;
 949   int displayOver = 0;
 950   int displayFus = 0;
 951   double valueOver=0, valueFus=0;
 952   if (X >= mSlicers[slicer]->GetInput()->GetWholeExtent()[0] &&
 953       X <= mSlicers[slicer]->GetInput()->GetWholeExtent()[1] &&
 954       Y >= mSlicers[slicer]->GetInput()->GetWholeExtent()[2] &&
 955       Y <= mSlicers[slicer]->GetInput()->GetWholeExtent()[3] &&
 956       Z >= mSlicers[slicer]->GetInput()->GetWholeExtent()[4] &&
 957       Z <= mSlicers[slicer]->GetInput()->GetWholeExtent()[5]) {
 958     value = this->GetScalarComponentAsDouble(mSlicers[slicer]->GetInput(), X, Y, Z);
 959
 960     if (mSlicers[slicer]->GetVFActor() ) {
 961       displayVec = 1;
 962       unsigned int currentTime = mSlicers[slicer]->GetMaxCurrentTSlice();
 963       vtkImageData *vf = NULL;
 964
 965       if (mSlicers[slicer]->GetVF()->GetVTKImages().size() > currentTime)
 966         vf = mSlicers[slicer]->GetVF()->GetVTKImages()[currentTime];
 967       else
 968         vf = mSlicers[slicer]->GetVF()->GetVTKImages()[0];
 969
 970       if (vf) {
 971         double Xvf = (x - vf->GetOrigin()[0])/ vf->GetSpacing()[0];
 972         double Yvf = (y - vf->GetOrigin()[1])/ vf->GetSpacing()[1];
 973         double Zvf = (z - vf->GetOrigin()[2])/ vf->GetSpacing()[2];
 974         xVec = this->GetScalarComponentAsDouble( vf, Xvf, Yvf, Zvf, 0);
 975         yVec = this->GetScalarComponentAsDouble( vf, Xvf, Yvf, Zvf, 1);
 976         zVec = this->GetScalarComponentAsDouble( vf, Xvf, Yvf, Zvf, 2);
 977         valueVec = sqrt(xVec*xVec + yVec*yVec + zVec*zVec);
 978       }
 979     }
 980     if (mSlicers[slicer]->GetOverlayActor() ) {
 981       displayOver = 1;
 982       vtkImageData *overlay = dynamic_cast<vtkImageData*>(mSlicers[slicer]->GetOverlayMapper()->GetInput());
 983       double Xover = (x - overlay->GetOrigin()[0]) / overlay->GetSpacing()[0];
 984       double Yover = (y - overlay->GetOrigin()[1]) / overlay->GetSpacing()[1];
 985       double Zover = (z - overlay->GetOrigin()[2]) / overlay->GetSpacing()[2];
 986       valueOver = this->GetScalarComponentAsDouble(overlay, Xover, Yover, Zover);
 987     }
 988     if (mSlicers[slicer]->GetFusionActor() ) {
 989       displayFus = 1;
 990       vtkImageData *fusion = dynamic_cast<vtkImageData*>(mSlicers[slicer]->GetFusionMapper()->GetInput());
 991       double Xover = (x - fusion->GetOrigin()[0]) / fusion->GetSpacing()[0];
 992       double Yover = (y - fusion->GetOrigin()[1]) / fusion->GetSpacing()[1];
 993       double Zover = (z - fusion->GetOrigin()[2]) / fusion->GetSpacing()[2];
 994       valueFus = this->GetScalarComponentAsDouble(fusion, Xover, Yover, Zover);
 995     }
 996     emit UpdatePosition(mSlicers[slicer]->GetCursorVisibility(),
 997                         x,y,z,X,Y,Z,value);
 998     emit UpdateVector(displayVec,xVec, yVec, zVec, valueVec);
 999     emit UpdateOverlay(displayOver,valueOver,value);
1000     emit UpdateFusion(displayFus,valueFus);
1001   }
1002 }
1003 //----------------------------------------------------------------------------
1004
1005
1006 //----------------------------------------------------------------------------
1007 void vvSlicerManager::Activated()
1008 {
1009   emit currentImageChanged(mId);
1010 }
1011 //----------------------------------------------------------------------------
1012
1013
1014 //----------------------------------------------------------------------------
1015 void vvSlicerManager::Picked()
1016 {
1017   emit currentPickedImageChanged(mId);
1018 }
1019 //----------------------------------------------------------------------------
1020
1021
1022 //----------------------------------------------------------------------------
1023 void vvSlicerManager::UpdateWindowLevel()
1024 {
1025   emit WindowLevelChanged();
1026 }
1027 //----------------------------------------------------------------------------
1028
1029
1030 //----------------------------------------------------------------------------
1031 void vvSlicerManager::UpdateSlice(int slicer)
1032 {
1033   if (mPreviousSlice[slicer] == mSlicers[slicer]->GetSlice()) {
1034     //DD("============= NOTHING");
1035     return;
1036   }
1037   //std::cout << "vvSlicerManager::UpdateSlice " << slicer << " " << mSlicers[slicer]->GetSlice() << std::endl;
1038   emit UpdateSlice(slicer, mSlicers[slicer]->GetSlice());
1039   mSlicers[slicer]->Render(); // DS <-- I add this, this could/must be the only Render ...
1040   mPreviousSlice[slicer] = mSlicers[slicer]->GetSlice();
1041 }
1042 //----------------------------------------------------------------------------
1043
1044
1045 //----------------------------------------------------------------------------
1046 void vvSlicerManager::UpdateTSlice(int slicer)
1047 {
1048   int slice = mSlicers[slicer]->GetSlice();
1049   int tslice = mSlicers[slicer]->GetMaxCurrentTSlice();
1050   if (mPreviousSlice[slicer] == slice) {
1051     if (mPreviousTSlice[slicer] == tslice) {
1052       //      DD("************** NOTHING ***********");
1053       return;
1054     }
1055   }
1056   mPreviousSlice[slicer] = slice;
1057   mPreviousTSlice[slicer] = tslice;
1058   //std::cout << "vvSlicerManager::UpdateTSlice " << slicer << " " << tslice << std::endl;
1059   emit UpdateTSlice(slicer, tslice);
1060 }
1061 //----------------------------------------------------------------------------
1062
1063
1064 //----------------------------------------------------------------------------
1065 void vvSlicerManager::UpdateSliceRange(int slicer)
1066 {
1067   emit UpdateSliceRange(slicer,
1068                         mSlicers[slicer]->GetSliceRange()[0], mSlicers[slicer]->GetSliceRange()[1],
1069                         0,mSlicers[slicer]->GetTMax());
1070 }
1071 //----------------------------------------------------------------------------
1072
1073 //----------------------------------------------------------------------------
1074 void vvSlicerManager::SetSlicingPreset(SlicingPresetType preset)
1075 {
1076   if(mSlicingPreset==preset)
1077     return;
1078
1079   vtkMatrix4x4 *imageTransformInverse = vtkMatrix4x4::New();
1080   mImage->GetTransform()[this->GetTSlice()]->GetInverse(imageTransformInverse);
1081
1082   for(int i=0; i< this->GetNumberOfSlicers(); i++){
1083     vvSlicer *s = this->GetSlicer(i);
1084     switch(preset)
1085     {
1086     case WORLD_SLICING:
1087       s->GetSlicingTransform()->Identity();
1088       break;
1089     case VOXELS_SLICING:
1090       s->GetSlicingTransform()->SetMatrix(imageTransformInverse);
1091       break;
1092     default:
1093       imageTransformInverse->Delete();
1094       return;
1095     }
1096     s->ForceUpdateDisplayExtent();
1097     s->SetSlice((s->GetInput()->GetWholeExtent()[s->GetSliceOrientation()*2+1]
1098                 +s->GetInput()->GetWholeExtent()[s->GetSliceOrientation()*2])/2.0);
1099     s->ResetCamera();
1100     s->Render();
1101   }
1102
1103   imageTransformInverse->Delete();
1104   mSlicingPreset = preset;
1105 }
1106
1107 //----------------------------------------------------------------------------
1108
1109 //----------------------------------------------------------------------------
1110 void vvSlicerManager::SetPreset(int preset)
1111 {
1112   //vtkLookupTable* LUT = static_cast<vtkLookupTable*>(mSlicers[0]->GetWindowLevel()->GetLookupTable());
1113   double window = mSlicers[0]->GetColorWindow();
1114   double level = mSlicers[0]->GetColorLevel();
1115
1116   std::string component_type=mImage->GetScalarTypeAsITKString();
1117   switch (preset) {
1118   case 0:
1119     double range[2];
1120     mImage->GetScalarRange(range);
1121     window = range[1] - range[0];
1122     level = (range[1] + range[0])* 0.5;
1123     break;
1124   case 1:
1125     window = 2000;
1126     level = 0;
1127     break;
1128   case 2:
1129     window = 400;
1130     level = 20;
1131     break;
1132   case 3: // lungs (same as FOCAL)
1133     window = 1700;
1134     level = -300;
1135     break;
1136   case 4:
1137     window = 1000;
1138     level = 500;
1139     break;
1140   case 5:
1141     window = 1;
1142     level = 0.5;
1143     break;
1144   case 6:
1145     break;
1146   case 7:
1147     window=1.;
1148     level=0.;
1149     break;
1150   }
1151   mPreset = preset;
1152   this->SetColorWindow(window);
1153   this->SetColorLevel(level);
1154
1155   //if (LUT)
1156   //{
1157   //    SetColorMap(-1);
1158   //}
1159 }
1160 //----------------------------------------------------------------------------
1161
1162
1163 //----------------------------------------------------------------------------
1164 void vvSlicerManager::SetLocalColorWindowing(const int slicer, const bool bCtrlKey)
1165 {
1166   double min, max;
1167   if(bCtrlKey && this->mSlicers[slicer]->GetFusion()) {
1168     int t = mSlicers[slicer]->GetFusionTSlice();
1169     this->mSlicers[slicer]->GetExtremasAroundMousePointer(min, max,
1170                                                           this->mSlicers[slicer]->GetFusion()->GetVTKImages()[t],
1171                                                           this->mSlicers[slicer]->GetConcatenatedFusionTransform());
1172     this->SetFusionWindow(max-min);
1173     this->SetFusionLevel(0.5*(min+max));
1174     this->SetColorMap(mColorMap);
1175   }
1176   else if(bCtrlKey && this->mSlicers[slicer]->GetOverlay()) {
1177     int t = mSlicers[slicer]->GetOverlayTSlice();
1178     this->mSlicers[slicer]->GetExtremasAroundMousePointer(min, max,
1179                                                           this->mSlicers[slicer]->GetOverlay()->GetVTKImages()[t],
1180                                                           this->mSlicers[slicer]->GetConcatenatedOverlayTransform());
1181     if(this->mSlicers[slicer]->GetLinkOverlayWindowLevel()){
1182       this->SetColorWindow(max-min);
1183       this->SetColorLevel(0.5*(min+max));
1184     } else {
1185       this->SetOverlayColorWindow(max-min);
1186       this->SetOverlayColorLevel(0.5*(min+max));
1187     }
1188   }
1189   else {
1190     int t = this->GetTSlice();
1191     this->mSlicers[slicer]->GetExtremasAroundMousePointer(min, max,
1192                                                           this->mSlicers[slicer]->GetImage()->GetVTKImages()[t],
1193                                                           this->mSlicers[slicer]->GetConcatenatedTransform());
1194     this->SetColorWindow(max-min);
1195     this->SetColorLevel(0.5*(min+max));
1196     this->SetPreset(6);
1197   }
1198   this->Render();
1199   this->UpdateWindowLevel();
1200 }
1201 //----------------------------------------------------------------------------
1202
1203
1204 //----------------------------------------------------------------------------
1205 void vvSlicerManager::SetColorMap(int colormap)
1206 {
1207   double range[2];
1208   range[0] = mSlicers[0]->GetInput()->GetScalarRange()[0];
1209   range[1] = mSlicers[0]->GetInput()->GetScalarRange()[1];
1210
1211   double window = mSlicers[0]->GetWindowLevel()->GetWindow();
1212   double level = mSlicers[0]->GetWindowLevel()->GetLevel();
1213
1214   vtkLookupTable* LUT = static_cast<vtkLookupTable*>(mSlicers[0]->GetWindowLevel()->GetLookupTable());
1215   switch (colormap) {
1216   case -1:
1217     break;
1218   case 0:
1219     LUT = NULL;
1220     break;
1221   case 1:
1222     if (LUT == NULL)
1223       LUT = vtkLookupTable::New();
1224     LUT->SetValueRange(0,1);
1225     LUT->SetSaturationRange(1,1);
1226     LUT->SetHueRange(0,0.18);
1227     break;
1228   case 2:
1229     if (LUT == NULL)
1230       LUT = vtkLookupTable::New();
1231     LUT->SetValueRange(0,1);
1232     LUT->SetSaturationRange(1,1);
1233     LUT->SetHueRange(0.4,0.80);
1234     break;
1235   case 3:
1236     if (LUT == NULL)
1237       LUT = vtkLookupTable::New();
1238     LUT->SetValueRange(0.5,1);
1239     LUT->SetSaturationRange(1,1);
1240     LUT->SetHueRange(0.666,0);
1241     break;
1242   case 4:
1243     if (LUT == NULL)
1244       LUT = vtkLookupTable::New();
1245     LUT->SetValueRange(1,1);
1246     LUT->SetSaturationRange(1,1);
1247     LUT->SetHueRange(0,1);
1248     LUT->SetAlphaRange(1, 1);
1249     break;
1250   case 5:
1251     if (LUT == NULL)
1252       LUT = vtkLookupTable::New();
1253     LUT->SetValueRange(1,1);
1254     LUT->SetSaturationRange(1,1);
1255     LUT->SetHueRange(1,0.1);
1256     //LUT->SetRampToLinear();
1257     break;
1258   }
1259   if (LUT) {
1260     LUT->SetTableRange(level-fabs(window)/2,level+fabs(window)/2);
1261     LUT->Build();
1262   }
1263   vtkWindowLevelLookupTable* fusLUT = NULL;
1264   if (mSlicers[0]->GetFusion()) { // && mFusionColorMap >= 0) {
1265     fusLUT = vtkWindowLevelLookupTable::New();
1266     double fusRange [2];
1267     fusRange[0] = mFusionLevel - mFusionWindow/2;
1268     fusRange[1] = mFusionLevel + mFusionWindow/2;
1269     double* frange = mFusionReader->GetOutput()->GetVTKImages()[0]->GetScalarRange();
1270     fusLUT->SetTableRange(frange);
1271     fusLUT->SetValueRange(1,1);
1272     fusLUT->SetSaturationRange(1,1);
1273     fusLUT->SetAlphaRange(1, 1);
1274     fusLUT->SetWindow(mFusionWindow);
1275     fusLUT->SetLevel(mFusionLevel);
1276     if (mFusionColorMap == 1)
1277       fusLUT->SetHueRange(0,0.18);
1278     else if (mFusionColorMap == 2)
1279       fusLUT->SetHueRange(0.4,0.80);
1280     else if (mFusionColorMap == 3)
1281     {
1282       fusLUT->SetHueRange(0.666, 0);
1283       fusLUT->SetValueRange(0.5, 1);
1284     }
1285     else if (mFusionColorMap == 4)
1286       fusLUT->SetHueRange(0,1);
1287     else if (mFusionColorMap <= 0)
1288     {
1289       fusLUT->SetValueRange(0,1);
1290       fusLUT->SetSaturationRange(0,0);
1291     }
1292
1293     fusLUT->ForceBuild();
1294     double v[4];
1295
1296     // set color table transparency
1297     //double alpha_range=(double)mFusionThresOpacity/10;
1298     double range_end = fusRange[0] + (double)mFusionThresOpacity*(fusRange[1] - fusRange[0])/100;
1299     double curr_value = fusRange[0];
1300     int nvalues = fusLUT->GetNumberOfTableValues();
1301     for (double i = 0; curr_value < range_end; i++) {
1302       fusLUT->GetTableValue(i, v);
1303       v[3] = 0;
1304       //if (curr_value >= -alpha_range && curr_value <= alpha_range) v[3] = pow(fabs(curr_value/alpha_range),2);
1305       //else v[3] = 1;
1306       fusLUT->SetTableValue(i, v);
1307       curr_value += (fusRange[1] - fusRange[0])/nvalues;
1308     }
1309   }
1310   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
1311
1312     if (mSlicers[i]->GetOverlay()) {
1313       vtkLookupTable* supLUT = vtkLookupTable::New();
1314       supLUT->SetTableRange(range[0],range[1]);
1315       supLUT->SetValueRange(1,1);
1316       supLUT->SetSaturationRange(1,1);
1317       supLUT->SetHueRange(double(mOverlayColor)/360,double(mOverlayColor)/360);
1318       supLUT->Build();
1319       vtkLookupTable* invLUT = vtkLookupTable::New();
1320       invLUT->SetTableRange(range[0],range[1]);
1321       invLUT->SetValueRange(1,1);
1322       invLUT->SetSaturationRange(1,1);
1323       invLUT->SetHueRange(double((mOverlayColor+180)%360)/360,double((mOverlayColor+180)%360)/360);
1324       invLUT->Build();
1325       dynamic_cast<vvImageMapToWLColors*>(mSlicers[i]->GetWindowLevel())
1326         ->SetWindowLevelMode(true);
1327       mSlicers[i]->GetWindowLevel()->SetLookupTable(supLUT);
1328       mSlicers[i]->GetOverlayMapper()->SetLookupTable(invLUT);
1329       invLUT->Delete();
1330       supLUT->Delete();
1331     } else if (mSlicers[i]->GetOverlay()) {
1332       //dynamic_cast<vvImageMapToWLColors*>(mSlicers[i]->GetWindowLevel())
1333       //->SetWindowLevelMode(false);
1334       mSlicers[i]->GetWindowLevel()->SetLookupTable(LUT);
1335     } else {
1336       mSlicers[i]->GetWindowLevel()->SetLookupTable(LUT);
1337     }
1338
1339     if (mSlicers[i]->GetFusion()) {
1340       mSlicers[i]->ShowFusionLegend(mFusionShowLegend);
1341       mSlicers[i]->GetFusionMapper()->SetLookupTable(fusLUT);
1342       mSlicers[i]->GetFusionActor()->SetOpacity(double(mFusionOpacity)/100);
1343     }
1344   }
1345   if (fusLUT)
1346     fusLUT->Delete();
1347   if (colormap >= 0)
1348     mColorMap = colormap;
1349 }
1350 //----------------------------------------------------------------------------
1351
1352
1353 //----------------------------------------------------------------------------
1354 vvLandmarks* vvSlicerManager::GetLandmarks()
1355 {
1356   if (mLandmarks == NULL) {
1357     mLandmarks = new vvLandmarks(mSlicers[0]->GetTMax()+1);
1358     for (unsigned int i = 0; i < mSlicers.size(); i++)
1359       mSlicers[i]->SetLandmarks(mLandmarks);
1360   }
1361   return mLandmarks;
1362 }
1363 //----------------------------------------------------------------------------
1364
1365
1366 //----------------------------------------------------------------------------
1367 void vvSlicerManager::AddLandmark(float x,float y,float z,float t)
1368 {
1369   double x_index = (x - mSlicers[0]->GetInput()->GetOrigin()[0])/mSlicers[0]->GetInput()->GetSpacing()[0];
1370   double y_index = (y - mSlicers[0]->GetInput()->GetOrigin()[1])/mSlicers[0]->GetInput()->GetSpacing()[1];
1371   double z_index = (z - mSlicers[0]->GetInput()->GetOrigin()[2])/mSlicers[0]->GetInput()->GetSpacing()[2];
1372   if (x_index >= mSlicers[0]->GetInput()->GetWholeExtent()[0]-0.5 &&
1373       x_index <= mSlicers[0]->GetInput()->GetWholeExtent()[1]+0.5 &&
1374       y_index >= mSlicers[0]->GetInput()->GetWholeExtent()[2]-0.5 &&
1375       y_index <= mSlicers[0]->GetInput()->GetWholeExtent()[3]+0.5 &&
1376       z_index >= mSlicers[0]->GetInput()->GetWholeExtent()[4]-0.5 &&
1377       z_index <= mSlicers[0]->GetInput()->GetWholeExtent()[5]+0.5) {
1378     double value = this->GetScalarComponentAsDouble(mSlicers[0]->GetInput(), x_index, y_index, z_index);
1379     this->GetLandmarks()->AddLandmark(x,y,z,t,value);
1380     emit LandmarkAdded();
1381   }
1382 }
1383 //----------------------------------------------------------------------------
1384
1385 //----------------------------------------------------------------------------
1386 void vvSlicerManager::PrevImage(int slicer)
1387 {
1388   emit ChangeImageWithIndexOffset(this, slicer, -1);
1389 }
1390 //----------------------------------------------------------------------------
1391
1392 //----------------------------------------------------------------------------
1393 void vvSlicerManager::NextImage(int slicer)
1394 {
1395   emit ChangeImageWithIndexOffset(this, slicer,  1);
1396 }
1397 //----------------------------------------------------------------------------
1398
1399 //----------------------------------------------------------------------------
1400 void vvSlicerManager::VerticalSliderHasChanged(int slicer, int slice)
1401 {
1402   emit AVerticalSliderHasChanged(slicer, slice);
1403 }
1404
1405 //----------------------------------------------------------------------------
1406
1407 //----------------------------------------------------------------------------
1408 double vvSlicerManager::GetScalarComponentAsDouble(vtkImageData *image, double X, double Y, double Z, int component)
1409 {
1410   int ix, iy, iz;
1411   return mSlicers[0]->GetScalarComponentAsDouble(image, X, Y, Z, ix, iy, iz, component);
1412 }
1413 //----------------------------------------------------------------------------