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   mSlicingPreset = WORLD_SLICING;
  76 }
  77 //----------------------------------------------------------------------------
  78
  79
  80 //----------------------------------------------------------------------------
  81 vvSlicerManager::~vvSlicerManager()
  82 {
  83   if (mLandmarks)
  84     delete mLandmarks;
  85 }
  86 //----------------------------------------------------------------------------
  87
  88
  89 //------------------------------------------------------------------------------
  90 void vvSlicerManager::SetFilename(std::string filename, int number)
  91 {
  92   mFileName = filename;
  93   mFileName = vtksys::SystemTools::GetFilenameName(mFileName);
  94   mBaseFileName = vtksys::SystemTools::GetFilenameName(vtksys::SystemTools::GetFilenameWithoutLastExtension(mFileName));
  95   mBaseFileNameNumber = number;
  96
  97   mFileName = mBaseFileName;
  98   if (number != 0) {
  99     mFileName.append("_"+clitk::toString(number));
 100   }
 101   mFileName.append(vtksys::SystemTools::GetFilenameLastExtension(filename));
 102
 103   for(unsigned int i=0; i<mSlicers.size(); i++) {
 104     mSlicers[i]->SetFileName(mFileName);//vtksys::SystemTools::GetFilenameWithoutLastExtension(filename));
 105   }
 106
 107 }
 108 //------------------------------------------------------------------------------
 109
 110
 111 //----------------------------------------------------------------------------
 112 void vvSlicerManager::AddContour(vvMesh::Pointer contour,bool propagate)
 113 {
 114   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 115     mSlicers[i]->AddContour(contour,propagate);
 116   }
 117 }
 118 //----------------------------------------------------------------------------
 119
 120
 121 //----------------------------------------------------------------------------
 122 void vvSlicerManager::ToggleContourSuperposition()
 123 {
 124   for ( unsigned int i = 0; i < mSlicers.size(); i++)
 125     mSlicers[i]->ToggleContourSuperposition();
 126 }
 127 //----------------------------------------------------------------------------
 128
 129 //----------------------------------------------------------------------------
 130 std::string vvSlicerManager::GetListOfAbsoluteFilePathInOneString(const std::string &actorType)
 131 {
 132   vvImageReader *reader = NULL;
 133
 134   if(actorType=="image")
 135     reader = mReader;
 136   else if(actorType=="overlay")
 137     reader = mOverlayReader;
 138   else if(actorType=="fusion")
 139     reader = mFusionReader;
 140   else if(actorType=="vector")
 141     reader = mVectorReader;
 142
 143   if(!reader)
 144     return "";
 145
 146   std::string list;
 147   for(unsigned int i=0; i<reader->GetInputFilenames().size(); i++){
 148     QFileInfo fileinfo(reader->GetInputFilenames()[i].c_str()); //Do not show the path
 149     if(i)
 150       list += '\n';
 151     list += fileinfo.absoluteFilePath().toStdString();
 152   }
 153   return list;
 154 }
 155 //----------------------------------------------------------------------------
 156
 157
 158 //----------------------------------------------------------------------------
 159 bool vvSlicerManager::SetImage(std::string filename, vvImageReader::LoadedImageType type, int n, unsigned int slice)
 160 {
 161   mType = type;
 162   if (mReader.IsNull())
 163     mReader = vvImageReader::New();
 164   std::vector<std::string> filenames;
 165   filenames.push_back(filename);
 166   mReader->SetInputFilenames(filenames);
 167   mReader->SetSlice(slice); // Only used for SLICED type
 168   mReader->Update(type);
 169
 170   SetFilename(filename, n);
 171   //  mFileName = vtksys::SystemTools::GetFilenameName(mFileName);
 172   //mBaseFileName = vtksys::SystemTools::GetFilenameName(vtksys::SystemTools::GetFilenameWithoutLastExtension(mFileName));
 173   //mBaseFileNameNumber = n;
 174
 175   if (mReader->GetLastError().size() == 0) {
 176     mImage=mReader->GetOutput();
 177     for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 178       mSlicers[i]->SetFileName(vtksys::SystemTools::GetFilenameWithoutLastExtension(filename));
 179       mSlicers[i]->SetImage(mReader->GetOutput());
 180     }
 181   } else {
 182     mLastError = mReader->GetLastError();
 183     return false;
 184   }
 185   // if (n!=0) {
 186   //   mFileName.append("_"+clitk::toString(n));
 187   // }
 188   return true;
 189 }
 190 //----------------------------------------------------------------------------
 191
 192
 193 //----------------------------------------------------------------------------
 194 void vvSlicerManager::SetImage(vvImage::Pointer image)
 195 {
 196   mImage=image;
 197   for (unsigned int i = 0; i < mSlicers.size(); i++) {
 198     mSlicers[i]->SetImage(image);
 199   }
 200 }
 201 //----------------------------------------------------------------------------
 202
 203
 204 //----------------------------------------------------------------------------
 205 bool vvSlicerManager::SetImages(std::vector<std::string> filenames, vvImageReader::LoadedImageType type, int n)
 206 {
 207   mType = type;
 208   std::string fileWithoutExtension = vtksys::SystemTools::GetFilenameWithoutExtension(filenames[0]);
 209   if (type == vvImageReader::DICOM)
 210     fileWithoutExtension += "_dicom";
 211   else if (type == vvImageReader::MERGED)
 212     fileWithoutExtension += "_merged";
 213   else if (type == vvImageReader::MERGEDWITHTIME)
 214     fileWithoutExtension += "_merged_wt";
 215
 216   mFileName = vtksys::SystemTools::GetFilenameName(mFileName);
 217   mFileName = fileWithoutExtension + vtksys::SystemTools::GetFilenameExtension(filenames[0]);
 218   if (mReader.IsNull())
 219     mReader = vvImageReader::New();
 220   mReader->SetInputFilenames(filenames);
 221   mReader->Update(type);
 222
 223   mBaseFileName = vtksys::SystemTools::GetFilenameName(vtksys::SystemTools::GetFilenameWithoutLastExtension(mFileName));
 224   mBaseFileNameNumber = n;
 225
 226   if (mReader->GetLastError().size() == 0) {
 227     mImage=mReader->GetOutput();
 228     for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 229       mSlicers[i]->SetFileName(fileWithoutExtension);
 230       mSlicers[i]->SetImage(mReader->GetOutput());
 231     }
 232   } else {
 233     mLastError = mReader->GetLastError();
 234     return false;
 235   }
 236   if (n!=0) {
 237     mFileName.append("_"+clitk::toString(n));
 238   }
 239   return true;
 240 }
 241 //----------------------------------------------------------------------------
 242
 243
 244 //----------------------------------------------------------------------------
 245 bool vvSlicerManager::SetOverlay(std::vector<std::string> filenames,int dim, std::string component, vvImageReader::LoadedImageType type)
 246 {
 247   mOverlayName = filenames[0];
 248   mOverlayComponent = component;
 249   if (dim > mImage->GetNumberOfDimensions()) {
 250     mLastError = " Overlay dimension cannot be greater than reference image!";
 251     return false;
 252   }
 253   if (mOverlayReader.IsNull())
 254     mOverlayReader = vvImageReader::New();
 255   mOverlayReader->SetInputFilenames(filenames);
 256   mOverlayReader->Update(type);
 257   if (mOverlayReader->GetLastError().size() == 0) {
 258     for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 259       mSlicers[i]->SetOverlay(mOverlayReader->GetOutput());
 260     }
 261   } else {
 262     mLastError = mOverlayReader->GetLastError();
 263     return false;
 264   }
 265   return true;
 266 }
 267 //----------------------------------------------------------------------------
 268
 269
 270 //----------------------------------------------------------------------------
 271 bool vvSlicerManager::SetFusion(std::string filename,int dim, std::string component)
 272 {
 273   mFusionName = filename;
 274   mFusionComponent = component;
 275   if (dim > mImage->GetNumberOfDimensions()) {
 276     mLastError = " Overlay dimension cannot be greater then reference image!";
 277     return false;
 278   }
 279   if (mFusionReader.IsNull())
 280     mFusionReader = vvImageReader::New();
 281   std::vector<std::string> filenames;
 282   filenames.push_back(filename);
 283   mFusionReader->SetInputFilenames(filenames);
 284   mFusionReader->Update(mImage->GetNumberOfDimensions(),component.c_str(),mType);
 285   if (mFusionReader->GetLastError().size() == 0) {
 286     for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 287       mSlicers[i]->SetFusion(mFusionReader->GetOutput());
 288     }
 289   } else {
 290     mLastError = mFusionReader->GetLastError();
 291     return false;
 292   }
 293   double *fusRange = mFusionReader->GetOutput()->GetVTKImages()[0]->GetScalarRange();
 294   mFusionLevel = (fusRange[0]+fusRange[1])/2;
 295   mFusionWindow = fusRange[1]-fusRange[0];
 296
 297   return true;
 298 }
 299 //----------------------------------------------------------------------------
 300
 301
 302 //----------------------------------------------------------------------------
 303 bool vvSlicerManager::SetVF(std::string filename)
 304 {
 305   if (mVectorReader.IsNull())
 306     mVectorReader = vvImageReader::New();
 307   mVectorReader->SetInputFilename(filename);
 308
 309   if (mType == vvImageReader::IMAGEWITHTIME)
 310     mVectorReader->Update(vvImageReader::VECTORFIELDWITHTIME);
 311   else
 312     mVectorReader->Update(vvImageReader::VECTORFIELD);
 313   if (mVectorReader->GetLastError().size() != 0) {
 314     mLastError = mVectorReader->GetLastError();
 315     return false;
 316   } else
 317     return SetVF(mVectorReader->GetOutput(),filename);
 318 }
 319 //----------------------------------------------------------------------------
 320
 321
 322 //----------------------------------------------------------------------------
 323 bool vvSlicerManager::SetVF(vvImage::Pointer vf,std::string filename)
 324 {
 325   if (vf->GetNumberOfDimensions() > mImage->GetNumberOfDimensions()) {
 326     mLastError = "Sorry, vector field dimension cannot be greater then reference image.";
 327     return false;
 328   }
 329   if (vf->GetNumberOfDimensions() == 4) {
 330     if (vf->GetSpacing()[3] != mImage->GetSpacing()[3]) {
 331       mLastError = "Sorry, vector field time spacing cannot be different from time spacing of the reference image.";
 332       return false;
 333     }
 334     if (vf->GetOrigin()[3] != mImage->GetOrigin()[3]) {
 335       mLastError = "Sorry, vector field time origin cannot be different from time origin of the reference image.";
 336       return false;
 337     }
 338   }
 339   mVF=vf;
 340   mVFName = filename;
 341   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 342     mSlicers[i]->SetVF(vf);
 343   }
 344   return true;
 345 }
 346 //----------------------------------------------------------------------------
 347
 348
 349 //----------------------------------------------------------------------------
 350 vvSlicer* vvSlicerManager::GetSlicer(int i)
 351 {
 352   return mSlicers[i];
 353 }
 354 //----------------------------------------------------------------------------
 355
 356
 357 //----------------------------------------------------------------------------
 358 void vvSlicerManager::UpdateSlicer(int num, bool state)
 359 {
 360   if (mSlicers[num]->GetImage())
 361     mSlicers[num]->SetDisplayMode(state);
 362 }
 363 //----------------------------------------------------------------------------
 364
 365
 366 //----------------------------------------------------------------------------
 367 void vvSlicerManager::SetSlicerWindow(int i, vtkRenderWindow* RW)
 368 {
 369   mSlicers[i]->SetRenderWindow(i,RW);
 370 }
 371 //----------------------------------------------------------------------------
 372
 373
 374 //----------------------------------------------------------------------------
 375 void vvSlicerManager::SetInteractorStyleNavigator(int i, vtkInteractorStyle* style)
 376 {
 377   vvSlicerManagerCommand *smc = vvSlicerManagerCommand::New();
 378   smc->SM = this;
 379   smc->SetSlicerNumber(i);
 380   mSlicers[i]->GetRenderWindow()->GetInteractor()->SetInteractorStyle(style);
 381
 382   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 383     GetInteractorStyle()->AddObserver(vtkCommand::KeyPressEvent, smc);
 384   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 385     GetInteractorStyle()->AddObserver(vtkCommand::WindowLevelEvent, smc);
 386   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 387     GetInteractorStyle()->AddObserver(vtkCommand::EndWindowLevelEvent, smc);
 388   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 389     GetInteractorStyle()->AddObserver(vtkCommand::StartWindowLevelEvent, smc);
 390   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 391     GetInteractorStyle()->AddObserver(vtkCommand::PickEvent, smc);
 392   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 393     GetInteractorStyle()->AddObserver(vtkCommand::StartPickEvent, smc);
 394   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 395     GetInteractorStyle()->AddObserver(vtkCommand::LeaveEvent, smc);
 396   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 397     GetInteractorStyle()->AddObserver(vtkCommand::UserEvent, smc);
 398   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 399     GetInteractorStyle()->AddObserver(vtkCommand::MouseWheelForwardEvent, smc);
 400   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 401     GetInteractorStyle()->AddObserver(vtkCommand::MouseWheelBackwardEvent, smc);
 402   // mSlicers[i]->GetRenderWindow()->GetInteractor()->
 403   //   GetInteractorStyle()->AddObserver(vtkCommand::LeftButtonReleaseEvent, smc);
 404   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 405     GetInteractorStyle()->AddObserver(vtkCommand::EndPickEvent, smc);
 406   mSlicers[i]->GetRenderWindow()->GetInteractor()->
 407     GetInteractorStyle()->AddObserver(vtkCommand::EndInteractionEvent, smc);
 408   smc->Delete();
 409 }
 410 //----------------------------------------------------------------------------
 411
 412
 413 //----------------------------------------------------------------------------
 414 void vvSlicerManager::LeftButtonReleaseEvent(int slicer)
 415 {
 416   emit LeftButtonReleaseSignal(slicer);
 417 }
 418 //----------------------------------------------------------------------------
 419
 420 //----------------------------------------------------------------------------
 421 void vvSlicerManager::SetSliceOrientation(int slicer, int orientation)
 422 {
 423   mSlicers[slicer]->SetSliceOrientation(orientation);
 424   emit UpdateOrientation(slicer, orientation);
 425 }
 426 //----------------------------------------------------------------------------
 427
 428 //----------------------------------------------------------------------------
 429 int vvSlicerManager::GetTSlice()
 430 {
 431   return mSlicers[0]->GetTSlice();
 432 }
 433 //----------------------------------------------------------------------------
 434
 435 //----------------------------------------------------------------------------
 436 void vvSlicerManager::SetTSlice(int slice)
 437 {
 438   if (slice < 0)
 439     slice = 0;
 440   else if (slice > mSlicers[0]->GetTMax())
 441     slice = mSlicers[0]->GetTMax();
 442   if (mLandmarks)
 443     mLandmarks->SetTime(slice);
 444   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 445     if (slice != mSlicers[i]->GetMaxCurrentTSlice()) {
 446       mSlicers[i]->SetTSlice(slice);
 447       UpdateTSlice(i);
 448     }
 449   }
 450 }
 451 //----------------------------------------------------------------------------
 452
 453
 454 //----------------------------------------------------------------------------
 455 void vvSlicerManager::SetNextTSlice(int originating_slicer)
 456 {
 457   int t = mSlicers[0]->GetMaxCurrentTSlice();
 458   t++;
 459   if (t > mSlicers[0]->GetTMax())
 460     t = 0;
 461   //std::cout << "vvSlicerManager::SetNextTSlice" << std::endl;
 462   emit UpdateTSlice(originating_slicer,t);
 463 }
 464 //----------------------------------------------------------------------------
 465
 466
 467 //----------------------------------------------------------------------------
 468 void vvSlicerManager::SetPreviousTSlice(int originating_slicer)
 469 {
 470   int t = mSlicers[0]->GetMaxCurrentTSlice();
 471   t--;
 472   if (t < 0)
 473     t = mSlicers[0]->GetTMax();
 474   //std::cout << "vvSlicerManager::SetPreviousTSlice" << std::endl;
 475   emit UpdateTSlice(originating_slicer,t);
 476 }
 477 //----------------------------------------------------------------------------
 478
 479
 480 //----------------------------------------------------------------------------
 481 void vvSlicerManager::ToggleInterpolation()
 482 {
 483   bool interpolate=!(mSlicers[0]->GetImageActor()->GetInterpolate());
 484   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 485     mSlicers[i]->GetImageActor()->SetInterpolate(interpolate);
 486     if (mSlicers[i]->GetOverlayActor())
 487       mSlicers[i]->GetOverlayActor()->SetInterpolate(interpolate);
 488     if (mSlicers[i]->GetFusionActor())
 489       mSlicers[i]->GetFusionActor()->SetInterpolate(interpolate);
 490   }
 491 }
 492 //----------------------------------------------------------------------------
 493
 494
 495 //----------------------------------------------------------------------------
 496 void vvSlicerManager::SetTSliceInSlicer(int tslice, int slicer)
 497 {
 498   if (tslice < 0)
 499     tslice = 0;
 500   else if (tslice > mSlicers[slicer]->GetTMax())
 501     tslice = mSlicers[slicer]->GetTMax();
 502   if (mLandmarks)
 503     mLandmarks->SetTime(tslice);
 504
 505   if (mSlicers[slicer]->GetMaxCurrentTSlice() == tslice) return;
 506
 507   mSlicers[slicer]->SetTSlice(tslice);
 508
 509   if(mSlicingPreset==VOXELS_SLICING) {
 510     vtkMatrix4x4 *imageTransformInverse = vtkMatrix4x4::New();
 511     mImage->GetTransform()[mSlicers[slicer]->GetTSlice()]->GetInverse(imageTransformInverse);
 512     this->GetSlicer(slicer)->GetSlicingTransform()->SetMatrix(imageTransformInverse);
 513     imageTransformInverse->Delete();
 514   }
 515
 516   UpdateTSlice(slicer);
 517 }
 518 //----------------------------------------------------------------------------
 519
 520
 521 //----------------------------------------------------------------------------
 522 void vvSlicerManager::SetColorWindow(double s)
 523 {
 524   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 525     mSlicers[i]->SetColorWindow(s);
 526   }
 527 }
 528 //----------------------------------------------------------------------------
 529
 530 //----------------------------------------------------------------------------
 531 void vvSlicerManager::SetColorLevel(double s)
 532 {
 533   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 534     mSlicers[i]->SetColorLevel(s);
 535   }
 536 }
 537 //----------------------------------------------------------------------------
 538
 539 //----------------------------------------------------------------------------
 540 void vvSlicerManager::SetOverlayColorWindow(double s)
 541 {
 542   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 543     mSlicers[i]->SetOverlayColorWindow(s);
 544   }
 545 }
 546 //----------------------------------------------------------------------------
 547
 548 //----------------------------------------------------------------------------
 549 void vvSlicerManager::SetOverlayColorLevel(double s)
 550 {
 551   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 552     mSlicers[i]->SetOverlayColorLevel(s);
 553   }
 554 }
 555 //----------------------------------------------------------------------------
 556
 557 //----------------------------------------------------------------------------
 558 void vvSlicerManager::SetLinkOverlayWindowLevel(bool b)
 559 {
 560   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 561     mSlicers[i]->SetLinkOverlayWindowLevel(b);
 562   }
 563 }
 564 //----------------------------------------------------------------------------
 565
 566 //----------------------------------------------------------------------------
 567 void vvSlicerManager::SetCursorAndCornerAnnotationVisibility(int s)
 568 {
 569   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 570     mSlicers[i]->SetCursorVisibility(s);
 571     mSlicers[i]->SetCornerAnnotationVisibility(s);
 572   }
 573 }
 574 //----------------------------------------------------------------------------
 575
 576 //----------------------------------------------------------------------------
 577 void vvSlicerManager::SetOpacity(int i, double factor)
 578 {
 579   mSlicers[i]->SetOpacity(1/factor);
 580 }
 581 //----------------------------------------------------------------------------
 582
 583
 584 //----------------------------------------------------------------------------
 585 void vvSlicerManager::UpdateViews(int current,int slicer)
 586 {
 587   double p[3], pt[3];
 588   p[0] = mSlicers[slicer]->GetCurrentPosition()[0];
 589   p[1] = mSlicers[slicer]->GetCurrentPosition()[1];
 590   p[2] = mSlicers[slicer]->GetCurrentPosition()[2];
 591   mSlicers[slicer]->GetSlicingTransform()->GetInverse()->TransformPoint(p, pt);
 592
 593   double x = (pt[0] - mSlicers[slicer]->GetInput()->GetOrigin()[0])
 594     /mSlicers[slicer]->GetInput()->GetSpacing()[0];
 595   double y = (pt[1] - mSlicers[slicer]->GetInput()->GetOrigin()[1])
 596     /mSlicers[slicer]->GetInput()->GetSpacing()[1];
 597   double z = (pt[2] - mSlicers[slicer]->GetInput()->GetOrigin()[2])
 598     /mSlicers[slicer]->GetInput()->GetSpacing()[2];
 599
 600   if (x >= mSlicers[slicer]->GetInput()->GetWholeExtent()[0]-0.5 &&
 601       x <= mSlicers[slicer]->GetInput()->GetWholeExtent()[1]+0.5 &&
 602       y >= mSlicers[slicer]->GetInput()->GetWholeExtent()[2]-0.5 &&
 603       y <= mSlicers[slicer]->GetInput()->GetWholeExtent()[3]+0.5 &&
 604       z >= mSlicers[slicer]->GetInput()->GetWholeExtent()[4]-0.5 &&
 605       z <= mSlicers[slicer]->GetInput()->GetWholeExtent()[5]+0.5) {
 606     mSlicers[slicer]->UpdateCursorPosition();
 607     mSlicers[slicer]->SetCursorColor(10,212,255);
 608
 609     switch (mSlicers[slicer]->GetSliceOrientation()) {
 610     case vtkImageViewer2::SLICE_ORIENTATION_XY:
 611       if (mSlicers[slicer]->GetSlice() != (int)lrint(z))
 612         mSlicers[slicer]->SetSlice((int)lrint(z));
 613       break;
 614
 615     case vtkImageViewer2::SLICE_ORIENTATION_XZ:
 616       if (mSlicers[slicer]->GetSlice() != (int)lrint(y))
 617         mSlicers[slicer]->SetSlice((int)lrint(y));
 618       break;
 619
 620     case vtkImageViewer2::SLICE_ORIENTATION_YZ:
 621       if (mSlicers[slicer]->GetSlice() != (int)lrint(x))
 622         mSlicers[slicer]->SetSlice((int)lrint(x));
 623       break;
 624     }
 625     mSlicers[slicer]->Render();
 626
 627     for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 628       if (i != (unsigned int)slicer
 629           && mSlicers[i]->GetRenderer()->GetDraw()
 630           && mSlicers[i]->GetRenderWindow()->GetSize()[0] > 2
 631           && mSlicers[i]->GetRenderWindow()->GetSize()[1] > 2) {
 632         mSlicers[i]->SetCurrentPosition(p[0], p[1], p[2], mSlicers[slicer]->GetMaxCurrentTSlice());
 633         mSlicers[i]->UpdateCursorPosition();
 634         if (current) { //do not display corner annotation if image is the one picked
 635           mSlicers[i]->SetCurrentPosition(-VTK_DOUBLE_MAX,-VTK_DOUBLE_MAX,
 636                                           -VTK_DOUBLE_MAX, mSlicers[slicer]->GetMaxCurrentTSlice());
 637           mSlicers[i]->SetCursorColor(255,10,212);
 638         } else {
 639           mSlicers[i]->SetCursorColor(150,10,282);
 640         }
 641         switch (mSlicers[i]->GetSliceOrientation()) {
 642         case vtkImageViewer2::SLICE_ORIENTATION_XY:
 643           if (mSlicers[i]->GetSlice() != (int)floor(z))
 644             mSlicers[i]->SetSlice((int)floor(z));
 645           break;
 646
 647         case vtkImageViewer2::SLICE_ORIENTATION_XZ:
 648           if (mSlicers[i]->GetSlice() != (int)floor(y))
 649             mSlicers[i]->SetSlice((int)floor(y));
 650           break;
 651
 652         case vtkImageViewer2::SLICE_ORIENTATION_YZ:
 653           if (mSlicers[i]->GetSlice() != (int)floor(x))
 654             mSlicers[i]->SetSlice((int)floor(x));
 655           break;
 656         }
 657
 658         mSlicers[i]->Render();
 659
 660         UpdateSlice(i);
 661         UpdateTSlice(i);
 662       }
 663     }
 664   }
 665 }
 666 //----------------------------------------------------------------------------
 667
 668
 669 //----------------------------------------------------------------------------
 670 void vvSlicerManager::UpdateLinked(int slicer)
 671 {
 672   double p[3], pt[3];
 673   p[0] = mSlicers[slicer]->GetCurrentPosition()[0];
 674   p[1] = mSlicers[slicer]->GetCurrentPosition()[1];
 675   p[2] = mSlicers[slicer]->GetCurrentPosition()[2];
 676   mSlicers[slicer]->GetSlicingTransform()->GetInverse()->TransformPoint(p, pt);
 677   double x = (pt[0] - mSlicers[slicer]->GetInput()->GetOrigin()[0]) / mSlicers[slicer]->GetInput()->GetSpacing()[0];
 678   double y = (pt[1] - mSlicers[slicer]->GetInput()->GetOrigin()[1]) / mSlicers[slicer]->GetInput()->GetSpacing()[1];
 679   double z = (pt[2] - mSlicers[slicer]->GetInput()->GetOrigin()[2]) / mSlicers[slicer]->GetInput()->GetSpacing()[2];
 680
 681   if (x >= mSlicers[slicer]->GetInput()->GetWholeExtent()[0]-0.5 &&
 682       x <= mSlicers[slicer]->GetInput()->GetWholeExtent()[1]+0.5 &&
 683       y >= mSlicers[slicer]->GetInput()->GetWholeExtent()[2]-0.5 &&
 684       y <= mSlicers[slicer]->GetInput()->GetWholeExtent()[3]+0.5 &&
 685       z >= mSlicers[slicer]->GetInput()->GetWholeExtent()[4]-0.5 &&
 686       z <= mSlicers[slicer]->GetInput()->GetWholeExtent()[5]+0.5) {
 687     for (std::list<std::string>::const_iterator i = mLinkedId.begin(); i != mLinkedId.end(); i++) {
 688       emit UpdateLinkManager(*i, slicer, p[0], p[1], p[2], mSlicers[slicer]->GetMaxCurrentTSlice());
 689     }
 690   }
 691 }
 692 //----------------------------------------------------------------------------
 693
 694 //----------------------------------------------------------------------------
 695 void vvSlicerManager::UpdateLinkedNavigation(vvSlicer *refSlicer, bool bPropagate)
 696 {
 697   vtkCamera *refCam = refSlicer->GetRenderer()->GetActiveCamera();
 698
 699   double refPosition[3];
 700   refCam->GetPosition(refPosition);
 701   refPosition[refSlicer->GetSliceOrientation()] = refSlicer->GetSlice() *
 702       refSlicer->GetInput()->GetSpacing()[refSlicer->GetSliceOrientation()] +
 703       refSlicer->GetInput()->GetOrigin()[refSlicer->GetSliceOrientation()];
 704
 705   refSlicer->GetSlicingTransform()->TransformPoint(refPosition, refPosition);
 706   mSlicers[0]->GetSlicingTransform()->GetInverse()->TransformPoint(refPosition, refPosition);
 707
 708   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 709     vtkCamera *camera = mSlicers[i]->GetRenderer()->GetActiveCamera();
 710     camera->SetParallelScale(refCam->GetParallelScale());
 711
 712     double position[3], focal[3];
 713     camera->GetPosition(position);
 714     camera->GetFocalPoint(focal);
 715
 716     for(int j=0; j<3; j++) {
 717       if(j!=mSlicers[i]->GetSliceOrientation()) {
 718         position[j] = refPosition[j];
 719         focal[j]    = refPosition[j];
 720       }
 721     }
 722
 723     camera->SetFocalPoint(focal);
 724     camera->SetPosition(position);
 725
 726     //Fix for bug #243
 727     mSlicers[i]->ForceUpdateDisplayExtent();
 728   }
 729
 730   Render();
 731   if(bPropagate)
 732     for (std::list<std::string>::const_iterator i = mLinkedId.begin(); i != mLinkedId.end(); i++)
 733       emit UpdateLinkedNavigation(*i, this, refSlicer);
 734 }
 735 //----------------------------------------------------------------------------
 736
 737 //----------------------------------------------------------------------------
 738 double vvSlicerManager::GetColorWindow()
 739 {
 740   if (mSlicers.size())
 741     return mSlicers[0]->GetColorWindow();
 742   return -1;
 743 }
 744 //----------------------------------------------------------------------------
 745
 746
 747 //----------------------------------------------------------------------------
 748 double vvSlicerManager::GetColorLevel()
 749 {
 750   if (mSlicers.size())
 751     return mSlicers[0]->GetColorLevel();
 752   return -1;
 753 }
 754 //----------------------------------------------------------------------------
 755
 756 //----------------------------------------------------------------------------
 757 double vvSlicerManager::GetOverlayColorWindow() const
 758 {
 759   if (mSlicers.size())
 760     return mSlicers[0]->GetOverlayColorWindow();
 761   return -1;
 762 }
 763 //----------------------------------------------------------------------------
 764
 765 //----------------------------------------------------------------------------
 766 double vvSlicerManager::GetOverlayColorLevel() const
 767 {
 768   if (mSlicers.size())
 769     return mSlicers[0]->GetOverlayColorLevel();
 770   return -1;
 771 }
 772 //----------------------------------------------------------------------------
 773
 774 //----------------------------------------------------------------------------
 775 bool vvSlicerManager::GetLinkOverlayWindowLevel() const
 776 {
 777   if (mSlicers.size())
 778     return mSlicers[0]->GetLinkOverlayWindowLevel();
 779   return -1;
 780 }
 781 //----------------------------------------------------------------------------
 782
 783 //------------------------------------------------------------------------------
 784 void vvSlicerManager::ResetTransformationToIdentity(const std::string actorType)
 785 {
 786   if(actorType == "image")
 787     for(unsigned int i=0; i<this->GetImage()->GetTransform().size(); i++)
 788       this->GetImage()->GetTransform()[i]->Identity();
 789   else if(actorType == "overlay")
 790     for(unsigned int i=0; i<this->GetImage()->GetTransform().size(); i++)
 791       this->GetSlicer(0)->GetOverlay()->GetTransform()[i]->Identity();
 792   else if(actorType == "fusion")
 793     for(unsigned int i=0; i<this->GetImage()->GetTransform().size(); i++)
 794       this->GetSlicer(0)->GetFusion()->GetTransform()[i]->Identity();
 795   else if(actorType == "vf")
 796     for(unsigned int i=0; i<this->GetImage()->GetTransform().size(); i++)
 797       this->GetVF()->GetTransform()[i]->Identity();
 798   else
 799     return;
 800
 801   for(int i=0; i< this->GetNumberOfSlicers(); i++){
 802     this->GetSlicer(i)->ForceUpdateDisplayExtent();
 803     this->GetSlicer(i)->ResetCamera();
 804     this->GetSlicer(i)->Render();
 805   }
 806 }
 807 //------------------------------------------------------------------------------
 808
 809 //----------------------------------------------------------------------------
 810 void vvSlicerManager::Render()
 811 {
 812   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 813     mSlicers[i]->Render();
 814   }
 815 }
 816 //----------------------------------------------------------------------------
 817
 818
 819 //----------------------------------------------------------------------------
 820 void vvSlicerManager::GenerateDefaultLookupTable()
 821 {
 822   SetPreset(mPreset);
 823   SetColorMap(mColorMap);
 824 }
 825 //----------------------------------------------------------------------------
 826
 827
 828 //----------------------------------------------------------------------------
 829 void vvSlicerManager::Reload()
 830 {
 831   mReader->Update(mType);
 832   mImage=mReader->GetOutput();
 833   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 834     mSlicers[i]->SetImage(mImage);
 835   }
 836 }
 837 //----------------------------------------------------------------------------
 838
 839
 840 //----------------------------------------------------------------------------
 841 void vvSlicerManager::ReloadFusion()
 842 {
 843   mFusionReader->Update(mImage->GetNumberOfDimensions(),mFusionComponent.c_str(),mType);
 844
 845   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 846     mSlicers[i]->SetFusion(mFusionReader->GetOutput());
 847     mSlicers[i]->Render();
 848   }
 849 }
 850 //----------------------------------------------------------------------------
 851
 852
 853 //----------------------------------------------------------------------------
 854 void vvSlicerManager::ReloadOverlay()
 855 {
 856   mOverlayReader->Update(mImage->GetNumberOfDimensions(),mOverlayComponent.c_str(),mType);
 857   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 858     mSlicers[i]->SetOverlay(mOverlayReader->GetOutput());
 859     mSlicers[i]->Render();
 860   }
 861 }
 862 //----------------------------------------------------------------------------
 863
 864
 865 //----------------------------------------------------------------------------
 866 void vvSlicerManager::ReloadVF()
 867 {
 868   mVectorReader->Update(vvImageReader::VECTORFIELD); //deletes the old images through the VF::Init() function
 869   mVF=mVectorReader->GetOutput();
 870   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 871     mSlicers[i]->SetVF(mVF);
 872     mSlicers[i]->Render();
 873   }
 874 }
 875 //----------------------------------------------------------------------------
 876
 877
 878 //----------------------------------------------------------------------------
 879 void vvSlicerManager::RemoveActor(const std::string& actor_type, int overlay_index)
 880 {
 881   if (actor_type =="overlay")
 882     mOverlayReader = NULL;
 883
 884   if (actor_type =="fusion")
 885     mFusionReader = NULL;
 886
 887   for (unsigned int i = 0; i < mSlicers.size(); i++)
 888     mSlicers[i]->RemoveActor(actor_type,overlay_index);
 889
 890   if (actor_type=="vector") {
 891     mVF=NULL;
 892     mVectorReader=NULL;
 893   }
 894 }
 895 //----------------------------------------------------------------------------
 896
 897
 898 //----------------------------------------------------------------------------
 899 void vvSlicerManager::RemoveActors()
 900 {
 901   ///This method leaks a few objects. See RemoveActor for what a
 902   ///correct implementation would look like
 903   //DS -> probably due to the reader (now released in the
 904   //RemoveActor() function. (I hope)
 905   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
 906     mSlicers[i]->SetDisplayMode(0);
 907     mSlicers[i]->GetRenderer()->RemoveActor(mSlicers[i]->GetImageActor());
 908   }
 909 }
 910 //----------------------------------------------------------------------------
 911
 912
 913 //----------------------------------------------------------------------------
 914 void vvSlicerManager::UpdateInfoOnCursorPosition(int slicer)
 915 {
 916   //  int view = mSlicers[slicer]->GetSliceOrientation();
 917   //  int slice = mSlicers[slicer]->GetSlice();
 918   double x = mSlicers[slicer]->GetCursorPosition()[0];
 919   double y = mSlicers[slicer]->GetCursorPosition()[1];
 920   double z = mSlicers[slicer]->GetCursorPosition()[2];
 921   double X = (x - mSlicers[slicer]->GetInput()->GetOrigin()[0])/
 922     mSlicers[slicer]->GetInput()->GetSpacing()[0];
 923   double Y = (y - mSlicers[slicer]->GetInput()->GetOrigin()[1])/
 924     mSlicers[slicer]->GetInput()->GetSpacing()[1];
 925   double Z = (z - mSlicers[slicer]->GetInput()->GetOrigin()[2])/
 926     mSlicers[slicer]->GetInput()->GetSpacing()[2];
 927   double value = -VTK_DOUBLE_MAX;
 928   int displayVec = 0;
 929   double xVec=0, yVec=0, zVec=0, valueVec=0;
 930   int displayOver = 0;
 931   int displayFus = 0;
 932   double valueOver=0, valueFus=0;
 933   if (X >= mSlicers[slicer]->GetInput()->GetWholeExtent()[0] &&
 934       X <= mSlicers[slicer]->GetInput()->GetWholeExtent()[1] &&
 935       Y >= mSlicers[slicer]->GetInput()->GetWholeExtent()[2] &&
 936       Y <= mSlicers[slicer]->GetInput()->GetWholeExtent()[3] &&
 937       Z >= mSlicers[slicer]->GetInput()->GetWholeExtent()[4] &&
 938       Z <= mSlicers[slicer]->GetInput()->GetWholeExtent()[5]) {
 939     value = this->GetScalarComponentAsDouble(mSlicers[slicer]->GetInput(), X, Y, Z);
 940
 941     if (mSlicers[slicer]->GetVFActor() ) {
 942       displayVec = 1;
 943       unsigned int currentTime = mSlicers[slicer]->GetMaxCurrentTSlice();
 944       vtkImageData *vf = NULL;
 945
 946       if (mSlicers[slicer]->GetVF()->GetVTKImages().size() > currentTime)
 947         vf = mSlicers[slicer]->GetVF()->GetVTKImages()[currentTime];
 948       else
 949         vf = mSlicers[slicer]->GetVF()->GetVTKImages()[0];
 950
 951       if (vf) {
 952         double Xvf = (x - vf->GetOrigin()[0])/ vf->GetSpacing()[0];
 953         double Yvf = (y - vf->GetOrigin()[1])/ vf->GetSpacing()[1];
 954         double Zvf = (z - vf->GetOrigin()[2])/ vf->GetSpacing()[2];
 955         xVec = this->GetScalarComponentAsDouble( vf, Xvf, Yvf, Zvf, 0);
 956         yVec = this->GetScalarComponentAsDouble( vf, Xvf, Yvf, Zvf, 1);
 957         zVec = this->GetScalarComponentAsDouble( vf, Xvf, Yvf, Zvf, 2);
 958         valueVec = sqrt(xVec*xVec + yVec*yVec + zVec*zVec);
 959       }
 960     }
 961     if (mSlicers[slicer]->GetOverlayActor() ) {
 962       displayOver = 1;
 963       vtkImageData *overlay = dynamic_cast<vtkImageData*>(mSlicers[slicer]->GetOverlayMapper()->GetInput());
 964       double Xover = (x - overlay->GetOrigin()[0]) / overlay->GetSpacing()[0];
 965       double Yover = (y - overlay->GetOrigin()[1]) / overlay->GetSpacing()[1];
 966       double Zover = (z - overlay->GetOrigin()[2]) / overlay->GetSpacing()[2];
 967       valueOver = this->GetScalarComponentAsDouble(overlay, Xover, Yover, Zover);
 968     }
 969     if (mSlicers[slicer]->GetFusionActor() ) {
 970       displayFus = 1;
 971       vtkImageData *fusion = dynamic_cast<vtkImageData*>(mSlicers[slicer]->GetFusionMapper()->GetInput());
 972       double Xover = (x - fusion->GetOrigin()[0]) / fusion->GetSpacing()[0];
 973       double Yover = (y - fusion->GetOrigin()[1]) / fusion->GetSpacing()[1];
 974       double Zover = (z - fusion->GetOrigin()[2]) / fusion->GetSpacing()[2];
 975       valueFus = this->GetScalarComponentAsDouble(fusion, Xover, Yover, Zover);
 976     }
 977     emit UpdatePosition(mSlicers[slicer]->GetCursorVisibility(),
 978                         x,y,z,X,Y,Z,value);
 979     emit UpdateVector(displayVec,xVec, yVec, zVec, valueVec);
 980     emit UpdateOverlay(displayOver,valueOver,value);
 981     emit UpdateFusion(displayFus,valueFus);
 982   }
 983 }
 984 //----------------------------------------------------------------------------
 985
 986
 987 //----------------------------------------------------------------------------
 988 void vvSlicerManager::Activated()
 989 {
 990   emit currentImageChanged(mId);
 991 }
 992 //----------------------------------------------------------------------------
 993
 994
 995 //----------------------------------------------------------------------------
 996 void vvSlicerManager::Picked()
 997 {
 998   emit currentPickedImageChanged(mId);
 999 }
1000 //----------------------------------------------------------------------------
1001
1002
1003 //----------------------------------------------------------------------------
1004 void vvSlicerManager::UpdateWindowLevel()
1005 {
1006   emit WindowLevelChanged();
1007 }
1008 //----------------------------------------------------------------------------
1009
1010
1011 //----------------------------------------------------------------------------
1012 void vvSlicerManager::UpdateSlice(int slicer)
1013 {
1014   if (mPreviousSlice[slicer] == mSlicers[slicer]->GetSlice()) {
1015     //DD("============= NOTHING");
1016     return;
1017   }
1018   //std::cout << "vvSlicerManager::UpdateSlice " << slicer << " " << mSlicers[slicer]->GetSlice() << std::endl;
1019   emit UpdateSlice(slicer, mSlicers[slicer]->GetSlice());
1020   mSlicers[slicer]->Render(); // DS <-- I add this, this could/must be the only Render ...
1021   mPreviousSlice[slicer] = mSlicers[slicer]->GetSlice();
1022 }
1023 //----------------------------------------------------------------------------
1024
1025
1026 //----------------------------------------------------------------------------
1027 void vvSlicerManager::UpdateTSlice(int slicer)
1028 {
1029   int slice = mSlicers[slicer]->GetSlice();
1030   int tslice = mSlicers[slicer]->GetMaxCurrentTSlice();
1031   if (mPreviousSlice[slicer] == slice) {
1032     if (mPreviousTSlice[slicer] == tslice) {
1033       //      DD("************** NOTHING ***********");
1034       return;
1035     }
1036   }
1037   mPreviousSlice[slicer] = slice;
1038   mPreviousTSlice[slicer] = tslice;
1039   //std::cout << "vvSlicerManager::UpdateTSlice " << slicer << " " << tslice << std::endl;
1040   emit UpdateTSlice(slicer, tslice);
1041 }
1042 //----------------------------------------------------------------------------
1043
1044
1045 //----------------------------------------------------------------------------
1046 void vvSlicerManager::UpdateSliceRange(int slicer)
1047 {
1048   emit UpdateSliceRange(slicer,
1049                         mSlicers[slicer]->GetSliceRange()[0], mSlicers[slicer]->GetSliceRange()[1],
1050                         0,mSlicers[slicer]->GetTMax());
1051 }
1052 //----------------------------------------------------------------------------
1053
1054 //----------------------------------------------------------------------------
1055 void vvSlicerManager::SetSlicingPreset(SlicingPresetType preset)
1056 {
1057   if(mSlicingPreset==preset)
1058     return;
1059
1060   vtkMatrix4x4 *imageTransformInverse = vtkMatrix4x4::New();
1061   mImage->GetTransform()[this->GetTSlice()]->GetInverse(imageTransformInverse);
1062
1063   for(int i=0; i< this->GetNumberOfSlicers(); i++){
1064     vvSlicer *s = this->GetSlicer(i);
1065     switch(preset)
1066     {
1067     case WORLD_SLICING:
1068       s->GetSlicingTransform()->Identity();
1069       break;
1070     case VOXELS_SLICING:
1071       s->GetSlicingTransform()->SetMatrix(imageTransformInverse);
1072       break;
1073     default:
1074       imageTransformInverse->Delete();
1075       return;
1076     }
1077     s->ForceUpdateDisplayExtent();
1078     s->SetSlice((s->GetInput()->GetWholeExtent()[s->GetSliceOrientation()*2+1]
1079                 +s->GetInput()->GetWholeExtent()[s->GetSliceOrientation()*2])/2.0);
1080     s->ResetCamera();
1081     s->Render();
1082   }
1083
1084   imageTransformInverse->Delete();
1085   mSlicingPreset = preset;
1086 }
1087
1088 //----------------------------------------------------------------------------
1089
1090 //----------------------------------------------------------------------------
1091 void vvSlicerManager::SetPreset(int preset)
1092 {
1093   //vtkLookupTable* LUT = static_cast<vtkLookupTable*>(mSlicers[0]->GetWindowLevel()->GetLookupTable());
1094   double window = mSlicers[0]->GetColorWindow();
1095   double level = mSlicers[0]->GetColorLevel();
1096
1097   std::string component_type=mImage->GetScalarTypeAsITKString();
1098   switch (preset) {
1099   case 0:
1100     double range[2];
1101     mImage->GetScalarRange(range);
1102     window = range[1] - range[0];
1103     level = (range[1] + range[0])* 0.5;
1104     break;
1105   case 1:
1106     window = 2000;
1107     level = 0;
1108     break;
1109   case 2:
1110     window = 400;
1111     level = 20;
1112     break;
1113   case 3:
1114     window = 1500;
1115     level = -500;
1116     break;
1117   case 4:
1118     window = 1000;
1119     level = 500;
1120     break;
1121   case 5:
1122     window = 1;
1123     level = 0.5;
1124     break;
1125   case 6:
1126     break;
1127   case 7:
1128     window=1.;
1129     level=0.;
1130     break;
1131   }
1132   mPreset = preset;
1133   this->SetColorWindow(window);
1134   this->SetColorLevel(level);
1135
1136   //if (LUT)
1137   //{
1138   //    SetColorMap(-1);
1139   //}
1140 }
1141 //----------------------------------------------------------------------------
1142
1143
1144 //----------------------------------------------------------------------------
1145 void vvSlicerManager::SetLocalColorWindowing(const int slicer, const bool bCtrlKey)
1146 {
1147   double min, max;
1148   if(bCtrlKey && this->mSlicers[slicer]->GetFusion()) {
1149     int t = mSlicers[slicer]->GetFusionTSlice();
1150     this->mSlicers[slicer]->GetExtremasAroundMousePointer(min, max,
1151                                                           this->mSlicers[slicer]->GetFusion()->GetVTKImages()[t],
1152                                                           this->mSlicers[slicer]->GetConcatenatedFusionTransform());
1153     this->SetFusionWindow(max-min);
1154     this->SetFusionLevel(0.5*(min+max));
1155     this->SetColorMap(mColorMap);
1156   }
1157   else if(bCtrlKey && this->mSlicers[slicer]->GetOverlay()) {
1158     int t = mSlicers[slicer]->GetOverlayTSlice();
1159     this->mSlicers[slicer]->GetExtremasAroundMousePointer(min, max,
1160                                                           this->mSlicers[slicer]->GetOverlay()->GetVTKImages()[t],
1161                                                           this->mSlicers[slicer]->GetConcatenatedOverlayTransform());
1162     if(this->mSlicers[slicer]->GetLinkOverlayWindowLevel()){
1163       this->SetColorWindow(max-min);
1164       this->SetColorLevel(0.5*(min+max));
1165     } else {
1166       this->SetOverlayColorWindow(max-min);
1167       this->SetOverlayColorLevel(0.5*(min+max));
1168     }
1169   }
1170   else {
1171     int t = this->GetTSlice();
1172     this->mSlicers[slicer]->GetExtremasAroundMousePointer(min, max,
1173                                                           this->mSlicers[slicer]->GetImage()->GetVTKImages()[t],
1174                                                           this->mSlicers[slicer]->GetConcatenatedTransform());
1175     this->SetColorWindow(max-min);
1176     this->SetColorLevel(0.5*(min+max));
1177     this->SetPreset(6);
1178   }
1179   this->Render();
1180   this->UpdateWindowLevel();
1181 }
1182 //----------------------------------------------------------------------------
1183
1184
1185 //----------------------------------------------------------------------------
1186 void vvSlicerManager::SetColorMap(int colormap)
1187 {
1188   double range[2];
1189   range[0] = mSlicers[0]->GetInput()->GetScalarRange()[0];
1190   range[1] = mSlicers[0]->GetInput()->GetScalarRange()[1];
1191
1192   double window = mSlicers[0]->GetWindowLevel()->GetWindow();
1193   double level = mSlicers[0]->GetWindowLevel()->GetLevel();
1194
1195   vtkLookupTable* LUT = static_cast<vtkLookupTable*>(mSlicers[0]->GetWindowLevel()->GetLookupTable());
1196   switch (colormap) {
1197   case -1:
1198     break;
1199   case 0:
1200     LUT = NULL;
1201     break;
1202   case 1:
1203     if (LUT == NULL)
1204       LUT = vtkLookupTable::New();
1205     LUT->SetValueRange(0,1);
1206     LUT->SetSaturationRange(1,1);
1207     LUT->SetHueRange(0,0.18);
1208     break;
1209   case 2:
1210     if (LUT == NULL)
1211       LUT = vtkLookupTable::New();
1212     LUT->SetValueRange(0,1);
1213     LUT->SetSaturationRange(1,1);
1214     LUT->SetHueRange(0.4,0.80);
1215     break;
1216   case 3:
1217     if (LUT == NULL)
1218       LUT = vtkLookupTable::New();
1219     LUT->SetValueRange(0.5,1);
1220     LUT->SetSaturationRange(1,1);
1221     LUT->SetHueRange(0.666,0);
1222     break;
1223   case 4:
1224     if (LUT == NULL)
1225       LUT = vtkLookupTable::New();
1226     LUT->SetValueRange(1,1);
1227     LUT->SetSaturationRange(1,1);
1228     LUT->SetHueRange(0,1);
1229     LUT->SetAlphaRange(1, 1);
1230     break;
1231   case 5:
1232     if (LUT == NULL)
1233       LUT = vtkLookupTable::New();
1234     LUT->SetValueRange(1,1);
1235     LUT->SetSaturationRange(1,1);
1236     LUT->SetHueRange(1,0.1);
1237     //LUT->SetRampToLinear();
1238     break;
1239   }
1240   if (LUT) {
1241     LUT->SetTableRange(level-fabs(window)/2,level+fabs(window)/2);
1242     LUT->Build();
1243   }
1244   vtkWindowLevelLookupTable* fusLUT = NULL;
1245   if (mSlicers[0]->GetFusion()) { // && mFusionColorMap >= 0) {
1246     fusLUT = vtkWindowLevelLookupTable::New();
1247     double fusRange [2];
1248     fusRange[0] = mFusionLevel - mFusionWindow/2;
1249     fusRange[1] = mFusionLevel + mFusionWindow/2;
1250     double* frange = mFusionReader->GetOutput()->GetVTKImages()[0]->GetScalarRange();
1251     fusLUT->SetTableRange(frange);
1252     fusLUT->SetValueRange(1,1);
1253     fusLUT->SetSaturationRange(1,1);
1254     fusLUT->SetAlphaRange(1, 1);
1255     fusLUT->SetWindow(mFusionWindow);
1256     fusLUT->SetLevel(mFusionLevel);
1257     if (mFusionColorMap == 1)
1258       fusLUT->SetHueRange(0,0.18);
1259     else if (mFusionColorMap == 2)
1260       fusLUT->SetHueRange(0.4,0.80);
1261     else if (mFusionColorMap == 3)
1262     {
1263       fusLUT->SetHueRange(0.666, 0);
1264       fusLUT->SetValueRange(0.5, 1);
1265     }
1266     else if (mFusionColorMap == 4)
1267       fusLUT->SetHueRange(0,1);
1268     else if (mFusionColorMap <= 0)
1269     {
1270       fusLUT->SetValueRange(0,1);
1271       fusLUT->SetSaturationRange(0,0);
1272     }
1273
1274     fusLUT->ForceBuild();
1275     double v[4];
1276
1277     // set color table transparency
1278     //double alpha_range=(double)mFusionThresOpacity/10;
1279     double range_end = fusRange[0] + (double)mFusionThresOpacity*(fusRange[1] - fusRange[0])/100;
1280     double curr_value = fusRange[0];
1281     int nvalues = fusLUT->GetNumberOfTableValues();
1282     for (double i = 0; curr_value < range_end; i++) {
1283       fusLUT->GetTableValue(i, v);
1284       v[3] = 0;
1285       //if (curr_value >= -alpha_range && curr_value <= alpha_range) v[3] = pow(fabs(curr_value/alpha_range),2);
1286       //else v[3] = 1;
1287       fusLUT->SetTableValue(i, v);
1288       curr_value += (fusRange[1] - fusRange[0])/nvalues;
1289     }
1290   }
1291   for ( unsigned int i = 0; i < mSlicers.size(); i++) {
1292
1293     if (mSlicers[i]->GetOverlay()) {
1294       vtkLookupTable* supLUT = vtkLookupTable::New();
1295       supLUT->SetTableRange(range[0],range[1]);
1296       supLUT->SetValueRange(1,1);
1297       supLUT->SetSaturationRange(1,1);
1298       supLUT->SetHueRange(double(mOverlayColor)/360,double(mOverlayColor)/360);
1299       supLUT->Build();
1300       vtkLookupTable* invLUT = vtkLookupTable::New();
1301       invLUT->SetTableRange(range[0],range[1]);
1302       invLUT->SetValueRange(1,1);
1303       invLUT->SetSaturationRange(1,1);
1304       invLUT->SetHueRange(double((mOverlayColor+180)%360)/360,double((mOverlayColor+180)%360)/360);
1305       invLUT->Build();
1306       dynamic_cast<vvImageMapToWLColors*>(mSlicers[i]->GetWindowLevel())
1307         ->SetWindowLevelMode(true);
1308       mSlicers[i]->GetWindowLevel()->SetLookupTable(supLUT);
1309       mSlicers[i]->GetOverlayMapper()->SetLookupTable(invLUT);
1310       invLUT->Delete();
1311       supLUT->Delete();
1312     } else if (mSlicers[i]->GetOverlay()) {
1313       //dynamic_cast<vvImageMapToWLColors*>(mSlicers[i]->GetWindowLevel())
1314       //->SetWindowLevelMode(false);
1315       mSlicers[i]->GetWindowLevel()->SetLookupTable(LUT);
1316     } else {
1317       mSlicers[i]->GetWindowLevel()->SetLookupTable(LUT);
1318     }
1319
1320     if (mSlicers[i]->GetFusion()) {
1321       mSlicers[i]->ShowFusionLegend(mFusionShowLegend);
1322       mSlicers[i]->GetFusionMapper()->SetLookupTable(fusLUT);
1323       mSlicers[i]->GetFusionActor()->SetOpacity(double(mFusionOpacity)/100);
1324     }
1325   }
1326   if (fusLUT)
1327     fusLUT->Delete();
1328   if (colormap >= 0)
1329     mColorMap = colormap;
1330 }
1331 //----------------------------------------------------------------------------
1332
1333
1334 //----------------------------------------------------------------------------
1335 vvLandmarks* vvSlicerManager::GetLandmarks()
1336 {
1337   if (mLandmarks == NULL) {
1338     mLandmarks = new vvLandmarks(mSlicers[0]->GetTMax()+1);
1339     for (unsigned int i = 0; i < mSlicers.size(); i++)
1340       mSlicers[i]->SetLandmarks(mLandmarks);
1341   }
1342   return mLandmarks;
1343 }
1344 //----------------------------------------------------------------------------
1345
1346
1347 //----------------------------------------------------------------------------
1348 void vvSlicerManager::AddLandmark(float x,float y,float z,float t)
1349 {
1350   double x_index = (x - mSlicers[0]->GetInput()->GetOrigin()[0])/mSlicers[0]->GetInput()->GetSpacing()[0];
1351   double y_index = (y - mSlicers[0]->GetInput()->GetOrigin()[1])/mSlicers[0]->GetInput()->GetSpacing()[1];
1352   double z_index = (z - mSlicers[0]->GetInput()->GetOrigin()[2])/mSlicers[0]->GetInput()->GetSpacing()[2];
1353   if (x_index >= mSlicers[0]->GetInput()->GetWholeExtent()[0]-0.5 &&
1354       x_index <= mSlicers[0]->GetInput()->GetWholeExtent()[1]+0.5 &&
1355       y_index >= mSlicers[0]->GetInput()->GetWholeExtent()[2]-0.5 &&
1356       y_index <= mSlicers[0]->GetInput()->GetWholeExtent()[3]+0.5 &&
1357       z_index >= mSlicers[0]->GetInput()->GetWholeExtent()[4]-0.5 &&
1358       z_index <= mSlicers[0]->GetInput()->GetWholeExtent()[5]+0.5) {
1359     double value = this->GetScalarComponentAsDouble(mSlicers[0]->GetInput(), x_index, y_index, z_index);
1360     this->GetLandmarks()->AddLandmark(x,y,z,t,value);
1361     emit LandmarkAdded();
1362   }
1363 }
1364 //----------------------------------------------------------------------------
1365
1366 //----------------------------------------------------------------------------
1367 void vvSlicerManager::PrevImage(int slicer)
1368 {
1369   emit ChangeImageWithIndexOffset(this, slicer, -1);
1370 }
1371 //----------------------------------------------------------------------------
1372
1373 //----------------------------------------------------------------------------
1374 void vvSlicerManager::NextImage(int slicer)
1375 {
1376   emit ChangeImageWithIndexOffset(this, slicer,  1);
1377 }
1378 //----------------------------------------------------------------------------
1379
1380 //----------------------------------------------------------------------------
1381 void vvSlicerManager::VerticalSliderHasChanged(int slicer, int slice)
1382 {
1383   emit AVerticalSliderHasChanged(slicer, slice);
1384 }
1385
1386 //----------------------------------------------------------------------------
1387
1388 //----------------------------------------------------------------------------
1389 double vvSlicerManager::GetScalarComponentAsDouble(vtkImageData *image, double X, double Y, double Z, int component)
1390 {
1391   int ix, iy, iz;
1392   return mSlicers[0]->GetScalarComponentAsDouble(image, X, Y, Z, ix, iy, iz, component);
1393 }
1394 //----------------------------------------------------------------------------