lib/kernel_ManagerContour_NDimensions/KernelManagerContour.cxx

   1 /*# ---------------------------------------------------------------------
   2 #
   3 # Copyright (c) CREATIS (Centre de Recherche en Acquisition et Traitement de l'Image
   4 #                        pour la Sant�)
   5 # Authors : Eduardo Davila, Frederic Cervenansky, Claire Mouton
   6 # Previous Authors : Laurent Guigues, Jean-Pierre Roux
   7 # CreaTools website : www.creatis.insa-lyon.fr/site/fr/creatools_accueil
   8 #
   9 #  This software is governed by the CeCILL-B license under French law and
  10 #  abiding by the rules of distribution of free software. You can  use,
  11 #  modify and/ or redistribute the software under the terms of the CeCILL-B
  12 #  license as circulated by CEA, CNRS and INRIA at the following URL
  13 #  http://www.cecill.info/licences/Licence_CeCILL-B_V1-en.html
  14 #  or in the file LICENSE.txt.
  15 #
  16 #  As a counterpart to the access to the source code and  rights to copy,
  17 #  modify and redistribute granted by the license, users are provided only
  18 #  with a limited warranty  and the software's author,  the holder of the
  19 #  economic rights,  and the successive licensors  have only  limited
  20 #  liability.
  21 #
  22 #  The fact that you are presently reading this means that you have had
  23 #  knowledge of the CeCILL-B license and that you accept its terms.
  24 # ------------------------------------------------------------------------ */
  25
  26
  27 //----------------------------------------------------------------------------------------------------------------
  28 // Class definition include
  29 //----------------------------------------------------------------------------------------------------------------
  30 #include "KernelManagerContour.h"
  31
  32
  33 KernelManagerContour::KernelManagerContour()
  34 {
  35 /**THIS ALL SHOULD BE IN AN OTHER LIB CALLED PERSISTANCE
  36 **
  37 **/
  38         inredo                          = 0;
  39         inundo                          = 0;
  40         time_t seconds;
  41         seconds                         = time (NULL);
  42         int time                        = seconds;
  43         stundoredo                      = "data/temp"+intToString(time);
  44         _currentIndex           = 0;
  45         _contourPropagation = NULL;
  46 #if(WIN32)
  47                 mkdir(stundoredo.c_str());
  48 #else
  49                 mkdir(stundoredo.c_str(),755);
  50 #endif
  51         stundoredo += "/cont";
  52 /**
  53 **  FINISH PERSISTANCE
  54 **/
  55 }
  56
  57 KernelManagerContour::KernelManagerContour(std::vector<vtkImageData*> images,std::string datadir,std::string tmpdir)
  58 {
  59 /**THIS ALL SHOULD BE IN AN OTHER LIB CALLED PERSISTANCE
  60 **
  61 **/
  62         inredo          = 0;
  63         inundo          = 0;
  64         time_t seconds;
  65         seconds         = time (NULL);
  66         int time        = seconds;
  67         stundoredo = tmpdir+"/temp"+intToString(time);
  68         _currentIndex = 0;
  69         _contourPropagation = NULL;
  70 #if(WIN32)
  71         mkdir(tmpdir.c_str());
  72         mkdir(stundoredo.c_str());
  73 #else
  74         mkdir(tmpdir.c_str(),755);
  75         mkdir(stundoredo.c_str(),755);
  76 #endif
  77         stundoredo += "/cont";
  78 /**
  79 **  FINISH PERSISTANCE
  80 **/
  81         setVectImages(images);
  82         initializeEnvironment(datadir);
  83 }
  84
  85 KernelManagerContour::~KernelManagerContour()
  86 {
  87 }
  88
  89 std::vector<vtkImageData*> KernelManagerContour::getVectImages()
  90 {
  91         return vectimages;
  92 }
  93
  94
  95 void KernelManagerContour::setVectImages(std::vector<vtkImageData*> vectimg)
  96 {
  97         double spc[3];
  98         std::vector<double> vectspc;
  99         for(int i = 0; i < (int)(vectimg.size()); i++)
 100         {
 101                 vtkImageData* img = vectimg[i];
 102                 vtkImageChangeInformation* change = vtkImageChangeInformation::New();
 103 //EED 2017-01-01 Migration VTK7
 104 #if VTK_MAJOR_VERSION <= 5
 105                 change->SetInformationInput(img);
 106                 change->SetInputConnection(img->GetProducerPort());
 107 #else
 108                 change->SetInputData(img);
 109 #endif
 110                 img->GetSpacing(spc);
 111                 change->SetOutputSpacing(1,1,1);
 112 //EED 18 fev 2014
 113                 change->SetOutputOrigin (0, 0, 0);
 114                 change->Update();
 115                 vectspc.clear();
 116                 vectspc.push_back(spc[0]);
 117                 vectspc.push_back(spc[1]);
 118                 vectspc.push_back(spc[2]);
 119                 vectimagesSpacing.push_back(vectspc);
 120                 vectimg[i] = change->GetOutput();
 121         } // for i
 122         vectimages = vectimg;
 123 }
 124
 125 void KernelManagerContour::GetSpacing(double *vecspc, int iImage)
 126 {
 127         vecspc[0]=vectimagesSpacing[iImage][0];
 128         vecspc[1]=vectimagesSpacing[iImage][1];
 129         vecspc[2]=vectimagesSpacing[iImage][2];
 130 }
 131
 132 void KernelManagerContour::initializeEnvironment(std::string datadir)
 133 {
 134         _datadir = datadir;
 135         std::string conceptsFN                  =  datadir+"holaConceptsFile.cf";
 136         std::string imageSourcesFN              =  datadir+"holaImagesInstantsFile.of";
 137         std::string imageSectionsFN             = "";
 138         std::string axeThingsFN                 = "";
 139
 140         std::map<std::string, ImageSourceThing *> * sourcesMap          = new std::map<std::string, ImageSourceThing *>();
 141         std::map<std::string, ImageSectionThing *>* sectionsMap         = new std::map<std::string, ImageSectionThing *>();
 142         std::map<std::string, AxeThing *>* axesMap                                      = new std::map<std::string, AxeThing *>();
 143         std::map<std::string, ContourThing *>* outlinesMap                      = new std::map<std::string, ContourThing *>();
 144
 145         for(int i = 0; i < (int)(vectimages.size()); i++)
 146         {
 147                 vtkImageData* selectedimage = vectimages[i];
 148                 ImageSourceThing * thing                                                                = new ImageSourceThing(selectedimage);
 149                 std::string imgstring = "Source Image "+intToString(i+1);
 150                 sourcesMap->insert(std::pair<std::string, ImageSourceThing *>( imgstring, thing));
 151         } // for
 152
 153         OutlineModelBuilder * _builder                                                          = new OutlineModelBuilder( conceptsFN ,datadir);
 154         _builder->buildImageSource_Envornment( imageSourcesFN, sourcesMap );
 155         _builder->buildImageSection_Envornment( imageSectionsFN, sectionsMap );
 156         _builder->buildAxe_Envornment(axeThingsFN, axesMap );
 157         _builder->buildCountour_Envornment( imageSectionsFN, outlinesMap );
 158         //Creating the objects to manage
 159         modelManager                            = new OutlineModelManager( _builder->getImSourceEnv(), _builder->getImSectionEnv(), _builder->getAxesEnv(),  _builder->getContourEnv() );
 160         imageSource     = modelManager->getImageSourceThingByKeyName( "Source Image 1" );
 161 }
 162
 163 vtkImageData* KernelManagerContour::getSourceImage()
 164 {
 165         return imageSource->getSourceImage();
 166 }
 167
 168 OutlineModelManager* KernelManagerContour::getOutlineModelManager()
 169 {
 170         return modelManager;
 171 }
 172
 173 std::string KernelManagerContour::createOutline(manualBaseModel * manModelContour,std::vector<int> instantVector)
 174 {
 175         return modelManager->createOutline( manModelContour, instantVector );
 176 }
 177
 178 std::string KernelManagerContour::intToString(int num)
 179 {
 180         std::string result;
 181         if(num == 0)
 182         {
 183                 result = "0";
 184         }else{
 185                 int k=num;
 186                 while (k > 0)
 187                 {
 188                         char temp = k % 10 + 48;
 189                         k = k / 10;
 190                         result = temp + result;
 191                 } // while
 192         } // if num
 193         return result;
 194 }
 195
 196 std::vector<std::string> KernelManagerContour::GetLstNameThingsStatic()
 197 {
 198         return modelManager->GetLstNameThingsStatic();
 199 }
 200
 201 void KernelManagerContour::SaveThingName(FILE* pFile, FILE *pFileData, std::string name )
 202 {
 203         modelManager->SaveThingName(pFile, pFileData, name);
 204 }
 205
 206 std::vector<std::string> KernelManagerContour::GetLstNameThings()
 207 {
 208         return modelManager->GetLstNameThings();
 209 }
 210
 211 //int KernelManagerContour::IsPartOfStaticList(std::string keyName ){
 212 //      return modelManager->IsPartOfStaticList(keyName);
 213 //}
 214
 215 bool KernelManagerContour::IsPartOfStaticList(std::string theKeyName)
 216 {
 217         return modelManager->IsPartOfStaticList(theKeyName) == -1;
 218 }
 219
 220 void KernelManagerContour::deleteCModel(std::string theKeyName)
 221 {
 222         manualBaseModel* cModel         = modelManager->getOutlineByKeyName(theKeyName)->getModel();
 223         modelManager->removeOutline( theKeyName );
 224         delete cModel;
 225 }
 226
 227 void KernelManagerContour::removeAllOutlines()
 228 {
 229         modelManager->removeAllOutlines();
 230 }
 231
 232 std::vector<NameWrapper *> KernelManagerContour::getActualInstantOutlines()
 233 {
 234         return modelManager->getActualInstantOutlines();
 235 }
 236
 237 int KernelManagerContour::getNamesWrappingSize()
 238 {
 239         return getActualInstantOutlines().size();
 240 }
 241
 242 std::string KernelManagerContour::getNameWrapping(int i)
 243 {
 244         return getActualInstantOutlines()[i]->getKeyName();
 245 }
 246
 247 void KernelManagerContour::setInstant(Instant * theInstant)
 248 {
 249         modelManager->setInstant(theInstant);
 250         //_actualInstant = theInstant;
 251 }
 252
 253 Instant * KernelManagerContour::getCurrentInstant()
 254 {
 255         return modelManager->getInstant();
 256 }
 257
 258 void KernelManagerContour::setInstant(std::vector<int> vectInstant)
 259 {
 260         Instant* act = new Instant ( &vectInstant );
 261         modelManager->setInstant(act);
 262 }
 263
 264 std::string KernelManagerContour::createCopyContourOf ( std::string anExistingKName, std::vector<int> &instantNoTouchData)
 265 {
 266         return modelManager->createCopyContourOf(anExistingKName, instantNoTouchData);
 267 }
 268
 269 manualBaseModel* KernelManagerContour::getOutlineByKeyName(std::string cloneName)
 270 {
 271         return modelManager->getOutlineByKeyName (cloneName )->getModel();
 272 }
 273
 274 bool KernelManagerContour::onRedo(std::string& filename)
 275 {
 276         if(inredo > 0)
 277         {
 278                 inredo--;
 279                 inundo++;
 280                 std::string str = intToString(inundo);
 281                 filename = stundoredo + str + ".roi";
 282                 //loadState(temp);
 283                 return true;
 284         } // inredo
 285         return false;
 286 }
 287
 288 bool KernelManagerContour::onUndo(std::string& filename)
 289 {
 290         if(inundo>0)
 291         {
 292                 inredo++;
 293                 inundo--;
 294                 //char str[9000];
 295                 //itoa(inundo, str, 10);
 296                 std::string str = intToString(inundo);
 297                 filename = stundoredo + str + ".roi";
 298                 return true;//loadState(temp);
 299         }
 300         return false;
 301 }
 302
 303 std::string KernelManagerContour::saveState()
 304 {
 305         inredo=0;
 306         std::string str = intToString(inundo);
 307         std::string temp = stundoredo + str + ".roi";
 308         inundo++;
 309         return temp;
 310 }
 311
 312 bool KernelManagerContour::onUndoSaveFile(std::string& filename)
 313 {
 314         if(inundo>0)
 315         {
 316                 if(inredo==0)
 317                 {
 318                         //char str[9000];
 319                         //itoa(inundo, str, 10);
 320                         std::string str = intToString(inundo);
 321                         filename = stundoredo + str + ".roi";
 322                         return true;
 323                         //saveFileWithContours(temp);
 324                 }  // if inundo  ==0
 325         }  // if inundo > 0
 326         return false;
 327 }
 328
 329 void KernelManagerContour :: changeContourOfManager(std::string keyName, Instant *instant)
 330 {
 331         modelManager->ChangeContourOfList(keyName, instant);
 332 }
 333
 334 void KernelManagerContour ::resetAppend()
 335 {
 336     if (_contourPropagation!=NULL)
 337         {
 338                 _contourPropagation->resetAppend();
 339         }
 340 }
 341
 342
 343 std::string KernelManagerContour::onSpreadAdd( std::vector<double> *vecX, std::vector<double> *vecY, std::vector<double> *vecZ, std::vector<int> instants)
 344 {
 345     if (_contourPropagation==NULL)
 346     {
 347                 _contourPropagation = new ContourPropagation();
 348     }
 349     if (vecX->size()!=0)
 350         {
 351         int i,size=vecZ->size();
 352         int actualSlice = instants[1];
 353         for ( i=0 ; i<size ; i++ )
 354         {
 355             (*vecZ)[i] = actualSlice;
 356         } // for
 357         _contourPropagation->appendContour(vecX , vecY , vecZ);
 358         return intToString(actualSlice);
 359     }
 360         return "";
 361 }
 362
 363 void KernelManagerContour::getMaxMinZ(double *minZ,double *maxZ)
 364 {
 365     if (_contourPropagation!=NULL)
 366         {
 367                 _contourPropagation->getMaxMinZ(minZ, maxZ);
 368         }
 369 }
 370
 371 void KernelManagerContour::CalculeSplinePropagation()
 372 {
 373         _contourPropagation->setInterpolationNumber(100);
 374         _contourPropagation->CalculeSplinePropagation();
 375 }
 376
 377 manualBaseModel* KernelManagerContour::GetPoints(int z,int type, std::vector<double>* vecCtrlPointX,std::vector<double>* vecCtrlPointY,std::vector<double>* vecCtrlPointZ, std::string& theName,int typeofcontour, std::vector<int> tempVector)
 378 {
 379         bool addedModel = false;
 380         manualBaseModel* manModelContour=NULL;
 381         if (_contourPropagation->ifSliceKeyContourExist(z)==false)
 382         {
 383                 manModelContour = factoryManualContourModel( typeofcontour );
 384                 int idTmp = _contourPropagation->FindIdWithZ(z);
 385                 if (type==0) // Initial Points
 386                 {
 387                         _contourPropagation->GetInitialControlPoints( idTmp , vecCtrlPointX,vecCtrlPointY,vecCtrlPointZ);
 388                 }
 389                 if (type==1)  // Automatique Method
 390                 {
 391                         _contourPropagation->GetControlPoints( idTmp  ,vecCtrlPointX,vecCtrlPointY,vecCtrlPointZ);
 392                 }
 393                 if (type==2)  // sampling
 394                 {
 395                         _contourPropagation->GetControlPoints( idTmp , 20.0 ,vecCtrlPointX,vecCtrlPointY,vecCtrlPointZ);
 396                 }
 397 //--------------------------------------------------------------------
 398                 int sizeCtrPt = vecCtrlPointX->size();
 399                 for (int j=0 ; j<sizeCtrPt ; j++)
 400                 {
 401 //JSTG_16-07-08_----------------------------------------------------------------
 402                         manModelContour->AddPoint( (*vecCtrlPointX)[j] , (*vecCtrlPointY)[j] , -900  );
 403 //--------------------------------------------------------------------
 404                 } // for j
 405                 tempVector[1]=z;
 406                 theName = modelManager->createOutline( manModelContour, tempVector );
 407                 addedModel = theName.compare("") != 0;
 408                 if(!addedModel)
 409                 {
 410                         manModelContour = NULL;
 411                 }
 412         }// ifSliceKeyContourExist
 413         return manModelContour;
 414 }
 415
 416 manualBaseModel *KernelManagerContour::factoryManualContourModel(int typeContour)
 417 {
 418         manualBaseModel *manModelContour=NULL;
 419         // Creating the model
 420         // NOTE: The view and the controler are created in the wxVtkBaseView_SceneManager class, configureViewControlTo method
 421         // spline
 422         if (typeContour==0)
 423         {
 424                 manModelContour = new manualContourModel();
 425         }
 426         // spline
 427         if (typeContour==1)
 428         {
 429                 manModelContour = new manualContourModel();
 430         }
 431         // rectangle
 432         if (typeContour==2)
 433         {
 434                 manModelContour = new manualContourModelRoi();
 435         }
 436         // circle
 437         if (typeContour==3)
 438         {
 439                 manModelContour = new manualContourModelCircle();
 440         }
 441         // line
 442         if (typeContour==6)
 443         {
 444                 manModelContour = new manualContourModelLine();
 445         }
 446         // points
 447         if (typeContour==7)
 448         {
 449                 manModelContour = new manualBaseModel();
 450         }
 451         // polygon
 452         if (typeContour==10)
 453         {
 454                 manModelContour = new manualContourModelPolygon();
 455         }
 456         return manModelContour;
 457 }
 458
 459 std::vector<std::string> KernelManagerContour::getOutlinesNameAtInstant(std::vector<int> tempvector){
 460         Instant instant(&tempvector);
 461         std::vector<ContourThing**> vectcont = modelManager->getOutlinesAtInstant( &instant );
 462         std::vector<std::string> vectname;
 463         for(int i = 0; i < (int)(vectcont.size()); i++){
 464                 ContourThing **contourthing = vectcont[i];
 465                 vectname.push_back((*contourthing)->getName());
 466         }
 467     return vectname;
 468 }
 469
 470 std::vector<ContourThing**> KernelManagerContour::getOutlinesAtInstant(Instant* instant ){
 471         return modelManager->getOutlinesAtInstant(instant);
 472 }
 473
 474 std::vector<manualBaseModel*> KernelManagerContour::ExploseEachModel( std::vector<manualBaseModel*> lstManConMod ){
 475         std::vector<manualBaseModel*> lstTmp;
 476         std::vector<manualBaseModel*> lstResult;
 477         int j,jSize;
 478         int i,iSize=lstManConMod.size();
 479         for (i=0;i<iSize;i++)
 480         {
 481                 lstTmp = lstManConMod[i]->ExploseModel();
 482                 jSize=lstTmp.size();
 483                 for (j=0;j<jSize;j++)
 484                 {
 485                         lstResult.push_back( lstTmp[j] );
 486                 }
 487         }
 488         return lstResult;
 489 }
 490
 491 void KernelManagerContour::getConceptsInformation(std::vector<std::string>& conceptNameVect, std::vector<int>& conceptSizeVect){
 492         modelManager-> getConceptsInformation(conceptNameVect, conceptSizeVect);
 493 }
 494
 495
 496 vtkImageData* KernelManagerContour::getImageAtInstant(std::vector<int> inst){
 497         int index = inst[5]-1;
 498
 499         if(index < (int)(vectimages.size())&&index!=_currentIndex){
 500                 _currentIndex=index;
 501                 return vectimages[index];
 502         }
 503         return NULL;
 504 }
 505
 506 std::string KernelManagerContour::getCurrentFileName(){
 507         return filename;
 508 }
 509
 510 void KernelManagerContour::setCurrentFileName(std::string filenam){
 511         this->filename = filenam;
 512 }
 513
 514 std::string KernelManagerContour::parseOsirixFile(std::string filename){
 515
 516
 517 #ifdef ParserOsirix_BUILD
 518         vtkImageData* sourceimage;
 519         std::string xsdfile;
 520
 521         xsdfile = _datadir;
 522
 523         xsdfile.append("\\XML\\osirixschema.xsd");
 524
 525         sourceimage = getSourceImage();
 526         OsirixParser p(xsdfile.c_str(), sourceimage->GetSpacing(), sourceimage->GetExtent());
 527
 528         if(p.ParseFile(filename.c_str())!= 0){
 529
 530         }
 531
 532         return p.getContoursFileName();
 533 #else
 534         return "";
 535 #endif
 536
 537
 538 }
 539
 540