src/creaImageIOGimmickView.cpp

   1 #include <creaImageIOGimmickView.h>
   2 #include <creaImageIOSystem.h>
   3 #include "boost/filesystem.hpp"
   4
   5 #if defined(USE_GDCM)
   6 #include <gdcmGlobal.h>
   7 #include <gdcmSerieHelper.h>
   8 #include <vtkGdcmReader.h>
   9 #endif
  10
  11 #if defined(USE_GDCM2)
  12 #include <vtkGDCMImageReader.h>
  13 #include "gdcmSystem.h"
  14 #include "gdcmCryptographicMessageSyntax.h"
  15 #include "gdcmUIDGenerator.h"
  16 #include "gdcmAnonymizer.h"
  17 #include "gdcmGlobal.h"
  18 #endif
  19
  20
  21 namespace fs = boost::filesystem;
  22 namespace creaImageIO
  23 {
  24
  25         ///Class used to represent the actual state of the image selected and to perform comparisons on its values
  26   class ImageExtent
  27   {
  28   public:
  29     ImageExtent(const std::string& x, const std::string& y, const std::string& z, const std::string& t)
  30         {
  31                 sscanf(x.c_str(),"%d",&mExtent[0]);
  32                 sscanf(y.c_str(),"%d",&mExtent[1]);
  33                 sscanf(z.c_str(),"%d",&mExtent[2]);
  34                 sscanf(t.c_str(),"%d",&mExtent[3]);
  35                 if(x==""){mExtent[0]=1;}
  36                 if(y==""){mExtent[1]=1;}
  37                 if(z==""){mExtent[2]=1;}
  38                 if(t==""){mExtent[3]=1;}
  39
  40                 if (mExtent[3]>1) mDim=4;
  41                 else if (mExtent[2]>1) mDim=3;
  42                 else if (mExtent[1]>1) mDim=2;
  43                 else if (mExtent[0]>1) mDim=1;
  44                 else mDim=0;
  45         }
  46
  47
  48         ///Clears the extent
  49     void Clear() { mExtent[0] = mExtent[1] = mExtent[2] = mExtent[3] = 1; }
  50
  51         ///Returns true if the two extents are compatible
  52     bool IsCompatible( const ImageExtent& );
  53
  54         ///Adds the extent passed as a parameter to the current extent
  55     void Add ( const ImageExtent& );
  56
  57         ///Returns the ieth position of the extent
  58     int Get(int i) { return mExtent[i]; }
  59
  60         ///Returns the dimension of the current image
  61     void SetDimension(int dim) { mDim=dim; }
  62
  63         ///Returns the dimension of the current image
  64     int GetDimension() { return mDim; }
  65
  66   private:
  67     int mExtent[4];
  68     int mDim;
  69   };
  70
  71   //======================================================================
  72
  73   //======================================================================
  74   // CTor
  75   GimmickView::GimmickView(boost::shared_ptr<Gimmick> gimmick, int threads)
  76     : mGimmick(gimmick),
  77           mReader(threads)
  78   {
  79     GimmickDebugMessage(1,"GimmickView::GimmickView"
  80                         <<std::endl);
  81         // Anciently started the threads ...
  82     // Threads now automatically start at first image request
  83     //mReader.Start();
  84
  85   }
  86   //======================================================================
  87
  88   //======================================================================
  89   /// Destructor
  90   GimmickView::~GimmickView()
  91   {
  92     GimmickDebugMessage(1,"GimmickView::~GimmickView"
  93                         <<std::endl);
  94   }
  95    //======================================================================
  96
  97   //======================================================================
  98   /// Initializes the view :
  99   /// Creates the TreeViews for all the TreeHandler of the Controller
 100   ///
 101   void GimmickView::Initialize()
 102   {
 103         mReaderStarted=false;
 104   }
 105   //======================================================================
 106
 107   //======================================================================
 108   /// Finalize
 109   void GimmickView::Finalize()
 110   {
 111   }
 112
 113   //======================================================================
 114
 115   //======================================================================
 116   /// Create the tree views
 117   void GimmickView::CreateTreeViews()
 118   {
 119     GimmickMessage(2,"Creating the tree views"<<std::endl);
 120     Gimmick::TreeHandlerMapType::const_iterator i;
 121     for (i = mGimmick->GetTreeHandlerMap().begin();
 122          i!= mGimmick->GetTreeHandlerMap().end();
 123          ++i)
 124       {
 125         this->CreateTreeView(i->second);
 126       }
 127   }
 128
 129   /// Create a tree view with a given name
 130   void GimmickView::CreateSingleTreeView(std::string &i_name)
 131   {
 132         this->CreateTreeView(mGimmick->GetTreeHandlerMap()[i_name]);
 133
 134   }
 135
 136
 137   //======================================================================
 138
 139   //======================================================================
 140   /// Updates the TreeView of given name from level l to bottom
 141   /// (calls the virtual method TreeView::Update())
 142   void GimmickView::UpdateTreeViewLevel(const std::string& t, int l)
 143   {
 144     TreeViewMapType::iterator i;
 145     i = GetTreeViewMap().find(t);
 146     if ( i == GetTreeViewMap().end() )
 147       {
 148         GimmickError("INTERNAL ERROR : GimmickView::UpdateTreeView : '"
 149                      <<t<<"' is not in TreeViewMap");
 150       }
 151     i->second->UpdateLevel(l);
 152   }
 153
 154   //======================================================================
 155   /// Clears the status and begins a new selection process
 156   void GimmickView::ResetExtent()
 157   {
 158           if(mImageExtent!=0)
 159           {
 160                   mImageExtent.reset();
 161           }
 162           valid=true;
 163   }
 164
 165   //======================================================================
 166
 167   //======================================================================
 168   bool ImageExtent::IsCompatible(const ImageExtent& ie)
 169   {
 170           bool compatible=true;
 171           ImageExtent * extent= (ImageExtent*)&ie;
 172           if((*extent).Get(0)!=Get(0)
 173                  || (*extent).Get(1)!=Get(1))
 174           {
 175                   compatible=false;
 176           }
 177           return compatible;
 178   }
 179
 180   //======================================================================
 181
 182   //======================================================================
 183   void ImageExtent::Add(const ImageExtent& ie)
 184   {
 185           ImageExtent * extent= (ImageExtent*)&ie;
 186           mExtent[2]+=(*extent).Get(2);
 187           if(mExtent[2]>1)
 188           {
 189           SetDimension(3);
 190           }
 191   }
 192
 193   //======================================================================
 194   /// No selected image
 195   bool GimmickView::NoValidateSelected ()
 196   {
 197         GimmickDebugMessage(2,"Validating selected"<<std::endl);
 198         std::string mMessage;
 199         mMessage="Cannot have 0 images selected!";
 200         valid=false;
 201         modifyValidationSignal(valid);
 202         SetMessage(mMessage);
 203         return valid;
 204   }
 205
 206   //======================================================================
 207   ///Validates the dimension compliance of the images with the maximum and
 208   ///minimum given, and between their sizes
 209   bool GimmickView::ValidateSelected (tree::Node* sel, int min_dim, int max_dim)
 210   {
 211         GimmickDebugMessage(2,"Validating selected"<<std::endl);
 212         std::string mMessage;
 213
 214         if(sel==0)
 215         {
 216                 mMessage="Cannot have 0 images selected!";
 217                 valid=false;
 218         }
 219         else
 220         {
 221                         boost::shared_ptr<ImageExtent> ie=boost::shared_ptr<ImageExtent>(new ImageExtent((*sel).GetAttribute("D0028_0010"),
 222                                                                         (*sel).GetAttribute("D0028_0011"),
 223                                                                         (*sel).GetAttribute("D0028_0012"),
 224                                                                         ""));
 225
 226         if(mImageExtent==0)
 227         {
 228                 mImageExtent=ie;
 229                 if((mImageExtent->Get(min_dim-1)<2)||(mImageExtent->Get(max_dim)>1))
 230                 {
 231                         valid=false;
 232                 }
 233                 else
 234                 {
 235                         std::stringstream out;
 236                         out << mImageExtent->GetDimension() << "D image " << mImageExtent->Get(0) << "x"<< mImageExtent->Get(1) << "x"<< mImageExtent->Get(2) <<" selected";
 237                         mMessage = out.str();
 238                         mImageExtent->SetDimension(2);
 239                         valid=true;
 240                 }
 241         }
 242         else
 243         {
 244                 if(mImageExtent->IsCompatible(*ie))
 245                 {
 246                         if(mImageExtent->GetDimension()==max_dim && mImageExtent->Get(max_dim)>2)
 247                         {
 248                                 std::stringstream out;
 249                                 out<<"Cannot add this image to selection : would result in a "<<mImageExtent->GetDimension()+1<<"D image!";
 250                                 mMessage=out.str();
 251                                 valid=false;
 252                         }
 253                         else if(max_dim<3)
 254                         {
 255                                 std::stringstream out;
 256                                 out<<"Selecting "<<mImageExtent->GetDimension()<<"D images is not allowed !";
 257                                 mMessage=out.str();
 258                                 valid=false;
 259                         }
 260                         else if(min_dim==3 && (ie->Get(2)+mImageExtent->Get(2))<2)
 261                         {
 262                                 std::stringstream out;
 263                                 out << "Cannot build the selection as it would result in a ";
 264                                 out << mImageExtent->GetDimension();
 265                                 out << "D image, and the minimum is ";
 266                                 out << min_dim;
 267                                 out << "D!";
 268                                 mMessage=out.str();
 269                                 valid=false;
 270                         }
 271                         else
 272                         {
 273                                 mImageExtent->Add(*ie);
 274                                 std::stringstream out;
 275                                 out << mImageExtent->GetDimension() << "D image " << mImageExtent->Get(0) << "x"<< mImageExtent->Get(1) << "x"<< mImageExtent->Get(2) <<" selected";
 276                                 mMessage = out.str();
 277                         }
 278                 }
 279                 else
 280                 {
 281                         mMessage="The selected images are not compatible.";
 282                         valid=false;
 283                 }
 284           }
 285         }
 286
 287         modifyValidationSignal(valid);
 288         SetMessage(mMessage);
 289         return valid;
 290   }
 291
 292   //======================================================================
 293   void GimmickView::modifyValidationSignal(bool ivalid)
 294   {
 295
 296           mValidationSignal(ivalid);
 297   }
 298
 299   void GimmickView::stopReader()
 300   {
 301           mReader.Stop();
 302   }
 303
 304    //======================================================================
 305   ///Reads Images (Non Threaded)
 306 void GimmickView::ReadImagesNotThreaded(std::vector<vtkImageData*>& s, std::vector<std::string> im, int dimension)
 307 {
 308         stopReader();
 309 /* remember!
 310
 311 #define GIMMICK_NO_IMAGE_SELECTION 0
 312 #define GIMMICK_2D_IMAGE_SELECTION 2
 313 #define GIMMICK_3D_IMAGE_SELECTION 3
 314 #define GIMMICK_4D_IMAGE_SELECTION 4
 315
 316 #define NATIVE 0
 317 #define _2D    2
 318 #define _3D    3
 319
 320 */
 321         // Create the output data
 322         if (im.size()==1)
 323         {
 324                 vtkImageData * out=vtkImageData::New();
 325                 out->ShallowCopy(mReader.GetImage(im.front()));
 326                 s.push_back(out);
 327         }
 328     else if (im.size()>1) // Test inutile ? JPR
 329         {
 330                 vtkImageData* first = mReader.GetImage( im.front());
 331                 if (dimension == 2)
 332                 {
 333                  // n3D
 334                     std::vector<std::string>::iterator it;
 335                         for (it=im.begin(); it!=im.end(); ++it)
 336                         {
 337                                 vtkImageData* out = vtkImageData::New();
 338                                 out->ShallowCopy(mReader.GetImage(*it));
 339                                 s.push_back(out);
 340                         }
 341                 }
 342                 else
 343                 {
 344                         // n*2D to 3D
 345                         vtkImageData* out = vtkImageData::New();
 346 //                      out->CopyStructure(first);
 347                         out->SetScalarType(first->GetScalarType());
 348                         out->SetNumberOfScalarComponents(first->GetNumberOfScalarComponents());
 349                         int ext[6];
 350                         //first->GetExtent(ext);  // JPR
 351                         first->GetWholeExtent(ext);  // renvoie egalement 0,0 en Z // JPR
 352
 353                         if(ext[5] == 0)
 354                         {
 355                                 ext[5] = im.size()-1;
 356                         }
 357                         else
 358                         {
 359                                 ext[5] = ext[5] * im.size()-1; // to deal with multiframes - JPR
 360                         }
 361                         out->SetExtent(ext);
 362
 363                         // LG : TODO : Z Spacing  ?
 364
 365                         int dim[3];
 366                         first->GetDimensions(dim);
 367
 368                         out->SetDimensions(dim[0], dim[1], im.size() );
 369                         out->AllocateScalars();
 370                         out->Update();
 371
 372                         unsigned long imsize = dim[0] * dim[1];
 373                         imsize = imsize * dim[2] ;  // deal with multiframes // JPR
 374
 375
 376 //EED 03-11-2009
 377                         // differents formats char , short, etc...
 378                         // differents components 1..3  ex. jpg ->RGB 3
 379                         imsize = imsize * first->GetScalarSize() * first->GetNumberOfScalarComponents();
 380
 381
 382                         // Order the file name vector
 383
 384                         double spc[3];
 385                         first->GetSpacing(spc);
 386
 387                         // OrderTheFileNameVector is not here anymore.
 388                         // Try orderFilesWithZSpacing from OutputModel FCY
 389                         // spc[2]=OrderTheFileNameVector(im);
 390                         spc[2] =1;
 391
 392                         out->SetSpacing(spc);
 393
 394                         int slice = 0;
 395                         std::vector<std::string>::iterator it;
 396
 397                         for (it=im.begin(); it!=im.end(); ++it)
 398                         {
 399                                 vtkImageData* cur = mReader.GetImage( (*it) );
 400                                 memcpy(out->GetScalarPointer(0,0,slice), cur->GetScalarPointer(0,0,0), imsize);
 401                                 slice++;
 402                         }
 403                         s.push_back(out);
 404
 405                 }  // dimension == 3
 406
 407         }  // size >1
 408
 409 }
 410   //======================================================================
 411
 412
 413
 414         //////////////////////////////////////////////////////////
 415         // Test if the image is a multiple or single frame.
 416         // For the moment only with the creation of vtkImageDta.
 417         // TO DO with image size and dim!!!
 418         //////////////////////////////////////////////////////////
 419         bool GimmickView::isSingle(const std::string i_file)
 420         {
 421                 bool bres = true;
 422                 vtkImageData* first = mReader.GetImage( i_file);
 423                 int dim[3];
 424                 first->GetDimensions(dim);
 425                 if (dim[2] > 1)
 426                 {
 427                         bres = false;
 428                 }
 429                 else
 430                 {
 431                 }
 432                 return bres;
 433         }
 434
 435         //////////////////////////////////////////////////////////
 436         // get Attributes values for a file
 437         //////////////////////////////////////////////////////////
 438
 439         void GimmickView::getAttributes(const std::string i_file, std::map<std::string, std::string> &o_infos, OutputAttr i_attr)
 440         {
 441                 if(i_attr.inside.size() >0)
 442                 {
 443                         mGimmick->GetAttributes(i_file,o_infos,i_attr);
 444                 }
 445                 if(i_attr.outside.size()>0)
 446                 {
 447                         mReader.getAttributes(i_file,o_infos, i_attr.outside);
 448                 }
 449         }
 450
 451         //////////////////////////////////////////////////////////
 452         // create an output structure with n entries = n output
 453         //////////////////////////////////////////////////////////
 454         void GimmickView::readImages1(std::vector<OutStrGimmick>& o_output, std::vector<std::string> im,
 455                          OutputAttr i_attr)
 456         {
 457                 std::vector<std::string>::iterator it;
 458                 for (it=im.begin(); it!=im.end(); ++it)
 459                 {
 460                         OutStrGimmick out;
 461                         out.img = vtkImageData::New();
 462                         out.img->ShallowCopy(mReader.GetImage(*it));
 463                         if(i_attr.mult)
 464                                 getAttributes((*it),out.infos,i_attr);
 465                         o_output.push_back(out);
 466                 }
 467                 // If we want only one output information structure, we set it outside the loop
 468                 if(!i_attr.mult)
 469                 {
 470                         getAttributes(im.front(), o_output.front().infos, i_attr);
 471                 }
 472
 473         }
 474
 475         //////////////////////////////////////////////////////////
 476         // create an output structure with n entries = 1 output
 477         //////////////////////////////////////////////////////////
 478         void GimmickView::readImages3(std::vector<OutStrGimmick>& o_output, std::vector<std::string> im,
 479                          OutputAttr i_attr, double i_zspc)
 480         {
 481                 OutStrGimmick out;
 482                 vtkImageData* first = mReader.GetImage( im.front());
 483                 out.img  = vtkImageData::New();
 484                 out.img->SetScalarType(first->GetScalarType());
 485                 out.img->SetNumberOfScalarComponents(first->GetNumberOfScalarComponents());
 486                 int ext[6];
 487                 first->GetWholeExtent(ext);  // send also 0,0 in Z
 488                 if(ext[5] == 0)
 489                 {
 490                         ext[5] = im.size()-1;
 491                 }
 492                 else
 493                 {
 494                         ext[5] = ext[5] * im.size()-1; // to deal with multiframes
 495                 }
 496                 out.img->SetExtent(ext);
 497                 int dim[3];
 498                 double spac[3];
 499                 first->GetDimensions(dim);
 500                 first->GetSpacing(spac);
 501                 out.img->SetSpacing(spac);
 502                 out.img->SetDimensions(dim[0], dim[1], im.size() );
 503                 out.img->AllocateScalars();
 504                 out.img->Update();
 505                 unsigned long imsize = dim[0] * dim[1];
 506                 imsize = imsize * dim[2] ;  // deal with multiframes here
 507                 // differents formats char , short, etc...
 508                 // differents components 1..3  ex. jpg ->RGB 3
 509                 imsize = imsize * first->GetScalarSize() * first->GetNumberOfScalarComponents();
 510                 // Order the file name vector already did with the OutputModel!!!
 511                 //!!!!out.img->SetSpacing(i_zspc);
 512                 int slice = 0;
 513                 std::vector<std::string>::iterator it;
 514                 for (it=im.begin(); it!=im.end(); ++it)
 515                 {
 516                         vtkImageData* cur = mReader.GetImage( (*it) );
 517                         memcpy(out.img->GetScalarPointer(0,0,slice), cur->GetScalarPointer(0,0,0), imsize);
 518                         slice++;
 519                 }
 520                 getAttributes(im.front(),out.infos, i_attr);
 521                 o_output.push_back(out);
 522         }
 523
 524
 525         // TO DO  NO VERY SURE : NEED TO BE TESTED
 526         //////////////////////////////////////////////////////////
 527         // create an output structure with n entries (T size) = T output (n size)
 528         //////////////////////////////////////////////////////////
 529         void GimmickView::readImages2(std::vector<OutStrGimmick>& o_output, std::vector<std::string> im,
 530                          OutputAttr i_attr, double i_zspc)
 531         {
 532                 vtkImageData* first = mReader.GetImage( im.front());
 533                 int dim[3];
 534                 double spac[3];
 535                 first->GetDimensions(dim);
 536                 first->GetSpacing(spac);
 537                 // differents formats char , short, etc...
 538                 // differents components 1..3  ex. jpg ->RGB 3
 539                 unsigned long imsize = dim[0] * dim[1];
 540                 imsize = imsize * first->GetScalarSize() * first->GetNumberOfScalarComponents();
 541
 542                 // Order the file name vector already did with the OutputModel!!!
 543                 std::vector<std::string>::iterator it;
 544                 std::vector<OutStrGimmick>::iterator it_out = o_output.begin();
 545
 546                 for (it=im.begin(); it!=im.end(); ++it, it_out += dim[2])
 547                 {
 548                         vtkImageData* cur = mReader.GetImage( (*it) );
 549                         for (int slice= 0 ; slice <dim[2]; slice++)
 550                         {
 551                                 OutStrGimmick out;
 552                                 out.img = vtkImageData::New();
 553                                 out.img->SetScalarType(first->GetScalarType());
 554                                 out.img->SetSpacing(spac);
 555                                 out.img->SetNumberOfScalarComponents(first->GetNumberOfScalarComponents());
 556                                 int ext[6];
 557                                 first->GetWholeExtent(ext);  // send also 0,0 in Z
 558                                 ext[5] = 0;
 559                                 out.img->SetExtent(ext);
 560
 561                                 out.img->SetDimensions(dim[0], dim[1], 1 );
 562                                 out.img->AllocateScalars();
 563                                 out.img->Update();
 564                                 memcpy(out.img->GetScalarPointer(0,0,0), cur->GetScalarPointer(0,0,slice), imsize);
 565                                 o_output.push_back(out);
 566                         }
 567                         if(i_attr.mult)
 568                                 getAttributes((*it),(*it_out).infos,i_attr);
 569                 }
 570                 if(!i_attr.mult)
 571                 {
 572                         getAttributes(im.front(), o_output.front().infos,i_attr);
 573                 }
 574
 575         }
 576
 577         //////////////////////////////////////////////////////////
 578         // create an output structure with n entries (T size) = T + n output
 579         //////////////////////////////////////////////////////////
 580         void GimmickView::readImages4(std::vector<OutStrGimmick>& o_output, std::vector<std::string> im,
 581                          OutputAttr i_attr)
 582         {
 583                 std::vector<std::string>::iterator it;
 584                 std::vector<OutStrGimmick>::iterator it_out = o_output.begin();
 585                 vtkImageData* first = mReader.GetImage( im.front());
 586                 int dim[3];
 587                 first->GetDimensions(dim);
 588
 589                 for (int slice= 0 ; slice <dim[2]; slice++)
 590                 {
 591                         OutStrGimmick out;
 592                         out.img = vtkImageData::New();
 593                         out.img->SetScalarType(first->GetScalarType());
 594                         out.img->SetNumberOfScalarComponents(first->GetNumberOfScalarComponents());
 595
 596                         int ext[6];
 597                         double spac[6];
 598                         first->GetWholeExtent(ext);  // send also 0,0 in Z
 599                         ext[5] = 0;
 600                         out.img->SetExtent(ext);
 601                         first->GetSpacing(spac);
 602                         out.img->SetSpacing(spac);
 603                         out.img->SetDimensions(dim[0], dim[1], im.size() );
 604                         out.img->AllocateScalars();
 605                         out.img->Update();
 606                         unsigned long imsize = dim[0] * dim[1];
 607                         imsize = imsize * first->GetScalarSize() * first->GetNumberOfScalarComponents();
 608                         int index = 0;
 609
 610                         for (it=im.begin(); it!=im.end(); ++it, index ++)
 611                         {
 612                                 vtkImageData* cur = mReader.GetImage( (*it) );
 613                                 memcpy(out.img->GetScalarPointer(0,0,index), cur->GetScalarPointer(0,0,slice), imsize);
 614                                 o_output.push_back(out);
 615                         }
 616                 }
 617                 if(!i_attr.mult) // No sense to take informations in all images
 618                 {
 619                         getAttributes(im.front(), o_output.front().infos,i_attr);
 620                 }
 621
 622         }
 623
 624
 625 //////////////////////////////////////////////////////////////////////////////////////////////////////////////
 626 // Global function to read Images and create wished output (informations, multiple, type and size of output...)
 627 // In function of type (file, vector) and size, the correct readImages function is selected
 628 //////////////////////////////////////////////////////////////////////////////////////////////////////////////
 629         void GimmickView::readImages(std::vector<OutStrGimmick>& o_output, std::vector<std::string> im,
 630                          OutputAttr i_attr, int i_dim, double i_zspc)
 631         {
 632                 int size = im.size();
 633                 if ( size == 0)
 634                 {
 635                         return;
 636                 }
 637                 else if (size == 1)
 638                 {
 639                         // Simplest case
 640                         // Only one image : give it
 641                         // But take in count multiframe possibility
 642                         if ( isSingle(im.front()) || i_dim != 1)
 643                         {
 644                                  readImages1(o_output,im, i_attr);
 645                         }
 646                         else
 647                         {
 648                                 readImages2(o_output,im, i_attr,i_zspc);
 649                         }
 650
 651                 }
 652                 else
 653                 {
 654                         // multiple or single frame
 655                         if ( isSingle(im.front()) )
 656                         {
 657                                 //we deal with 2D images
 658                                 if(i_dim == 1)
 659                                 {
 660                                         // 2D to 3D
 661                                         readImages3(o_output,im, i_attr,i_zspc);
 662                                 }
 663                                 else
 664                                 {
 665                                         readImages1(o_output,im, i_attr);
 666                                 }
 667                         }
 668                         else
 669                         {
 670                                 // we deal with multiple frames n x (2D x T)
 671                                 // Differents outputs are avaialable
 672                                 if(i_dim == 1)
 673                                 {
 674                                         // put all in one output
 675                                         readImages3(o_output,im, i_attr,i_zspc);
 676
 677                                 }
 678                                 else if( i_dim == 2)
 679                                 {
 680                                         // put in a vector of n x T (2D)
 681                                         readImages2(o_output,im, i_attr,i_zspc);
 682                                 }
 683                                 else if( i_dim == 3)
 684                                 {
 685                                         // put in a vector of n (2D x T)
 686                                         // No transformations.
 687                                         readImages1(o_output,im, i_attr);
 688                                 }
 689                                 else
 690                                 {
 691                                         // put in a vector of T (2D x n)
 692                                         readImages4(o_output,im, i_attr);
 693                                 }
 694                         }
 695                 }
 696         }
 697
 698
 699
 700 void GimmickView::ReadImagesNotThreadedInVector(std::vector<vtkImageData*>& s, std::vector<std::string> im, int dimension)
 701 {
 702         // Create the output data
 703         if (im.size()==1)
 704         {
 705                 // Only one image : give it
 706                 vtkImageData* out = vtkImageData::New();
 707                 GimmickDebugMessage(3, "State Check: Full Filename: "
 708                                                 <<im.front()
 709                                                 <<std::endl);
 710                 out->ShallowCopy(mReader.GetImage(im.front()));
 711                 s.push_back( out );
 712         }
 713         else if (im.size()>1) // Test inutile ? JPR
 714         {
 715                 /// \TODO fix unused variable 'first'
 716                 vtkImageData* first = mReader.GetImage( im.front());
 717                 if (dimension == 2)
 718                 {
 719                  // n3D
 720                   std::vector<std::string>::iterator it;
 721                         for (it=im.begin(); it!=im.end(); ++it)
 722                         {
 723                                 vtkImageData* out = vtkImageData::New();
 724                                 out->ShallowCopy(mReader.GetImage(*it));
 725                                 s.push_back(out);
 726                         }
 727                 }
 728                 else
 729                 {
 730                         // n2D to 3D // NO!
 731                         // n *2D + T in a vector :
 732
 733                         std::vector<std::string>::iterator it;
 734                         for (it=im.begin(); it!=im.end(); ++it)
 735                         {
 736                                 vtkImageData* out = mReader.GetImage( (*it));
 737                                 s.push_back(out);
 738                         }
 739                 }
 740         }
 741 }
 742   //======================================================================
 743
 744   //======================================================================
 745   ///Requests the reading of an image
 746   void GimmickView::RequestReading(tree::Node* n,
 747           int prio, int selection_index, boost::shared_ptr<ImagePointerHolder> p)
 748   {
 749           if(!mReaderStarted)
 750           {
 751                 mReader.Start();
 752                 mReaderStarted=true;
 753           }
 754     ImageEventType t(n,selection_index);
 755         t.pointerHolder = p;
 756     mImageEventMap[n->GetAttribute("FullFileName")] = t;
 757     mReader.Request(this,n->GetAttribute("FullFileName"),prio);
 758   }
 759   //======================================================================
 760
 761   //======================================================================
 762   void GimmickView::
 763   OnMultiThreadImageReaderEvent(const std::string& filename,
 764                                 MultiThreadImageReaderUser::EventType e,
 765                                 vtkImageData* image)
 766   {
 767     GimmickDebugMessage(7,
 768                         "MultiThreadImageReader event : "<<e<<std::endl);
 769         if (e==ImageLoaded)
 770         {
 771                 if (filename.size()==0)
 772                 {
 773                   //What to do in this case?
 774                   /*
 775                         GimmickDebugMessage(5,
 776                                         "Pushing unknown image in queue"
 777                                         <<std::endl);
 778                         mImageEventQueue.push_back(ImageEventType(image));*/
 779                         return;
 780                 }
 781                 ImageEventTypeMap::iterator i;
 782 //JCP 22-06-2009, test mImageEventMap.size() > 0
 783                 if(mImageEventMap.size()>0){
 784                         i = mImageEventMap.find(filename);
 785                         if (i!=mImageEventMap.end())
 786                         {
 787                                 GimmickDebugMessage(5,
 788                                                 "Putting image of file '"<<filename<<"' on pointer"
 789                                                 <<std::endl);
 790                                 ImageEventType ie(i->second);
 791                                 ie.image = image;
 792                                 ie.pointerHolder->Set(ie.image);
 793                                 //mImageEventMap.erase(i);
 794                         }
 795                 }
 796         }
 797         else if (e==Error)
 798         {
 799                 std::string mess="ERROR: MultiThreadImageReader: Cannot read image in file ";
 800                 mess+=filename;
 801                 mess+="\n";
 802                 GimmickMessage(1,mess);
 803                 ImageEventTypeMap::iterator i;
 804                 i = mImageEventMap.find(filename);
 805                 if (i!=mImageEventMap.end())
 806                 {
 807                 ImageEventType ie(i->second);
 808                 ie.image = image;
 809                 ie.pointerHolder->Set(GetDefaultImage());
 810                 //mImageEventMap.erase(i);
 811                 }
 812         }
 813
 814         else if (e==ImageUnloaded)
 815         {
 816                 std::string mess="Unloaded image in file ";
 817                 mess+=filename;
 818                 mess+="\n";
 819                 GimmickMessage(1,mess);
 820                                 ImageEventTypeMap::iterator i;
 821                 i = mImageEventMap.find(filename);
 822                 if (i!=mImageEventMap.end())
 823                 {
 824                 ImageEventType ie(i->second);
 825                 ie.image = image;
 826                 ie.pointerHolder->Set(GetDefaultImage());
 827                 //mImageEventMap.erase(i);
 828                 }
 829         }
 830   }
 831
 832   //====================================================================
 833
 834   //====================================================================
 835   void GimmickView::ConnectValidationObserver(ValidationCallbackType callback)
 836   {
 837     mValidationSignal.connect(callback);
 838   }
 839
 840
 841
 842 ////////////////////////////////////////////////////////////////////////
 843 //void GimmickView::Anonymize(std::vector<std::string> i_filenames, int type)
 844 //{
 845 //
 846 //      gdcm::FileMetaInformation::SetSourceApplicationEntityTitle( "gdcmanon" );
 847 //    gdcm::Global& g = gdcm::Global::GetInstance();
 848 //      //if( !resourcespath )
 849 // //   {
 850 //      //      const char *xmlpathenv = getenv("GDCM_RESOURCES_PATH");
 851 //      //      if( xmlpathenv )
 852 //      //        {
 853 //      //        // Make sure to look for XML dict in user explicitly specified dir first:
 854 //      //        xmlpath = xmlpathenv;
 855 //      //        resourcespath = 1;
 856 //      //        }
 857 // //   }
 858 // // if( resourcespath )
 859 // //   {
 860 // //   // xmlpath is set either by the cmd line option or the env var
 861 // //   if( !g.Prepend( xmlpath.c_str() ) )
 862 // //     {
 863 // //     std::cerr << "Specified Resources Path is not valid: " << xmlpath << std::endl;
 864 // //     return 1;
 865 // //     }
 866 // //   }
 867 //  // All set, then load the XML files:
 868 //  if( !g.LoadResourcesFiles() )
 869 //  {
 870 //    return ;
 871 //  }
 872 //  const gdcm::Defs &defs = g.GetDefs(); (void)defs;
 873 //  if( !rootuid )
 874 //    {
 875 //    // only read the env var if no explicit cmd line option
 876 //    // maybe there is an env var defined... let's check
 877 //    const char *rootuid_env = getenv("GDCM_ROOT_UID");
 878 //    if( rootuid_env )
 879 //      {
 880 //      rootuid = 1;
 881 //      root = rootuid_env;
 882 //      }
 883 //    }
 884 //  if( rootuid )
 885 //    {
 886 //    // root is set either by the cmd line option or the env var
 887 //    if( !gdcm::UIDGenerator::IsValid( root.c_str() ) )
 888 //      {
 889 //      std::cerr << "specified Root UID is not valid: " << root << std::endl;
 890 //      return 1;
 891 //      }
 892 //    gdcm::UIDGenerator::SetRoot( root.c_str() );
 893 //    }
 894 //
 895 //      if(type == 0)
 896 //      {
 897 //                 // Get private key/certificate
 898 //           gdcm::CryptographicMessageSyntax cms;
 899 //              if( !dumb_mode )
 900 //              {
 901 //                      if( !GetRSAKeys(cms, rsa_path.c_str(), cert_path.c_str() ) )
 902 //                      {
 903 //                              return 1;
 904 //                      }
 905 //                      cms.SetCipherType( ciphertype );
 906 //              }
 907 //
 908 //      // Setup gdcm::Anonymizer
 909 //      gdcm::Anonymizer anon;
 910 //              if( !dumb_mode )
 911 //              anon.SetCryptographicMessageSyntax( &cms );
 912 //
 913 //              if( dumb_mode )
 914 //              {
 915 //                      for(unsigned int i = 0; i < nfiles; ++i)
 916 //              {
 917 //              const char *in  = filenames[i].c_str();
 918 //              const char *out = outfilenames[i].c_str();
 919 //              if( !AnonymizeOneFileDumb(anon, in, out, empty_tags, remove_tags, replace_tags_value) )
 920 //        {
 921 //                      //std::cerr << "Could not anonymize: " << in << std::endl;
 922 //                      return 1;
 923 //              }
 924 //      }
 925 //    }
 926 //  //else
 927 //  //  {
 928 //  //  for(unsigned int i = 0; i < nfiles; ++i)
 929 //  //    {
 930 //  //    const char *in  = filenames[i].c_str();
 931 //  //    const char *out = outfilenames[i].c_str();
 932 //  //    if( !AnonymizeOneFile(anon, in, out) )
 933 //  //      {
 934 //  //      //std::cerr << "Could not anonymize: " << in << std::endl;
 935 //  //      return 1;
 936 //  //      }
 937 //  //    }
 938 //  //  }
 939 //      }
 940 //}
 941 //
 942 } // EO namespace creaImageIO