Example/ToInTag.cxx

   1 /*=========================================================================
   2
   3   Program:   gdcm
   4   Module:    $RCSfile: ToInTag.cxx,v $
   5   Language:  C++
   6   Date:      $Date: 2006/06/07 12:23:25 $
   7   Version:   $Revision: 1.4 $
   8
   9   Copyright (c) CREATIS (Centre de Recherche et d'Applications en Traitement de
  10   l'Image). All rights reserved. See Doc/License.txt or
  11   http://www.creatis.insa-lyon.fr/Public/Gdcm/License.html for details.
  12
  13      This software is distributed WITHOUT ANY WARRANTY; without even
  14      the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR
  15      PURPOSE.  See the above copyright notices for more information.
  16
  17 =========================================================================*/
  18 #include "gdcmDocEntry.h"
  19 #include "gdcmDicomDir.h"
  20 #include "gdcmDicomDirPatient.h"
  21 #include "gdcmFile.h"
  22 #include "gdcmFileHelper.h"
  23 #include "gdcmDirList.h"
  24 #include "gdcmDebug.h"
  25 #include "gdcmArgMgr.h"
  26 #include "gdcmUtil.h"
  27 #include "gdcmSerieHelper.h"
  28
  29 #include <iostream>
  30
  31 /**
  32   * \brief
  33   *          - explores recursively the given directory
  34   *          - keeps the requested series
  35   *          - orders the gdcm-readable found Files
  36   *            according to their Patient/Study/Serie/Image characteristics
  37   *          - fills a single level Directory with *all* the files,
  38   *            converted into a Brucker-like Dicom, Intags compliant
  39   */
  40
  41 typedef std::map<std::string, gdcm::File*> SortedFiles;
  42
  43 int main(int argc, char *argv[])
  44 {
  45    START_USAGE(usage)
  46    " \n ToInTag :\n                                                           ",
  47    " - explores recursively the given directory,                              ",
  48    " - keeps the requested series/ drops the unrequested series               ",
  49    " - orders the gdcm-readable found Files according to their                ",
  50    "           (0x0010, 0x0010) Patient's Name                                ",
  51    "           (0x0020, 0x000e) Series Instance UID                           ",
  52    "           (0x0020, 0x0032) Image Position (Patient)                      ",
  53    "           (0x0018, 0x1060) Trigger Time                                  ",
  54    "           (0x0018, 0x1312) In-plane Phase Encoding Direction             ",
  55    " - fills a single level (*) Directory with *all* the files,               ",
  56    "           converted into a Brucker-like Dicom, InTags compliant          ",
  57    "   (*) actually : creates as many directories as Patients                 ",
  58    "                  -that shouldn't appear, but being carefull is better ! -",
  59    " or                                                                       ",
  60    " - fills a tree-like structure of directories as :                        ",
  61    "        - Patient                                                         ",
  62    "        -- Serie                                                          ",
  63    "        --- Position                                                      ",
  64    "            Images are (sorted by Trigger Time /                          ",
  65    "                     Encoding Direction (Row, Column)                     ",
  66    "      use :                                                               ",
  67    "           0x0021, 0x1020 : 'SLICE INDEX'                                 ",
  68    "           0x0021, 0x1040 : 'FRAME INDEX'                                 ",
  69    "           0x0020, 0x0012 : 'SESSION INDEX'  (Acquisition Number)         ",
  70    " usage:                                                                   ",
  71    " PhilipsToBrucker dirin=rootDirectoryName                                 ",
  72    "                  dirout=outputDirectoryName                              ",
  73    "                  {  [keep= list of seriesNumber to process]              ",
  74    "                   | [drop= list of seriesNumber to ignore] }             ",
  75    "                  [taggrid] [skel]                                        ",
  76    "                  [input = {ACR|DCM}]                                     ",
  77    "                  [extent=image suffix (.IMA, .NEMA, .DCM, ...)]          ",
  78    "                  [listonly] [split]                                      ",
  79    "                  [noshadowseq][noshadow][noseq] [verbose] [debug]        ",
  80    "                                                                          ",
  81    " dirout : will be created if doesn't exist                                ",
  82    " keep : if user wants to process a limited number of series               ",
  83    "            he gives the list of 'SeriesNumber' (tag 0020|0011)           ",
  84    " drop : if user wants to ignore a limited number of series                ",
  85    "            he gives the list of 'SeriesNumber' (tag 0020|0011)           ",
  86    "        SeriesNumber are short enough to be human readable                ",
  87    "        e.g : 1030,1035,1043                                              ",
  88    " taggrid : user knows all the images are 'grid' -ie : not 'col', not 'raw'",
  89    " extent : DO NOT forget the leading '.' !                                 ",
  90    " skel: name skeleton eg : patName_1.nema -> skel=patName_                 ",
  91    " split: creates a tree-like structure of directories as :                 ",
  92    "        - Patient                                                         ",
  93    "        -- Serie                                                          ",
  94    "        --- Position                                                      ",
  95    "            Images are (sorted by Trigger Time /                          ",
  96    "                     Encoding Direction (Row, Column)                     ",
  97    " noshadowseq: user doesn't want to load Private Sequences                 ",
  98    " noshadow : user doesn't want to load Private groups (odd number)         ",
  99    " noseq    : user doesn't want to load Sequences                           ",
 100    " verbose  : user wants to run the program in 'verbose mode'               ",
 101    " debug    : *developer*  wants to run the program in 'debug mode'         ",
 102    FINISH_USAGE
 103
 104    std::cout << "inside ToInTag" << std::endl;
 105
 106    // ----- Initialize Arguments Manager ------
 107
 108    gdcm::ArgMgr *am = new gdcm::ArgMgr(argc, argv);
 109
 110    if (argc == 1 || am->ArgMgrDefined("usage"))
 111    {
 112       am->ArgMgrUsage(usage); // Display 'usage'
 113       delete am;
 114       return 0;
 115    }
 116
 117    const char *dirNamein;
 118    dirNamein  = am->ArgMgrGetString("dirin",".");
 119
 120    const char *dirNameout;
 121    dirNameout  = am->ArgMgrGetString("dirout",".");
 122
 123    int loadMode = gdcm::LD_ALL;
 124    if ( am->ArgMgrDefined("noshadowseq") )
 125       loadMode |= gdcm::LD_NOSHADOWSEQ;
 126    else
 127    {
 128    if ( am->ArgMgrDefined("noshadow") )
 129          loadMode |= gdcm::LD_NOSHADOW;
 130       if ( am->ArgMgrDefined("noseq") )
 131          loadMode |= gdcm::LD_NOSEQ;
 132    }
 133
 134    if (am->ArgMgrDefined("debug"))
 135       gdcm::Debug::DebugOn();
 136
 137    int verbose  = am->ArgMgrDefined("verbose");
 138    int split    = am->ArgMgrDefined("split");
 139    int listonly = am->ArgMgrDefined("listonly");
 140
 141    int nbSeriesToKeep;
 142    int *seriesToKeep = am->ArgMgrGetListOfInt("keep", &nbSeriesToKeep);
 143    int nbSeriesToDrop;
 144    int *seriesToDrop = am->ArgMgrGetListOfInt("drop", &nbSeriesToDrop);
 145
 146    if ( nbSeriesToKeep!=0 && nbSeriesToDrop!=0)
 147    {
 148       std::cout << "KEEP and DROP are mutually exclusive !" << std::endl;
 149       delete am;
 150       return 0;
 151    }
 152
 153    int taggrid = am->ArgMgrDefined("taggrid");
 154
 155    int hasSkel = am->ArgMgrDefined("skel");
 156    const char *skel;
 157    if (hasSkel)
 158       skel = am->ArgMgrGetString("skel");
 159
 160    const char *extent  = am->ArgMgrGetString("extent",".DCM");
 161
 162    // if unused Param we give up
 163    if ( am->ArgMgrPrintUnusedLabels() )
 164    {
 165       am->ArgMgrUsage(usage);
 166       delete am;
 167       return 0;
 168    }
 169    delete am;  // we don't need Argument Manager any longer
 170
 171    // ----- Begin Processing -----
 172
 173    if ( ! gdcm::DirList::IsDirectory(dirNamein) )
 174    {
 175       std::cout << "KO : [" << dirNamein << "] is not a Directory." << std::endl;
 176       return 0;
 177
 178    }
 179    else
 180    {
 181       std::cout << "OK : [" << dirNamein << "] is a Directory." << std::endl;
 182    }
 183
 184    std::string systemCommand;
 185
 186    std::cout << "Check for output directory :[" << dirNameout << "]."
 187              <<std::endl;
 188    if ( ! gdcm::DirList::IsDirectory(dirNameout) )    // dirout not found
 189    {
 190       std::string strDirNameout(dirNameout);          // to please gcc 4
 191       systemCommand = "mkdir " +strDirNameout;        // create it!
 192       if (verbose)
 193          std::cout << systemCommand << std::endl;
 194       system (systemCommand.c_str());
 195       if ( ! gdcm::DirList::IsDirectory(dirNameout) ) // be sure it worked
 196       {
 197           std::cout << "KO : not a dir : [" << dirNameout << "] (creation failure ?)" << std::endl;
 198       return 0;
 199
 200       }
 201       else
 202       {
 203         std::cout << "Directory [" << dirNameout << "] created." << std::endl;
 204       }
 205    }
 206    else
 207    {
 208        std::cout << "Output Directory [" << dirNameout << "] already exists; Used as is." << std::endl;
 209    }
 210
 211    std::string strDirNamein(dirNamein);
 212    gdcm::DirList dirList(strDirNamein, true); // get recursively the list of files
 213
 214    if (listonly)
 215    {
 216       std::cout << "------------List of found files ------------" << std::endl;
 217       dirList.Print();
 218    }
 219
 220    gdcm::DirListType fileNames;
 221    fileNames = dirList.GetFilenames();
 222    gdcm::SerieHelper *s;              // Needed only to may use SerieHelper::AddSeriesDetail()
 223    s = gdcm::SerieHelper::New();
 224
 225    std::string token = "%%%"; // Hope it's enough!
 226 /*
 227    std::cout << "---------------Print Serie--------------" << std::endl;
 228    s->SetDirectory(dirNamein, true); // true : recursive exploration
 229    s->SetUseSeriesDetails(true);
 230    s->AddSeriesDetail(0x0018, 0x1312);
 231    s->Print();
 232 */
 233
 234    gdcm::File *f;
 235    gdcm::FileHelper *fh;
 236    std::vector<std::string> tokens;
 237    std::vector<std::string> tokensForFileName;
 238 /*
 239    std::cout << "---------------Print Unique Series identifiers---------"
 240              << std::endl;
 241    std::string uniqueSeriesIdentifier;
 242
 243    for (gdcm::DirListType::iterator it) = fileNames.begin();
 244                                     it != fileNames.end();
 245                                   ++it)
 246    {
 247       std::cout << "File Name : " << *it << std::endl;
 248       f = gdcm::File::New();
 249       f->SetLoadMode(gdcm::LD_ALL);
 250       f->SetFileName( *it );
 251       f->Load();
 252
 253       uniqueSeriesIdentifier=s->CreateUniqueSeriesIdentifier(f);
 254       std::cout << "                           [" <<
 255                uniqueSeriesIdentifier  << "]" << std::endl;
 256       f->Delete();
 257    }
 258 */
 259
 260    if (verbose)
 261       std::cout << "------------------Print Break levels-----------------" << std::endl;
 262
 263    std::string userFileIdentifier;
 264    SortedFiles sf;
 265
 266    s->AddSeriesDetail(0x0010, 0x0010, false); // Patient's Name
 267    s->AddSeriesDetail(0x0020, 0x000e, false); // Series Instance UID
 268    s->AddSeriesDetail(0x0020, 0x0032, false); // Image Position (Patient)
 269    s->AddSeriesDetail(0x0018, 0x1060, true);  // Trigger Time (true: convert to keep numerical order)
 270    s->AddSeriesDetail(0x0018, 0x1312, false); // In-plane Phase Encoding Direction
 271
 272    //uint8_t *imageData; // Useless : pixels will not be loaded
 273                          //          (images are overwritten)
 274
 275    for (gdcm::DirListType::iterator it = fileNames.begin();
 276                                     it != fileNames.end();
 277                                   ++it)
 278    {
 279       f = gdcm::File::New();
 280       f->SetLoadMode(loadMode);
 281       f->SetFileName( *it );
 282       f->Load();
 283
 284
 285       std::string strSeriesNumber;
 286       int seriesNumber;
 287       int j;
 288
 289       // keep only requested Series
 290       bool keep = false;
 291       if (nbSeriesToKeep != 0)
 292       {
 293          strSeriesNumber = f->GetEntryString(0x0020, 0x0011 );
 294          seriesNumber = atoi( strSeriesNumber.c_str() );
 295          for (j=0;j<nbSeriesToKeep; j++)
 296          {
 297             if(seriesNumber == seriesToKeep[j])
 298             {
 299                keep = true;
 300                break;
 301             }
 302          }
 303          if ( !keep)
 304          {
 305             f->Delete();
 306             continue;
 307          }
 308       }
 309       // drop all unrequested Series
 310       bool drop = false;
 311       if (nbSeriesToDrop != 0)
 312       {
 313          strSeriesNumber = f->GetEntryString(0x0020, 0x0011 );
 314          seriesNumber = atoi( strSeriesNumber.c_str() );
 315          for (j=0;j<nbSeriesToDrop; j++)
 316          {
 317             if(seriesNumber == seriesToDrop[j])
 318             {
 319                drop = true;
 320                break;
 321             }
 322         }
 323         if (drop)
 324         {
 325            f->Delete();
 326            continue;
 327         }
 328       }
 329
 330       userFileIdentifier=s->CreateUserDefinedFileIdentifier(f);
 331       tokens.clear();
 332       gdcm::Util::Tokenize (userFileIdentifier, tokens, token);
 333
 334       int imageNum; // Within FileName
 335       char newName[1024];
 336
 337       if ( tokens[3] == "gdcmUnfound")  // sometimes Trigger Time is not found. CreateUserDefinedFileIdentifier is not aware of the pb.
 338       {
 339          ///this is a trick to build up a lexicographical compliant name :
 340          ///     eg : fich001.ima vs fich100.ima as opposed to fich1.ima vs fich100.ima
 341          std::string name = gdcm::Util::GetName( *it );
 342          if (hasSkel)
 343          {
 344             gdcm::Util::Tokenize (name, tokensForFileName, skel);
 345             imageNum = atoi ( tokensForFileName[0].c_str() );
 346             // probabely we could write something much more complicated using C++ !
 347             sprintf (newName, "%s%06d%s", skel, imageNum, extent);
 348             tokens[3] = newName;
 349             tokensForFileName.clear();
 350          }
 351          else
 352             tokens[3] = name;
 353
 354
 355          userFileIdentifier = tokens[0] + token + tokens[1] + token + tokens[2] + token
 356                     + tokens[3] + token + tokens[4] + token;
 357       }
 358       if (verbose)
 359          std::cout << "[" << userFileIdentifier  << "]" << std::endl;
 360
 361       // storing in a map ensures automatic sorting !
 362       sf[userFileIdentifier] = f;
 363    }
 364
 365    std::string fullFilename, lastFilename;
 366    std::string previousPatientName, currentPatientName;
 367    std::string previousSerieInstanceUID, currentSerieInstanceUID;
 368    std::string previousImagePosition, currentImagePosition;
 369    std::string previousPhaseEncodingDirection, currentPhaseEncodingDirection;
 370    std::string previousTriggerTime, currentTriggerTime;
 371
 372    std::string writeDir, currentWriteDir;
 373    std::string currentPatientWriteDir, currentSerieWriteDir,
 374                currentPositionWriteDir, currentPhaseEncodingDirectionWriteDir;
 375
 376    std::string fullWriteFilename;
 377    std::string strExtent(extent);
 378
 379    writeDir = gdcm::Util::NormalizePath(dirNameout);
 380    SortedFiles::iterator it2;
 381
 382    previousPatientName            = "";
 383    previousSerieInstanceUID       = "";
 384    previousImagePosition          = "";
 385    previousPhaseEncodingDirection = "";
 386    previousTriggerTime            = "";
 387
 388    int sliceIndex = 0; // Is incremented *at the beginning* of processing
 389    int frameIndex = 1;
 390    int flag       = 0;
 391
 392    gdcm::File *currentFile;
 393
 394    for (it2 = sf.begin() ; it2 != sf.end(); ++it2)
 395    {
 396       currentFile = it2->second;
 397
 398       fullFilename =  currentFile->GetFileName();
 399       lastFilename =  gdcm::Util::GetName( fullFilename );
 400       std::cout << "Rewrite [" <<lastFilename << "]" << std::endl;
 401
 402       tokens.clear();
 403       gdcm::Util::Tokenize (it2->first, tokens, token);
 404
 405       currentPatientName            = tokens[0];
 406       currentSerieInstanceUID       = tokens[1];
 407       currentImagePosition          = tokens[2];
 408       currentTriggerTime            = tokens[3];
 409       currentPhaseEncodingDirection = tokens[4];
 410
 411       if ( currentImagePosition[0] == '-')
 412           currentImagePosition[0] = 'M';
 413       if ( currentImagePosition[0] == '+')
 414           currentImagePosition[0] = 'P';
 415
 416       if (previousPatientName != currentPatientName)
 417       {
 418          previousPatientName = currentPatientName;
 419          if (verbose)
 420             std::cout << "==== new Patient  [" << currentPatientName  << "]" << std::endl;
 421
 422          previousPatientName            = currentPatientName;
 423          previousSerieInstanceUID       = ""; //currentSerieInstanceUID;
 424          previousImagePosition          = ""; //currentImagePosition;
 425          previousTriggerTime            = "";
 426          previousPhaseEncodingDirection = ""; //currentPhaseEncodingDirection;
 427
 428          currentPatientWriteDir = writeDir + currentPatientName;
 429          //if ( ! gdcm::DirList::IsDirectory(currentPatientWriteDir) )
 430            {
 431               systemCommand   = "mkdir " + currentPatientWriteDir;
 432               if (verbose)
 433                  std::cout << systemCommand << std::endl;
 434               system ( systemCommand.c_str() );
 435          }
 436       }
 437
 438       if (previousSerieInstanceUID != currentSerieInstanceUID)
 439       {
 440          if (verbose)
 441             std::cout << "==== === new Serie [" << currentSerieInstanceUID << "]"
 442                       << std::endl;
 443          if (split)
 444          {
 445              currentSerieWriteDir  = currentPatientWriteDir + gdcm::GDCM_FILESEPARATOR
 446                              + currentSerieInstanceUID;
 447              systemCommand   = "mkdir " + currentSerieWriteDir;
 448              system (systemCommand.c_str());
 449          }
 450          previousSerieInstanceUID       = currentSerieInstanceUID;
 451          previousImagePosition          = ""; //currentImagePosition;
 452          previousPhaseEncodingDirection = ""; //currentPhaseEncodingDirection;
 453       }
 454
 455       if (previousImagePosition != currentImagePosition)
 456       {
 457          frameIndex = 1;
 458          flag = 0;
 459          if (verbose)
 460             std::cout << "=== === === new Position [" << currentImagePosition  << "]"
 461                       << std::endl;
 462          if (split)
 463          {
 464              currentPositionWriteDir  = currentSerieWriteDir + gdcm::GDCM_FILESEPARATOR
 465                              + currentImagePosition;
 466              systemCommand   = "mkdir " + currentPositionWriteDir;
 467              system (systemCommand.c_str());
 468          }
 469          previousImagePosition          = currentImagePosition;
 470          previousPhaseEncodingDirection = ""; //currentPhaseEncodingDirection;
 471          if (split)
 472             sliceIndex = 1; // only *one* slice in a given directory
 473          else
 474             sliceIndex += 1;
 475       }
 476
 477 // We don't split on Row/Column!
 478 /*
 479       if (previousPhaseEncodingDirection != currentPhaseEncodingDirection)
 480       {
 481          if (verbose)
 482             std::cout << "==== === === === new PhaseEncodingDirection ["
 483                       << currentPhaseEncodingDirection  << "]" << std::endl;
 484
 485          if (split)
 486          {
 487              currentPhaseEncodingDirectionWriteDir  = currentPositionWriteDir
 488                              + gdcm::GDCM_FILESEPARATOR
 489                              + currentPhaseEncodingDirection;
 490              systemCommand   = "mkdir " + currentPhaseEncodingDirectionWriteDir;
 491              system (systemCommand.c_str());
 492          }
 493
 494          previousPhaseEncodingDirection = currentPhaseEncodingDirection;
 495       }
 496 */
 497
 498       if (verbose)
 499          std::cout << "--- --- --- --- --- " << (it2->second)->GetFileName()
 500                    << std::endl;
 501
 502       if ( gdcm::Debug::GetDebugFlag())
 503          std::cout << "--- --- --- --- --- " << it2->first << "  "
 504                    << (it2->second)->GetFileName() << " "
 505                    << gdcm::Util::GetName( fullFilename ) << std::endl;
 506
 507       // Transform the image to be 'Brucker-Like'
 508       // ----------------------------------------
 509
 510       // Deal with 0x0019, 0x1000 : 'FOV'
 511       int nX = currentFile->GetXSize();
 512       int nY = currentFile->GetYSize();
 513       float pxSzX = currentFile->GetXSpacing();
 514       float pxSzY = currentFile->GetYSpacing();
 515       char fov[64];
 516       sprintf(fov, "%f\\%f",nX*pxSzX, nY*pxSzY);
 517       if (currentFile->IsVRCoherent(0x0019) == 1 )
 518          currentFile->InsertEntryString(fov, 0x0019, 0x1000, "  ");
 519       else
 520          currentFile->InsertEntryString(fov, 0x0019, 0x1000, "DS");
 521
 522
 523       // Deal with 0x0020, 0x0012 : 'SESSION INDEX'  (Acquisition Number)
 524       std::string chSessionIndex;
 525       // CLEANME
 526       if (taggrid)
 527          chSessionIndex = "1";
 528       else
 529       {
 530          if (currentPhaseEncodingDirection == "COL" || currentPhaseEncodingDirection == "COL " || currentPhaseEncodingDirection == " COL")
 531             chSessionIndex = "1";
 532          else if (currentPhaseEncodingDirection == "ROW" || currentPhaseEncodingDirection == "ROW "|| currentPhaseEncodingDirection == " ROW")
 533             chSessionIndex = "2";
 534          else
 535          {
 536             std::cout << "====================== PhaseEncodingDirection "
 537                       << " neither COL nor ROW (?!?) : [ "
 538                       << currentPhaseEncodingDirection << "]" << std::endl;
 539             chSessionIndex = "1";
 540          }
 541       }
 542        if (currentFile->IsVRCoherent(0x0020) == 1 )
 543          currentFile->InsertEntryString(chSessionIndex, 0x0020, 0x0012, "  ");
 544        else
 545          currentFile->InsertEntryString(chSessionIndex, 0x0020, 0x0012, "IS");
 546
 547       // Deal with  0x0021, 0x1020 : 'SLICE INDEX'
 548       char chSliceIndex[5];
 549       sprintf(chSliceIndex, "%04d", sliceIndex);
 550       std::string strChSliceIndex(chSliceIndex);
 551
 552       // Deal with  0x0021, 0x1040 : 'FRAME INDEX'
 553       char chFrameIndex[5];
 554       sprintf(chFrameIndex, "%04d", frameIndex);
 555
 556       std::string stringVR;
 557       if (currentFile->IsVRCoherent(0x0021) == 1 )
 558          stringVR = "  ";
 559       else
 560         stringVR = "IS";
 561
 562       currentFile->InsertEntryString(strChSliceIndex, 0x0021, 0x1020, stringVR);
 563       currentFile->InsertEntryString(chFrameIndex,    0x0021, 0x1040, stringVR);
 564
 565
 566       std::string strImagePositionPatient    = currentFile->GetEntryString(0x0020, 0x0032 );
 567       if (strImagePositionPatient == gdcm::GDCM_UNFOUND)
 568          currentFile->InsertEntryString(currentFile->GetEntryString(0x0020, 0x0030), 0x0020, 0x0032, "DS" );
 569
 570       std::string strImageOrientationPatient = f->GetEntryString(0x0020, 0x0037 );
 571       if (strImageOrientationPatient == gdcm::GDCM_UNFOUND)
 572          currentFile->InsertEntryString(currentFile->GetEntryString(0x0020, 0x0035), 0x0020, 0x0037, "DS" );
 573
 574       if (taggrid)
 575          frameIndex++;
 576       else
 577       {
 578          if (flag == 0)
 579          {
 580             flag = 1;
 581          }
 582          else
 583          {
 584             frameIndex++;
 585             flag = 0;
 586          }
 587       }
 588
 589       if (split)
 590
 591          //fullWriteFilename = currentPhaseEncodingDirectionWriteDir + gdcm::GDCM_FILESEPARATOR
 592          //                                + lastFilename + strExtent;
 593          fullWriteFilename = currentPositionWriteDir + gdcm::GDCM_FILESEPARATOR
 594                                          + lastFilename + strExtent;
 595       else
 596          fullWriteFilename = currentPatientWriteDir + gdcm::GDCM_FILESEPARATOR
 597                                          + lastFilename + strExtent;
 598
 599       /*
 600       systemCommand  = "cp " + fullFilename + " " + fullWriteFilename;
 601       std::cout << systemCommand << std::endl;
 602       system (  systemCommand.c_str() );
 603       */
 604
 605       // Load the pixels in RAM.
 606
 607       fh = gdcm::FileHelper::New(currentFile);
 608       uint8_t *imageData = fh->GetImageDataRaw(); // Don't convert (Gray Pixels + LUT) into (RGB pixels) ?!?
 609       fh->SetWriteTypeToDcmExplVR();
 610       // We didn't modify pixels -> keep unchanged the following :
 611       // 'Media Storage SOP Class UID' (0x0002,0x0002)
 612       // 'SOP Class UID'               (0x0008,0x0016)
 613       // 'Image Type'                  (0x0008,0x0008)
 614       // 'Conversion Type'             (0x0008,0x0064)
 615
 616       // Put to Black the burnt-in number.
 617       nX = currentFile->GetXSize();
 618       nY = currentFile->GetYSize();
 619       for(int y=nY-15; y<nY; y++)
 620          for(int x=nX/3; x<nX/2+50; x++)
 621            imageData[ y*nX*2 + x ] = 0;
 622
 623       fh->SetContentType(gdcm::UNMODIFIED_PIXELS_IMAGE);
 624       if (!fh->Write(fullWriteFilename))
 625       {
 626          std::cout << "Fail to write :[" << fullWriteFilename << "]"
 627                    << std::endl;
 628       }
 629       fh->Delete();
 630    }
 631    return 0;
 632  }