Now Examples/PrintFile displays properly Transfert Syntax Name, whatever the

[gdcm.git] / src / gdcmDocument.cxx

/*=========================================================================
                                                                                
  Program:   gdcm
  Module:    $RCSfile: gdcmDocument.cxx,v $
  Language:  C++
  Date:      $Date: 2004/07/19 15:16:18 $
  Version:   $Revision: 1.55 $
                                                                                
  Copyright (c) CREATIS (Centre de Recherche et d'Applications en Traitement de
  l'Image). All rights reserved. See Doc/License.txt or
  http://www.creatis.insa-lyon.fr/Public/Gdcm/License.htm for details.
                                                                                
     This software is distributed WITHOUT ANY WARRANTY; without even
     the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR
     PURPOSE.  See the above copyright notices for more information.
                                                                                
=========================================================================*/

#include "gdcmDocument.h"
#include "gdcmValEntry.h"
#include "gdcmBinEntry.h"
#include "gdcmSeqEntry.h"

#include "gdcmGlobal.h"
#include "gdcmUtil.h"
#include "gdcmDebug.h"

#include <errno.h>
#include <vector>

// For nthos:
#ifdef _MSC_VER
   #include <winsock.h>
#else
   #include <netinet/in.h>
#endif

#  include <iomanip>

// Implicit VR Little Endian
#define UI1_2_840_10008_1_2      "1.2.840.10008.1.2"
// Explicit VR Little Endian
#define UI1_2_840_10008_1_2_1    "1.2.840.10008.1.2.1"
// Deflated Explicit VR Little Endian
#define UI1_2_840_10008_1_2_1_99 "1.2.840.10008.1.2.1.99"
// Explicit VR Big Endian
#define UI1_2_840_10008_1_2_2    "1.2.840.10008.1.2.2"
// JPEG Baseline (Process 1)
#define UI1_2_840_10008_1_2_4_50 "1.2.840.10008.1.2.4.50"
// JPEG Extended (Process 2 & 4)
#define UI1_2_840_10008_1_2_4_51 "1.2.840.10008.1.2.4.51"
// JPEG Extended (Process 3 & 5)
#define UI1_2_840_10008_1_2_4_52 "1.2.840.10008.1.2.4.52"
// JPEG Spectral Selection, Non-Hierarchical (Process 6 & 8)
#define UI1_2_840_10008_1_2_4_53 "1.2.840.10008.1.2.4.53"
// JPEG Full Progression, Non-Hierarchical (Process 10 & 12)
#define UI1_2_840_10008_1_2_4_55 "1.2.840.10008.1.2.4.55"
// JPEG Lossless, Non-Hierarchical (Process 14)
#define UI1_2_840_10008_1_2_4_57 "1.2.840.10008.1.2.4.57"
// JPEG Lossless, Hierarchical, First-Order Prediction (Process 14,
// [Selection Value 1])
#define UI1_2_840_10008_1_2_4_70 "1.2.840.10008.1.2.4.70"
// JPEG 2000 Lossless
#define UI1_2_840_10008_1_2_4_90 "1.2.840.10008.1.2.4.90"
// JPEG 2000
#define UI1_2_840_10008_1_2_4_91 "1.2.840.10008.1.2.4.91"
// RLE Lossless
#define UI1_2_840_10008_1_2_5    "1.2.840.10008.1.2.5"
// UI1_1_2_840_10008_1_2_5
#define str2num(str, typeNum) *((typeNum *)(str))

//-----------------------------------------------------------------------------
// Refer to gdcmDocument::CheckSwap()
const unsigned int gdcmDocument::HEADER_LENGTH_TO_READ = 256;

// Refer to gdcmDocument::SetMaxSizeLoadEntry()
const unsigned int gdcmDocument::MAX_SIZE_LOAD_ELEMENT_VALUE = 0xfff; // 4096
const unsigned int gdcmDocument::MAX_SIZE_PRINT_ELEMENT_VALUE = 0x7fffffff;

//-----------------------------------------------------------------------------
// Constructor / Destructor

/**
 * \brief   constructor  
 * @param   inFilename file to be opened for parsing
 * @param   exception_on_error whether we throw an exception or not
 * @param   enable_sequences = true to allow the header 
 *          to be parsed *inside* the SeQuences,
 *          when they have an actual length 
 * \warning enable_sequences *has to be* true for reading PAPYRUS 3.0 files 
 * @param   ignore_shadow to allow skipping the shadow elements, 
 *          to save memory space.
 * \warning The TRUE value for this param has to be used 
 *          with a FALSE value for the 'enable_sequence' param.
 *          ('public elements' may be embedded in 'shadow Sequences')
 */
gdcmDocument::gdcmDocument( std::string const & filename, 
                            bool exception_on_error,
                            bool enable_sequences,
                            bool ignore_shadow) 
              : gdcmElementSet(-1)
{
   IgnoreShadow = ignore_shadow;
   //EnableSequences=enable_sequences;
   (void)enable_sequences;
   EnableSequences = true; // JPR // TODO : remove params out of the constructor
   SetMaxSizeLoadEntry(MAX_SIZE_LOAD_ELEMENT_VALUE); 
   Filename = filename;
   Initialise();

   if ( !OpenFile(exception_on_error))
   {
      return;
   }
   
   dbg.Verbose(0, "gdcmDocument::gdcmDocument: starting parsing of file: ",
                  Filename.c_str());
   rewind(Fp);
   
   fseek(Fp,0L,SEEK_END);
   long lgt = ftell(Fp);    
           
   rewind(Fp);
   CheckSwap();
   long beg = ftell(Fp);
   lgt -= beg;
   
   SQDepthLevel=0;
   
   long l = ParseDES( this, beg, lgt, false); // le Load sera fait a la volee
   (void)l; //is l used anywhere ?

   rewind(Fp);
   
   // Load 'non string' values
      
   std::string PhotometricInterpretation = GetEntryByNumber(0x0028,0x0004);   
   if( PhotometricInterpretation == "PALETTE COLOR " )
   {
      LoadEntryVoidArea(0x0028,0x1200);  // gray LUT   
      LoadEntryVoidArea(0x0028,0x1201);  // R    LUT
      LoadEntryVoidArea(0x0028,0x1202);  // G    LUT
      LoadEntryVoidArea(0x0028,0x1203);  // B    LUT
      
      LoadEntryVoidArea(0x0028,0x1221);  // Segmented Red   Palette Color LUT Data
      LoadEntryVoidArea(0x0028,0x1222);  // Segmented Green Palette Color LUT Data
      LoadEntryVoidArea(0x0028,0x1223);  // Segmented Blue  Palette Color LUT Data
   } 
   //FIXME later : how to use it?
   LoadEntryVoidArea(0x0028,0x3006);  //LUT Data (CTX dependent) 

   CloseFile(); 
  
   // --------------------------------------------------------------
   // Special Patch to allow gdcm to read ACR-LibIDO formated images
   //
   // if recognition code tells us we deal with a LibIDO image
   // we switch lineNumber and columnNumber
   //
   std::string RecCode;
   RecCode = GetEntryByNumber(0x0008, 0x0010); // recognition code
   if (RecCode == "ACRNEMA_LIBIDO_1.1" ||
       RecCode == "CANRME_AILIBOD1_1." )  // for brain-damaged softwares
                                          // with "little-endian strings"
   {
         Filetype = gdcmACR_LIBIDO; 
         std::string rows    = GetEntryByNumber(0x0028, 0x0010);
         std::string columns = GetEntryByNumber(0x0028, 0x0011);
         SetEntryByNumber(columns, 0x0028, 0x0010);
         SetEntryByNumber(rows   , 0x0028, 0x0011);
   }
   // ----------------- End of Special Patch ---------------- 

   PrintLevel = 1;  // 'Medium' print level by default
}

/**
 * \brief  constructor 
 * @param   exception_on_error
 */
gdcmDocument::gdcmDocument(bool exception_on_error) 
             :gdcmElementSet(-1)
{
   (void)exception_on_error;
   //EnableSequences=0; // ?!? JPR

   SetMaxSizeLoadEntry(MAX_SIZE_LOAD_ELEMENT_VALUE);
   Initialise();

   PrintLevel = 1;  // 'Medium' print level by default
}

/**
 * \brief   Canonical destructor.
 */
gdcmDocument::~gdcmDocument ()
{
   RefPubDict = NULL;
   RefShaDict = NULL;

   // Recursive clean up of sequences
   for (TagDocEntryHT::const_iterator it = TagHT.begin(); 
                                      it != TagHT.end(); ++it )
   { 
      delete it->second;
   }
   TagHT.clear();
}

//-----------------------------------------------------------------------------
// Print

/**
  * \brief   Prints The Dict Entries of THE public Dicom Dictionary
  * @return
  */  
void gdcmDocument::PrintPubDict(std::ostream & os)
{
   RefPubDict->Print(os);
}

/**
  * \brief   Prints The Dict Entries of THE shadow Dicom Dictionary
  * @return
  */
void gdcmDocument::PrintShaDict(std::ostream & os)
{
   RefShaDict->Print(os);
}

//-----------------------------------------------------------------------------
// Public
/**
 * \brief   Get the public dictionary used
 */
gdcmDict *gdcmDocument::GetPubDict()
{
   return RefPubDict;
}

/**
 * \brief   Get the shadow dictionary used
 */
gdcmDict *gdcmDocument::GetShaDict()
{
   return RefShaDict;
}

/**
 * \brief   Set the shadow dictionary used
 * \param   dict dictionary to use in shadow
 */
bool gdcmDocument::SetShaDict(gdcmDict *dict)
{
   RefShaDict = dict;
   return !RefShaDict;
}

/**
 * \brief   Set the shadow dictionary used
 * \param   dictName name of the dictionary to use in shadow
 */
bool gdcmDocument::SetShaDict(DictKey dictName)
{
   RefShaDict = gdcmGlobal::GetDicts()->GetDict(dictName);
   return !RefShaDict;
}

/**
 * \brief  This predicate, based on hopefully reasonable heuristics,
 *         decides whether or not the current gdcmDocument was properly parsed
 *         and contains the mandatory information for being considered as
 *         a well formed and usable Dicom/Acr File.
 * @return true when gdcmDocument is the one of a reasonable Dicom/Acr file,
 *         false otherwise. 
 */
bool gdcmDocument::IsReadable()
{
   if( Filetype == gdcmUnknown)
   {
      std::cout << " gdcmDocument::IsReadable: Filetype " << Filetype
               << " " << "gdcmUnknown " << gdcmUnknown << std::endl; //JPR
      dbg.Verbose(0, "gdcmDocument::IsReadable: wrong filetype");
      return false;
   }

   if( TagHT.empty() )
   {
      dbg.Verbose(0, "gdcmDocument::IsReadable: no tags in internal"
                     " hash table.");
      return false;
   }

   return true;
}


/**
 * \brief   Internal function that checks whether the Transfer Syntax given
 *          as argument is the one present in the current document.
 * @param   SyntaxToCheck The transfert syntax we need to check against.
 * @return  True when SyntaxToCheck corresponds to the Transfer Syntax of
 *          the current document. False either when the document contains
 *          no Transfer Syntax, or when the Tranfer Syntaxes doesn't match.
 */
bool gdcmDocument::IsGivenTransferSyntax(std::string const & syntaxToCheck)
{
   gdcmDocEntry *entry = GetDocEntryByNumber(0x0002, 0x0010);
   if ( !entry )
   {
      return false;
   }

   // The entry might be present but not loaded (parsing and loading
   // happen at different stages): try loading and proceed with check...
   LoadDocEntrySafe(entry);
   if (gdcmValEntry* valEntry = dynamic_cast< gdcmValEntry* >(entry) )
   {
      std::string transfer = valEntry->GetValue();

      // The actual transfer (as read from disk) might be padded. We
      // first need to remove the potential padding. We can make the
      // weak assumption that padding was not executed with digits...
      while ( ! isdigit(transfer[transfer.length()-1]) )
      {
         transfer.erase(transfer.length()-1, 1);
      }
      if ( transfer == syntaxToCheck )
      {
         return true;
      }
   }
   return false;
}

/**
 * \brief   Determines if the Transfer Syntax of the present document
 *          corresponds to a Implicit Value Representation of 
 *          Little Endian.
 * \sa      \ref gdcmDocument::IsGivenTransferSyntax.
 * @return  True when ImplicitVRLittleEndian found. False in all other cases.
 */
bool gdcmDocument::IsImplicitVRLittleEndianTransferSyntax()
{
   return IsGivenTransferSyntax(UI1_2_840_10008_1_2);
}

/**
 * \brief   Determines if the Transfer Syntax was already encountered
 *          and if it corresponds to a ExplicitVRLittleEndian one.
 * @return  True when ExplicitVRLittleEndian found. False in all other cases.
 */
bool gdcmDocument::IsExplicitVRLittleEndianTransferSyntax()
{
   return IsGivenTransferSyntax(UI1_2_840_10008_1_2_1);
}

/**
 * \brief   Determines if the Transfer Syntax was already encountered
 *          and if it corresponds to a DeflatedExplicitVRLittleEndian one.
 * @return  True when DeflatedExplicitVRLittleEndian found. False in all other cases.
 */
bool gdcmDocument::IsDeflatedExplicitVRLittleEndianTransferSyntax()
{
   return IsGivenTransferSyntax(UI1_2_840_10008_1_2_1_99);
}

/**
 * \brief   Determines if the Transfer Syntax was already encountered
 *          and if it corresponds to a Explicit VR Big Endian one.
 * @return  True when big endian found. False in all other cases.
 */
bool gdcmDocument::IsExplicitVRBigEndianTransferSyntax()
{
   return IsGivenTransferSyntax(UI1_2_840_10008_1_2_2);
}

/**
 * \brief   Determines if the Transfer Syntax was already encountered
 *          and if it corresponds to a JPEGBaseLineProcess1 one.
 * @return  True when JPEGBaseLineProcess1found. False in all other cases.
 */
bool gdcmDocument::IsJPEGBaseLineProcess1TransferSyntax()
{
   return IsGivenTransferSyntax(UI1_2_840_10008_1_2_4_50);
}
                                                                                
/**
 * \brief   Determines if the Transfer Syntax was already encountered
 *          and if it corresponds to a JPEGExtendedProcess2-4 one.
 * @return  True when JPEGExtendedProcess2-4 found. False in all other cases.
 */
bool gdcmDocument::IsJPEGExtendedProcess2_4TransferSyntax()
{
   return IsGivenTransferSyntax(UI1_2_840_10008_1_2_4_51);
}
                                                                                
/**
 * \brief   Determines if the Transfer Syntax was already encountered
 *          and if it corresponds to a JPEGExtendeProcess3-5 one.
 * @return  True when JPEGExtendedProcess3-5 found. False in all other cases.
 */
bool gdcmDocument::IsJPEGExtendedProcess3_5TransferSyntax()
{
   return IsGivenTransferSyntax(UI1_2_840_10008_1_2_4_52);
}

/**
 * \brief   Determines if the Transfer Syntax was already encountered
 *          and if it corresponds to a JPEGSpectralSelectionProcess6-8 one.
 * @return  True when JPEGSpectralSelectionProcess6-8 found. False in all
 *          other cases.
 */
bool gdcmDocument::IsJPEGSpectralSelectionProcess6_8TransferSyntax()
{
   return IsGivenTransferSyntax(UI1_2_840_10008_1_2_4_53);
}

/**
 * \brief   Determines if the Transfer Syntax was already encountered
 *          and if it corresponds to a RLE Lossless one.
 * @return  True when RLE Lossless found. False in all
 *          other cases.
 */
bool gdcmDocument::IsRLELossLessTransferSyntax()
{
   return IsGivenTransferSyntax(UI1_2_840_10008_1_2_5);
}

/**
 * \brief  Determines if Transfer Syntax was already encountered
 *          and if it corresponds to a JPEG Lossless one.
 * @return  True when RLE Lossless found. False in all
 *          other cases.
 */
 
bool gdcmDocument::IsJPEGLossless()
{
   return (   IsGivenTransferSyntax(UI1_2_840_10008_1_2_4_55)
           || IsGivenTransferSyntax(UI1_2_840_10008_1_2_4_57)
           || IsGivenTransferSyntax(UI1_2_840_10008_1_2_4_70) );
}
                                                                                
/**
 * \brief   Determines if the Transfer Syntax was already encountered
 *          and if it corresponds to a JPEG2000 one
 * @return  True when JPEG2000 (Lossly or LossLess) found. False in all
 *          other cases.
 */
bool gdcmDocument::IsJPEG2000()
{
   return (   IsGivenTransferSyntax(UI1_2_840_10008_1_2_4_90)
           || IsGivenTransferSyntax(UI1_2_840_10008_1_2_4_91) );
}

/**
 * \brief   Predicate for dicom version 3 file.
 * @return  True when the file is a dicom version 3.
 */
bool gdcmDocument::IsDicomV3()
{
   // Checking if Transfert Syntax exists is enough
   // Anyway, it's to late check if the 'Preamble' was found ...
   // And ... would it be a rich idea to check ?
   // (some 'no Preamble' DICOM images exist !)
   return GetDocEntryByNumber(0x0002, 0x0010) != NULL;
}

/**
 * \brief  returns the File Type 
 *         (ACR, ACR_LIBIDO, ExplicitVR, ImplicitVR, Unknown)
 * @return the FileType code
 */
FileType gdcmDocument::GetFileType()
{
   return Filetype;
}

/**
 * \brief   opens the file
 * @param   exception_on_error
 * @return  
 */
FILE *gdcmDocument::OpenFile(bool exception_on_error)
  throw(gdcmFileError) 
{
  Fp = fopen(Filename.c_str(),"rb");

  if(!Fp)
  {
     if(exception_on_error)
     {
        throw gdcmFileError("gdcmDocument::gdcmDocument(const char *, bool)");
     }
     else
     {
        dbg.Verbose(0, "gdcmDocument::OpenFile cannot open file: ",
                    Filename.c_str());
        return NULL;
     }
  }

  if ( Fp )
  {
     uint16_t zero;
     fread(&zero,  (size_t)2, (size_t)1, Fp);

    //ACR -- or DICOM with no Preamble --
    if( zero == 0x0008 || zero == 0x0800 || zero == 0x0002 || zero == 0x0200 )
    {
       return Fp;
    }

    //DICOM
    fseek(Fp, 126L, SEEK_CUR);
    char dicm[4];
    fread(dicm,  (size_t)4, (size_t)1, Fp);
    if( memcmp(dicm, "DICM", 4) == 0 )
    {
       return Fp;
    }

    fclose(Fp);
    dbg.Verbose(0, "gdcmDocument::OpenFile not DICOM/ACR", Filename.c_str());
  }
  else
  {
    dbg.Verbose(0, "gdcmDocument::OpenFile cannot open file", Filename.c_str());
  }

  return 0;
}

/**
 * \brief closes the file  
 * @return  TRUE if the close was successfull 
 */
bool gdcmDocument::CloseFile()
{
  int closed = fclose(Fp);
  Fp = (FILE *)0;

  return closed;
}

/**
 * \brief Writes in a file all the Header Entries (Dicom Elements) 
 * @param fp file pointer on an already open file
 * @param filetype Type of the File to be written 
 *          (ACR-NEMA, ExplicitVR, ImplicitVR)
 * \return Always true.
 */
void gdcmDocument::Write(FILE* fp,FileType filetype)
{
   /// \todo move the following lines (and a lot of others, to be written)
   /// to a future function CheckAndCorrectHeader
   
   /// WARNING : Si on veut ecrire du DICOM V3 a partir d'un DcmHeader ACR-NEMA
   /// no way (check : FileType est un champ de gdcmDocument ...)
   /// a moins de se livrer a un tres complique ajout des champs manquants.
   /// faire un CheckAndCorrectHeader (?) 
 
   if (filetype == gdcmImplicitVR) 
   {
      std::string implicitVRTransfertSyntax = UI1_2_840_10008_1_2;
      ReplaceOrCreateByNumber(implicitVRTransfertSyntax,0x0002, 0x0010);
      
      /// \todo Refer to standards on page 21, chapter 6.2
      ///       "Value representation": values with a VR of UI shall be
      ///       padded with a single trailing null
      ///       in the following case we have to padd manually with a 0
      
      SetEntryLengthByNumber(18, 0x0002, 0x0010);
   } 

   if (filetype == gdcmExplicitVR)
   {
      std::string explicitVRTransfertSyntax = UI1_2_840_10008_1_2_1;
      ReplaceOrCreateByNumber(explicitVRTransfertSyntax,0x0002, 0x0010);
      
      /// \todo Refer to standards on page 21, chapter 6.2
      ///       "Value representation": values with a VR of UI shall be
      ///       padded with a single trailing null
      ///       Dans le cas suivant on doit pader manuellement avec un 0
      
      SetEntryLengthByNumber(20, 0x0002, 0x0010);
   }
  
/**
 * \todo rewrite later, if really usefull
 *       - 'Group Length' element is optional in DICOM
 *       - but un-updated odd groups lengthes can causes pb
 *         (xmedcon breaker)
 *
 * if ( (filetype == ImplicitVR) || (filetype == ExplicitVR) )
 *    UpdateGroupLength(false,filetype);
 * if ( filetype == ACR)
 *    UpdateGroupLength(true,ACR);
 */
 
   gdcmElementSet::Write(fp, filetype); // This one is recursive

}

/**
 * \brief   Modifies the value of a given Header Entry (Dicom Element)
 *          when it exists. Create it with the given value when unexistant.
 * @param   Value (string) Value to be set
 * @param   Group   Group number of the Entry 
 * @param   Elem  Element number of the Entry
 * \return  pointer to the modified/created Header Entry (NULL when creation
 *          failed).
 */
  
gdcmValEntry * gdcmDocument::ReplaceOrCreateByNumber(
                                         std::string value, 
                                         uint16_t group, 
                                         uint16_t elem )
{
   gdcmValEntry* valEntry = 0;

   gdcmDocEntry* currentEntry = GetDocEntryByNumber( group, elem);
   if (!currentEntry)
   {
      // The entry wasn't present and we simply create the required ValEntry:
      currentEntry = NewDocEntryByNumber(group, elem);
      if (!currentEntry)
      {
         dbg.Verbose(0, "gdcmDocument::ReplaceOrCreateByNumber: call to"
                        " NewDocEntryByNumber failed.");
         return NULL;
      }
      valEntry = new gdcmValEntry(currentEntry);
      if ( !AddEntry(valEntry))
      {
         dbg.Verbose(0, "gdcmDocument::ReplaceOrCreateByNumber: AddEntry"
                        " failed allthough this is a creation.");
      }
   }
   else
   {
      valEntry = dynamic_cast< gdcmValEntry* >(currentEntry);
      if ( !valEntry )
      {
         // We need to promote the gdcmDocEntry to a gdcmValEntry:
         valEntry = new gdcmValEntry(currentEntry);
         if (!RemoveEntry(currentEntry))
         {
            dbg.Verbose(0, "gdcmDocument::ReplaceOrCreateByNumber: removal"
                           " of previous DocEntry failed.");
            return NULL;
         }
         if ( !AddEntry(valEntry))
         {
            dbg.Verbose(0, "gdcmDocument::ReplaceOrCreateByNumber: adding"
                           " promoted ValEntry failed.");
            return NULL;
         }
      }
   }

   SetEntryByNumber(value, group, elem);

   return valEntry;
}   

/*
 * \brief   Modifies the value of a given Header Entry (Dicom Element)
 *          when it exists. Create it with the given value when unexistant.
 * @param   voidArea (binary) value to be set
 * @param   Group   Group number of the Entry 
 * @param   Elem  Element number of the Entry
 * \return  pointer to the modified/created Header Entry (NULL when creation
 *          failed).
 */
gdcmBinEntry * gdcmDocument::ReplaceOrCreateByNumber(
                                         void *voidArea,
                                         int lgth, 
                                         uint16_t group, 
                                         uint16_t elem)
{
   gdcmBinEntry* b = 0;
   gdcmDocEntry* a = GetDocEntryByNumber( group, elem);
   if (!a)
   {
      a = NewBinEntryByNumber(group, elem);
      if (!a)
      {
         return 0;
      }

      b = new gdcmBinEntry(a);
      AddEntry(b);
      b->SetVoidArea(voidArea);
   }   
   SetEntryByNumber(voidArea, lgth, group, elem);
   //b->SetVoidArea(voidArea);  //what if b == 0 !!

   return b;
}  

/**
 * \brief Set a new value if the invoked element exists
 *        Seems to be useless !!!
 * @param Value new element value
 * @param Group  group number of the Entry 
 * @param Elem element number of the Entry
 * \return  boolean 
 */
bool gdcmDocument::ReplaceIfExistByNumber(const char* value, uint16_t group,
                                          uint16_t elem ) 
{
   const std::string v = value;
   SetEntryByNumber(v, group, elem);

   return true;
} 

//-----------------------------------------------------------------------------
// Protected

/**
 * \brief   Checks if a given Dicom Element exists within the H table
 * @param   group      Group number of the searched Dicom Element 
 * @param   element  Element number of the searched Dicom Element 
 * @return  number of occurences
 */
int gdcmDocument::CheckIfEntryExistByNumber(uint16_t group, uint16_t element )
{
   std::string key = gdcmDictEntry::TranslateToKey(group, element );
   return TagHT.count(key);
}

/**
 * \brief   Searches within Header Entries (Dicom Elements) parsed with 
 *          the public and private dictionaries 
 *          for the element value of a given tag.
 * \warning Don't use any longer : use GetPubEntryByName
 * @param   tagName name of the searched element.
 * @return  Corresponding element value when it exists,
 *          and the string GDCM_UNFOUND ("gdcm::Unfound") otherwise.
 */
std::string gdcmDocument::GetEntryByName(TagName tagName)
{
   gdcmDictEntry *dictEntry = RefPubDict->GetDictEntryByName(tagName); 
   if( !dictEntry )
   {
      return GDCM_UNFOUND;
   }

   return GetEntryByNumber(dictEntry->GetGroup(),dictEntry->GetElement());
}

/**
 * \brief   Searches within Header Entries (Dicom Elements) parsed with 
 *          the public and private dictionaries 
 *          for the element value representation of a given tag.
 *
 *          Obtaining the VR (Value Representation) might be needed by caller
 *          to convert the string typed content to caller's native type 
 *          (think of C++ vs Python). The VR is actually of a higher level
 *          of semantics than just the native C++ type.
 * @param   tagName name of the searched element.
 * @return  Corresponding element value representation when it exists,
 *          and the string GDCM_UNFOUND ("gdcm::Unfound") otherwise.
 */
std::string gdcmDocument::GetEntryVRByName(TagName tagName)
{
   gdcmDictEntry *dictEntry = RefPubDict->GetDictEntryByName(tagName); 
   if( dictEntry == NULL)
   {
      return GDCM_UNFOUND;
   }

   gdcmDocEntry* elem =  GetDocEntryByNumber(dictEntry->GetGroup(),
                                             dictEntry->GetElement());
   return elem->GetVR();
}


/**
 * \brief   Searches within Header Entries (Dicom Elements) parsed with 
 *          the public and private dictionaries 
 *          for the element value representation of a given tag.
 * @param   group Group number of the searched tag.
 * @param   element Element number of the searched tag.
 * @return  Corresponding element value representation when it exists,
 *          and the string GDCM_UNFOUND ("gdcm::Unfound") otherwise.
 */
std::string gdcmDocument::GetEntryByNumber(uint16_t group, uint16_t element)
{
   gdcmTagKey key = gdcmDictEntry::TranslateToKey(group, element);
   /// \todo use map methods, instead of multimap JPR
   if ( !TagHT.count(key))
   {
      return GDCM_UNFOUND;
   }

   return ((gdcmValEntry *)TagHT.find(key)->second)->GetValue();
}

/**
 * \brief   Searches within Header Entries (Dicom Elements) parsed with 
 *          the public and private dictionaries 
 *          for the element value representation of a given tag..
 *
 *          Obtaining the VR (Value Representation) might be needed by caller
 *          to convert the string typed content to caller's native type 
 *          (think of C++ vs Python). The VR is actually of a higher level
 *          of semantics than just the native C++ type.
 * @param   group     Group number of the searched tag.
 * @param   element Element number of the searched tag.
 * @return  Corresponding element value representation when it exists,
 *          and the string GDCM_UNFOUND ("gdcm::Unfound") otherwise.
 */
std::string gdcmDocument::GetEntryVRByNumber(uint16_t group, uint16_t element)
{
   gdcmDocEntry* elem = GetDocEntryByNumber(group, element);
   if ( !elem )
   {
      return GDCM_UNFOUND;
   }
   return elem->GetVR();
}

/**
 * \brief   Searches within Header Entries (Dicom Elements) parsed with 
 *          the public and private dictionaries 
 *          for the value length of a given tag..
 * @param   group     Group number of the searched tag.
 * @param   element Element number of the searched tag.
 * @return  Corresponding element length; -2 if not found
 */
int gdcmDocument::GetEntryLengthByNumber(uint16_t group, uint16_t element)
{
   gdcmDocEntry* elem =  GetDocEntryByNumber(group, element);
   if ( !elem )
   {
      return -2;  //magic number
   }
   return elem->GetLength();
}
/**
 * \brief   Sets the value (string) of the Header Entry (Dicom Element)
 * @param   content string value of the Dicom Element
 * @param   tagName name of the searched Dicom Element.
 * @return  true when found
 */
bool gdcmDocument::SetEntryByName(std::string content,std::string tagName)
{
   gdcmDictEntry *dictEntry = RefPubDict->GetDictEntryByName(tagName); 
   if( !dictEntry )
   {
      return false;
   }

   return SetEntryByNumber(content,dictEntry->GetGroup(),
                                   dictEntry->GetElement());
}

/**
 * \brief   Accesses an existing gdcmDocEntry (i.e. a Dicom Element)
 *          through it's (group, element) and modifies it's content with
 *          the given value.
 * @param   content new value (string) to substitute with
 * @param   group     group number of the Dicom Element to modify
 * @param   element element number of the Dicom Element to modify
 */
bool gdcmDocument::SetEntryByNumber(std::string content, 
                                    uint16_t group,
                                    uint16_t element) 
{
   gdcmValEntry* valEntry = GetValEntryByNumber(group, element);
   if (!valEntry )
   {
      dbg.Verbose(0, "gdcmDocument::SetEntryByNumber: no corresponding",
                     " ValEntry (try promotion first).");
      return false;
   }
   // Non even content must be padded with a space (020H)...
   if( content.length() % 2 )
   {
      content += '\0';  // ... therefore we padd with (000H) .!?!
   }      
   valEntry->SetValue(content);
   
   // Integers have a special treatement for their length:
   gdcmVRKey vr = valEntry->GetVR();
   if( vr == "US" || vr == "SS" )
   {
      valEntry->SetLength(2);
   }
   else if( vr == "UL" || vr == "SL" )
   {
      valEntry->SetLength(4);
   }
   else
   {
      valEntry->SetLength(content.length());
   }

   return true;
} 

/**
 * \brief   Accesses an existing gdcmDocEntry (i.e. a Dicom Element)
 *          through it's (group, element) and modifies it's content with
 *          the given value.
 * @param   content new value (void *) to substitute with
 * @param   lgth new value length
 * @param   group     group number of the Dicom Element to modify
 * @param   element element number of the Dicom Element to modify
 */
bool gdcmDocument::SetEntryByNumber(void *content,
                                    int lgth, 
                                    uint16_t group,
                                    uint16_t element) 
{
   (void)lgth;  //not used
   gdcmTagKey key = gdcmDictEntry::TranslateToKey(group, element);
   if ( !TagHT.count(key))
   {
      return false;
   }

/* Hope Binary field length is *never* wrong    
   if(lgth%2) // Non even length are padded with a space (020H).
   {  
      lgth++;
      //content = content + '\0'; // fing a trick to enlarge a binary field?
   }
*/      
   gdcmBinEntry * a;
   a = (gdcmBinEntry *)TagHT[key];           
   a->SetVoidArea(content);  
   //a->SetLength(lgth);  // ???  
   return true;
} 

/**
 * \brief   Accesses an existing gdcmDocEntry (i.e. a Dicom Element)
 *          in the PubDocEntrySet of this instance
 *          through it's (group, element) and modifies it's length with
 *          the given value.
 * \warning Use with extreme caution.
 * @param l new length to substitute with
 * @param group     group number of the Entry to modify
 * @param element element number of the Entry to modify
 * @return  true on success, false otherwise.
 */
bool gdcmDocument::SetEntryLengthByNumber(uint32_t l, 
                                          uint16_t group, 
                                          uint16_t element) 
{
   /// \todo use map methods, instead of multimap JPR
   gdcmTagKey key = gdcmDictEntry::TranslateToKey(group, element);
   if ( !TagHT.count(key) )
   {
      return false;
   }
   if ( l % 2 )
   {
      l++; // length must be even
   }
   ( ((TagHT.equal_range(key)).first)->second )->SetLength(l); 

   return true ;
}

/**
 * \brief   Gets (from Header) the offset  of a 'non string' element value 
 *          (LoadElementValues has already be executed)
 * @param Group   group number of the Entry 
 * @param Elem  element number of the Entry
 * @return File Offset of the Element Value 
 */
size_t gdcmDocument::GetEntryOffsetByNumber(uint16_t group, uint16_t elem) 
{
   gdcmDocEntry* entry = GetDocEntryByNumber(group, elem);
   if (!entry) 
   {
      dbg.Verbose(1, "gdcmDocument::GetDocEntryByNumber: no entry present.");
      return 0;
   }
   return entry->GetOffset();
}

/**
 * \brief   Gets (from Header) a 'non string' element value 
 *          (LoadElementValues has already be executed)  
 * @param Group   group number of the Entry 
 * @param Elem  element number of the Entry
 * @return Pointer to the 'non string' area
 */
void * gdcmDocument::GetEntryVoidAreaByNumber(uint16_t group, uint16_t elem) 
{
   gdcmDocEntry* entry = GetDocEntryByNumber(group, elem);
   if (!entry) 
   {
      dbg.Verbose(1, "gdcmDocument::GetDocEntryByNumber: no entry");
      return 0;
   }
   return ((gdcmBinEntry *)entry)->GetVoidArea();
}

/**
 * \brief         Loads (from disk) the element content 
 *                when a string is not suitable
 * @param Group   group number of the Entry 
 * @param Elem  element number of the Entry
 */
void *gdcmDocument::LoadEntryVoidArea(uint16_t group, uint16_t elem)
{
   gdcmDocEntry *docElement = GetDocEntryByNumber(group, elem);
   if ( !docElement )
   {
      return NULL;
   }
   size_t o =(size_t)docElement->GetOffset();
   fseek(Fp, o, SEEK_SET);
   size_t l = docElement->GetLength();
   char* a = new char[l];
   if(!a)
   {
      dbg.Verbose(0, "gdcmDocument::LoadEntryVoidArea cannot allocate a");
      return NULL;
   }
   size_t l2 = fread(a, 1, l , Fp);
   if( l != l2 )
   {
      delete[] a;
      return NULL;
   }
   /// \todo Drop any already existing void area! JPR
   SetEntryVoidAreaByNumber(a, group, elem);

   return a;
}
/**
 * \brief         Loads (from disk) the element content 
 *                when a string is not suitable
 * @param Element  Entry whose voidArea is going to be loaded
 */
void *gdcmDocument::LoadEntryVoidArea(gdcmBinEntry *element) 
{
   size_t o =(size_t)element->GetOffset();
   fseek(Fp, o, SEEK_SET);
   size_t l = element->GetLength();
   char* a = new char[l];
   if( !a )
   {
      dbg.Verbose(0, "gdcmDocument::LoadEntryVoidArea cannot allocate a");
      return NULL;
   }
   element->SetVoidArea((void *)a);
   /// \todo check the result 
   size_t l2 = fread(a, 1, l , Fp);
   if( l != l2 )
   {
      delete[] a;
      return NULL;
   }

   return a;
}

/**
 * \brief   Sets a 'non string' value to a given Dicom Element
 * @param   area area containing the 'non string' value
 * @param   group     Group number of the searched Dicom Element 
 * @param   element Element number of the searched Dicom Element 
 * @return  
 */
bool gdcmDocument::SetEntryVoidAreaByNumber(void * area,
                                            uint16_t group, 
                                            uint16_t element) 
{
   gdcmTagKey key = gdcmDictEntry::TranslateToKey(group, element);
   if ( !TagHT.count(key))
   {
      return false;
   }
      // This was for multimap ?
    (( gdcmBinEntry *)( ((TagHT.equal_range(key)).first)->second ))->SetVoidArea(area);
      
   return true;
}

/**
 * \brief   Update the entries with the shadow dictionary. 
 *          Only non even entries are analyzed       
 */
void gdcmDocument::UpdateShaEntries()
{
   //gdcmDictEntry *entry;
   std::string vr;
   
   /// \todo TODO : still any use to explore recursively the whole structure?
/*
   for(ListTag::iterator it=listEntries.begin();
       it!=listEntries.end();
       ++it)
   {
      // Odd group => from public dictionary
      if((*it)->GetGroup()%2==0)
         continue;

      // Peer group => search the corresponding dict entry
      if(RefShaDict)
         entry=RefShaDict->GetDictEntryByNumber((*it)->GetGroup(),(*it)->GetElement());
      else
         entry=NULL;

      if((*it)->IsImplicitVR())
         vr="Implicit";
      else
         vr=(*it)->GetVR();

      (*it)->SetValue(GetDocEntryUnvalue(*it));  // to go on compiling
      if(entry){
         // Set the new entry and the new value
         (*it)->SetDictEntry(entry);
         CheckDocEntryVR(*it,vr);

         (*it)->SetValue(GetDocEntryValue(*it));    // to go on compiling
 
      }
      else
      {
         // Remove precedent value transformation
         (*it)->SetDictEntry(NewVirtualDictEntry((*it)->GetGroup(),(*it)->GetElement(),vr));
      }
   }
*/   
}

/**
 * \brief   Searches within the Header Entries for a Dicom Element of
 *          a given tag.
 * @param   tagName name of the searched Dicom Element.
 * @return  Corresponding Dicom Element when it exists, and NULL
 *          otherwise.
 */
gdcmDocEntry* gdcmDocument::GetDocEntryByName(std::string const & tagName)
{
   gdcmDictEntry *dictEntry = RefPubDict->GetDictEntryByName(tagName); 
   if( !dictEntry )
   {
      return NULL;
   }

  return GetDocEntryByNumber(dictEntry->GetGroup(),dictEntry->GetElement());
}

/**
 * \brief  retrieves a Dicom Element (the first one) using (group, element)
 * \warning (group, element) IS NOT an identifier inside the Dicom Header
 *           if you think it's NOT UNIQUE, check the count number
 *           and use iterators to retrieve ALL the Dicoms Elements within
 *           a given couple (group, element)
 * @param   group Group number of the searched Dicom Element 
 * @param   element Element number of the searched Dicom Element 
 * @return  
 */
gdcmDocEntry* gdcmDocument::GetDocEntryByNumber(uint16_t group,
                                                uint16_t element) 
{
   gdcmTagKey key = gdcmDictEntry::TranslateToKey(group, element);
   if ( !TagHT.count(key))
   {
      return NULL;
   }
   return TagHT.find(key)->second;
}

/**
 * \brief  Same as \ref gdcmDocument::GetDocEntryByNumber except it only
 *         returns a result when the corresponding entry is of type
 *         ValEntry.
 * @return When present, the corresponding ValEntry. 
 */
gdcmValEntry* gdcmDocument::GetValEntryByNumber(uint16_t group,
                                                uint16_t element)
{
   gdcmDocEntry* currentEntry = GetDocEntryByNumber(group, element);
   if ( !currentEntry )
   {
      return 0;
   }
   if ( gdcmValEntry* valEntry = dynamic_cast<gdcmValEntry*>(currentEntry) )
   {
      return valEntry;
   }
   dbg.Verbose(0, "gdcmDocument::GetValEntryByNumber: unfound ValEntry.");

   return 0;
}

/**
 * \brief         Loads the element while preserving the current
 *                underlying file position indicator as opposed to
 *                to LoadDocEntry that modifies it.
 * @param entry   Header Entry whose value shall be loaded. 
 * @return  
 */
void gdcmDocument::LoadDocEntrySafe(gdcmDocEntry * entry)
{
   long PositionOnEntry = ftell(Fp);
   LoadDocEntry(entry);
   fseek(Fp, PositionOnEntry, SEEK_SET);
}

/**
 * \brief   Swaps back the bytes of 4-byte long integer accordingly to
 *          processor order.
 * @return  The properly swaped 32 bits integer.
 */
uint32_t gdcmDocument::SwapLong(uint32_t a)
{
   switch (SwapCode)
   {
      case    0 :
         break;
      case 4321 :
         a=( ((a<<24) & 0xff000000) | ((a<<8)  & 0x00ff0000) | 
             ((a>>8)  & 0x0000ff00) | ((a>>24) & 0x000000ff) );
         break;
   
      case 3412 :
         a=( ((a<<16) & 0xffff0000) | ((a>>16) & 0x0000ffff) );
         break;
   
      case 2143 :
         a=( ((a<< 8) & 0xff00ff00) | ((a>>8) & 0x00ff00ff)  );
         break;
      default :
         std::cout << "swapCode= " << SwapCode << std::endl;
         dbg.Error(" gdcmDocument::SwapLong : unset swap code");
         a=0;
   }
   return a;
} 

/**
 * \brief   Unswaps back the bytes of 4-byte long integer accordingly to
 *          processor order.
 * @return  The properly unswaped 32 bits integer.
 */
uint32_t gdcmDocument::UnswapLong(uint32_t a)
{
   return SwapLong(a);
}

/**
 * \brief   Swaps the bytes so they agree with the processor order
 * @return  The properly swaped 16 bits integer.
 */
uint16_t gdcmDocument::SwapShort(uint16_t a)
{
   if ( SwapCode == 4321 || SwapCode == 2143 )
   {
      a =((( a << 8 ) & 0x0ff00 ) | (( a >> 8 ) & 0x00ff ) );
   }
   return a;
}

/**
 * \brief   Unswaps the bytes so they agree with the processor order
 * @return  The properly unswaped 16 bits integer.
 */
uint16_t gdcmDocument::UnswapShort(uint16_t a)
{
   return SwapShort(a);
}

//-----------------------------------------------------------------------------
// Private

/**
 * \brief   Parses a DocEntrySet (Zero-level DocEntries or SQ Item DocEntries)
 * @return  length of the parsed set. 
 */ 

long gdcmDocument::ParseDES(gdcmDocEntrySet *set,
                            long offset,
                            long l_max,
                            bool delim_mode)
{
   gdcmDocEntry *newDocEntry = 0;
   gdcmValEntry *newValEntry = 0;
   unsigned long l = 0;
   
   int depth = set->GetDepthLevel();
   while (true)
   { 
      if ( !delim_mode && (ftell(Fp)-offset) >= l_max)
      {
         break;
      }
      newDocEntry = ReadNextDocEntry( );
      if ( !newDocEntry )
      {
         break;
      }

      gdcmVRKey vr = newDocEntry->GetVR();
      if ( vr != "SQ" )
      {
               
         if ( gdcmGlobal::GetVR()->IsVROfGdcmStringRepresentable(vr) )
         {
            /////// ValEntry
            newValEntry = new gdcmValEntry(newDocEntry->GetDictEntry());
            newValEntry->Copy(newDocEntry);
            newValEntry->SetDepthLevel(depth);
            set->AddEntry(newValEntry);
            LoadDocEntry(newValEntry);
            if (newValEntry->isItemDelimitor())
            {
               break;
            }
            if ( !delim_mode && (ftell(Fp)-offset) >= l_max)
            {
               break;
            }
         }
         else
         {
            if ( ! gdcmGlobal::GetVR()->IsVROfGdcmBinaryRepresentable(vr) )
            { 
                ////// Neither ValEntry NOR BinEntry: should mean UNKOWN VR
                dbg.Verbose(0, "gdcmDocument::ParseDES: neither Valentry, "
                               "nor BinEntry. Probably unknown VR.");
            }

            ////// BinEntry or UNKOWN VR:
            gdcmBinEntry *bn = new gdcmBinEntry(newDocEntry->GetDictEntry());
            bn->Copy(newDocEntry);
            set->AddEntry(bn);
            LoadDocEntry(bn);
         }

         if (newDocEntry->GetGroup()   == 0x7fe0 && 
             newDocEntry->GetElement() == 0x0010 )
         {
             if (newDocEntry->GetReadLength()==0xffffffff)
             {
                // Broken US.3405.1.dcm
                Parse7FE0(); // to skip the pixels 
                             // (multipart JPEG/RLE are trouble makers)
             }
             else
             {
                SkipToNextDocEntry(newDocEntry);
                l = newDocEntry->GetFullLength(); 
             }
         }
         else
         {
             // to be sure we are at the beginning 
             SkipToNextDocEntry(newDocEntry);
             l = newDocEntry->GetFullLength(); 
         }
      }
      else
      {
         // VR = "SQ"
         l = newDocEntry->GetReadLength();            
         if ( l != 0 ) // don't mess the delim_mode for zero-length sequence
         {
            if ( l == 0xffffffff )
            {
              delim_mode = true;
            }
            else
            {
              delim_mode = false;
            }
         }
         // no other way to create it ...
         gdcmSeqEntry *sq = new gdcmSeqEntry(newDocEntry->GetDictEntry(),
                                             set->GetDepthLevel());
         sq->Copy(newDocEntry);
         sq->SetDelimitorMode(delim_mode);
         sq->SetDepthLevel(depth);

         if ( l != 0 )
         {  // Don't try to parse zero-length sequences
            long lgt = ParseSQ( sq, 
                                newDocEntry->GetOffset(),
                                l, delim_mode);
            (void)lgt;  //not used...
         }
         set->AddEntry(sq);
         if ( !delim_mode && (ftell(Fp)-offset) >= l_max)
         {
            break;
         }
      }
      delete newDocEntry;
   }

   return l; // Probably useless 
}

/**
 * \brief   Parses a Sequence ( SeqEntry after SeqEntry)
 * @return  parsed length for this level
 */ 
long gdcmDocument::ParseSQ(gdcmSeqEntry *set,
                           long offset, long l_max, bool delim_mode)
{
   int SQItemNumber = 0;
   bool dlm_mod;
   //int depth = set->GetDepthLevel();
   //(void)depth; //not used

   while (true)
   {
      gdcmDocEntry *newDocEntry = ReadNextDocEntry();   
      if ( !newDocEntry )
      {
         // FIXME Should warn user
         break;
      }
      if( delim_mode )
      {
         if ( newDocEntry->isSequenceDelimitor() )
         {
            set->SetSequenceDelimitationItem( newDocEntry );
            break;
         }
      }
      if ( !delim_mode && (ftell(Fp)-offset) >= l_max)
      {
          break;
      }

      gdcmSQItem *itemSQ = new gdcmSQItem(set->GetDepthLevel());
      itemSQ->AddEntry(newDocEntry);
      unsigned int l = newDocEntry->GetReadLength();
      
      if ( l == 0xffffffff )
      {
         dlm_mod = true;
      }
      else
      {
         dlm_mod = false;
      }
   
      int lgr = ParseDES(itemSQ, newDocEntry->GetOffset(), l, dlm_mod);
      (void)lgr;  //FIXME not used
      
      set->AddEntry(itemSQ, SQItemNumber); 
      SQItemNumber++;
      if ( !delim_mode && (ftell(Fp)-offset) >= l_max)
      {
         break;
      }
   }

   int lgth = ftell(Fp) - offset;
   return lgth;
}

/**
 * \brief         Loads the element content if its length doesn't exceed
 *                the value specified with gdcmDocument::SetMaxSizeLoadEntry()
 * @param         Entry Header Entry (Dicom Element) to be dealt with
 */
void gdcmDocument::LoadDocEntry(gdcmDocEntry* entry)
{
   size_t item_read;
   uint16_t group  = entry->GetGroup();
   std::string  vr = entry->GetVR();
   uint32_t length = entry->GetLength();

   fseek(Fp, (long)entry->GetOffset(), SEEK_SET);

   // A SeQuence "contains" a set of Elements.  
   //          (fffe e000) tells us an Element is beginning
   //          (fffe e00d) tells us an Element just ended
   //          (fffe e0dd) tells us the current SeQuence just ended
   if( group == 0xfffe )
   {
      // NO more value field for SQ !
      return;
   }

   // When the length is zero things are easy:
   if ( length == 0 )
   {
      ((gdcmValEntry *)entry)->SetValue("");
      return;
   }

   // The elements whose length is bigger than the specified upper bound
   // are not loaded. Instead we leave a short notice of the offset of
   // the element content and it's length.

   std::ostringstream s;
   if (length > MaxSizeLoadEntry)
   {
      if (gdcmBinEntry* binEntryPtr = dynamic_cast< gdcmBinEntry* >(entry) )
      {         
         s << "gdcm::NotLoaded (BinEntry)";
         s << " Address:" << (long)entry->GetOffset();
         s << " Length:"  << entry->GetLength();
         s << " x(" << std::hex << entry->GetLength() << ")";
         binEntryPtr->SetValue(s.str());
      }
      // to be sure we are at the end of the value ...
      fseek(Fp, (long)entry->GetOffset()+(long)entry->GetLength(), SEEK_SET);      

      return;  //FIXME FIXME FIXME FIXME ????

       // Be carefull : a BinEntry IS_A ValEntry ... 
      if (gdcmValEntry* valEntryPtr = dynamic_cast< gdcmValEntry* >(entry) )
      {
         s << "gdcm::NotLoaded. (ValEntry)";
         s << " Address:" << (long)entry->GetOffset();
         s << " Length:"  << entry->GetLength();
         s << " x(" << std::hex << entry->GetLength() << ")";
         valEntryPtr->SetValue(s.str());
      }
      // to be sure we are at the end of the value ...
      fseek(Fp,(long)entry->GetOffset()+(long)entry->GetLength(),SEEK_SET);      

      return;
   }

   // When we find a BinEntry not very much can be done :
   if (gdcmBinEntry* binEntryPtr = dynamic_cast< gdcmBinEntry* >(entry) )
   {

      LoadEntryVoidArea(binEntryPtr);
      s << "gdcm::Loaded (BinEntry)";
      binEntryPtr->SetValue(s.str());
      return;
   }
    
   /// \todo Any compacter code suggested (?)
   if ( IsDocEntryAnInteger(entry) )
   {   
      uint32_t NewInt;
      std::ostringstream s;
      int nbInt;
      // When short integer(s) are expected, read and convert the following 
      // n *two characters properly i.e. consider them as short integers as
      // opposed to strings.
      // Elements with Value Multiplicity > 1
      // contain a set of integers (not a single one)       
      if (vr == "US" || vr == "SS")
      {
         nbInt = length / 2;
         NewInt = ReadInt16();
         s << NewInt;
         if (nbInt > 1)
         {
            for (int i=1; i < nbInt; i++)
            {
               s << '\\';
               NewInt = ReadInt16();
               s << NewInt;
            }
         }
      }
      // See above comment on multiple integers (mutatis mutandis).
      else if (vr == "UL" || vr == "SL")
      {
         nbInt = length / 4;
         NewInt = ReadInt32();
         s << NewInt;
         if (nbInt > 1)
         {
            for (int i=1; i < nbInt; i++)
            {
               s << '\\';
               NewInt = ReadInt32();
               s << NewInt;
            }
         }
      }
#ifdef GDCM_NO_ANSI_STRING_STREAM
      s << std::ends; // to avoid oddities on Solaris
#endif //GDCM_NO_ANSI_STRING_STREAM

      ((gdcmValEntry *)entry)->SetValue(s.str());
      return;
   }
   
   // We need an additional byte for storing \0 that is not on disk
   //std::string newValue(length,0);
   //item_read = fread(&(newValue[0]), (size_t)length, (size_t)1, Fp);  
   //rah !! I can't believe it could work, normally this is a const char* !!!
   char *str = new char[length+1];
   item_read = fread(str, (size_t)length, (size_t)1, Fp);
   str[length] = '\0';
   std::string newValue = str;
   delete[] str;
   if ( gdcmValEntry* valEntry = dynamic_cast<gdcmValEntry* >(entry) )
   {  
      if ( item_read != 1 )
      {
         dbg.Verbose(1, "gdcmDocument::LoadDocEntry",
                        "unread element value");
         valEntry->SetValue("gdcm::UnRead");
         return;
      }

      if( vr == "UI" )
      {
         // Because of correspondance with the VR dic
         valEntry->SetValue(newValue);
      }
      else
      {
         valEntry->SetValue(newValue);
      }
   }
   else
   {
      dbg.Error(true, "gdcmDocument::LoadDocEntry"
                      "Should have a ValEntry, here !");
   }
}


/**
 * \brief  Find the value Length of the passed Header Entry
 * @param  Entry Header Entry whose length of the value shall be loaded. 
 */
void gdcmDocument::FindDocEntryLength (gdcmDocEntry *entry)
{
   uint16_t element = entry->GetElement();
   std::string  vr  = entry->GetVR();
   uint16_t length16;
       
   
   if ( Filetype == gdcmExplicitVR && !entry->IsImplicitVR() ) 
   {
      if ( vr == "OB" || vr == "OW" || vr == "SQ" || vr == "UN" ) 
      {
         // The following reserved two bytes (see PS 3.5-2001, section
         // 7.1.2 Data element structure with explicit vr p27) must be
         // skipped before proceeding on reading the length on 4 bytes.
         fseek(Fp, 2L, SEEK_CUR);
         uint32_t length32 = ReadInt32();

         if ( vr == "OB" && length32 == 0xffffffff ) 
         {
            uint32_t lengthOB = FindDocEntryLengthOB();
            if ( errno == 1 )
            {
               // Computing the length failed (this happens with broken
               // files like gdcm-JPEG-LossLess3a.dcm). We still have a
               // chance to get the pixels by deciding the element goes
               // until the end of the file. Hence we artificially fix the
               // the length and proceed.
               long currentPosition = ftell(Fp);
               fseek(Fp,0L,SEEK_END);
               long lengthUntilEOF = ftell(Fp) - currentPosition;
               fseek(Fp, currentPosition, SEEK_SET);
               entry->SetLength(lengthUntilEOF);
               errno = 0;
               return;
            }
            entry->SetLength(lengthOB);
            return;
         }
         FixDocEntryFoundLength(entry, length32); 
         return;
      }

      // Length is encoded on 2 bytes.
      length16 = ReadInt16();
      
      // We can tell the current file is encoded in big endian (like
      // Data/US-RGB-8-epicard) when we find the "Transfer Syntax" tag
      // and it's value is the one of the encoding of a big endian file.
      // In order to deal with such big endian encoded files, we have
      // (at least) two strategies:
      // * when we load the "Transfer Syntax" tag with value of big endian
      //   encoding, we raise the proper flags. Then we wait for the end
      //   of the META group (0x0002) among which is "Transfer Syntax",
      //   before switching the swap code to big endian. We have to postpone
      //   the switching of the swap code since the META group is fully encoded
      //   in little endian, and big endian coding only starts at the next
      //   group. The corresponding code can be hard to analyse and adds
      //   many additional unnecessary tests for regular tags.
      // * the second strategy consists in waiting for trouble, that shall
      //   appear when we find the first group with big endian encoding. This
      //   is easy to detect since the length of a "Group Length" tag (the
      //   ones with zero as element number) has to be of 4 (0x0004). When we
      //   encounter 1024 (0x0400) chances are the encoding changed and we
      //   found a group with big endian encoding.
      // We shall use this second strategy. In order to make sure that we
      // can interpret the presence of an apparently big endian encoded
      // length of a "Group Length" without committing a big mistake, we
      // add an additional check: we look in the already parsed elements
      // for the presence of a "Transfer Syntax" whose value has to be "big
      // endian encoding". When this is the case, chances are we have got our
      // hands on a big endian encoded file: we switch the swap code to
      // big endian and proceed...
      if ( (element  == 0x0000) && (length16 == 0x0400) ) 
      {
         if ( ! IsExplicitVRBigEndianTransferSyntax() ) 
         {
            dbg.Verbose(0, "gdcmDocument::FindLength", "not explicit VR");
            errno = 1;
            return;
         }
         length16 = 4;
         SwitchSwapToBigEndian();
         // Restore the unproperly loaded values i.e. the group, the element
         // and the dictionary entry depending on them.
         uint16_t correctGroup = SwapShort( entry->GetGroup() );
         uint16_t correctElem  = SwapShort( entry->GetElement() );
         gdcmDictEntry* newTag = GetDictEntryByNumber( correctGroup,
                                                       correctElem );
         if ( !newTag )
         {
            // This correct tag is not in the dictionary. Create a new one.
            newTag = NewVirtualDictEntry(correctGroup, correctElem);
         }
         // FIXME this can create a memory leaks on the old entry that be
         // left unreferenced.
         entry->SetDictEntry( newTag );
      }
       
      // Heuristic: well, some files are really ill-formed.
      if ( length16 == 0xffff) 
      {
         length16 = 0;
         // Length16= 0xffff means that we deal with
         // 'Unknown Length' Sequence  
      }
      FixDocEntryFoundLength(entry, (uint32_t)length16);
      return;
   }
   else
   {
      // Either implicit VR or a non DICOM conformal (see note below) explicit
      // VR that ommited the VR of (at least) this element. Farts happen.
      // [Note: according to the part 5, PS 3.5-2001, section 7.1 p25
      // on Data elements "Implicit and Explicit VR Data Elements shall
      // not coexist in a Data Set and Data Sets nested within it".]
      // Length is on 4 bytes.
      
      FixDocEntryFoundLength(entry, ReadInt32());
      return;
   }
}

/**
 * \brief     Find the Value Representation of the current Dicom Element.
 * @param     Entry
 */
void gdcmDocument::FindDocEntryVR( gdcmDocEntry *entry )
{
   if ( Filetype != gdcmExplicitVR )
   {
      return;
   }

   char vr[3];

   long positionOnEntry = ftell(Fp);
   // Warning: we believe this is explicit VR (Value Representation) because
   // we used a heuristic that found "UL" in the first tag. Alas this
   // doesn't guarantee that all the tags will be in explicit VR. In some
   // cases (see e-film filtered files) one finds implicit VR tags mixed
   // within an explicit VR file. Hence we make sure the present tag
   // is in explicit VR and try to fix things if it happens not to be
   // the case.
   
   fread (&vr, (size_t)2,(size_t)1, Fp);
   vr[2] = 0;

   if( !CheckDocEntryVR(entry, vr) )
   {
      fseek(Fp, positionOnEntry, SEEK_SET);
      // When this element is known in the dictionary we shall use, e.g. for
      // the semantics (see the usage of IsAnInteger), the VR proposed by the
      // dictionary entry. Still we have to flag the element as implicit since
      // we know now our assumption on expliciteness is not furfilled.
      // avoid  .
      if ( entry->IsVRUnknown() )
      {
         entry->SetVR("Implicit");
      }
      entry->SetImplicitVR();
   }
}

/**
 * \brief     Check the correspondance between the VR of the header entry
 *            and the taken VR. If they are different, the header entry is 
 *            updated with the new VR.
 * @param     Entry Header Entry to check
 * @param     vr    Dicom Value Representation
 * @return    false if the VR is incorrect of if the VR isn't referenced
 *            otherwise, it returns true
*/
bool gdcmDocument::CheckDocEntryVR(gdcmDocEntry *entry, gdcmVRKey vr)
{
   char msg[100]; // for sprintf
   bool realExplicit = true;

   // Assume we are reading a falsely explicit VR file i.e. we reached
   // a tag where we expect reading a VR but are in fact we read the
   // first to bytes of the length. Then we will interogate (through find)
   // the dicom_vr dictionary with oddities like "\004\0" which crashes
   // both GCC and VC++ implementations of the STL map. Hence when the
   // expected VR read happens to be non-ascii characters we consider
   // we hit falsely explicit VR tag.

   if ( (!isalpha(vr[0])) && (!isalpha(vr[1])) )
   {
      realExplicit = false;
   }

   // CLEANME searching the dicom_vr at each occurence is expensive.
   // PostPone this test in an optional integrity check at the end
   // of parsing or only in debug mode.
   if ( realExplicit && !gdcmGlobal::GetVR()->Count(vr) )
   {
      realExplicit = false;
   }

   if ( !realExplicit ) 
   {
      // We thought this was explicit VR, but we end up with an
      // implicit VR tag. Let's backtrack.   
      sprintf(msg,"Falsely explicit vr file (%04x,%04x)\n", 
                   entry->GetGroup(), entry->GetElement());
      dbg.Verbose(1, "gdcmDocument::FindVR: ",msg);

      if( entry->GetGroup() % 2 && entry->GetElement() == 0x0000)
      {
         // Group length is UL !
         gdcmDictEntry* newEntry = NewVirtualDictEntry(
                                   entry->GetGroup(), entry->GetElement(),
                                   "UL", "FIXME", "Group Length");
         entry->SetDictEntry( newEntry );
      }
      return false;
   }

   if ( entry->IsVRUnknown() )
   {
      // When not a dictionary entry, we can safely overwrite the VR.
      if( entry->GetElement() == 0x0000 )
      {
         // Group length is UL !
         entry->SetVR("UL");
      }
      else
      {
         entry->SetVR(vr);
      }
   }
   else if ( entry->GetVR() != vr ) 
   {
      // The VR present in the file and the dictionary disagree. We assume
      // the file writer knew best and use the VR of the file. Since it would
      // be unwise to overwrite the VR of a dictionary (since it would
      // compromise it's next user), we need to clone the actual DictEntry
      // and change the VR for the read one.
      gdcmDictEntry* newEntry = NewVirtualDictEntry(
                                entry->GetGroup(), entry->GetElement(),
                                vr, "FIXME", entry->GetName());
      entry->SetDictEntry(newEntry);
   }

   return true; 
}

/**
 * \brief   Get the transformed value of the header entry. The VR value 
 *          is used to define the transformation to operate on the value
 * \warning NOT end user intended method !
 * @param   Entry 
 * @return  Transformed entry value
 */
std::string gdcmDocument::GetDocEntryValue(gdcmDocEntry *entry)
{
   if ( IsDocEntryAnInteger(entry) && entry->IsImplicitVR() )
   {
      std::string val = ((gdcmValEntry *)entry)->GetValue();
      std::string vr  = entry->GetVR();
      uint32_t length = entry->GetLength();
      std::ostringstream s;
      int nbInt;

      // When short integer(s) are expected, read and convert the following 
      // n * 2 bytes properly i.e. as a multivaluated strings
      // (each single value is separated fromthe next one by '\'
      // as usual for standard multivaluated filels
      // Elements with Value Multiplicity > 1
      // contain a set of short integers (not a single one) 
   
      if( vr == "US" || vr == "SS" )
      {
         uint16_t newInt16;

         nbInt = length / 2;
         for (int i=0; i < nbInt; i++) 
         {
            if( i != 0 )
            {
               s << '\\';
            }
            newInt16 = ( val[2*i+0] & 0xFF ) + ( ( val[2*i+1] & 0xFF ) << 8);
            newInt16 = SwapShort( newInt16 );
            s << newInt16;
         }
      }

      // When integer(s) are expected, read and convert the following 
      // n * 4 bytes properly i.e. as a multivaluated strings
      // (each single value is separated fromthe next one by '\'
      // as usual for standard multivaluated filels
      // Elements with Value Multiplicity > 1
      // contain a set of integers (not a single one) 
      else if( vr == "UL" || vr == "SL" )
      {
         uint32_t newInt32;

         nbInt = length / 4;
         for (int i=0; i < nbInt; i++) 
         {
            if( i != 0)
            {
               s << '\\';
            }
            newInt32 = ( val[4*i+0] & 0xFF )
                    + (( val[4*i+1] & 0xFF ) <<  8 )
                    + (( val[4*i+2] & 0xFF ) << 16 )
                    + (( val[4*i+3] & 0xFF ) << 24 );
            newInt32 = SwapLong( newInt32 );
            s << newInt32;
         }
      }
#ifdef GDCM_NO_ANSI_STRING_STREAM
      s << std::ends; // to avoid oddities on Solaris
#endif //GDCM_NO_ANSI_STRING_STREAM
      return s.str();
   }

   return ((gdcmValEntry *)entry)->GetValue();
}

/**
 * \brief   Get the reverse transformed value of the header entry. The VR 
 *          value is used to define the reverse transformation to operate on
 *          the value
 * \warning NOT end user intended method !
 * @param   Entry 
 * @return  Reverse transformed entry value
 */
std::string gdcmDocument::GetDocEntryUnvalue(gdcmDocEntry* entry)
{
   if ( IsDocEntryAnInteger(entry) && entry->IsImplicitVR() )
   {
      std::string vr = entry->GetVR();
      std::vector<std::string> tokens;
      std::ostringstream s;

      if ( vr == "US" || vr == "SS" ) 
      {
         uint16_t newInt16;

         tokens.erase( tokens.begin(), tokens.end()); // clean any previous value
         Tokenize (((gdcmValEntry *)entry)->GetValue(), tokens, "\\");
         for (unsigned int i=0; i<tokens.size(); i++) 
         {
            newInt16 = atoi(tokens[i].c_str());
            s << (  newInt16        & 0xFF ) 
              << (( newInt16 >> 8 ) & 0xFF );
         }
         tokens.clear();
      }
      if ( vr == "UL" || vr == "SL")
      {
         uint32_t newInt32;

         tokens.erase(tokens.begin(),tokens.end()); // clean any previous value
         Tokenize (((gdcmValEntry *)entry)->GetValue(), tokens, "\\");
         for (unsigned int i=0; i<tokens.size();i++) 
         {
            newInt32 = atoi(tokens[i].c_str());
            s << (char)(  newInt32         & 0xFF ) 
              << (char)(( newInt32 >>  8 ) & 0xFF )
              << (char)(( newInt32 >> 16 ) & 0xFF )
              << (char)(( newInt32 >> 24 ) & 0xFF );
         }
         tokens.clear();
      }

#ifdef GDCM_NO_ANSI_STRING_STREAM
      s << std::ends; // to avoid oddities on Solaris
#endif //GDCM_NO_ANSI_STRING_STREAM
      return s.str();
   }

   return ((gdcmValEntry *)entry)->GetValue();
}

/**
 * \brief   Skip a given Header Entry 
 * \warning NOT end user intended method !
 * @param   entry 
 */
void gdcmDocument::SkipDocEntry(gdcmDocEntry *entry) 
{
   SkipBytes(entry->GetLength());
}

/**
 * \brief   Skips to the begining of the next Header Entry 
 * \warning NOT end user intended method !
 * @param   entry 
 */
void gdcmDocument::SkipToNextDocEntry(gdcmDocEntry *entry) 
{
   fseek(Fp, (long)(entry->GetOffset()),     SEEK_SET);
   fseek(Fp, (long)(entry->GetReadLength()), SEEK_CUR);
}

/**
 * \brief   When the length of an element value is obviously wrong (because
 *          the parser went Jabberwocky) one can hope improving things by
 *          applying some heuristics.
 */
void gdcmDocument::FixDocEntryFoundLength(gdcmDocEntry *entry,
                                          uint32_t foundLength)
{
   entry->SetReadLength( foundLength ); // will be updated only if a bug is found        
   if ( foundLength == 0xffffffff)
   {
      foundLength = 0;
   }
   
   uint16_t gr = entry->GetGroup();
   uint16_t el = entry->GetElement(); 
     
   if ( foundLength % 2)
   {
      std::ostringstream s;
      s << "Warning : Tag with uneven length "
        << foundLength 
        <<  " in x(" << std::hex << gr << "," << el <<")" << std::dec;
      dbg.Verbose(0, s.str().c_str());
   }
      
   //////// Fix for some naughty General Electric images.
   // Allthough not recent many such GE corrupted images are still present
   // on Creatis hard disks. Hence this fix shall remain when such images
   // are no longer in user (we are talking a few years, here)...
   // Note: XMedCom probably uses such a trick since it is able to read
   //       those pesky GE images ...
   if ( foundLength == 13)
   {
      // Only happens for this length !
      if ( entry->GetGroup()   != 0x0008
      || ( entry->GetElement() != 0x0070
        && entry->GetElement() != 0x0080 ) )
      {
         foundLength = 10;
         entry->SetReadLength(10); /// \todo a bug is to be fixed !?
      }
   }

   //////// Fix for some brain-dead 'Leonardo' Siemens images.
   // Occurence of such images is quite low (unless one leaves close to a
   // 'Leonardo' source. Hence, one might consider commenting out the
   // following fix on efficiency reasons.
   else if ( entry->GetGroup()   == 0x0009 
        && ( entry->GetElement() == 0x1113
          || entry->GetElement() == 0x1114 ) )
   {
      foundLength = 4;
      entry->SetReadLength(4); /// \todo a bug is to be fixed !?
   } 
 
   //////// Deal with sequences, but only on users request:
   else if ( entry->GetVR() == "SQ" && EnableSequences)
   {
      foundLength = 0;      // ReadLength is unchanged 
   } 
    
   //////// We encountered a 'delimiter' element i.e. a tag of the form 
   // "fffe|xxxx" which is just a marker. Delimiters length should not be
   // taken into account.
   else if( entry->GetGroup() == 0xfffe )
   {    
     // According to the norm, fffe|0000 shouldn't exist. BUT the Philips
     // image gdcmData/gdcm-MR-PHILIPS-16-Multi-Seq.dcm happens to
     // causes extra troubles...
     if( entry->GetElement() != 0x0000 )
     {
        foundLength = 0;
     }
   } 
           
   entry->SetUsableLength(foundLength);
}

/**
 * \brief   Apply some heuristics to predict whether the considered 
 *          element value contains/represents an integer or not.
 * @param   Entry The element value on which to apply the predicate.
 * @return  The result of the heuristical predicate.
 */
bool gdcmDocument::IsDocEntryAnInteger(gdcmDocEntry *entry)
{
   uint16_t element = entry->GetElement();
   uint16_t group   = entry->GetGroup();
   std::string  vr  = entry->GetVR();
   uint32_t length  = entry->GetLength();

   // When we have some semantics on the element we just read, and if we
   // a priori know we are dealing with an integer, then we shall be
   // able to swap it's element value properly.
   if ( element == 0 )  // This is the group length of the group
   {  
      if ( length == 4 )
      {
         return true;
      }
      else 
      {
         // Allthough this should never happen, still some images have a
         // corrupted group length [e.g. have a glance at offset x(8336) of
         // gdcmData/gdcm-MR-PHILIPS-16-Multi-Seq.dcm].
         // Since for dicom compliant and well behaved headers, the present
         // test is useless (and might even look a bit paranoid), when we
         // encounter such an ill-formed image, we simply display a warning
         // message and proceed on parsing (while crossing fingers).
         std::ostringstream s;
         int filePosition = ftell(Fp);
         s << "Erroneous Group Length element length  on : (" \
           << std::hex << group << " , " << element 
           << ") -before- position x(" << filePosition << ")"
           << "lgt : " << length;
         dbg.Verbose(0, "gdcmDocument::IsDocEntryAnInteger", s.str().c_str() );
      }
   }

   if ( vr == "UL" || vr == "US" || vr == "SL" || vr == "SS" )
   {
      return true;
   }
   
   return false;
}

/**
 * \brief  Find the Length till the next sequence delimiter
 * \warning NOT end user intended method !
 * @return 
 */

uint32_t gdcmDocument::FindDocEntryLengthOB()
{
   // See PS 3.5-2001, section A.4 p. 49 on encapsulation of encoded pixel data.
   long positionOnEntry = ftell(Fp);
   bool foundSequenceDelimiter = false;
   uint32_t totalLength = 0;

   while ( !foundSequenceDelimiter )
   {
      uint16_t g = ReadInt16();
      uint16_t n = ReadInt16();   
      if ( errno == 1 )
      {
         return 0;
      }

      // We have to decount the group and element we just read
      totalLength += 4;
     
      if ( g != 0xfffe || ( n != 0xe0dd && n != 0xe000 ) )
      {
         dbg.Verbose(1, "gdcmDocument::FindLengthOB: neither an Item tag "
                        "nor a Sequence delimiter tag."); 
         fseek(Fp, positionOnEntry, SEEK_SET);
         errno = 1;
         return 0;
      }

      if ( n == 0xe0dd )
      {
         foundSequenceDelimiter = true;
      }

      uint32_t itemLength = ReadInt32();
      // We add 4 bytes since we just read the ItemLength with ReadInt32
      totalLength += itemLength + 4;
      SkipBytes(itemLength);
      
      if ( foundSequenceDelimiter )
      {
         break;
      }
   }
   fseek(Fp, positionOnEntry, SEEK_SET);
   return totalLength;
}

/**
 * \brief Reads a supposed to be 16 Bits integer
 *       (swaps it depending on processor endianity) 
 * @return read value
 */
uint16_t gdcmDocument::ReadInt16()
{
   uint16_t g;
   size_t item_read = fread (&g, (size_t)2,(size_t)1, Fp);
   if ( item_read != 1 )
   {
      if( ferror(Fp) )
      {
         dbg.Verbose(0, "gdcmDocument::ReadInt16", " File Error");
      }
      errno = 1;
      return 0;
   }
   errno = 0;
   g = SwapShort(g); 
   return g;
}

/**
 * \brief  Reads a supposed to be 32 Bits integer
 *         (swaps it depending on processor endianity)  
 * @return read value
 */
uint32_t gdcmDocument::ReadInt32()
{
   uint32_t g;
   size_t item_read = fread (&g, (size_t)4,(size_t)1, Fp);
   if ( item_read != 1 )
   {
      if( ferror(Fp) )
      {
         dbg.Verbose(0, "gdcmDocument::ReadInt32", " File Error");
      }
      errno = 1;
      return 0;
   }
   errno = 0;
   g = SwapLong(g);
   return g;
}

/**
 * \brief skips bytes inside the source file 
 * \warning NOT end user intended method !
 * @return 
 */
void gdcmDocument::SkipBytes(uint32_t nBytes)
{
   //FIXME don't dump the returned value
   (void)fseek(Fp, (long)nBytes, SEEK_CUR);
}

/**
 * \brief Loads all the needed Dictionaries
 * \warning NOT end user intended method !   
 */
void gdcmDocument::Initialise() 
{
   RefPubDict = gdcmGlobal::GetDicts()->GetDefaultPubDict();
   RefShaDict = NULL;
}

/**
 * \brief   Discover what the swap code is (among little endian, big endian,
 *          bad little endian, bad big endian).
 *          sw is set
 * @return false when we are absolutely sure 
 *               it's neither ACR-NEMA nor DICOM
 *         true  when we hope ours assuptions are OK
 */
bool gdcmDocument::CheckSwap()
{
   // The only guaranted way of finding the swap code is to find a
   // group tag since we know it's length has to be of four bytes i.e.
   // 0x00000004. Finding the swap code in then straigthforward. Trouble
   // occurs when we can't find such group...
   
   uint32_t  x = 4;  // x : for ntohs
   bool net2host; // true when HostByteOrder is the same as NetworkByteOrder
   uint32_t  s32;
   uint16_t  s16;
       
   char deb[HEADER_LENGTH_TO_READ];
    
   // First, compare HostByteOrder and NetworkByteOrder in order to
   // determine if we shall need to swap bytes (i.e. the Endian type).
   if ( x == ntohs(x) )
   {
      net2host = true;
   }
   else
   {
      net2host = false;
   }
         
   // The easiest case is the one of a DICOM header, since it possesses a
   // file preamble where it suffice to look for the string "DICM".
   int lgrLue = fread(deb, 1, HEADER_LENGTH_TO_READ, Fp);
   (void)lgrLue;  //FIXME not used
   
   char *entCur = deb + 128;
   if( memcmp(entCur, "DICM", (size_t)4) == 0 )
   {
      dbg.Verbose(1, "gdcmDocument::CheckSwap:", "looks like DICOM Version3");
      
      // Next, determine the value representation (VR). Let's skip to the
      // first element (0002, 0000) and check there if we find "UL" 
      // - or "OB" if the 1st one is (0002,0001) -,
      // in which case we (almost) know it is explicit VR.
      // WARNING: if it happens to be implicit VR then what we will read
      // is the length of the group. If this ascii representation of this
      // length happens to be "UL" then we shall believe it is explicit VR.
      // FIXME: in order to fix the above warning, we could read the next
      // element value (or a couple of elements values) in order to make
      // sure we are not commiting a big mistake.
      // We need to skip :
      // * the 128 bytes of File Preamble (often padded with zeroes),
      // * the 4 bytes of "DICM" string,
      // * the 4 bytes of the first tag (0002, 0000),or (0002, 0001)
      // i.e. a total of  136 bytes.
      entCur = deb + 136;
     
      // FIXME : FIXME:
      // Sometimes (see : gdcmData/icone.dcm) group 0x0002 *is* Explicit VR,
      // but elem 0002,0010 (Transfert Syntax) tells us the file is
      // *Implicit* VR.  -and it is !- 
      
      if( memcmp(entCur, "UL", (size_t)2) == 0 ||
          memcmp(entCur, "OB", (size_t)2) == 0 ||
          memcmp(entCur, "UI", (size_t)2) == 0 ||
          memcmp(entCur, "CS", (size_t)2) == 0 )  // CS, to remove later
                                                    // when Write DCM *adds*
      // FIXME
      // Use gdcmDocument::dicom_vr to test all the possibilities
      // instead of just checking for UL, OB and UI !? group 0000 
      {
         Filetype = gdcmExplicitVR;
         dbg.Verbose(1, "gdcmDocument::CheckSwap:",
                     "explicit Value Representation");
      } 
      else 
      {
         Filetype = gdcmImplicitVR;
         dbg.Verbose(1, "gdcmDocument::CheckSwap:",
                     "not an explicit Value Representation");
      }
      
      if ( net2host )
      {
         SwapCode = 4321;
         dbg.Verbose(1, "gdcmDocument::CheckSwap:",
                        "HostByteOrder != NetworkByteOrder");
      }
      else 
      {
         SwapCode = 0;
         dbg.Verbose(1, "gdcmDocument::CheckSwap:",
                        "HostByteOrder = NetworkByteOrder");
      }
      
      // Position the file position indicator at first tag (i.e.
      // after the file preamble and the "DICM" string).
      rewind(Fp);
      fseek (Fp, 132L, SEEK_SET);
      return true;
   } // End of DicomV3

   // Alas, this is not a DicomV3 file and whatever happens there is no file
   // preamble. We can reset the file position indicator to where the data
   // is (i.e. the beginning of the file).
   dbg.Verbose(1, "gdcmDocument::CheckSwap:", "not a DICOM Version3 file");
   rewind(Fp);

   // Our next best chance would be to be considering a 'clean' ACR/NEMA file.
   // By clean we mean that the length of the first tag is written down.
   // If this is the case and since the length of the first group HAS to be
   // four (bytes), then determining the proper swap code is straightforward.

   entCur = deb + 4;
   // We assume the array of char we are considering contains the binary
   // representation of a 32 bits integer. Hence the following dirty
   // trick :
   s32 = *((uint32_t *)(entCur));
      
   switch( s32 )
   {
      case 0x00040000 :
         SwapCode = 3412;
         Filetype = gdcmACR;
         return true;
      case 0x04000000 :
         SwapCode = 4321;
         Filetype = gdcmACR;
         return true;
      case 0x00000400 :
         SwapCode = 2143;
         Filetype = gdcmACR;
         return true;
      case 0x00000004 :
         SwapCode = 0;
         Filetype = gdcmACR;
         return true;
      default :
         // We are out of luck. It is not a DicomV3 nor a 'clean' ACR/NEMA file.
         // It is time for despaired wild guesses. 
         // So, let's check if this file wouldn't happen to be 'dirty' ACR/NEMA,
         //  i.e. the 'group length' element is not present :     
         
         //  check the supposed to be 'group number'
         //  0x0002 or 0x0004 or 0x0008
         //  to determine ' SwapCode' value .
         //  Only 0 or 4321 will be possible 
         //  (no oportunity to check for the formerly well known
         //  ACR-NEMA 'Bad Big Endian' or 'Bad Little Endian' 
         //  if unsuccessfull (i.e. neither 0x0002 nor 0x0200 etc -4, 8-) 
         //  the file IS NOT ACR-NEMA nor DICOM V3
         //  Find a trick to tell it the caller...
      
         s16 = *((uint16_t *)(deb));
      
         switch ( s16 )
         {
            case 0x0002 :
            case 0x0004 :
            case 0x0008 :      
               SwapCode = 0;
               Filetype = gdcmACR;
               return true;
            case 0x0200 :
            case 0x0400 :
            case 0x0800 : 
               SwapCode = 4321;
               Filetype = gdcmACR;
               return true;
            default :
               dbg.Verbose(0, "gdcmDocument::CheckSwap:",
                     "ACR/NEMA unfound swap info (Really hopeless !)"); 
               Filetype = gdcmUnknown;     
               return false;
         }
         // Then the only info we have is the net2host one.
         //if (! net2host )
         //   SwapCode = 0;
         //else
         //  SwapCode = 4321;
         //return;
   }
}

/**
 * \brief Restore the unproperly loaded values i.e. the group, the element
 *        and the dictionary entry depending on them. 
 */
void gdcmDocument::SwitchSwapToBigEndian() 
{
   dbg.Verbose(1, "gdcmDocument::SwitchSwapToBigEndian",
                  "Switching to BigEndian mode.");
   if ( SwapCode == 0    ) 
   {
      SwapCode = 4321;
   }
   else if ( SwapCode == 4321 ) 
   {
      SwapCode = 0;
   }
   else if ( SwapCode == 3412 ) 
   {
      SwapCode = 2143;
   }
   else if ( SwapCode == 2143 )
   {
      SwapCode = 3412;
   }
}

/**
 * \brief  during parsing, Header Elements too long are not loaded in memory 
 * @param NewSize
 */
void gdcmDocument::SetMaxSizeLoadEntry(long newSize) 
{
   if ( newSize < 0 )
   {
      return;
   }
   if ((uint32_t)newSize >= (uint32_t)0xffffffff )
   {
      MaxSizeLoadEntry = 0xffffffff;
      return;
   }
   MaxSizeLoadEntry = newSize;
}


/**
 * \brief Header Elements too long will not be printed
 * \todo  See comments of \ref gdcmDocument::MAX_SIZE_PRINT_ELEMENT_VALUE 
 * @param NewSize
 */
void gdcmDocument::SetMaxSizePrintEntry(long newSize) 
{
   //DOH !! This is exactly SetMaxSizeLoadEntry FIXME FIXME
   if ( newSize < 0 )
   {
      return;
   }
   if ((uint32_t)newSize >= (uint32_t)0xffffffff )
   {
      MaxSizePrintEntry = 0xffffffff;
      return;
   }
   MaxSizePrintEntry = newSize;
}



/**
 * \brief   Read the next tag but WITHOUT loading it's value
 *          (read the 'Group Number', the 'Element Number',
 *           gets the Dict Entry
 *          gets the VR, gets the length, gets the offset value)
 * @return  On succes the newly created DocEntry, NULL on failure.      
 */
gdcmDocEntry *gdcmDocument::ReadNextDocEntry()
{
   uint16_t g = ReadInt16();
   uint16_t n = ReadInt16();

   if (errno == 1)
   {
      // We reached the EOF (or an error occured) therefore 
      // header parsing has to be considered as finished.
      return 0;
   }
   gdcmDocEntry *newEntry = NewDocEntryByNumber(g, n);

   FindDocEntryVR(newEntry);
   FindDocEntryLength(newEntry);

   if (errno == 1)
   {
      // Call it quits
      delete newEntry;
      return NULL;
   }
   newEntry->SetOffset(ftell(Fp));  

   return newEntry;
}


/**
 * \brief   Generate a free gdcmTagKey i.e. a gdcmTagKey that is not present
 *          in the TagHt dictionary.
 * @param   group The generated tag must belong to this group.  
 * @return  The element of tag with given group which is fee.
 */
uint32_t gdcmDocument::GenerateFreeTagKeyInGroup(uint16_t group) 
{
   for (uint32_t elem = 0; elem < UINT32_MAX; elem++) 
   {
      gdcmTagKey key = gdcmDictEntry::TranslateToKey(group, elem);
      if (TagHT.count(key) == 0)
      {
         return elem;
      }
   }
   return UINT32_MAX;
}

/**
 * \brief   Assuming the internal file pointer \ref gdcmDocument::fp 
 *          is placed at the beginning of a tag check whether this
 *          tag is (TestGroup, TestElement).
 * \warning On success the internal file pointer \ref gdcmDocument::fp
 *          is modified to point after the tag.
 *          On failure (i.e. when the tag wasn't the expected tag
 *          (TestGroup, TestElement) the internal file pointer
 *          \ref gdcmDocument::fp is restored to it's original position.
 * @param   TestGroup   The expected group of the tag.
 * @param   TestElement The expected Element of the tag.
 * @return  True on success, false otherwise.
 */
bool gdcmDocument::ReadTag(uint16_t testGroup, uint16_t testElement)
{
   long positionOnEntry = ftell(Fp);
   long currentPosition = ftell(Fp);          // On debugging purposes

   //// Read the Item Tag group and element, and make
   // sure they are what we expected:
   uint16_t itemTagGroup   = ReadInt16();
   uint16_t itemTagElement = ReadInt16();
   if ( itemTagGroup != testGroup || itemTagElement != testElement )
   {
      std::ostringstream s;
      s << "   We should have found tag (";
      s << std::hex << testGroup << "," << testElement << ")" << std::endl;
      s << "   but instead we encountered tag (";
      s << std::hex << itemTagGroup << "," << itemTagElement << ")"
        << std::endl;
      s << "  at address: " << (unsigned)currentPosition << std::endl;
      dbg.Verbose(0, "gdcmDocument::ReadItemTagLength: wrong Item Tag found:");
      dbg.Verbose(0, s.str().c_str());
      fseek(Fp, positionOnEntry, SEEK_SET);

      return false;
   }
   return true;
}

/**
 * \brief   Assuming the internal file pointer \ref gdcmDocument::fp 
 *          is placed at the beginning of a tag (TestGroup, TestElement),
 *          read the length associated to the Tag.
 * \warning On success the internal file pointer \ref gdcmDocument::fp
 *          is modified to point after the tag and it's length.
 *          On failure (i.e. when the tag wasn't the expected tag
 *          (TestGroup, TestElement) the internal file pointer
 *          \ref gdcmDocument::fp is restored to it's original position.
 * @param   TestGroup   The expected group of the tag.
 * @param   TestElement The expected Element of the tag.
 * @return  On success returns the length associated to the tag. On failure
 *          returns 0.
 */
uint32_t gdcmDocument::ReadTagLength(uint16_t testGroup, uint16_t testElement)
{
   long PositionOnEntry = ftell(Fp);
   (void)PositionOnEntry;

   if ( !ReadTag(testGroup, testElement) )
   {
      return 0;
   }
                                                                                
   //// Then read the associated Item Length
   long currentPosition = ftell(Fp);
   uint32_t itemLength  = ReadInt32();
   {
      std::ostringstream s;
      s << "Basic Item Length is: "
        << itemLength << std::endl;
      s << "  at address: " << (unsigned)currentPosition << std::endl;
      dbg.Verbose(0, "gdcmDocument::ReadItemTagLength: ", s.str().c_str());
   }
   return itemLength;
}

/**
 * \brief   Parse pixel data from disk for multi-fragment Jpeg/Rle files
 *          No other way so 'skip' the Data
 *
 */
void gdcmDocument::Parse7FE0 ()
{
   gdcmDocEntry* element = GetDocEntryByNumber(0x0002, 0x0010);
   if ( !element )
   {
      // Should warn user FIXME
      return;
   }
      
   if (   IsImplicitVRLittleEndianTransferSyntax()
       || IsExplicitVRLittleEndianTransferSyntax()
       || IsExplicitVRBigEndianTransferSyntax() /// \todo 1.2.2 ??? A verifier !
       || IsDeflatedExplicitVRLittleEndianTransferSyntax() )
   {
      return;
   }

   // ---------------- for Parsing : Position on begining of Jpeg/RLE Pixels 

   //// Read the Basic Offset Table Item Tag length...
   uint32_t itemLength = ReadTagLength(0xfffe, 0xe000);

   //// ... and then read length[s] itself[themselves]. We don't use
   // the values read (BTW  what is the purpous of those lengths ?)
   if ( itemLength != 0 )
   {
      // BTW, what is the purpous of those length anyhow !? 
      char* basicOffsetTableItemValue = new char[itemLength + 1];
      fread(basicOffsetTableItemValue, itemLength, 1, Fp);

      for (unsigned int i=0; i < itemLength; i += 4 )
      {
         uint32_t individualLength = str2num(&basicOffsetTableItemValue[i],uint32_t);
         std::ostringstream s;
         s << "   Read one length: ";
         s << std::hex << individualLength << std::endl;
         dbg.Verbose(0, "gdcmDocument::Parse7FE0: ", s.str().c_str());
      }              
   }

   if ( ! IsRLELossLessTransferSyntax() )
   {
      // JPEG Image
      
      //// We then skip (not reading them) all the fragments of images:
      while ( (itemLength = ReadTagLength(0xfffe, 0xe000)) )
      {
         SkipBytes(itemLength);
      }
   }
   else
   {
      // RLE Image
      long ftellRes;
      long rleSegmentLength[15], fragmentLength;

      // While we find some items:
      while ( (fragmentLength = ReadTagLength(0xfffe, 0xe000)) )
      { 
         // Parse fragments of the current Fragment (Frame)    
         //------------------ scanning (not reading) fragment pixels
         uint32_t nbRleSegments = ReadInt32();
 
         //// Reading RLE Segments Offset Table
         uint32_t rleSegmentOffsetTable[15];
         for(int k=1; k<=15; k++)
         {
            ftellRes = ftell(Fp);
            rleSegmentOffsetTable[k] = ReadInt32();
         }

         // skipping (not reading) RLE Segments
         if ( nbRleSegments > 1)
         {
            for(unsigned int k = 1; k <= nbRleSegments-1; k++)
            {
                rleSegmentLength[k] =  rleSegmentOffsetTable[k+1]
                                     - rleSegmentOffsetTable[k];
                ftellRes = ftell(Fp);
                SkipBytes(rleSegmentLength[k]);
             }
          }

          rleSegmentLength[nbRleSegments] = fragmentLength 
                                          - rleSegmentOffsetTable[nbRleSegments];
          ftellRes = ftell(Fp);
          SkipBytes(rleSegmentLength[nbRleSegments]);
      }

      // Make sure that at the end of the item we encounter a 'Sequence
      // Delimiter Item':
      if ( ! ReadTag(0xfffe, 0xe0dd) )
      {
         dbg.Verbose(0, "gdcmDocument::Parse7FE0: no sequence delimiter item");
         dbg.Verbose(0, "    at end of RLE item sequence");
      }
   }
}



/**
 * \brief   Compares two documents, according to \ref gdcmDicomDir rules
 * \warning Does NOT work with ACR-NEMA files
 * \todo    Find a trick to solve the pb (use RET fields ?)
 * @param   document
 * @return  true if 'smaller'
 */
bool gdcmDocument::operator<(gdcmDocument &document)
{
   // Patient Name
   std::string s1 = this->GetEntryByNumber(0x0010,0x0010);
   std::string s2 = document.GetEntryByNumber(0x0010,0x0010);
   if(s1 < s2)
   {
      return true;
   }
   else if(s1 > s2)
   {
      return false;
   }
   else
   {
      // Patient ID
      s1 = this->GetEntryByNumber(0x0010,0x0020);
      s2 = document.GetEntryByNumber(0x0010,0x0020);
      if ( s1 < s2 )
      {
         return true;
      }
      else if ( s1 > s2 )
      {
         return true;
      }
      else
      {
         // Study Instance UID
         s1 = this->GetEntryByNumber(0x0020,0x000d);
         s2 = document.GetEntryByNumber(0x0020,0x000d);
         if ( s1 < s2 )
         {
            return true;
         }
         else if( s1 > s2 )
         {
            return false;
         }
         else
         {
            // Serie Instance UID
            s1 = this->GetEntryByNumber(0x0020,0x000e);
            s2 = document.GetEntryByNumber(0x0020,0x000e);
            if ( s1 < s2 )
            {
               return true;
            }
            else if( s1 > s2 )
            {
               return false;
            }
         }
      }
   }
   return false;
}


//-----------------------------------------------------------------------------