Program: gdcm
Module: $RCSfile: gdcmDicomDir.cxx,v $
Language: C++
- Date: $Date: 2004/07/27 15:04:10 $
- Version: $Revision: 1.59 $
+ Date: $Date: 2004/08/27 15:48:44 $
+ Version: $Revision: 1.65 $
Copyright (c) CREATIS (Centre de Recherche et d'Applications en Traitement de
l'Image). All rights reserved. See Doc/License.txt or
#include <string>
#include <algorithm>
#include <sys/types.h>
-#include <errno.h>
#ifdef _MSC_VER
#include <direct.h>
/**
* \ingroup gdcmDicomDir
* \brief Constructor : creates an empty gdcmDicomDir
- * @param exception_on_error whether we want to throw an exception or not
*/
-gdcmDicomDir::gdcmDicomDir(bool exception_on_error):
- gdcmDocument( exception_on_error )
+gdcmDicomDir::gdcmDicomDir()
+ :gdcmDocument( )
{
- Initialize();
+ Initialize(); // sets all private fields to NULL
std::string pathBidon = "Bidon"; // Sorry, NULL not allowed ...
SetElement(pathBidon, GDCM_DICOMDIR_META, NULL); // Set the META elements
* and wants to explore recursively the directories
* - false if user passed an already built DICOMDIR file
* and wants to use it
- * @param exception_on_error whether we want to throw an exception or not
*/
-gdcmDicomDir::gdcmDicomDir(std::string const & fileName, bool parseDir,
- bool exception_on_error):
- gdcmDocument( fileName, exception_on_error, true) // true : enable SeQuences
+gdcmDicomDir::gdcmDicomDir(std::string const & fileName, bool parseDir ):
+ gdcmDocument( fileName )
{
// que l'on ai passe un root directory ou un DICOMDIR
// et quelle que soit la valeur de parseDir,
// on a deja lance gdcmDocument
- Initialize();
+ Initialize(); // sets all private fields to NULL
// gdcmDocument already executed
// if user passed a root directory, sure we didn't get anything
- if ( TagHT.begin() == TagHT.end() )
+ if ( TagHT.begin() == TagHT.end() ) // when user passed a Directory to parse
{
dbg.Verbose(0, "gdcmDicomDir::gdcmDicomDir : entry HT empty");
// we get current directory name
char* dummy = new char[1000];
getcwd(dummy, (size_t)1000);
- std::cout << "Directory to parse : [" << dummy << "]" << std::endl;
SetFileName( dummy ); // will be converted into a string
delete[] dummy; // no longer needed
}
- if ( parseDir )
+ if ( parseDir ) // user asked for a recursive parsing of a root directory
{
+ metaElems = NewMeta();
+
dbg.Verbose(0, "gdcmDicomDir::gdcmDicomDir : Parse directory"
" and create the DicomDir");
ParseDirectory();
// apres le constructeur
}
}
- else
+ else // Only if user passed a DICOMDIR
{
// Directory record sequence
gdcmDocEntry *e = GetDocEntryByNumber(0x0004, 0x1220);
SetStartMethod(NULL);
SetProgressMethod(NULL);
SetEndMethod(NULL);
-
- if ( metaElems )
- {
- delete metaElems;
- }
-
for(ListDicomDirPatient::iterator cc = patients.begin();
cc!= patients.end();
++cc)
{
delete *cc;
}
+ if ( metaElems )
+ {
+ delete metaElems;
+ }
}
//-----------------------------------------------------------------------------
progress = 0.0;
abort = false;
- metaElems = (gdcmDicomDirMeta *)0;
+ metaElems = 0;
}
*/
bool gdcmDicomDir::Write(std::string const & fileName)
-{
- FILE * fp1;
+{
+ uint16_t sq[5] = { 0x0004, 0x1220, 0x0000, 0xffff, 0xffff };
+ uint16_t sqt[4]= { 0xfffe, 0xe0dd, 0xffff, 0xffff };
- fp1 = fopen(fileName.c_str(), "wb");
- if( !fp1 )
+ FILE * fp = fopen(fileName.c_str(), "wb");
+ if( !fp )
{
printf("Failed to open(write) File [%s] \n", fileName.c_str());
return false;
}
- char * filePreamble = new char[128];
- fwrite(filePreamble,128,1,fp1);
- fwrite("DICM",4,1,fp1);
+ uint8_t* filePreamble = new uint8_t[128];
+ memset(filePreamble, 0, 128);
+ fwrite(filePreamble,128,1,fp);
+ fwrite("DICM",4,1,fp);
delete[] filePreamble;
- UpdateDirectoryRecordSequenceLength();
- WriteEntries(fp1);
+
+ // UpdateDirectoryRecordSequenceLength(); // TODO (if *really* usefull)
+
+ gdcmDicomDirMeta *ptrMeta = GetDicomDirMeta();
+ ptrMeta->Write(fp, gdcmExplicitVR);
+
+ // force writing 0004|1220 [SQ ], that CANNOT exist within gdcmDicomDirMeta
+ fwrite(&sq[0],4,1,fp); // 0004 1220
+ //fwrite("SQ" ,2,1,fp); // SQ // VR no written for 'No length' Sequences !
+ //fwrite(&sq[2],6,1,fp); // 00 ffffffff
+ fwrite(&sq[3],4,1,fp); // ffffffff
+
+ for(ListDicomDirPatient::iterator cc = patients.begin();cc!=patients.end();++cc)
+ {
+ (*cc)->Write( fp, gdcmExplicitVR );
+ }
+
+ // force writing Sequence Delimitation Item
+ fwrite(&sqt[0],8,1,fp); // fffe e0dd ffff ffff
- fclose( fp1 );
+ fclose( fp );
return true;
}
-/**
- * \brief Writes in a file using the tree-like structure.
- * @param _fp already open file pointer
- */
-
-void gdcmDicomDir::WriteEntries(FILE *) //_fp
-{
- /// \todo (?) tester les echecs en ecriture
- /// (apres chaque fwrite, dans le WriteEntry)
-
-
-/* TODO : to go on compiling
-
- gdcmDicomDirMeta *ptrMeta;
- ListDicomDirPatient::iterator itPatient;
- ListDicomDirStudy::iterator itStudy;
- ListDicomDirSerie::iterator itSerie;
- ListDicomDirImage::iterator itImage;
- ListTag::iterator i;
-
- ptrMeta= GetDicomDirMeta();
- for(i=ptrMeta->debut();i!=ptrMeta->fin();++i) {
- WriteEntry(*i,_fp, gdcmExplicitVR);
- }
-
- itPatient = GetDicomDirPatients().begin();
- while ( itPatient != GetDicomDirPatients().end() ) {
- for(i=(*itPatient)->debut();i!=(*itPatient)->fin();++i) {
- WriteEntry(*i,_fp, gdcmExplicitVR);
- }
- itStudy = ((*itPatient)->GetDicomDirStudies()).begin();
- while (itStudy != (*itPatient)->GetDicomDirStudies().end() ) {
- for(i=(*itStudy)->debut();i!=(*itStudy)->fin();++i) {
- WriteEntry(*i,_fp, gdcmExplicitVR);
- }
- itSerie = ((*itStudy)->GetDicomDirSeries()).begin();
- while (itSerie != (*itStudy)->GetDicomDirSeries().end() ) {
- for(i=(*itSerie)->debut();i!=(*itSerie)->fin();++i) {
- WriteEntry(*i,_fp, gdcmExplicitVR);
- }
- itImage = ((*itSerie)->GetDicomDirImages()).begin();
- while (itImage != (*itSerie)->GetDicomDirImages().end() ) {
- for(i=(*itImage)->debut();i!=(*itImage)->fin();++i) {
- WriteEntry(*i,_fp, gdcmExplicitVR);
- }
- ++itImage;
- }
- ++itSerie;
- }
- ++itStudy;
- }
- ++itPatient;
- }
- */
-}
-
//-----------------------------------------------------------------------------
// Protected
break;
}
- header = new gdcmHeader(it->c_str(),false,true);
- if(!header) {
- std::cout << "failure in new Header " << it->c_str() << std::endl; // JPR
- }
- if(header->IsReadable()) {
- list.push_back(header); // adds the file header to the chained list
- std::cout << "readable : " <<it->c_str() << std::endl; // JPR
- }
- else
+ header = new gdcmHeader( it->c_str() );
+ if( !header )
{
- delete header;
+ dbg.Verbose( 1,
+ "gdcmDicomDir::CreateDicomDirChainedList: "
+ "failure in new Header ",
+ it->c_str() );
}
- count++;
-
+ if( header->IsReadable() )
+ {
+ // Add the file header to the chained list:
+ list.push_back(header);
+ dbg.Verbose( 1,
+ "gdcmDicomDir::CreateDicomDirChainedList: readable ",
+ it->c_str() );
+ }
+ else
+ {
+ delete header;
+ }
+ count++;
}
+
// sorts Patient/Study/Serie/
std::sort(list.begin(), list.end(), gdcmDicomDir::HeaderLessThan );
std::string tmp = fileList.GetDirName();
//for each Header of the chained list, add/update the Patient/Study/Serie/Image info
- SetElements(tmp, list);
-
+ SetElements(tmp, list);
CallEndMethod();
}
* \ingroup gdcmDicomDir
* \brief adds *the* Meta to a partially created DICOMDIR
*/
-
- /// \todo FIXME : Heuuuuu ! Il prend les Entries du Document deja parse,
- /// il ne fabrique rien !
gdcmDicomDirMeta * gdcmDicomDir::NewMeta()
{
gdcmDicomDirMeta *m = new gdcmDicomDirMeta( &TagHT );
- for ( TagDocEntryHT::iterator cc = TagHT.begin();
- cc != TagHT.end(); ++cc)
- {
- m->AddDocEntry( cc->second );
+
+ if ( TagHT.begin() != TagHT.end() ) // after Document Parsing
+ {
+ TagDocEntryHT::iterator lastOneButSequence = TagHT.end();
+ lastOneButSequence --;
+ // This works because ALL the 'out of Sequence' Tags belong to Meta Elems
+ // (we skip 0004|1220 [Directory record sequence] )
+ for ( TagDocEntryHT::iterator cc = TagHT.begin();
+ cc != lastOneButSequence;
+ ++cc)
+ {
+ m->AddDocEntry( cc->second );
+ }
}
+ else // after root directory parsing
+ {
+ //cout << "gdcmDicomDir::NewMeta avec FillObject" << endl;
+ std::list<gdcmElement> elemList;
+ elemList=gdcmGlobal::GetDicomDirElements()->GetDicomDirMetaElements();
+ m->FillObject(elemList);
+ // we create the Sequence manually
+ //gdcmSeqEntry *se =NewSeqEntryByNumber(0x0004, 0x1220); // NOT YET!
+ //m->AddEntry(se);
+ }
+ m->SetSQItemNumber(0); // To avoid further missprinting
return m;
}
gdcmDictEntry *dictEntry;
gdcmValEntry *entry;
std::string val;
- //gdcmObject *o;
+ gdcmSQItem *si = new gdcmSQItem(0); // all the items will be at level 1
switch( type )
{
case GDCM_DICOMDIR_IMAGE:
case GDCM_DICOMDIR_META:
elemList = gdcmGlobal::GetDicomDirElements()->GetDicomDirMetaElements();
+ // add already done ?
break;
default:
return;
}
+ // removed all the seems-to-be-useless stuff about Referenced Image Sequence
+ // to avoid further troubles
+ // imageElem 0008 1140 "" // Referenced Image Sequence
+ // imageElem fffe e000 "" // 'no length' item : length to be set to 0xffffffff later
+ // imageElem 0008 1150 "" // Referenced SOP Class UID : to be set/forged later
+ // imageElem 0008 1155 "" // Referenced SOP Instance UID : to be set/forged later
+ // imageElem fffe e00d "" // Item delimitation : length to be set to ZERO later
+ // for all the relevant elements found in their own spot of the DicomDir.dic
+ // FIXME : troubles found when it's a SeqEntry
for( it = elemList.begin(); it != elemList.end(); ++it)
{
tmpGr = it->group;
tmpEl = it->elem;
dictEntry = GetPubDict()->GetDictEntryByNumber(tmpGr, tmpEl);
+
entry = new gdcmValEntry( dictEntry ); // Be sure it's never a BinEntry !
entry->SetOffset(0); // just to avoid further missprinting
+ entry->SetLength(0); // just to avoid further missprinting
if( header ) // NULL when we Build Up (ex nihilo) a DICOMDIR
// or when we add the META elems
- {
val = header->GetEntryByNumber(tmpGr, tmpEl);
- }
else
- {
val = GDCM_UNFOUND;
- }
if( val == GDCM_UNFOUND)
{
val = header->GetFileName();
}
else
- {
val = &(header->GetFileName().c_str()[path.length()]);
- }
}
else
- {
val = it->value;
- }
}
else
{
if ( header->GetEntryLengthByNumber(tmpGr,tmpEl) == 0 )
- {
val = it->value;
- }
}
- entry->SetValue( val );
+ // GDCM_UNFOUND or not !
+
+ entry->SetValue( val ); // troubles expected when vr=SQ ...
if( dictEntry )
{
entry->SetLength( entry->GetValue().length() );
}
}
- std::cout << " was TagHT[entry->GetKey()] = entry " << std::endl;
- if ( type == GDCM_DICOMDIR_META ) {
+
+ if ( type == GDCM_DICOMDIR_META ) // fusible : should never print !
+ {
std::cout << " special Treatment for GDCM_DICOMDIR_META" << std::endl;
-
+ entry->Print(); // just to see
}
- //TagHT[entry->GetKey()] = entry; // FIXME : use a SEQUENCE !
+ si->AddEntry(entry);
}
+ switch( type )
+ {
+ case GDCM_DICOMDIR_IMAGE:
+ AddDicomDirImageToEnd(si);
+ break;
+
+ case GDCM_DICOMDIR_SERIE:
+ AddDicomDirSerieToEnd(si);
+ break;
+
+ case GDCM_DICOMDIR_STUDY:
+ AddDicomDirStudyToEnd(si);
+ break;
+
+ case GDCM_DICOMDIR_PATIENT:
+ AddDicomDirPatientToEnd(si);
+ break;
+
+ default:
+ return;
+ }
+ //int count=1; // find a trick to increment
+ //s->AddEntry(si, count); // Seg Faults
+
}
/**
if( v == "PATIENT " )
{
AddDicomDirPatientToEnd( *i );
- //AddObjectToEnd(type,*i);
type = gdcmDicomDir::GDCM_DICOMDIR_PATIENT;
}
else if( v == "STUDY " )
{
AddDicomDirStudyToEnd( *i );
- // AddObjectToEnd(type,*i);
type = gdcmDicomDir::GDCM_DICOMDIR_STUDY;
}
else if( v == "SERIES" )
{
AddDicomDirSerieToEnd( *i );
- // AddObjectToEnd(type,*i);
type = gdcmDicomDir::GDCM_DICOMDIR_SERIE;
}
else if( v == "IMAGE " )
{
AddDicomDirImageToEnd( *i );
- // AddObjectToEnd(type,*i);
type = gdcmDicomDir::GDCM_DICOMDIR_IMAGE;
}
else
}
}
-/**
- * \ingroup gdcmDicomDir
- * \brief AddObjectToEnd
- * @param type
- * @param begin iterator on the first DocEntry within the chained List
- * @param end iterator on the last DocEntry within the chained List
- */
-
-// now useless ?
-
-/*void gdcmDicomDir::AddObjectToEnd(gdcmDicomDirType type,gdcmSQItem *s)
-{
- if(s==NULL) // ??
- return;
-
- switch(type)
- {
- case gdcmDicomDir::GDCM_DICOMDIR_META:
- AddDicomDirMeta();
- break;
- case gdcmDicomDir::GDCM_DICOMDIR_PATIENT:
- AddDicomDirPatientToEnd(s);
- break;
- case gdcmDicomDir::GDCM_DICOMDIR_STUDY:
- AddDicomDirStudyToEnd(s);
- break;
- case gdcmDicomDir::GDCM_DICOMDIR_SERIE:
- AddDicomDirSerieToEnd(s);
- break;
- case gdcmDicomDir::GDCM_DICOMDIR_IMAGE:
- AddDicomDirImageToEnd(s);
- break;
- case gdcmDicomDir::GDCM_DICOMDIR_NONE:
- AddDicomDirImageToEnd(s); //FIXME
- break;
- }
-}
-
-*/
-
/**
* \ingroup gdcmDicomDir
* \brief Well ... there is only one occurence
std::string studCurInstanceUID, studCurID;
std::string serCurInstanceUID, serCurID;
- SetElement( path, GDCM_DICOMDIR_META,NULL);
+ //SetElement( path, GDCM_DICOMDIR_META,NULL); // already done (NewMeta)
for( VectDocument::iterator it = list.begin();
it != list.end(); ++it )
git://git.creatis.insa-lyon.fr / gdcm.git / blobdiff