X-Git-Url: https://git.creatis.insa-lyon.fr/pubgit/?a=blobdiff_plain;f=src%2FgdcmDicomDir.cxx;h=b109d1efc8fa3882097be3e7e190ed9b701861cc;hb=c8d390d6a732aa48eeb9d831ea83f4bebc8e19f8;hp=eaf7e82fbe42cdc724282e3a1b39db84bb092069;hpb=4bdf977b8a564a425e9ac35787bb3a5ce50047fb;p=gdcm.git diff --git a/src/gdcmDicomDir.cxx b/src/gdcmDicomDir.cxx index eaf7e82f..b109d1ef 100644 --- a/src/gdcmDicomDir.cxx +++ b/src/gdcmDicomDir.cxx @@ -1,101 +1,925 @@ // gdcmDicomDir.cxx //----------------------------------------------------------------------------- #include "gdcmDicomDir.h" -#include "gdcmPatient.h" -#include "gdcmStudy.h" -#include "gdcmSerie.h" -#include "gdcmImage.h" +#include "gdcmDicomDirStudy.h" +#include "gdcmDicomDirSerie.h" +#include "gdcmDicomDirImage.h" +#include "gdcmDirList.h" +#include "gdcmUtil.h" #include +#include -gdcmDicomDir::gdcmDicomDir(std::string & FileName, +#include +#include + +#ifdef _MSC_VER + #include +#else + #include +#endif + +//----------------------------------------------------------------------------- +// For full DICOMDIR description, see: +// PS 3.3-2003, pages 731-750 +//----------------------------------------------------------------------------- +// Constructor / Destructor +/* + * \ingroup gdcmDicomDir + * \brief Constructor : Parses recursively the directory and creates the DicomDir + * \ or uses an already built DICOMDIR, depending on 'parseDir' value + * @param Name name of the root directory (parseDir = true) + * name of the DICOMDIR (parseDir = false) + * @param parseDir - true if user passed an entry point + * 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(const char *Name, bool parseDir, bool exception_on_error): - gdcmParser(FileName.c_str(),exception_on_error, true ) { + gdcmParser(Name,exception_on_error,true) // true : enable SeQuences +{ + // que l'on ai passe un root directory ou un DICOMDIR + // et quelle que soit la valeur de parseDir, + // on a lance gdcmParser + + startMethod= NULL; + progressMethod= NULL; + endMethod= NULL; + startMethodArgDelete= NULL; + progressMethodArgDelete=NULL; + endMethodArgDelete= NULL; + startArg= NULL; + progressArg= NULL; + endArg= NULL; + + progress=0.0; + abort=false; + + metaElems=NULL; + +// gdcmParser already executed +// if user passed a root directory, sure we didn't get anything + + if( GetListEntry().begin()==GetListEntry().end() ) + { + // if parseDir == false, it should be tagged as an error + dbg.Verbose(0, "gdcmDicomDir::gdcmDicomDir : entry list empty"); + + if(strlen(Name)==1 && Name[0]=='.') { // user passed '.' as Name + // we get current directory name + char*dummy=(char*) malloc(1000); // TODO : check with Windoze // JPR +#ifdef _MSC_VER + _getcwd(dummy,(size_t)1000); +#else + getcwd(dummy,(size_t)1000); +#endif + SetFileName(dummy); // will be converted into a string + free(dummy); // no longer needed + } + if(parseDir) + { + dbg.Verbose(0, "gdcmDicomDir::gdcmDicomDir : Parse directory and create the DicomDir"); + ParseDirectory(); + } + } + else { + CreateDicomDir(); + CheckBoundaries(); // to maintain consistency between + // home-made gdcmDicomDir + // and the ones comming from a DICOMDIR file + } +} + +/* + * \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): + gdcmParser(exception_on_error) +{ + startMethod= NULL; + progressMethod= NULL; + endMethod= NULL; + startMethodArgDelete= NULL; + progressMethodArgDelete=NULL; + endMethodArgDelete= NULL; + startArg= NULL; + progressArg= NULL; + endArg= NULL; - gdcmPatient *patCur; - gdcmStudy *studCur; - gdcmSerie *serCur; - gdcmImage *imaCur; - - ListTag::iterator i, j; + progress=0.0; + abort=false; + std::string pathBidon = ""; // Sorry, NULL not allowed ... + SetElement(pathBidon, GDCM_DICOMDIR_META, NULL); // Set the META elements + AddDicomDirMetaToEnd(listEntries.begin(),--listEntries.end()); +} + + +/* + * \ingroup gdcmDicomDir + * \brief Canonical destructor + */ +gdcmDicomDir::~gdcmDicomDir() +{ + SetStartMethod(NULL); + SetProgressMethod(NULL); + SetEndMethod(NULL); + + if(metaElems) + delete metaElems; - if ( GetListEntry().begin() == GetListEntry().end() ) { - cout << "ListEntry vide " << endl; - } - - i = GetListEntry().begin(); - while ( i != GetListEntry().end() ) { - - // std::cout << std::hex << (*i)->GetGroup() << - // " " << (*i)->GetElement() << endl; - - std::string v = (*i)->GetValue(); - if (v == "PATIENT ") { - patCur=new gdcmPatient(); - //cout << "PATIENT" << endl, - patCur->beginObj =i; - GetPatients().push_back(patCur); - } - - if (v == "STUDY ") { - //cout << "STUDY" << endl, - studCur=new gdcmStudy(); - studCur->beginObj = patCur->endObj = i; - lPatient::iterator aa = GetPatients().end(); - --aa; - (*aa)->GetStudies().push_back(studCur); - } - studCur=new gdcmStudy(); - - if (v == "SERIES") { - //cout << "SERIES" << endl, - serCur=new gdcmSerie(); - - serCur->beginObj = studCur->endObj= i; - lPatient::iterator aa = GetPatients().end(); - --aa; - lStudy::iterator bb = (*aa)->GetStudies().end(); - --bb; - (*bb)->GetSeries().push_back(serCur); - } - - if (v == "IMAGE ") { - //cout << "IMAGE" << endl; - imaCur=new gdcmImage(); - imaCur->beginObj = serCur->endObj= i; - - lPatient::iterator aa = GetPatients().end(); - --aa; - lStudy::iterator bb = (*aa)->GetStudies().end(); - --bb; - lSerie::iterator cc = (*bb)->GetSeries().end(); - --cc; - (*cc)->GetImages().push_back(imaCur); - - - /* --- - // ce n'est pas sur une nouvelle IMAGE, qu'il faut intervenir - // mais lorsqu'on rencontre un 'non IMAGE' apres des 'IMAGE' - lImage::iterator dd = (*cc)->GetImages().end(); - - if ( (*cc)->GetImages().begin() != dd ) { - --dd; - (*dd)->endObj = i; - } - --- */ - } - ++i; - } -} - - -gdcmDicomDir::~gdcmDicomDir() { - lPatient::iterator cc = GetPatients().begin(); - while (cc != GetPatients().end() ) { - //cout << "delete PATIENT" << endl; + for(ListDicomDirPatient::iterator cc=patients.begin();cc!=patients.end();++cc) + { delete *cc; - ++cc; } } + +//----------------------------------------------------------------------------- +// Print +/* + * \ingroup gdcmDicomDir + * \brief Canonical Printer + */ +void gdcmDicomDir::Print(std::ostream &os) +{ + if(metaElems) + { + metaElems->SetPrintLevel(printLevel); + metaElems->Print(os); + } + for(ListDicomDirPatient::iterator cc=patients.begin();cc!=patients.end();++cc) + { + (*cc)->SetPrintLevel(printLevel); + (*cc)->Print(os); + } +} + +//----------------------------------------------------------------------------- +// Public +/* + * \ingroup gdcmDicomDir + * \brief This predicate, based on hopefully reasonable heuristics, + * decides whether or not the current header was properly parsed + * and contains the mandatory information for being considered as + * a well formed and usable DicomDir. + * @return true when gdcmParser is the one of a reasonable DicomDir, + * false otherwise. + */ +bool gdcmDicomDir::IsReadable(void) +{ + if(!gdcmParser::IsReadable()) + return(false); + if(!metaElems) + return(false); + if(patients.size()<=0) + return(false); + + return(true); +} + +/* + * \ingroup gdcmDicomDir + * \brief fills the whole structure, starting from a root Directory + */ +void gdcmDicomDir::ParseDirectory(void) +{ + CreateDicomDirChainedList(GetFileName()); + CreateDicomDir(); +} + +/* + * \ingroup gdcmDicomDir + * \brief Set the start method to call when the parsing of the directory starts + * @param method Method to call + * @param arg Argument to pass to the method + * \warning In python : the arg parameter isn't considered + */ +void gdcmDicomDir::SetStartMethod(gdcmMethod *method,void *arg,gdcmMethod *argDelete) +{ + if((startArg)&&(startMethodArgDelete)) + startMethodArgDelete(startArg); + + startMethod=method; + startArg=arg; + startMethodArgDelete=argDelete; +} + +/* + * \ingroup gdcmDicomDir + * \brief Set the method to delete the argument + * The argument is destroyed when the method is changed or when the + * class is destroyed + * @param method Method to call to delete the argument + */ +void gdcmDicomDir::SetStartMethodArgDelete(gdcmMethod *method) +{ + startMethodArgDelete=method; +} + +/* + * \ingroup gdcmDicomDir + * \brief Set the progress method to call when the parsing of the directory progress + * @param method Method to call + * @param arg Argument to pass to the method + * \warning In python : the arg parameter isn't considered + */ +void gdcmDicomDir::SetProgressMethod(gdcmMethod *method,void *arg,gdcmMethod *argDelete) +{ + if((progressArg)&&(progressMethodArgDelete)) + progressMethodArgDelete(progressArg); + + progressMethod=method; + progressArg=arg; + progressMethodArgDelete=argDelete; +} + +/* + * \ingroup gdcmDicomDir + * \brief Set the method to delete the argument + * The argument is destroyed when the method is changed or when the + * class is destroyed + * @param method Method to call to delete the argument + */ +void gdcmDicomDir::SetProgressMethodArgDelete(gdcmMethod *method) +{ + progressMethodArgDelete=method; +} + +/* + * \ingroup gdcmDicomDir + * \brief Set the end method to call when the parsing of the directory ends + * @param method Method to call + * @param arg Argument to pass to the method + * \warning In python : the arg parameter isn't considered + */ +void gdcmDicomDir::SetEndMethod(gdcmMethod *method,void *arg,gdcmMethod *argDelete) +{ + if((endArg)&&(endMethodArgDelete)) + endMethodArgDelete(endArg); + + endMethod=method; + endArg=arg; + endMethodArgDelete=argDelete; +} + +/* + * \ingroup gdcmDicomDir + * \brief Set the method to delete the argument + * The argument is destroyed when the method is changed or when the class + * is destroyed + * @param method Method to call to delete the argument + */ +void gdcmDicomDir::SetEndMethodArgDelete(gdcmMethod *method) +{ + endMethodArgDelete=method; +} + +/** + * \ingroup gdcmDicomDir + * \brief writes on disc a DICOMDIR + * \ warning does NOT add the missing elements in the header : + * it's up to the user doing it ! + * \todo : to be re-written using the DICOMDIR tree-like structure + * *not* the chained list + * (does NOT exist if the DICOMDIR is user-forged !) + * @param fileName file to be written to + * @return false only when fail to open + */ + +bool gdcmDicomDir::Write(std::string fileName) +{ + FILE * fp1; + + fp1=fopen(fileName.c_str(),"wb"); + if(fp1==NULL) + { + printf("Failed to open(write) File [%s] \n",fileName.c_str()); + return(false); + } + + char * filePreamble; + filePreamble=(char*)calloc(128,1); + fwrite(filePreamble,128,1,fp1); + fwrite("DICM",4,1,fp1); + free(filePreamble); + //UpdateDirectoryRecordSequenceLength(); // a reecrire en utilisant JPR + // la structure arborescente JPR + WriteDicomDirEntries(fp1); + + fclose(fp1); + return true; +} + +/** + * \ingroup gdcmParser + * \brief writes on disc according to the DICOMDIR format + * using the tree-like structure + * @param _fp already open file pointer + */ + +void gdcmDicomDir::WriteDicomDirEntries(FILE *_fp) +{ + // TODO (?) tester les echecs en ecriture + // (apres chaque fwrite, dans le WriteEntry) + + 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,DICOMDIR); + } + + itPatient = GetDicomDirPatients().begin(); + while ( itPatient != GetDicomDirPatients().end() ) { + for(i=(*itPatient)->debut();i!=(*itPatient)->fin();++i) { + WriteEntry(*i,_fp,DICOMDIR); + } + itStudy = ((*itPatient)->GetDicomDirStudies()).begin(); + while (itStudy != (*itPatient)->GetDicomDirStudies().end() ) { + for(i=(*itStudy)->debut();i!=(*itStudy)->fin();++i) { + WriteEntry(*i,_fp,DICOMDIR); + } + itSerie = ((*itStudy)->GetDicomDirSeries()).begin(); + while (itSerie != (*itStudy)->GetDicomDirSeries().end() ) { + for(i=(*itSerie)->debut();i!=(*itSerie)->fin();++i) { + WriteEntry(*i,_fp,DICOMDIR); + } + itImage = ((*itSerie)->GetDicomDirImages()).begin(); + while (itImage != (*itSerie)->GetDicomDirImages().end() ) { + for(i=(*itImage)->debut();i!=(*itImage)->fin();++i) { + WriteEntry(*i,_fp,DICOMDIR); + } + ++itImage; + } + ++itSerie; + } + ++itStudy; + } + ++itPatient; + } +} + +//----------------------------------------------------------------------------- +// Protected + +/* + * \ingroup gdcmDicomDir + * \brief create a gdcmHeader-like chained list from a root Directory + * @param path entry point of the tree-like structure + */ +void gdcmDicomDir::CreateDicomDirChainedList(std::string path) +{ + CallStartMethod(); + + gdcmDirList fileList(path,1); // gets recursively the file list + unsigned int count=0; + ListHeader list; + gdcmHeader *header; + + listEntries.clear(); + patients.clear(); + + for(gdcmDirList::iterator it=fileList.begin(); + it!=fileList.end(); + ++it) + { + progress=(float)(count+1)/(float)fileList.size(); + CallProgressMethod(); + if(abort) + break; + + header=new gdcmHeader(it->c_str()); + if(header->IsReadable()) + list.push_back(header); // adds the file header to the chained list + 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); + + CallEndMethod(); +} + + + +void gdcmDicomDir::CheckBoundaries() +{ + ListDicomDirPatient::iterator itPatient; + ListDicomDirStudy::iterator itStudy; + ListDicomDirSerie::iterator itSerie; + ListDicomDirImage::iterator itImage; + ListTag::iterator i,j; + + GetDicomDirMeta()->ResetBoundaries(0); + + itPatient = GetDicomDirPatients().begin(); + while ( itPatient != GetDicomDirPatients().end() ) { + (*itPatient)->ResetBoundaries(1); + itStudy = ((*itPatient)->GetDicomDirStudies()).begin(); + while (itStudy != (*itPatient)->GetDicomDirStudies().end() ) { + (*itStudy)->ResetBoundaries(1); + itSerie = ((*itStudy)->GetDicomDirSeries()).begin(); + while (itSerie != (*itStudy)->GetDicomDirSeries().end() ) { + (*itSerie)->ResetBoundaries(1); + itImage = ((*itSerie)->GetDicomDirImages()).begin(); + while (itImage != (*itSerie)->GetDicomDirImages().end() ) { + (*itImage)->ResetBoundaries(1); + ++itImage; + } + ++itSerie; + } + ++itStudy; + } + ++itPatient; + } +} + + +/* + * \ingroup gdcmDicomDir + * \brief adds a new Patient to a partially created DICOMDIR + */ +gdcmDicomDirPatient * gdcmDicomDir::NewPatient(void) { + std::list elemList; + std::list::iterator it; + guint16 tmpGr,tmpEl; + gdcmDictEntry *dictEntry; + gdcmHeaderEntry *entry; + + elemList=gdcmGlobal::GetDicomDirElements()->GetDicomDirPatientElements(); + std::list::iterator debInsertion, finInsertion, i,j; + + debInsertion = metaElems->fin(); + ++debInsertion; + finInsertion=debInsertion; + + // for all the DicomDirPatient Elements + for(it=elemList.begin();it!=elemList.end();++it) + { + tmpGr=it->group; + tmpEl=it->elem; + dictEntry=GetPubDict()->GetDictEntryByNumber(tmpGr,tmpEl); + entry=new gdcmHeaderEntry(dictEntry); + entry->SetOffset(0); // just to avoid missprinting + entry->SetValue(it->value); + + if(dictEntry->GetGroup()==0xfffe) + { + entry->SetLength(entry->GetValue().length()); + } + else if( (dictEntry->GetVR()=="UL") || (dictEntry->GetVR()=="SL") ) + { + entry->SetLength(4); + } + else if( (dictEntry->GetVR()=="US") || (dictEntry->GetVR()=="SS") ) + { + entry->SetLength(2); + } + else if(dictEntry->GetVR()=="SQ") + { + entry->SetLength(0xffffffff); + } + else + { + entry->SetLength(entry->GetValue().length()); + } + + tagHT.insert( PairHT(entry->GetKey(),entry) ); // add in the (multimap) H Table + listEntries.insert(debInsertion ,entry); // en tete de liste des Patients + ++finInsertion; + } + + i=metaElems->fin(); + i++; + + gdcmDicomDirPatient *p = new gdcmDicomDirPatient(i, --debInsertion, + &tagHT, &listEntries); + patients.push_front(p); + return p; +} + +/* + * \ingroup gdcmDicomDir + * \brief CallStartMethod + */ +void gdcmDicomDir::CallStartMethod(void) +{ + progress=0.0f; + abort=false; + if(startMethod) + startMethod(startArg); +} +/* + * \ingroup gdcmDicomDir + * \brief CallProgressMethod + */ +void gdcmDicomDir::CallProgressMethod(void) +{ + if(progressMethod) + progressMethod(progressArg); +} +/* + * \ingroup gdcmDicomDir + * \brief CallEndMethod + */ +void gdcmDicomDir::CallEndMethod(void) +{ + progress=1.0f; + if(endMethod) + endMethod(endArg); +} + +//----------------------------------------------------------------------------- +// Private +/* + * \ingroup gdcmDicomDir + * \brief create a 'gdcmDicomDir' from a DICOMDIR gdcmHeader + */ +void gdcmDicomDir::CreateDicomDir() +{ + // The list is parsed. + // When a DicomDir tag ("PATIENT", "STUDY", "SERIE", "IMAGE") is found : + // 1 - we save the beginning iterator + // 2 - we continue to parse + // 3 - we find an other tag + // + we create the object for the precedent tag + // + loop to 1 - + + gdcmDicomDirType type=gdcmDicomDir::GDCM_DICOMDIR_META; + ListTag::iterator begin; + ListTag::iterator end, end2; + + begin=listEntries.begin(); + end=begin; + for(ListTag::iterator i=end;i !=listEntries.end();++i) + { + std::string v=(*i)->GetValue(); + if(v=="PATIENT ") + { + end=end2=i; + AddObjectToEnd(type,begin,--end2); + type=gdcmDicomDir::GDCM_DICOMDIR_PATIENT; + begin=end; + } + + if(v=="STUDY ") + { + end=end2=i; + AddObjectToEnd(type,begin,--end2); + type=gdcmDicomDir::GDCM_DICOMDIR_STUDY; + begin=end; + } + + if(v=="SERIES") + { + end=end2=i; + AddObjectToEnd(type,begin,--end2); + type=gdcmDicomDir::GDCM_DICOMDIR_SERIE; + begin=end; + } + + if(v=="IMAGE ") + { + end=end2=i; + AddObjectToEnd(type,begin,--end2); + type=gdcmDicomDir::GDCM_DICOMDIR_IMAGE; + begin=end; + } + } + + end=end2=listEntries.end(); + if(begin!=end) + AddObjectToEnd(type,begin,--end2); +} +/* + * \ingroup gdcmDicomDir + * \brief AddObjectToEnd + * @param type + * @param begin + * @param end + */ +void gdcmDicomDir::AddObjectToEnd(gdcmDicomDirType type,ListTag::iterator begin,ListTag::iterator end) +{ + if(begin==end) + return; + + switch(type) + { + case gdcmDicomDir::GDCM_DICOMDIR_META: + AddDicomDirMetaToEnd(begin,end); + break; + case gdcmDicomDir::GDCM_DICOMDIR_PATIENT: + AddDicomDirPatientToEnd(begin,end); + break; + case gdcmDicomDir::GDCM_DICOMDIR_STUDY: + AddDicomDirStudyToEnd(begin,end); + break; + case gdcmDicomDir::GDCM_DICOMDIR_SERIE: + AddDicomDirSerieToEnd(begin,end); + break; + case gdcmDicomDir::GDCM_DICOMDIR_IMAGE: + AddDicomDirImageToEnd(begin,end); + break; + } +} + +/* + * \ingroup gdcmDicomDir + * \brief Well ... Not realy to end, there is only one occurence + * @param begin + * @param end +*/ +void gdcmDicomDir::AddDicomDirMetaToEnd(ListTag::iterator begin,ListTag::iterator end) +{ + if(metaElems) + delete metaElems; + metaElems = new gdcmDicomDirMeta(begin,end,&tagHT,&listEntries); +} + +/* + * \ingroup gdcmDicomDir + * \brief AddDicomDirPatientToEnd + * @param begin + * @param end +*/ +void gdcmDicomDir::AddDicomDirPatientToEnd(ListTag::iterator begin,ListTag::iterator end) +{ + patients.push_back(new gdcmDicomDirPatient(begin,end,&tagHT, &listEntries)); +} + +/* + * \ingroup gdcmDicomDir + * \brief AddDicomDirStudyToEnd + * @param begin + * @param end + */ + void gdcmDicomDir::AddDicomDirStudyToEnd(ListTag::iterator begin,ListTag::iterator end) +{ + if(patients.size()>0) + { + ListDicomDirPatient::iterator itp=patients.end(); + itp--; + (*itp)->AddDicomDirStudy(new gdcmDicomDirStudy(begin,end,&tagHT, &listEntries)); + } +} +/* + * \ingroup gdcmDicomDir + * \brief AddDicomDirSerieToEnd + * @param begin + * @param end + */ +void gdcmDicomDir::AddDicomDirSerieToEnd(ListTag::iterator begin,ListTag::iterator end) +{ + if(patients.size()>0) + { + ListDicomDirPatient::iterator itp=patients.end(); + itp--; + + if((*itp)->GetDicomDirStudies().size()>0) + { + ListDicomDirStudy::iterator itst=(*itp)->GetDicomDirStudies().end(); + itst--; + (*itst)->AddDicomDirSerie(new gdcmDicomDirSerie(begin,end,&tagHT, &listEntries)); + } + } +} + +/* + * \ingroup gdcmDicomDir + * \brief AddDicomDirImageToEnd + * @param begin + * @param end + */ + void gdcmDicomDir::AddDicomDirImageToEnd(ListTag::iterator begin,ListTag::iterator end) +{ + if(patients.size()>0) + { + ListDicomDirPatient::iterator itp=patients.end(); + itp--; + + if((*itp)->GetDicomDirStudies().size()>0) + { + ListDicomDirStudy::iterator itst=(*itp)->GetDicomDirStudies().end(); + itst--; + + if((*itst)->GetDicomDirSeries().size()>0) + { + ListDicomDirSerie::iterator its=(*itst)->GetDicomDirSeries().end(); + its--; + (*its)->AddDicomDirImage(new gdcmDicomDirImage(begin,end,&tagHT, &listEntries)); + } + } + } +} + +/* + * \ingroup gdcmDicomDir + * \brief for each Header of the chained list, add/update the Patient/Study/Serie/Image info + * @param path path of the root directory + * @param list chained list of Headers + */ +void gdcmDicomDir::SetElements(std::string &path, ListHeader &list) +{ + std::string patPrevName="", patPrevID=""; + std::string studPrevInstanceUID="", studPrevID=""; + std::string serPrevInstanceUID="", serPrevID=""; + + std::string patCurName, patCurID; + std::string studCurInstanceUID, studCurID; + std::string serCurInstanceUID, serCurID; + + SetElement(path,GDCM_DICOMDIR_META,NULL); + + ListTag::iterator debPat=listEntries.begin(); + for(ListHeader::iterator it=list.begin();it!=list.end();++it) + { + // get the current file characteristics + patCurName= (*it)->GetEntryByNumber(0x0010,0x0010); + patCurID= (*it)->GetEntryByNumber(0x0010,0x0011); + studCurInstanceUID=(*it)->GetEntryByNumber(0x0020,0x000d); + studCurID= (*it)->GetEntryByNumber(0x0020,0x0010); + serCurInstanceUID= (*it)->GetEntryByNumber(0x0020,0x000e); + serCurID= (*it)->GetEntryByNumber(0x0020,0x0011); + + if(patCurName!=patPrevName || patCurID!=patPrevID) + SetElement(path,GDCM_DICOMDIR_PATIENT,*it); + + // if new Study Deal with 'STUDY' Elements + if(studCurInstanceUID!=studPrevInstanceUID || studCurID!=studPrevID) + SetElement(path,GDCM_DICOMDIR_STUDY,*it); + + // if new Serie Deal with 'SERIE' Elements + if(serCurInstanceUID!=serPrevInstanceUID || serCurID!=serPrevID) + SetElement(path,GDCM_DICOMDIR_SERIE,*it); + + // Always Deal with 'IMAGE' Elements + SetElement(path,GDCM_DICOMDIR_IMAGE,*it); + + patPrevName= patCurName; + patPrevID= patCurID; + studPrevInstanceUID=studCurInstanceUID; + studPrevID= studCurID; + serPrevInstanceUID= serCurInstanceUID; + serPrevID= serCurID; + } +} + +/* + * \ingroup gdcmDicomDir + * \brief adds to the HTable and at the end of the Chained List + * the gdcmEntries (Dicom Elements) corresponding to the given type + * @param path full path file name(only used when type = GDCM_DICOMDIR_IMAGE + * @param type gdcmObject type to create (GDCM_DICOMDIR_PATIENT, GDCM_DICOMDIR_STUDY, GDCM_DICOMDIR_SERIE ...) + * @param header gdcmHeader of the current file + */ +void gdcmDicomDir::SetElement(std::string &path,gdcmDicomDirType type,gdcmHeader *header) +{ + std::list elemList; + std::list::iterator it; + guint16 tmpGr, tmpEl; + gdcmDictEntry *dictEntry; + gdcmHeaderEntry *entry; + std::string val; + + switch(type) + { + case GDCM_DICOMDIR_PATIENT: + elemList=gdcmGlobal::GetDicomDirElements()->GetDicomDirPatientElements(); + break; + case GDCM_DICOMDIR_STUDY: + elemList=gdcmGlobal::GetDicomDirElements()->GetDicomDirStudyElements(); + break; + case GDCM_DICOMDIR_SERIE: + elemList=gdcmGlobal::GetDicomDirElements()->GetDicomDirSerieElements(); + break; + case GDCM_DICOMDIR_IMAGE: + elemList=gdcmGlobal::GetDicomDirElements()->GetDicomDirImageElements(); + break; + case GDCM_DICOMDIR_META: + elemList=gdcmGlobal::GetDicomDirElements()->GetDicomDirMetaElements(); + break; + default: + return; + } + + for(it=elemList.begin();it!=elemList.end();++it) + { + tmpGr=it->group; + tmpEl=it->elem; + dictEntry=GetPubDict()->GetDictEntryByNumber(tmpGr,tmpEl); + entry=new gdcmHeaderEntry(dictEntry); + entry->SetOffset(0); // just to avoid missprinting + + if(header) + val=header->GetEntryByNumber(tmpGr,tmpEl); + else + val=GDCM_UNFOUND; + + if(val==GDCM_UNFOUND) + { + if((tmpGr==0x0004) &&(tmpEl==0x1130) ) // File-set ID + { + // force to the *end* File Name + val=GetName(path); + } + else if( (tmpGr==0x0004) && (tmpEl==0x1500) ) // Only used for image + { + if(header->GetFileName().substr(0,path.length())!=path) + { + dbg.Verbose(0, "gdcmDicomDir::SetElement : the base path of file name is incorrect"); + 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); + + if(dictEntry) + { + if(dictEntry->GetGroup()==0xfffe) + { + entry->SetLength(entry->GetValue().length()); + } + else if( (dictEntry->GetVR()=="UL") || (dictEntry->GetVR()=="SL") ) + { + entry->SetLength(4); + } + else if( (dictEntry->GetVR()=="US") || (dictEntry->GetVR()=="SS") ) + { + entry->SetLength(2); + } + else if(dictEntry->GetVR()=="SQ") + { + entry->SetLength(0xffffffff); + } + else + { + entry->SetLength(entry->GetValue().length()); + } + } + //AddHeaderEntry(entry); // both in H Table and in chained list + tagHT.insert( PairHT( entry->GetKey(),entry) ); + listEntries.push_back(entry); + //wasUpdated = 1; // is private + } +} + +bool gdcmDicomDir::HeaderLessThan(gdcmHeader *header1,gdcmHeader *header2) +{ + return(*header1<*header2); +} + + + +void gdcmDicomDir::UpdateDirectoryRecordSequenceLength() { + int offset = 0; + ListTag::iterator it; + guint16 gr, el; + std::string vr; + for(it=listEntries.begin();it!=listEntries.end();++it) { + gr = (*it)->GetGroup(); + el = (*it)->GetElement(); + vr = (*it)->GetVR(); + if (gr !=0xfffe) { + if ( (vr == "OB") || (vr == "OW") || (vr == "SQ") ) { + offset += 4; // explicit VR AND OB, OW, SQ : 4 more bytes + } + offset += 2 + 2 + 4 + (*it)->GetLength(); + } else { + offset += 4; // delimiters don't have a value. + } + } + bool res=SetEntryLengthByNumber(offset, 0x0004, 0x1220); // Hope there is no dupps. + return; +} + +//-----------------------------------------------------------------------------