Program: gdcm
Module: $RCSfile: gdcmDicomDir.cxx,v $
Language: C++
- Date: $Date: 2006/01/18 10:17:40 $
- Version: $Revision: 1.184 $
+ Date: $Date: 2010/04/09 15:23:40 $
+ Version: $Revision: 1.198 $
Copyright (c) CREATIS (Centre de Recherche et d'Applications en Traitement de
l'Image). All rights reserved. See Doc/License.txt or
#include "gdcmDicomDirSerie.h"
#include "gdcmDicomDirVisit.h"
#include "gdcmDicomDirImage.h"
+#include "gdcmDicomDirPrivate.h"
#include "gdcmDicomDirPatient.h"
#include "gdcmDicomDirMeta.h"
#include "gdcmDicomDirElement.h"
#else
# include <unistd.h>
#endif
+
+#if defined(__BORLANDC__)
+ #include <mem.h> // for memset
+#endif
+
// ----------------------------------------------------------------------------
// Note for future developpers
// ----------------------------------------------------------------------------
// PRIVATE
// ENCAP DOC
//
+
+/*
+
+// see also : ftp://medical.nema.org/medical/dicom/final/cp343_ft.doc
+
+RELATIONSHIP BETWEEN DIRECTORY RECORDS
+
+Directory Record Type Directory Record Types which may be included
+ in the next lower-level directory Entity
+
+(Root Directory Entity) PATIENT, TOPIC, PRIVATE
+
+PATIENT STUDY, PRIVATE
+
+STUDY SERIES, VISIT, RESULTS, STUDY COMPONENT, PRIVATE
+
+SERIES IMAGE, OVERLAY, MODALITY LUT, VOI LUT, CURVE,
+ STORED PRINT, RT DOSE, RT STRUCTURE SET, RT PLAN,
+ RT TREAT RECORD, PRESENTATION, WAVEFORM, SR DOCUMENT,
+ KEY OBJECT DOC, SPECTROSCOPY, RAW DATA, PRIVATE
+
+IMAGE PRIVATE
+OVERLAY PRIVATE
+MODALITY LUT PRIVATE
+VOI LUT PRIVATE
+CURVE PRIVATE
+STORED PRINT PRIVATE
+RT DOSE PRIVATE
+RT STRUCTURE SET PRIVATE
+RT PLAN PRIVATE
+RT TREAT RECORD PRIVATE
+PRESENTATION PRIVATE
+WAVEFORM PRIVATE
+SR DOCUMENT PRIVATE
+KEY OBJECT DOC PRIVATE
+SPECTROSCOPY PRIVATE
+RAW DATA PRIVATE
+
+TOPIC STUDY, SERIES, IMAGE, OVERLAY, MODALITY LUT, VOI LUT,
+ CURVE, STORED PRINT, RT DOSE, RT STRUCTURE SET,
+ RT PLAN, RT TREAT RECORD, PRESENTATION, WAVEFORM,
+ SR DOCUMENT, KEY OBJECT DOC, SPECTROSCOPY, RAW DATA,
+ PRIVATE
+
+VISIT PRIVATE
+
+RESULTS INTERPRETATION, PRIVATE
+
+INTERPRETATION PRIVATE
+STUDY COMPONENT PRIVATE
+PRIVATE PRIVATE, (any of the above as privately defined)
+MRDR (Not applicable)
+
+Note : Directory Record Types PRINT QUEUE, FILM SESSION, FILM BOX, and
+ IMAGE BOX were previously defined in DICOM. They have been retired.
+ See PS 3.3-1998.
+*/
+
// ----------------------
// The current gdcm version only deals with :
//
// Treelike structure management will have to be upgraded
// ----------------------------------------------------------------------------
-namespace gdcm
+namespace GDCM_NAME_SPACE
{
//-----------------------------------------------------------------------------
// Constructor / Destructor
NewMeta();
}
+//#ifndef GDCM_LEGACY_REMOVE
+/**
+ * \brief Constructor Parses recursively the directory and creates the DicomDir
+ * or uses an already built DICOMDIR, depending on 'parseDir' value.
+ * @param fileName name
+ * - of the root directory (parseDir = true)
+ * - of the DICOMDIR (parseDir = false)
+ * @param parseDir boolean
+ * - 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
+ * @deprecated use : new DicomDir() + [ SetLoadMode(lm) + ] SetDirectoryName(name)
+ * or : new DicomDir() + SetFileName(name)
+ */
+ /*
+DicomDir::DicomDir(std::string const &fileName, bool parseDir ):
+ Document( )
+{
+ // At this step, Document constructor is already executed,
+ // whatever user passed (either a root directory or a DICOMDIR)
+ // and whatever the value of parseDir was.
+ // (nothing is checked in Document constructor, to avoid overhead)
+
+ ParseDir = parseDir;
+ SetLoadMode (LD_ALL); // concerns only dicom files
+ SetFileName( fileName );
+ Load( );
+}
+*/
+//#endif
+
/**
* \brief Canonical destructor
*/
}
return DoTheLoadingJob( );
}
+//#ifndef GDCM_LEGACY_REMOVE
+/**
+ * \brief Loader. (DEPRECATED : kept not to break the API)
+ * @param fileName file to be open for parsing
+ * @return false if file cannot be open or no swap info was found,
+ * or no tag was found.
+ * @deprecated use SetFileName(n) + Load() instead
+ */
+ /*
+bool DicomDir::Load(std::string const &fileName )
+{
+ // We should clean out anything that already exists.
+ Initialize(); // sets all private fields to NULL
+
+ SetFileName( fileName );
+ if (!ParseDir)
+ {
+ if ( ! this->Document::Load( ) )
+ return false;
+ }
+ return DoTheLoadingJob( );
+}
+*/
+//#endif
/**
* \brief Does the Loading Job (internal use only)
return false;
}
else
+ {
CreateDicomDir();
+ }
}
else
{
const char *cwd = getcwd(buf, 2048);
if( cwd )
{
- SetFileName( buf ); // will be converted into a string
+ SetFileName( buf ); // will be converted into a string
}
else
{
- gdcmErrorMacro( "Path was too long to fit on 2048 bytes" );
+ gdcmErrorMacro( "Path was too long to fit on 2048 bytes" );
}
}
NewMeta();
DicomDirMeta *DicomDir::NewMeta()
{
if ( MetaElems )
+ {
MetaElems->Delete();
-
+ }
DocEntry *entry = GetFirstEntry();
if ( entry )
{
std::ofstream *fp = new std::ofstream(fileName.c_str(),
std::ios::out | std::ios::binary);
- if ( !fp )
+ if ( !fp )
{
gdcmWarningMacro("Failed to open(write) File: " << fileName.c_str());
return false;
binary_write( *fp, "DICM");
DicomDirMeta *ptrMeta = GetMeta();
- ptrMeta->WriteContent(fp, ExplicitVR);
+ ptrMeta->WriteContent(fp, ExplicitVR, true, false);
// force writing 0004|1220 [SQ ], that CANNOT exist within DicomDirMeta
for(i=0;i<6;++i)
cc != Patients.end();
++cc )
{
- (*cc)->WriteContent( fp, ExplicitVR );
+ (*cc)->WriteContent( fp, ExplicitVR, false, true );
}
// force writing Sequence Delimitation Item
{
// The SeqEntries of "Directory Record Sequence" are parsed.
// When a DicomDir tag ("PATIENT", "STUDY", "SERIE", "IMAGE") is found :
+ // N.B. : VISIT, PRIVATE not fully dealt with
// 1 - we save the beginning iterator
// 2 - we continue to parse
// 3 - we find an other tag
if ( v == "IMAGE " )
{
- si = DicomDirImage::New(true);
+ si = DicomDirImage::New(true); // true = empty
if ( !AddImageToEnd( static_cast<DicomDirImage *>(si)) )
{
si->Delete();
}
else if ( v == "SERIES" )
{
- si = DicomDirSerie::New(true);
+ si = DicomDirSerie::New(true); // true = empty
if ( !AddSerieToEnd( static_cast<DicomDirSerie *>(si)) )
{
si->Delete();
}
else if ( v == "VISIT " )
{
- si = DicomDirVisit::New(true);
+ si = DicomDirVisit::New(true); // true = empty
if ( !AddVisitToEnd( static_cast<DicomDirVisit *>(si)) )
{
si->Delete();
}
else if ( v == "STUDY " )
{
- si = DicomDirStudy::New(true);
+ si = DicomDirStudy::New(true); // true = empty
if ( !AddStudyToEnd( static_cast<DicomDirStudy *>(si)) )
{
si->Delete();
}
else if ( v == "PATIENT " )
{
- si = DicomDirPatient::New(true);
+ si = DicomDirPatient::New(true); // true = empty
if ( !AddPatientToEnd( static_cast<DicomDirPatient *>(si)) )
{
si->Delete();
gdcmErrorMacro( "Add PatientToEnd failed");
}
}
+ /// \todo : deal with PRIVATE (not so easy, since PRIVATE appears
+ /// at different levels ?!? )
+
+ else if ( v == "PRIVATE " ) // for SIEMENS 'CSA Non Image'
+ {
+
+ gdcmWarningMacro( " -------------------------------------------"
+ << "a PRIVATE SQItem was found : " << v);
+ si = DicomDirPrivate::New(true); // true = empty
+ if ( !AddPrivateToEnd( static_cast<DicomDirPrivate *>(si)) )
+ {
+ si->Delete();
+ si = NULL;
+ gdcmErrorMacro( "Add PrivateToEnd failed");
+ }
+ }
else
{
// It was neither a 'PATIENT', nor a 'STUDY', nor a 'SERIE',
// nor an 'IMAGE' SQItem. Skip to next item.
- gdcmDebugMacro( " -------------------------------------------"
- << "a non PATIENT/STUDY/SERIE/IMAGE SQItem was found : "
+ gdcmWarningMacro( " -------------------------------------------"
+ << "a non PATIENT/STUDY/SERIE/IMAGE /VISIT/PRIVATE SQItem was found : "
<< v);
// FIXME : deal with other item types !
return false;
}
+/**
+ * \brief AddPrivateToEnd
+ * @param dd SQ Item to enqueue to the DicomDirPrivate chained List
+ * (checked for SIEMENS 'CSA non image')
+ */
+bool DicomDir::AddPrivateToEnd(DicomDirPrivate *dd)
+{
+ if ( Patients.size() > 0 )
+ {
+ ListDicomDirPatient::iterator itp = Patients.end();
+ itp--;
+
+ DicomDirStudy *study = (*itp)->GetLastStudy();
+ if ( study )
+ {
+ DicomDirSerie *serie = study->GetLastSerie();
+ if ( serie )
+ {
+ serie->AddPrivate(dd);
+ return true;
+ }
+ }
+ }
+ return false;
+}
+
/**
* \brief for each Header of the chained list,
* add/update the Patient/Study/Serie/Image info
{
// get the current file characteristics
patCurName = (*it)->GetEntryString(0x0010,0x0010);
+ if (patCurName == "") // to prevent further troubles when wild anonymization was performed
+ patCurName = "gdcm^Patient";
patCurID = (*it)->GetEntryString(0x0010,0x0011);
studCurInstanceUID = (*it)->GetEntryString(0x0020,0x000d);
studCurID = (*it)->GetEntryString(0x0020,0x0010);
ListDicomDirElem elemList;
ListDicomDirElem::const_iterator it;
uint16_t tmpGr, tmpEl;
- DictEntry *dictEntry;
+ //DictEntry *dictEntry;
DataEntry *entry;
std::string val;
SQItem *si;
-
switch( type )
{
case GDCM_DICOMDIR_IMAGE:
gdcmErrorMacro( "Add PatientToEnd failed");
}
break;
- case GDCM_DICOMDIR_META:
+ case GDCM_DICOMDIR_META: // never used ?!? --> Done within DoTheLoadingJob
if ( MetaElems )
{
MetaElems->Delete();
default:
return;
}
-
+
// FIXME : troubles found when it's a SeqEntry
-
+
// removed all the seems-to-be-useless stuff about Referenced Image Sequence
// to avoid further troubles
// imageElem 0008 1140 "" // Referenced Image Sequence
{
tmpGr = it->Group;
tmpEl = it->Elem;
- dictEntry = GetPubDict()->GetEntry(tmpGr, tmpEl);
-
- entry = DataEntry::New( dictEntry );
+
+ entry = DataEntry::New(tmpGr, tmpEl, it->VR); // dicomelements file was modified, to store VR
entry->SetOffset(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->GetEntryString(tmpGr, tmpEl);
+ val = header->GetEntryString(tmpGr, tmpEl);
}
else
{
}
if ( val == GDCM_UNFOUND)
- {
+ {
if ( tmpGr == 0x0004 ) // never present in File !
{
switch (tmpEl)
git://git.creatis.insa-lyon.fr / gdcm.git / blobdiff