-// gdcmlib Intro:
-// * gdcmlib is a library dedicated to reading and writing dicom files.
-// * LGPL for the license
-// * lightweigth as opposed to CTN or DCMTK wich come bundled which try
-// to implement the full DICOM standard (networking...). gdcmlib concentrates
-// on reading and
-// * Formats: this lib should be able to read ACR-NEMA v1 and v2, Dicom v3 (as
-// stated in part10). [cf dcmtk/dcmdata/docs/datadict.txt]
-// * Targeted plateforms: Un*xes and Win32/VC++6.0
-//
-//
-// TODO
-// The declarations commented out and starting with "TODO Swig" needed
-// to be temporarily removed for swig to proceed correctly (in fact
-// problems appears at loading of _gdcm.[so/dll]). So, simply uncomment
-// the declaration once you provided the definition of the method...
+/*=========================================================================
+
+ Program: gdcm
+ Module: $RCSfile: gdcm.h,v $
+ Language: C++
+ Date: $Date: 2005/11/18 14:40:36 $
+ Version: $Revision: 1.56 $
+
+ 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.html 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.
+
+=========================================================================*/
+
+#ifndef GDCM_H
+#define GDCM_H
+
+// General purpose include file. This file should be included by
+// external users of gdcm. It exposes the necessary API.
+
+// No user should use any ".h" file that doesn't appear here!
+
+#include "gdcmCommon.h"
+#include "gdcmUtil.h"
+#include "gdcmDebug.h"
+
+#include "gdcmDictEntry.h"
+#include "gdcmDict.h"
+#include "gdcmDictSet.h"
+
+#include "gdcmDataEntry.h"
+#include "gdcmSeqEntry.h"
+#include "gdcmSQItem.h"
+
+#include "gdcmDocument.h"
+#include "gdcmFile.h"
+
+#include "gdcmFileHelper.h"
+#include "gdcmSerieHelper.h"
+#include "gdcmOrientation.h"
+
+#include "gdcmDicomDir.h"
+#include "gdcmDicomDirPatient.h"
+#include "gdcmDicomDirStudy.h"
+#include "gdcmDicomDirSerie.h"
+#include "gdcmDicomDirImage.h"
+#include "gdcmDicomDirVisit.h"
+
+#include "gdcmValidator.h"
-#include <string>
-#include <iostream>
-#include <stddef.h> // For size_t
-#include <glib.h>
-#include <stdio.h> // CLEANME
-#include <map> // The requirement for the hash table (or map) that
- // we shall use:
- // 1/ First, next, last (iterators)
- // 2/ should be sortable (i.e. sorted by TagKey). This
- // condition shall be droped since the Win32/VC++
- // implementation doesn't look a sorted one. Pffff....
- // 3/ Make sure we can setup some default size value,
- // which should be around 4500 entries which is the
- // average dictionary size (said JPR)
-
-#ifdef _MSC_VR
- using namespace std; // string type lives in the std namespace on VC++
-#endif
-#ifdef _MSC_VR
-#define GDCM_EXPORT __declspec( dllexport )
-#else
-#define GDCM_EXPORT
#endif
-
-// Tag based hash tables.
-// We shall use as keys the strings (as the C++ type) obtained by
-// concatenating the group value and the element value (both of type
-// unsigned 16 bit integers in Dicom) expressed in hexadecimal.
-// Example: consider the tag given as (group, element) = (0x0010, 0x0010).
-// Then the corresponding TagKey shall be the string 0010|0010 (where
-// the | (pipe symbol) acts as a separator). Refer to
-// gdcmDictEntry::TranslateToKey for this conversion function.
-typedef string TagKey;
-
-class GDCM_EXPORT gdcmDictEntry {
-private:
- guint16 group; // e.g. 0x0010
- guint16 element; // e.g. 0x0010
- string vr; // Value Representation i.e. some clue about the nature
- // of the data represented e.g. "FD" short for
- // "Floating Point Double"
- // CLEAN ME: find the official dicom name for this field !
- string fourth; // Fourth field containing some semantics.
- string name; // e.g. "Patient_Name"
- TagKey key; // This is redundant zith (group, element) but we add
- // on efficiency purposes.
- // DCMTK has many fields for handling a DictEntry (see below). What are the
- // relevant ones for gdcmlib ?
- // struct DBI_SimpleEntry {
- // Uint16 group;
- // Uint16 element;
- // Uint16 upperGroup;
- // Uint16 upperElement;
- // DcmEVR evr;
- // const char* tagName;
- // int vmMin;
- // int vmMax;
- // const char* standardVersion;
- // DcmDictRangeRestriction groupRestriction;
- // DcmDictRangeRestriction elementRestriction;
- // };
-public:
- //CLEANME gdcmDictEntry();
- gdcmDictEntry(guint16 group, guint16 element,
- string vr, string fourth, string name);
- static TagKey TranslateToKey(guint16 group, guint16 element);
- guint16 GetGroup(void) { return group;};
- guint16 GetElement(void){return element;};
- string GetVR(void) {return vr; };
- void SetVR(string in){vr = in; };
- string GetFourth(void) {return fourth;};
- string GetName(void) {return name;};
- string GetKey(void) {return key;};
-};
-
-typedef map<TagKey, gdcmDictEntry*> TagHT;
-
-// A single DICOM dictionary i.e. a container for a collection of dictionary
-// entries. There should be a single public dictionary (THE dictionary of
-// the actual DICOM v3) but as many shadow dictionaries as imagers
-// combined with all software versions...
-class GDCM_EXPORT gdcmDict {
- string name;
- string filename;
- TagHT entries;
-public:
- gdcmDict(const char* FileName); // Read Dict from disk
- // TODO Swig int AppendEntry(gdcmDictEntry* NewEntry);
- gdcmDictEntry * GetTag(guint32 group, guint32 element);
- void Print(ostream&);
-};
-
-// Container for managing a set of loaded dictionaries. Sharing dictionaries
-// should avoid :
-// * reloading an allready loaded dictionary.
-// * having many in memory representations of the same dictionary.
-typedef string DictKey;
-typedef map<DictKey, gdcmDict*> DictSetHT;
-class GDCM_EXPORT gdcmDictSet {
-private:
- string DictPath; // Directory path to dictionaries
- DictSetHT dicts;
- int AppendDict(gdcmDict* NewDict);
- int LoadDictFromFile(string filename, DictKey);
- void SetDictPath(void);
-public:
- gdcmDictSet(void); // loads THE DICOM v3 dictionary
- // TODO Swig int LoadDictFromFile(string filename);
-///// QUESTION: the following function might not be thread safe !? Maybe
-///// we need some mutex here, to avoid concurent creation of
-///// the same dictionary !?!?!
- // TODO Swig int LoadDictFromName(string filename);
- // TODO Swig int LoadAllDictFromDirectory(string DirectoryName);
- // TODO Swig string* GetAllDictNames();
- int LoadDicomV3Dict(void);
- void Print(ostream&);
- gdcmDict* GetDict(DictKey DictName);
- gdcmDict* GetDefaultPublicDict(void);
-};
-
-// The dicom header of a Dicom file contains a set of such ELement VALUES
-// (when successfuly parsed against a given Dicom dictionary)
-class GDCM_EXPORT ElValue {
-private:
- gdcmDictEntry *entry;
- guint32 LgrElem;
- // Might prove of some interest (see _ID_DCM_ELEM)
- // int Swap;
-public:
- string value; // used to be char * valeurElem
- size_t Offset; // Offset from the begining of file for direct user access
- ElValue(gdcmDictEntry*);
- void SetVR(string);
- string GetVR(void);
- void SetLength(guint32 l){LgrElem = l; };
- void SetValue(string val){ value = val; };
- void SetOffset(size_t of){ Offset = of; };
- string GetValue(void) { return value; };
- guint32 GetLength(void) { return LgrElem; };
- size_t GetOffset(void) { return Offset; };
- guint16 GetGroup(void) { return entry->GetGroup(); };
- guint16 GetElement(void) { return entry->GetElement(); };
- string GetKey(void) { return entry->GetKey(); };
- string GetName(void) { return entry->GetName();};
-};
-
-typedef map<TagKey, ElValue*> TagElValueHT;
-typedef map<string, ElValue*> TagElValueNameHT;
-// Container for a set of succefully parsed ElValues.
-class GDCM_EXPORT ElValSet {
- // We need both accesses with a TagKey and the Dicentry.Name
- TagElValueHT tagHt;
- TagElValueNameHT NameHt;
-public:
- void Add(ElValue*);
- void Print(ostream &);
- void PrintByName(ostream &);
- ElValue* GetElement(guint32 group, guint32 element);
- string GetElValue(guint32 group, guint32 element);
- string GetElValue(string);
- TagElValueHT & GetTagHt(void);
-};
-
-// The various entries of the explicit value representation (VR) shall
-// be managed within a dictionary.
-typedef string VRKey;
-typedef string VRAtr;
-typedef map<TagKey, VRAtr> VRHT; // Value Representation Hash Table
-
-// The typical usage of objects of this class is to classify a set of
-// dicom files according to header information e.g. to create a file hierachy
-// reflecting the Patient/Study/Serie informations, or extracting a given
-// SerieId. Accesing the content (image[s] or volume[s]) is beyond the
-// functionality of this class (see dmcFile below).
-// Notes:
-// * the gdcmHeader::Set*Tag* family members cannot be defined as protected
-// (Swig limitations for as Has_a dependency between gdcmFile and gdcmHeader)
-class GDCM_EXPORT gdcmHeader {
-//FIXME sw should be qn EndianType !!!
- //enum EndianType {
- //LittleEndian,
- //BadLittleEndian,
- //BigEndian,
- //BadBigEndian};
-private:
- // All instances share the same value representation dictionary
- static VRHT *dicom_vr;
- static gdcmDictSet* Dicts; // Global dictionary container
- gdcmDict* RefPubDict; // Public Dictionary
- gdcmDict* RefShaDict; // Shadow Dictionary (optional)
- ElValSet PubElVals; // Element Values parsed with Public Dictionary
- ElValSet ShaElVals; // Element Values parsed with Shadow Dictionary
- // In order to inspect/navigate through the file
- string filename;
- FILE * fp;
- // The tag Image Location ((0028,0200) containing the adress of
- // the pixels) is not allways present. When we store this information
- // FIXME
- // outside of the elements:
- guint16 grPixel;
- guint16 numPixel;
- int sw;
-
- guint16 ReadInt16(void);
- guint32 ReadInt32(void);
- guint16 SwapShort(guint16);
- guint32 SwapLong(guint32);
- void Initialise(void);
- void CheckSwap(void);
- void FindLength(ElValue *);
- void FindVR(ElValue *);
- void LoadElementValue(ElValue *);
- void SkipElementValue(ElValue *);
- void InitVRDict(void);
- bool IsAnInteger(guint16, guint16, string, guint32);
- ElValue * ReadNextElement(void);
- gdcmDictEntry * IsInDicts(guint32, guint32);
- size_t GetPixelOffset(void);
-protected:
- enum FileType {
- Unknown = 0,
- TrueDicom,
- ExplicitVR,
- ImplicitVR,
- ACR,
- ACR_LIBIDO};
- FileType filetype;
-///// QUESTION: Maybe Print is a better name than write !?
- int write(ostream&);
-///// QUESTION: Maybe anonymize should be a friend function !?!?
-///// See below for an example of how anonymize might be implemented.
- int anonymize(ostream&);
-public:
- void LoadElements(void);
- virtual void ParseHeader(void);
- gdcmHeader(const char* filename);
- virtual ~gdcmHeader();
-
- // TODO Swig int SetPubDict(string filename);
- // When some proprietary shadow groups are disclosed, whe can set
- // up an additional specific dictionary to access extra information.
- // TODO Swig int SetShaDict(string filename);
-
- // Retrieve all potentially available tag [tag = (group, element)] names
- // from the standard (or public) dictionary (hence static). Typical usage:
- // enable the user of a GUI based interface to select his favorite fields
- // for sorting or selection.
- // TODO Swig string* GetPubTagNames();
- // Get the element values themselves:
- string GetPubElValByName(string TagName);
- string GetPubElValByNumber(guint16 group, guint16 element);
- // Get the element value representation: (VR) might be needed by caller
- // to convert the string typed content to caller's native type (think
- // of C/C++ vs Python).
- // TODO Swig string GetPubElValRepByName(string TagName);
- // TODO Swig string GetPubElValRepByNumber(guint16 group, guint16 element);
- TagElValueHT & GetPubElVal(void) { return PubElVals.GetTagHt(); };
- void PrintPubElVal(ostream & os = cout);
- void PrintPubDict(ostream &);
-
- // Same thing with the shadow :
- // TODO Swig string* GetShaTagNames();
- // TODO Swig string GetShaElValByName(string TagName);
- // TODO Swig string GetShaElValByNumber(guint16 group, guint16 element);
- // TODO Swig string GetShaElValRepByName(string TagName);
- // TODO Swig string GetShaElValRepByNumber(guint16 group, guint16 element);
-
- // Wrappers of the above (both public and shadow) to avoid bugging the
- // caller with knowing if ElVal is from the public or shadow dictionary.
- // TODO Swig string GetElValByName(string TagName);
- // TODO Swig string GetElValByNumber(guint16 group, guint16 element);
- // TODO Swig string GetElValRepByName(string TagName);
- // TODO Swig string GetElValRepByNumber(guint16 group, guint16 element);
-
- // TODO Swig int SetPubElValByName(string content, string TagName);
- // TODO Swig int SetPubElValByNumber(string content, guint16 group, guint16 element);
- // TODO Swig int SetShaElValByName(string content, string ShadowTagName);
- // TODO Swig int SetShaElValByNumber(string content, guint16 group, guint16 element);
-
- // TODO Swig int GetSwapCode();
-};
-
-// In addition to Dicom header exploration, this class is designed
-// for accessing the image/volume content. One can also use it to
-// write Dicom files.
-////// QUESTION: this looks still like an open question wether the
-////// relationship between a gdcmFile and gdcmHeader is of
-////// type IS_A or HAS_A !
-class GDCM_EXPORT gdcmFile: gdcmHeader
-{
-private:
- void* Data;
- int Parsed; // weather allready parsed
- string OrigFileName; // To avoid file overwrite
-public:
- // Constructor dedicated to writing a new DICOMV3 part10 compliant
- // file (see SetFileName, SetDcmTag and Write)
- // TODO Swig gdcmFile();
- // Opens (in read only and when possible) an existing file and checks
- // for DICOM compliance. Returns NULL on failure.
- // Note: the in-memory representation of all available tags found in
- // the DICOM header is post-poned to first header information access.
- // This avoid a double parsing of public part of the header when
- // one sets an a posteriori shadow dictionary (efficiency can be
- // seen a a side effect).
- gdcmFile(string & filename);
- // For promotion (performs a deepcopy of pointed header object)
- // TODO Swig gdcmFile(gdcmHeader* header);
- // TODO Swig ~gdcmFile();
-
- // On writing purposes. When instance was created through
- // gdcmFile(string filename) then the filename argument MUST be different
- // from the constructor's one (no overwriting aloud).
- // TODO Swig int SetFileName(string filename);
-
- // Allocates necessary memory, copies the data (image[s]/volume[s]) to
- // newly allocated zone and return a pointer to it:
- // TODO Swig void * GetImageData();
- // Returns size (in bytes) of required memory to contain data
- // represented in this file.
- // TODO Swig size_t GetImageDataSize();
- // Copies (at most MaxSize bytes) of data to caller's memory space.
- // Returns an error code on failure (if MaxSize is not big enough)
- // TODO Swig int PutImageDataHere(void* destination, size_t MaxSize );
- // Allocates ExpectedSize bytes of memory at this->Data and copies the
- // pointed data to it.
- // TODO Swig int SetImageData(void * Data, size_t ExpectedSize);
- // Push to disk.
- // TODO Swig int Write();
-};
-
-//class gdcmSerie : gdcmFile;
-//class gdcmMultiFrame : gdcmFile;
-
-//
-//Examples:
-// * gdcmFile WriteDicom;
-// WriteDicom.SetFileName("MyDicomFile.dcm");
-// string * AllTags = gdcmHeader.GetDcmTagNames();
-// WriteDicom.SetDcmTag(AllTags[5], "253");
-// WriteDicom.SetDcmTag("Patient Name", "bozo");
-// WriteDicom.SetDcmTag("Patient Name", "bozo");
-// WriteDicom.SetImageData(Image);
-// WriteDicom.Write();
-//
-//
-// Anonymize(ostream& output) {
-// a = gdcmFile("toto1");
-// a.SetPubValueByName("Patient Name", "");
-// a.SetPubValueByName("Date", "");
-// a.SetPubValueByName("Study Date", "");
-// a.write(output);
-// }
git://git.creatis.insa-lyon.fr / gdcm.git / blobdiff