typedef std::string VRAtr;
typedef std::map<VRKey, VRAtr> VRHT; // Value Representation Hash Table
-typedef std::multimap<TagKey, gdcmHeaderEntry*> TagHeaderEntryHT;
-typedef std::pair<TagKey, gdcmHeaderEntry*> PairHT;
+typedef std::multimap<TagKey, gdcmHeaderEntry *> TagHeaderEntryHT;
+typedef std::pair<TagKey, gdcmHeaderEntry *> PairHT;
typedef std::pair<TagHeaderEntryHT::iterator,TagHeaderEntryHT::iterator> IterHT;
-typedef std::list<gdcmHeaderEntry*> ListTag; // for linking together the Elements
+typedef std::list<gdcmHeaderEntry *> ListTag; // for linking together the Elements
typedef std::string GroupKey;
typedef std::map<GroupKey, int> GroupHT;
//-----------------------------------------------------------------------------
-/*
- * \defgroup gdcmHeader
- * \brief
+/**
+ * \brief used by both gdcmHeader and gdcmDicomDir
*/
class GDCM_EXPORT gdcmParser
{
public:
- gdcmParser(bool exception_on_error = false);
- gdcmParser(const char *filename,
- bool exception_on_error = false,
- bool enable_sequences = false);
- virtual ~gdcmParser(void);
// Print
/**
* \brief Sets the print level for the Dicom Header
* \note 0 for Light Print; 1 for 'medium' Print, 2 for Heavy
*/
- void SetPrintLevel(int level) { printLevel = level; };
- virtual void PrintPubEntry(std::ostream &os = std::cout);
+ void SetPrintLevel(int level)
+ { printLevel = level; };
+ /**
+ * \ingroup gdcmParser
+ * \brief canonical Printer
+ * \sa SetPrintLevel
+ */
+ virtual void Print (std::ostream &os = std::cout)
+ {PrintEntry(os);};
+ virtual void PrintEntry (std::ostream &os = std::cout);
virtual void PrintPubDict (std::ostream &os = std::cout);
virtual void PrintShaDict (std::ostream &os = std::cout);
// Standard values
- inline std::string GetFileName(void) {return filename;}
+ /**
+ * \ingroup gdcmParser
+ * \brief Gets the external File Name
+ */
+ inline std::string GetFileName(void)
+ {return filename;}
// Dictionnaries
gdcmDict *GetPubDict(void);
bool SetShaDict(DictKey dictName);
// Informations contained in the parser
- bool IsReadable(void);
+ virtual bool IsReadable(void);
bool IsImplicitVRLittleEndianTransferSyntax(void);
bool IsExplicitVRLittleEndianTransferSyntax(void);
bool IsDeflatedExplicitVRLittleEndianTransferSyntax(void);
*/
inline ListTag &GetListEntry(void) { return listEntries; };
-// Read (used in gdcmFile)
+// Read (used in gdcmFile, gdcmDicomDir)
FILE *OpenFile(bool exception_on_error = false) throw(gdcmFileError);
bool CloseFile(void);
-// Write (used in gdcmFile)
+// Write (used in gdcmFile, gdcmDicomDir)
virtual bool Write(FILE *, FileType);
- bool ReplaceOrCreateByNumber(std::string Value, guint16 Group, guint16 Elem);
- bool ReplaceOrCreateByNumber( char *Value, guint16 Group, guint16 Elem);
+ gdcmHeaderEntry * ReplaceOrCreateByNumber(std::string Value, guint16 Group, guint16 Elem);
+ gdcmHeaderEntry * ReplaceOrCreateByNumber( char *Value, guint16 Group, guint16 Elem);
bool ReplaceIfExistByNumber ( char *Value, guint16 Group, guint16 Elem);
// System access
+ /**
+ * \ingroup gdcmHeader
+ * \brief returns the 'swap code'
+ * (Big Endian, Little Endian,
+ * Bad Big Endian, Bad Little Endian)
+ * according to the processor Endianity and what's written on disc
+ * return
+ */
inline int GetSwapCode(void) { return sw; }
- guint16 SwapShort(guint16); // needed by gdcmFile
- guint32 SwapLong(guint32); // for JPEG Files
+
+ guint16 SwapShort(guint16); // needed by gdcmFile
+ guint32 SwapLong(guint32); // needed by gdcmFile
+ guint16 UnswapShort(guint16); // needed by gdcmFile
+ guint32 UnswapLong(guint32); // needed by gdcmFile
protected:
+// constructor and destructor are protected to forbid end user
+// to instanciate class gdcmParser
+// (only gdcmHeader and gdcmDicomDir are meaningfull)
+ gdcmParser(bool exception_on_error = false);
+ gdcmParser(const char *inFilename,
+ bool exception_on_error = false,
+ bool enable_sequences = false,
+ bool ignore_shadow = false);
+ virtual ~gdcmParser(void);
// Entry
int CheckIfEntryExistByNumber(guint16 Group, guint16 Elem ); // int !
virtual std::string GetEntryByName (std::string tagName);
virtual std::string GetEntryVRByName (std::string tagName);
virtual std::string GetEntryByNumber (guint16 group, guint16 element);
virtual std::string GetEntryVRByNumber(guint16 group, guint16 element);
+ virtual int GetEntryLengthByNumber(guint16 group, guint16 element);
virtual bool SetEntryByName (std::string content, std::string tagName);
- virtual bool SetEntryByNumber(std::string content, guint16 group, guint16 element);
- virtual bool SetEntryLengthByNumber(guint32 l, guint16 group, guint16 element);
+ virtual bool SetEntryByNumber(std::string content, guint16 group, guint16 element);
+ virtual bool SetEntryLengthByNumber(guint32 length, guint16 group, guint16 element);
virtual size_t GetEntryOffsetByNumber (guint16 Group, guint16 Elem);
virtual void *GetEntryVoidAreaByNumber(guint16 Group, guint16 Elem);
virtual void *LoadEntryVoidArea (guint16 Group, guint16 Element);
virtual bool SetEntryVoidAreaByNumber(void *a, guint16 Group, guint16 Elem);
+ virtual void UpdateShaEntries(void);
+
// Header entry
- gdcmHeaderEntry *GetHeaderEntryByName (std::string Name);
- gdcmHeaderEntry *GetHeaderEntryByNumber(guint16 group, guint16 element);
+ gdcmHeaderEntry *GetHeaderEntryByNumber (guint16 group, guint16 element);
+ gdcmHeaderEntry *GetHeaderEntryByName (std::string Name);
+ IterHT GetHeaderEntrySameNumber(guint16 group, guint16 element);
+// IterHT GetHeaderEntrySameName (std::string Name);
- void LoadHeaderEntrySafe (gdcmHeaderEntry *);
+ void LoadHeaderEntrySafe(gdcmHeaderEntry *);
void UpdateGroupLength(bool SkipSequence = false, FileType type = ImplicitVR);
- void WriteEntries(FileType type, FILE *);
+ void WriteEntry(gdcmHeaderEntry *tag,FILE *_fp,FileType type);
+ void WriteEntries(FILE *_fp,FileType type);
+ void WriteEntriesDeprecated(FILE *_fp,FileType type); // JPR
+ void AddHeaderEntry (gdcmHeaderEntry *);
+
+ /**
+ * \ingroup gdcmParser
+ * \brief Set the external File Name
+ */
+ inline void SetFileName(char* fileName)
+ {filename = fileName;}
+
// Variables
+ /**
+ * \brief File Pointer, open during Header parsing
+ */
FILE *fp;
- FileType filetype; // ACR, ACR_LIBIDO, ExplicitVR, ImplicitVR, Unknown
+ /**
+ * \brief ACR, ACR_LIBIDO, ExplicitVR, ImplicitVR, Unknown
+ */
+ FileType filetype;
+/// after opening the file, we read HEADER_LENGTH_TO_READ bytes.
static const unsigned int HEADER_LENGTH_TO_READ;
+/// Elements whose value is longer than MAX_SIZE_LOAD_ELEMENT_VALUE are NOT loaded
static const unsigned int MAX_SIZE_LOAD_ELEMENT_VALUE;
+/// Elements whose value is longer than MAX_SIZE_PRINT_ELEMENT_VALUE are NOT printed
+ static const unsigned int MAX_SIZE_PRINT_ELEMENT_VALUE;
+protected:
+ /**
+ * \brief H Table (multimap), to provide fast access
+ */
+ TagHeaderEntryHT tagHT;
+ /**
+ * \brief chained list, to keep the 'spacial' ordering
+ */
+ ListTag listEntries;
+ /**
+ * \brief will be set 1 if user asks to 'go inside' the 'sequences' (VR = "SQ")
+ */
+ int enableSequences;
+ /**
+ * \brief amount of printed details for each Header Entry (Dicom Element)
+ * 0 : the least
+ */
+ int printLevel;
+
+ /**
+ * \brief For some ACR-NEMA images, it's *not* 7fe0 ...
+ */
+ guint16 GrPixel;
+
+ /// In some cases (e.g. for some ACR-NEMA images) the Header Entry Element
+ /// Number of the 'Pixel Element' is *not* found at 0x0010. In order to
+ /// make things easier the parser shall store the proper value in
+ /// NumPixel to provide a unique access facility. See also
+ /// \ref gdcmHeader::gdcmHeader
+ guint16 NumPixel;
+ /**
+ * \brief some files may contain icons; GrPixel,NumPixel appears several times
+ * Let's remember how many times!
+ */
+ int countGrPixel;
+ /**
+ * \brief = true when the 'pixel Element' is reached during writting process
+ */
+ bool itsTimeToWritePixels;
+
private:
// Read
- void Parse(bool exception_on_error = false) throw(gdcmFormatError);
+ bool ParseHeader(bool exception_on_error = false) throw(gdcmFormatError);
void LoadHeaderEntries (void);
void LoadHeaderEntry (gdcmHeaderEntry *);
- void AddHeaderEntry (gdcmHeaderEntry *);
void FindHeaderEntryLength(gdcmHeaderEntry *);
void FindHeaderEntryVR (gdcmHeaderEntry *);
+ bool CheckHeaderEntryVR (gdcmHeaderEntry *, VRKey);
+
+ std::string GetHeaderEntryValue (gdcmHeaderEntry *);
+ std::string GetHeaderEntryUnvalue(gdcmHeaderEntry *);
void SkipHeaderEntry (gdcmHeaderEntry *);
void FixHeaderEntryFoundLength(gdcmHeaderEntry *, guint32);
void SkipBytes(guint32);
void Initialise(void);
- void CheckSwap(void);
+ bool CheckSwap(void);
void SwitchSwapToBigEndian(void);
void SetMaxSizeLoadEntry(long);
+ void SetMaxSizePrintEntry(long);
- // Dict
+ // DictEntry related utilities
gdcmDictEntry *GetDictEntryByName (std::string Name);
gdcmDictEntry *GetDictEntryByNumber(guint16, guint16);
-
+ gdcmDictEntry *NewVirtualDictEntry(guint16 group,
+ guint16 element,
+ std::string vr = "unkn",
+ std::string fourth = "unkn",
+ std::string name = "unkn");
+ //gdcmDictEntry *NewVirtualDictEntry(gdcmHeaderEntry *); // never defined
+
// HeaderEntry related utilities
+
gdcmHeaderEntry *ReadNextHeaderEntry (void);
- gdcmHeaderEntry *NewHeaderEntryByNumber(guint16 group, guint16 element);
+ gdcmHeaderEntry *NewHeaderEntryByNumber(guint16 group,
+ guint16 element);
gdcmHeaderEntry *NewHeaderEntryByName (std::string Name);
- gdcmDictEntry *NewVirtualDictEntry(guint16 group, guint16 element,
- std::string vr = "Unknown",
- std::string fourth = "Unknown",
- std::string name = "Unknown");
-
- // Deprecated (Not used)
- gdcmHeaderEntry *NewManualHeaderEntryToPubDict(std::string NewTagName,
- std::string VR);
+
+ // Deprecated (Not used) --> commented out
+ //gdcmHeaderEntry *NewManualHeaderEntryToPubDict(std::string NewTagName,
+ // std::string VR);
+
guint32 GenerateFreeTagKeyInGroup(guint16 group);
- // Refering underlying filename.
+ /**
+ * \brief Refering underlying filename.
+ */
std::string filename;
- // Public dictionary used to parse this header
+ /**
+ * \brief Public dictionary used to parse this header
+ */
gdcmDict *RefPubDict;
- // Optional "shadow dictionary" (private elements) used to parse this header
+
+ /**
+ * \brief Optional "shadow dictionary" (private elements) used to parse this header
+ */
gdcmDict *RefShaDict;
- TagHeaderEntryHT tagHT; // H Table (multimap), to provide fast access
- ListTag listEntries; // chained list, to keep the 'spacial' ordering
- int enableSequences;
-
- // true if a gdcmHeaderEntry was added post parsing
+ /**
+ * \brief = 1 if a gdcmHeaderEntry was added post parsing
+ */
int wasUpdated;
-
- // Swap code e.g. little, big, bad-big, bad-little endian). Warning:
- // this code is not fixed during header parsing.
+
+ /**
+ * \brief =1 if user wants to skip shadow groups while parsing (to save space)
+ */
+ int ignoreShadow;
+
+ /**
+ * \brief Swap code e.g. little, big, bad-big, bad-little endian).
+ * \warning : this code is not fixed during header parsing.
+ */
int sw;
-
- // Size treshold above which an element value will NOT be loaded in
- // memory (to avoid loading the image/volume itself). By default,
- // this upper bound is fixed to 1024 bytes (which might look reasonable
- // when one considers the definition of the various VR contents).
+ /**
+ * \brief Size threshold above which an element value will NOT be loaded in
+ * memory (to avoid loading the image/volume itself). By default,
+ * this upper bound is fixed to 1024 bytes (which might look reasonable
+ * when one considers the definition of the various VR contents).
+ */
guint32 MaxSizeLoadEntry;
-
- // for PrintHeader
- int printLevel;
+
+ /**
+ * \brief Size threshold above which an element value will NOT be *printed* in
+ * order no to polute the screen output.
+ * By default, this upper bound is fixed to 64 bytes.
+ */
+ guint32 MaxSizePrintEntry;
+
};
//-----------------------------------------------------------------------------
git://git.creatis.insa-lyon.fr / gdcm.git / blobdiff