X-Git-Url: https://git.creatis.insa-lyon.fr/pubgit/?a=blobdiff_plain;f=src%2FgdcmDocument.h;h=0a74dcf478119edf2ecf9499beae90015d364142;hb=bd217557a398371d5d0a27c5aa6e09e47eb65652;hp=db1fe1848473d04b4225ac0d7557e8142a71f7cb;hpb=ba7aa1959cabf4ed402177c080723bc284983140;p=gdcm.git diff --git a/src/gdcmDocument.h b/src/gdcmDocument.h index db1fe184..0a74dcf4 100644 --- a/src/gdcmDocument.h +++ b/src/gdcmDocument.h @@ -3,12 +3,12 @@ Program: gdcm Module: $RCSfile: gdcmDocument.h,v $ Language: C++ - Date: $Date: 2004/07/16 15:18:05 $ - Version: $Revision: 1.22 $ + Date: $Date: 2005/01/13 09:23:27 $ + Version: $Revision: 1.86 $ 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.htm for details. + 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 @@ -19,64 +19,155 @@ #ifndef GDCMDOCUMENT_H #define GDCMDOCUMENT_H -#include "gdcmCommon.h" #include "gdcmVR.h" -#include "gdcmTS.h" -#include "gdcmException.h" -#include "gdcmDictSet.h" -#include "gdcmDocEntry.h" - -class gdcmValEntry; -class gdcmBinEntry; -class gdcmSeqEntry; - -#include "gdcmDocEntrySet.h" +#include "gdcmDict.h" #include "gdcmElementSet.h" #include #include +#include + +namespace gdcm +{ +class ValEntry; +class BinEntry; +class SeqEntry; +class Dict; +class RLEFramesInfo; +class JPEGFragmentsInfo; //----------------------------------------------------------------------------- /** - * \brief Derived by both gdcmHeader and gdcmDicomDir + * \brief Derived by both Header and DicomDir */ -class GDCM_EXPORT gdcmDocument : public gdcmElementSet +class GDCM_EXPORT Document : public ElementSet { -friend class gdcmFile; -private: - /// Public dictionary used to parse this header - gdcmDict *RefPubDict; - - /// \brief Optional "shadow dictionary" (private elements) used to parse - /// this header - gdcmDict *RefShaDict; +public: +// Informations contained in the parser + virtual bool IsReadable(); + FileType GetFileType(); + + std::string GetTransferSyntax(); + + bool IsDicomV3(); + + RLEFramesInfo *GetRLEInfo() { return RLEInfo; } + JPEGFragmentsInfo *GetJPEGInfo() { return JPEGInfo; } + +// Dictionnaries + virtual void PrintPubDict (std::ostream &os = std::cout); + virtual void PrintShaDict (std::ostream &os = std::cout); + + Dict* GetPubDict(); + Dict* GetShaDict(); + bool SetShaDict(Dict* dict); + bool SetShaDict(DictKey const &dictName); + +// Swap code + /// 'Swap code' accessor (see \ref SwapCode ) + int GetSwapCode() { return SwapCode; } + // System access (meaning endian related !?) + uint16_t SwapShort(uint16_t); // needed by File + uint32_t SwapLong(uint32_t); // needed by File + uint16_t UnswapShort(uint16_t); // needed by File + uint32_t UnswapLong(uint32_t); // needed by File - /// \brief Equals =1 if user wants to skip shadow groups while parsing - /// (to save space) - int IgnoreShadow; +// Ordering of Documents + bool operator<(Document &document); - /// \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). - uint32_t MaxSizeLoadEntry; +public: +// File I/O + /// Accessor to \ref Filename + const std::string &GetFileName() const { return Filename; } + /// Accessor to \ref Filename + void SetFileName(std::string const &fileName) { Filename = fileName; } + + std::ifstream *OpenFile(); + bool CloseFile(); + void WriteContent( std::ofstream *fp, FileType type ); + +// Content entries + + virtual bool SetEntry(std::string const &content, + uint16_t group, uint16_t element); + virtual bool SetEntry(uint8_t *content, int lgth, + uint16_t group, uint16_t element); + virtual bool SetEntry(std::string const &content, ValEntry *entry); + virtual bool SetEntry(uint8_t *content, int lgth, BinEntry *entry); + + virtual void *GetEntryBinArea(uint16_t group, uint16_t elem); + + virtual std::string GetEntry (uint16_t group, uint16_t elem); + virtual std::string GetEntryVR(uint16_t group, uint16_t elem); + virtual int GetEntryLength(uint16_t group, uint16_t elem); + + DocEntry *GetDocEntry(uint16_t group, uint16_t element); + ValEntry *GetValEntry(uint16_t group, uint16_t element); + BinEntry *GetBinEntry(uint16_t group, uint16_t element); + + ValEntry *ReplaceOrCreate(std::string const &value, + uint16_t group, uint16_t elem, + TagName const &vr = GDCM_UNKNOWN); + BinEntry *ReplaceOrCreate(uint8_t* binArea, int lgth, + uint16_t group, uint16_t elem, + TagName const &vr = GDCM_UNKNOWN); + SeqEntry *ReplaceOrCreate(uint16_t group, uint16_t elem); + + bool ReplaceIfExist(std::string const &value, + uint16_t group, uint16_t elem ); - /// \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. - uint32_t MaxSizePrintEntry; + virtual void LoadEntryBinArea(uint16_t group, uint16_t elem); + virtual void LoadEntryBinArea(BinEntry *entry); + + void LoadDocEntrySafe(DocEntry *entry); + TagDocEntryHT *BuildFlatHashTable(); + + /// Return the Transfer Syntax as a string + std::string GetTransferSyntaxName(); protected: +// Methods + // Constructor and destructor are protected to forbid end user + // to instanciate from this class Document (only Header and + // DicomDir are meaningfull). + Document(); + Document( std::string const &filename ); + virtual ~Document(); + + void ReadAndSkipEncapsulatedBasicOffsetTable(); + void ComputeRLEInfo(); + void ComputeJPEGFragmentInfo(); + // Entry + bool CheckIfEntryExist(uint16_t group, uint16_t elem ); + + int ComputeGroup0002Length( FileType filetype ); + +// Variables /// Refering underlying filename. std::string Filename; - /// \brief SWap code (e.g. Big Endian, Little Endian, Bad Big Endian, - /// Bad Little Endian) according to the processor Endianity and - /// what is written on disc. - int sw; + /// \brief Swap code gives an information on the byte order of a + /// supposed to be an int32, as it's read on disc + /// (depending on the image Transfer Syntax *and* on the processor endianess) + /// as opposed as it should in memory to be dealt as an int32. + /// For instance : + /// - a 'Little Endian' image, read with a little endian processor + /// will have a SwapCode= 1234 (the order is OK; nothing to do) + /// - a 'Little Endian' image, read with a big endian procesor + /// will have a SwapCode= 4321 (the order is wrong; int32 an int16 must be + /// swapped) + /// note : values 2143, 4321, 3412 remain for the ACR-NEMA time, and + /// the well knowed 'Bad Big Endian' and 'Bad Little Endian' codes + int SwapCode; + + ///\brief whether we already parsed group 0002 + bool Group0002Parsed; + + ///\brief whether file has a DCM Preamble + bool HasDCMPreamble; /// File Pointer, opened during Header parsing. - FILE *fp; + std::ifstream *Fp; /// ACR, ACR_LIBIDO, ExplicitVR, ImplicitVR, Unknown FileType Filetype; @@ -91,173 +182,83 @@ protected: /// \brief Elements whose value is longer than MAX_SIZE_PRINT_ELEMENT_VALUE /// are NOT printed. /// \todo Currently not used since collides with #define in - /// \ref gdcmDocEntry.cxx. See also - /// \ref gdcmDocument::SetMaxSizePrintEntry() + /// class DocEntry . See also + /// method ref Document::SetMaxSizePrintEntry() static const unsigned int MAX_SIZE_PRINT_ELEMENT_VALUE; - /// 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 : stands for the least detail level. - int printLevel; - -public: -// the 2 following will be merged - virtual void PrintPubDict (std::ostream &os = std::cout); - virtual void PrintShaDict (std::ostream &os = std::cout); - -// Dictionnaries - gdcmDict *GetPubDict(); - gdcmDict *GetShaDict(); - bool SetShaDict(gdcmDict *dict); - bool SetShaDict(DictKey dictName); - -// Informations contained in the parser - virtual bool IsReadable(); - bool IsGivenTransferSyntax(const std::string & SyntaxToCheck); - bool IsImplicitVRLittleEndianTransferSyntax(); - bool IsExplicitVRLittleEndianTransferSyntax(); - bool IsDeflatedExplicitVRLittleEndianTransferSyntax(); - bool IsExplicitVRBigEndianTransferSyntax(); - bool IsJPEGBaseLineProcess1TransferSyntax(); - bool IsJPEGExtendedProcess2_4TransferSyntax(); - bool IsJPEGExtendedProcess3_5TransferSyntax(); - bool IsJPEGSpectralSelectionProcess6_8TransferSyntax(); - bool IsRLELossLessTransferSyntax(); - bool IsJPEGLossless(); - bool IsJPEG2000(); - bool IsDicomV3(); - - FileType GetFileType(); - - FILE* OpenFile(bool exception_on_error = false) throw(gdcmFileError); - bool CloseFile(); - - void Write(FILE* fp, FileType type); - - gdcmValEntry* ReplaceOrCreateByNumber(std::string value, - uint16_t group, uint16_t elem); - - gdcmBinEntry* ReplaceOrCreateByNumber(void *voidArea, int lgth, - uint16_t group, uint16_t elem); - bool ReplaceIfExistByNumber (const char* value, uint16_t group, uint16_t elem); - - virtual void* LoadEntryVoidArea(uint16_t Group, uint16_t Element); - virtual void* LoadEntryVoidArea(gdcmBinEntry*); - - // System access - uint16_t SwapShort(uint16_t); // needed by gdcmFile - uint32_t SwapLong(uint32_t); // needed by gdcmFile - uint16_t UnswapShort(uint16_t); // needed by gdcmFile - uint32_t UnswapLong(uint32_t); // needed by gdcmFile - -protected: - // Constructor and destructor are protected to forbid end user - // to instanciate from this class gdcmDocument (only gdcmHeader and - // gdcmDicomDir are meaningfull). - gdcmDocument(bool exception_on_error = false); - gdcmDocument(std::string const & inFilename, - bool exception_on_error = false, - bool enable_sequences = false, - bool ignore_shadow = false); - virtual ~gdcmDocument(); - - void gdcmDocument::Parse7FE0 (); - // Entry - int CheckIfEntryExistByNumber(uint16_t Group, uint16_t Elem ); // int ! -public: - virtual std::string GetEntryByName (TagName tagName); - virtual std::string GetEntryVRByName (TagName tagName); - virtual std::string GetEntryByNumber (uint16_t group, uint16_t element); - virtual std::string GetEntryVRByNumber(uint16_t group, uint16_t element); - virtual int GetEntryLengthByNumber(uint16_t group, uint16_t element); -protected: - virtual bool SetEntryByName (std::string content, std::string tagName); - virtual bool SetEntryByNumber(std::string content, - uint16_t group, uint16_t element); - virtual bool SetEntryByNumber(void *content, int lgth, - uint16_t group, uint16_t element); - virtual bool SetEntryLengthByNumber(uint32_t length, - uint16_t group, uint16_t element); - - virtual size_t GetEntryOffsetByNumber(uint16_t Group, uint16_t Elem); - virtual void* GetEntryVoidAreaByNumber(uint16_t Group, uint16_t Elem); - virtual bool SetEntryVoidAreaByNumber(void* a, uint16_t Group, - uint16_t Elem); + /// Store the RLE frames info obtained during parsing of pixels. + RLEFramesInfo *RLEInfo; - virtual void UpdateShaEntries(); - - // Header entry - gdcmDocEntry* GetDocEntryByNumber(uint16_t group, uint16_t element); - gdcmDocEntry* GetDocEntryByName (std::string Name); - - gdcmValEntry* GetValEntryByNumber(uint16_t group, uint16_t element); - gdcmBinEntry* GetBinEntryByNumber(uint16_t group, uint16_t element); - - void LoadDocEntrySafe(gdcmDocEntry*); + /// Store the JPEG fragments info obtained during parsing of pixels. + JPEGFragmentsInfo *JPEGInfo; private: +// Methods // Read - long ParseDES(gdcmDocEntrySet *set, long offset, long l_max,bool delim_mode); - long ParseSQ(gdcmSeqEntry *seq, long offset, long l_max, bool delim_mode); - - void LoadDocEntry (gdcmDocEntry *); - void FindDocEntryLength(gdcmDocEntry *); - void FindDocEntryVR (gdcmDocEntry *); - bool CheckDocEntryVR (gdcmDocEntry *, gdcmVRKey); + void ParseDES(DocEntrySet *set,long offset, long l_max, bool delim_mode); + void ParseSQ (SeqEntry *seq, long offset, long l_max, bool delim_mode); - std::string GetDocEntryValue (gdcmDocEntry *); - std::string GetDocEntryUnvalue(gdcmDocEntry *); + void LoadDocEntry (DocEntry *e); + void FindDocEntryLength (DocEntry *e) throw ( FormatError ); + uint32_t FindDocEntryLengthOBOrOW() throw( FormatUnexpected ); + std::string FindDocEntryVR(); + bool CheckDocEntryVR (VRKey k); - void SkipDocEntry (gdcmDocEntry *); - void SkipToNextDocEntry (gdcmDocEntry *); + std::string GetDocEntryValue (DocEntry *entry); + std::string GetDocEntryUnvalue(DocEntry *entry); - void FixDocEntryFoundLength(gdcmDocEntry *, uint32_t); - bool IsDocEntryAnInteger (gdcmDocEntry *); - uint32_t FindDocEntryLengthOB(); + void SkipDocEntry (DocEntry *entry); + void SkipToNextDocEntry (DocEntry *entry); - uint16_t ReadInt16(); - uint32_t ReadInt32(); + void FixDocEntryFoundLength(DocEntry *entry,uint32_t l); + bool IsDocEntryAnInteger (DocEntry *entry); + + uint16_t ReadInt16() throw ( FormatError ); + uint32_t ReadInt32() throw ( FormatError ); void SkipBytes(uint32_t); bool ReadTag(uint16_t, uint16_t); uint32_t ReadTagLength(uint16_t, uint16_t); void Initialise(); bool CheckSwap(); - void SwitchSwapToBigEndian(); + void SwitchByteSwapCode(); void SetMaxSizeLoadEntry(long); void SetMaxSizePrintEntry(long); // DocEntry related utilities - gdcmDocEntry* ReadNextDocEntry(); + DocEntry *ReadNextDocEntry(); uint32_t GenerateFreeTagKeyInGroup(uint16_t group); + void BuildFlatHashTableRecurse( TagDocEntryHT &builtHT, + DocEntrySet* set ); -public: -// Accessors: - /// Accessor to \ref printLevel - void SetPrintLevel(int level) { printLevel = level; } + void HandleBrokenEndian(uint16_t &group, uint16_t &elem); + void HandleOutOfGroup0002(uint16_t &group, uint16_t &elem); - /// Accessor to \ref Filename - const std::string &GetFileName() { return Filename; } - - /// Accessor to \ref Filename - void SetFileName(std::string const & fileName) { Filename = fileName; } - - /// Accessor to \ref gdcmElementSet::tagHT - TagDocEntryHT &GetEntry() { return tagHT; }; - - /// 'Swap code' accessor (see \ref sw ) - int GetSwapCode() { return sw; } +// Variables + /// Public dictionary used to parse this header + Dict *RefPubDict; - /// File pointer - FILE * GetFP() { return fp; } + /// \brief Optional "shadow dictionary" (private elements) used to parse + /// this header + Dict *RefShaDict; - bool operator<(gdcmDocument &document); + /// \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). + uint32_t MaxSizeLoadEntry; + + /// \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. + uint32_t MaxSizePrintEntry; +private: + friend class File; }; +} // end namespace gdcm //----------------------------------------------------------------------------- #endif