X-Git-Url: https://git.creatis.insa-lyon.fr/pubgit/?a=blobdiff_plain;f=src%2FgdcmFile.cxx;h=4477a95d9b2539debacf3d25caaefd619de89018;hb=31c63a6cb25b49a119e0132201c051ade2e17704;hp=fad23001113e8e3501fbeeeed717408723f1d809;hpb=9d031783e53f1fe0b29a82f073b383d79948221f;p=gdcm.git diff --git a/src/gdcmFile.cxx b/src/gdcmFile.cxx index fad23001..11ec7fe6 100644 --- a/src/gdcmFile.cxx +++ b/src/gdcmFile.cxx @@ -1,262 +1,940 @@ -// gdcmFile.cxx + /*========================================================================= + + Program: gdcm + Module: $RCSfile: gdcmFile.cxx,v $ + Language: C++ + Date: $Date: 2005/01/11 16:44:43 $ + Version: $Revision: 1.190 $ + + 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. + +=========================================================================*/ + +#include "gdcmFile.h" +#include "gdcmGlobal.h" +#include "gdcmTS.h" +#include "gdcmDocument.h" +#include "gdcmDebug.h" +#include "gdcmUtil.h" +#include "gdcmBinEntry.h" +#include "gdcmHeader.h" +#include "gdcmPixelReadConvert.h" +#include "gdcmPixelWriteConvert.h" +#include "gdcmDocEntryArchive.h" + +#include + +namespace gdcm +{ +typedef std::pair IterHT; -#include "gdcm.h" +//------------------------------------------------------------------------- +// Constructor / Destructor +/** + * \brief Constructor dedicated to deal with the *pixels* area of a ACR/DICOMV3 + * file (Header only deals with the ... header) + * Opens (in read only and when possible) an existing file and checks + * for DICOM compliance. Returns NULL on failure. + * It will be up to the user to load the pixels into memory + * (see GetImageData, GetImageDataRaw) + * \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 as a side effect). + */ +File::File( ) +{ + HeaderInternal = new Header( ); + SelfHeader = true; + Initialise(); +} -static void _Swap(void* im, int swap, int lgr, int nb); +/** + * \brief Constructor dedicated to deal with the *pixels* area of a ACR/DICOMV3 + * file (Header only deals with the ... header) + * Opens (in read only and when possible) an existing file and checks + * for DICOM compliance. Returns NULL on failure. + * It will be up to the user to load the pixels into memory + * (see GetImageData, GetImageDataRaw) + * \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 + * user sets an a posteriori shadow dictionary (efficiency can be + * seen as a side effect). + * @param header already built Header + */ +File::File(Header *header) +{ + HeaderInternal = header; + SelfHeader = false; + Initialise(); +} -///////////////////////////////////////////////////////////////// /** - * \ingroup gdcmFile - * \brief Constructor dedicated to writing a new DICOMV3 part10 compliant - * \file (see SetFileName, SetDcmTag and Write) - * \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 as a side effect). - * - * @param - * - * @return + * \brief Constructor dedicated to deal with the *pixels* area of a ACR/DICOMV3 + * file (Header only deals with the ... header) + * Opens (in read only and when possible) an existing file and checks + * for DICOM compliance. Returns NULL on failure. + * It will be up to the user to load the pixels into memory + * (see GetImageData, GetImageDataRaw) + * \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 as a side effect). + * @param filename file to be opened for parsing */ - -gdcmFile::gdcmFile(string & filename) - :gdcmHeader(filename.c_str()) +File::File(std::string const & filename ) { + HeaderInternal = new Header( filename ); + SelfHeader = true; + Initialise(); +} + +/** + * \brief canonical destructor + * \note If the Header was created by the File constructor, + * it is destroyed by the File + */ +File::~File() +{ + if( PixelReadConverter ) + { + delete PixelReadConverter; + } + if( PixelWriteConverter ) + { + delete PixelWriteConverter; + } + if( Archive ) + { + delete Archive; + } + + if( SelfHeader ) + { + delete HeaderInternal; + } + HeaderInternal = 0; } +//----------------------------------------------------------------------------- +// Print +void File::Print(std::ostream &os) +{ + HeaderInternal->SetPrintLevel(PrintLevel); + HeaderInternal->Print(os); + + PixelReadConverter->SetPrintLevel(PrintLevel); + PixelReadConverter->Print(os); +} -///////////////////////////////////////////////////////////////// +//----------------------------------------------------------------------------- +// Public /** - * \ingroup gdcmFile - * \brief Renvoie la longueur A ALLOUER pour recevoir les pixels de l'image - * \ ou DES images dans le cas d'un multiframe - * \ ATTENTION : il ne s'agit PAS de la longueur du groupe des Pixels - * \ (dans le cas d'images compressees, elle n'a pas de sens). - * - * @param void Rien en entree - * - * @return longueur a allouer + * \brief Get the size of the image data + * + * If the image can be RGB (with a lut or by default), the size + * corresponds to the RGB image + * @return The image size */ +size_t File::GetImageDataSize() +{ + if ( PixelWriteConverter->GetUserData() ) + { + return PixelWriteConverter->GetUserDataSize(); + } + + return PixelReadConverter->GetRGBSize(); +} -size_t gdcmFile::GetImageDataSize(void) { - int nbLignes, nbCol, nbFrames, nb; - string str_nbFrames, str_nb; - // Nombre de Lignes - nbLignes=atoi(gdcmHeader::GetPubElValByNumber(0x0028,0x0010).c_str()); - // Nombre de Colonnes - nbCol =atoi(gdcmHeader::GetPubElValByNumber(0x0028,0x0011).c_str()); - - // Nombre de Frames - str_nbFrames=gdcmHeader::GetPubElValByNumber(0x0028,0x0008); - - if (str_nbFrames == "UNFOUND" ) { - nbFrames = 1; - } else { - nbFrames = atoi(str_nbFrames.c_str() ); - } - - // Nombre de Bits Alloues pour le stockage d'un Pixel - str_nb=gdcmHeader::GetPubElValByNumber(0x0028,0x0100); - - if (str_nb == "UNFOUND" ) { - nb = 16; - } else { - nb = atoi(str_nb.c_str() ); - } - - size_t lgrTotale = nbFrames*nbLignes*nbCol*(nb/8); - return (lgrTotale); - -} - -///////////////////////////////////////////////////////////////// /** - * \ingroup gdcmFile - * \brief amene en mémoire les Pixels d'une image NON COMPRESSEE - * \Aucun test n'est fait pour le moment sur le caractere compresse ou non de l'image - * - * @param rien + * \brief Get the size of the image data + * + * If the image can be RGB by transformation in a LUT, this + * transformation isn't considered + * @return The raw image size + */ +size_t File::GetImageDataRawSize() +{ + if ( PixelWriteConverter->GetUserData() ) + { + return PixelWriteConverter->GetUserDataSize(); + } + + return PixelReadConverter->GetRawSize(); +} + +/** + * \brief - Allocates necessary memory, + * - Reads the pixels from disk (uncompress if necessary), + * - Transforms YBR pixels, if any, into RGB pixels + * - Transforms 3 planes R, G, B, if any, into a single RGB Plane + * - Transforms single Grey plane + 3 Palettes into a RGB Plane + * - Copies the pixel data (image[s]/volume[s]) to newly allocated zone. + * @return Pointer to newly allocated pixel data. + * NULL if alloc fails + */ +uint8_t *File::GetImageData() +{ + if ( PixelWriteConverter->GetUserData() ) + { + return PixelWriteConverter->GetUserData(); + } + + if ( ! GetRaw() ) + { + // If the decompression failed nothing can be done. + return 0; + } + + if ( HeaderInternal->HasLUT() && PixelReadConverter->BuildRGBImage() ) + { + return PixelReadConverter->GetRGB(); + } + else + { + // When no LUT or LUT conversion fails, return the Raw + return PixelReadConverter->GetRaw(); + } +} + +/** + * \brief Allocates necessary memory, + * Transforms YBR pixels (if any) into RGB pixels + * Transforms 3 planes R, G, B (if any) into a single RGB Plane + * Copies the pixel data (image[s]/volume[s]) to newly allocated zone. + * DOES NOT transform Grey plane + 3 Palettes into a RGB Plane + * @return Pointer to newly allocated pixel data. + * \ NULL if alloc fails + */ +uint8_t *File::GetImageDataRaw () +{ + return GetRaw(); +} + +/** + * \brief + * Read the pixels from disk (uncompress if necessary), + * Transforms YBR pixels, if any, into RGB pixels + * Transforms 3 planes R, G, B, if any, into a single RGB Plane + * Transforms single Grey plane + 3 Palettes into a RGB Plane + * Copies at most MaxSize bytes of pixel data to caller allocated + * memory space. + * \warning This function allows people that want to build a volume + * from an image stack *not to* have, first to get the image pixels, + * and then move them to the volume area. + * It's absolutely useless for any VTK user since vtk chooses + * to invert the lines of an image, that is the last line comes first + * (for some axis related reasons?). Hence he will have + * to load the image line by line, starting from the end. + * VTK users have to call GetImageData + * + * @param destination Address (in caller's memory space) at which the + * pixel data should be copied + * @param maxSize Maximum number of bytes to be copied. When MaxSize + * is not sufficient to hold the pixel data the copy is not + * executed (i.e. no partial copy). + * @return On success, the number of bytes actually copied. Zero on + * failure e.g. MaxSize is lower than necessary. + */ +size_t File::GetImageDataIntoVector (void *destination, size_t maxSize) +{ + if ( ! GetRaw() ) + { + // If the decompression failed nothing can be done. + return 0; + } + + if ( HeaderInternal->HasLUT() && PixelReadConverter->BuildRGBImage() ) + { + if ( PixelReadConverter->GetRGBSize() > maxSize ) + { + gdcmVerboseMacro( "Pixel data bigger than caller's expected MaxSize"); + return 0; + } + memcpy( destination, + (void*)PixelReadConverter->GetRGB(), + PixelReadConverter->GetRGBSize() ); + return PixelReadConverter->GetRGBSize(); + } + + // Either no LUT conversion necessary or LUT conversion failed + if ( PixelReadConverter->GetRawSize() > maxSize ) + { + gdcmVerboseMacro( "Pixel data bigger than caller's expected MaxSize"); + return 0; + } + memcpy( destination, + (void*)PixelReadConverter->GetRaw(), + PixelReadConverter->GetRawSize() ); + return PixelReadConverter->GetRawSize(); +} + +/** + * \brief Points the internal pointer to the callers inData + * image representation, BUT WITHOUT COPYING THE DATA. + * 'image' Pixels are presented as C-like 2D arrays : line per line. + * 'volume'Pixels are presented as C-like 3D arrays : plane per plane + * \warning Since the pixels are not copied, it is the caller's responsability + * not to deallocate it's data before gdcm uses them (e.g. with + * the Write() method. + * @param inData user supplied pixel area + * @param expectedSize total image size, in Bytes * - * @return Pointeur sur la zone mémoire contenant les Pixels lus + * @return boolean */ +void File::SetImageData(uint8_t *inData, size_t expectedSize) +{ + SetUserData(inData,expectedSize); +} -void * gdcmFile::GetImageData (void) { - - char* Pixels; - int nbLignes, nbCol; - - int nbFrames, nb, nbu, highBit, signe; - string str_nbFrames, str_nb, str_nbu, str_highBit, str_signe; - - unsigned short int mask = 0xffff; - - // Nombre de Lignes - nbLignes=atoi(GetPubElValByNumber(0x0028,0x0010).c_str()); - // Nombre de Colonnes - nbCol =atoi(GetPubElValByNumber(0x0028,0x0011).c_str()); - - // Nombre de Frames - str_nbFrames=GetPubElValByNumber(0x0028,0x0008); - - - if (str_nbFrames == "UNFOUND" ) { - nbFrames = 1; - } else { - nbFrames = atoi(str_nbFrames.c_str() ); - } - - // Nombre de Bits Alloues - str_nb=GetPubElValByNumber(0x0028,0x0100); - - if (str_nb == "UNFOUND" ) { - nb = 16; - } else { - nb = atoi(str_nb.c_str() ); - } - - // Nombre de Bits Utilises - str_nbu=GetPubElValByNumber(0x0028,0x0101); - - if (str_nbu == "UNFOUND" ) { - nbu = nb; - } else { - nbu = atoi(str_nbu.c_str() ); - } - - // Position du Bit de Poids Fort - str_highBit=GetPubElValByNumber(0x0028,0x0102); - - if (str_highBit == "UNFOUND" ) { - highBit = nb - 1; - } else { - highBit = atoi(str_highBit.c_str() ); - } - - // Signe des Pixels - str_signe=GetPubElValByNumber(0x0028,0x0103); - - if (str_signe == "UNFOUND" ) { - signe = 1; - } else { - signe = atoi(str_signe.c_str() ); - } - - // Longueur en Octets des Pixels a lire - size_t lgrTotale = nbFrames*nbLignes*nbCol*(nb/8); - - //Pixels = (char *) g_malloc(lgrTotale); - Pixels = (char *) malloc(lgrTotale); - - GetPixels(lgrTotale, Pixels); - - // On remet les Octets dans le bon ordre si besoin est - if (nb != 8) { - int _sw = GetSwapCode(); - - _Swap (Pixels, _sw, lgrTotale, nb); // A REMETTRE - } - - // On remet les Bits des Octets dans le bon ordre si besoin est - // - // ATTENTION : Jamais confronté a des pixels stockes sur 32 bits - // avec moins de 32 bits utilises - // et dont le bit de poids fort ne serait pas la ou on l'attend ... - // --> ne marchera pas dans ce cas - if (nbu!=nb){ - mask = mask >> (nb-nbu); - int l=(int)lgrTotale/(nb/8); - unsigned short *deb = (unsigned short *)Pixels; - for(int i=0;i> (nbu-highBit-1)) & mask; - deb ++; - } - } - - printf ("on est sorti\n"); - - // VOIR s'il ne faudrait pas l'affecter à un champ du dcmHeader - - return (Pixels); -} - - -// -// Je laisse le code integral, au cas ça puisse etre reutilise ailleurs -// - -static void _Swap(void* im, int swap, int lgr, int nb) { -guint32 s32; -guint16 fort,faible; -int i; - -if(nb == 16) - - switch(swap) { - case 0: - case 12: - case 1234: - break; - - case 21: - case 3412: - case 2143: - case 4321: - - for(i=0;i>8) - | ((((unsigned short int*)im)[i])<<8); - break; - - default: - printf("valeur de SWAP (16 bits) non autorisee : %d\n", swap); - } - -if( nb == 32 ) - - switch (swap) { - case 0: - case 1234: - break; - - case 4321: - for(i=0;i>16; - fort= (fort>>8) | (fort<<8); - faible=(faible>>8) | (faible<<8); - s32=faible; - ((unsigned long int*)im)[i]=(s32<<16)|fort; - } - break; - - case 2143: - for(i=0;i>16; - fort= (fort>>8) | (fort<<8); - faible=(faible>>8) | (faible<<8); - s32=fort; - ((unsigned long int*)im)[i]=(s32<<16)|faible; - } - break; +/** + * \brief Set the image datas defined by the user + * \warning When writting the file, this datas are get as default datas to write + */ +void File::SetUserData(uint8_t *data, size_t expectedSize) +{ + PixelWriteConverter->SetUserData(data,expectedSize); +} + +/** + * \brief Get the image datas defined by the user + * \warning When writting the file, this datas are get as default data to write + */ +uint8_t *File::GetUserData() +{ + return PixelWriteConverter->GetUserData(); +} + +/** + * \brief Get the image data size defined by the user + * \warning When writting the file, this datas are get as default data to write + */ +size_t File::GetUserDataSize() +{ + return PixelWriteConverter->GetUserDataSize(); +} + +/** + * \brief Get the image datas from the file. + * If a LUT is found, the data are expanded to be RGB + */ +uint8_t *File::GetRGBData() +{ + return PixelReadConverter->GetRGB(); +} + +/** + * \brief Get the image data size from the file. + * If a LUT is found, the data are expanded to be RGB + */ +size_t File::GetRGBDataSize() +{ + return PixelReadConverter->GetRGBSize(); +} + +/** + * \brief Get the image datas from the file. + * If a LUT is found, the datas are not expanded ! + */ +uint8_t *File::GetRawData() +{ + return PixelReadConverter->GetRaw(); +} + +/** + * \brief Get the image data size from the file. + * If a LUT is found, the data are not expanded ! + */ +size_t File::GetRawDataSize() +{ + return PixelReadConverter->GetRawSize(); +} + +/** + * \brief Writes on disk A SINGLE Dicom file + * NO test is performed on processor "Endiannity". + * It's up to the user to call his Reader properly + * @param fileName name of the file to be created + * (any already existing file is over written) + * @return false if write fails + */ + +bool File::WriteRawData(std::string const &fileName) +{ + std::ofstream fp1(fileName.c_str(), std::ios::out | std::ios::binary ); + if (!fp1) + { + gdcmVerboseMacro( "Fail to open (write) file:" << fileName.c_str()); + return false; + } + + if( PixelWriteConverter->GetUserData() ) + { + fp1.write( (char*)PixelWriteConverter->GetUserData(), + PixelWriteConverter->GetUserDataSize() ); + } + else if ( PixelReadConverter->GetRGB() ) + { + fp1.write( (char*)PixelReadConverter->GetRGB(), + PixelReadConverter->GetRGBSize()); + } + else if ( PixelReadConverter->GetRaw() ) + { + fp1.write( (char*)PixelReadConverter->GetRaw(), + PixelReadConverter->GetRawSize()); + } + else + { + gdcmErrorMacro( "Nothing written." ); + } + + fp1.close(); + + return true; +} + +/** + * \brief Writes on disk A SINGLE Dicom file, + * using the Implicit Value Representation convention + * NO test is performed on processor "Endiannity". + * @param fileName name of the file to be created + * (any already existing file is overwritten) + * @return false if write fails + */ + +bool File::WriteDcmImplVR (std::string const &fileName) +{ + SetWriteTypeToDcmImplVR(); + return Write(fileName); +} + +/** +* \brief Writes on disk A SINGLE Dicom file, + * using the Explicit Value Representation convention + * NO test is performed on processor "Endiannity". + * @param fileName name of the file to be created + * (any already existing file is overwritten) + * @return false if write fails + */ + +bool File::WriteDcmExplVR (std::string const &fileName) +{ + SetWriteTypeToDcmExplVR(); + return Write(fileName); +} + +/** + * \brief Writes on disk A SINGLE Dicom file, + * using the ACR-NEMA convention + * NO test is performed on processor "Endiannity". + * (a l'attention des logiciels cliniques + * qui ne prennent en entrée QUE des images ACR ... + * \warning if a DICOM_V3 header is supplied, + * groups < 0x0008 and shadow groups are ignored + * \warning NO TEST is performed on processor "Endiannity". + * @param fileName name of the file to be created + * (any already existing file is overwritten) + * @return false if write fails + */ + +bool File::WriteAcr (std::string const &fileName) +{ + SetWriteTypeToAcr(); + return Write(fileName); +} + +/** + * \brief Writes on disk A SINGLE Dicom file, + * @param fileName name of the file to be created + * (any already existing file is overwritten) + * @return false if write fails + */ +bool File::Write(std::string const &fileName) +{ + switch(WriteType) + { + case ImplicitVR: + SetWriteFileTypeToImplicitVR(); + break; + case ExplicitVR: + SetWriteFileTypeToExplicitVR(); + break; + case ACR: + case ACR_LIBIDO: + SetWriteFileTypeToACR(); + break; + default: + SetWriteFileTypeToExplicitVR(); + } + + // -------------------------------------------------------------- + // Special Patch to allow gdcm to re-write ACR-LibIDO formated images + // + // if recognition code tells us we dealt with a LibIDO image + // we reproduce on disk the switch between lineNumber and columnNumber + // just before writting ... + /// \todo the best trick would be *change* the recognition code + /// but pb expected if user deals with, e.g. COMPLEX images + if( WriteType == ACR_LIBIDO ) + { + SetWriteToLibido(); + } + else + { + SetWriteToNoLibido(); + } + // ----------------- End of Special Patch ---------------- - case 3412: - for(i=0;i>16; - s32=faible; - ((unsigned long int*)im)[i]=(s32<<16)|fort; - } - break; - - default: - printf("valeur de SWAP (32 bits) non autorisee : %d\n", swap); - } -return; + switch(WriteMode) + { + case WMODE_RAW : + SetWriteToRaw(); + break; + case WMODE_RGB : + SetWriteToRGB(); + break; + } + + bool check = CheckWriteIntegrity(); + if(check) + { + check = HeaderInternal->Write(fileName,WriteType); + } + + RestoreWrite(); + RestoreWriteFileType(); + + // -------------------------------------------------------------- + // Special Patch to allow gdcm to re-write ACR-LibIDO formated images + // + // ...and we restore the Header to be Dicom Compliant again + // just after writting + RestoreWriteOfLibido(); + // ----------------- End of Special Patch ---------------- + + return check; +} + +/** + * \brief Accesses an existing DocEntry (i.e. a Dicom Element) + * through it's (group, element) and modifies it's content with + * the given value. + * @param content new value (string) to substitute with + * @param group group number of the Dicom Element to modify + * @param elem element number of the Dicom Element to modify + */ +bool File::SetEntry(std::string const &content, + uint16_t group, uint16_t elem) +{ + return HeaderInternal->SetEntry(content,group,elem); +} + + +/** + * \brief Accesses an existing DocEntry (i.e. a Dicom Element) + * through it's (group, element) and modifies it's content with + * the given value. + * @param content new value (void* -> uint8_t*) to substitute with + * @param lgth new value length + * @param group group number of the Dicom Element to modify + * @param elem element number of the Dicom Element to modify + */ +bool File::SetEntry(uint8_t *content, int lgth, + uint16_t group, uint16_t elem) +{ + return HeaderInternal->SetEntry(content,lgth,group,elem); +} + +/** + * \brief Modifies the value of a given Doc Entry (Dicom Element) + * when it exists. Create it with the given value when unexistant. + * @param content (string) Value to be set + * @param group Group number of the Entry + * @param elem Element number of the Entry + * \return pointer to the modified/created Header Entry (NULL when creation + * failed). + */ +bool File::ReplaceOrCreate(std::string const &content, + uint16_t group, uint16_t elem) +{ + return HeaderInternal->ReplaceOrCreate(content,group,elem) != NULL; +} + +/* + * \brief Modifies the value of a given Header Entry (Dicom Element) + * when it exists. Create it with the given value when unexistant. + * A copy of the binArea is made to be kept in the Document. + * @param binArea (binary) value to be set + * @param group Group number of the Entry + * @param elem Element number of the Entry + * \return pointer to the modified/created Header Entry (NULL when creation + * failed). + */ +bool File::ReplaceOrCreate(uint8_t *binArea, int lgth, + uint16_t group, uint16_t elem) +{ + return HeaderInternal->ReplaceOrCreate(binArea,lgth,group,elem) != NULL; +} + +/** + * \brief Access to the underlying \ref PixelReadConverter RGBA LUT + */ +uint8_t* File::GetLutRGBA() +{ + return PixelReadConverter->GetLutRGBA(); +} + +//----------------------------------------------------------------------------- +// Protected + +/** + * \brief Check the write integrity + * + * The tests made are : + * - verify the size of the image to write with the possible write + * when the user set an image data + * @return true if the check successfulls + */ +bool File::CheckWriteIntegrity() +{ + if(PixelWriteConverter->GetUserData()) + { + int numberBitsAllocated = HeaderInternal->GetBitsAllocated(); + if ( numberBitsAllocated == 0 || numberBitsAllocated == 12 ) + { + numberBitsAllocated = 16; + } + + size_t decSize = HeaderInternal->GetXSize() + * HeaderInternal->GetYSize() + * HeaderInternal->GetZSize() + * ( numberBitsAllocated / 8 ) + * HeaderInternal->GetSamplesPerPixel(); + size_t rgbSize = decSize; + if( HeaderInternal->HasLUT() ) + rgbSize = decSize * 3; + + switch(WriteMode) + { + case WMODE_RAW : + if( decSize!=PixelWriteConverter->GetUserDataSize() ) + { + gdcmVerboseMacro( "Data size is incorrect (Raw)" << decSize + << " / " << PixelWriteConverter->GetUserDataSize() ); + return false; + } + break; + case WMODE_RGB : + if( rgbSize!=PixelWriteConverter->GetUserDataSize() ) + { + gdcmVerboseMacro( "Data size is incorrect (RGB)" << decSize + << " / " << PixelWriteConverter->GetUserDataSize() ); + return false; + } + break; + } + } + + return true; +} + +void File::SetWriteToRaw() +{ + if( HeaderInternal->GetNumberOfScalarComponents() == 3 + && !HeaderInternal->HasLUT()) + { + SetWriteToRGB(); + } + else + { + ValEntry *photInt = CopyValEntry(0x0028,0x0004); + if(HeaderInternal->HasLUT()) + { + photInt->SetValue("PALETTE COLOR "); + } + else + { + photInt->SetValue("MONOCHROME1 "); + } + + PixelWriteConverter->SetReadData(PixelReadConverter->GetRaw(), + PixelReadConverter->GetRawSize()); + + BinEntry *pixel = + CopyBinEntry(GetHeader()->GetGrPixel(),GetHeader()->GetNumPixel()); + pixel->SetValue(GDCM_BINLOADED); + pixel->SetBinArea(PixelWriteConverter->GetData(),false); + pixel->SetLength(PixelWriteConverter->GetDataSize()); + + Archive->Push(photInt); + Archive->Push(pixel); + } +} + +void File::SetWriteToRGB() +{ + if(HeaderInternal->GetNumberOfScalarComponents()==3) + { + PixelReadConverter->BuildRGBImage(); + + ValEntry *spp = CopyValEntry(0x0028,0x0002); + spp->SetValue("3 "); + + ValEntry *planConfig = CopyValEntry(0x0028,0x0006); + planConfig->SetValue("0 "); + + ValEntry *photInt = CopyValEntry(0x0028,0x0004); + photInt->SetValue("RGB "); + + if(PixelReadConverter->GetRGB()) + { + PixelWriteConverter->SetReadData(PixelReadConverter->GetRGB(), + PixelReadConverter->GetRGBSize()); + } + else // Raw data + { + PixelWriteConverter->SetReadData(PixelReadConverter->GetRaw(), + PixelReadConverter->GetRawSize()); + } + + BinEntry *pixel = + CopyBinEntry(GetHeader()->GetGrPixel(),GetHeader()->GetNumPixel()); + pixel->SetValue(GDCM_BINLOADED); + pixel->SetBinArea(PixelWriteConverter->GetData(),false); + pixel->SetLength(PixelWriteConverter->GetDataSize()); + + Archive->Push(spp); + Archive->Push(planConfig); + Archive->Push(photInt); + Archive->Push(pixel); + + // Remove any LUT + Archive->Push(0x0028,0x1101); + Archive->Push(0x0028,0x1102); + Archive->Push(0x0028,0x1103); + Archive->Push(0x0028,0x1201); + Archive->Push(0x0028,0x1202); + Archive->Push(0x0028,0x1203); + + // For old ACR-NEMA + // Thus, we have a RGB image and the bits allocated = 24 and + // samples per pixels = 1 (in the read file) + if(HeaderInternal->GetBitsAllocated()==24) + { + ValEntry *bitsAlloc = CopyValEntry(0x0028,0x0100); + bitsAlloc->SetValue("8 "); + + ValEntry *bitsStored = CopyValEntry(0x0028,0x0101); + bitsStored->SetValue("8 "); + + ValEntry *highBit = CopyValEntry(0x0028,0x0102); + highBit->SetValue("7 "); + + Archive->Push(bitsAlloc); + Archive->Push(bitsStored); + Archive->Push(highBit); + } + } + else + { + SetWriteToRaw(); + } +} + +void File::RestoreWrite() +{ + Archive->Restore(0x0028,0x0002); + Archive->Restore(0x0028,0x0004); + Archive->Restore(0x0028,0x0006); + Archive->Restore(GetHeader()->GetGrPixel(),GetHeader()->GetNumPixel()); + + // For old ACR-NEMA (24 bits problem) + Archive->Restore(0x0028,0x0100); + Archive->Restore(0x0028,0x0101); + Archive->Restore(0x0028,0x0102); + + // For the LUT + Archive->Restore(0x0028,0x1101); + Archive->Restore(0x0028,0x1102); + Archive->Restore(0x0028,0x1103); + Archive->Restore(0x0028,0x1201); + Archive->Restore(0x0028,0x1202); + Archive->Restore(0x0028,0x1203); +} + +void File::SetWriteFileTypeToACR() +{ + Archive->Push(0x0002,0x0010); +} + +void File::SetWriteFileTypeToExplicitVR() +{ + std::string ts = Util::DicomString( + Global::GetTS()->GetSpecialTransferSyntax(TS::ExplicitVRLittleEndian) ); + + ValEntry *tss = CopyValEntry(0x0002,0x0010); + tss->SetValue(ts); + + Archive->Push(tss); +} + +void File::SetWriteFileTypeToImplicitVR() +{ + std::string ts = Util::DicomString( + Global::GetTS()->GetSpecialTransferSyntax(TS::ImplicitVRLittleEndian) ); + + ValEntry *tss = CopyValEntry(0x0002,0x0010); + tss->SetValue(ts); + + Archive->Push(tss); +} + +void File::RestoreWriteFileType() +{ + Archive->Restore(0x0002,0x0010); +} + +void File::SetWriteToLibido() +{ + ValEntry *oldRow = dynamic_cast + (HeaderInternal->GetDocEntry(0x0028, 0x0010)); + ValEntry *oldCol = dynamic_cast + (HeaderInternal->GetDocEntry(0x0028, 0x0011)); + + if( oldRow && oldCol ) + { + std::string rows, columns; + + ValEntry *newRow=new ValEntry(oldRow->GetDictEntry()); + ValEntry *newCol=new ValEntry(oldCol->GetDictEntry()); + + newRow->Copy(oldCol); + newCol->Copy(oldRow); + + newRow->SetValue(oldCol->GetValue()); + newCol->SetValue(oldRow->GetValue()); + + Archive->Push(newRow); + Archive->Push(newCol); + } + + ValEntry *libidoCode = CopyValEntry(0x0008,0x0010); + libidoCode->SetValue("ACRNEMA_LIBIDO_1.1"); + Archive->Push(libidoCode); +} + +void File::SetWriteToNoLibido() +{ + ValEntry *recCode = dynamic_cast + (HeaderInternal->GetDocEntry(0x0008,0x0010)); + if( recCode ) + { + if( recCode->GetValue() == "ACRNEMA_LIBIDO_1.1" ) + { + ValEntry *libidoCode = CopyValEntry(0x0008,0x0010); + libidoCode->SetValue(""); + Archive->Push(libidoCode); + } + } +} + +void File::RestoreWriteOfLibido() +{ + Archive->Restore(0x0028,0x0010); + Archive->Restore(0x0028,0x0011); + Archive->Restore(0x0008,0x0010); +} + +ValEntry *File::CopyValEntry(uint16_t group,uint16_t elem) +{ + DocEntry *oldE = HeaderInternal->GetDocEntry(group, elem); + ValEntry *newE; + + if(oldE) + { + newE = new ValEntry(oldE->GetDictEntry()); + newE->Copy(oldE); + } + else + { + newE = GetHeader()->NewValEntry(group,elem); + } + + return newE; +} + +BinEntry *File::CopyBinEntry(uint16_t group,uint16_t elem) +{ + DocEntry *oldE = HeaderInternal->GetDocEntry(group, elem); + BinEntry *newE; + + if(oldE) + { + newE = new BinEntry(oldE->GetDictEntry()); + newE->Copy(oldE); + } + else + { + newE = GetHeader()->NewBinEntry(group,elem); + } + + return newE; +} + +//----------------------------------------------------------------------------- +// Protected +/** + * \brief Factorization for various forms of constructors. + */ +void File::Initialise() +{ + WriteMode = WMODE_RAW; + WriteType = ExplicitVR; + + PixelReadConverter = new PixelReadConvert; + PixelWriteConverter = new PixelWriteConvert; + Archive = new DocEntryArchive( HeaderInternal ); + + if ( HeaderInternal->IsReadable() ) + { + PixelReadConverter->GrabInformationsFromHeader( HeaderInternal ); + } +} + +uint8_t *File::GetRaw() +{ + uint8_t *raw = PixelReadConverter->GetRaw(); + if ( ! raw ) + { + // The Raw image migth not be loaded yet: + std::ifstream *fp = HeaderInternal->OpenFile(); + PixelReadConverter->ReadAndDecompressPixelData( fp ); + if(fp) + HeaderInternal->CloseFile(); + + raw = PixelReadConverter->GetRaw(); + if ( ! raw ) + { + gdcmVerboseMacro( "Read/decompress of pixel data apparently went wrong."); + return 0; + } + } + + return raw; } +//----------------------------------------------------------------------------- +// Private +//----------------------------------------------------------------------------- +} // end namespace gdcm