Program: gdcm
Module: $RCSfile: gdcmFile.cxx,v $
Language: C++
- Date: $Date: 2004/09/27 08:39:07 $
- Version: $Revision: 1.131 $
+ Date: $Date: 2004/09/29 17:33:17 $
+ Version: $Revision: 1.132 $
Copyright (c) CREATIS (Centre de Recherche et d'Applications en Traitement de
l'Image). All rights reserved. See Doc/License.txt or
//-------------------------------------------------------------------------
// Constructor / Destructor
/**
- * \ingroup gdcmFile
* \brief Constructor dedicated to deal with the *pixels* area of a ACR/DICOMV3
* file (gdcmHeader only deals with the ... header)
* Opens (in read only and when possible) an existing file and checks
{
Header = header;
SelfHeader = false;
- SaveInitialValues();
+ Initialise();
}
/**
- * \ingroup gdcmFile
* \brief Constructor dedicated to deal with the *pixels* area of a ACR/DICOMV3
* file (gdcmHeader only deals with the ... header)
* Opens (in read only and when possible) an existing file and checks
{
Header = new gdcmHeader( filename );
SelfHeader = true;
+ Initialise();
+}
+
+/**
+ * \brief Factorization for various forms of constructors.
+ */
+void gdcmFile::Initialise()
+{
+ if ( Header->IsReadable() )
+ {
+ ImageDataSizeRaw = ComputeDecompressedPixelDataSizeFromHeader();
+ if ( Header->HasLUT() )
+ {
+ ImageDataSize = 3 * ImageDataSizeRaw;
+ }
+ else
+ {
+ ImageDataSize = ImageDataSizeRaw;
+ }
+ }
SaveInitialValues();
}
/**
- * \ingroup gdcmFile
* \brief canonical destructor
* \note If the gdcmHeader was created by the gdcmFile constructor,
* it is destroyed by the gdcmFile
}
/**
- * \ingroup gdcmFile
* \brief Sets some initial values for the Constructor
* \warning not end user intended
*/
if ( Header->IsReadable() )
{
- SetPixelDataSizeFromHeader();
-
// the following values *may* be modified
// by gdcmFile::GetImageDataIntoVectorRaw
// we save their initial value.
}
/**
- * \ingroup gdcmFile
* \brief restores some initial values
* \warning not end user intended
*/
}
/**
- * \ingroup gdcmFile
* \brief delete initial values (il they were saved)
* of InitialLutDescriptors and InitialLutData
*/
delete InitialBlueLUTData;
}
-/**
- * \ingroup gdcmFile
- * \brief drop palette related initial values -if any-
- * (InitialLutDescriptors and InitialLutData)
- * out of header, to make it consistent with the Pixel_Data
- * as it's loaded in memory
- */
-
-//FIXME : Should be nice, if we could let it here.
-// will be moved to PixelData class
-// Now, the job is done in gdcmHeader.cxx
-
- /*
-void gdcmFile::DropInitialValues()
-{
- gdcmHeader* h=GetHeader();
- if ( GetEntryByNumber(0x0028,0x0002).c_str()[0] == '3' )
- {
- // if SamplesPerPixel = 3, sure we don't need any LUT !
- // Drop 0028|1101, 0028|1102, 0028|1103
- // Drop 0028|1201, 0028|1202, 0028|1203
-
- gdcmDocEntry* e = h->GetDocEntryByNumber(0x0028,0x01101);
- if (e)
- {
- h->RemoveEntryNoDestroy(e);
- }
- e = h->GetDocEntryByNumber(0x0028,0x1102);
- if (e)
- {
- h->RemoveEntryNoDestroy(e);
- }
- e = h->GetDocEntryByNumber(0x0028,0x1103);
- if (e)
- {
- h->RemoveEntryNoDestroy(e);
- }
- e = h->GetDocEntryByNumber(0x0028,0x01201);
- if (e)
- {
- h->RemoveEntryNoDestroy(e);
- }
- e = h->GetDocEntryByNumber(0x0028,0x1202);
- if (e)
- {
- h->RemoveEntryNoDestroy(e);
- }
- e = h->GetDocEntryByNumber(0x0028,0x1203);
- if (e)
- {
- h->RemoveEntryNoDestroy(e);
- }
- }
-}
-*/
-
//-----------------------------------------------------------------------------
// Print
// Public
/**
- * \ingroup gdcmFile
* \brief computes the length (in bytes) we must ALLOCATE to receive the
* image(s) pixels (multiframes taken into account)
* \warning : it is NOT the group 7FE0 length
* (no interest for compressed images).
- * \warning : not end user intended ?
*/
-void gdcmFile::SetPixelDataSizeFromHeader()
+int gdcmFile::ComputeDecompressedPixelDataSizeFromHeader()
{
// see PS 3.3-2003 : C.7.6.3.2.1
//
// 0028|1203 [US] [Blue Palette Color Lookup Table Data]
// Number of "Bits Allocated"
- int nb;
- std::string str_nb = Header->GetEntryByNumber(0x0028,0x0100);
-
- if ( str_nb == GDCM_UNFOUND )
+ int numberBitsAllocated = Header->GetBitsAllocated();
+ if ( ( numberBitsAllocated == 0 ) || ( numberBitsAllocated == 12 ) )
{
- nb = 16;
+ numberBitsAllocated = 16;
}
- else
- {
- nb = atoi( str_nb.c_str() );
- if (nb == 12)
- {
- nb =16;
- }
- }
- ImageDataSize =
- ImageDataSizeRaw = Header->GetXSize() * Header->GetYSize()
- * Header->GetZSize() * (nb/8) * Header->GetSamplesPerPixel();
- std::string str_PhotometricInterpretation =
- Header->GetEntryByNumber(0x0028,0x0004);
-
- // if ( str_PhotometricInterpretation == "PALETTE COLOR " ),
- // pb when undealt Segmented Palette Color
+
+ int DecompressedSize = Header->GetXSize()
+ * Header->GetYSize()
+ * Header->GetZSize()
+ * ( numberBitsAllocated / 8 )
+ * Header->GetSamplesPerPixel();
- if ( Header->HasLUT() )
- {
- ImageDataSize *= 3;
- }
+ return DecompressedSize;
}
/**
- * \ingroup gdcmFile
* \brief - Allocates necessary memory,
* - Reads the pixels from disk (uncompress if necessary),
* - Transforms YBR pixels, if any, into RGB pixels
}
/**
- * \ingroup gdcmFile
* \brief
* Read the pixels from disk (uncompress if necessary),
* Transforms YBR pixels, if any, into RGB pixels
}
/**
- * \ingroup gdcmFile
* \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
}
/**
- * \ingroup gdcmFile
* \brief Copies at most MaxSize bytes of pixel data to caller's
* memory space.
* \warning This function was designed to avoid people that want to build
*/
size_t gdcmFile::GetImageDataIntoVectorRaw (void* destination, size_t maxSize)
{
- int nb, nbu, highBit, sign;
-
// we save the initial values of the following
// in order to be able to restore the header in a disk-consistent state
// (if user asks twice to get the pixels from disk)
ReadPixelData( destination );
// Number of Bits Allocated for storing a Pixel
- std::string str_nb = Header->GetEntryByNumber(0x0028,0x0100);
- if ( str_nb == GDCM_UNFOUND )
+ int numberBitsAllocated = Header->GetBitsAllocated();
+ if ( numberBitsAllocated == 0 )
{
- nb = 16;
- }
- else
- {
- nb = atoi( str_nb.c_str() );
- // FIXME
- // From reading SetPixelDataSizeFromHeader, it seems 12 should be treated
- // separately, correct ?
+ numberBitsAllocated = 16;
}
// Number of Bits actually used
- std::string str_nbu = Header->GetEntryByNumber(0x0028,0x0101);
- if ( str_nbu == GDCM_UNFOUND )
+ int numberBitsStored = Header->GetBitsStored();
+ if ( numberBitsStored == 0 )
{
- nbu = nb;
- }
- else
- {
- nbu = atoi( str_nbu.c_str() );
+ numberBitsStored = numberBitsAllocated;
}
// High Bit Position
- std::string str_highBit = Header->GetEntryByNumber(0x0028,0x0102);
- if ( str_highBit == GDCM_UNFOUND )
+ int highBitPosition = Header->GetHighBitPosition();
+ if ( highBitPosition == 0 )
{
- highBit = nb - 1;
+ highBitPosition = numberBitsAllocated - 1;
}
- else
- {
- highBit = atoi( str_highBit.c_str() );
- }
- // Pixel sign
- // 0 = Unsigned
- // 1 = Signed
- std::string str_sign = Header->GetEntryByNumber(0x0028,0x0103);
- if ( str_sign == GDCM_UNFOUND )
- {
- sign = 0; // default is unsigned
- }
- else
- {
- sign = atoi( str_sign.c_str() );
- }
+ bool signedPixel = Header->IsSignedPixelData();
- // re arange bytes inside the integer (processor endianity)
- if ( nb != 8 )
+// SPLIT ME
+////////////////////////////////////////////////////////
+// ENDIANITY SECTION: re-arange bytes inside the integer
+ if ( numberBitsAllocated != 8 )
{
- SwapZone(destination, Header->GetSwapCode(), ImageDataSize, nb);
+ SwapZone( destination, Header->GetSwapCode(), ImageDataSize,
+ numberBitsAllocated );
}
// to avoid pb with some xmedcon breakers images
- if ( nb == 16 && nbu < nb && sign == 0)
+ if ( ( numberBitsAllocated == 16 )
+ && ( numberBitsStored < numberBitsAllocated )
+ && ( ! signedPixel ) )
{
- int l = (int)(ImageDataSize / (nb/8));
+ int l = (int)(ImageDataSize / (numberBitsAllocated/8));
uint16_t *deb = (uint16_t *)destination;
for(int i = 0; i<l; i++)
{
}
}
- // re arange bits inside the bytes
- if ( nbu != nb )
+// SPLIT ME
+//////////////////////////////////
+// re arange bits inside the bytes
+ if ( numberBitsStored != numberBitsAllocated )
{
- int l = (int)(ImageDataSize / (nb/8));
- if ( nb == 16 )
+ int l = (int)(ImageDataSize / (numberBitsAllocated/8));
+ if ( numberBitsAllocated == 16 )
{
uint16_t mask = 0xffff;
- mask = mask >> (nb-nbu);
+ mask = mask >> ( numberBitsAllocated - numberBitsStored );
uint16_t *deb = (uint16_t *)destination;
for(int i = 0; i<l; i++)
{
- *deb = (*deb >> (nbu - highBit - 1)) & mask;
+ *deb = (*deb >> (numberBitsStored - highBitPosition - 1)) & mask;
deb++;
}
}
- else if ( nb == 32 )
+ else if ( numberBitsAllocated == 32 )
{
uint32_t mask = 0xffffffff;
- mask = mask >> (nb - nbu);
+ mask = mask >> ( numberBitsAllocated - numberBitsStored );
uint32_t *deb = (uint32_t *)destination;
for(int i = 0; i<l; i++)
{
- *deb = (*deb >> (nbu - highBit - 1)) & mask;
+ *deb = (*deb >> (numberBitsStored - highBitPosition - 1)) & mask;
deb++;
}
}
return 0;
}
}
-/// \todo
-/// DO NOT remove this code commented out.
-/// Nobody knows what's expecting you ...
-/// Just to 'see' what was actually read on disk :-(
-///
-/// FILE* f2;
-/// f2 = fopen("SpuriousFile.RAW","wb");
-/// fwrite(destination,ImageDataSize,1,f2);
-/// fclose(f2);
-
- // Deal with the color
- // -------------------
-
- std::string str_PhotometricInterpretation =
- Header->GetEntryByNumber(0x0028,0x0004);
- if ( str_PhotometricInterpretation == "MONOCHROME1 "
- || str_PhotometricInterpretation == "MONOCHROME2 " )
+#ifdef GDCM_DEBUG
+ FILE* DebugFile;
+ DebugFile = fopen( "SpuriousFile.RAW", "wb" );
+ fwrite( PixelConvertor.GetUncompressed(),
+ PixelConvertor.GetUncompressedsSize(),
+ 1, DebugFile );
+ fclose( DebugFile );
+#endif //GDCM_DEBUG
+
+// SPLIT ME
+//////////////////////////////////
+// Deal with the color
+
+ // Monochrome pictures don't require color intervention
+ if ( Header->IsMonochrome() )
{
return ImageDataSize;
}
// Whatever Planar Configuration is,
// "PALETTE COLOR " implies that we deal with the palette.
- if ( str_PhotometricInterpretation == "PALETTE COLOR ")
+ if ( Header->IsPaletteColor() )
{
planConf = 2;
}
// Pixels are already RGB
break;
case 1:
- if (str_PhotometricInterpretation == "YBR_FULL")
+ if ( Header->IsYBRFull() )
{
// Warning : YBR_FULL_422 acts as RGB
// : we need to make RGB Pixels from Planes Y,cB,cR
}
/**
- * \ingroup gdcmFile
- * \brief performs a shalow copy (not a deep copy) of the user given
- * pixel area.
- * '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 user is kindly requested NOT TO 'free' the Pixel area
+ * \brief Points the internal Pixel_Data 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
*
}
/**
- * \ingroup gdcmFile
* \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
}
/**
- * \ingroup gdcmFile
* \brief Writes on disk A SINGLE Dicom file,
* using the Implicit Value Representation convention
* NO test is performed on processor "Endiannity".
}
/**
- * \ingroup gdcmFile
* \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
}
/**
- * \ingroup gdcmFile
* \brief Writes on disk A SINGLE Dicom file,
* using the ACR-NEMA convention
* NO test is performed on processor "Endiannity".
//-----------------------------------------------------------------------------
// Protected
/**
- * \ingroup gdcmFile
* \brief NOT a end user inteded function
* (used by WriteDcmExplVR, WriteDcmImplVR, WriteAcr, etc)
* @param fileName name of the file to be created
//-----------------------------------------------------------------------------
// Private
/**
- * \ingroup gdcmFile
* \brief Swap the bytes, according to swap code.
* \warning not end user intended
* @param im area to deal with
}
/**
- * \ingroup gdcmFile
* \brief Read pixel data from disk (optionaly decompressing) into the
* caller specified memory location.
* @param destination where the pixel data should be stored.
git://git.creatis.insa-lyon.fr / gdcm.git / blobdiff