Program: gdcm
Module: $RCSfile: gdcmPixelConvert.cxx,v $
Language: C++
- Date: $Date: 2004/10/14 22:35:02 $
- Version: $Revision: 1.13 $
+ Date: $Date: 2004/10/15 10:43:28 $
+ Version: $Revision: 1.14 $
Copyright (c) CREATIS (Centre de Recherche et d'Applications en Traitement de
l'Image). All rights reserved. See Doc/License.txt or
* \brief Read from file a 12 bits per pixel image and uncompress it
* into a 16 bits per pixel image.
*/
-void PixelConvert::ReadAndDecompress12BitsTo16Bits(
- uint8_t* pixelZone,
- FILE* filePtr)
+void PixelConvert::ReadAndDecompress12BitsTo16Bits( FILE* fp )
throw ( FormatError )
{
int nbPixels = XSize * YSize;
- uint16_t* destination = (uint16_t*)pixelZone;
+ uint16_t* localDecompres = (uint16_t*)Decompressed;
for( int p = 0; p < nbPixels; p += 2 )
{
uint8_t b0, b1, b2;
size_t ItemRead;
- ItemRead = fread( &b0, 1, 1, filePtr);
+ ItemRead = fread( &b0, 1, 1, fp );
if ( ItemRead != 1 )
{
- throw FormatError( "File::ReadAndDecompress12BitsTo16Bits()",
+ throw FormatError( "PixelConvert::ReadAndDecompress12BitsTo16Bits()",
"Unfound first block" );
}
- ItemRead = fread( &b1, 1, 1, filePtr);
+ ItemRead = fread( &b1, 1, 1, fp );
if ( ItemRead != 1 )
{
- throw FormatError( "File::ReadAndDecompress12BitsTo16Bits()",
+ throw FormatError( "PixelConvert::ReadAndDecompress12BitsTo16Bits()",
"Unfound second block" );
}
- ItemRead = fread( &b2, 1, 1, filePtr);
+ ItemRead = fread( &b2, 1, 1, fp );
if ( ItemRead != 1 )
{
- throw FormatError( "File::ReadAndDecompress12BitsTo16Bits()",
+ throw FormatError( "PixelConvert::ReadAndDecompress12BitsTo16Bits()",
"Unfound second block" );
}
//
// 2 pixels 12bit = [0xABCDEF]
// 2 pixels 16bit = [0x0ABD] + [0x0FCE]
- // A B D
- *destination++ = ((b0 >> 4) << 8) + ((b0 & 0x0f) << 4) + (b1 & 0x0f);
- // F C E
- *destination++ = ((b2 & 0x0f) << 8) + ((b1 >> 4) << 4) + (b2 >> 4);
+ // A B D
+ *localDecompres++ = ((b0 >> 4) << 8) + ((b0 & 0x0f) << 4) + (b1 & 0x0f);
+ // F C E
+ *localDecompres++ = ((b2 & 0x0f) << 8) + ((b1 >> 4) << 4) + (b2 >> 4);
/// \todo JPR Troubles expected on Big-Endian processors ?
}
/**
* \brief Try to deal with RLE 16 Bits.
* We assume the RLE has allready been parsed and loaded in
- * Uncompressed (through \ref ReadAndDecompressJPEGFile ).
+ * Decompressed (through \ref ReadAndDecompressJPEGFile ).
* We here need to make 16 Bits Pixels from Low Byte and
* High Byte 'Planes'...(for what it may mean)
* @return Boolean
*/
-bool PixelConvert::UncompressRLE16BitsFromRLE8Bits(
- int NumberOfFrames,
- uint8_t* fixMemUncompressed )
+bool PixelConvert::DecompressRLE16BitsFromRLE8Bits( int NumberOfFrames )
{
size_t PixelNumber = XSize * YSize;
- size_t fixMemUncompressedSize = XSize * YSize * NumberOfFrames;
+ size_t uncompressedSize = XSize * YSize * NumberOfFrames;
- // We assumed Uncompressed contains the decoded RLE pixels but as
+ // We assumed Decompressed contains the decoded RLE pixels but as
// 8 bits per pixel. In order to convert those pixels to 16 bits
- // per pixel we cannot work in place within Uncompressed and hence
- // we copy Uncompressed in a safe place, say OldUncompressed.
+ // per pixel we cannot work in place within Decompressed and hence
+ // we copy it in a safe place, say copyDecompressed.
- uint8_t* OldUncompressed = new uint8_t[ fixMemUncompressedSize * 2 ];
- memmove( OldUncompressed, fixMemUncompressed, fixMemUncompressedSize * 2);
+ uint8_t* copyDecompressed = new uint8_t[ uncompressedSize * 2 ];
+ memmove( copyDecompressed, Decompressed, uncompressedSize * 2 );
- uint8_t* x = fixMemUncompressed;
- uint8_t* a = OldUncompressed;
+ uint8_t* x = Decompressed;
+ uint8_t* a = copyDecompressed;
uint8_t* b = a + PixelNumber;
for ( int i = 0; i < NumberOfFrames; i++ )
}
}
- delete[] OldUncompressed;
+ delete[] copyDecompressed;
/// \todo check that operator new []didn't fail, and sometimes return false
return true;
/**
* \brief Implementation of the RLE decoding algorithm for uncompressing
* a RLE fragment. [refer to PS 3.5-2003, section G.3.2 p 86]
+ * @param subDecompressed Sub region of \ref Decompressed where the de
+ * decoded fragment should be placed.
+ * @param fragmentSize The length of the binary fragment as found on the disk.
+ * @param uncompressedSegmentSize The expected length of the fragment ONCE
+ * decompressed.
+ * @param fp File Pointer: on entry the position should be the one of
+ * the fragment to be decoded.
*/
-bool PixelConvert::ReadAndUncompressRLEFragment( uint8_t* decodedZone,
- long fragmentSize,
- long uncompressedSegmentSize,
- FILE* fp )
+bool PixelConvert::ReadAndDecompressRLEFragment( uint8_t* subDecompressed,
+ long fragmentSize,
+ long uncompressedSegmentSize,
+ FILE* fp )
{
int8_t count;
long numberOfOutputBytes = 0;
// signed integer of width N is 2^(N-1) - 1, which for int8_t
// is 127].
{
- fread( decodedZone, count + 1, 1, fp);
- numberOfReadBytes += count + 1;
- decodedZone += count + 1;
+ fread( subDecompressed, count + 1, 1, fp);
+ numberOfReadBytes += count + 1;
+ subDecompressed += count + 1;
numberOfOutputBytes += count + 1;
}
else
numberOfReadBytes += 1;
for( int i = 0; i < -count + 1; i++ )
{
- decodedZone[i] = newByte;
+ subDecompressed[i] = newByte;
}
- decodedZone += -count + 1;
+ subDecompressed += -count + 1;
numberOfOutputBytes += -count + 1;
}
}
if ( numberOfReadBytes > fragmentSize )
{
- dbg.Verbose(0, "File::gdcm_read_RLE_fragment: we read more "
- "bytes than the segment size.");
+ dbg.Verbose(0, "PixelConvert::ReadAndDecompressRLEFragment: we "
+ "read more bytes than the segment size.");
return false;
}
}
* \brief Reads from disk the Pixel Data of 'Run Length Encoded'
* Dicom encapsulated file and uncompress it.
* @param fp already open File Pointer
- * @param image_buffer destination Address (in caller's memory space)
* at which the pixel data should be copied
* @return Boolean
*/
-bool PixelConvert::ReadAndDecompressRLEFile(
- void* image_buffer,
- FILE* fp )
+bool PixelConvert::ReadAndDecompressRLEFile( FILE* fp )
{
- uint8_t* im = (uint8_t*)image_buffer;
- long uncompressedSegmentSize = XSize * YSize;
+ uint8_t* subDecompressed = Decompressed;
+ long decompressedSegmentSize = XSize * YSize;
// Loop on the frame[s]
for( RLEFramesInfo::RLEFrameList::iterator
for( int k = 1; k <= (*it)->NumberFragments; k++ )
{
fseek( fp, (*it)->Offset[k] ,SEEK_SET );
- (void)PixelConvert::ReadAndUncompressRLEFragment(
- (uint8_t*) im, (*it)->Length[k],
- uncompressedSegmentSize, fp );
- im += uncompressedSegmentSize;
+ (void)ReadAndDecompressRLEFragment( subDecompressed,
+ (*it)->Length[k],
+ decompressedSegmentSize,
+ fp );
+ subDecompressed += decompressedSegmentSize;
}
}
if ( BitsAllocated == 16 )
{
// Try to deal with RLE 16 Bits
- (void)UncompressRLE16BitsFromRLE8Bits( ZSize,
- (uint8_t*) image_buffer);
+ (void)DecompressRLE16BitsFromRLE8Bits( ZSize );
}
return true;
}
/**
- * \brief Swap the bytes, according to swap code.
- * \warning not end user intended
- * @param im area to deal with
+ * \brief Swap the bytes, according to \ref SwapCode.
*/
-void PixelConvert::SwapZone( uint8_t* im )
+void PixelConvert::ConvertSwapZone()
{
unsigned int i;
if( BitsAllocated == 16 )
{
- uint16_t* im16 = (uint16_t*)im;
+ uint16_t* im16 = (uint16_t*)Decompressed;
switch( SwapCode )
{
case 0:
}
break;
default:
- dbg.Verbose( 0, "PixelConvert::SwapZone: SwapCode value "
+ dbg.Verbose( 0, "PixelConvert::ConvertSwapZone: SwapCode value "
"(16 bits) not allowed." );
}
}
else if( BitsAllocated == 32 )
{
uint32_t s32;
- uint16_t fort, faible;
- uint32_t* im32 = (uint32_t*)im;
+ uint16_t high;
+ uint16_t low;
+ uint32_t* im32 = (uint32_t*)Decompressed;
switch ( SwapCode )
{
case 0:
case 4321:
for( i = 0; i < DecompressedSize / 4; i++ )
{
- faible = im32[i] & 0x0000ffff; // 4321
- fort = im32[i] >> 16;
- fort = ( fort >> 8 ) | ( fort << 8 );
- faible = ( faible >> 8 ) | ( faible << 8);
- s32 = faible;
- im32[i] = ( s32 << 16 ) | fort;
+ low = im32[i] & 0x0000ffff; // 4321
+ high = im32[i] >> 16;
+ high = ( high >> 8 ) | ( high << 8 );
+ low = ( low >> 8 ) | ( low << 8 );
+ s32 = low;
+ im32[i] = ( s32 << 16 ) | high;
}
break;
case 2143:
for( i = 0; i < DecompressedSize / 4; i++ )
{
- faible = im32[i] & 0x0000ffff; // 2143
- fort = im32[i] >> 16;
- fort = ( fort >> 8 ) | ( fort << 8 );
- faible = ( faible >> 8) | ( faible << 8);
- s32 = fort;
- im32[i] = ( s32 << 16 ) | faible;
+ low = im32[i] & 0x0000ffff; // 2143
+ high = im32[i] >> 16;
+ high = ( high >> 8 ) | ( high << 8 );
+ low = ( low >> 8 ) | ( low << 8 );
+ s32 = high;
+ im32[i] = ( s32 << 16 ) | low;
}
break;
case 3412:
for( i = 0; i < DecompressedSize / 4; i++ )
{
- faible = im32[i] & 0x0000ffff; // 3412
- fort = im32[i] >> 16;
- s32 = faible;
- im32[i] = ( s32 << 16 ) | fort;
+ low = im32[i] & 0x0000ffff; // 3412
+ high = im32[i] >> 16;
+ s32 = low;
+ im32[i] = ( s32 << 16 ) | high;
}
break;
default:
- dbg.Verbose( 0, "PixelConvert::SwapZone: SwapCode value "
+ dbg.Verbose( 0, "PixelConvert::ConvertSwapZone: SwapCode value "
"(32 bits) not allowed." );
}
}
/**
* \brief Deal with endianity i.e. re-arange bytes inside the integer
*/
-void PixelConvert::ReorderEndianity( uint8_t* pixelZone )
+void PixelConvert::ConvertReorderEndianity()
{
if ( BitsAllocated != 8 )
{
- SwapZone( pixelZone );
+ ConvertSwapZone();
}
// Special kludge in order to deal with xmedcon broken images:
&& ( ! PixelSign ) )
{
int l = (int)( DecompressedSize / ( BitsAllocated / 8 ) );
- uint16_t *deb = (uint16_t *)pixelZone;
+ uint16_t *deb = (uint16_t *)Decompressed;
for(int i = 0; i<l; i++)
{
if( *deb == 0xffff )
/**
* \brief Reads from disk the Pixel Data of JPEG Dicom encapsulated
& file and uncompress it.
- * @param fp already open File Pointer
- * @param destination Where decompressed fragments should end up
+ * @param fp File Pointer
* @return Boolean
*/
-bool PixelConvert::ReadAndDecompressJPEGFile(
- uint8_t* destination,
- FILE* fp )
+bool PixelConvert::ReadAndDecompressJPEGFile( FILE* fp )
{
+ uint8_t* localDecompressed = Decompressed;
// Loop on the fragment[s]
for( JPEGFragmentsInfo::JPEGFragmentsList::iterator
it = JPEGInfo->Fragments.begin();
if ( IsJPEG2000 )
{
- if ( ! gdcm_read_JPEG2000_file( fp, destination ) )
+ if ( ! gdcm_read_JPEG2000_file( fp,localDecompressed ) )
{
return false;
}
else if ( BitsStored == 8)
{
// JPEG Lossy : call to IJG 6b
- if ( ! gdcm_read_JPEG_file8( fp, destination ) )
+ if ( ! gdcm_read_JPEG_file8( fp, localDecompressed ) )
{
return false;
}
else if ( BitsStored == 12)
{
// Reading Fragment pixels
- if ( ! gdcm_read_JPEG_file12 ( fp, destination ) )
+ if ( ! gdcm_read_JPEG_file12 ( fp, localDecompressed ) )
{
return false;
}
else if ( BitsStored == 16)
{
// Reading Fragment pixels
- if ( ! gdcm_read_JPEG_file16 ( fp, destination ) )
+ if ( ! gdcm_read_JPEG_file16 ( fp, localDecompressed ) )
{
return false;
}
else
{
// other JPEG lossy not supported
- dbg.Error(" File::ReadAndDecompressJPEGFile: unknown jpeg lossy "
- " compression ");
+ dbg.Error("PixelConvert::ReadAndDecompressJPEGFile: unknown "
+ "jpeg lossy compression ");
return false;
}
- // Advance to next free location in destination
+ // Advance to next free location in Decompressed
// for next fragment decompression (if any)
int length = XSize * YSize * SamplesPerPixel;
int numberBytes = BitsAllocated / 8;
-
- destination += length * numberBytes;
+
+ localDecompressed += length * numberBytes;
}
return true;
}
/**
* \brief Re-arrange the bits within the bytes.
- * @param pixelZone zone
* @return Boolean
*/
-bool PixelConvert::ReArrangeBits( uint8_t* pixelZone )
- throw ( FormatError )
+bool PixelConvert::ConvertReArrangeBits() throw ( FormatError )
{
if ( BitsStored != BitsAllocated )
{
{
uint16_t mask = 0xffff;
mask = mask >> ( BitsAllocated - BitsStored );
- uint16_t* deb = (uint16_t*)pixelZone;
+ uint16_t* deb = (uint16_t*)Decompressed;
for(int i = 0; i<l; i++)
{
*deb = (*deb >> (BitsStored - HighBitPosition - 1)) & mask;
{
uint32_t mask = 0xffffffff;
mask = mask >> ( BitsAllocated - BitsStored );
- uint32_t* deb = (uint32_t*)pixelZone;
+ uint32_t* deb = (uint32_t*)Decompressed;
for(int i = 0; i<l; i++)
{
*deb = (*deb >> (BitsStored - HighBitPosition - 1)) & mask;
}
else
{
- dbg.Verbose(0, "PixelConvert::ReArrangeBits: weird image");
- throw FormatError( "File::ReArrangeBits()",
+ dbg.Verbose(0, "PixelConvert::ConvertReArrangeBits: weird image");
+ throw FormatError( "PixelConvert::ConvertReArrangeBits()",
"weird image !?" );
}
}
* \brief Convert (Y plane, cB plane, cR plane) to RGB pixels
* \warning Works on all the frames at a time
*/
-void PixelConvert::ConvertYcBcRPlanesToRGBPixels( uint8_t* destination )
+void PixelConvert::ConvertYcBcRPlanesToRGBPixels()
{
- uint8_t* oldPixelZone = new uint8_t[ DecompressedSize ];
- memmove( oldPixelZone, destination, DecompressedSize );
+ uint8_t* localDecompressed = Decompressed;
+ uint8_t* copyDecompressed = new uint8_t[ DecompressedSize ];
+ memmove( copyDecompressed, localDecompressed, DecompressedSize );
// to see the tricks about YBR_FULL, YBR_FULL_422,
// YBR_PARTIAL_422, YBR_ICT, YBR_RCT have a look at :
int l = XSize * YSize;
int nbFrames = ZSize;
- uint8_t* a = oldPixelZone;
- uint8_t* b = oldPixelZone + l;
- uint8_t* c = oldPixelZone + l + l;
+ uint8_t* a = copyDecompressed;
+ uint8_t* b = copyDecompressed + l;
+ uint8_t* c = copyDecompressed + l + l;
double R, G, B;
/// \todo : Replace by the 'well known' integer computation
if (G > 255.0) G = 255.0;
if (B > 255.0) B = 255.0;
- *(destination++) = (uint8_t)R;
- *(destination++) = (uint8_t)G;
- *(destination++) = (uint8_t)B;
+ *(localDecompressed++) = (uint8_t)R;
+ *(localDecompressed++) = (uint8_t)G;
+ *(localDecompressed++) = (uint8_t)B;
a++;
b++;
c++;
}
}
- delete[] oldPixelZone;
+ delete[] copyDecompressed;
}
/**
* \brief Convert (Red plane, Green plane, Blue plane) to RGB pixels
* \warning Works on all the frames at a time
*/
-void PixelConvert::ConvertRGBPlanesToRGBPixels( uint8_t* destination )
+void PixelConvert::ConvertRGBPlanesToRGBPixels()
{
- uint8_t* oldPixelZone = new uint8_t[ DecompressedSize ];
- memmove( oldPixelZone, destination, DecompressedSize );
+ uint8_t* localDecompressed = Decompressed;
+ uint8_t* copyDecompressed = new uint8_t[ DecompressedSize ];
+ memmove( copyDecompressed, localDecompressed, DecompressedSize );
int l = XSize * YSize * ZSize;
- uint8_t* a = oldPixelZone;
- uint8_t* b = oldPixelZone + l;
- uint8_t* c = oldPixelZone + l + l;
+ uint8_t* a = copyDecompressed;
+ uint8_t* b = copyDecompressed + l;
+ uint8_t* c = copyDecompressed + l + l;
for (int j = 0; j < l; j++)
{
- *(destination++) = *(a++);
- *(destination++) = *(b++);
- *(destination++) = *(c++);
+ *(localDecompressed++) = *(a++);
+ *(localDecompressed++) = *(b++);
+ *(localDecompressed++) = *(c++);
}
- delete[] oldPixelZone;
+ delete[] copyDecompressed;
}
-bool PixelConvert::ReadAndDecompressPixelData( void* destination, FILE* fp )
+bool PixelConvert::ReadAndDecompressPixelData( FILE* fp )
{
+ ComputeDecompressedImageDataSize();
+ if ( HasLUT )
+ DecompressedSize *= 3;
+ AllocateDecompressed();
//////////////////////////////////////////////////
//// First stage: get our hands on the Pixel Data.
if ( !fp )
return false;
}
- if ( fseek(fp, PixelOffset, SEEK_SET) == -1 )
+ if ( fseek( fp, PixelOffset, SEEK_SET ) == -1 )
{
dbg.Verbose( 0, "PixelConvert::ReadAndDecompressPixelData: "
"unable to find PixelOffset in file." );
//// Second stage: read from disk dans uncompress.
if ( BitsAllocated == 12 )
{
- ReadAndDecompress12BitsTo16Bits( (uint8_t*)destination, fp);
+ ReadAndDecompress12BitsTo16Bits( fp);
}
else if ( IsUncompressed )
{
- size_t ItemRead = fread( destination, PixelDataLength, 1, fp);
+ size_t ItemRead = fread( Decompressed, PixelDataLength, 1, fp );
if ( ItemRead != 1 )
{
dbg.Verbose( 0, "PixelConvert::ReadAndDecompressPixelData: "
}
else if ( IsRLELossless )
{
- if ( ! ReadAndDecompressRLEFile( destination, fp ) )
+ if ( ! ReadAndDecompressRLEFile( fp ) )
{
dbg.Verbose( 0, "PixelConvert::ReadAndDecompressPixelData: "
"RLE decompressor failed." );
else
{
// Default case concerns JPEG family
- if ( ! ReadAndDecompressJPEGFile( (uint8_t*)destination, fp ) )
+ if ( ! ReadAndDecompressJPEGFile( fp ) )
{
dbg.Verbose( 0, "PixelConvert::ReadAndDecompressPixelData: "
"JPEG decompressor failed." );
////////////////////////////////////////////
//// Third stage: twigle the bytes and bits.
- ReorderEndianity( (uint8_t*) destination );
- ReArrangeBits( (uint8_t*) destination );
+ ConvertReorderEndianity();
+ ConvertReArrangeBits();
+ ConvertHandleColor();
return true;
}
-bool PixelConvert::HandleColor( uint8_t* destination )
+void PixelConvert::ConvertHandleColor()
{
//////////////////////////////////
// Deal with the color decoding i.e. handle:
// - [Planar 1] AND [Photo C] handled with ConvertYcBcRPlanesToRGBPixels()
// - [Planar 2] OR [Photo D] requires LUT intervention.
- if ( IsMonochrome
- || ( PlanarConfiguration == 2 )
- || IsPaletteColor )
+ if ( ! IsDecompressedRGB() )
{
// [Planar 2] OR [Photo D]: LUT intervention done outside
- return false;
+ return;
}
if ( PlanarConfiguration == 1 )
if ( IsYBRFull )
{
// [Planar 1] AND [Photo C] (remember YBR_FULL_422 acts as RGB)
- ConvertYcBcRPlanesToRGBPixels( (uint8_t*)destination );
+ ConvertYcBcRPlanesToRGBPixels();
}
else
{
// [Planar 1] AND [Photo C]
- ConvertRGBPlanesToRGBPixels( (uint8_t*)destination );
+ ConvertRGBPlanesToRGBPixels();
}
}
// When planarConf is 0, pixels are allready in RGB
+}
+
+/**
+ * \brief Predicate to know wether the image[s] (once decompressed) is RGB.
+ * \note See comments of \ref HandleColor
+ */
+bool PixelConvert::IsDecompressedRGB()
+{
+ if ( IsMonochrome
+ || ( PlanarConfiguration == 2 )
+ || IsPaletteColor )
+ {
+ return false;
+ }
return true;
}
void PixelConvert::ComputeDecompressedImageDataSize()
{
- int bitsAllocated;
+ int bitsAllocated = BitsAllocated;
// Number of "Bits Allocated" is fixed to 16 when it's 12, since
// in this case we will expand the image to 16 bits (see
// \ref ReadAndDecompress12BitsTo16Bits() )
projects / gdcm.git / commitdiff