Program: gdcm
Module: $RCSfile: gdcmPixelWriteConvert.cxx,v $
Language: C++
- Date: $Date: 2005/02/16 11:20:51 $
- Version: $Revision: 1.8 $
+ Date: $Date: 2008/04/10 12:15:36 $
+ Version: $Revision: 1.25 $
Copyright (c) CREATIS (Centre de Recherche et d'Applications en Traitement de
l'Image). All rights reserved. See Doc/License.txt or
#include "gdcmDebug.h"
#include "gdcmPixelWriteConvert.h"
+#include "gdcmFile.h"
+#include "gdcmUtil.h"
-namespace gdcm
+#include <vector>
+#include <stdlib.h> // abs
+
+#define WITHOFFSETTABLE 1
+
+namespace GDCM_NAME_SPACE
{
//-----------------------------------------------------------------------------
+// Public
+
+//-----------------------------------------------------------------------------
+// Protected
+
+//-----------------------------------------------------------------------------
+// Private
+
// Constructor / Destructor
/**
* \brief Constructor
UserData = 0;
UserDataSize = 0;
+ Compressed = false;
}
/**
*/
PixelWriteConvert::~PixelWriteConvert()
{
+ gdcmDebugMacro("PixelWriteConvert::~PixelWriteConvert()" );
+ if( Compressed )
+ {
+ delete[] UserData;
+ }
}
-//-----------------------------------------------------------------------------
-// Public
/**
- * \brief SetReadData
+ * \brief sets Read Data (and size)
* @param data data (uint8_t is for prototyping. if your data is not uint8_t
* just cast the pointer for calling the method)
- * @param size size in bytes
+ * @param size data size, in bytes
*/
void PixelWriteConvert::SetReadData(uint8_t *data, size_t size)
{
}
/**
- * \brief Sets User Data
+ * \brief Sets the internal pointer to the caller's inData
+ * image representation, 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 its data before gdcm uses them (e.g. with
+ * the Write() method )
* @param data data (uint8_t is for prototyping. if your data is not uint8_t
* just cast the pointer for calling the method)
- * @param size size in bytes
+ * @param size size, in bytes.
*/
void PixelWriteConvert::SetUserData(uint8_t *data, size_t size)
{
/**
* \brief Get Data (UserData or ReadData)
- * @return data data data (uint8_t is for prototyping. if your data is not uint8_t
- * just cast the returned pointer)
+ * @return data (uint8_t is for prototyping. if your data is *not* uint8_t
+ * just cast the returned pointer)
*/
uint8_t *PixelWriteConvert::GetData()
{
- if(UserData)
+ if ( UserData )
{
return UserData;
}
/**
* \brief Get Data Size (UserData or ReadData)
- * @return size size in bytes
+ * @return size, in bytes.
*/
size_t PixelWriteConvert::GetDataSize()
{
- if(UserData)
+ if ( UserData )
{
return UserDataSize;
}
}
}
+
+typedef std::pair<size_t, uint32_t> JpegPair; //offset, jpeg size
+typedef std::vector<JpegPair> JpegVector;
+
+bool gdcm_write_JPEG2000_file (std::ostream *of, char *inputdata, size_t inputlength,
+ int image_width, int image_height, int numZ, int sample_pixel, int bitsallocated,
+ int sign, int quality);
+
+
+void WriteDICOMItems(std::ostream *fp, JpegVector &v)
+{
+ // Item tag:
+ uint16_t group = 0xfffe;
+ uint16_t elem = 0xe000;
+ GDCM_NAME_SPACE::binary_write(*fp, group);
+ GDCM_NAME_SPACE::binary_write(*fp, elem);
+ // Item Length
+ uint32_t dummy = 0x12345678;
+ size_t offset = fp->tellp();
+ JpegPair jp;
+ jp.first = offset;
+ v.push_back(jp);
+ GDCM_NAME_SPACE::binary_write(*fp, dummy);
+}
+
+// PS 3.5, page 66
+void EncodeWithoutBasicOffsetTable(std::ostream *fp, int numFrag)// JpegVector& v) //, uint32_t length)
+{
+ assert( numFrag == 1);
+
+ // Item tag:
+ uint16_t group = 0xfffe;
+ uint16_t elem = 0xe000;
+ GDCM_NAME_SPACE::binary_write(*fp, group);
+ GDCM_NAME_SPACE::binary_write(*fp, elem);
+ // Item Length
+ uint32_t item_length = 0x0000;
+ GDCM_NAME_SPACE::binary_write(*fp, item_length);
+
+}
+
+// PS 3.5, page 67
+void EncodeWithBasicOffsetTable(std::ostream *fp, int numFrag, size_t &start)
+{
+ // Item tag:
+ uint16_t group = 0xfffe;
+ uint16_t elem = 0xe000;
+ GDCM_NAME_SPACE::binary_write(*fp, group);
+ GDCM_NAME_SPACE::binary_write(*fp, elem);
+ // Item Length
+ uint32_t item_length = numFrag*4; // sizeof(uint32_t)
+ GDCM_NAME_SPACE::binary_write(*fp, item_length);
+
+ // Just prepare the space
+ start = fp->tellp(); //to be able to rewind
+ for(int i=0; i<numFrag;++i)
+ {
+ uint32_t dummy = 0x0000;
+ GDCM_NAME_SPACE::binary_write(*fp, dummy);
+ }
+}
+
+void UpdateBasicOffsetTable(std::ostream *fp, JpegVector const &v, size_t pos)
+{
+ JpegVector::const_iterator i;
+ fp->seekp( pos );
+ const JpegPair &first = v[0];
+ for(i=v.begin(); i!=v.end(); ++i)
+ {
+ const JpegPair &jp = *i;
+ if(i == v.begin() ){ assert( jp.first - first.first == 0); }
+ uint32_t offset = (uint32_t)(jp.first - first.first);
+ GDCM_NAME_SPACE::binary_write(*fp, offset);
+ //std::cerr << "Updating Table:" << jp.first - first.first << std::endl;
+ }
+}
+
+void UpdateJpegFragmentSize(std::ostream *fp, JpegVector const &v)
+{
+ JpegVector::const_iterator i;
+ for(i= v.begin(); i!=v.end(); ++i)
+ {
+ const JpegPair &jp = *i;
+ fp->seekp( jp.first );
+ uint32_t length = jp.second;
+ GDCM_NAME_SPACE::binary_write(*fp, length);
+ //std::cerr << "Updating:" << jp.first << "," << jp.second << std::endl;
+ }
+}
+
+void CloseJpeg(std::ostream *fp, JpegVector &v)
+{
+ // sequence terminator
+ uint16_t group = 0xfffe;
+ uint16_t elem = 0xe0dd;
+ GDCM_NAME_SPACE::binary_write(*fp, group);
+ GDCM_NAME_SPACE::binary_write(*fp, elem);
+
+ uint32_t length = 0x0;
+ GDCM_NAME_SPACE::binary_write(*fp, length);
+
+ // Jpeg is done, now update the frag length
+ UpdateJpegFragmentSize(fp, v);
+}
+
+// I need to pass the File*. I do not understand how PixelWriteConvert is supposed
+// to access this information otherwise
+// size can now be computed from File attributes (what an API...)
+void PixelWriteConvert::SetCompressJPEG2000UserData(uint8_t *data, size_t size, File *image)
+{
+ Compressed = true;
+ //char * userData = reinterpret_cast<char*>(UserData);
+
+ std::ostringstream *of = new std::ostringstream();
+ int xsize = image->GetXSize();
+ int ysize = image->GetYSize();
+ int zsize = image->GetZSize();
+ int samplesPerPixel = image->GetSamplesPerPixel();
+ //std::cout << "X: " << xsize << std::endl;
+ //std::cout << "Y: " << ysize << std::endl;
+ //std::cout << "Sample: " << samplesPerPixel << std::endl;
+ int bitsallocated = image->GetBitsAllocated();
+ int sign = image->IsSignedPixelData();
+ unsigned int fragment_size = xsize*ysize*samplesPerPixel * (bitsallocated / 8);
+ //assert( fragment_size*zsize == size );
+
+ gdcmDebugMacro("fragment_size " << fragment_size << " zsize " << zsize << " size " << size);
+ assert( abs((long)(fragment_size*zsize-size)) <=1 );
+
+ JpegVector JpegFragmentSize;
+ gdcmDebugMacro("Call Encode..BasicOffsetTable " );
+#if WITHOFFSETTABLE
+ size_t bots; //basic offset table start
+ EncodeWithBasicOffsetTable(of, zsize, bots);
+#else
+ EncodeWithoutBasicOffsetTable(of, 1);
+#endif
+
+ gdcmDebugMacro("Out of Encode..BasicOffsetTable " );
+
+ uint8_t *pImageData = data;
+ for(int i=0; i<zsize;i++)
+ {
+ gdcmDebugMacro("Write fragment no " << i );
+ WriteDICOMItems(of, JpegFragmentSize);
+ size_t beg = of->tellp();
+ gdcm_write_JPEG2000_file(of, (char*)pImageData,size,
+ image->GetXSize(), image->GetYSize(), image->GetZSize(), image->GetSamplesPerPixel(),
+ image->GetBitsAllocated(), sign, 100);
+ //userData, UserDataSize);
+ // CreateOneFrame(of, pImageData, fragment_size, xsize, ysize, zsize,
+ // samplesPerPixel, quality, JpegFragmentSize);
+ //assert( !(fragment_size % 2) );
+ // Update the JpegVector with offset
+ size_t end = of->tellp();
+ //static int i = 0;
+ JpegPair &jp = JpegFragmentSize[i];
+ jp.second = (uint32_t)(end-beg);
+ if( ((end-beg) % 2) )
+ {
+ of->put( '\0' );
+ jp.second += 1;
+ }
+ assert( !(jp.second % 2) );
+ //std::cerr << "DIFF: " << i <<" -> " << jp.second << std::endl;
+ //++i;
+ pImageData += fragment_size;
+ }
+ CloseJpeg(of, JpegFragmentSize);
+#if WITHOFFSETTABLE
+ UpdateBasicOffsetTable(of, JpegFragmentSize, bots);
+#endif
+
+
+ size_t of_size = of->str().size();
+ UserData = new uint8_t[of_size];
+ memcpy(UserData, of->str().c_str(), of_size);
+ UserDataSize = of_size;
+ delete of;
+}
+
+bool gdcm_write_JPEG_file8 (std::ostream *fp, char *inputdata, size_t inputlength,
+ int image_width, int image_height, int numZ,
+ int sample_pixel, int bitsallocated, int quality);
+bool gdcm_write_JPEG_file12 (std::ostream *fp, char *inputdata, size_t inputlength,
+ int image_width, int image_height, int numZ,
+ int sample_pixel, int bitsallocated, int quality);
+bool gdcm_write_JPEG_file16 (std::ostream *fp, char *inputdata, size_t inputlength,
+ int image_width, int image_height, int numZ,
+ int sample_pixel, int bitsallocated, int quality);
+
+void PixelWriteConvert::SetCompressJPEGUserData(uint8_t *data, size_t size, File *image)
+{
+ (void)data;
+ (void)size;
+ (void)image;
+ Compressed = true;
+ //char * userData = reinterpret_cast<char*>(UserData);
+
+ std::ostringstream *of = new std::ostringstream();
+ int xsize = image->GetXSize();
+ int ysize = image->GetYSize();
+ int zsize = image->GetZSize();
+
+ int samplesPerPixel = image->GetSamplesPerPixel();
+ int bitsAllocated = image->GetBitsAllocated();
+ int bitsStored = image->GetBitsStored();
+
+ //std::cout << "X: " << xsize << std::endl;
+ //std::cout << "Y: " << ysize << std::endl;
+ //std::cout << "Sample: " << samplesPerPixel << std::endl;
+
+ gdcmDebugMacro( "bitsAllocated " << bitsAllocated << " bitsStored " <<bitsStored <<
+ std::endl);
+
+
+ unsigned int fragment_size = xsize*ysize*samplesPerPixel * (bitsAllocated / 8);
+ gdcmDebugMacro("fragment_size " << fragment_size << " zsize " << zsize << " size " << size);
+ assert( abs((long)(fragment_size*zsize-size)) <=1 );
+
+ JpegVector JpegFragmentSize;
+#if WITHOFFSETTABLE
+ size_t bots; //basic offset table start
+ EncodeWithBasicOffsetTable(of, zsize, bots);
+#else
+ EncodeWithoutBasicOffsetTable(of, 1);
+#endif
+
+ // to avoid major troubles when BitsStored == 8 && BitsAllocated==16 !
+
+ if (bitsStored == 8 && bitsAllocated == 16)
+ bitsStored = 16;
+
+ uint8_t *pImageData = data;
+ for(int i=0; i<zsize;i++)
+ {
+ gdcmDebugMacro("Write fragment no " << i );
+ WriteDICOMItems(of, JpegFragmentSize);
+ size_t beg = of->tellp();
+ if( bitsStored == 8 )
+ {
+ gdcm_write_JPEG_file8(of, (char*)pImageData,size,
+ xsize, ysize, zsize, samplesPerPixel,
+ bitsAllocated, 100 );
+ }
+ else if (bitsStored <= 12)
+ {
+ assert( bitsStored >= 8 );
+ gdcm_write_JPEG_file12(of, (char*)pImageData, size,
+ xsize, ysize, zsize, samplesPerPixel,
+ bitsAllocated, 100);
+ }
+ else if (bitsStored <= 16)
+ {
+ assert( bitsStored >= 12 );
+ gdcm_write_JPEG_file16(of, (char*)pImageData,size,
+ xsize, ysize, zsize, samplesPerPixel,
+ bitsAllocated, 100);
+ }
+ else if (bitsStored <= 32) // if we are lucky (?), it will compress as a 2 bytes stream
+ { // (Actually it doesn't !)
+ // Just to allow ctest not to abort on 32bits per pixel image RTDOSE.dcm
+ assert( bitsStored >= 16 );
+ gdcmDebugMacro( "Warning : bitsStored>16 not supported by JPEG !" );
+ gdcm_write_JPEG_file16(of, (char*)pImageData, size,
+ xsize, ysize, zsize, samplesPerPixel,
+ bitsAllocated, 100);
+ }
+ else
+ {
+ std::cerr << "Major pb : bitsStored =" << bitsStored << std::endl;
+ abort();
+ }
+ size_t end = of->tellp();
+ //static int i = 0;
+ JpegPair &jp = JpegFragmentSize[i];
+ jp.second = (uint32_t)(end-beg);
+ if( ((end-beg) % 2) )
+ {
+ of->put( '\0' );
+ jp.second += 1;
+ }
+ assert( !(jp.second % 2) );
+ //std::cerr << "DIFF: " << i <<" -> " << jp.second << std::endl;
+ //++i;
+
+ //JpegPair &jp = v[0];
+ //jp.second = 15328;
+
+ //userData, UserDataSize);
+ // CreateOneFrame(of, pImageData, fragment_size, xsize, ysize, zsize,
+ // samplesPerPixel, quality, JpegFragmentSize);
+ //assert( !(fragment_size % 2) );
+ pImageData += fragment_size;
+ }
+ CloseJpeg(of, JpegFragmentSize);
+#if WITHOFFSETTABLE
+ UpdateBasicOffsetTable(of, JpegFragmentSize, bots);
+#endif
+
+ size_t of_size = of->str().size();
+ UserData = new uint8_t[of_size];
+ memcpy(UserData, of->str().c_str(), of_size);
+ UserDataSize = of_size;
+ delete of;
+}
+
+
//-----------------------------------------------------------------------------
// Protected
+//bool PixelWriteConvert::CompressJPEG2000(uint8_t *data, size_t size)
+//{
+//}
//-----------------------------------------------------------------------------
// Private
git://git.creatis.insa-lyon.fr / gdcm.git / blobdiff