/*========================================================================= Program: vv http://www.creatis.insa-lyon.fr/rio/vv Authors belong to: - University of LYON http://www.universite-lyon.fr/ - Léon Bérard cancer center http://www.centreleonberard.fr - CREATIS CNRS laboratory http://www.creatis.insa-lyon.fr This software is distributed WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the copyright notices for more information. It is distributed under dual licence - BSD See included LICENSE.txt file - CeCILL-B http://www.cecill.info/licences/Licence_CeCILL-B_V1-en.html ===========================================================================**/ // std include #include // clitk include #include "clitkHndImageIO.h" #include "clitkCommon.h" // itk include #include //-------------------------------------------------------------------- // Read Image Information void clitk::HndImageIO::ReadImageInformation() { Hnd_header hnd; FILE *fp; fp = fopen (m_FileName.c_str(), "rb"); if (fp == NULL) itkGenericExceptionMacro(<< "Could not open file (for reading): " << m_FileName); fread ((void *) hnd.sFileType, sizeof(char), 32, fp); fread ((void *) &hnd.FileLength, sizeof(uint32_t), 1, fp); fread ((void *) hnd.sChecksumSpec, sizeof(char), 4, fp); fread ((void *) &hnd.nCheckSum, sizeof(uint32_t), 1, fp); fread ((void *) hnd.sCreationDate, sizeof(char), 8, fp); fread ((void *) hnd.sCreationTime, sizeof(char), 8, fp); fread ((void *) hnd.sPatientID, sizeof(char), 16, fp); fread ((void *) &hnd.nPatientSer, sizeof(uint32_t), 1, fp); fread ((void *) hnd.sSeriesID, sizeof(char), 16, fp); fread ((void *) &hnd.nSeriesSer, sizeof(uint32_t), 1, fp); fread ((void *) hnd.sSliceID, sizeof(char), 16, fp); fread ((void *) &hnd.nSliceSer, sizeof(uint32_t), 1, fp); fread ((void *) &hnd.SizeX, sizeof(uint32_t), 1, fp); fread ((void *) &hnd.SizeY, sizeof(uint32_t), 1, fp); fread ((void *) &hnd.dSliceZPos, sizeof(double), 1, fp); fread ((void *) hnd.sModality, sizeof(char), 16, fp); fread ((void *) &hnd.nWindow, sizeof(uint32_t), 1, fp); fread ((void *) &hnd.nLevel, sizeof(uint32_t), 1, fp); fread ((void *) &hnd.nPixelOffset, sizeof(uint32_t), 1, fp); fread ((void *) hnd.sImageType, sizeof(char), 4, fp); fread ((void *) &hnd.dGantryRtn, sizeof(double), 1, fp); fread ((void *) &hnd.dSAD, sizeof(double), 1, fp); fread ((void *) &hnd.dSFD, sizeof(double), 1, fp); fread ((void *) &hnd.dCollX1, sizeof(double), 1, fp); fread ((void *) &hnd.dCollX2, sizeof(double), 1, fp); fread ((void *) &hnd.dCollY1, sizeof(double), 1, fp); fread ((void *) &hnd.dCollY2, sizeof(double), 1, fp); fread ((void *) &hnd.dCollRtn, sizeof(double), 1, fp); fread ((void *) &hnd.dFieldX, sizeof(double), 1, fp); fread ((void *) &hnd.dFieldY, sizeof(double), 1, fp); fread ((void *) &hnd.dBladeX1, sizeof(double), 1, fp); fread ((void *) &hnd.dBladeX2, sizeof(double), 1, fp); fread ((void *) &hnd.dBladeY1, sizeof(double), 1, fp); fread ((void *) &hnd.dBladeY2, sizeof(double), 1, fp); fread ((void *) &hnd.dIDUPosLng, sizeof(double), 1, fp); fread ((void *) &hnd.dIDUPosLat, sizeof(double), 1, fp); fread ((void *) &hnd.dIDUPosVrt, sizeof(double), 1, fp); fread ((void *) &hnd.dIDUPosRtn, sizeof(double), 1, fp); fread ((void *) &hnd.dPatientSupportAngle, sizeof(double), 1, fp); fread ((void *) &hnd.dTableTopEccentricAngle, sizeof(double), 1, fp); fread ((void *) &hnd.dCouchVrt, sizeof(double), 1, fp); fread ((void *) &hnd.dCouchLng, sizeof(double), 1, fp); fread ((void *) &hnd.dCouchLat, sizeof(double), 1, fp); fread ((void *) &hnd.dIDUResolutionX, sizeof(double), 1, fp); fread ((void *) &hnd.dIDUResolutionY, sizeof(double), 1, fp); fread ((void *) &hnd.dImageResolutionX, sizeof(double), 1, fp); fread ((void *) &hnd.dImageResolutionY, sizeof(double), 1, fp); fread ((void *) &hnd.dEnergy, sizeof(double), 1, fp); fread ((void *) &hnd.dDoseRate, sizeof(double), 1, fp); fread ((void *) &hnd.dXRayKV, sizeof(double), 1, fp); fread ((void *) &hnd.dXRayMA, sizeof(double), 1, fp); fread ((void *) &hnd.dMetersetExposure, sizeof(double), 1, fp); fread ((void *) &hnd.dAcqAdjustment, sizeof(double), 1, fp); fread ((void *) &hnd.dCTProjectionAngle, sizeof(double), 1, fp); fread ((void *) &hnd.dCTNormChamber, sizeof(double), 1, fp); fread ((void *) &hnd.dGatingTimeTag, sizeof(double), 1, fp); fread ((void *) &hnd.dGating4DInfoX, sizeof(double), 1, fp); fread ((void *) &hnd.dGating4DInfoY, sizeof(double), 1, fp); fread ((void *) &hnd.dGating4DInfoZ, sizeof(double), 1, fp); fread ((void *) &hnd.dGating4DInfoTime, sizeof(double), 1, fp); fclose (fp); /* Convert hnd to ITK image information */ SetNumberOfDimensions(2); SetDimensions(0, hnd.SizeX); SetDimensions(1, hnd.SizeY); SetSpacing(0, hnd.dIDUResolutionX); SetSpacing(1, hnd.dIDUResolutionY); SetOrigin(0, -0.5*(hnd.SizeX-1)*hnd.dIDUResolutionX); //SR: assumed centered SetOrigin(1, -0.5*(hnd.SizeY-1)*hnd.dIDUResolutionY); //SR: assumed centered SetComponentType(itk::ImageIOBase::UINT); /* Store important meta information in the meta data dictionary */ itk::EncapsulateMetaData(this->GetMetaDataDictionary(), "dCTProjectionAngle", hnd.dCTProjectionAngle); //itk::ExposeMetaData( this->GetMetaDataDictionary(), &(hnd.dCTProjectionAngle), "dCTProjectionAngle"); } //-------------------------------------------------------------------- bool clitk::HndImageIO::CanReadFile(const char* FileNameToRead) { std::string filename(FileNameToRead); std::string filenameext = GetExtension(filename); if (filenameext != std::string("hnd")) return false; return true; } //-------------------------------------------------------------------- // Read Image Content void clitk::HndImageIO::Read(void * buffer) { FILE *fp; uint32_t* buf = (uint32_t*)buffer; unsigned char *pt_lut; uint32_t a; unsigned char v; int lut_idx, lut_off; size_t num_read; char dc; short ds; long dl, diff=0; uint32_t i; fp = fopen (m_FileName.c_str(), "rb"); if (fp == NULL) itkGenericExceptionMacro(<< "Could not open file (for reading): " << m_FileName); pt_lut = (unsigned char*) malloc (sizeof (unsigned char) * GetDimensions(0) * GetDimensions(1)); /* Read LUT */ fseek (fp, 1024, SEEK_SET); fread (pt_lut, sizeof(unsigned char), (GetDimensions(1)-1)*GetDimensions(0) / 4, fp); /* Read first row */ for (i = 0; i < GetDimensions(0); i++) { fread (&a, sizeof(uint32_t), 1, fp); buf[i] = a; } /* Read first pixel of second row */ fread (&a, sizeof(uint32_t), 1, fp); buf[i++] = a; /* Decompress the rest */ lut_idx = 0; lut_off = 0; while (i < GetDimensions(0) * GetDimensions(1)) { uint32_t r11, r12, r21; r11 = buf[i-GetDimensions(0)-1]; r12 = buf[i-GetDimensions(0)]; r21 = buf[i-1]; v = pt_lut[lut_idx]; switch (lut_off) { case 0: v = v & 0x03; lut_off ++; break; case 1: v = (v & 0x0C) >> 2; lut_off ++; break; case 2: v = (v & 0x30) >> 4; lut_off ++; break; case 3: v = (v & 0xC0) >> 6; lut_off = 0; lut_idx ++; break; } switch (v) { case 0: num_read = fread (&dc, sizeof(unsigned char), 1, fp); if (num_read != 1) goto read_error; diff = dc; break; case 1: num_read = fread (&ds, sizeof(unsigned short), 1, fp); if (num_read != 1) goto read_error; diff = ds; break; case 2: num_read = fread (&dl, sizeof(uint32_t), 1, fp); if (num_read != 1) goto read_error; diff = dl; break; } buf[i] = r21 + r12 + diff - r11; i++; } /* Clean up */ free (pt_lut); fclose (fp); return; read_error: itkGenericExceptionMacro(<< "Error reading hnd file"); free (pt_lut); fclose (fp); return; } //-------------------------------------------------------------------- bool clitk::HndImageIO::CanWriteFile(const char* FileNameToWrite) { return false; } //-------------------------------------------------------------------- // Write Image void clitk::HndImageIO::Write(const void* buffer) { }