void mitk::PicFileReader::GenerateOutputInformation()
{
Image::Pointer output = this->GetOutput();
if ((output->IsInitialized()) && (this->GetMTime() <= m_ReadHeaderTime.GetMTime()))
return;
itkDebugMacro(<<"Reading file for GenerateOutputInformation()" << m_FileName);
// Check to see if we can read the file given the name or prefix
//
if ( m_FileName == "" && m_FilePrefix == "" )
{
throw itk::ImageFileReaderException(__FILE__, __LINE__, "One of FileName or FilePrefix must be non-empty");
}
if( m_FileName != "")
{
mitkIpPicDescriptor* header=mitkIpPicGetHeader(const_cast<char *>(m_FileName.c_str()), NULL);
if ( !header )
{
throw itk::ImageFileReaderException(__FILE__, __LINE__, "File could not be read.");
}
header=MITKipPicGetTags(const_cast<char *>(m_FileName.c_str()), header);
int channels = 1;
mitkIpPicTSV_t *tsv;
if ( (tsv = mitkIpPicQueryTag( header, "SOURCE HEADER" )) != NULL)
{
if(tsv->n[0]>1e+06)
{
mitkIpPicTSV_t *tsvSH;
tsvSH = mitkIpPicDelTag( header, "SOURCE HEADER" );
mitkIpPicFreeTag(tsvSH);
}
}
if ( (tsv = mitkIpPicQueryTag( header, "ICON80x80" )) != NULL)
{
mitkIpPicTSV_t *tsvSH;
tsvSH = mitkIpPicDelTag( header, "ICON80x80" );
mitkIpPicFreeTag(tsvSH);
}
if ( (tsv = mitkIpPicQueryTag( header, "VELOCITY" )) != NULL)
{
++channels;
mitkIpPicDelTag( header, "VELOCITY" );
}
if( header == NULL || header->bpe == 0)
{
itk::ImageFileReaderException e(__FILE__, __LINE__);
itk::OStringStream msg;
msg << " Could not read file "
<< m_FileName.c_str();
e.SetDescription(msg.str().c_str());
throw e;
return;
}
// First initialize the geometry of the output image by the pic-header
SlicedGeometry3D::Pointer slicedGeometry = mitk::SlicedGeometry3D::New();
PicHelper::InitializeEvenlySpaced(header, header->n[2], slicedGeometry);
// if pic image only 3D, the n[3] value is not initialized
unsigned int timesteps = 1;
if( header->dim > 3 )
timesteps = header->n[3];
TimeSlicedGeometry::Pointer timeSliceGeometry = TimeSlicedGeometry::New();
timeSliceGeometry->InitializeEvenlyTimed(slicedGeometry, timesteps);
timeSliceGeometry->ImageGeometryOn();
// Cast the pic descriptor to ImageDescriptor and initialize the output
output->Initialize( CastToImageDescriptor(header));
output->SetGeometry( timeSliceGeometry );
mitkIpPicFree ( header );
}
else
{
int numberOfImages=0;
m_StartFileIndex=0;
mitkIpPicDescriptor* header=NULL;
char fullName[1024];
while(m_StartFileIndex<10)
{
sprintf(fullName, m_FilePattern.c_str(), m_FilePrefix.c_str(), m_StartFileIndex+numberOfImages);
FILE * f=fopen(fullName,"r");
if(f==NULL)
{
//already found an image?
if(numberOfImages>0)
break;
//no? let's increase start
++m_StartFileIndex;
}
else
{
fclose(f);
//only open the header of the first file found,
//@warning what to do when images do not have the same size??
if(header==NULL)
{
header=mitkIpPicGetHeader(fullName, NULL);
header=MITKipPicGetTags(fullName, header);
}
++numberOfImages;
}
}
printf("\n numberofimages %d\n",numberOfImages);
if(numberOfImages==0)
{
itk::ImageFileReaderException e(__FILE__, __LINE__);
itk::OStringStream msg;
msg << "no images found";
e.SetDescription(msg.str().c_str());
throw e;
return;
}
//@FIXME: was ist, wenn die Bilder nicht alle gleich gross sind?
if(numberOfImages>1)
{
printf("\n numberofimages %d > 1\n",numberOfImages);
header->dim=3;
header->n[2]=numberOfImages;
}
printf(" \ninitialisize output\n");
output->Initialize( CastToImageDescriptor(header) );
mitkIpPicFree ( header );
}
m_ReadHeaderTime.Modified();
}
mitk::Image::Pointer mitk::PicFileReader::CreateImage()
{
Image::Pointer output = Image::New();
std::string fileName = this->GetLocalFileName();
mitkIpPicDescriptor *header = mitkIpPicGetHeader(const_cast<char *>(fileName.c_str()), NULL);
if (!header)
{
mitkThrow() << "File could not be read.";
}
header = mitkIpPicGetTags(const_cast<char *>(fileName.c_str()), header);
int channels = 1;
mitkIpPicTSV_t *tsv;
if ((tsv = mitkIpPicQueryTag(header, "SOURCE HEADER")) != NULL)
{
if (tsv->n[0] > 1e+06)
{
mitkIpPicTSV_t *tsvSH;
tsvSH = mitkIpPicDelTag(header, "SOURCE HEADER");
mitkIpPicFreeTag(tsvSH);
}
}
if ((tsv = mitkIpPicQueryTag(header, "ICON80x80")) != NULL)
{
mitkIpPicTSV_t *tsvSH;
tsvSH = mitkIpPicDelTag(header, "ICON80x80");
mitkIpPicFreeTag(tsvSH);
}
if ((tsv = mitkIpPicQueryTag(header, "VELOCITY")) != NULL)
{
++channels;
mitkIpPicDelTag(header, "VELOCITY");
}
if (header == NULL || header->bpe == 0)
{
mitkThrow() << " Could not read file " << fileName;
}
// if pic image only 2D, the n[2] value is not initialized
unsigned int slices = 1;
if (header->dim == 2)
{
header->n[2] = slices;
}
// First initialize the geometry of the output image by the pic-header
SlicedGeometry3D::Pointer slicedGeometry = mitk::SlicedGeometry3D::New();
PicHelper::InitializeEvenlySpaced(header, header->n[2], slicedGeometry);
// if pic image only 3D, the n[3] value is not initialized
unsigned int timesteps = 1;
if (header->dim > 3)
{
timesteps = header->n[3];
}
slicedGeometry->ImageGeometryOn();
ProportionalTimeGeometry::Pointer timeGeometry = ProportionalTimeGeometry::New();
timeGeometry->Initialize(slicedGeometry, timesteps);
// Cast the pic descriptor to ImageDescriptor and initialize the output
output->Initialize(CastToImageDescriptor(header));
output->SetTimeGeometry(timeGeometry);
mitkIpPicFree(header);
return output;
}
void mitkIpPicPutSlice( const char *outfile_name, mitkIpPicDescriptor *pic, mitkIpUInt4_t slice )
{
mitkIpPicDescriptor *pic_in;
FILE *outfile;
size_t ignored;
pic_in = mitkIpPicGetHeader( outfile_name,
NULL );
if( pic_in == NULL )
{
if( slice == 1 )
{
mitkIpBool_t compression;
pic->n[pic->dim] = 1;
pic->dim += 1;
compression = mitkIpPicSetWriteCompression( mitkIpFalse );
mitkIpPicPut( outfile_name, pic );
mitkIpPicSetWriteCompression( compression );
pic->dim -= 1;
pic->n[pic->dim] = 0;
return;
}
else
return;
}
pic_in = mitkIpPicGetTags( outfile_name,
pic_in );
outfile = fopen( outfile_name, "r+b" );
if( outfile == NULL )
{
/*ipPrintErr( "mitkIpPicPut: sorry, error opening outfile\n" );*/
/*return();*/
}
if( pic->dim != pic_in->dim - 1 )
{
fclose( outfile );
return;
}
else if( pic->n[0] != pic_in->n[0] )
{
fclose( outfile );
return;
}
else if( pic->n[1] != pic_in->n[1] )
{
fclose( outfile );
return;
}
if( slice > pic_in->n[pic_in->dim-1] )
pic_in->n[pic_in->dim-1] += 1;
/* write outfile */
/*fseek( outfile, 0, SEEK_SET );*/
rewind( outfile );
ignored = fwrite( mitkIpPicVERSION, 1, sizeof(mitkIpPicTag_t), outfile );
fseek( outfile, sizeof(mitkIpUInt4_t), SEEK_CUR ); /* skip tags_len */
ignored = mitkIpFWriteLE( &(pic_in->type), sizeof(mitkIpUInt4_t), 1, outfile );
ignored = mitkIpFWriteLE( &(pic_in->bpe), sizeof(mitkIpUInt4_t), 1, outfile );
ignored = mitkIpFWriteLE( &(pic_in->dim), sizeof(mitkIpUInt4_t), 1, outfile );
ignored = mitkIpFWriteLE( pic_in->n, sizeof(mitkIpUInt4_t), pic_in->dim, outfile );
fseek( outfile, pic_in->info->pixel_start_in_file + _mitkIpPicSize(pic) * (slice - 1), SEEK_SET );
ignored = mitkIpFWriteLE( pic->data, pic->bpe / 8, _mitkIpPicElements(pic), outfile );
/*fseek( outfile, 0, SEEK_END );*/
fclose( outfile );
mitkIpPicFree(pic_in);
/*return();*/
}
bool ToFCameraMITKPlayerController::OpenCameraConnection()
{
if(!this->m_ConnectionCheck)
{
try
{
mitkIpPicDescriptor* pic = NULL;
mitkIpPicDescriptor* info = NULL;
pic = mitkIpPicGetHeader(const_cast<char *>(this->m_DistanceImageFileName.c_str()), pic);
if (pic==NULL)
{
MITK_ERROR << "Error opening ToF data file " << this->m_InputFileName;
return false;
}
info = mitkIpPicGetTags(const_cast<char *>(this->m_DistanceImageFileName.c_str()), pic);
this->m_PixelStartInFile = info->info->pixel_start_in_file;
if (pic->dim == 2)
{
this->m_ToFImageType = ToFImageType2DPlusT;
}
else if (pic->dim == 3)
{
this->m_ToFImageType = ToFImageType3D;
}
else if (pic->dim == 4)
{
this->m_ToFImageType = ToFImageType2DPlusT;
}
else
{
MITK_ERROR << "Error opening ToF data file: Invalid dimension.";
return false;
}
this->m_CaptureWidth = pic->n[0];
this->m_CaptureHeight = pic->n[1];
this->m_PixelNumber = this->m_CaptureWidth*this->m_CaptureHeight;
this->m_NumberOfBytes = this->m_PixelNumber * sizeof(float);
if (this->m_ToFImageType == ToFImageType2DPlusT)
{
this->m_NumOfFrames = pic->n[3];
}
else
{
this->m_NumOfFrames = pic->n[2];
}
// allocate buffer
this->m_DistanceArray = new float[this->m_PixelNumber];
for(int i=0; i<this->m_PixelNumber; i++) {this->m_DistanceArray[i]=0.0;}
this->m_AmplitudeArray = new float[this->m_PixelNumber];
for(int i=0; i<this->m_PixelNumber; i++) {this->m_AmplitudeArray[i]=0.0;}
this->m_IntensityArray = new float[this->m_PixelNumber];
for(int i=0; i<this->m_PixelNumber; i++) {this->m_IntensityArray[i]=0.0;}
OpenPicFileToData(&(this->m_DistanceInfile), this->m_DistanceImageFileName.c_str());
OpenPicFileToData(&(this->m_AmplitudeInfile), this->m_AmplitudeImageFileName.c_str());
OpenPicFileToData(&(this->m_IntensityInfile), this->m_IntensityImageFileName.c_str());
MITK_INFO << "NumOfFrames: " << this->m_NumOfFrames;
this->m_ConnectionCheck = true;
return this->m_ConnectionCheck;
}
catch(std::exception& e)
{
MITK_ERROR << "Error opening ToF data file " << this->m_InputFileName << " " << e.what();
throw std::logic_error("Error opening ToF data file");
return false;
}
}
else
return this->m_ConnectionCheck;
}
