[OpenWalnut-Dev] Write file reader for WDataSetScalar

[Sebastian Eichelbaum]

Hi 

Please be a little bit more specific. What is the error in the histogramView? You verified that each value is between 0-255? Is it possible to send your most recent dataset you wrote with OW as nifti?

Thank you.
Sebastian

Bye
Sebastian

On Mon, 14 May 2012, Frank Zisko wrote:

> Now I got the correct order. In imagej I can see the data set
> output_04.nii.gz correctly. But OW is still black. When I re-read the
> saved output.nii datas, too. The HistogrammView is also on error. I
> don't get my misstake.
> All values are int between 0 and 255;
> 
> Am Montag, den 14.05.2012, 21:36 +0200 schrieb Frank Zisko:
> > Hi,
> > 
> > I changed the read mode. But ... I'm still confused.
> > 
> > I looked at file in imagej. It looks a super little bit better, but it's
> > still wrong.
> > 
> > Here some data sets in a shared dropbox folder:
> > https://www.dropbox.com/sh/u1iiga8nrs4vosv/gdsPaPSd7W
> > ( see in comments what changes makes the datasets )
> > 
> > I'm not shure if the mode of reading the volume is the only one error I
> > do. I can'T display the HistogrammView for any data set. 
> > 
> > 
> > 
> > 
> > SOURCE
> > 
> > #include ...
> > [...]
> > boost::shared_ptr< WDataSet > WReaderMy::read()
> > {
> >      m_ifs = boost::shared_ptr< std::ifstream >( new std::ifstream() );
> >      m_ifs->open( m_fname.c_str(), std::ifstream::in |
> > std::ifstream::binary );
> > [...]
> >      wlog::info( "WReaderMy" ) << "Read array ...";
> >      // My Data Array.
> >      int voxelCount = dimX * dimY * dimZ;
> >      int tensorDim = 1; // Scalar values.
> >      int order = 0; // ?
> >      boost::shared_ptr< std::vector< int > > myData =   
> > boost::shared_ptr< std::vector< int > >( new std::vector< int >(  
> > voxelCount ) );
> > 
> > // ##################################################
> >     int tmp = 0;
> >     int index = 0;
> >     for( int x = 0; x < dimX; x++)
> >     {
> >         for(int y = 0; y < dimY; y++)
> >         {
> >             for(int z = 0; z < dimZ; z++)
> >             {
> >                 m_ifs->read( reinterpret_cast<char*>(&tmp),1 );
> >                 //index = x*dimY*dimZ + y*dimZ + z; // output_01
> >                 //index = (voxelCount-1) - (x*dimY*dimZ + y*dimZ +
> > z); // output_02 reversed output_01
> >                 //index = (dimX-1-x) + y*(dimX-1) +
> > z*(dimX-1)*(dimY-1); // output_03
> >                 index = z*dimY*dimX + y*dimX + x; // output_04
> >                 (*vmrData)[index] = tmp;
> >             }
> >         }
> >     }
> >  // ###########################################
> >      wlog::info( "WReaderMy" ) << "Read array ... Done.";
> > 
> >      boost::shared_ptr< WValueSetBase > myValueSet; // For creatiung  
> > DataSetScalar ( WValueSetBase, WGrid).
> >      myValueSet = boost::shared_ptr< WValueSetBase >( new WValueSet<  
> > int >( order, tensorDim, myData) );
> > 
> > 
> > [...]
> >      boost::shared_ptr< WGrid > myGrid;
> >      myGrid = boost::shared_ptr< WGridRegular3D >( new WGridRegular3D(
> > dimX, dimY, dimZ, WGridTransformOrtho( getStandardTransform() ) ) );
> >      boost::shared_ptr< WDataSet > myDataSet;
> >      wlog::debug( "WReaderMy" ) << "Load as WDataSetScalar";
> >      myDataSet = boost::shared_ptr< WDataSet >( new WDataSetScalar(  
> > myValueSet, myGrid ) );
> >      myDataSet->setFilename( m_fname );
> >      m_ifs->close();
> >      return myDataSet;
> > }
> 
> 
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-- 
Dipl.-Inf. Sebastian Eichelbaum
Universität Leipzig
Institut für Informatik
Abteilung Bild- und Signalverarbeitung
PF 100920
D-04009 Leipzig