FILE(GLOB SOURCES_CREAIMAGEIO_IMG_READER
creaImageIOSimpleView.cpp
+ creaImageIOUnMosaicVtkImageData.cpp
creaImageIOAbstractImageReader.cpp
creaImageIOImageReader.cpp
creaImageIOUltrasonixImageReader.cpp
# ------------------------------------------------------------------------
*/
-
-#include "creaImageIOSimpleView.h"
#include "boost/filesystem/operations.hpp"
#include "boost/filesystem/fstream.hpp"
+#include "creaImageIOSimpleView.h"
+#include "creaImageIOUnMosaicVtkImageData.h"
+
namespace creaImageIO
{
bool SimpleView::readFile( std::vector<std::string> i_filenames, // in information names
std::vector<std::map <std::string , std::string> > &i_imgAttr, // out information attributes names-values
std::vector<vtkImageData *> &i_img) // out information vtkImageData
{
+printf("EED SimpleView::readFile 0\n");
+
+ //Mosaic Attribute for Simens
+ i_attr.push_back("D0019_100a"); // Number of images in mosaic (Simens)
+ i_attr.push_back("D0018_0088"); // Spacing Between Slices
+
+
+
+ creaImageIOUnMosaicVtkImageData Mosaic;
+ vtkImageData* tmpImg1;
+ vtkImageData* tmpImg2;
+ int numberOfImagesInMosaic;
+ double spc[3];
+ double spcZ;
+
bool bresult, bfinal = true;
ImageReader *mReader = new ImageReader();
std::vector<std::string>::iterator it = i_filenames.begin();
mReader->getAttributes( (*it).c_str() , mapAttr, i_attr ); // filename, outMapAttr-NameValue, inVectAttributeName
i_imgAttr.push_back( mapAttr );
- //UnMosaic step..
+//EED borrame
+// i_img.push_back( mReader->ReadImage( (*it).c_str() ) );
+
+printf("EED SimpleView::readFile 1\n");
+
+ // EED 18 octt 2014
+ std::map <std::string , std::string>::iterator itMapAttr;
+ std::string numberOfImagesInMosaicStr="";
+ std::string spaceBetweenSliceStr="";
+
+ itMapAttr = mapAttr.find("D0019_100a");
+ if ( itMapAttr!=mapAttr.end() ) numberOfImagesInMosaicStr = itMapAttr->second;
+
+// std::string numberOfImagesInMosaicStr = mapAttr.find("D0019_100a")->second;
+printf("EED SimpleView::readFile 1.1\n");
+ itMapAttr = mapAttr.find("D0018_0088");
+ if ( itMapAttr!=mapAttr.end() ) spaceBetweenSliceStr = itMapAttr->second;
+
+// std::string spaceBetweenSliceStr = mapAttr.find("D0018_0088")->second;
+printf("EED SimpleView::readFile 1.2\n");
+ if (numberOfImagesInMosaicStr=="")
+ {
+printf("EED SimpleView::readFile 2\n");
+ i_img.push_back( mReader->ReadImage( (*it).c_str() ) );
+ } else {
+printf("EED SimpleView::readFile 3\n");
+ numberOfImagesInMosaic = atoi(numberOfImagesInMosaicStr.c_str());
+ spcZ = atoi(spaceBetweenSliceStr.c_str());
+ tmpImg1 = mReader->ReadImage( (*it).c_str() ) ;
+ tmpImg1->GetSpacing( spc );
+ tmpImg2 = Mosaic.unMosaic( tmpImg1 , numberOfImagesInMosaic );
+ tmpImg2->SetSpacing( spc[0], spc[1], spcZ );
+ i_img.push_back( tmpImg2 );
+ }// elemet
- i_img.push_back( mReader->ReadImage( (*it).c_str() ) );
} else {
printf("ERROR. Impossible to read file %s\n", (*it).c_str() );
bfinal = false;
} // if
} // for
delete mReader;
+printf("EED SimpleView::readFile 4\n");
+
return bfinal;
}
--- /dev/null
+/*
+# ---------------------------------------------------------------------
+#
+# Copyright (c) CREATIS (Centre de Recherche en Acquisition et Traitement de l'Image
+# pour la Sante)
+# Authors : Eduardo Davila, Frederic Cervenansky, Claire Mouton
+# Previous Authors : Laurent Guigues, Jean-Pierre Roux
+# CreaTools website : www.creatis.insa-lyon.fr/site/fr/creatools_accueil
+#
+# This software is governed by the CeCILL-B license under French law and
+# abiding by the rules of distribution of free software. You can use,
+# modify and/ or redistribute the software under the terms of the CeCILL-B
+# license as circulated by CEA, CNRS and INRIA at the following URL
+# http://www.cecill.info/licences/Licence_CeCILL-B_V1-en.html
+# or in the file LICENSE.txt.
+#
+# As a counterpart to the access to the source code and rights to copy,
+# modify and redistribute granted by the license, users are provided only
+# with a limited warranty and the software's author, the holder of the
+# economic rights, and the successive licensors have only limited
+# liability.
+#
+# The fact that you are presently reading this means that you have had
+# knowledge of the CeCILL-B license and that you accept its terms.
+# ------------------------------------------------------------------------
+*/
+
+#include "creaImageIOUnMosaicVtkImageData.h"
+#include <math.h>
+
+
+namespace creaImageIO
+{
+
+// ------------------------------------------------------------------------
+creaImageIOUnMosaicVtkImageData::creaImageIOUnMosaicVtkImageData()
+{
+}
+
+// ------------------------------------------------------------------------
+creaImageIOUnMosaicVtkImageData::~creaImageIOUnMosaicVtkImageData()
+{
+}
+
+// ------------------------------------------------------------------------
+std::vector<vtkImageData*> creaImageIOUnMosaicVtkImageData::unMosaicVectorVtkImageData (std::vector<vtkImageData*> imageInput, std::vector<int> NbImagesInMosaicVector)
+{
+ std::vector<int> nbImagesInMosaic;
+
+ for(int i = 0; i < NbImagesInMosaicVector.size(); i++)
+ {
+ nbImagesInMosaic.push_back(NbImagesInMosaicVector[i]);
+ }
+
+ if(imageInput.size() != NbImagesInMosaicVector.size())
+ {
+ for(int j = NbImagesInMosaicVector.size(); j < imageInput.size(); j++)
+ {
+ nbImagesInMosaic.push_back( NbImagesInMosaicVector[NbImagesInMosaicVector.size()-1] );
+ }
+ }
+
+ if ( nbImagesInMosaic.size()==0 )
+ {
+ std::cout << "VtkUnMosaicVectorVtkImageData ERROR: The number of Images by mosaic is not set " << std::endl;
+ }
+
+ std::vector<vtkImageData*> imageIn = imageInput;
+
+ std::vector<vtkImageData*> mImageOut;
+ for (int i = 0 ; i < (unsigned int)imageIn.size() ; i++)
+ {
+ mImageOut.push_back( unMosaic(imageIn[i], nbImagesInMosaic[i]) );
+ }
+
+ return mImageOut;
+}
+
+
+// ------------------------------------------------------------------------
+vtkImageData * creaImageIOUnMosaicVtkImageData::unMosaic(vtkImageData *imageIn, int numberOfImagesInMosaic)
+{
+ int nbImagesPerRow = ceil( sqrt(numberOfImagesInMosaic) );
+ int inputdims[3];
+ int outputdims[3];
+ imageIn->GetDimensions (inputdims);
+ unsigned short *input = (unsigned short *)(imageIn->GetScalarPointer());
+ imageIn->Update();
+
+ unsigned int div = (unsigned int)ceil(sqrt( (double)numberOfImagesInMosaic ) );
+ outputdims[0] = inputdims[0] / div;
+ outputdims[1] = inputdims[1] / div;
+ outputdims[2] = numberOfImagesInMosaic;
+
+ vtkImageData *vtkImageOut;
+ vtkImageOut = vtkImageData::New();
+ vtkImageOut->SetDimensions( outputdims );
+ vtkImageOut->SetExtent(0,outputdims[0]-1,0,outputdims[1]-1,0,outputdims[2]-1);
+ vtkImageOut->SetWholeExtent(0,outputdims[0]-1,0,outputdims[1]-1,0,outputdims[2]-1);
+ vtkImageOut->SetNumberOfScalarComponents(1);
+//vtkImageOut->SetSpacing( blabla );
+ vtkImageOut->SetScalarType( VTK_UNSIGNED_SHORT );
+ vtkImageOut->AllocateScalars();
+ vtkImageOut->Update();
+
+ unsigned short *output =(unsigned short *)(vtkImageOut->GetScalarPointer());
+
+ unsigned short *dest = output;
+ int dimXImageElem = outputdims[0];
+ int dimYImageElem = outputdims[1];
+ int lgrImage = dimXImageElem*dimYImageElem;
+ int debImage;
+ int i,j;
+ for (i=0; i<numberOfImagesInMosaic; i++)
+// for (i=numberOfImagesInMosaic-1; i>=0; i--)
+ {
+ debImage=(i/nbImagesPerRow) * lgrImage*nbImagesPerRow + (i%nbImagesPerRow)*dimXImageElem;
+ for(j=0; j<dimYImageElem; j++)
+// for(int j=dimYImageElem-1; j>=0; j--)
+ {
+ memcpy(dest, input+debImage, dimXImageElem*sizeof(unsigned short));
+ debImage += dimXImageElem*nbImagesPerRow;
+ dest += dimXImageElem;
+ }
+ }
+ return vtkImageOut;
+}
+
+
+} // namespace creaImageIO
+
+
--- /dev/null
+/*
+# ---------------------------------------------------------------------
+#
+# Copyright (c) CREATIS (Centre de Recherche en Acquisition et Traitement de l'Image
+# pour la Sante)
+# Authors : Eduardo Davila, Frederic Cervenansky, Claire Mouton
+# Previous Authors : Laurent Guigues, Jean-Pierre Roux
+# CreaTools website : www.creatis.insa-lyon.fr/site/fr/creatools_accueil
+#
+# This software is governed by the CeCILL-B license under French law and
+# abiding by the rules of distribution of free software. You can use,
+# modify and/ or redistribute the software under the terms of the CeCILL-B
+# license as circulated by CEA, CNRS and INRIA at the following URL
+# http://www.cecill.info/licences/Licence_CeCILL-B_V1-en.html
+# or in the file LICENSE.txt.
+#
+# As a counterpart to the access to the source code and rights to copy,
+# modify and redistribute granted by the license, users are provided only
+# with a limited warranty and the software's author, the holder of the
+# economic rights, and the successive licensors have only limited
+# liability.
+#
+# The fact that you are presently reading this means that you have had
+# knowledge of the CeCILL-B license and that you accept its terms.
+# ------------------------------------------------------------------------
+*/
+
+#ifndef _CREAVTKUNMOSAICVECTORVTKIMAGEDATA_H_
+#define _CREAVTKUNMOSAICVECTORVTKIMAGEDATA_H_
+#include <vector>
+#include "iostream"
+#include "vtkImageData.h"
+//---------------------------------------------
+// Class Name: creaVtkUnMosaicVectorVtkImageData
+// [classdescription]
+//---------------------------------------------
+
+
+
+namespace creaImageIO
+{
+
+
+ class creaImageIOUnMosaicVtkImageData
+ {
+
+ //---------------------------------------------
+ //Methods and attributes exposed to other classes
+ //---------------------------------------------
+ public :
+ creaImageIOUnMosaicVtkImageData();
+ ~creaImageIOUnMosaicVtkImageData();
+ std::vector<vtkImageData*> unMosaicVectorVtkImageData (std::vector<vtkImageData*> bbGetInputIn, std::vector<int> NbImagesInMosaicVector);
+ vtkImageData * unMosaic(vtkImageData *imageIn, int numberOfImagesInMosaic);
+
+ //--Method template----------------------------
+ // void FunctionName(int& parameterA);
+
+
+ //---------------------------------------------
+ //Methods and attributes exposed only to classes
+ //that are derived from this class
+ //---------------------------------------------
+ protected:
+
+ //---------------------------------------------
+ //Methods and attributes only visible by this class
+ //---------------------------------------------
+ private:
+
+ };
+
+
+} //namespace creaImageIO
+
+
+//-end of _CREAVTKUNMOSAICVECTORVTKIMAGEDATA_H_------------------------------------------------------
+#endif
git://git.creatis.insa-lyon.fr / creaImageIO.git / commitdiff