X-Git-Url: https://git.creatis.insa-lyon.fr/pubgit/?a=blobdiff_plain;f=packages%2Fgdcmvtk%2Fsrc%2FbbgdcmvtkGetXCoherentInfoGdcmReader.cxx;h=2bbf54205c3d2cb9b3e58a091ea1a840de45d107;hb=1709248f43dcb7745909d1d59109f553ee0ae700;hp=550148b057ad8affa7f220bfa146ec2aa8611d42;hpb=724236f8156e84f206c497b755135fbdd2ccb889;p=bbtk.git

diff --git a/packages/gdcmvtk/src/bbgdcmvtkGetXCoherentInfoGdcmReader.cxx b/packages/gdcmvtk/src/bbgdcmvtkGetXCoherentInfoGdcmReader.cxx
index 550148b..2bbf542 100644
--- a/packages/gdcmvtk/src/bbgdcmvtkGetXCoherentInfoGdcmReader.cxx
+++ b/packages/gdcmvtk/src/bbgdcmvtkGetXCoherentInfoGdcmReader.cxx
@@ -59,14 +59,21 @@ vtkImageData* GetXCoherentInfoGdcmReader::CreateDefaultImage()
 	sizeZ = 1;
 	vtkImageData *newImage = vtkImageData::New();
    	newImage->Initialize();
-   	newImage->SetScalarTypeToUnsignedChar();
    	newImage->SetSpacing( 1,1,1 );
    	newImage->SetDimensions(  sizeX,sizeY,sizeZ );
-   	newImage->SetWholeExtent(0,  sizeX-1,0,sizeY-1,0,sizeZ-1 );
    	newImage->SetExtent(0,  sizeX-1,0,sizeY-1,0,sizeZ-1 );
+
+//EED 2017-01-01 Migration VTK7
+#if VTK_MAJOR_VERSION <= 5
+   	newImage->SetWholeExtent(0,  sizeX-1,0,sizeY-1,0,sizeZ-1 );
+   	newImage->SetScalarTypeToUnsignedChar();
    	newImage->SetNumberOfScalarComponents(1);
    	newImage->AllocateScalars();
    	newImage->Update();
+#else
+   	newImage->AllocateScalars(VTK_UNSIGNED_CHAR,1);
+#endif
+
 	memset ( (void*)newImage->GetScalarPointer(), 0, sizeX*sizeY*1 );
    	for (i=0; i<sizeX; i++)
    	{
@@ -82,7 +89,14 @@ void GetXCoherentInfoGdcmReader::Process()
 {
  // Read the *first* image file (a SET of file names is given as input) 
    f = GDCM_NAME_SPACE::File::New();
-   f->SetFileName( bbGetInputIn()[0] );
+
+	if ( bbGetInputIn().size()!=0 )
+	{
+		f->SetFileName( bbGetInputIn()[0] );
+	} else {
+		f->SetFileName( "" );
+	} // if
+
    bool res = f->Load();  
    if ( !res )
    {
@@ -90,7 +104,8 @@ void GetXCoherentInfoGdcmReader::Process()
       	f->Delete();
       	bbSetOutputOut( CreateDefaultImage() );
       	return;
-   }
+   } // if res
+
  // Get info from the first image file
    int i;
    std::vector<double> v_iop;
@@ -98,7 +113,9 @@ void GetXCoherentInfoGdcmReader::Process()
    f->GetImageOrientationPatient(iop);
    
    for(i=0; i< 6; i++)
+	{
       v_iop.push_back(iop[i]);
+	} // for i
    bbSetOutputIOP(v_iop );
  
    std::vector<double> v_ipp;
@@ -106,19 +123,21 @@ void GetXCoherentInfoGdcmReader::Process()
    f->GetImagePositionPatient(ipp);
    
    for(i=0; i< 3; i++)
+	{
       v_ipp.push_back(ipp[i]);
+	} // for i
    bbSetOutputIPP(v_ipp );
 
 // Add *all the files* to the SerieHelper
    sh = GDCM_NAME_SPACE::SerieHelper::New();
    std::vector<std::string> gii = bbGetInputIn();
-   
+
    for(std::vector<std::string>::iterator it = gii.begin();
                                           it != gii.end();
                                         ++it)
    {
       sh->AddFileName(*it);
-   }
+   } //for vector
 
    GDCM_NAME_SPACE::FileList::const_iterator it;
    GDCM_NAME_SPACE::FileList *l;
@@ -126,11 +145,14 @@ void GetXCoherentInfoGdcmReader::Process()
    // Should only contain one!
    l = sh->GetFirstSingleSerieUIDFileSet();
 
-   int nbFiles;
+	if (l==NULL)
+	{	
+		return;
+	}
+
    double zspacing = 0.;
-   nbFiles = l->size() ;
    sh->OrderFileList(l); // this one should compute the *actual* Z Spacing!
-   zspacing = sh->GetZSpacing();
+   zspacing 		= sh->GetZSpacing();
    std::vector<double> v_pixelspacing;
    v_pixelspacing.push_back( f->GetXSpacing() );
    v_pixelspacing.push_back( f->GetYSpacing() );
@@ -140,23 +162,50 @@ void GetXCoherentInfoGdcmReader::Process()
 //   }
    bbSetOutputPixelSpacing(v_pixelspacing);
 
-   if (reader!=NULL)
-   { 
-      reader->Delete();
-      reader=NULL;
-   }
-   reader = vtkGdcmReader::New();
-	
-	//EED 21 mars 2012  FLIP probleme  ..PLOP..
-	reader->SetFlipY(false);
+	VectorMapInfoDicom vectormapinfodicom;
+	uint16_t group;
+	uint16_t elem;
+	std::string key;
+	std::string strTagValue;  // read on disc
+	int iTag,sizeDicomTagsVector=bbGetInputDicomTags().size();
+   	GDCM_NAME_SPACE::FileList::const_iterator iitt = l->begin();
+   	//iitt ++;
 
-	
-   //reader->SetFileName( bbGetInputIn().c_str() );
-   reader->SetCoherentFileList(l);
-   reader->Update();
-   reader->GetOutput();
+   	for ( ; iitt != l->end(); ++iitt)
+   	{
+		MapInfoDicom mapinfodicom;
+	  	for (iTag=0; iTag<sizeDicomTagsVector; iTag++)
+		{
+			key = bbGetInputDicomTags()[iTag];
+			group = elem = 0;
+			if ( (key.size()==10) && (key[0] == 'D') && (key[5] == '_') )
+			{
+			 	sscanf(key.c_str(),"D%04hx_%04hx ",&group,&elem);  
+			}// if key
+		  	strTagValue = (*iitt)->GetEntryString(group,elem);
+			mapinfodicom.insert ( std::pair<std::string,std::string>(key,strTagValue) );
+		} // for iTag
 
-   bbSetOutputOut( reader->GetOutput() );
+		vectormapinfodicom.push_back( mapinfodicom );
+   } // for iitt
+   bbSetOutputDicomInfo( vectormapinfodicom );
+
+	if (bbGetInputReadRaw()==true)
+	{
+	   if (reader!=NULL)
+	   { 
+		  reader->Delete();
+		  reader = NULL;
+	   }
+	   reader = vtkGdcmReader::New();
+		//EED 21 mars 2012  FLIP probleme  ..PLOP..
+		reader->SetFlipY(false);
+	   //reader->SetFileName( bbGetInputIn().c_str() );
+	   reader->SetCoherentFileList(l);
+	   reader->Update();
+	   reader->GetOutput();
+	   bbSetOutputOut( reader->GetOutput() );
+	} // if bGetInputReadRaw
 }
 #endif
 // endif USE_GDCM
@@ -167,7 +216,6 @@ void GetXCoherentInfoGdcmReader::Process()
  // Read the *first* image file (a SET of file names is given as input) 
 	gdcm::Reader *read = new gdcm::Reader();
 	reader->SetFileName( bbGetInputIn()[0].c_str() );
-  
 	bool res = read->Read();  
   	if ( !res )
    	{
@@ -176,8 +224,6 @@ void GetXCoherentInfoGdcmReader::Process()
       	return;
    	}
     
-
-
  // Get info from the first image file
    const gdcm::File &f = read->GetFile();
    int i;
@@ -188,16 +234,20 @@ void GetXCoherentInfoGdcmReader::Process()
    gdcm::Element<gdcm::VR::DS,gdcm::VM::VM6> iop;
    iop.Read( ss );
    for(i=0; i< 6; i++)
-      v_iop.push_back((float)(iop[i]));
+   {
+      	v_iop.push_back((float)(iop[i]));
+   }
    bbSetOutputIOP(v_iop );
  
-  std::vector<double> v_ipp;
+   std::vector<double> v_ipp;
    const gdcm::DataElement &deIpp = f.GetDataSet().GetDataElement(gdcm::Tag((0x0020,0x0032)));
    deIpp.GetValue().Print(ss);
    gdcm::Element<gdcm::VR::DS,gdcm::VM::VM3> ipp;
    ipp.Read( ss );
-	  for(i=0; i< 3; i++)
+   for(i=0; i< 3; i++)
+	{
 		v_ipp.push_back((float)(ipp[i]));
+	} // for 3
    bbSetOutputIPP(v_ipp );
 
 // Add *all the files* to the IPPsorter
@@ -242,9 +292,11 @@ void GetXCoherentInfoGdcmReader::Process()
 
 void GetXCoherentInfoGdcmReader::bbUserSetDefaultValues()
 {
+   reader=NULL;
    std::vector<std::string> init;
    init.push_back("");
    bbSetInputIn(init);  
+   bbSetInputReadRaw(true);  
    //reader=NULL;   /// \TODO fixme JPR
 }
 
@@ -257,11 +309,17 @@ void GetXCoherentInfoGdcmReader::bbUserInitializeProcessing()
 void GetXCoherentInfoGdcmReader::bbUserFinalizeProcessing()
 {
    if(reader)
+	{
       reader->Delete();
+	} // if reader
    if(f)
+	{
       f->Delete();
+	} // if f
    if(sh)
+	{
       sh->Delete();      
+	} // if sh
 }
 #endif
 
@@ -269,7 +327,9 @@ void GetXCoherentInfoGdcmReader::bbUserFinalizeProcessing()
 void GetXCoherentInfoGdcmReader::bbUserFinalizeProcessing()
 {
    if(reader)
+	{
       reader->Delete();
+	}
 }
 #endif