Convert bbtk from GDCM to GDCM2 (cmakefiles and cxx files).

[bbtk.git] / packages / gdcmvtk / src / bbgdcmvtkGetXCoherentInfoGdcmReader.cxx

diff --git a/packages/gdcmvtk/src/bbgdcmvtkGetXCoherentInfoGdcmReader.cxx b/packages/gdcmvtk/src/bbgdcmvtkGetXCoherentInfoGdcmReader.cxx
index 092a2a834c1df10f6d009a4d8024c6adb66b0f16..eb9a13454a71d5fb92d88f4331e1037c610a98bd 100644 (file)
--- a/packages/gdcmvtk/src/bbgdcmvtkGetXCoherentInfoGdcmReader.cxx
+++ b/packages/gdcmvtk/src/bbgdcmvtkGetXCoherentInfoGdcmReader.cxx
@@ -2,16 +2,25 @@
 #include "bbgdcmvtkPackage.h"
 
 #include "gdcmFile.h"
-#include "gdcmFileHelper.h"
 #include "vtkImageData.h"
-#include "vtkGdcmReader.h"
 #include <vtkIndent.h>
+#if defined USE_GDCM
+#include "gdcmFileHelper.h"
+#endif
+#if defined USE_GDCM2
+       #include <gdcmReader.h>
+       #include <gdcmImageHelper.h>
+       #include <gdcmIPPSorter.h>
+       #include <vtkGDCMImageReader.h>
+       #include "vtkStringArray.h"
+#endif
 
 namespace bbgdcmvtk
 {
 
 BBTK_ADD_BLACK_BOX_TO_PACKAGE(gdcmvtk,GetXCoherentInfoGdcmReader)
 BBTK_BLACK_BOX_IMPLEMENTATION(GetXCoherentInfoGdcmReader,bbtk::AtomicBlackBox);
+#if defined USE_GDCM
 void GetXCoherentInfoGdcmReader::Process()
 {
  // Read the *first* image file (a SET of file names is given as input) 
@@ -86,6 +95,84 @@ void GetXCoherentInfoGdcmReader::Process()
 
    bbSetOutputOut( reader->GetOutput() );
 }
+#endif USE_GDCM
+
+#if defined USE_GDCM2
+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 )
+   {
+      delete read;
+      bbSetOutputOut(0);
+      return;
+   }
+    
+ // Get info from the first image file
+   const gdcm::File &f = read->GetFile();
+   int i;
+   std::vector<double> v_iop;
+   const gdcm::DataElement &deIop = f.GetDataSet().GetDataElement(gdcm::Tag(0x0020, 0x0037));
+   std::stringstream ss;
+   deIop.GetValue().Print(ss);
+   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]));
+   bbSetOutputIOP(v_iop );
+ 
+  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++)
+               v_ipp.push_back((float)(ipp[i]));
+   bbSetOutputIPP(v_ipp );
+
+// Add *all the files* to the IPPsorter
+     gdcm::IPPSorter s;
+        s.SetComputeZSpacing( true );
+     s.SetZSpacingTolerance( 1e-3 );
+     std::vector<std::string> gii = bbGetInputIn();
+     s.Sort(gii);
+
+        //l = sh->GetFirstSingleSerieUIDFileSet();
+        // no Test if we have multiple series
+        //s.GetFilenames();
+        //int nbFiles;
+
+       double zspacing = 0.;
+       zspacing = s.GetZSpacing();
+       std::vector<double> v_pixelspacing = gdcm::ImageHelper::GetSpacingValue(f);
+       v_pixelspacing.push_back( v_pixelspacing[0] );
+       v_pixelspacing.push_back( v_pixelspacing[1] );
+       v_pixelspacing.push_back( zspacing );
+       bbSetOutputPixelSpacing(v_pixelspacing);
+
+   if (reader!=NULL)
+   { 
+      reader->Delete();
+      reader=NULL;
+   }
+   reader = vtkGDCMImageReader::New();
+   vtkStringArray *files = vtkStringArray::New();
+   std::vector< std::string >::const_iterator it = s.GetFilenames().begin();
+   for( ; it != s.GetFilenames().end(); ++it)
+   {
+         const std::string &f = *it;
+      files->InsertNextValue( f.c_str() );
+    }
+   reader->SetFileNames(files);
+   reader->Update();
+   reader->GetOutput();
+   bbSetOutputOut( reader->GetOutput() );
+}
+#endif USE_GDCM2
 
 void GetXCoherentInfoGdcmReader::bbUserSetDefaultValues()
 {
@@ -100,6 +187,7 @@ void GetXCoherentInfoGdcmReader::bbUserInitializeProcessing()
        
 }
 
+#if defined USE_GDCM
 void GetXCoherentInfoGdcmReader::bbUserFinalizeProcessing()
 {
    if(reader)
@@ -109,6 +197,15 @@ void GetXCoherentInfoGdcmReader::bbUserFinalizeProcessing()
    if(sh)
       sh->Delete();      
 }
+#endif
+
+#if defined USE_GDCM2
+void GetXCoherentInfoGdcmReader::bbUserFinalizeProcessing()
+{
+   if(reader)
+      reader->Delete();
+}
+#endif
 
 }
 // EO namespace bbgdcmvtk