move directory

[creaImageIO.git] / src / creaImageIODicomScanner.cpp

diff --git a/src/creaImageIODicomScanner.cpp b/src/creaImageIODicomScanner.cpp
new file mode 100644 (file)
index 0000000..43706c1
--- /dev/null
+++ b/src/creaImageIODicomScanner.cpp
@@ -0,0 +1,229 @@
+#include <creaImageIODicomScanner.h>
+#include "creaImageIOSystem.h"
+#include <boost/filesystem.hpp>
+#include "boost/algorithm/string.hpp"
+
+
+
+#include <creaImageIOSystem.h>
+#include "boost/filesystem/path.hpp"
+
+#include <creaImageIOTreeAttributeDescriptor.h>
+#include <vtkStringArray.h>
+#include <creaImageIOGimmick.h>
+#include <gdcmDirectory.h>
+
+#include <fstream>
+
+
+#ifdef _DEBUG
+#define new DEBUG_NEW
+#endif
+namespace creaImageIO
+{
+
+  //=====================================================================
+  DicomImageScanner::DicomImageScanner()
+  {
+         mReader =  vtkGDCMImageReader::New();
+       mscan.ClearTags();
+       b_loaded = false;
+  };
+  //=====================================================================
+  
+  //=====================================================================
+  DicomImageScanner::~DicomImageScanner()
+  {
+         mReader->Delete();
+  }
+  //=====================================================================
+
+  //=====================================================================  
+  bool DicomImageScanner::addDirectory(std::string& filename,  std::map<std::string,std::string>& attr)
+  { 
+               if(!b_loaded)
+       {
+               mscan.ClearTags();
+               std::map<std::string,std::string>::iterator i;
+               int j= 0;
+               for (i=attr.begin();i!=attr.end();++i, j++)
+                 {
+                       if ( i->first == "D0004_1500" ||  i->first == "FullFileName" || i->first == "FullFileDirectory" )
+                       {
+                       
+                       }
+                       else
+                       {
+                       uint16_t el;
+                       uint16_t gr;
+                       
+                       tree::AttributeDescriptor::GetDicomGroupElementFromKey(i->first,gr,el);
+                       mscan.AddTag(gdcm::Tag(gr,el) );
+                       
+                       }
+               }
+               b_loaded = true;
+       }
+         gdcm::Directory d;
+           
+         boost::algorithm::replace_all(filename,"\\", "/");
+         d.Load(filename.c_str(),true);
+         mscan.Scan(d.GetFilenames());
+         
+      return  true;
+        
+  }
+  //=====================================================================
+
+  //=====================================================================
+  vtkImageData* DicomImageScanner::ReadImage(const std::string& filename)
+  {
+    vtkImageData* im = 0;
+    try
+      {
+       mReader->SetFileName(filename.c_str());
+       mReader->Update();
+       im = vtkImageData::New();
+       im->ShallowCopy(mReader->GetOutput());
+      }
+    catch (...)
+      {
+       if (im!=0) im->Delete();
+         im = 0;
+      }
+    return im;
+  }
+
+
+  //=====================================================================
+  
+  //========================================================================
+  std::string DicomImageScanner::irclean(const std::string& str)
+  {
+         if(str.size() > 0)
+         {
+               if (str == "GDCM::Unfound") 
+                 {
+               return "";
+                 }
+               if (str[str.size()-1]==' ')
+                 {
+               return irclean(str.substr(0,str.size()-1));
+                 }
+               if (str[str.size()-1]==0)
+                 {
+               return irclean(str.substr(0,str.size()-1));
+                 }
+         }
+    
+    return str;
+  }
+  //========================================================================
+ 
+  //=====================================================================
+
+void DicomImageScanner::ReadAttributes(const std::string& filename, 
+                     std::map<std::string,std::string>& attr)
+  {
+         std::string name = "E:\\data-images\\dicoms\\CD1\\DICOM\\09112417\\37390000/31582235";
+
+        bool b = mscan.IsKey(filename.c_str());
+    if( b )      {
+                 const gdcm::Scanner::TagToValue &mapping = mscan.GetMapping(filename.c_str());
+                 gdcm::Scanner::TagToValue::const_iterator it = mapping.begin();
+
+                 std::map<std::string, std::string>::iterator i;
+                 int j= 0;
+
+                 
+                 
+                 for (;it != mapping.end(); ++it)
+                 {
+                                       /*std::stringstream val;
+                                       val <<  "D";
+                                       val << std::hex << it->first.GetGroup() ;
+                                       val << "_";;
+                                       val << std::hex <<  it->first.GetElement();
+                                       var >> key*/
+                                char key[12] ;
+                                 
+                                 sprintf(key,"D%04x_%04x", it->first.GetGroup(), it->first.GetElement());
+                                 attr[key] = irclean(it->second);
+                 }
+                 
+                 
+                /* 
+                 
+                 
+                 for (i=attr.begin();i!=attr.end();++i, j++)
+               {*/
+                       if ( attr.find("D0004_1500") != attr.end())
+                       {
+                               boost::filesystem::path full_path(filename);
+                               std::string f = full_path.leaf();
+                               attr["D0004_1500"] = f;
+                       }
+                       if ( attr.find("FullFileName")!= attr.end())
+                       {
+                               attr["FullFileName"] = filename;
+                       }
+                       if ( attr.find("FullFileDirectory" )!= attr.end())
+                       {
+                                 std::string::size_type last_pos = filename.find_last_of("//");
+                                 //find first separator
+                                 attr["FullFileDirectory" ] = filename.substr(0, last_pos);
+                       }
+               //      else
+               //      {
+
+               //              uint16_t el;
+               //              uint16_t gr;
+
+               //              tree::AttributeDescriptor::GetDicomGroupElementFromKey(i->first,gr,el);
+
+               //      mscan.AddTag(gdcm::Tag(gr,el) );
+
+               //      //      const char *value = it->second;
+               //              i->second = irclean(it->second);
+               //              ++it;
+               //      }
+               //}
+       }
+}
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+  const std::string DicomImageScanner::GetStringValueFromTag(const gdcm::DataElement& de)
+{
+  static std::string buffer;
+  buffer = "";  // cleanup previous call
+
+
+    const gdcm::ByteValue *bv = de.GetByteValue();
+    if( bv ) // Can be Type 2
+      {
+      buffer = std::string( bv->GetPointer(), bv->GetLength() );
+      // Will be padded with at least one \0
+      }
+
+
+  // Since return is a const char* the very first \0 will be considered
+  return buffer.c_str();
+}
+  //=====================================================================
+  
+} // namespace creaImageIO
+