run creaBruker with gdcm2

[creaBruker.git] / lib / src1 / bruker2dicom2.h

diff --git a/lib/src1/bruker2dicom2.h b/lib/src1/bruker2dicom2.h
new file mode 100644 (file)
index 0000000..d047865
--- /dev/null
+++ b/lib/src1/bruker2dicom2.h
@@ -0,0 +1,161 @@
+#ifndef BRUKER2DICOM2_H
+#define BRUKER2DICOM2_H
+
+#include <gdcmReader.h>
+#include "gdcmDirectory.h"
+#include <vtkGDCMImageReader.h>
+#include <gdcmScanner.h>
+
+#include "gdcmByteSwap.h"
+#include "gdcmSwapCode.h"
+#include "gdcmFilename.h"
+#include "gdcmDataSet.h"
+
+#include "gdcmImageWriter.h"
+#include "gdcmImage.h"
+#include "gdcmWriter.h"
+#include "gdcmReader.h"
+#include "gdcmUIDGenerator.h"
+//
+//#include "gdcmFile.h"
+//#include "gdcmFileHelper.h"
+//#include "gdcmCommon.h"
+//#include "gdcmDebug.h"
+//#include "gdcmUtil.h"
+//#include "gdcmDirList.h"
+//
+//#include "gdcmArgMgr.h"
+#include "brukerSystem.h"
+#include "brukerdataset.h"
+#include "brukerkspaceobject.h"
+#include "brukerimage.h"
+#include <string>
+#include <iostream>
+#include <sstream>
+
+  // file separator
+#if defined(_WIN32)
+#define VALID_FILE_SEPARATOR "\\"
+#define INVALID_FILE_SEPARATOR "/"
+#else
+#define INVALID_FILE_SEPARATOR "\\"
+#define VALID_FILE_SEPARATOR "/"
+#endif
+
+class __declspec( dllexport ) Bruker2Dicom {
+
+public:
+ /*! \brief Constructor
+*/
+  Bruker2Dicom () /* : verbose(0), mhd(0), dicom(0), day(O)*/ {};
+/*! \brief Destructor
+*/
+  ~Bruker2Dicom (){};
+
+  void SetInputDirectory (const std::string &i) { InputDirName   = i;}
+  void SetOutputDirectory(const std::string &o) { OutputDirName  = o;}
+  void SetConvertModeToDicom()                  { dicom = 1; mhd = 0;}
+  void SetConvertModeToMhd()                    { dicom = 0; mhd = 1;}  
+  bool Execute();
+  
+  /* 
+  // For debugging pupose only.
+  //Don't need accessors : Attributes are 'public' 
+  
+  void SetVerbose(int v) { verbose = v;}
+  void SetMhd(int m)     { mhd = m;    }
+  void SetDicom(int d)   { dicom = d;  }
+  */     
+
+private :
+
+void MakeDicomImage(unsigned char *tabPixels, 
+              int X, 
+              int Y,
+              int nbFrames,
+              int pixelSize,
+              double spacingX, double spacingY, double sliceDistance, 
+              std::string dcmImageName,
+              const std::string &patientName,
+              const char *day,
+              std::string &studyUID,
+              std::string &serieUID,
+              std::string &studyDescr,
+              std::string &serieDescr,
+             std::string &strStudyTimeDate,
+              int imgNum, int  imagecontenttype//gdcm2 dont have such things, I think, as ImageContentTYpe 
+      );
+      
+std::vector<BrukerImage> CreateImageSet ( );
+
+void getImhDataType(BrukerFieldData &bDPT, 
+                    std::string &mhdDataPixelType, 
+                   int &pixelSize);
+                   
+void cleanString(std::string &s);
+
+bool CreateDirectory(const std::string &dirNameout);
+
+int CheckUserDirectory(std::string &userDirName);
+void DealWithMultiStudyDirectory(gdcm::Directory::FilenamesType &fileNames,const  std::string &currentOutputDirName);
+void DealWithSingleStudyDirectory (const std::string &dirname,const  std::string &currentOutputDirName) ;
+
+void DealWithNiveau1(std::string &level1Directory, std::string &currentOutputDirName);
+void DealWithNiveau2(std::string &level2Directory, std::string &currentOutputDirName);
+void DealWithNiveau3(std::string &level3Directory, std::string &currentOutputDirName);
+                   
+void dealWithCarto(gdcm::Directory::FilenamesType &fileNames, int NX, int NY, int nbSlices, 
+                   double fovX, double fovY, double sliceDistance,
+                   char *copyFile, std::string &currentOutputDirName, 
+                  char *outputMhdFileName, char *output2dseqCartoName);
+
+const std::string createDirectory(const std::string &i_name,const std::string &i_dir);
+ std::string findFile(const std::string &i_dir,  const std::string i_name);
+public:
+
+// these ones are for debugging only
+// don't bbfy the accessors.
+
+   int verbose;
+   const char *day;
+       
+private :
+   std::string InputDirName;
+   std::string OutputDirName;
+
+   bool subjectFound;
+   bool acqpFound;
+   
+   std::string subject_entry;
+   std::string subject_position;
+   std::string subject_date;
+   std::string subject_study_name;
+ 
+   int mhd;
+   int dicom;
+     
+   int nbSlices;
+   BrukerDataSet br_subject;
+   BrukerDataSet br_acqp;
+   BrukerDataSet br_method;
+   BrukerDataSet br_d3proc;
+   BrukerDataSet br_isa;
+   BrukerDataSet br_reco;
+
+   std::vector<BrukerImage> imageSet;
+
+// For DICOM images.
+
+   std::string strStudyUID; 
+   std::string strSerieUID; 
+   std::string strStudyDescr; 
+   std::string strSerieDescr;
+   std::string strStudyTimeDate;
+   std::string strPatientName;
+   std::string subject_name; // cleaned strPatientName
+ 
+   int serieNumber;
+   int instanceNumber;      
+};
+
+#endif