mitkGlobalImageFeaturesParameter.h

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/*============================================================================
 
The Medical Imaging Interaction Toolkit (MITK)
 
Copyright (c) German Cancer Research Center (DKFZ)
All rights reserved.
 
Use of this source code is governed by a 3-clause BSD license that can be
found in the LICENSE file.
 
============================================================================*/
 
#ifndef mitkGlobalImageFeaturesParameter_h
#define mitkGlobalImageFeaturesParameter_h
 
#include <MitkCLUtilitiesExports.h>
#include <mitkCommandLineParser.h>
 
#include <string>
 
namespace mitk
{
  namespace cl
  {
    class MITKCLUTILITIES_EXPORT GlobalImageFeaturesParameter
    {
    public:
      void AddParameter(mitkCommandLineParser &parser);
 
      void ParseParameter(std::map<std::string, us::Any> parsedArgs);
 
      std::string imagePath;
      std::string imageName;
      std::string imageFolder;
      std::string maskPath;
      std::string maskName;
      std::string maskFolder;
      std::string outputPath;
      std::string outputXMLPath;
 
      std::string morphPath;
      std::string morphName;
      bool useMorphMask;
 
      bool useLogfile;
      std::string logfilePath;
      bool writeAnalysisImage;
      std::string anaylsisImagePath;
      bool writeAnalysisMask;
      std::string analysisMaskPath;
      bool writePNGScreenshots;
      std::string pngScreenshotsPath;
 
      bool useHeader;
      bool useHeaderForFirstLineOnly;
 
      bool ensureSameSpace;
      bool resampleMask;
      bool resampleToFixIsotropic;
      double resampleResolution;
 
      bool ignoreMaskForHistogram;
      bool defineGlobalMinimumIntensity;
      double globalMinimumIntensity;
      bool defineGlobalMaximumIntensity;
      double globalMaximumIntensity;
      bool defineGlobalNumberOfBins;
      int globalNumberOfBins;
      bool useDecimalPoint;
      char decimalPoint;
      bool encodeParameter;
      std::string pipelineUID;
      bool calculateAllFeatures;
 
    private:
      void ParseFileLocations(std::map<std::string, us::Any> &parsedArgs);
      void ParseAdditionalOutputs(std::map<std::string, us::Any> &parsedArgs);
      void ParseHeaderInformation(std::map<std::string, us::Any> &parsedArgs);
      void ParseMaskAdaptation(std::map<std::string, us::Any> &parsedArgs);
      void ParseGlobalFeatureParameter(std::map<std::string, us::Any> &parsedArgs);
 
    };
  }
}
 
 
 
#endif