diff --git a/Modules/DiffusionImaging/MiniApps/DICOMLoader.cpp b/Modules/DiffusionImaging/MiniApps/DICOMLoader.cpp
index 766f08a9e2..ed13bd3053 100644
--- a/Modules/DiffusionImaging/MiniApps/DICOMLoader.cpp
+++ b/Modules/DiffusionImaging/MiniApps/DICOMLoader.cpp
@@ -1,285 +1,285 @@
 /*===================================================================
 
 The Medical Imaging Interaction Toolkit (MITK)
 
 Copyright (c) German Cancer Research Center,
 Division of Medical and Biological Informatics.
 All rights reserved.
 
 This software is distributed WITHOUT ANY WARRANTY; without
 even the implied warranty of MERCHANTABILITY or FITNESS FOR
 A PARTICULAR PURPOSE.
 
 See LICENSE.txt or http://www.mitk.org for details.
 
 ===================================================================*/
 
 #include "MiniAppManager.h"
 #include "mitkBaseDataIOFactory.h"
 #include "mitkDiffusionImage.h"
 #include "mitkBaseData.h"
 
 #include <itkImageFileWriter.h>
 #include <itkNrrdImageIO.h>
 #include "ctkCommandLineParser.h"
 #include <itksys/SystemTools.hxx>
 #include <itksys/Directory.hxx>
 
 #include "mitkNrrdDiffusionImageWriter.h"
 #include "mitkDiffusionDICOMFileReader.h"
 #include "mitkDICOMTagBasedSorter.h"
 #include "mitkDICOMSortByTag.h"
 
 #include "itkMergeDiffusionImagesFilter.h"
 
 static mitk::StringList& GetInputFilenames()
 {
   static mitk::StringList inputs;
   return inputs;
 }
 
 void SetInputFileNames( std::string input_directory )
 {
   // I. Get all files in directory
   itksys::Directory input;
   input.Load( input_directory.c_str() );
 
   // II. Push back files
   mitk::StringList inputlist;//, mergedlist;
   for( unsigned long idx=0; idx<input.GetNumberOfFiles(); idx++)
   {
     if( ! itksys::SystemTools::FileIsDirectory( input.GetFile(idx)) )
     {
       std::string fullpath = input_directory + "/" + std::string( input.GetFile(idx) );
       inputlist.push_back(  itksys::SystemTools::ConvertToOutputPath( fullpath.c_str() ) );
 
       MITK_INFO("dicom.loader.inputdir.addfile") << input.GetFile(idx);
     }
   }
 
   /*mergedlist.reserve( GetInputFilenames().size() + inputlist.size() );
 
   mergedlist.insert( mergedlist.end(), GetInputFilenames().begin(), GetInputFilenames().end() );
   mergedlist.insert( mergedlist.end(), inputlist.begin(), inputlist.end() );*/
 
   GetInputFilenames() = inputlist;//mergedlist;
 
   MITK_INFO("dicom.loader.setinputfiles.end") << "[]";
 }
 
 
 mitk::DiffusionImage<short>::Pointer ReadInDICOMFiles( mitk::StringList& input_files, std::string output_file )
 {
   // repeat test with some more realistic sorting
   mitk::DiffusionDICOMFileReader::Pointer gdcmReader = mitk::DiffusionDICOMFileReader::New(); // this also tests destruction
   mitk::DICOMTagBasedSorter::Pointer tagSorter = mitk::DICOMTagBasedSorter::New();
 
   // Use tags as in Qmitk
   // all the things that split by tag in DicomSeriesReader
   tagSorter->AddDistinguishingTag( mitk::DICOMTag(0x0028, 0x0010) ); // Number of Rows
   tagSorter->AddDistinguishingTag( mitk::DICOMTag(0x0028, 0x0011) ); // Number of Columns
   tagSorter->AddDistinguishingTag( mitk::DICOMTag(0x0028, 0x0030) ); // Pixel Spacing
   tagSorter->AddDistinguishingTag( mitk::DICOMTag(0x0018, 0x1164) ); // Imager Pixel Spacing
   tagSorter->AddDistinguishingTag( mitk::DICOMTag(0x0020, 0x0037) ); // Image Orientation (Patient) // TODO add tolerance parameter (l. 1572 of original code)
   tagSorter->AddDistinguishingTag( mitk::DICOMTag(0x0018, 0x0050) ); // Slice Thickness
   tagSorter->AddDistinguishingTag( mitk::DICOMTag(0x0028, 0x0008) ); // Number of Frames
   tagSorter->AddDistinguishingTag( mitk::DICOMTag(0x0020, 0x0052) ); // Frame of Reference UID
 
   mitk::DICOMSortCriterion::ConstPointer sorting =
       mitk::DICOMSortByTag::New( mitk::DICOMTag(0x0020, 0x0013), // instance number
                                  mitk::DICOMSortByTag::New( mitk::DICOMTag(0x0020, 0x0012) //acquisition number
                                                             ).GetPointer()
                                  ).GetPointer();
   tagSorter->SetSortCriterion( sorting );
 
   MITK_INFO("dicom.loader.read.init") << "[]" ;
   MITK_INFO("dicom.loader.read.inputs") << " " << input_files.size();
 
   gdcmReader->SetInputFiles( input_files );
   gdcmReader->AddSortingElement( tagSorter );
   gdcmReader->AnalyzeInputFiles();
   gdcmReader->LoadImages();
 
   mitk::Image::Pointer loaded_image = gdcmReader->GetOutput(0).GetMitkImage();
 
   mitk::DiffusionImage<short>::Pointer d_img = static_cast<mitk::DiffusionImage<short>*>( loaded_image.GetPointer() );
 
   return d_img;
 }
 
 typedef short DiffusionPixelType;
 typedef itk::VectorImage<DiffusionPixelType,3>         DwiImageType;
 typedef DwiImageType::PixelType                        DwiPixelType;
 typedef DwiImageType::RegionType                       DwiRegionType;
 typedef std::vector< DwiImageType::Pointer >  DwiImageContainerType;
 
 typedef mitk::DiffusionImage<DiffusionPixelType>              DiffusionImageType;
 typedef DiffusionImageType::GradientDirectionContainerType    GradientContainerType;
 typedef std::vector< GradientContainerType::Pointer >  GradientListContainerType;
 
 void SearchForInputInSubdirs( std::string root_directory, std::string subdir_prefix , std::vector<DiffusionImageType::Pointer>& output_container)
 {
   // I. Get all dirs in directory
   itksys::Directory rootdir;
   rootdir.Load( root_directory.c_str() );
 
   MITK_INFO("dicom.loader.setinputdirs.start") << "Prefix = " << subdir_prefix;
 
   for( unsigned int idx=0; idx<rootdir.GetNumberOfFiles(); idx++)
   {
     std::string current_path = rootdir.GetFile(idx);
 
     std::string directory_path = std::string(rootdir.GetPath()) + std::string("/") + current_path;
 
     MITK_INFO("dicom.loader.inputrootdir.test") << "ProbePath:   " << current_path;
     MITK_INFO("dicom.loader.inputrootdir.test") << "IsDirectory: " << itksys::SystemTools::FileIsDirectory( itksys::SystemTools::ConvertToOutputPath( directory_path.c_str() ).c_str() )
                                                 << " StartsWith: " << itksys::SystemTools::StringStartsWith( current_path.c_str(), subdir_prefix.c_str() );
 
     // test for prefix
     if(    itksys::SystemTools::FileIsDirectory( itksys::SystemTools::ConvertToOutputPath( directory_path.c_str() ).c_str() )
            && itksys::SystemTools::StringStartsWith( current_path.c_str(), subdir_prefix.c_str() )
            )
     {
 
       MITK_INFO("dicom.loader.inputrootdir.searchin") << directory_path;
       SetInputFileNames( itksys::SystemTools::ConvertToOutputPath( directory_path.c_str() ) );
 
       MITK_INFO("dicom.loader.inputrootdir.preload") << "[]" ;
       DiffusionImageType::Pointer dwi = ReadInDICOMFiles( GetInputFilenames(), "" );
 
       output_container.push_back( dwi );
 
 
     }
   }
 
   MITK_INFO("dicom.loader.setinputdirs.end") << "[]";
 }
 
 
 
 using namespace mitk;
 /**
  * Read DICOM Files through the new (refactored) Diffusion DICOM Loader. It serves also as a first test of the new functionality, it will replace the
  * current loading mechanism after the necessary parts are merged into the master branch.
  */
 int DICOMLoader(int argc, char* argv[])
 {
   ctkCommandLineParser parser;
   parser.setArgumentPrefix("--", "-");
-  parser.addArgument("inputdir", "i", ctkCommandLineParser::String, "input directory containing dicom files", us::Any(), false);
-  parser.addArgument("output", "o", ctkCommandLineParser::String, "output file", us::Any(), false);
-  parser.addArgument("dwprefix", "p", ctkCommandLineParser::String, "prefix for subfolders search rootdir is specified by the 'inputdir' argument value", us::Any(), true);
-  parser.addArgument("dryrun", "-s", ctkCommandLineParser::Bool, "do not read, only look for input files ", us::Any(), true );
+  parser.addArgument("inputdir", "i", ctkCommandLineParser::String, "Input Directory" ,"input directory containing dicom files", us::Any(), false);
+  parser.addArgument("output", "o", ctkCommandLineParser::String, "Output File Name", "output file", us::Any(), false);
+  parser.addArgument("dwprefix", "p", ctkCommandLineParser::String, "Recursive Scan Prefix", "prefix for subfolders search rootdir is specified by the 'inputdir' argument value", us::Any(), true);
+  parser.addArgument("dryrun", "-s", ctkCommandLineParser::Bool, "Dry run","do not read, only look for input files ", us::Any(), true );
 
   map<string, us::Any> parsedArgs = parser.parseArguments(argc, argv);
   if (parsedArgs.size()==0)
   {
     MITK_ERROR << "No input arguments were specified. Please provide all non-optional arguments. ";
     return 0;
   }
 
   std::string inputDirectory = us::any_cast<std::string>( parsedArgs["inputdir"] );
   MITK_INFO << "Loading data from directory: " << inputDirectory;
 
   // retrieve the prefix flag (if set)
   bool search_for_subdirs = false;
   std::string subdir_prefix;
   if( parsedArgs.count("dwprefix"))
   {
     MITK_INFO << "Prefix specified, will search for subdirs in the input directory!";
     subdir_prefix = us::any_cast<std::string>( parsedArgs["dwprefix"] );
     search_for_subdirs = true;
   }
 
   // retrieve the output
   std::string outputFile = us::any_cast< std::string >( parsedArgs["output"] );
 
   // if the executable is called with a single directory, just parse the given folder for files and read them into a diffusion image
   if( !search_for_subdirs )
   {
     SetInputFileNames( inputDirectory );
 
     MITK_INFO << "Got " << GetInputFilenames().size() << " input files.";
     mitk::DiffusionImage<short>::Pointer d_img = ReadInDICOMFiles( GetInputFilenames(), outputFile );
 
     mitk::NrrdDiffusionImageWriter<short>::Pointer writer =
         mitk::NrrdDiffusionImageWriter<short>::New();
     writer->SetFileName( outputFile.c_str() );
     writer->SetInput(d_img );
 
     try
     {
       writer->Update();
     }
     catch( const itk::ExceptionObject& e)
     {
       MITK_ERROR << "Failed to write out the output file. \n\t Reason : ITK Exception " << e.what();
     }
 
   }
   // if the --dwprefix flag is set, then we have to look for the directories, load each of them separately and afterwards merge the images
   else
   {
     std::vector<mitk::DiffusionImage<DiffusionPixelType>::Pointer> output_container;
 
     SearchForInputInSubdirs( inputDirectory, subdir_prefix, output_container );
 
     // final output image
     mitk::DiffusionImage<DiffusionPixelType>::Pointer image = mitk::DiffusionImage<DiffusionPixelType>::New();
     if( output_container.size() > 1 )
     {
       DwiImageContainerType       imageContainer;
       GradientListContainerType   gradientListContainer;
       std::vector< double >       bValueContainer;
 
       for ( std::vector< mitk::DiffusionImage<DiffusionPixelType>::Pointer >::iterator dwi = output_container.begin();
             dwi != output_container.end(); ++dwi )
       {
         imageContainer.push_back((*dwi)->GetVectorImage());
         gradientListContainer.push_back((*dwi)->GetDirections());
         bValueContainer.push_back((*dwi)->GetReferenceBValue());
       }
 
       typedef itk::MergeDiffusionImagesFilter<short> FilterType;
       FilterType::Pointer filter = FilterType::New();
       filter->SetImageVolumes(imageContainer);
       filter->SetGradientLists(gradientListContainer);
       filter->SetBValues(bValueContainer);
       filter->Update();
 
       vnl_matrix_fixed< double, 3, 3 > mf; mf.set_identity();
 
       image->SetVectorImage( filter->GetOutput() );
       image->SetReferenceBValue(filter->GetB_Value());
       image->SetDirections(filter->GetOutputGradients());
       image->SetMeasurementFrame(mf);
       image->InitializeFromVectorImage();
     }
     // just output the image if there was only one folder found
     else
     {
       image = output_container.at(0);
     }
 
     mitk::NrrdDiffusionImageWriter<DiffusionPixelType>::Pointer writer =
         mitk::NrrdDiffusionImageWriter<DiffusionPixelType>::New();
     writer->SetFileName( outputFile.c_str() );
     writer->SetInput( image );
 
     MITK_INFO("dicom.import.writeout") << " [OutputFile] " << outputFile.c_str();
 
     try
     {
       writer->Update();
     }
     catch( const itk::ExceptionObject& e)
     {
       MITK_ERROR << "Failed to write out the output file. \n\t Reason : ITK Exception " << e.what();
     }
 
   }
 
   return 1;
 }
 RegisterDiffusionMiniApp(DICOMLoader);