Function setupParser

Modules/ModelFit/cmdapps/PixelDump.cpp:86–120

DumpPixelMapType dumpedPixels;

void setupParser(mitkCommandLineParser& parser)
{
  // set general information about your MiniApp
  parser.setCategory("Generic Analysis Tools");
  parser.setTitle("Pixel Dumper");
  parser.setDescription("MiniApp that allows to dump the pixel values of all passed files into a csv. The region of dumping can defined by a mask. All images (and mask) must have the same geometry.");
  parser.setContributor("DKFZ MIC");
  //! [create parser]

  //! [add arguments]
  // how should arguments be prefixed
  parser.setArgumentPrefix("--", "-");
  // add each argument, unless specified otherwise each argument is optional
  // see mitkCommandLineParser::addArgument for more information
  parser.beginGroup("Required I/O parameters");
  parser.addArgument(
    "inputs", "i", mitkCommandLineParser::StringList, "Input files", "list of the images that should be dumped.", us::Any(), false);
  parser.addArgument("output",
    "o",
    mitkCommandLineParser::File,
    "Output file",
    "where to save the csv.",
    us::Any(),
    false, false, false, mitkCommandLineParser::Output);
  parser.endGroup();

  parser.beginGroup("Optional parameters");
  parser.addArgument(
    "mask", "m", mitkCommandLineParser::File, "Mask file", "Mask that defines the spatial image region that should be dumped. Must have the same geometry as the input images!", us::Any(), true, false, false, mitkCommandLineParser::Input);
  parser.addArgument(
    "captions", "c", mitkCommandLineParser::StringList, "Captions of image columns", "If provided the pixel columns of the csv will be named according to the passed values instead of using the image paths. Number of images and names must be equal.", us::Any(), false);
  parser.addArgument("help", "h", mitkCommandLineParser::Bool, "Help:", "Show this help text");
  parser.endGroup();
  //! [add arguments]
}

bool configureApplicationSettings(std::map<std::string, us::Any> parsedArgs)
{