testUsImagePostScan3DMhdParser.cpp

USTK MHD parser example.

This example contains the declaration of a class used to read and write data in a mhd file like:

NDims = 3
DimSize = 186 233 163
ElementType = MET_UCHAR
ElementSpacing = 1 1 1
ElementByteOrderMSB = False
ElementDataFile = postscan3d.raw
UltrasoundImageType = POSTSCAN_3D

/****************************************************************************
 *
 * This file is part of the ustk software.
 * Copyright (C) 2016 - 2017 by Inria. All rights reserved.
 *
 * This software is free software; you can redistribute it and/or
 * modify it under the terms of the GNU General Public License
 * ("GPL") version 2 as published by the Free Software Foundation.
 * See the file LICENSE.txt at the root directory of this source
 * distribution for additional information about the GNU GPL.
 *
 * For using ustk with software that can not be combined with the GNU
 * GPL, please contact Inria about acquiring a ViSP Professional
 * Edition License.
 *
 * This software was developed at:
 * Inria Rennes - Bretagne Atlantique
 * Campus Universitaire de Beaulieu
 * 35042 Rennes Cedex
 * France
 *
 * If you have questions regarding the use of this file, please contact
 * Inria at ustk@inria.fr
 *
 * This file is provided AS IS with NO WARRANTY OF ANY KIND, INCLUDING THE
 * WARRANTY OF DESIGN, MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE.
 *
 * Author:
 * Marc Pouliquen
 *
 *****************************************************************************/
 
#include <visp3/core/vpConfig.h>
 
#include <iostream>
 
#include <visp3/core/vpDebug.h>
#include <visp3/core/vpIoTools.h>
#include <visp3/core/vpXmlParser.h>
#include <visp3/io/vpParseArgv.h>
 
#include <visp3/ustk_core/usMetaHeaderParser.h>
 
#include <visp3/ustk_core/usImageIo.h>
 
#include <string>
 
/* -------------------------------------------------------------------------- */
/*                         COMMAND LINE OPTIONS                               */
/* -------------------------------------------------------------------------- */
 
// List of allowed command line options
#define GETOPTARGS "cdo:h"
 
void usage(const char *name, const char *badparam, const std::string &opath, const std::string &user);
bool getOptions(int argc, const char **argv, std::string &opath, const std::string &user);
 
void usage(const char *name, const char *badparam, const std::string &opath, const std::string &user)
{
  fprintf(stdout, "\n\
Write and read data in a mhd file.\n\
\n\
SYNOPSIS\n\
  %s [-o <output image path>] [-h]\n",
          name);
 
  fprintf(stdout, "\n\
OPTIONS:                                               Default\n\
  -o <output data path>                                %s\n\
     Set data output path.\n\
     From this directory, creates the \"%s\"\n\
     subdirectory depending on the username, where \n\
     postscan3D.mhd file is written.\n\
\n\
  -h\n\
     Print the help.\n\n",
          opath.c_str(), user.c_str());
 
  if (badparam) {
    fprintf(stderr, "ERROR: \n");
    fprintf(stderr, "\nBad parameter [%s]\n", badparam);
  }
}
 
bool getOptions(int argc, const char **argv, std::string &opath, const std::string &user)
{
  const char *optarg_;
  int c;
  while ((c = vpParseArgv::parse(argc, argv, GETOPTARGS, &optarg_)) > 1) {
 
    switch (c) {
    case 'o':
      opath = optarg_;
      break;
    case 'h':
      usage(argv[0], NULL, opath, user);
      return false;
      break;
 
    case 'c':
    case 'd':
      break;
 
    default:
      usage(argv[0], optarg_, opath, user);
      return false;
      break;
    }
  }
 
  if ((c == 1) || (c == -1)) {
    // standalone param or error
    usage(argv[0], NULL, opath, user);
    std::cerr << "ERROR: " << std::endl;
    std::cerr << "  Bad argument " << optarg_ << std::endl << std::endl;
    return false;
  }
 
  return true;
}
 
/* -------------------------------------------------------------------------- */
/*                               MAIN FUNCTION                                */
/* -------------------------------------------------------------------------- */
 
int main(int argc, const char **argv)
{
  try {
    std::string opt_opath;
    std::string opath;
    std::string filename;
    std::string username;
 
    usMetaHeaderParser testReferenceSettings;
 
    std::cout << "-------------------------------------------------------" << std::endl;
    std::cout << "  testUsImagePostScan3DMhdParser.cpp" << std::endl << std::endl;
    std::cout << "  writing and reading ultrasound data (usImagePostScan3D) using a the US mhd parser" << std::endl;
    std::cout << "-------------------------------------------------------" << std::endl;
    std::cout << std::endl;
 
// Set the default output path
#if !defined(_WIN32) && (defined(__unix__) || defined(__unix) || (defined(__APPLE__) && defined(__MACH__))) // UNIX
    opt_opath = "/tmp";
#elif defined(_WIN32)
    opt_opath = "C:\\temp";
#endif
 
    // Get the user login name
    vpIoTools::getUserName(username);
 
    // Read the command line options
    if (getOptions(argc, argv, opt_opath, username) == false) {
      exit(-1);
    }
 
    // Get the option values
    if (!opt_opath.empty())
      opath = opt_opath;
 
    // Append to the output path string, the login name of the user
    std::string dirname = vpIoTools::createFilePath(opath, username);
 
    // Test if the output path exist. If no try to create it
    if (vpIoTools::checkDirectory(dirname) == false) {
      try {
        // Create the dirname
        vpIoTools::makeDirectory(dirname);
      } catch (...) {
        usage(argv[0], NULL, opath, username);
        std::cerr << std::endl << "ERROR:" << std::endl;
        std::cerr << "  Cannot create " << dirname << std::endl;
        std::cerr << "  Check your -o " << opath << " option " << std::endl;
        exit(-1);
      }
    }
    filename = dirname + vpIoTools::path("/") + "postscan3d.mhd";
 
    // Init values in reference parser (same values in file read in test)
    usImagePostScan3D<unsigned char> postscan3DReference;
    // settings initialisation
    postscan3DReference.resize(186, 233, 163);
    postscan3DReference.setElementSpacingX(1);
    postscan3DReference.setElementSpacingY(1);
    postscan3DReference.setElementSpacingZ(1);
    postscan3DReference.setScanLinePitch(0.0145);
    postscan3DReference.setTransducerRadius(0.554);
    postscan3DReference.setScanLineNumber(211);
    postscan3DReference.setTransducerConvexity(true);
    postscan3DReference.setTransmitFrequency(300000);
    postscan3DReference.setSamplingFrequency(2000000);
    postscan3DReference.setFramePitch(0.258);
    postscan3DReference.setFrameNumber(258);
    postscan3DReference.setMotorRadius(0.025);
    postscan3DReference.setMotorType(usMotorSettings::TiltingMotor);
    postscan3DReference.setElementSpacingX(0.0058);
    postscan3DReference.setElementSpacingY(0.0058);
    postscan3DReference.setElementSpacingZ(0.01058);
    // image initialisation
    postscan3DReference.initData(255);
 
    std::cout << "Written in " << filename << std::endl;
    std::cout << postscan3DReference;
 
    // write image
    usImageIo::write(postscan3DReference, filename);
 
    // read the image we just wrote
    usImagePostScan3D<unsigned char> postscan3D;
    filename = dirname + vpIoTools::path("/") + "postscan3d.mhd";
    usImageIo::read(postscan3D, filename);
 
    std::cout << "Read from " << filename << std::endl;
    std::cout << postscan3D;
 
    if (postscan3D == postscan3DReference) {
      std::cout << "Test passed !" << std::endl;
      return 0;
    }
 
    std::cout << "Test failed !" << std::endl;
    return 1;
  } catch (const vpException &e) {
    std::cout << "Catch an exception: " << e.getMessage() << std::endl;
    return 1;
  }
}