freesurfer.h

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/* Copyright (c) 2008-2022 the MRtrix3 contributors.
 *
 * This Source Code Form is subject to the terms of the Mozilla Public
 * License, v. 2.0. If a copy of the MPL was not distributed with this
 * file, You can obtain one at http://mozilla.org/MPL/2.0/.
 *
 * Covered Software is provided under this License on an "as is"
 * basis, without warranty of any kind, either expressed, implied, or
 * statutory, including, without limitation, warranties that the
 * Covered Software is free of defects, merchantable, fit for a
 * particular purpose or non-infringing.
 * See the Mozilla Public License v. 2.0 for more details.
 *
 * For more details, see http://www.mrtrix.org/.
 */
 
#ifndef __surface_freesurfer_h__
#define __surface_freesurfer_h__
 
#include <stdint.h>
#include <fstream>
 
#include "raw.h"
 
#include "connectome/lut.h"
 
#include "surface/scalar.h"
#include "surface/types.h"
 
namespace MR
{
  namespace Surface
  {
    namespace FreeSurfer
    {
 
 
      constexpr int32_t triangle_file_magic_number = 16777214;
      constexpr int32_t quad_file_magic_number = 16777215;
 
      constexpr int32_t new_curv_file_magic_number = 16777215;
 
 
      inline int32_t get_int24_BE (std::ifstream& stream)
      {
        uint8_t bytes[3];
        for (size_t i = 0; i != 3; ++i)
          stream.read (reinterpret_cast<char*>(bytes+i), 1);
        return (int32_t(bytes[0]) << 16) | (int32_t(bytes[1]) << 8) | int32_t(bytes[2]);
      }
 
 
 
      template <typename T>
      inline T get_BE (std::ifstream& stream)
      {
        T temp;
        stream.read (reinterpret_cast<char*>(&temp), sizeof(T));
        return Raw::fetch_BE<T> (&temp);
      }
 
 
 
      void read_annot (const std::string&, label_vector_type&, Connectome::LUT&);
      void read_label (const std::string&, VertexList&, Scalar&);
 
 
 
    }
  }
}
 
#endif