itkFreeSurferBinaryMeshIO.h

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/*=========================================================================
 *
 *  Copyright Insight Software Consortium
 *
 *  Licensed under the Apache License, Version 2.0 (the "License");
 *  you may not use this file except in compliance with the License.
 *  You may obtain a copy of the License at
 *
 *         http://www.apache.org/licenses/LICENSE-2.0.txt
 *
 *  Unless required by applicable law or agreed to in writing, software
 *  distributed under the License is distributed on an "AS IS" BASIS,
 *  WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
 *  See the License for the specific language governing permissions and
 *  limitations under the License.
 *
 *=========================================================================*/

#ifndef itkFreeSurferBinaryMeshIO_h
#define itkFreeSurferBinaryMeshIO_h
#include "ITKIOMeshFreeSurferExport.h"

#include "itkByteSwapper.h"
#include "itkMeshIOBase.h"
#include "itkIntTypes.h"

#include <fstream>

namespace itk
{
class ITKIOMeshFreeSurfer_EXPORT FreeSurferBinaryMeshIO:public MeshIOBase
{
public:
  ITK_DISALLOW_COPY_AND_ASSIGN(FreeSurferBinaryMeshIO);

  using Self = FreeSurferBinaryMeshIO;
  using Superclass = MeshIOBase;
  using ConstPointer = SmartPointer< const Self >;
  using Pointer = SmartPointer< Self >;

  using SizeValueType = Superclass::SizeValueType;
  using StreamOffsetType = Superclass::StreamOffsetType;

  itkNewMacro(Self);

  itkTypeMacro(FreeSurferBinaryMeshIO, MeshIOBase);

  /*-------- This part of the interfaces deals with reading data. ----- */

  bool CanReadFile(const char *FileNameToRead) override;

  void ReadMeshInformation() override;

  void ReadPoints(void *buffer) override;

  void ReadCells(void *buffer) override;

  void ReadPointData(void *buffer) override;

  void ReadCellData(void *buffer) override;

  /*-------- This part of the interfaces deals with writing data. ----- */

  bool CanWriteFile(const char *FileNameToWrite) override;

  void WriteMeshInformation() override;

  void WritePoints(void *buffer) override;

  void WriteCells(void *buffer) override;

  void WritePointData(void *buffer) override;

  void WriteCellData(void *buffer) override;

  void Write() override;

protected:
  template< typename T >
  void WritePoints(T *buffer, std::ofstream & outputFile)
  {
    auto * data = new float[this->m_NumberOfPoints * this->m_PointDimension];

    for ( SizeValueType ii = 0; ii < this->m_NumberOfPoints; ii++ )
      {
      for ( unsigned int jj = 0; jj < this->m_PointDimension; jj++ )
        {
        data[ii * this->m_PointDimension + jj] = static_cast< float >( buffer[ii * this->m_PointDimension + jj] );
        }
      }

    itk::ByteSwapper< float >::SwapWriteRangeFromSystemToBigEndian(data, this->m_NumberOfPoints * this->m_PointDimension, &outputFile);
    delete[] data;
  }

  template< typename T >
  void WriteCells(T *buffer, std::ofstream & outputFile)
  {
    constexpr itk::uint32_t numberOfCellPoints  = 3;

    auto * data = new itk::uint32_t[this->m_NumberOfCells * numberOfCellPoints];

    ReadCellsBuffer(buffer, data);
    itk::ByteSwapper< itk::uint32_t >::SwapWriteRangeFromSystemToBigEndian(data, this->m_NumberOfCells * numberOfCellPoints, &outputFile);

    delete[] data;
  }

  template< typename TInput, typename TOutput >
  void ReadCellsBuffer(TInput *input, TOutput *output)
  {
    if ( input && output )
      {
      for ( SizeValueType ii = 0; ii < this->m_NumberOfCells; ii++ )
        {
        for ( unsigned int jj = 0; jj < 3; jj++ )
          {

          output[ii * 3 + jj] = static_cast< TOutput >( input[5 * ii + jj + 2] );
          }
        }
      }
  }

  template< typename T >
  void WritePointData(T *buffer, std::ofstream & outputFile)
  {
    auto * data = new float[this->m_NumberOfPointPixels];

    for ( SizeValueType ii = 0; ii < this->m_NumberOfPointPixels; ii++ )
      {
      data[ii] = static_cast< float >( buffer[ii] );
      }

    itk::ByteSwapper< float >::SwapWriteRangeFromSystemToBigEndian(data, this->m_NumberOfPointPixels, &outputFile);
    delete[] data;
  }

protected:
  FreeSurferBinaryMeshIO();
  ~FreeSurferBinaryMeshIO() override;

  void PrintSelf(std::ostream & os, Indent indent) const override;

  void OpenFile();

  void CloseFile();

private:
  StreamOffsetType m_FilePosition{0};
  itk::uint32_t    m_FileTypeIdentifier{0};
  std::ifstream    m_InputFile;
};
} // end namespace itk

#endif