itkMGHImageIO.h

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/*=========================================================================
 *
 *  Copyright NumFOCUS
 *
 *  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
 *
 *         https://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 itkMGHImageIO_h
#define itkMGHImageIO_h
 
#include "itkMatrix.h"
#include "itkImageIOBase.h"
#include <fstream>
#include "itk_zlib.h"
 
#include "MGHIOExport.h"
 
namespace itk
{
class MGHIO_EXPORT MGHImageIO : public ImageIOBase
{
public:
  using Self = MGHImageIO;
  using Superclass = ImageIOBase;
  using Pointer = SmartPointer<Self>;

  itkNewMacro(Self);

  itkOverrideGetNameOfClassMacro(MGHImageIO);
 
  /*-------- This part of the interfaces deals with reading data. ----- */

  bool
  CanReadFile(const char * FileNameToRead) override;

  void
  ReadImageInformation() override;

  void
  Read(void * pData) override;
 
  /*-------- This part of the interfaces deals with writing data. ----- */

  bool
  CanWriteFile(const char * name) override;

  void
  WriteImageInformation() override;

  void
  Write(const void * buffer) override;
 
protected:
  MGHImageIO();
  ~MGHImageIO() override;
  void
  PrintSelf(std::ostream & os, Indent indent) const override;
 
  void
  ReadVolumeHeader();
 
private:
  static const int          MRI_UCHAR = 0;
  static const int          MRI_INT = 1;
  static const int          MRI_FLOAT = 3;
  static const int          MRI_SHORT = 4;
  static const int          MRI_TENSOR = 6;
  static const unsigned int FS_DIMENSION_HEADER_SIZE = sizeof(int) * 7;
  static const unsigned int FS_RAS_HEADER_SIZE = (sizeof(float) * 15) + sizeof(short);
  static const unsigned int FS_UNUSED_HEADER_SIZE = 256 - FS_RAS_HEADER_SIZE;
  static const unsigned int FS_WHOLE_HEADER_SIZE =
    FS_RAS_HEADER_SIZE + FS_DIMENSION_HEADER_SIZE + FS_UNUSED_HEADER_SIZE;

  bool
  IsCompressedFilename(const std::string fname);
  void
  SwapBytesIfNecessary(void * const buffer, const unsigned long numberOfPixels);

  // void MriDirCos();
 
  void
  WriteHeader();
 
  void
  WriteData(const void * buffer);
 
  void
  PermuteFrameValues(const void * buffer, char * tempmemory);
 
  unsigned int
  GetComponentSize() const override;
 
  std::string
  GetOrientation(itk::Matrix<double> directions);
 
  bool          m_IsCompressed;
  gzFile        m_GZFile;
  std::ofstream m_Output;
 
  // Utility function to assist with writing to disk in the
  // proper format.  TInType is static_cast<TDiskType> type.
  template <typename TInType, typename TDiskType>
  int
  TWrite(const TInType inValue);
  template <typename TDiskType, typename TOutType>
  int
  TRead(TOutType & outValue);
 
  int
  TWrite(const char * buf, const unsigned long count);
  void
  OpenFile();
  void
  CloseFile();
};
} // end namespace itk
 
#endif // itkMGHImageIO_h