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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.
*
*=========================================================================*/
/**
* \file itkPhilipsRECImageIO.h
* The code for this file reader was written based on
* examination of Philips REC/PAR image files acquired at the
* Center for NMR Research at the Penn State Milton S. Hershey
* Medical Center.
*
*
* \author Don C. Bigler
* The Pennsylvania State University 2005
*
* This implementation was contributed as a paper to the Insight Journal
* https://hdl.handle.net/1926/1381
*
*/
#ifndef itkPhilipsRECImageIO_h
#define itkPhilipsRECImageIO_h
#include "ITKIOPhilipsRECExport.h"
#include "itkImageIOBase.h"
#include "itkVectorContainer.h"
#include "vnl/vnl_vector_fixed.h"
namespace itk
{
/** \class PhilipsRECImageIO
* \author Don C. Bigler
* \brief Reads Philips REC/PAR image files.
*
* This class supports reading only and not writing.
* \ingroup IOFilters
* \ingroup ITKIOPhilipsREC
*/
class ITKIOPhilipsREC_EXPORT PhilipsRECImageIO:public ImageIOBase
{
public:
/** Standard class typedefs. */
typedef PhilipsRECImageIO Self;
typedef ImageIOBase Superclass;
typedef SmartPointer< Self > Pointer;
/** Method for creation through the object factory. */
itkNewMacro(Self);
/** Run-time type information (and related methods). */
itkTypeMacro(PhilipsRECImageIO, Superclass);
/** Special types used for Philips PAR meta data. */
typedef VectorContainer< unsigned int, double > EchoTimesContainerType;
typedef VectorContainer< unsigned int, double > TriggerTimesContainerType;
typedef VectorContainer< unsigned int, double > RepetitionTimesContainerType;
typedef vnl_vector_fixed< int, 2 > ScanResolutionType;
typedef vnl_vector_fixed< float, 3 > FOVType;
typedef vnl_vector_fixed< double, 3 > AngulationMidSliceType;
typedef vnl_vector_fixed< double, 3 > OffCentreMidSliceType;
typedef vnl_vector_fixed< float, 3 > PhaseEncodingVelocityType;
/** Image types:
* 0 = Magnitude,
* 1 = Real,
* 2 = Imaginary,
* 3 = Phase,
* 4 = Special/Processed. */
typedef vnl_vector_fixed< int, 8 > ImageTypesType;
typedef vnl_vector_fixed< int, 8 > ScanningSequencesType;
typedef Superclass::IndexValueType IndexValueType;
typedef std::vector< IndexValueType > SliceIndexType;
typedef vnl_vector_fixed< double, 3 > ImageTypeRescaleValuesType;
typedef VectorContainer< unsigned int, ImageTypeRescaleValuesType > ImageTypeRescaleValuesContainerType;
typedef ImageTypeRescaleValuesContainerType::Pointer
ImageTypeRescaleValuesContainerTypePtr;
typedef VectorContainer< unsigned int,
ImageTypeRescaleValuesContainerTypePtr > ScanningSequenceImageTypeRescaleValuesContainerType;
typedef double GradientBvalueType;
typedef VectorContainer< unsigned int, GradientBvalueType > GradientBvalueContainerType;
typedef vnl_vector_fixed< double, 3 > GradientDirectionType;
typedef VectorContainer< unsigned int, GradientDirectionType > GradientDirectionContainerType;
typedef VectorContainer< unsigned int, int > LabelTypesASLContainerType;
/*-------- This part of the interfaces deals with reading data. ----- */
/** Determine if the file can be read with this ImageIO implementation.
* \author Don C. Bigler
* \param FileNameToRead The name of the file to test for reading.
* \return Returns true if this ImageIO can read the file specified.
*/
virtual bool CanReadFile(const char *FileNameToRead) ITK_OVERRIDE;
/** Set the spacing and dimension information for the set filename. */
virtual void ReadImageInformation() ITK_OVERRIDE;
/** Reads the data from disk into the memory buffer provided. */
virtual void Read(void *buffer) ITK_OVERRIDE;
/*-------- This part of the interfaces deals with writing data. ----- */
/** Determine if the file can be written with this ImageIO implementation.
* FileNameToWrite The name of the file to test for writing.
* \author Don C. Bigler
* \post This function will always return false (Not implemented).
* \return Returns true if this ImageIO can write the file specified.
*/
virtual bool CanWriteFile( const char *itkNotUsed(FileNameToWrite) ) ITK_OVERRIDE
{
return false;
}
/** Set the spacing and dimension information for the set filename. */
virtual void WriteImageInformation() ITK_OVERRIDE
{
return;
}
/** Writes the data to disk from the memory buffer provided. Make sure
* that the IORegions has been set properly. */
virtual void Write( const void *itkNotUsed(buffer) ) ITK_OVERRIDE
{
return;
}
protected:
PhilipsRECImageIO();
~PhilipsRECImageIO() ITK_OVERRIDE;
void PrintSelf(std::ostream & os, Indent indent) const ITK_OVERRIDE;
private:
ITK_DISALLOW_COPY_AND_ASSIGN(PhilipsRECImageIO);
void SwapBytesIfNecessary(void *buffer, SizeValueType numberOfPixels);
IndexValueType GetSliceIndex(IndexValueType index) const;
SliceIndexType * m_SliceIndex;
ImageIOBase::ByteOrder m_MachineByteOrder;
};
} // end namespace itk
#endif // itkPhilipsRECImageIO_h
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