ITK  4.2.0
Insight Segmentation and Registration Toolkit
Public Types | Public Member Functions | Static Public Member Functions | Protected Member Functions | Private Member Functions | Private Attributes
itk::StimulateImageIO Class Reference

#include <itkStimulateImageIO.h>

+ Inheritance diagram for itk::StimulateImageIO:
+ Collaboration diagram for itk::StimulateImageIO:

List of all members.

Public Types

typedef SmartPointer< SelfPointer
typedef StimulateImageIO Self
typedef ImageIOBase Superclass
- Public Types inherited from itk::ImageIOBase
typedef std::vector< std::string > ArrayOfExtensionsType
typedef ::itk::OffsetValueType BufferSizeType
enum  ByteOrder {
  BigEndian,
  LittleEndian,
  OrderNotApplicable
}
enum  FileType {
  ASCII,
  Binary,
  TypeNotApplicable
}
typedef ::itk::IndexValueType IndexValueType
enum  IOComponentType {
  UNKNOWNCOMPONENTTYPE,
  UCHAR,
  CHAR,
  USHORT,
  SHORT,
  UINT,
  INT,
  ULONG,
  LONG,
  FLOAT,
  DOUBLE
}
enum  IOPixelType {
  UNKNOWNPIXELTYPE,
  SCALAR,
  RGB,
  RGBA,
  OFFSET,
  VECTOR,
  POINT,
  COVARIANTVECTOR,
  SYMMETRICSECONDRANKTENSOR,
  DIFFUSIONTENSOR3D,
  COMPLEX,
  FIXEDARRAY,
  MATRIX
}
typedef ::itk::intmax_t SizeType
typedef ::itk::SizeValueType SizeValueType
- Public Types inherited from itk::LightProcessObject
typedef SmartPointer< const SelfConstPointer
- Public Types inherited from itk::Object
- Public Types inherited from itk::LightObject

Public Member Functions

virtual bool CanReadFile (const char *)
virtual bool CanWriteFile (const char *)
virtual ::itk::LightObject::Pointer CreateAnother (void) const
virtual const char * GetNameOfClass () const
virtual void Read (void *buffer)
virtual void ReadImageInformation ()
virtual void Write (const void *buffer)
virtual void WriteImageInformation ()
virtual const float * GetDisplayRange () const
const float & GetHighDisplayValue ()
const float & GetLowDisplayValue ()
- Public Member Functions inherited from itk::ImageIOBase
virtual bool CanStreamRead ()
virtual bool CanStreamWrite ()
virtual ImageIORegion GenerateStreamableReadRegionFromRequestedRegion (const ImageIORegion &requested) const
virtual unsigned int GetActualNumberOfSplitsForWriting (unsigned int numberOfRequestedSplits, const ImageIORegion &pasteRegion, const ImageIORegion &largestPossibleRegion)
std::string GetByteOrderAsString (ByteOrder) const
virtual unsigned int GetComponentSize () const
virtual IOComponentType GetComponentType () const
virtual const std::type_info & GetComponentTypeInfo () const
virtual std::vector< double > GetDefaultDirection (unsigned int i) const
virtual unsigned int GetDimensions (unsigned int i) const
virtual std::vector< double > GetDirection (unsigned int i) const
std::string GetFileTypeAsString (FileType) const
SizeType GetImageSizeInBytes () const
SizeType GetImageSizeInComponents () const
SizeType GetImageSizeInPixels () const
virtual unsigned int GetNumberOfDimensions () const
virtual double GetOrigin (unsigned int i) const
virtual SizeType GetPixelStride () const
virtual double GetSpacing (unsigned int i) const
virtual ImageIORegion GetSplitRegionForWriting (unsigned int ithPiece, unsigned int numberOfActualSplits, const ImageIORegion &pasteRegion, const ImageIORegion &largestPossibleRegion)
const ArrayOfExtensionsTypeGetSupportedReadExtensions () const
const ArrayOfExtensionsTypeGetSupportedWriteExtensions () const
void SetByteOrderToLittleEndian ()
virtual void SetComponentType (const IOComponentType _arg)
virtual void SetDirection (unsigned int i, std::vector< double > &direction)
virtual void SetDirection (unsigned int i, vnl_vector< double > &direction)
void SetFileTypeToBinary ()
void SetNumberOfDimensions (unsigned int)
virtual void SetOrigin (unsigned int i, double origin)
template<class TPixel , unsigned VLength>
void SetPixelTypeInfo (const SymmetricSecondRankTensor< TPixel, VLength > *)
template<typename TPixel >
void SetPixelTypeInfo (const DiffusionTensor3D< TPixel > *)
template<typename TPixel , unsigned VLength>
void SetPixelTypeInfo (const Matrix< TPixel, VLength, VLength > *)
template<typename TPixel >
void SetPixelTypeInfo (const std::complex< TPixel > *)
template<unsigned VLength>
void SetPixelTypeInfo (const Offset< VLength > *)
virtual void SetSpacing (unsigned int i, double spacing)
template<typename TPixel >
void SetTypeInfo (const TPixel *)
virtual bool SupportsDimension (unsigned long dim)
virtual void SetFileName (const char *_arg)
virtual const char * GetFileName () const
virtual void SetDimensions (unsigned int i, unsigned int dim)
virtual void SetIORegion (ImageIORegion _arg)
virtual const ImageIORegionGetIORegion ()
virtual void SetPixelType (const IOPixelType _arg)
virtual IOPixelType GetPixelType () const
virtual void SetNumberOfComponents (unsigned int _arg)
virtual const unsigned int & GetNumberOfComponents ()
virtual void SetUseCompression (bool _arg)
virtual bool GetUseCompression () const
virtual void UseCompressionOn ()
virtual void UseCompressionOff ()
virtual void SetUseStreamedReading (bool _arg)
virtual bool GetUseStreamedReading () const
virtual void UseStreamedReadingOn ()
virtual void UseStreamedReadingOff ()
virtual void SetUseStreamedWriting (bool _arg)
virtual bool GetUseStreamedWriting () const
virtual void UseStreamedWritingOn ()
virtual void UseStreamedWritingOff ()
virtual void SetFileType (const FileType _arg)
virtual FileType GetFileType () const
void SetFileTypeToASCII ()
virtual void SetByteOrder (const ByteOrder _arg)
virtual ByteOrder GetByteOrder () const
void SetByteOrderToBigEndian ()
template<typename TPixel >
void SetPixelTypeInfo (const TPixel *)
template<typename TPixel >
void SetPixelTypeInfo (const RGBPixel< TPixel > *)
template<typename TPixel >
void SetPixelTypeInfo (const RGBAPixel< TPixel > *)
template<typename TPixel , unsigned VLength>
void SetPixelTypeInfo (const Vector< TPixel, VLength > *)
template<typename TPixel >
void SetPixelTypeInfo (const VariableLengthVector< TPixel > *)
template<typename TPixel , unsigned VLength>
void SetPixelTypeInfo (const CovariantVector< TPixel, VLength > *)
template<typename TPixel , unsigned VLength>
void SetPixelTypeInfo (const FixedArray< TPixel, VLength > *)
- Public Member Functions inherited from itk::LightProcessObject
virtual void AbortGenerateDataOff ()
virtual void AbortGenerateDataOn ()
virtual const bool & GetAbortGenerateData ()
virtual void SetAbortGenerateData (bool _arg)
virtual void UpdateOutputData ()
void UpdateProgress (float amount)
virtual void SetProgress (float _arg)
virtual const float & GetProgress ()
- Public Member Functions inherited from itk::Object
unsigned long AddObserver (const EventObject &event, Command *)
unsigned long AddObserver (const EventObject &event, Command *) const
virtual void DebugOff () const
virtual void DebugOn () const
CommandGetCommand (unsigned long tag)
bool GetDebug () const
MetaDataDictionaryGetMetaDataDictionary (void)
const MetaDataDictionaryGetMetaDataDictionary (void) const
virtual unsigned long GetMTime () const
virtual const TimeStampGetTimeStamp () const
bool HasObserver (const EventObject &event) const
void InvokeEvent (const EventObject &)
void InvokeEvent (const EventObject &) const
virtual void Modified () const
virtual void Register () const
void RemoveAllObservers ()
void RemoveObserver (unsigned long tag)
void SetDebug (bool debugFlag) const
void SetMetaDataDictionary (const MetaDataDictionary &rhs)
virtual void SetReferenceCount (int)
virtual void UnRegister () const
- Public Member Functions inherited from itk::LightObject
virtual void Delete ()
virtual int GetReferenceCount () const
 itkCloneMacro (Self)
void Print (std::ostream &os, Indent indent=0) const

Static Public Member Functions

static Pointer New ()
- Static Public Member Functions inherited from itk::ImageIOBase
static std::string GetComponentTypeAsString (IOComponentType)
static IOComponentType GetComponentTypeFromString (const std::string &typeString)
static std::string GetPixelTypeAsString (IOPixelType)
static IOPixelType GetPixelTypeFromString (const std::string &pixelString)

Protected Member Functions

void InternalReadImageInformation (std::ifstream &file)
bool OpenStimulateFileForReading (std::ifstream &os, const char *filename)
bool OpenStimulateFileForWriting (std::ofstream &os, const char *filename)
void PrintSelf (std::ostream &os, Indent indent) const
 StimulateImageIO ()
 ~StimulateImageIO ()
- Protected Member Functions inherited from itk::ImageIOBase
void AddSupportedReadExtension (const char *extension)
void AddSupportedWriteExtension (const char *extension)
void ComputeStrides ()
virtual unsigned int GetActualNumberOfSplitsForWritingCanStreamWrite (unsigned int numberOfRequestedSplits, const ImageIORegion &pasteRegion) const
SizeType GetComponentStride () const
virtual unsigned int GetPixelSize () const
SizeType GetRowStride () const
SizeType GetSliceStride () const
virtual ImageIORegion GetSplitRegionForWritingCanStreamWrite (unsigned int ithPiece, unsigned int numberOfActualSplits, const ImageIORegion &pasteRegion) const
 ImageIOBase ()
virtual void ReadBufferAsASCII (std::istream &os, void *buffer, IOComponentType ctype, SizeType numberOfBytesToBeRead)
bool ReadBufferAsBinary (std::istream &os, void *buffer, SizeType numberOfBytesToBeRead)
virtual void Reset (const bool freeDynamic=true)
void Resize (const unsigned int numDimensions, const unsigned int *dimensions)
virtual void WriteBufferAsASCII (std::ostream &os, const void *buffer, IOComponentType ctype, SizeType numberOfBytesToWrite)
 ~ImageIOBase ()
- Protected Member Functions inherited from itk::LightProcessObject
 LightProcessObject ()
 ~LightProcessObject ()
virtual void GenerateData ()
- Protected Member Functions inherited from itk::Object
 Object ()
bool PrintObservers (std::ostream &os, Indent indent) const
virtual void SetTimeStamp (const TimeStamp &time)
virtual ~Object ()
- Protected Member Functions inherited from itk::LightObject
virtual LightObject::Pointer InternalClone () const
 LightObject ()
virtual void PrintHeader (std::ostream &os, Indent indent) const
virtual void PrintTrailer (std::ostream &os, Indent indent) const
virtual ~LightObject ()

Private Member Functions

void operator= (const Self &)
 StimulateImageIO (const Self &)

Private Attributes

std::string m_DataFileName
float m_DisplayRange [2]
float m_DisplayThresh
char m_FidName [256]
char m_SdtOrient [256]

Additional Inherited Members

- Protected Attributes inherited from itk::ImageIOBase
ByteOrder m_ByteOrder
IOComponentType m_ComponentType
std::vector< SizeValueTypem_Dimensions
std::vector< std::vector
< double > > 
m_Direction
std::string m_FileName
FileType m_FileType
bool m_Initialized
ImageIORegion m_IORegion
unsigned int m_NumberOfComponents
unsigned int m_NumberOfDimensions
std::vector< double > m_Origin
IOPixelType m_PixelType
std::vector< double > m_Spacing
std::vector< SizeTypem_Strides
bool m_UseCompression
bool m_UseStreamedReading
bool m_UseStreamedWriting

Detailed Description

ImageIO class for reading SDT/SPR (Stimulate) images This format is similar to a MetaImageIO file: The user should specify the .spr file (not the data file : .sdt)

This is based on the notes from:

http://www.cmrr.umn.edu/stimulate/stimUsersGuide/node57.html

It has been tested on:

ftp://ftp.cmrr.umn.edu/pub/stimulate/data/
Warning:
Beware of the scalar range of some files (See GetDisplayRange).
Author:
Mathieu Malaterre CREATIS team at INSA - Lyon 2002 http://www.creatis.insa-lyon.fr

Definition at line 61 of file itkStimulateImageIO.h.


Member Typedef Documentation

Reimplemented from itk::ImageIOBase.

Definition at line 67 of file itkStimulateImageIO.h.

Standard class typedefs.

Reimplemented from itk::ImageIOBase.

Definition at line 65 of file itkStimulateImageIO.h.

Reimplemented from itk::ImageIOBase.

Definition at line 66 of file itkStimulateImageIO.h.


Constructor & Destructor Documentation

itk::StimulateImageIO::StimulateImageIO ( )
protected
itk::StimulateImageIO::~StimulateImageIO ( )
protected
itk::StimulateImageIO::StimulateImageIO ( const Self )
private

Member Function Documentation

virtual bool itk::StimulateImageIO::CanReadFile ( const char *  )
virtual

Determine the file type. Returns true if this ImageIO can read the file specified.

Implements itk::ImageIOBase.

virtual bool itk::StimulateImageIO::CanWriteFile ( const char *  )
virtual

Determine the file type. Returns true if this ImageIO can read the file specified.

Implements itk::ImageIOBase.

virtual::itk::LightObject::Pointer itk::StimulateImageIO::CreateAnother ( void  ) const
virtual

Create an object from an instance, potentially deferring to a factory. This method allows you to create an instance of an object that is exactly the same type as the referring object. This is useful in cases where an object has been cast back to a base class.

Reimplemented from itk::LightProcessObject.

virtual const float* itk::StimulateImageIO::GetDisplayRange ( ) const
virtual

Two values used for applying intensity windowing to the data set. The pair of numbers represent a low value and a hight value. Pixel values below the low_value will be displayed as black and voxels with values above the high_value will be displayed as white. Pixels with values within the display range are displayed with a grey value that is scaled linearly between the low_value and high_value.

const float& itk::StimulateImageIO::GetHighDisplayValue ( )
inline

Two values used for applying intensity windowing to the data set. The pair of numbers represent a low value and a hight value. Pixel values below the low_value will be displayed as black and voxels with values above the high_value will be displayed as white. Pixels with values within the display range are displayed with a grey value that is scaled linearly between the low_value and high_value.

Definition at line 108 of file itkStimulateImageIO.h.

const float& itk::StimulateImageIO::GetLowDisplayValue ( )
inline

Two values used for applying intensity windowing to the data set. The pair of numbers represent a low value and a hight value. Pixel values below the low_value will be displayed as black and voxels with values above the high_value will be displayed as white. Pixels with values within the display range are displayed with a grey value that is scaled linearly between the low_value and high_value.

Definition at line 112 of file itkStimulateImageIO.h.

virtual const char* itk::StimulateImageIO::GetNameOfClass ( ) const
virtual

Run-time type information (and related methods).

Reimplemented from itk::ImageIOBase.

void itk::StimulateImageIO::InternalReadImageInformation ( std::ifstream &  file)
protected
static Pointer itk::StimulateImageIO::New ( )
static

Method for creation through the object factory.

Reimplemented from itk::LightProcessObject.

bool itk::StimulateImageIO::OpenStimulateFileForReading ( std::ifstream &  os,
const char *  filename 
)
protected
bool itk::StimulateImageIO::OpenStimulateFileForWriting ( std::ofstream &  os,
const char *  filename 
)
protected
void itk::StimulateImageIO::operator= ( const Self )
private

This method causes the filter to generate its output.

Reimplemented from itk::ImageIOBase.

void itk::StimulateImageIO::PrintSelf ( std::ostream &  os,
Indent  indent 
) const
protectedvirtual

Methods invoked by Print() to print information about the object including superclasses. Typically not called by the user (use Print() instead) but used in the hierarchical print process to combine the output of several classes.

Reimplemented from itk::ImageIOBase.

virtual void itk::StimulateImageIO::Read ( void *  buffer)
virtual

Reads the data from disk into the memory buffer provided.

Implements itk::ImageIOBase.

virtual void itk::StimulateImageIO::ReadImageInformation ( )
virtual

Set the spacing and dimesion information for the current filename.

Implements itk::ImageIOBase.

virtual void itk::StimulateImageIO::Write ( const void *  buffer)
virtual

Writes the data to disk from the memory buffer provided. Make sure that the IORegion has been set properly.

Implements itk::ImageIOBase.

virtual void itk::StimulateImageIO::WriteImageInformation ( void  )
inlinevirtual

Writes the spacing and dimensions of the image. Assumes SetFileName has been called with a valid file name.

Implements itk::ImageIOBase.

Definition at line 95 of file itkStimulateImageIO.h.


Member Data Documentation

std::string itk::StimulateImageIO::m_DataFileName
private

Definition at line 130 of file itkStimulateImageIO.h.

float itk::StimulateImageIO::m_DisplayRange[2]
private

Definition at line 132 of file itkStimulateImageIO.h.

float itk::StimulateImageIO::m_DisplayThresh
private

Definition at line 133 of file itkStimulateImageIO.h.

char itk::StimulateImageIO::m_FidName[256]
private

Definition at line 134 of file itkStimulateImageIO.h.

char itk::StimulateImageIO::m_SdtOrient[256]
private

Definition at line 131 of file itkStimulateImageIO.h.


The documentation for this class was generated from the following file: