ITK  5.4.0
Insight Toolkit
Public Types | Public Member Functions | Static Public Member Functions | Protected Member Functions | Private Member Functions | Private Attributes | Static Private Attributes | List of all members

#include <itkMetaImageIO.h>

Detailed Description

Read MetaImage file format.

For a detailed description of using this format, please see https://www.itk.org/Wiki/ITK/MetaIO/Documentation

Definition at line 43 of file itkMetaImageIO.h.

+ Inheritance diagram for itk::MetaImageIO:
+ Collaboration diagram for itk::MetaImageIO:

Public Types

using Pointer = SmartPointer< Self >
 
using Self = MetaImageIO
 
using Superclass = ImageIOBase
 
- Public Types inherited from itk::ImageIOBase
using ArrayOfExtensionsType = std::vector< std::string >
 
using BufferSizeType = itk::OffsetValueType
 
using ConstPointer = SmartPointer< const Self >
 
using IndexValueType = itk::IndexValueType
 
using IOByteOrderEnum = itk::IOByteOrderEnum
 
using IOComponentEnum = itk::IOComponentEnum
 
using IOFileEnum = itk::IOFileEnum
 
using Pointer = SmartPointer< Self >
 
using Self = ImageIOBase
 
using SizeType = itk::intmax_t
 
using SizeValueType = itk::SizeValueType
 
using Superclass = LightProcessObject
 
- Public Types inherited from itk::LightProcessObject
using ConstPointer = SmartPointer< const Self >
 
using Pointer = SmartPointer< Self >
 
using Self = LightProcessObject
 
using Superclass = Object
 
- Public Types inherited from itk::Object
using ConstPointer = SmartPointer< const Self >
 
using Pointer = SmartPointer< Self >
 
using Self = Object
 
using Superclass = LightObject
 
- Public Types inherited from itk::LightObject
using ConstPointer = SmartPointer< const Self >
 
using Pointer = SmartPointer< Self >
 
using Self = LightObject
 

Public Member Functions

bool CanReadFile (const char *) override
 
bool CanWriteFile (const char *) override
 
ImageIORegion GenerateStreamableReadRegionFromRequestedRegion (const ImageIORegion &requestedRegion) const override
 
unsigned int GetActualNumberOfSplitsForWriting (unsigned int numberOfRequestedSplits, const ImageIORegion &pasteRegion, const ImageIORegion &largestPossibleRegion) override
 
MetaImage * GetMetaImagePointer ()
 
const char * GetNameOfClass () const override
 
ImageIORegion GetSplitRegionForWriting (unsigned int ithPiece, unsigned int numberOfActualSplits, const ImageIORegion &pasteRegion, const ImageIORegion &largestPossibleRegion) override
 
void Read (void *buffer) override
 
void ReadImageInformation () override
 
virtual void SetDataFileName (const char *filename)
 
virtual void SetDoublePrecision (unsigned int precision)
 
bool SupportsDimension (unsigned long) override
 
void Write (const void *buffer) override
 
void WriteImageInformation () override
 
bool CanStreamRead () override
 
bool CanStreamWrite () override
 
virtual void SetSubSamplingFactor (unsigned int _arg)
 
virtual unsigned int GetSubSamplingFactor () const
 
- Public Member Functions inherited from itk::ImageIOBase
std::string GetByteOrderAsString (IOByteOrderEnum) const
 
virtual unsigned int GetComponentSize () const
 
virtual IOComponentEnum GetComponentType () const
 
virtual const std::type_info & GetComponentTypeInfo () const
 
virtual int GetCompressionLevel () const
 
virtual const std::string & GetCompressor () const
 
virtual std::vector< double > GetDefaultDirection (unsigned int k) const
 
virtual SizeValueType GetDimensions (unsigned int i) const
 
virtual std::vector< double > GetDirection (unsigned int i) const
 
std::string GetFileTypeAsString (IOFileEnum) const
 
SizeType GetImageSizeInBytes () const
 
SizeType GetImageSizeInComponents () const
 
SizeType GetImageSizeInPixels () const
 
virtual bool GetIsReadAsScalarPlusPalette () const
 
virtual unsigned int GetNumberOfDimensions () const
 
virtual double GetOrigin (unsigned int i) const
 
virtual SizeType GetPixelStride () const
 
virtual double GetSpacing (unsigned int i) const
 
const ArrayOfExtensionsTypeGetSupportedReadExtensions () const
 
const ArrayOfExtensionsTypeGetSupportedWriteExtensions () const
 
void SetByteOrderToLittleEndian ()
 
virtual void SetComponentType (const IOComponentEnum _arg)
 
virtual void SetCompressionLevel (int _arg)
 
virtual void SetCompressor (std::string _c)
 
virtual void SetDirection (unsigned int i, const std::vector< double > &direction)
 
virtual void SetDirection (unsigned int i, const vnl_vector< double > &direction)
 
void SetFileTypeToBinary ()
 
void SetNumberOfDimensions (unsigned int)
 
virtual void SetOrigin (unsigned int i, double origin)
 
virtual void SetSpacing (unsigned int i, double spacing)
 
template<typename TPixel >
void SetTypeInfo (const TPixel *)
 
virtual void SetFileName (const char *_arg)
 
virtual const char * GetFileName () const
 
virtual void SetDimensions (unsigned int i, SizeValueType dim)
 
virtual void SetIORegion (ImageIORegion _arg)
 
virtual const ImageIORegionGetIORegion () const
 
virtual void SetPixelType (const itk::CommonEnums::IOPixel _arg)
 
virtual itk::CommonEnums::IOPixel GetPixelType () const
 
virtual void SetNumberOfComponents (unsigned int _arg)
 
virtual const unsigned int & GetNumberOfComponents () const
 
virtual void SetUseCompression (bool _arg)
 
virtual bool GetUseCompression () const
 
virtual void UseCompressionOn ()
 
virtual void SetUseStreamedReading (bool _arg)
 
virtual bool GetUseStreamedReading () const
 
virtual void UseStreamedReadingOn ()
 
virtual void SetUseStreamedWriting (bool _arg)
 
virtual bool GetUseStreamedWriting () const
 
virtual void UseStreamedWritingOn ()
 
virtual void SetExpandRGBPalette (bool _arg)
 
virtual bool GetExpandRGBPalette () const
 
virtual void ExpandRGBPaletteOn ()
 
virtual void SetWritePalette (bool _arg)
 
virtual bool GetWritePalette () const
 
virtual void WritePaletteOn ()
 
virtual void SetFileType (const IOFileEnum _arg)
 
virtual IOFileEnum GetFileType () const
 
void SetFileTypeToASCII ()
 
virtual void SetByteOrder (const IOByteOrderEnum _arg)
 
virtual IOByteOrderEnum 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<unsigned int VLength>
void SetPixelTypeInfo (const Offset< VLength > *)
 
template<typename TPixel , unsigned int VLength>
void SetPixelTypeInfo (const Vector< TPixel, VLength > *)
 
template<typename TCoordRep , unsigned int VPointDimension>
void SetPixelTypeInfo (const Point< TCoordRep, VPointDimension > *)
 
template<typename TPixel , unsigned int VLength>
void SetPixelTypeInfo (const CovariantVector< TPixel, VLength > *)
 
template<typename TPixel , unsigned int VLength>
void SetPixelTypeInfo (const SymmetricSecondRankTensor< TPixel, VLength > *)
 
template<typename TPixel >
void SetPixelTypeInfo (const DiffusionTensor3D< TPixel > *)
 
template<typename TPixel >
void SetPixelTypeInfo (const std::complex< TPixel > *)
 
template<typename TPixel , unsigned int VLength>
void SetPixelTypeInfo (const FixedArray< TPixel, VLength > *)
 
template<typename TPixel >
void SetPixelTypeInfo (const VariableLengthVector< TPixel > *)
 
template<typename TValue >
void SetPixelTypeInfo (const Array< TValue > *)
 
template<typename TPixel , unsigned int VLength>
void SetPixelTypeInfo (const Matrix< TPixel, VLength, VLength > *)
 
template<typename TValue >
void SetPixelTypeInfo (const VariableSizeMatrix< TValue > *)
 
- Public Member Functions inherited from itk::LightProcessObject
virtual void AbortGenerateDataOn ()
 
virtual const bool & GetAbortGenerateData () const
 
virtual void SetAbortGenerateData (bool _arg)
 
virtual void UpdateOutputData ()
 
void UpdateProgress (float amount)
 
virtual void SetProgress (float _arg)
 
virtual const float & GetProgress () const
 
- Public Member Functions inherited from itk::Object
unsigned long AddObserver (const EventObject &event, Command *)
 
unsigned long AddObserver (const EventObject &event, Command *) const
 
unsigned long AddObserver (const EventObject &event, std::function< void(const EventObject &)> function) const
 
LightObject::Pointer CreateAnother () const override
 
virtual void DebugOff () const
 
virtual void DebugOn () const
 
CommandGetCommand (unsigned long tag)
 
bool GetDebug () const
 
MetaDataDictionaryGetMetaDataDictionary ()
 
const MetaDataDictionaryGetMetaDataDictionary () const
 
virtual ModifiedTimeType 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
 
void Register () const override
 
void RemoveAllObservers ()
 
void RemoveObserver (unsigned long tag)
 
void SetDebug (bool debugFlag) const
 
void SetReferenceCount (int) override
 
void UnRegister () const noexcept override
 
void SetMetaDataDictionary (const MetaDataDictionary &rhs)
 
void SetMetaDataDictionary (MetaDataDictionary &&rrhs)
 
virtual void SetObjectName (std::string _arg)
 
virtual const std::string & GetObjectName () const
 
- Public Member Functions inherited from itk::LightObject
Pointer Clone () const
 
virtual void Delete ()
 
virtual int GetReferenceCount () const
 
void Print (std::ostream &os, Indent indent=0) const
 

Static Public Member Functions

static Pointer New ()
 
static void SetDefaultDoublePrecision (unsigned int precision)
 
static unsigned int GetDefaultDoublePrecision ()
 
- Static Public Member Functions inherited from itk::ImageIOBase
static std::string GetComponentTypeAsString (IOComponentEnum)
 
static IOComponentEnum GetComponentTypeFromString (const std::string &typeString)
 
static std::string GetPixelTypeAsString (IOPixelEnum)
 
static IOPixelEnum GetPixelTypeFromString (const std::string &pixelString)
 
- Static Public Member Functions inherited from itk::LightProcessObject
static Pointer New ()
 
- Static Public Member Functions inherited from itk::Object
static bool GetGlobalWarningDisplay ()
 
static void GlobalWarningDisplayOff ()
 
static void GlobalWarningDisplayOn ()
 
static Pointer New ()
 
static void SetGlobalWarningDisplay (bool val)
 
- Static Public Member Functions inherited from itk::LightObject
static void BreakOnError ()
 
static Pointer New ()
 

Protected Member Functions

 MetaImageIO ()
 
void PrintSelf (std::ostream &os, Indent indent) const override
 
template<unsigned int VNRows, unsigned int VNColumns = VNRows>
bool WriteMatrixInMetaData (std::ostringstream &strs, const MetaDataDictionary &metaDict, const std::string &metaString)
 
 ~MetaImageIO () override
 
- 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 const ImageRegionSplitterBaseGetImageRegionSplitter () 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 InternalSetCompressor (const std::string &_compressor)
 
virtual void OpenFileForReading (std::ifstream &inputStream, const std::string &filename, bool ascii=false)
 
virtual void OpenFileForWriting (std::ofstream &outputStream, const std::string &filename, bool truncate=true, bool ascii=false)
 
virtual void ReadBufferAsASCII (std::istream &is, void *buffer, IOComponentEnum ctype, SizeType numComp)
 
bool ReadBufferAsBinary (std::istream &is, void *buffer, SizeType num)
 
virtual void Reset (const bool freeDynamic=true)
 
void Resize (const unsigned int numDimensions, const unsigned int *dimensions)
 
void SetSupportedReadExtensions (const ArrayOfExtensionsType &)
 
void SetSupportedWriteExtensions (const ArrayOfExtensionsType &)
 
virtual void WriteBufferAsASCII (std::ostream &os, const void *buffer, IOComponentEnum ctype, SizeType numComp)
 
 ~ImageIOBase () override
 
virtual bool HasSupportedReadExtension (const char *fileName, bool ignoreCase=true)
 
virtual bool HasSupportedWriteExtension (const char *fileName, bool ignoreCase=true)
 
virtual void SetMaximumCompressionLevel (int)
 
virtual int GetMaximumCompressionLevel () const
 
- Protected Member Functions inherited from itk::LightProcessObject
virtual void GenerateData ()
 
 LightProcessObject ()
 
 ~LightProcessObject () override
 
- Protected Member Functions inherited from itk::Object
 Object ()
 
bool PrintObservers (std::ostream &os, Indent indent) const
 
virtual void SetTimeStamp (const TimeStamp &timeStamp)
 
 ~Object () override
 
- 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

 itkGetGlobalDeclarationMacro (unsigned int, DefaultDoublePrecision)
 

Private Attributes

MetaImage m_MetaImage {}
 
unsigned int m_SubSamplingFactor {}
 

Static Private Attributes

static unsigned int * m_DefaultDoublePrecision
 

Additional Inherited Members

- Protected Attributes inherited from itk::ImageIOBase
IOByteOrderEnum m_ByteOrder { IOByteOrderEnum::OrderNotApplicable }
 
IOComponentEnum m_ComponentType { IOComponentEnum::UNKNOWNCOMPONENTTYPE }
 
int m_CompressionLevel { 30 }
 
std::string m_Compressor { "uninitialized" }
 
std::vector< SizeValueTypem_Dimensions {}
 
std::vector< std::vector< double > > m_Direction {}
 
bool m_ExpandRGBPalette {}
 
std::string m_FileName {}
 
IOFileEnum m_FileType { IOFileEnum::TypeNotApplicable }
 
bool m_Initialized {}
 
ImageIORegion m_IORegion {}
 
bool m_IsReadAsScalarPlusPalette {}
 
int m_MaximumCompressionLevel { 100 }
 
unsigned int m_NumberOfComponents {}
 
unsigned int m_NumberOfDimensions { 0 }
 
std::vector< double > m_Origin {}
 
IOPixelEnum m_PixelType { IOPixelEnum::SCALAR }
 
std::vector< double > m_Spacing {}
 
std::vector< SizeTypem_Strides {}
 
bool m_UseCompression { false }
 
bool m_UseStreamedReading {}
 
bool m_UseStreamedWriting {}
 
bool m_WritePalette {}
 
- Protected Attributes inherited from itk::LightObject
std::atomic< int > m_ReferenceCount {}
 

Member Typedef Documentation

◆ Pointer

Definition at line 51 of file itkMetaImageIO.h.

◆ Self

Standard class type aliases.

Definition at line 49 of file itkMetaImageIO.h.

◆ Superclass

Definition at line 50 of file itkMetaImageIO.h.

Constructor & Destructor Documentation

◆ MetaImageIO()

itk::MetaImageIO::MetaImageIO ( )
protected

◆ ~MetaImageIO()

itk::MetaImageIO::~MetaImageIO ( )
overrideprotected

Member Function Documentation

◆ CanReadFile()

bool itk::MetaImageIO::CanReadFile ( const char *  )
overridevirtual

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

Implements itk::ImageIOBase.

◆ CanStreamRead()

bool itk::MetaImageIO::CanStreamRead ( )
inlineoverridevirtual

Determine if the ImageIO can stream reading from this file. Only time cannot stream read/write is if compression is used. CanRead must be called prior to this function.

Reimplemented from itk::ImageIOBase.

Definition at line 140 of file itkMetaImageIO.h.

◆ CanStreamWrite()

bool itk::MetaImageIO::CanStreamWrite ( )
inlineoverridevirtual

Determine if the ImageIO can stream writing to this file. Only time cannot stream read/write is if compression is used. Assumes file passes a CanRead call and its pixels are of the same type as the template of the writer. Can verify by first calling CanRead and then CanStreamRead prior to calling CanStreamWrite.

Reimplemented from itk::ImageIOBase.

Definition at line 156 of file itkMetaImageIO.h.

◆ CanWriteFile()

bool itk::MetaImageIO::CanWriteFile ( const char *  )
overridevirtual

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

Implements itk::ImageIOBase.

◆ GenerateStreamableReadRegionFromRequestedRegion()

ImageIORegion itk::MetaImageIO::GenerateStreamableReadRegionFromRequestedRegion ( const ImageIORegion requestedRegion) const
overridevirtual

Method for supporting streaming. Given a requested region, calculate what could be the region that we can read from the file. This is called the streamable region, which will be smaller than the LargestPossibleRegion and greater or equal to the RequestedRegion

Reimplemented from itk::ImageIOBase.

◆ GetActualNumberOfSplitsForWriting()

unsigned int itk::MetaImageIO::GetActualNumberOfSplitsForWriting ( unsigned int  numberOfRequestedSplits,
const ImageIORegion pasteRegion,
const ImageIORegion largestPossibleRegion 
)
overridevirtual

Before this method is called all the configuration will be done, that is Streaming/PasteRegion/Compression/Filename etc If pasting is being used the number of requested splits is for that region not the largest. The derived ImageIO class should verify that the file is capable of being written with this configuration. If pasted is enabled and is not support or does not work with the file, then an exception should be thrown.

The default implementation depends on CanStreamWrite. If false then 1 is returned (unless pasting is indicated), so that the whole file will be updated in one region. If true then its assumed that any arbitrary region can be written to any file. So the users request will be respected. If a derived class has more restrictive conditions then they should be checked

Reimplemented from itk::ImageIOBase.

◆ GetDefaultDoublePrecision()

static unsigned int itk::MetaImageIO::GetDefaultDoublePrecision ( )
static

Set the default precision when writing out the MetaImage header. MetaImage header contains values stored in memory as double, use this precision when writing out the value. The precision should only be defined in the range [0, 17] since a value of 17 will make the conversion of a double floating-point to text and back exact. This function is not thread safe. Default value after static initialization is 17.

◆ GetMetaImagePointer()

MetaImage* itk::MetaImageIO::GetMetaImagePointer ( )

◆ GetNameOfClass()

const char* itk::MetaImageIO::GetNameOfClass ( ) const
overridevirtual

Run-time type information (and related methods).

Reimplemented from itk::ImageIOBase.

◆ GetSplitRegionForWriting()

ImageIORegion itk::MetaImageIO::GetSplitRegionForWriting ( unsigned int  ithPiece,
unsigned int  numberOfActualSplits,
const ImageIORegion pasteRegion,
const ImageIORegion largestPossibleRegion 
)
overridevirtual

returns the ith IORegion

numberOfActualSplits should be the value returned from GetActualNumberOfSplitsForWriting with the same parameters

Derived classes should overload this method to return a compatible region

Reimplemented from itk::ImageIOBase.

◆ GetSubSamplingFactor()

virtual unsigned int itk::MetaImageIO::GetSubSamplingFactor ( ) const
virtual

Determining the subsampling factor in case we want a coarse version of the image/

Warning
this is only used when streaming is on.

◆ itkGetGlobalDeclarationMacro()

itk::MetaImageIO::itkGetGlobalDeclarationMacro ( unsigned int  ,
DefaultDoublePrecision   
)
private

Only used to synchronize the global variable across static libraries.

◆ New()

static Pointer itk::MetaImageIO::New ( )
static

Method for creation through the object factory.

◆ PrintSelf()

void itk::MetaImageIO::PrintSelf ( std::ostream &  os,
Indent  indent 
) const
overrideprotectedvirtual

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.

◆ Read()

void itk::MetaImageIO::Read ( void *  buffer)
overridevirtual

Reads the data from disk into the memory buffer provided.

Implements itk::ImageIOBase.

◆ ReadImageInformation()

void itk::MetaImageIO::ReadImageInformation ( )
overridevirtual

Set the spacing and dimension information for the set filename.

Implements itk::ImageIOBase.

◆ SetDataFileName()

virtual void itk::MetaImageIO::SetDataFileName ( const char *  filename)
virtual

Set the filename for the Data file. Setting this will make the Writer to use the non-Local mode and save header and data in independent files

◆ SetDefaultDoublePrecision()

static void itk::MetaImageIO::SetDefaultDoublePrecision ( unsigned int  precision)
static

Set the default precision when writing out the MetaImage header. MetaImage header contains values stored in memory as double, use this precision when writing out the value. The precision should only be defined in the range [0, 17] since a value of 17 will make the conversion of a double floating-point to text and back exact. This function is not thread safe. Default value after static initialization is 17.

◆ SetDoublePrecision()

virtual void itk::MetaImageIO::SetDoublePrecision ( unsigned int  precision)
inlinevirtual

set the precision in the MetaImage member

Definition at line 113 of file itkMetaImageIO.h.

◆ SetSubSamplingFactor()

virtual void itk::MetaImageIO::SetSubSamplingFactor ( unsigned int  _arg)
virtual

Determining the subsampling factor in case we want a coarse version of the image/

Warning
this is only used when streaming is on.

◆ SupportsDimension()

bool itk::MetaImageIO::SupportsDimension ( unsigned long  )
inlineoverridevirtual

The different types of ImageIO's can support data of varying dimensionality. For example, some file formats are strictly 2D while others can support 2D, 3D, or even n-D. This method returns true/false as to whether the ImageIO can support the dimension indicated.

Reimplemented from itk::ImageIOBase.

Definition at line 65 of file itkMetaImageIO.h.

◆ Write()

void itk::MetaImageIO::Write ( const void *  buffer)
overridevirtual

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

Implements itk::ImageIOBase.

◆ WriteImageInformation()

void itk::MetaImageIO::WriteImageInformation ( )
overridevirtual

Set the spacing and dimension information for the set filename.

Implements itk::ImageIOBase.

◆ WriteMatrixInMetaData()

template<unsigned int VNRows, unsigned int VNColumns>
bool itk::MetaImageIO::WriteMatrixInMetaData ( std::ostringstream &  strs,
const MetaDataDictionary metaDict,
const std::string &  metaString 
)
protected

Definition at line 211 of file itkMetaImageIO.h.

References itk::ExposeMetaData().

Member Data Documentation

◆ m_DefaultDoublePrecision

unsigned int* itk::MetaImageIO::m_DefaultDoublePrecision
staticprivate

Definition at line 206 of file itkMetaImageIO.h.

◆ m_MetaImage

MetaImage itk::MetaImageIO::m_MetaImage {}
private

Definition at line 202 of file itkMetaImageIO.h.

◆ m_SubSamplingFactor

unsigned int itk::MetaImageIO::m_SubSamplingFactor {}
private

Definition at line 204 of file itkMetaImageIO.h.


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