Store NIfTI header information. More...

#include <vtkNIFTIHeader.h>

Inheritance diagram for vtkNIFTIHeader:

Collaboration diagram for vtkNIFTIHeader:

Public Types
enum	IntentCodeEnum { IntentNone = 0 , IntentCorrel = 2 , IntentTTest = 3 , IntentFTest = 4 , IntentZScore = 5 , IntentChiSQ = 6 , IntentBeta = 7 , IntentBinom = 8 , IntentGamma = 9 , IntentPoisson = 10 , IntentNormal = 11 , IntentFTestNonc = 12 , IntentChiSQNonc = 13 , IntentLogistic = 14 , IntentLaplace = 15 , IntentUniform = 16 , IntentTTestNonc = 17 , IntentWeibull = 18 , IntentChi = 19 , IntentInvGauss = 20 , IntentExtVal = 21 , IntentPVal = 22 , IntentLogPVal = 23 , IntentLog10PVal = 24 , IntentEstimate = 1001 , IntentLabel = 1002 , IntentNeuroName = 1003 , IntentGenMatrix = 1004 , IntentSymMatrix = 1005 , IntentDispVect = 1006 , IntentVector = 1007 , IntentPointSet = 1008 , IntentTriangle = 1009 , IntentQuaternion = 1010 , IntentDimless = 1011 , IntentTimeSeries = 2001 , IntentNodeIndex = 2002 , IntentRGBVector = 2003 , IntentRGBAVector = 2004 , IntentShape = 2005 }
	NIFTI intent codes.

enum	XFormCodeEnum { XFormUnkown = 0 , XFormScannerAnat = 1 , XFormAlignedAnat = 2 , XFormTalairach = 3 , XFormMNI152 = 4 , XFormTemplateOther = 5 }
	NIFTI transform codes.

enum	SliceCodeEnum { SliceUnknown = 0 , SliceSeqInc = 1 , SliceSeqDec = 2 , SliceAltInc = 3 , SliceAltDec = 4 , SliceAltInc2 = 5 , SliceAltDec2 = 6 }
	NIFTI slice codes.

enum	UnitsXYZTEnum { UnitsUnknown = 0 , UnitsMeter = 1 , UnitsMM = 2 , UnitsMicron = 3 , UnitsSpace = 7 , UnitsSec = 8 , UnitsMSec = 16 , UnitsUSec = 24 , UnitsHz = 32 , UnitsPPM = 40 , UnitsRads = 48 , UnitsTime = 56 }
	NIFTI unit codes.

enum	DataTypeEnum { TypeUInt8 = 2 , TypeInt16 = 4 , TypeInt32 = 8 , TypeFloat32 = 16 , TypeComplex64 = 32 , TypeFloat64 = 64 , TypeRGB24 = 128 , TypeInt8 = 256 , TypeUInt16 = 512 , TypeUInt32 = 768 , TypeInt64 = 1024 , TypeUInt64 = 1280 , TypeFloat128 = 1536 , TypeComplex128 = 1792 , TypeComplex256 = 2048 , TypeRGBA32 = 2304 }
	NIFTI data types. More...

enum	HeaderSizeEnum { Nifti1HeaderSize = 348 , Nifti2HeaderSize = 540 }
	NIFTI header sizes.

typedef vtkObject	Superclass

Public Member Functions
virtual vtkTypeBool	IsA (const char *type)

vtkNIFTIHeader *	NewInstance () const

void	PrintSelf (ostream &os, vtkIndent indent) VTK_DICOM_OVERRIDE
	Print information about this object.

const char *	GetMagic ()
	Get the magic number for the NIFTI file as a null-terminated string.

vtkTypeInt64	GetVoxOffset ()
	Get the offset to the pixel data within the file.

int	GetDataType ()
	Get the data type.

int	GetBitPix ()
	Get the number of bits per pixel.

vtkTypeInt64	GetDim (int i)
	Get the nth dimension of the data, where 1 is first dimension. More...

double	GetPixDim (int i)
	Get the sample spacing in the nth dimension, 1 is first dimension. More...

virtual void	SetIntentCode (int)
	Get the NIFTI intent code. More...

int	GetIntentCode ()

void	SetIntentName (const char *name)
	Get the intent name. This should match the intent code.

const char *	GetIntentName ()

virtual void	SetIntentP1 (double)
	Get one of the NIFTI intent parameters. More...

double	GetIntentP1 ()

virtual void	SetIntentP2 (double)

double	GetIntentP2 ()

virtual void	SetIntentP3 (double)

double	GetIntentP3 ()

virtual void	SetSclSlope (double)
	Get the scale and slope to apply to get real-valued data.

double	GetSclSlope ()

virtual void	SetSclInter (double)

double	GetSclInter ()

virtual void	SetCalMin (double)
	Get the calibrated range (cal_min, cal_max) of the data.

double	GetCalMin ()

virtual void	SetCalMax (double)

double	GetCalMax ()

virtual void	SetSliceDuration (double)
	Get the slice_duration and toffset from the header.

double	GetSliceDuration ()

virtual void	SetTOffset (double)

double	GetTOffset ()

virtual void	SetSliceStart (vtkTypeInt64)
	Get the slice range for the data.

vtkTypeInt64	GetSliceStart ()

virtual void	SetSliceEnd (vtkTypeInt64)

vtkTypeInt64	GetSliceEnd ()

virtual void	SetSliceCode (int)
	Get the slice code for the data.

int	GetSliceCode ()

virtual void	SetXYZTUnits (int)
	Get a bitfield that describes the units for the first 4 dims.

int	GetXYZTUnits ()

virtual void	SetDimInfo (int)
	Get a bitfield with extra information about the dimensions, it. More...

int	GetDimInfo ()

void	SetDescrip (const char *descrip)
	Get a null-terminated file descriptor, this usually gives the. More...

const char *	GetDescrip ()

void	SetAuxFile (const char *auxfile)
	Get an auxiliary file, e.g. a color table, that is associated. More...

const char *	GetAuxFile ()

virtual void	SetQFormCode (int)
	Get the QForm or SForm code.

int	GetQFormCode ()

virtual void	SetSFormCode (int)

int	GetSFormCode ()

virtual void	SetQuaternB (double)
	Get information about the quaternion transformation. Note that. More...

double	GetQuaternB ()

virtual void	SetQuaternC (double)

double	GetQuaternC ()

virtual void	SetQuaternD (double)

double	GetQuaternD ()

virtual void	SetQOffsetX (double)

double	GetQOffsetX ()

virtual void	SetQOffsetY (double)

double	GetQOffsetY ()

virtual void	SetQOffsetZ (double)

double	GetQOffsetZ ()

virtual void	SetSRowX (double, double, double, double)
	Get information about the matrix transformation. More...

virtual void	SetSRowX (double[4])

virtual double *	GetSRowX ()

virtual void	GetSRowX (double &, double &, double &, double &)

virtual void	GetSRowX (double[4])

virtual void	SetSRowY (double, double, double, double)

virtual void	SetSRowY (double[4])

virtual double *	GetSRowY ()

virtual void	GetSRowY (double &, double &, double &, double &)

virtual void	GetSRowY (double[4])

virtual void	SetSRowZ (double, double, double, double)

virtual void	SetSRowZ (double[4])

virtual double *	GetSRowZ ()

virtual void	GetSRowZ (double &, double &, double &, double &)

virtual void	GetSRowZ (double[4])

void	Initialize ()
	Initialize the header to default values.

void	DeepCopy (vtkNIFTIHeader *o)
	Make a copy of the header.

void	SetHeader (const nifti_1_header *hdr)
	Set the values from an existing nifti struct, or vice-versa.

void	GetHeader (nifti_1_header *hdr)

void	SetHeader (const nifti_2_header *hdr)

void	GetHeader (nifti_2_header *hdr)

Public Member Functions inherited from vtkObject
	vtkBaseTypeMacro (vtkObject, vtkObjectBase)

virtual void	DebugOn ()

virtual void	DebugOff ()

bool	GetDebug ()

void	SetDebug (bool debugFlag)

virtual void	Modified ()

virtual vtkMTimeType	GetMTime ()

void	PrintSelf (ostream &os, vtkIndent indent) VTK_OVERRIDE

unsigned long	AddObserver (unsigned long event, vtkCommand *, float priority=0.0f)

unsigned long	AddObserver (const char event, vtkCommand , float priority=0.0f)

vtkCommand *	GetCommand (unsigned long tag)

void	RemoveObserver (vtkCommand *)

void	RemoveObservers (unsigned long event, vtkCommand *)

void	RemoveObservers (const char event, vtkCommand )

int	HasObserver (unsigned long event, vtkCommand *)

int	HasObserver (const char event, vtkCommand )

void	RemoveObserver (unsigned long tag)

void	RemoveObservers (unsigned long event)

void	RemoveObservers (const char *event)

void	RemoveAllObservers ()

int	HasObserver (unsigned long event)

int	HasObserver (const char *event)

template<class U , class T >
unsigned long	AddObserver (unsigned long event, U observer, void(T::*callback)(), float priority=0.0f)

template<class U , class T >
unsigned long	AddObserver (unsigned long event, U observer, void(T::callback)(vtkObject , unsigned long, void *), float priority=0.0f)

template<class U , class T >
unsigned long	AddObserver (unsigned long event, U observer, bool(T::callback)(vtkObject , unsigned long, void *), float priority=0.0f)

int	InvokeEvent (unsigned long event, void *callData)

int	InvokeEvent (const char event, void callData)

int	InvokeEvent (unsigned long event)

int	InvokeEvent (const char *event)

Public Member Functions inherited from vtkObjectBase
const char *	GetClassName () const

virtual void	Delete ()

virtual void	FastDelete ()

void	InitializeObjectBase ()

void	Print (ostream &os)

virtual void	PrintHeader (ostream &os, vtkIndent indent)

virtual void	PrintTrailer (ostream &os, vtkIndent indent)

virtual void	Register (vtkObjectBase *o)

virtual void	UnRegister (vtkObjectBase *o)

int	GetReferenceCount ()

void	SetReferenceCount (int)

void	PrintRevisions (ostream &)

Static Public Member Functions
static vtkNIFTIHeader *	New ()
	Static method for construction.

static vtkTypeBool	IsTypeOf (const char *type)

static vtkNIFTIHeader *	SafeDownCast (vtkObjectBase *o)

static void	ByteSwapHeader (nifti_1_header *hdr)
	Byte-swap the nifti header struct.

static void	ByteSwapHeader (nifti_2_header *hdr)

Static Public Member Functions inherited from vtkObject
static vtkObject *	New ()

static void	BreakOnError ()

static void	SetGlobalWarningDisplay (int val)

static void	GlobalWarningDisplayOn ()

static void	GlobalWarningDisplayOff ()

static int	GetGlobalWarningDisplay ()

Static Public Member Functions inherited from vtkObjectBase
static vtkTypeBool	IsTypeOf (const char *name)

static vtkObjectBase *	New ()

Protected Member Functions
virtual vtkObjectBase *	NewInstanceInternal () const

void	SetStringValue (char x, const char y, size_t n)

Protected Member Functions inherited from vtkObject
void	RegisterInternal (vtkObjectBase *, vtkTypeBool check) VTK_OVERRIDE

void	UnRegisterInternal (vtkObjectBase *, vtkTypeBool check) VTK_OVERRIDE

void	InternalGrabFocus (vtkCommand mouseEvents, vtkCommand keypressEvents=NULL)

void	InternalReleaseFocus ()

Protected Member Functions inherited from vtkObjectBase
virtual void	CollectRevisions (ostream &)

virtual void	ReportReferences (vtkGarbageCollector *)

	vtkObjectBase (const vtkObjectBase &)

void	operator= (const vtkObjectBase &)

Protected Attributes
char	Magic [12]

vtkTypeInt64	VoxOffset

int	DataType

int	BitPix

vtkTypeInt64	Dim [8]

double	PixDim [8]

int	IntentCode

char	IntentName [18]

double	IntentP1

double	IntentP2

double	IntentP3

double	SclSlope

double	SclInter

double	CalMin

double	CalMax

double	SliceDuration

double	TOffset

vtkTypeInt64	SliceStart

vtkTypeInt64	SliceEnd

int	SliceCode

int	XYZTUnits

int	DimInfo

char	Descrip [82]

char	AuxFile [26]

int	QFormCode

int	SFormCode

double	QuaternB

double	QuaternC

double	QuaternD

double	QOffsetX

double	QOffsetY

double	QOffsetZ

double	SRowX [4]

double	SRowY [4]

double	SRowZ [4]

Protected Attributes inherited from vtkObject
bool	Debug

vtkTimeStamp	MTime

vtkSubjectHelper *	SubjectHelper

Protected Attributes inherited from vtkObjectBase
vtkAtomicInt32	ReferenceCount

vtkWeakPointerBase **	WeakPointers

Detailed Description

Store NIfTI header information.

This class stores the header of a NIfTI file in a VTK-friendly format. By using this class, it is possible to specify the header information that will be stored in a file written by the vtkNIFTIWriter. Note that the SForm and QForm orientation information in this class will be ignored by the writer if an SForm and QForm have been explicitly set via the writer's SetSForm and SetQForm methods. Also note that all info like Dim, PixDim, DataType, etc. will be ignored by the writer because this information must instead be taken from the vtkImageData information. Finally, note that the vtkNIFTIWriter will ignore the Descrip field, since it has its own SetDescription method.

This class was contributed to VTK by the Calgary Image Processing and Analysis Centre (CIPAC).

See also: vtkNIFTIReader, vtkNIFTIWriter

Member Enumeration Documentation

◆ DataTypeEnum

enum vtkNIFTIHeader::DataTypeEnum

NIFTI data types.

Types RGB24 and RGB32 are represented in VTK as a multi-component unsigned char image. Complex values are represented as two-component images. The NIFTI types Float128 and Complex256 are not supported.

Member Function Documentation

◆ GetDim()

vtkTypeInt64 vtkNIFTIHeader::GetDim ( int i )

inline

Get the nth dimension of the data, where 1 is first dimension.

GetDim(0) returns the number of dimensions that are defined for the file.

◆ GetPixDim()

double vtkNIFTIHeader::GetPixDim ( int i )

inline

Get the sample spacing in the nth dimension, 1 is first dimension.

If GetPixDim(0) is negative, then the quaternion for the qform describes the correct orientation only after the slice ordering has been reversed.

◆ IsA()

virtual vtkTypeBool vtkNIFTIHeader::IsA ( const char * name )

virtual

Return 1 if this class is the same type of (or a subclass of) the named class. Returns 0 otherwise. This method works in combination with vtkTypeMacro found in vtkSetGet.h.

Reimplemented from vtkObjectBase.

◆ SetAuxFile()

void vtkNIFTIHeader::SetAuxFile ( const char * auxfile )

Get an auxiliary file, e.g. a color table, that is associated.

with this data. The length of the filename must be a maximum of 24 characters, and it will be assumed to be in the same directory as the NIFTI file.

◆ SetDescrip()

void vtkNIFTIHeader::SetDescrip ( const char * descrip )

Get a null-terminated file descriptor, this usually gives the.

name of the software that wrote the file. It will have a maximum length of 80 characters.

◆ SetDimInfo()

virtual void vtkNIFTIHeader::SetDimInfo ( int )

virtual

Get a bitfield with extra information about the dimensions, it.

states which dimensions are the phase encode, frequency encode, and slice encode dimensions for MRI acquisitions.

◆ SetIntentCode()

virtual void vtkNIFTIHeader::SetIntentCode ( int )

virtual

Get the NIFTI intent code.

This is an enumerated value in the NIFTI header that states what the data is intended to be used for.

◆ SetIntentP1()

virtual void vtkNIFTIHeader::SetIntentP1 ( double )

virtual

Get one of the NIFTI intent parameters.

The definition of these parameters varies according to the IntentCode.

◆ SetQuaternB()

virtual void vtkNIFTIHeader::SetQuaternB ( double )

virtual

Get information about the quaternion transformation. Note that.

Note that the vtkNIFTIWriter ignores this part of the header if a quaternion has been set via vtkNIFTIWriter::SetQFormMatrix().

◆ SetSRowX()

virtual void vtkNIFTIHeader::SetSRowX	(	double	,
		double	,
		double	,
		double
	)

virtual

Get information about the matrix transformation.

Note that the vtkNIFTIWriter ignores this part of the header if a matrix has been set via vtkNIFTIWriter::SetSFormMatrix().

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

vtkNIFTIHeader.h

Public Types

Public Member Functions

Static Public Member Functions

Protected Member Functions

Protected Attributes

Detailed Description

Member Enumeration Documentation

◆ DataTypeEnum

Member Function Documentation

◆ GetDim()

◆ GetPixDim()

◆ IsA()

◆ SetAuxFile()

◆ SetDescrip()

◆ SetDimInfo()

◆ SetIntentCode()

◆ SetIntentP1()

◆ SetQuaternB()

◆ SetSRowX()