ITK
4.1.0
Insight Segmentation and Registration Toolkit
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#include <itkMRCImageIO.h>
Public Types | |
typedef SmartPointer< Self > | Pointer |
typedef MRCImageIO | Self |
typedef StreamingImageIOBase | Superclass |
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 (void) |
Static Public Member Functions | |
static Pointer | New () |
Protected Member Functions | |
virtual SizeType | GetHeaderSize (void) const |
Private Member Functions | |
void | InternalReadImageInformation (std::ifstream &is) |
MRCImageIO (const Self &) | |
void | operator= (const Self &) |
void | UpdateHeaderFromImageIO (void) |
template<typename TPixelType > | |
void | UpdateHeaderWithMinMaxMean (const TPixelType *bufferBegin) |
void | UpdateHeaderWithMinMaxMean (const void *bufferBegin) |
virtual void | WriteImageInformation (const void *bufferBegin) |
Private Attributes | |
MRCHeaderObject::Pointer | m_MRCHeader |
static const char * | m_MetaDataHeaderName |
MRCImageIO () | |
void | PrintSelf (std::ostream &os, Indent indent) const |
An ImageIO class to read the MRC file format. The MRC file format frequently has the extension ".mrc" or ".rec". It is used frequently for electron microscopy and is an emerging standard for cryo-electron tomography and molecular imaging. The format is used to represent 2D, 3D images along with 2D tilt series for tomography.
The header of the file can contain important information which can not be represented in an Image. Therefor the header is placed into the MetaDataDictionary of "this". The key to access this is MetaDataHeaderName ( fix me when renamed ).
This implementation is designed to support IO Streaming of arbitrary regions.
As with all ImageIOs this class is designed to work with ImageFileReader and ImageFileWriter, so its direct use is discouraged.
This code was contributed in the Insight Journal paper: "A Streaming IO Base Class and Support for Streaming the MRC and VTK File Format" by Lowekamp B., Chen D. http://www.insight-journal.org/browse/publication/729 http://hdl.handle.net/10380/3171
Definition at line 59 of file itkMRCImageIO.h.
typedef SmartPointer< Self > itk::MRCImageIO::Pointer |
Reimplemented from itk::StreamingImageIOBase.
Definition at line 66 of file itkMRCImageIO.h.
typedef MRCImageIO itk::MRCImageIO::Self |
Standard class typedefs.
Reimplemented from itk::StreamingImageIOBase.
Definition at line 64 of file itkMRCImageIO.h.
Reimplemented from itk::StreamingImageIOBase.
Definition at line 65 of file itkMRCImageIO.h.
itk::MRCImageIO::MRCImageIO | ( | ) | [protected] |
itk::MRCImageIO::MRCImageIO | ( | const Self & | ) | [private] |
virtual bool itk::MRCImageIO::CanReadFile | ( | const char * | ) | [virtual] |
Determine the file type. Returns true if this ImageIO can read the file specified.
Implements itk::ImageIOBase.
virtual bool itk::MRCImageIO::CanWriteFile | ( | const char * | ) | [virtual] |
Returns true if this ImageIO can write the specified file.
The methods verifies that the file extension is known to be supported by this class.
Implements itk::ImageIOBase.
virtual::itk::LightObject::Pointer itk::MRCImageIO::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 SizeType itk::MRCImageIO::GetHeaderSize | ( | void | ) | const [protected, virtual] |
Overloaded to return the actually header size of the file specified. The header must be read before this methods is called.
Implements itk::StreamingImageIOBase.
virtual const char* itk::MRCImageIO::GetNameOfClass | ( | ) | const [virtual] |
Run-time type information (and related methods).
Reimplemented from itk::StreamingImageIOBase.
void itk::MRCImageIO::InternalReadImageInformation | ( | std::ifstream & | is | ) | [private] |
static Pointer itk::MRCImageIO::New | ( | ) | [static] |
Method for creation through the object factory.
Reimplemented from itk::LightProcessObject.
void itk::MRCImageIO::operator= | ( | const Self & | ) | [private] |
This method causes the filter to generate its output.
Reimplemented from itk::StreamingImageIOBase.
void itk::MRCImageIO::PrintSelf | ( | std::ostream & | os, |
Indent | indent | ||
) | const [protected, virtual] |
Reimplemented from itk::StreamingImageIOBase.
virtual void itk::MRCImageIO::Read | ( | void * | buffer | ) | [virtual] |
Reads the data from disk into the memory buffer provided.
Implements itk::ImageIOBase.
virtual void itk::MRCImageIO::ReadImageInformation | ( | ) | [virtual] |
Read the spacing and dimentions of the image. Assumes SetFileName has been called with a valid file name.
Implements itk::ImageIOBase.
void itk::MRCImageIO::UpdateHeaderFromImageIO | ( | void | ) | [private] |
void itk::MRCImageIO::UpdateHeaderWithMinMaxMean | ( | const TPixelType * | bufferBegin | ) | [inline, private] |
Definition at line 126 of file itkMRCImageIO.h.
References itk::min_max_element().
void itk::MRCImageIO::UpdateHeaderWithMinMaxMean | ( | const void * | bufferBegin | ) | [private] |
virtual void itk::MRCImageIO::Write | ( | const void * | buffer | ) | [virtual] |
Writes the data to disk from the memory buffer provided. Make sure that the IORegions has been set properly. The buffer is cast to a pointer to the beginning of the image data.
Implements itk::ImageIOBase.
virtual void itk::MRCImageIO::WriteImageInformation | ( | void | ) | [inline, virtual] |
Writes the spacing and dimentions of the image. Assumes SetFileName has been called with a valid file name.
Implements itk::ImageIOBase.
Definition at line 75 of file itkMRCImageIO.h.
virtual void itk::MRCImageIO::WriteImageInformation | ( | const void * | bufferBegin | ) | [private, virtual] |
const char* itk::MRCImageIO::m_MetaDataHeaderName [static] |
Definition at line 105 of file itkMRCImageIO.h.
Definition at line 156 of file itkMRCImageIO.h.