Generic image implementation for DICOM files. More...

#include <vil_dicom.h>

Inheritance diagram for vil_dicom_image:

Public Member Functions
	vil_dicom_image (vil_stream *is, unsigned ni, unsigned nj, unsigned nplanes, vil_pixel_format format)
	vil_dicom_image (vil_stream *is)
	~vil_dicom_image ()
virtual unsigned	nplanes () const
	Dimensions: Planes x ni x nj.
virtual unsigned	ni () const
	Dimensions: Planes x ni x nj.
virtual unsigned	nj () const
	Dimensions: Planes x ni x nj.
virtual enum vil_pixel_format	pixel_format () const
	Pixel Format.
virtual vil_image_view_base_sptr	get_copy_view (unsigned i0, unsigned ni, unsigned j0, unsigned nj) const
	Create a read/write view of a copy of this data.
virtual vil_image_view_base_sptr	get_view (unsigned i0, unsigned ni, unsigned j0, unsigned nj) const
	Create a read/write view of the data.
virtual bool	put_view (const vil_image_view_base &im, unsigned i0, unsigned j0)
	Put the data in this view back into the image source.
char const *	file_format () const
	Return a string describing the file format.
bool	get_property (char const tag, void prop=0) const
	Extra property information.
vil_dicom_header_info const &	header () const
virtual void	correct_manufacturer_discrepancies ()
	correct known manufacturers drop-offs in header data!.
virtual bool	interpret_hologic_header (float &xpixSize, float &ypixSize)
	try and interpret the hologic comments section to extract pixel size.
vil_image_view_base_sptr	get_view () const
	Create a read/write view of all the data.
vil_image_view_base_sptr	get_copy_view () const
	Create a read/write view of a copy of all the data.
virtual bool	put_view (const vil_image_view_base &im)
	Put the data in this view back into the image source at the origin.
virtual bool	view_fits (const vil_image_view_base &im, unsigned i0, unsigned j0)
	Check that a view will fit into the data at the given offset.
Protected Member Functions
void	ref ()
void	unref ()
Protected Attributes
vcl_atomic_count	reference_count_
Private Attributes
vil_dicom_header_info	header_
vil_image_resource_sptr	pixels_
Friends
class	vil_smart_ptr< vil_image_resource >
Related Functions
(Note that these are not member functions.)
template<class destT , class kernelT , class accumT >
vil_image_resource_sptr	vil_convolve_1d (const vil_image_resource_sptr &src_im, const destT, const kernelT *kernel, int k_lo, int k_hi, const accumT, vil_convolve_boundary_option start_option, vil_convolve_boundary_option end_option)
	Create an image_resource object which convolve kernel[x] x in [k_lo,k_hi] with srcT.
template<class destT , class kernelT , class accumT >
vil_image_resource_sptr	vil_correlate_1d (const vil_image_resource_sptr &src_im, const destT, const kernelT *kernel, vcl_ptrdiff_t k_lo, vcl_ptrdiff_t k_hi, const accumT, vil_convolve_boundary_option start_option, vil_convolve_boundary_option end_option)
	Create an image_resource object which correlate kernel[x] x in [k_lo,k_hi] with srcT.
vil_image_resource_sptr	vil_clamp (const vil_image_resource_sptr &src, double low, double hi)
	Clamp an image resource between two values.
bool	vil_copy_deep (const vil_image_resource_sptr &src, vil_image_resource_sptr &dest)
	Copy src to dest.
vil_image_resource_sptr	vil_crop (const vil_image_resource_sptr &src, unsigned i0, unsigned n_i, unsigned j0, unsigned n_j)
	Crop to a region of src.
vil_image_resource_sptr	vil_decimate (const vil_image_resource_sptr &src, unsigned i_factor, unsigned j_factor=0)
	decimate to a region of src.
vil_image_resource_sptr	vil_flip_lr (const vil_image_resource_sptr &src)
	Flip an image resource left to right.
vil_image_resource_sptr	vil_flip_ud (const vil_image_resource_sptr &src)
	Flip an image resource left to right.
vil_image_resource_sptr	vil_load_image_resource (char const *filename, bool verbose=true)
	Load an image resource object from a file.
vil_image_resource_sptr	vil_load_image_resource_raw (vil_stream *, bool verbose=true)
	Load from a stream.
vil_image_resource_sptr	vil_load_image_resource_raw (char const *, bool verbose=true)
	Load an image resource object from a file.
vil_image_resource_sptr	vil_load_image_resource_plugin (char const *)
	Load from a filename with a plugin.
vil_image_resource_sptr	vil_new_image_resource (unsigned ni, unsigned nj, unsigned nplanes, vil_pixel_format format)
	Make a new image of given format.
vil_image_resource_sptr	vil_new_image_resource (unsigned ni, unsigned nj, vil_image_resource_sptr const &prototype)
	Make a new image, similar format to the prototype.
vil_image_resource_sptr	vil_new_image_resource (vil_stream os, unsigned ni, unsigned nj, unsigned nplanes, vil_pixel_format format, char const file_format)
	Make a new image.
vil_image_resource_sptr	vil_new_image_resource (char const filename, unsigned ni, unsigned nj, vil_image_resource_sptr const &prototype, char const file_format)
	Make a new vil_image_resource, writing to file "filename", size ni x nj, copying pixel format etc from "prototype".
vil_image_resource_sptr	vil_new_image_resource (char const filename, unsigned ni, unsigned nj, unsigned nplanes, vil_pixel_format format, char const file_format)
	Make a new image.
vil_image_resource_sptr	vil_new_image_resource (vil_stream os, unsigned ni, unsigned nj, vil_image_resource_sptr const &prototype, char const file_format)
	Make a new vil_image_resource, writing to stream "os", size ni x nj, copying pixel format etc from "prototype".
vil_image_resource_sptr	vil_new_image_resource (char const filename, unsigned ni, unsigned nj, unsigned nplanes, vil_image_resource_sptr const &prototype, char const format=0)
	Make a new vil_image_resource, writing to file "filename", size ni x nj, copying pixel format etc from "prototype".
vil_image_resource_sptr	vil_new_image_resource (vil_stream os, unsigned ni, unsigned nj, unsigned nplanes, vil_image_resource_sptr const &prototype, char const file_format=0)
	Make a new vil_image_resource, writing to stream "os", size ni x nj, copying pixel format etc from "prototype".
vil_image_resource_sptr	vil_new_image_resource_interleaved (unsigned ni, unsigned nj, unsigned nplanes, vil_pixel_format format)
	Make a new image of given format with interleaved planes.
vil_image_resource_sptr	vil_new_image_resource_of_view (vil_image_view_base const &view)
	Make a new image resource that is a wrapper on an existing view's data.
vil_image_resource_sptr	vil_plane (const vil_image_resource_sptr &src, unsigned p)
	Return a specific plane of an image.
bool	vil_save_image_resource (const vil_image_resource_sptr &ir, char const filename, char const file_format)
	Send vil_image_resource to disk.
bool	vil_save_image_resource (const vil_image_resource_sptr &ir, char const *filename)
	Save vil_image_resource to file, deducing format from filename.
vil_image_resource_sptr	vil_transpose (const vil_image_resource_sptr &src)
	Transpose an image.

Detailed Description

Generic image implementation for DICOM files.

Definition at line 40 of file vil_dicom.h.

Constructor & Destructor Documentation

vil_dicom_image::vil_dicom_image	(	vil_stream *	is,
		unsigned	ni,
		unsigned	nj,
		unsigned	nplanes,
		vil_pixel_format	format
	)

vil_dicom_image::vil_dicom_image ( vil_stream * is )

vil_dicom_image::~vil_dicom_image ( )

Member Function Documentation

virtual void vil_dicom_image::correct_manufacturer_discrepancies ( ) [virtual]

correct known manufacturers drop-offs in header data!.

For example Hologic encode pixel-size in the imageComment! NB if this section starts bloating, use derived classes which override correct_manufacturer_discrepancies

char const* vil_dicom_image::file_format ( ) const [virtual]

Return a string describing the file format.

Only file images have a format, others return 0

Reimplemented from vil_image_resource.

virtual vil_image_view_base_sptr vil_dicom_image::get_copy_view	(	unsigned	i0,
		unsigned	n_i,
		unsigned	j0,
		unsigned	n_j
	)		const `[virtual]`

Create a read/write view of a copy of this data.

This function will always return a multi-plane scalar-pixel view of the data.

Returns:: 0 if unable to get view of correct size, or if resource is write-only.

Implements vil_image_resource.

vil_image_view_base_sptr vil_image_resource::get_copy_view ( ) const [inline, inherited]

Create a read/write view of a copy of all the data.

Reimplemented in vil_nitf2_image, and vil_j2k_image.

Definition at line 80 of file vil_image_resource.h.

bool vil_dicom_image::get_property	(	char const *	tag,
		void *	property_value = `0`
	)		const `[virtual]`

Extra property information.

Implements vil_image_resource.

virtual vil_image_view_base_sptr vil_dicom_image::get_view	(	unsigned	i0,
		unsigned	n_i,
		unsigned	j0,
		unsigned	n_j
	)		const `[virtual]`

Create a read/write view of the data.

Modifying this view might modify the actual data. If you want to modify this data in place, call put_view after you done, and it should work efficiently. This function will always return a multi-plane scalar-pixel view of the data.

Returns:: 0 if unable to get view of correct size, or if resource is write-only.

If you want to fill an existing view (e.g. a window onto some other image), then use

   vil_reformat(data->get_view(..), window);

Reimplemented from vil_image_resource.

vil_image_view_base_sptr vil_image_resource::get_view ( ) const [inline, inherited]

Create a read/write view of all the data.

Definition at line 69 of file vil_image_resource.h.

vil_dicom_header_info const& vil_dicom_image::header ( ) const [inline]

Definition at line 70 of file vil_dicom.h.

virtual bool vil_dicom_image::interpret_hologic_header	(	float &	xpixSize,
		float &	ypixSize
	)		`[virtual]`

try and interpret the hologic comments section to extract pixel size.

virtual unsigned vil_dicom_image::ni ( ) const [virtual]

Dimensions: Planes x ni x nj.

The number of pixels in each row.

Implements vil_image_resource.

virtual unsigned vil_dicom_image::nj ( ) const [virtual]

Dimensions: Planes x ni x nj.

The number of pixels in each column.

Implements vil_image_resource.

virtual unsigned vil_dicom_image::nplanes ( ) const [virtual]

Dimensions: Planes x ni x nj.

This concept is treated as a synonym to components.

Implements vil_image_resource.

virtual enum vil_pixel_format vil_dicom_image::pixel_format ( ) const [virtual]

Pixel Format.

A standard RGB RGB RGB of chars image has pixel_format() == VIL_PIXEL_FORMAT_BYTE

Implements vil_image_resource.

virtual bool vil_dicom_image::put_view	(	const vil_image_view_base &	im,
		unsigned	i0,
		unsigned	j0
	)		`[virtual]`

Put the data in this view back into the image source.

The view must be of scalar components. Assign your view to a scalar-component view if this is not the case.

Returns:: false if failed, because e.g. resource is read-only, format of view is not correct (if it is a compound pixel type, try assigning it to a multi-plane scalar pixel view.)

Implements vil_image_resource.

virtual bool vil_image_resource::put_view ( const vil_image_view_base & im ) [inline, virtual, inherited]

Put the data in this view back into the image source at the origin.

Reimplemented in vil_j2k_image.

Definition at line 92 of file vil_image_resource.h.

void vil_image_resource::ref ( ) [inline, protected, inherited]

Definition at line 110 of file vil_image_resource.h.

void vil_image_resource::unref ( ) [inline, protected, inherited]

Definition at line 111 of file vil_image_resource.h.

bool vil_image_resource::view_fits	(	const vil_image_view_base &	im,
		unsigned	i0,
		unsigned	j0
	)		`[virtual, inherited]`

Check that a view will fit into the data at the given offset.

This includes checking that the pixel type is scalar.

Reimplemented in vil_j2k_image.

Definition at line 30 of file vil_image_resource.cxx.

Friends And Related Function Documentation

vil_image_resource_sptr vil_clamp	(	const vil_image_resource_sptr &	src,
		double	low,
		double	hi
	)		`[related]`

Clamp an image resource between two values.

Reimplemented in vil_clamp_image_resource.

Definition at line 22 of file vil_clamp.cxx.

template<class destT , class kernelT , class accumT >

vil_image_resource_sptr vil_convolve_1d	(	const vil_image_resource_sptr &	src_im,
		const destT	,
		const kernelT *	kernel,
		int	k_lo,
		int	k_hi,
		const accumT	,
		vil_convolve_boundary_option	start_option,
		vil_convolve_boundary_option	end_option
	)		`[related]`

Create an image_resource object which convolve kernel[x] x in [k_lo,k_hi] with srcT.

Note:: This function reverses the kernel. If you don't want the kernel reversed, use vil_correlate_1d instead.

Parameters:

kernel should point to tap 0.

Definition at line 403 of file vil_convolve_1d.h.

bool vil_copy_deep	(	const vil_image_resource_sptr &	src,
		vil_image_resource_sptr &	dest
	)		`[related]`

Copy src to dest.

This is useful if you want to copy on image into a window on another image. src and dest must have identical sizes, and pixel-types. Returns false if the copy failed. O(size).

Definition at line 41 of file vil_copy.cxx.

template<class destT , class kernelT , class accumT >

vil_image_resource_sptr vil_correlate_1d	(	const vil_image_resource_sptr &	src_im,
		const destT	,
		const kernelT *	kernel,
		vcl_ptrdiff_t	k_lo,
		vcl_ptrdiff_t	k_hi,
		const accumT	,
		vil_convolve_boundary_option	start_option,
		vil_convolve_boundary_option	end_option
	)		`[related]`

Create an image_resource object which correlate kernel[x] x in [k_lo,k_hi] with srcT.

Note:: This function does not reverse the kernel. If you want the kernel reversed, use vil_convolve_1d instead.

Parameters:

kernel should point to tap 0.

Definition at line 214 of file vil_correlate_1d.h.

vil_image_resource_sptr vil_crop	(	const vil_image_resource_sptr &	src,
		unsigned	i0,
		unsigned	n_i,
		unsigned	j0,
		unsigned	n_j
	)		`[related]`

Crop to a region of src.

Definition at line 15 of file vil_crop.cxx.

vil_image_resource_sptr vil_decimate	(	const vil_image_resource_sptr &	src,
		unsigned	i_factor,
		unsigned	j_factor = `0`
	)		`[related]`

decimate to a region of src.

Definition at line 23 of file vil_decimate.cxx.

vil_image_resource_sptr vil_flip_lr ( const vil_image_resource_sptr & src ) [related]

Flip an image resource left to right.

Definition at line 17 of file vil_flip.cxx.

vil_image_resource_sptr vil_flip_ud ( const vil_image_resource_sptr & src ) [related]

Flip an image resource left to right.

Reimplemented in vil_flip_ud_image_resource.

Definition at line 124 of file vil_flip.cxx.

vil_image_resource_sptr vil_load_image_resource	(	char const *	filename,
		bool	verbose = `true`
	)		`[related]`

Load an image resource object from a file.

Definition at line 71 of file vil_load.cxx.

vil_image_resource_sptr vil_load_image_resource_plugin ( char const * ) [related]

Load from a filename with a plugin.

Definition at line 83 of file vil_load.cxx.

vil_image_resource_sptr vil_load_image_resource_raw	(	vil_stream *	,
		bool	verbose = `true`
	)		`[related]`

Load from a stream.

Won't use plugins.

Definition at line 19 of file vil_load.cxx.

vil_image_resource_sptr vil_load_image_resource_raw	(	char const *	,
		bool	verbose = `true`
	)		`[related]`

Load an image resource object from a file.

Won't use plugins.

Definition at line 45 of file vil_load.cxx.

vil_image_resource_sptr vil_new_image_resource	(	unsigned	ni,
		unsigned	nj,
		unsigned	nplanes,
		vil_pixel_format	format
	)		`[related]`

Make a new image of given format.

If the format is not scalar, the number of planes must be 1. When you create a multi-component image in this way, the vil_image_resource API will treat it as a scalar pixel image with multiple planes. (This doesn't affect the underlying data storage.)

Reimplemented in vil_memory_image.

Definition at line 32 of file vil_new.cxx.

vil_image_resource_sptr vil_new_image_resource	(	unsigned	ni,
		unsigned	nj,
		vil_image_resource_sptr const &	prototype
	)		`[related]`

Make a new image, similar format to the prototype.

Definition at line 69 of file vil_new.cxx.

vil_image_resource_sptr vil_new_image_resource	(	vil_stream *	os,
		unsigned	ni,
		unsigned	nj,
		unsigned	nplanes,
		vil_pixel_format	format,
		char const *	file_format
	)		`[related]`

Make a new image.

Definition at line 77 of file vil_new.cxx.

vil_image_resource_sptr vil_new_image_resource	(	char const *	filename,
		unsigned	ni,
		unsigned	nj,
		unsigned	nplanes,
		vil_image_resource_sptr const &	prototype,
		char const *	format = `0`
	)		`[related]`

Make a new vil_image_resource, writing to file "filename", size ni x nj, copying pixel format etc from "prototype".

vil_image_resource_sptr vil_new_image_resource	(	vil_stream *	os,
		unsigned	ni,
		unsigned	nj,
		unsigned	nplanes,
		vil_image_resource_sptr const &	prototype,
		char const *	file_format = `0`
	)		`[related]`

Make a new vil_image_resource, writing to stream "os", size ni x nj, copying pixel format etc from "prototype".

vil_image_resource_sptr vil_new_image_resource	(	char const *	filename,
		unsigned	ni,
		unsigned	nj,
		vil_image_resource_sptr const &	prototype,
		char const *	file_format
	)		`[related]`

Make a new vil_image_resource, writing to file "filename", size ni x nj, copying pixel format etc from "prototype".

Definition at line 104 of file vil_new.cxx.

vil_image_resource_sptr vil_new_image_resource	(	char const *	filename,
		unsigned	ni,
		unsigned	nj,
		unsigned	nplanes,
		vil_pixel_format	format,
		char const *	file_format
	)		`[related]`

Make a new image.

Definition at line 123 of file vil_new.cxx.

vil_image_resource_sptr vil_new_image_resource	(	vil_stream *	os,
		unsigned	ni,
		unsigned	nj,
		vil_image_resource_sptr const &	prototype,
		char const *	file_format
	)		`[related]`

Make a new vil_image_resource, writing to stream "os", size ni x nj, copying pixel format etc from "prototype".

Definition at line 143 of file vil_new.cxx.

vil_image_resource_sptr vil_new_image_resource_interleaved	(	unsigned	ni,
		unsigned	nj,
		unsigned	nplanes,
		vil_pixel_format	format
	)		`[related]`

Make a new image of given format with interleaved planes.

The format must be scalar.

Reimplemented in vil_memory_image.

Definition at line 44 of file vil_new.cxx.

vil_image_resource_sptr vil_new_image_resource_of_view ( vil_image_view_base const & view ) [related]

Make a new image resource that is a wrapper on an existing view's data.

Note:: The output will be a shallow copy of the input, so changing the pixel values of one may change the pixel value of the other. Thanks to the magic of smart pointers, the output will remain valid even if you destroy the input. When you wrap a multi-component image in this way, the vil_image_resource API will treat it as a scalar pixel image with multiple planes. (This doesn't affect the underlying data storage.)

Reimplemented in vil_memory_image.

Definition at line 62 of file vil_new.cxx.

vil_image_resource_sptr vil_plane	(	const vil_image_resource_sptr &	src,
		unsigned	p
	)		`[related]`

Return a specific plane of an image.

Reimplemented in vil_plane_image_resource.

Definition at line 19 of file vil_plane.cxx.

bool vil_save_image_resource	(	const vil_image_resource_sptr &	ir,
		char const *	filename,
		char const *	file_format
	)		`[related]`

Send vil_image_resource to disk.

Definition at line 128 of file vil_save.cxx.

bool vil_save_image_resource	(	const vil_image_resource_sptr &	ir,
		char const *	filename
	)		`[related]`

Save vil_image_resource to file, deducing format from filename.

Definition at line 147 of file vil_save.cxx.

friend class vil_smart_ptr< vil_image_resource > [friend, inherited]

Definition at line 109 of file vil_image_resource.h.

vil_image_resource_sptr vil_transpose ( const vil_image_resource_sptr & src ) [related]

Transpose an image.

Definition at line 17 of file vil_transpose.cxx.

Member Data Documentation

vil_dicom_header_info vil_dicom_image::header_ [private]

Definition at line 42 of file vil_dicom.h.

vil_image_resource_sptr vil_dicom_image::pixels_ [private]

Definition at line 43 of file vil_dicom.h.

vcl_atomic_count vil_image_resource::reference_count_ [protected, inherited]

Definition at line 114 of file vil_image_resource.h.

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

core/vil/file_formats/vil_dicom.h

Public Member Functions

Protected Member Functions

Protected Attributes

Private Attributes

Friends

Related Functions

Detailed Description

Constructor & Destructor Documentation

Member Function Documentation

Friends And Related Function Documentation

Member Data Documentation