2D Electron Microscopy images in IMP More...

#include <IMP/em2d/Image.h>

Inheritance diagram for IMP::em2d::Image:

Detailed Description

2D Electron Microscopy images in IMP

Definition at line 27 of file Image.h.

Public Member Functions
	Image (int rows, int cols)

	Image (String filename, const ImageReaderWriter *reader)

cv::Mat &	get_data ()

em::ImageHeader &	get_header ()

FloatRange	get_min_and_max_values () const

String	get_name () const

virtual std::string	get_type_name () const
	Define the basic things needed by any Object. More...

virtual ::IMP::base::VersionInfo	get_version_info () const
	Get information about the module and version of the object. More...

double	operator() (int i, int j) const

void	read (String filename, const ImageReaderWriter *reader)

void	set_data (const cv::Mat &mat)

void	set_name (const String &name)

void	set_size (int rows, int cols)

void	set_size (Image *img)

void	set_value (double val)

void	set_value (int i, int j, double val)

void	set_zeros ()

void	show (std::ostream &out) const

void	update_header ()

void	write (const String &filename, const ImageReaderWriter *writer)

Public Member Functions inherited from IMP::base::Object
virtual void	clear_caches ()

CheckLevel	get_check_level () const

LogLevel	get_log_level () const

void	set_check_level (CheckLevel l)

void	set_log_level (LogLevel l)
	Set the logging level used in this object. More...

void	set_was_used (bool tf) const

void	show (std::ostream &out=std::cout) const

const std::string &	get_name () const

void	set_name (std::string name)

Protected Member Functions
void	set_defaults ()

void	set_size_data (int rows, int cols)

Protected Member Functions inherited from IMP::base::Object
	Object (std::string name)
	Construct an object with the given name. More...

virtual void	do_destroy ()

Protected Attributes
cv::Mat	data_
	Matrix with the data for the image. More...

em::ImageHeader	header_
	Header for the image with all the pertinent information. More...

String	name_
	Name of the image. Frequently it will be the name of the file. More...

Constructor & Destructor Documentation

IMP::em2d::Image::Image	(	int	rows,
		int	cols
	)

Create an empty image

Parameters

rows	The number of rows
cols	The number of columns

IMP::em2d::Image::Image	(	String	filename,
		const ImageReaderWriter *	reader
	)

Create an image reading from a file

Parameters

filename	The name of the file containing the image
reader	The image reader to use

Definition at line 43 of file Image.h.

Member Function Documentation

cv::Mat& IMP::em2d::Image::get_data ( )

Access to the matrix of data

Returns: A reference to the matrix of data

Definition at line 51 of file Image.h.

em::ImageHeader& IMP::em2d::Image::get_header ( )

Access to the image header

Returns: A reference to the header with the EM parameters

Definition at line 94 of file Image.h.

FloatRange IMP::em2d::Image::get_min_and_max_values ( ) const

Recover the minimum and maximum values in the image

Returns: A range. The first value is the minimum. The second one is the maximum.

String IMP::em2d::Image::get_name ( ) const

Get the name of the image

Returns: A string with the name

Definition at line 166 of file Image.h.

virtual std::string IMP::em2d::Image::get_type_name ( ) const

virtual

Define the basic things needed by any Object.

Reimplemented from IMP::base::Object.

Definition at line 154 of file Image.h.

virtual ::IMP::base::VersionInfo IMP::em2d::Image::get_version_info ( ) const

virtual

Get information about the module and version of the object.

Reimplemented from IMP::base::Object.

Definition at line 154 of file Image.h.

double IMP::em2d::Image::operator()	(	int	i,
		int	j
	)		const

Recover the value of a pixel

Parameters

i	row
j	column

Returns: the value

Definition at line 88 of file Image.h.

void IMP::em2d::Image::read	(	String	filename,
		const ImageReaderWriter *	reader
	)

Read an image from file

Parameters

filename	The name of the file containing the image
reader	The image reader to use

Definition at line 125 of file Image.h.

void IMP::em2d::Image::set_data ( const cv::Mat & mat )

Sets the entire data of the matrix

Parameters

mat	CV matrix containing the data for an image

void IMP::em2d::Image::set_name ( const String & name )

Set the name of the image

Parameters

name

Definition at line 160 of file Image.h.

void IMP::em2d::Image::set_size	(	int	rows,
		int	cols
	)

Sets the size of the image

Parameters

rows
cols

void IMP::em2d::Image::set_size ( Image * img )

Resize to the same size of the parameter image

Parameters

img	The image to get the size from

void IMP::em2d::Image::set_value ( double val )

Set all the pixels of an image

Parameters

val	Value to use xxx

Definition at line 69 of file Image.h.

void IMP::em2d::Image::set_value	(	int	i,
		int	j,
		double	val
	)

Sets the value for a pixel

Parameters

i	row
j	column
val	value

Definition at line 80 of file Image.h.

void IMP::em2d::Image::set_zeros ( )

Sets the image to zero

Definition at line 62 of file Image.h.

void IMP::em2d::Image::show ( std::ostream & out ) const

Shows information about the class

Parameters

out	Stream used to show the information

Definition at line 147 of file Image.h.

void IMP::em2d::Image::update_header ( )

Adjusts the information of the image header taking into account the dimensions of the data and setting the time, date, type, etc ... Adjust the information of the image header taking into account the dimensions of the data and setting the time, date, type, etc ...

void IMP::em2d::Image::write	(	const String &	filename,
		const ImageReaderWriter *	writer
	)

Writes the image to a file (the image matrix of data is stored as floats when writing) Writes the image to a file (the image matrix of data is stored as floats when writing)

Parameters

filename	The output file
writer	The image writer to use

Definition at line 138 of file Image.h.

Member Data Documentation

cv::Mat IMP::em2d::Image::data_

protected

Matrix with the data for the image.

Definition at line 183 of file Image.h.

em::ImageHeader IMP::em2d::Image::header_

protected

Header for the image with all the pertinent information.

Definition at line 185 of file Image.h.

String IMP::em2d::Image::name_

protected

Name of the image. Frequently it will be the name of the file.

Definition at line 180 of file Image.h.

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

Image.h

Detailed Description

Public Member Functions

Protected Member Functions

Protected Attributes

Constructor & Destructor Documentation

Member Function Documentation

Member Data Documentation