Aligns two images. More...

#include "rwimg.h"
#include "ps_marker.h"
#include "linked_list.h"
#include "options.h"
#include "utilities.h"
#include "timer.h"

Functions
Transform	img_align (Bimage p1, Bimage p2, Vector3< long > tile_size, double res_lo, double res_hi, double max_shift, int filter_flag, int refine_flag)
	Aligns the second image to the first. More...

int	main (int argc, char *argv[])

Variables
int	verbose

const char *	use []

Detailed Description

Aligns two images.

Author: Bernard Heymann

Date: Created: 20021111; Modified: 20220701

Function Documentation

◆ img_align()

Transform img_align	(	Bimage *	p1,
		Bimage *	p2,
		Vector3< long >	tile_size,
		double	res_lo,
		double	res_hi,
		double	max_shift,
		int	filter_flag,
		int	refine_flag
	)

Aligns the second image to the first.

Parameters

*p1	first image.
*p2	second image (transformed)
tile_size	3-valued vector for the size of sub-images.
res_lo	low resolution limit for cross-correlation.
res_hi	high resolution limit for cross-correlation.
max_shift	maximum shift allowed (default 1/4 of tile).
filter_flag	flag to filter micrograph extremes.
refine_flag	flag to turn on refinement of shift.

Returns

Transform structure with shift, scale, rotation angle, and R factor.

The second image is transformed to fit on the first image.

◆ main()

int main	(	int	argc,
		char *	argv[]
	)

Variable Documentation

◆ use

const char* use[]

Initial value:

= {
" ",
"Usage: balign [options] input*.img",
"----------------------------------",
"Aligning images to each other.",
"Micrograph mode (option -micrographs):",
"The second input image is aligned to the first, transformed and output.",
"(Note: This program is intended to align very large micrograph images).",
" ",
"Actions:",
"-add                     Add input images after transforming the second.",
 
"-filterextremes          Filter micrograph extremes before aligning.",
" ",
"Parameters:",
"-verbose 7               Verbosity of output.",
"-datatype u              Force writing of a new data type.",
"-sampling 1.5,1.5,1.5    Sampling (A/pixel; a single value can be given).",
"-tile 1024,1024,5        Size of tiles for correlation (default 512,512,1).",
"-resolution 30,500       High and low resolution limits for cross-correlation (default 0.1,1000).",
"-maxshift 55             Maximum allowed shift (default 1/4 of tile).",
" ",
"Output:",
"-output sum.mrc          Output sum of the transformed images.",
" ",
NULL
}

◆ verbose

int verbose

extern

Functions