bflat.cpp File Reference

Solvent flattening. More...

#include "rwimg.h"
#include "symmetry.h"
#include "utilities.h"
#include "options.h"
#include "timer.h"

Functions
int	main (int argc, char **argv)

Variables
int	verbose
const char *	use []

Detailed Description

Solvent flattening.

Author

Bernard Heymann

Date

Created: 20041113

Modified: 20150717

An implementation based on the method proposed in:
van Heel, M. (2001). "Do single (ribosome) molecules phase themselves?" Cold Spring Harb Symp Quant Biol 66: 77-86.

Function Documentation

main()

int main	(	int	argc,
		char **	argv
	)

Variable Documentation

use

const char* use[]

Initial value:

= {
" ",
"Usage: bflat [options] input.img output.img",
"-------------------------------------------",
"Does phase extension by solvent flattening.",
"The amplitudes are defined in three possible mutually exclusive ways:",
"1. Derived from the input map (default).",
"2. Derived from a reference map.",
"3. Specified in an external amplitude map.",
" ",
"Actions:",
"-symmetrize C5           Apply point group symmetry.",
" ",
"Parameters:",
"-verbose 7               Verbosity of output.",
"-datatype u              Force writing of a new data type.",
"-resolution 35,15.5,1.5  Resolution limit start, end and step (default 30,20,1).",
"-iterations 80           Iterations (default 1).",
"-exit 0.1                Exit condition based on amplitude RMSD (default 0.01).",
"-output 5                Number of iterations between writing output maps (default 100).",
" ",
"Input:",
"-Reference file.map      File to generate amplitudes from (default amplitudes from input map).",
"-Amplitudes file.map     File with amplitudes (default amplitudes from input map).",
"-Mask mask.tif           Mask file.",
" ",
NULL
}

verbose

int verbose

extern