bmod2part.cpp File Reference

Converting from a pseudo-atomic model to particle parameters. More...

#include "rwmodel.h"
#include "model_select.h"
#include "model_util.h"
#include "rwmg.h"
#include "mg_processing.h"
#include "rwimg.h"
#include "file_util.h"
#include "utilities.h"
#include "options.h"
#include "timer.h"

Functions
Bproject *	project_part_from_model (Bmodel *model, Vector3< double > origin, Vector3< double > sampling, Vector3< long > box_size)
	Converts component coordinates in a model to reconstruction particle coordinates. More...
Bmodel *	models_from_particles (Bproject *project, Bstring modtype)
	Converts particle coordinates for a reconstruction into model component coordinates. More...
Bmodel *	components_from_2D_particles (Bproject *project, Bstring comptype)
	Converts particle coordinates from micrographs into model component coordinates. More...
Bmodel *	components_from_3D_particles (Bproject *project, Bstring comptype)
	Converts particle coordinates for a reconstruction into model component coordinates. More...
int	main (int argc, char **argv)

Variables
int	verbose
const char *	use []

Detailed Description

Converting from a pseudo-atomic model to particle parameters.

Author

Bernard Heymann

Date

Created: 20070423

Modified: 20220223

Function Documentation

components_from_2D_particles()

Bmodel * components_from_2D_particles	(	Bproject *	project,
		Bstring	comptype
	)

Converts particle coordinates from micrographs into model component coordinates.

Parameters

*project	project with micrographs.
comptype	component type string.

Returns

Bmodel* new project.

components_from_3D_particles()

Bmodel * components_from_3D_particles	(	Bproject *	project,
		Bstring	comptype
	)

Converts particle coordinates for a reconstruction into model component coordinates.

Parameters

*project	project with reconstruction.
comptype	component type string.

Returns

Bmodel* new project.

main()

int main	(	int	argc,
		char **	argv
	)

models_from_particles()

Bmodel * models_from_particles	(	Bproject *	project,
		Bstring	modtype
	)

Converts particle coordinates for a reconstruction into model component coordinates.

Parameters

*project	project with reconstruction.
modtype	model tyoe string.

Returns

Bmodel* new project.

project_part_from_model()

Bproject * project_part_from_model	(	Bmodel *	model,
		Vector3< double >	origin,
		Vector3< double >	sampling,
		Vector3< long >	box_size
	)

Converts component coordinates in a model to reconstruction particle coordinates.

Parameters

*model	model.
origin	map origin in voxel coordinates.
sampling	voxel size.
box_size	particle box size.

Returns

Bproject* new project.

Variable Documentation

use

const char* use[]

Initial value:

= {
" ",
"Usage: bmod2part [options] input.star",
"-------------------------------------",
"Converting between model components and reconstruction particle parameters.",
" ",
"Actions:",
"-reconstructions         Operate on reconstruction parameters rather than micrographs.",
"-all                     Reset selection to all components before other selections.",
"-type comp               Type of conversion: part->models or part->components.",
"-settype VER             Set model or component types.",
"-associate TRS,trs.pdb   Associate a component type with a file name.",
" ",
"Parameters:",
"-verbose 7               Verbose output.",
"-origin 0,0,0            Origin placement within image (default 0,0,0).",
"-sampling 2.3,2.3,1      Sampling (angstrom/voxel, one value sets all).",
"-box 100,83,120          Particle box size (default 50,50,50; one sets all).",
" ",
"Input:",
"-map image.spi           Input 3D map file.",
"-parameters param.star   Input atomic parameter file.",
" ",
"Output:",
"-output part.star        Output particle parameter or model file.",
" ",
NULL
}

verbose

int verbose

extern