read_x: Read unit cell content (atom and coordinates).

In crone: Structural Crystallography in 1d

Description

Read unit cell length, space group, atom coordinates and all other parameters from a coordinate file.

Usage

read_x(filename)

Arguments

filename

A character string. Existing file that includes all structural information. The file name in general has the form "[prefix]_x.dat".

Value

A named list with the following elements:

• a. Real numeric. Unit cell length in angstroms.

• SG. SG 2-letters character string. There are only two symmetries possible when working within 1D crystallography, P1 (no symmetry) and P-1 (inversion through the origin). SG can be either "P1" or "P-1".

• x0. Vector of real numerics indicating the expanded atomic positions in the unit cell.

• Z. Vector of integers indicating the expanded atomic numbers for all atoms in the unit cell.

• B. Vector of real numerics indicating the expanded B factors for all atoms in the unit cell.

• occ. Vector of real numerics indicating the expanded occupancies for all atoms in the unit cell.

Examples

datadir <- system.file("extdata",package="crone")
filename <- file.path(datadir,"carbon_dioxide_x.dat")
sdata <- read_x(filename)
print(names(sdata))
print(sdata)

crone documentation built on Aug. 24, 2019, 5:03 p.m.