---
name: "cif_automorphism"
section: "1"
platform: "linux"
package: "cod-tools"
version: "3.11.0+dfsg-1"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/cif_automorphism"
---

# cif\_automorphism(1)

find automorphism orbits in CIF files.

## NAME

cif\_automorphism - find automorphism orbits in CIF files.

## SYNOPSIS

cif\_automorphism --options input1.cif input\*.cif

## DESCRIPTION

Find automorphism orbits in CIF files.

## OPTIONS

\--ignore-hydrogens\
                   Do not consider hydrogen atoms in automorphism\
                   detection.

\--no-ignore-hydrogens\
                   Take hydrogen atoms into consideration when searching\
                   for automorphisms (default).

\--print-atom-site-type-symbol\
                   Output assumed atom chemical types as values of\
                   '\_atom\_site\_type\_symbol', if this data item is not\
                   used.

\--no-print-atom-site-type-symbol\
                   Do not output assumed atom chemical types as values\
                   of '\_atom\_site\_type\_symbol' (default).

\--use-c-parser\
                   Use Perl & C parser for CIF parsing (default).

\--use-perl-parser\
                   Use Perl parser for CIF parsing.

\--help, --usage\
                   Output a short usage message (this message) and exit.

\--version\
                   Output version information and exit.

## REPORTING BUGS

Report cif\_automorphism bugs using e-mail: cod-bugs@ibt.lt