domainsse(1)
NAME
domainsse - Add secondary structure records to a DCF file.
SYNOPSIS
domainsse -dcfinfile infile -dccfdir directory -dcfoutfile outfile
-logfile outfile
domainsse -help
DESCRIPTION
domainsse is a command line program from EMBOSS ("the European
Molecular Biology Open Software Suite"). It is part of the
"Utils:Database creation" command group(s).
OPTIONS
- Input section
- -dcfinfile infile
This option specifies the name of the DCF file (domain
classification file) (input). A ´domain classification file´
contains classification and other data for domains from SCOP or
CATH, in DCF format (EMBL-like). The files are generated by using
SCOPPARSE and CATHPARSE. Domain sequence information can be added
to the file by using DOMAINSEQS. - -dccfdir directory
This option specifies the location of the domain CCF file (clean
coordinate files) (input). A ´clean cordinate file´ contains
protein coordinate and derived data for a single PDB file (´protein clean coordinate file´) or a single domain from SCOP or CATH
(´domain clean coordinate file´), in CCF format (EMBL-like). The
files, generated by using PDBPARSE (PDB files) or DOMAINER
(domains), contain ´cleaned-up´ data that is self-consistent and
error-corrected. Records for residue solvent accessibility and
secondary structure are added to the file by using PDBPLUS. Default value: ./ - Required section
Advanced section
Output section - -dcfoutfile outfile
This option specifies the name of the DCF file (domain
classification file) with secondary structure records (output). A
´domain classification file´ contains classification and other data for domains from SCOP or CATH, in DCF format (EMBL-like). The files are generated by using SCOPPARSE and CATHPARSE. Domain sequence
information can be added to the file by using DOMAINSEQS. - -logfile outfile
This option specifies the name of the DOMAINSSE log file. Default
value: domainsse.log
BUGS
Bugs can be reported to the Debian Bug Tracking system
(http://bugs.debian.org/emboss), or directly to the EMBOSS developers
(http://sourceforge.net/tracker/?group_id=93650&atid=605031).
SEE ALSO
domainsse is fully documented via the tfm(1) system.
AUTHOR
- Debian EMBOSS Packaging Team <pkg-emboss-devel@lists.alioth.debian.org>
- Wrote the script used to autogenerate this manual page.
COPYRIGHT
Copyright © 2007 Debian EMBOSS Packaging Team
- This manual page was autogenerated from an Ajax Control Definition of
the EMBOSS package. It can be redistributed under the same terms as
EMBOSS itself.