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 <[email protected]>
-
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.