DOMAINSSE(1e) | EMBOSS Manual for Debian | DOMAINSSE(1e) |
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 infileThis 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 outfileThis 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 Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>Wrote the script used to autogenerate this manual
page.
COPYRIGHT¶
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.
08/11/2010 | DOMAINATRIX 0.1.0+20100721 |