debian man page for domainsse

Query: domainsse

OS: debian

Section: 1e

Format: Original Unix Latex Style Formatted with HTML and a Horizontal Scroll Bar

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 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 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. DOMAINATRIX 0.1.0+20100721 08/11/2010 DOMAINSSE(1e)
Related Man Pages
domainrep(1e) - debian
domainnr(1e) - debian
domainalign(1e) - debian
seqfraggle(1e) - debian
seqsearch(1e) - debian
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