This is the command cathparsee that can be run in the OnWorks free hosting provider using one of our multiple free online workstations such as Ubuntu Online, Fedora Online, Windows online emulator or MAC OS online emulator
PROGRAM:
NAME
cathparse - Generates DCF file from raw CATH files.
SYNOPSIS
cathparse -listfile infile -domfile infile -namesfile infile -outfile outfile
-logfile outfile
cathparse -help
DESCRIPTION
cathparse 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
-listfile infile
This option specifies the name of raw CATH classification file (caths.list.vX.X)
(input). The raw CATH parsable files (classification and description files) available
from ftp.biochem.ucl.ac.uk (/pub/cathdata/v2.4). Default value: caths.list.v2.4
-domfile infile
This option specifies the name of raw CATH classification file (domlist.vX.X) (input).
The raw CATH parsable files (classification and description files) available from
ftp.biochem.ucl.ac.uk (/pub/cathdata/v2.4). Default value: domlist.v2.4
-namesfile infile
This option specifies the name of raw CATH classification file (CAT.names.all.vX.X)
(input). The raw CATH parsable files (classification and description files) available
from ftp.biochem.ucl.ac.uk (/pub/cathdata/v2.4). Default value: CAT.names.all.v2.4
Output section
-outfile outfile
This option specifies the name of CATH DCF file (domain classification file) (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. Default value: Ecath.dat
-logfile outfile
This option specifies the name of the CATHPARSE log file. Default value: cathparse.log
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