scopparse - Generate DCF file from raw SCOP files.
scopparse -classfile infile
-desinfile infile
-nosegments boolean
-nomultichain boolean
[-nominor boolean]
-dcffile outfile
scopparse -help
scopparse 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).
-classfile infile
This option specifies the name of raw SCOP classification
file dir.cla.scop.txt_X.XX (input). This is the raw SCOP classification file
available at
http://scop.mrc-lmb.cam.ac.uk/scop/parse/dir.cla.scop.txt_1.57.
-desinfile infile
This option specifies the name of raw SCOP description
file dir.des.scop.txt_X.XX (input). This is the raw SCOP description file
available at
http://scop.mrc-lmb.cam.ac.uk/scop/parse/dir.des.scop.txt_1.57.
-nosegments boolean
This option specifies whether to omit domains comprising
of more than one segment. This is necessary if a continuous residue sequence
is required. Default value: N
-nomultichain boolean
This option specifies whether to omit domains comprising
segments from more than one chain. This is necessary if a continuous residue
sequence is required. Default value: N
-nominor boolean
This option specifies whether to omit domains from minor
classes (defined as anything not in class 'All alpha proteins', 'All beta
proteins', 'Alpha and beta proteins (a/b)' or 'Alpha and beta proteins
(a+b)'). This is necessary or appropriate for many analyses. Default value:
N
-dcffile outfile
This option specifies the name of SCOP DCF file (domain
classification file) (output). A 'domain classification file' contains
classification and other data for domains from the SCOP or CATH databases. The
file is generated by using DOMAINER and is in DCF format (EMBL-like). Domain
sequence information can be added to the file by using DOMAINSEQS. Default
value: test.scop
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).
scopparse is fully documented via the tfm(1) system.
Debian Med Packaging Team
<debian-med-packaging@lists.alioth.debian.org>
Wrote the script used to autogenerate this manual
page.
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.