scopparse - Generate DCF file from raw SCOP files.

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DOMAINATRIX 0.1.0+20100721                         08/11/2010                                      SCOPPARSE(1e)

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).

       scopparse - Generate DCF file from raw SCOP files.

Inputsection-classfileinfile
           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.

       -desinfileinfile
           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.

   Requiredsection-nosegmentsboolean
           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

       -nomultichainboolean
           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

   Additionalsection-nominorboolean
           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

   Outputsection-dcffileoutfile
           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

       scopparse is fully documented via the tfm(1) system.

scopparse-classfileinfile-desinfileinfile-nosegmentsboolean-nomultichainboolean
                 [-nominorboolean] -dcffileoutfilescopparse-help