EMBOSS: scopparse

| ## EMBOSS: scopparse

# Program scopparse

## Function

Reads raw-, and writes EMBL-like, scop classification files

## Description

This is part of Jon Ison's protein structure analysis package.

This package is still being developed.

Please ignore this program until further details can be documented.

All further queries should go to Jon Ison. (Jon Ison)

## Usage

Here is a sample session with scopparse:

    % scopparse

## Command line arguments

       Mandatory qualifiers:
      [-infilea]           infile     Name of scop classification file for input
                                      (raw format dir.cla.scop.txt_X.XX file)
      [-infileb]           infile     Name of description file for input (raw
                                      format dir.des.scop.txt_X.XX file)
      [-outfile]           outfile    Name of scop file for output (embl-like
                                      format)

       Optional qualifiers: (none)
       Advanced qualifiers: (none)
       General qualifiers:
      -help                bool       report command line options. More
                                      information on associated and general
                                      qualifiers can be found with -help -verbose

Mandatory qualifiers | Allowed values | Default
--- | --- | ---
[-infilea] (Parameter 1) | Name of scop classification file for input (raw format dir.cla.scop.txt_X.XX file) | Input file | dir.cla.scop.txt_1.57
[-infileb] (Parameter 2) | Name of description file for input (raw format dir.des.scop.txt_X.XX file) | Input file | dir.des.scop.txt_1.57
[-outfile] (Parameter 3) | Name of scop file for output (embl-like format) | Output file | Escop.dat
Optional qualifiers | Allowed values | Default
(none)
Advanced qualifiers | Allowed values | Default
(none)

## Input file format

## Output file format

## Data files

## Notes

None.

## References

None.

## Warnings

None.

## Diagnostic Error Messages

None.

## Exit status

It always exits with status 0.

## Known bugs

None.

## See also

Program name | Description
--- | ---
cutgextract | Extract data from CUTG
domainer | Build domain coordinate files
nrscope | Converts redundant EMBL-format SCOP file to non-redundant one
pdbtosp | Convert raw swissprot:pdb equivalence file to embl-like format
printsextract | Extract data from PRINTS
prosextract | Builds the PROSITE motif database for patmatmotifs to search
rebaseextract | Extract data from REBASE
scope | Convert raw scop classification file to embl-like format
seqnr | Converts redundant database results to a non-redundant set of hits
tfextract | Extract data from TRANSFAC

## Author(s)

This application was written by Jon Ison (jison@hgmp.mrc.ac.uk)

## History

Written (date) - author.

## Target users

This program is intended to be used by everyone and everything, from naive users to embedded scripts.

## Comments