************************************************************************
*                                                                      *
*                                OVOP                                  *
*                                                                      *
*                      Optimal View of Proteins                        *
*                                                                      *
*                                                                      *
*                                                                      *
*                   Version 1.0 (August 20, 2002)                      *
*                                                                      *
*                            Oscar Sverud                              *
*                  Stockholm Bioinformatics Center                     *
*                               SWEDEN                                 *
*                                                                      *
*                        Copyright (c) 2002                            *
*                                                                      *
************************************************************************
*                                                                      *
*  NOTE: Non-commercial use only, see the file LICENCE for details.    *
*                                                                      *
*  All comments concerning this program package may be sent to the     *
*  e-mail address 'ovop@sbc.su.se'.                                    *
*                                                                      *
************************************************************************


REQUIREMENTS:

OVOP has only been compiled and tested on a standard Linux system,
with the GNU Scientific Library (http://sources.redhat.com/gsl/).

SOM_PAK: Visit http://www.cis.hut.fi/research/som_lvq_pak.shtml and
download the SOM_PAK package, and install it following the
instructions given.  Make sure that the programs "vsom", "randinit"
and "visual" are executable from any directory (in other words, in
your PATH).


INSTALLATION:

(replace X.Y with the version numbers of the package you downloaded)

  gzip -d ovop-X.Y.tar.qz
  tar -xvzf ovop-X.Y.tar
  cd ovop-X.Y/
  make

(creates the executable 'ovop', which you can move to a suitable place)



USAGE:

  ovop -v -cache /cachedir/ -inpdb filename -outpdb filename (-flat)

where -v, -cache and -flat are optional.

-v			verbose
-cache 	dir		specific directory for temporary files.
-flat 			run in flat mode (makes flattest view of protein instead of ovop.) 

-inpdb 	filename	pdb file to be rotated
-outpdb	filename	name of rotated out file	


Note that PDB header information is not preserved in the output file.