SCANPS Distribution  (August 1994)
Updated (August 1997)

G. J. Barton 
Laboratory of Molecular Biophysics
Rex Richards Building
South Parks Road,
Oxford OX1 3QU 
UK


The /bin directory contains executables for Silicon Graphics compiled
under IRIX 5.3 with -mips2 and -O2 flags.  These have the extension .sgi53.

Executables compiled under IRIX 6.2 for R10K processors have the extension .sgi64.

You should create links to the appropriate executables from a directory
on your path.  e.g. /usr/local/bin.

----------------------

The data directory contains the "scanps.def" file a comparison matrix (md.mat)
and a matrix of parameters for the length-dependent significance scoring
scheme.

You MUST edit the scanps.def file to point to the location of files on your
installation.  See the manual for full details.

The data directory also contains a small protein sequence database with
indexes.  This is for you to test scanps with.

----------------------

The doc directory contains PostScript and HTML versions of the manual
and the example files.
----------------------

In order to run scanps you must set up some environment variables to point at 
the scanps.def file, the database files and some limits.  A sample
set of environment variables is shown in the file
"scanps.environment".  You should modify this to fit your local installation.

-----------------------

You can read the manual on line using a web browser.  Open the 
URL=http://geoff.biop.ox.ac.uk/manuals/scanps/manual.html



