                      Installation Guide to

                          DIALIGN2 (c)
                          ============

                          (c) 1999 by

             Burkhard Morgenstern, Klaus Hahn, Thomas Werner, Kornelie Frech
	       GSF - National Research Center for Environment and Health,
	       Ingolstaedter Landstr. 1, 85764 Neuherberg, Germany
             Said Abdeddaim
               Universite de Rouen, Faculte des Sciences et Techniques 
               76821 Mont-Saint-Aignan cedex, France
             Andreas Dress
               Fakultaet fuer Mathematik, Universitaet Bielefeld,
               33501 Bielefeld, Postfach 100131, Germany

 
                     e-mail: burkhard@mathematik.uni-bielefeld.de 



DIALIGN 2 executables can be provided for DEC Alphas, SUNs, HPs, SGI, 
Convex, and LINUX systems.

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To install DIALIGN 2 on your system:

Uncompress and tar the file dialign2_*.tar.Z 
	( uncompress dialign2_*.tar.Z
	  tar xvf dialign2_*.tar )

depending on your operating system.

Set the environment variable DIALIGN2_DIR to the directory 

                 your_path/dialign2_dir

where `your_path' is the directory where you have just installed DIALIGN 2

	( setenv DIALIGN2_DIR /your_path/dialign2_dir/ )

This is important for the online user-guide, for the similarity
matrix BLOSUM62, and for two other files employed by the program.

Add the DIALIGN 2 directory (/your_path/dialign2_dir/) to the
environment variable PATH, so that the program can be called from every 
other directory.

	( setenv PATH $PATH":/your_path/dialign2_dir" )

To keep these environment variables for your next sessions also, put the
commands into your .cshrc file.

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Please note that, unlike in the first version of DIALIGN, it is NOT 
possible to replace BLOSUM62 by other similarity matrices !!

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There is a user guide included with DIALIGN 2 that explains all features 
of the program. The user guide is available as a HTML file and as a plain 
text file (ASCII). 

Please note, that this software is free only for non-commercial use. Commercial
users should contact Genomatix Software GmbH (http://genomatix.gsf.de, E-mail:
genomatix@gsf.de).

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If you run into any problems, don't hesitate to contact 

     burkhard@mathematik.uni-bielefeld.de

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