1 INSTALLATION

A-QUICK INSTALLATION

1-decompress distribution.tar.z
	gunzip distribution.tar.gz

2-untar distribution.tar
	tar -xvf distribution.tar

3-This will create the distribution directory with the following structure:
		distribution/bin
		distribution/doc/tcoffee_tutorial.doc, t_coffee_technical.doc
		
		distribution/t_coffee_source
		distribution/lalign
		distribution/example
		distribution/html

4-go into the main directory and type:
	./install

5-add the bin folder to your path, for instance:
set path = ($path . <address of the t_coffee bin folder>) 

Note This must be added to your loging file. An alternative is to move all the binary files into your own bin.


6-Go into example/test and run:

 	t_coffee -in fast_pair test.pep

7- The command 

diff test.aln reference_test.aln

These two files must only indicate a difference for the CPU time.

Note: for 7 to work correctly, the new bins must have been added to your
path (Step 5).

