# $CVSHeader: pal8e/doc/INSTALL,v 1.1 2005/02/20 00:32:25 indraneel Rel $

Please read the README at the top level of this distribution.

PAL8E has been tested on Debian GNU/Linux testing/unstable systems
dated 2005-02-10 running on PIII Xeon and Opteron hardware. Software
versions on the test machine are as follows: gcc (3.3.5-1), libc6
(2.3.2), python (2.3.4). The Biopython software is dated
2003-11-20. Biopython is being distributed with (but not part of)
PAL8E. PAL8E cannot be used with the current Biopython distribution
(yet). Biopython (Bio.PDB and Bio.scop) is required for this package
to work.

Installation
============

Install python >=2.3 (2.2 may work but is untested)
Install the python modules:
	Numeric
	Scientific
	bz2
	gzip
	math
	types
	time
	traceback
	ConfigParser
	re
	pypvm

Download and install the modified Biopython distribution available with PAL8E.

Install gcc >=3.3.5 (lower versions may work but are untested)

cd src/
make  (this makes the c modules)

If you want to use pypvm uncomment the line:
import pypvm
from PAL8E.py and PSSD.py
pypvm needs to be recompiled from the included package. PVM support
for PAL8E is not fully tested.

pvmd needs to be started if pvm is to be used. 
ep must point to /usr/bin or wherever python exists
wd must point to /.../src/ or wherever PAL8E.py exists
