#################################################################################
#										
#			INSTALL_PRIAM						
#										
#		(october 2001, Clotilde CLAUDEL-RENARD)				
#										
# This package PRIAM makes:							
#										
#	- prediction of enzymes for a complete genome with			
#	  ENZYME-specific profiles database (release octobre 2001)		
#	- visualisation  of results with KEGG pathway maps			
#										
#	System requirement:							
#				- perl (5.0 or later)				
#				- its GD package (1.19 - PNG support needed)			
#										
#################################################################################


1/ Unzip PRIAM files:

% gunzip -c PRIAM_solaris.tar.gz | tar xvf -
or 
% gunzip -c PRIAM_linux.tar.gz | tar xvf -

This will create a PRIAM directory

2/ Define environment variable

$PACKAGE: path/to/PRIAM/directory/created (eg:/home/toto/PRIAM)
$PERL: path/to/perl/binary (eg:/usr/bin/perl)
$URLPRIAM: url_where_you_will_consult_results (eg: http://localhost/~toto)

3/ Edit PNG_coloriseArea_vjg.pl:

% cd $PACKAGE/DATA/GIFetHTML

modify PNG_coloriseArea_vjg.pl:	You need to change use lib .../lib/perl


4/ You can test PRIAM on the complete genome of Escherichia coli:

% cd $PACKAGE/SCRIPT/
% csh make.csh $PACKAGE/DATA/ECOLI.prot

You have create files in: $PACKAGE/RES/RES_PRIAM
 
liste_pred_rps.html = predictions for each EC number
map...org.png and map...org.html = 105 KEGG graphs according results of PRIAM for E.coli
 
5/ For use PRIAM on another complete genome :
 
 format a file with all proteins in fasta format with:
 >nameofprotein
 protein in fasta format
 
 
% cd $PACKAGE/SCRIPT/ 
% csh make.csh PATH_TO_YOUR_COMPLETE_GENOME_FILE

6/ For visualising the results:

% mv $PACKAGE/RES/RES_PRIAM in directory reachable by $URLPRIAM address

View the menu page: pred_metabo_org.html