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1 : efrank 1.1 ###
2 :     # env setup so must be sourced, not run
3 :     # 29 June 04: translated to bash by larry sheradon
4 :     #
5 :     # nb: sysbiorc.csh is most actively used and the .sh often ends up out of
6 :     # date. be careful.
7 :     ###
8 :    
9 :     ##
10 :     # stuff for external dependencies.
11 :     ##
12 :    
13 :     export EXTERNAL_REL=0.0.2
14 :     export EXTERNAL=/homes/SysBio/external/releases/$EXTERNAL_REL
15 :    
16 :     ##
17 :     # Release tools stuff
18 :     ##
19 :    
20 :     export RTCURRENT=rtBoot
21 :     export RTROOT=/homes/SysBio
22 :     export RTDIST=$RTROOT/dist
23 :     export RTARCH=linux-rh73
24 :    
25 :     alias rtpath='source $RTDIST/releases/$RTCURRENT/ReleaseTools/RTPath.sh'
26 :    
27 :     # make sure they have some sort of path
28 :    
29 :     export PATH=$EXTERNAL/bin:$PATH:$EXTERNAL/AccessGrid/bin
30 :     rtpath
31 :    
32 :    
33 :     # CVS Repo. You can also do :ext:username@biocvs if you need to, but this
34 :     # should work in general:
35 :    
36 :     export CVSROOT=:ext:biocvs.mcs.anl.gov:/disks/cvs/bio
37 :     export CVS_RSH=ssh
38 :    
39 :     export CYTOSCAPE_HOME=/homes/SysBio/external/packages/Cytoscape1.1.1/
40 :     export CYTOSCAPE_COMMAND=$CYTOSCAPE_HOME/cytoscape.sh
41 :     export CYTOSCAPE_DISPLAY=$DISPLAY
42 :    
43 :    
44 :     ##
45 :     # What follows are set up as appends so that earlier configs can supercede.
46 :     ##
47 :    
48 :     # systems dot lacks fonts. we dumped needed fonts here:
49 :     export DOTFONTPATH=$DOTFONTPATH:/homes/SysBio/external/X11R6/lib/X11/fonts/truetype
50 :    
51 :     export PYTHONPATH=$PYTHONPATH:/homes/SysBio/external/releases/$EXTERNAL_REL/lib/python2.2/site-packages
52 :    
53 :     export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:$EXTERNAL/lib/:/soft/com/packages/oracle/OraHome1/lib
54 :    
55 :     # Shared AG installation
56 :     . $EXTERNAL/AccessGrid/env-init.sh

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