[Bio] / ReleaseTools / sysbiorc.csh Repository:
ViewVC logotype

Annotation of /ReleaseTools/sysbiorc.csh

Parent Directory Parent Directory | Revision Log Revision Log


Revision 1.1 - (view) (download) (as text)

1 : efrank 1.1 ###
2 :     # env setup so must be sourced, not run
3 :     #
4 :     # This is a sample of a typical system-level configuration that users
5 :     # could source and thereafter be ready to use the ReleaseTools. The
6 :     # key thing is the block of environment variables, RTROOT, etc. (see below).
7 :     #
8 :     ###
9 :    
10 :     ##
11 :     # Release tools stuff
12 :     ##
13 :    
14 :     setenv RTCURRENT rtBoot
15 :     setenv RTROOT /homes/SysBio
16 :     setenv RTDIST ${RTROOT}/dist
17 :     setenv RTARCH linux-rh73
18 :    
19 :     alias rtpath 'source $RTDIST/releases/$RTCURRENT/ReleaseTools/RTPath.csh'
20 :    
21 :     ##
22 :     # Stuff for external dependencies. These are software that we need, but
23 :     # do not ship.
24 :     ##
25 :    
26 :     setenv EXTERNAL_REL 0.0.2
27 :     set EXTERNAL=/homes/SysBio/external/releases/$EXTERNAL_REL
28 :    
29 :     ##
30 :     # make sure they have some sort of path, but see also RTPath.csh
31 :     ##
32 :    
33 :     set path=( $EXTERNAL/bin $path $EXTERNAL/AccessGrid/bin )
34 :     rtpath
35 :    
36 :     ##
37 :     # CVS Repo. You can also do :ext:username@biocvs if you need to, but this
38 :     # should work in general:
39 :     ##
40 :    
41 :     setenv CVSROOT :ext:biocvs.mcs.anl.gov:/disks/cvs/bio
42 :     setenv CVS_RSH ssh
43 :    
44 :     setenv CYTOSCAPE_HOME /homes/SysBio/external/packages/Cytoscape1.1.1/
45 :     setenv CYTOSCAPE_COMMAND $CYTOSCAPE_HOME/cytoscape.sh
46 :     if ( $?DOTFONTPATH ) then
47 :     setenv CYTOSCAPE_DISPLAY $DISPLAY
48 :     endif
49 :    
50 :    
51 :    
52 :     ###
53 :     # What follows are set up as appends so that earlier configs can supercede.
54 :     ##
55 :    
56 :     # systems dot lacks fonts. we dumped needed fonts here:
57 :    
58 :    
59 :     if ( $?DOTFONTPATH ) then
60 :     setenv DOTFONTPATH ${DOTFONTPATH}:/homes/SysBio/external/X11R6/lib/X11/fonts/truetype
61 :     else
62 :     setenv DOTFONTPATH /homes/SysBio/external/X11R6/lib/X11/fonts/truetype
63 :     endif
64 :    
65 :    
66 :    
67 :     if ( $?PYTHONPATH ) then
68 :     setenv PYTHONPATH ${PYTHONPATH}:/homes/SysBio/external/releases/${EXTERNAL_REL}/lib/python2.2/site-packages
69 :     else
70 :     setenv PYTHONPATH /homes/SysBio/external/releases/${EXTERNAL_REL}/lib/python2.2/site-packages
71 :     endif
72 :    
73 :    
74 :     if ( $?LD_LIBRARY_PATH ) then
75 :     setenv LD_LIBRARY_PATH ${LD_LIBRARY_PATH}:${EXTERNAL}/lib/:/soft/com/packages/oracle/OraHome1/lib
76 :     else
77 :     setenv LD_LIBRARY_PATH ${EXTERNAL}/lib/:/soft/com/packages/oracle/OraHome1/lib
78 :     endif
79 :    
80 :     ##
81 :     # Configure shared AG installation
82 :     ##
83 :    
84 :     source $EXTERNAL/AccessGrid/env-init.csh
85 :    

MCS Webmaster
ViewVC Help
Powered by ViewVC 1.0.3