Software
From FarmShare
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For example, try something like this at the end of your .bashrc: | For example, try something like this at the end of your .bashrc: | ||
| - | < | + | <source lang="sh"> |
HOSTNAME=$(hostname) | HOSTNAME=$(hostname) | ||
if [ "${HOSTNAME:0:4}" = "corn" ]; then | if [ "${HOSTNAME:0:4}" = "corn" ]; then | ||
| Line 34: | Line 34: | ||
eval `tclsh /mnt/glusterfs/software/free/modules/tcl/modulecmd.tcl sh autoinit` | eval `tclsh /mnt/glusterfs/software/free/modules/tcl/modulecmd.tcl sh autoinit` | ||
fi | fi | ||
| - | </ | + | </source> |
Then you can do something like: | Then you can do something like: | ||
| - | < | + | <source lang="sh"> |
module avail | module avail | ||
module load stata | module load stata | ||
stata | stata | ||
| - | </ | + | </source> |
===more complete example=== | ===more complete example=== | ||
| - | < | + | <source lang="sh"> |
[chekh@corn24.stanford.edu] ~ [0] | [chekh@corn24.stanford.edu] ~ [0] | ||
| Line 95: | Line 95: | ||
use stattransfer for X11 GUI version | use stattransfer for X11 GUI version | ||
------------------------------------------------------------------- | ------------------------------------------------------------------- | ||
| - | </ | + | </source> |
Revision as of 16:52, 24 May 2012
There is a lot of software available on the FarmShare systems. The systems run Ubuntu, so a lot of Ubuntu packages are installed.
There is also some licensed software installed: https://itservices.stanford.edu/service/sharedcomputing/software
Don't use /usr/pubsw
Maybe use /usr/sweet/bin, though we'll be installing new versions of software outside of AFS, use 'module avail' instead.
modules
We use 'modules', a commonly used software package in HPC environments: http://modules.sourceforge.net/
First, you will need to source the module env vars for your shell:
If using sh/bash/ksh/zsh, add this to your .bashrc
eval `tclsh /mnt/glusterfs/software/free/modules/tcl/modulecmd.tcl sh autoinit`
If using csh/tcsh, add this to your .cshrc
source /mnt/glusterfs/software/free/modules/tcl/init/csh
If using perl, put this in your script
eval `tclsh /mnt/glusterfs/software/free/modules/tcl/modulecmd.tcl perl autoinit`;
For example, try something like this at the end of your .bashrc:
HOSTNAME=$(hostname) if [ "${HOSTNAME:0:4}" = "corn" ]; then #source farmshare modules echo "on a corn! try module avail" eval `tclsh /mnt/glusterfs/software/free/modules/tcl/modulecmd.tcl sh autoinit` fi
Then you can do something like:
module avail module load stata stata
more complete example
[chekh@corn24.stanford.edu] ~ [0] $ module avail ------------------------------------------- /mnt/glusterfs/software/free/modules/tcl/modulefiles -------------------------------------------- MATLAB-R2009b MATLAB-R2010b MATLAB-R2011b StatTransfer-10.1 StatTransfer-11.2 stata-v12 [chekh@corn24.stanford.edu] ~ [0] $ module load StatTransfer-10.1 [chekh@corn24.stanford.edu] ~ [0] $ st --version Stat/Transfer (c) 1986-2011 Circle Systems, Inc. www.stattransfer.com Version 10.1.1847.0331 - 64 Bit Linux Serial: BUNLM-VEAN7-JMC8 User: Pat Box (1) - Stanford University License Type: Linux - Single Machine Lease Warning: Your annual license is in its last month. Status: License OK - Expires April 30, 2012 Stat/Transfer is running in a remote secure shell. A workgroup license covering all users may be required. Please contact our sales department (sales@circlesys.com) for more information. [chekh@corn24.stanford.edu] ~ [0] $ module unload StatTransfer-10.1 [chekh@corn24.stanford.edu] ~ [0] $ module load StatTransfer-11.2 [chekh@corn24.stanford.edu] ~ [0] $ st --version Stat/Transfer (c) 1986-2012 Circle Systems, Inc. www.stattransfer.com Version 11.2.2013.0330 - 64 Bit Linux Serial: BOC59-BUAAN-ZCYF User: Jane Tansuwan - Stanford University License Type: Linux - 50 User Workgroup / Lease Status: License OK - Expires April 30, 2013 [chekh@corn24.stanford.edu] ~ [0] $ module help StatTransfer-11.2 ------------------------------------------------------------------- Module Specific Help for /mnt/glusterfs/software/free/modules/tcl/modulefiles/StatTransfer-11.2: ITS-maintained Stat/Transfer v11.2 (in GlusterFS) use st for command-line version use stattransfer for X11 GUI version -------------------------------------------------------------------
