Software

From FarmShare

(Difference between revisions)
Jump to: navigation, search
(modules)
Line 21: Line 21:
fi
fi
</pre>
</pre>
 +
 +
Replace "bash" with your shell if you're using a different shell, e.g. "source /mnt/glusterfs/software/free/modules/tcl/init/zsh" for zsh.
Then you can do something like:
Then you can do something like:

Revision as of 17:58, 30 April 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.

Don't use /usr/pubsw, we're trying to retire all of that tree.

Maybe use /usr/sweet/bin, though we'll be installing new versions of software outside of AFS.

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 from /mnt/glusterfs/software/free/modules/tcl/init/

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"
  source /mnt/glusterfs/software/free/modules/tcl/init/bash
fi

Replace "bash" with your shell if you're using a different shell, e.g. "source /mnt/glusterfs/software/free/modules/tcl/init/zsh" for zsh.

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         
------------------------------------------------------------------ Aliases ------------------------------------------------------------------
----------------------------------------------------------------- Versions ------------------------------------------------------------------

[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
-------------------------------------------------------------------
Personal tools
Toolbox
LANGUAGES