Ubuntu13TransitionGuide

From FarmShare

(Difference between revisions)
Jump to: navigation, search
Line 57: Line 57:
=== Matlab ===
=== Matlab ===
 +
 +
If you used to run
 +
<source lang="sh">
 +
matlab -nodesktop
 +
</source>
 +
 +
then you can run
<source lang="sh">
<source lang="sh">

Revision as of 21:13, 12 September 2013

Contents

Transition Guide for Farmshare Ubuntu 12.04 based systems to Ubuntu 13.04

Ubuntu 13.04 is being introduced to Farmshare systems starting September 12, 2013.

You can access the new Ubuntu 13.04 systems by:

ssh corn-new.stanford.edu

You can access the old Ubuntu 12.04 systems by:

ssh corn-old.stanford.edu

For the next week or so corn.stanford.edu will be an alias for corn-old.stanford.edu. After which, corn.stanford.edu will become an alias for corn-new.stanford.edu


This guide walks through the changes and new features.

Changes

/mnt/glusterfs is retired

If you used /mnt/glusterfs/<sunetid> for storing files, the replacement is /farmshare/user_data/<sunetid>

If you used /mnt/glusterfs/software/... for matlab, R, stata etc, the replacement is /farmshare/software. See Quick Start Guide below.

/usr/sweet/bin is retired

If you have been using stata, gaussian, matlab, etc from /usr/sweet/bin, the replacement is /farmshare/software. See Quick Start Guide.

/usr/pubsw is retired

If you have been using software from pubsw then let us know by sending an email to research-computing-support@stanford.edu. There are a lot of historical dependencies which we are currently tracing.

If you are not sure if you were using /usr/pubsw then you can check this way:

ssh corn-new and run your program. If you are getting an error then: ssh corn-old and run your program. If it works then type: "which <program name>" to find out the path. One you have the name of the program and the path, send us an email to research-computing-support@stanford.edu

100TB of shared storage

Farmshare now has 100TB of shared storage. see New Features below for details.

unix groups for collaboration

Farmshare now supports collaboration by unix groups. See New Features below for details.


Quick Start Guide for transitioning to Ubuntu 13.04

If you have been used to logging into a corn system and then executing matlab or mathematica then most likely you were using these programs from /usr/sweet/bin. On the new Farmshare you will need to execute a command to load these programs into your environment.

To help you get started quickly you can pick from these common examples:

Matlab

If you used to run

matlab -nodesktop

then you can run

module load matlab
matlab -nodesktop

Gaussian

module load gaussian
g09

Stata

module load statase
stata

or

module load statamp
stata

Mathematica

module load mathematica
math

SAS

module load sas
sas

R

If you were using module load R-2.15.1-precise then you can just execute R from ubuntu. If we get requests for R libraries which Ubuntu 13.04 does not have then we will build a local R package as we did with R-2.15.1-precise.

New Features

Personal tools
Toolbox
LANGUAGES