Hoffman2:WEKA

WEKA

Getting Started with Weka

Introductory material and full manuals can be found here.

There are sample data sets that can be found on Hoffman2 at:

/u/home/FMRI/apps/current/data

and most of these are used in the introductory materials.

GUI

To run the WEKA GUI from Hoffman2

1. Make sure that you enabled X11 forwarding by including the -Y flag in your SSH command:
   

    $ ssh -Y joebruin@hoffman2.idre.ucla.edu 

2. Request an interactive node to run on with the following command:
   

    $ qrsh -l i 

3. Wait for the new node to appear. Your prompt will change from:
   

    [joebruin@login4 ~] $ 

   to something like
   

    [joebruin@n1234 ~] $ 

4. Run the command:

    $ java -jar /u/home/FMRI/apps/weka/current/weka.jar 

   And the current version of WEKA should start up and the GUI will appear.

Command Line

Calling any of the usual WEKA command line tools will work in submitted jobs so long as you properly reference the WEKA jar file at:

/u/home/FMRI/apps/weka/current/weka.jar

A sample command would be

$ java -Xmx2g -cp /u/home/FMRI/apps/weka/current/weka.jar weka.classifiers.functions.SMO -o -t awesome_train_file.arff -T awesome_test_file.arff

where

-Xmx2g

calls for 2GB of memory

-Xmx256m calls for 256MB of memory

-o

suppresses the model output

-t awesome_train_file.arff

specifies the training file

-T awesome_test_file.arff

is an optional testing file for the model

if this option is not provided, 10 fold cross validation will be done using Training data

Massive Online Analysis (MOA)

GUI

To run the MOA GUI from Hoffman2

1. Make sure that you enabled X11 forwarding by including the -Y flag in your SSH command:
   

    $ ssh -Y joebruin@hoffman2.idre.ucla.edu 

2. Request an interactive node to run on with the following command:
   

    $ qrsh -l i 

3. Wait for the new node to appear. Your prompt will change from:
   

    [joebruin@login4 ~] $ 

   to something like
   

    [joebruin@n1234 ~] $ 

4. Run the command:

    $ moa.sh 

   And the current version of MOA should start up and the GUI will appear.

Command Line

Calling any of the usual MOA command line tools will work in submitted jobs so long as you properly reference the MOA jar file at:

/u/home/FMRI/apps/weka/current/weka.jar

A sample command would be

$ java -Xmx4g -cp /u/home/FMRI/apps/moa/current/moa.jar -javaagent:sizeofag.jar moa.DoTask "EvaluatePrequential -l HoeffdingTree -i 1000000 -w 10000" 

where

-Xmx4g

calls for 4GB of memory

-Xmx256m calls for 256MB of memory

EvaluatePrequential -l HoeffdingTree -i 1000000 -w 10000

is the MOA command to execute