Here's a example script that you can use.
http://wiki.transvar.org/confluence/display/igbman/Scripting+and+the+IGB+command+language

Copy the content of 'Example Script' in a file 'script.igb'. Then use run script to run it.

Cancelling the script throws this:

SEVERE:
java.lang.InterruptedException: sleep interrupted
at java.lang.Thread.sleep(Native Method)
at com.gene.igbscript.IGBScriptEngine.doActions(IGBScriptEngine.java:194)
at com.gene.igbscript.IGBScriptEngine.eval(IGBScriptEngine.java:92)
at com.gene.igbscript.IGBScriptEngine.eval(IGBScriptEngine.java:87)
at com.gene.igbscript.IGBScriptEngine.eval(IGBScriptEngine.java:107)
at com.affymetrix.genoviz.swing.recordplayback.ScriptManager.runScript(ScriptManager.java:150)
at com.affymetrix.igb.action.RunScriptAction$1.doInBackground(RunScriptAction.java:131)
at com.affymetrix.igb.action.RunScriptAction$1.doInBackground(RunScriptAction.java:127)
at javax.swing.SwingWorker$1.call(SwingWorker.java:277)
at java.util.concurrent.FutureTask$Sync.innerRun(FutureTask.java:303)
at java.util.concurrent.FutureTask.run(FutureTask.java:138)
at javax.swing.SwingWorker.run(SwingWorker.java:316)
at java.util.concurrent.ThreadPoolExecutor$Worker.runTask(ThreadPoolExecutor.java:886)
at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:908)
at java.lang.Thread.run(Thread.java:680)

Fixed in r13599.