Thanks for all the info.
Is there a solution for my current issue? (text copied from my previous email)
I'm still trying to get through the 2.1 getting started document
(http://base.thep.lu.se/chrome/site/doc/user/getting_started.html).
Moving on to section 2d, "Analysing an experiment step I". I'm getting
an error when I try to run the RMAExpress plug-in job. The stack trace
is below. I'm curious as to why the plug-in is looking for the
RMAExpressConsole application in the Tomcat temp directory. I think
I've configured everything properly so far. The RMAExpressConsole
application file is located in the same directory as the plug-in's
affymetrix.jar library.
Error: Cannot run program
"RMAExpressConsole" (in directory "C:\Program Files\Apache Software
Foundation\Tomcat 6.0\temp\RMAExpress plug-in\920"): CreateProcess
error=2, The system cannot find the file specified
java.io.IOException: Cannot run program "RMAExpressConsole" (in
directory "C:\Program Files\Apache Software Foundation\Tomcat
6.0\temp\RMAExpress plug-in\920"): CreateProcess error=2, The system
cannot find the file specified
at java.lang.ProcessBuilder.start(Unknown Source)
at java.lang.Runtime.exec(Unknown Source)
at java.lang.Runtime.exec(Unknown Source)
at se.lu.thep.affymetrix.RMAExpress.runBinary(RMAExpress.java:150)
at
se.lu.thep.affymetrix.AbstractExternalBinaryPlugin.run(AbstractExternalBinaryPlugin.java:262)
at
net.sf.basedb.core.PluginExecutionRequest.invoke(PluginExecutionRequest.java:89)
at
net.sf.basedb.core.InternalJobQueue$JobRunner.run(InternalJobQueue.java:421)
at java.lang.Thread.run(Unknown Source)
Caused by: java.io.IOException: CreateProcess error=2, The system cannot find
the file specified
at java.lang.ProcessImpl.create(Native Method)
at java.lang.ProcessImpl.<init>(Unknown Source)
at java.lang.ProcessImpl.start(Unknown Source)
... 8 more
Cheers,
Jesse
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