Eric - 2012-06-07

Hi,
I am attempting to run the new clValid cluster validation tool in MeV 4.8.1.  I define my cluster with the cluster manager.  The dialogue box comes up and it starts to run, but then dies.  Below is the stack for the whole session (opening MeV, loading the data, creating the MeV cluster, and running cluster validation.  I can't tell if this is a java problem or if it's a missing R package, or what.  Any help would be appreciated.

Thanks,
Eric

"64 bit Win"
C:\MeV_4_8_1_r2727_win\MeV_4_8_1
MultiExperimentViewer - version 4.8.1 - Windows 7
Java Runtime Environment version: 1.6.0_17
Java Runtime Environment vendor: Sun Microsystems Inc.
Java Virtual Machine name: Java HotSpot(TM) Client VM
Java Virtual Machine version: 14.3-b01
Java Virtual Machine vendor: Sun Microsystems Inc.
Java 3D Runtime Environment: Java 3D Core Runtime Environment
Java 3D Runtime Environment vendor: Sun Microsystems, Inc.
Java 3D Runtime Environment version:1.2
Operating System name: Windows 7
Operating System version: 6.1
Operating System architecture: x86
MeV Build: 2727
MeV Revision Date: 2011/12/15 12:26:53
MeV Branch: https://mev-tm4.svn.sourceforge.net/svnroot/mev-tm4/trunk
user.home C:\Users\merk000
user.dir C:\MeV_4_8_1_r2727_win\MeV_4_8_1
Checking for R_HOME : C:\MeV_4_8_1_r2727_win\MeV_4_8_1\R-2.11.1
Creating Rengine (with arguments)

R version 2.11.1 (2010-05-31)

Copyright (C) 2010 The R Foundation for Statistical Computing

ISBN 3-900051-07-0

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

Rengine created, waiting for R
Biobase_2.8.0.zip Package Installed
annotate_1.26.1.zip Package Installed
GO.db_2.4.1.zip Package Installed
xtable_1.5-6.zip Package Installed
kohonen_2.0.7.zip Package Installed
mclust_3.4.8.zip Package Installed
clValid_0.6-2.zip Package Installed
Loading required package: cluster

Loading required package: class

org.tigr.microarray.mev.cluster.algorithm.AbortException: abort
        at org.tigr.microarray.mev.cluster.algorithm.impl.CLVALID.runRAlg(CLVALI
D.java:256)
        at org.tigr.microarray.mev.cluster.algorithm.impl.CLVALID.execute(CLVALI
D.java:95)
        at org.tigr.microarray.mev.cluster.gui.impl.clvalid.CLVALIDGUI.execute(C
LVALIDGUI.java:54)
        at org.tigr.microarray.mev.cluster.gui.impl.clvalid.CLVALIDGUI.performVa
lidation(CLVALIDGUI.java:127)
        at org.tigr.microarray.mev.cluster.gui.impl.clvalid.CLVALIDGUI.execute(C
LVALIDGUI.java:100)
        at org.tigr.microarray.mev.MultipleArrayViewer$7.run(MultipleArrayViewer
.java:2625)
        at java.lang.Thread.run(Unknown Source)
Error running clValid
org.tigr.microarray.mev.cluster.algorithm.AlgorithmException: Error running Clus
ter Validation
        at org.tigr.microarray.mev.cluster.gui.impl.clvalid.CLVALIDGUI.performVa
lidation(CLVALIDGUI.java:131)
        at org.tigr.microarray.mev.cluster.gui.impl.clvalid.CLVALIDGUI.execute(C
LVALIDGUI.java:100)
        at org.tigr.microarray.mev.MultipleArrayViewer$7.run(MultipleArrayViewer
.java:2625)
        at java.lang.Thread.run(Unknown Source)