clValid error in MeV 4.8.1 (Windows 7 64-bit)

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Eric
2012-06-07
2013-05-20
  • Eric
    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)