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stack trace problem---Run Mutect on Mac

CrossLaycciCrossLaycci Los AngelesMember

Hi,

I am trying to run MuTect on my iMac. The java version is:
ava version "1.6.0_51"
Java(TM) SE Runtime Environment (build 1.6.0_51-b11-457-10M4509)
Java HotSpot(TM) 64-Bit Server VM (build 20.51-b01-457, mixed mode)

But I got an error as follows:
ERROR stack trace
java.lang.IllegalAccessError: class org.broadinstitute.sting.utils.sam.GATKSAMRecord cannot access its superclass net.sf.samtools.BAMRecord
at java.lang.ClassLoader.defineClass1(Native Method)
at java.lang.ClassLoader.defineClassCond(ClassLoader.java:631)
at java.lang.ClassLoader.defineClass(ClassLoader.java:615)
at java.security.SecureClassLoader.defineClass(SecureClassLoader.java:141)
at java.net.URLClassLoader.defineClass(URLClassLoader.java:283)
at java.net.URLClassLoader.access$000(URLClassLoader.java:58)
at java.net.URLClassLoader$1.run(URLClassLoader.java:197)
at java.security.AccessController.doPrivileged(Native Method)
at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
at java.lang.ClassLoader.loadClass(ClassLoader.java:306)
at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:301)
at java.lang.ClassLoader.loadClass(ClassLoader.java:247)
at java.lang.Class.getDeclaredConstructors0(Native Method)
at java.lang.Class.privateGetDeclaredConstructors(Class.java:2437)
at java.lang.Class.getConstructor0(Class.java:2747)
at java.lang.Class.newInstance0(Class.java:328)
at java.lang.Class.newInstance(Class.java:310)
at org.broadinstitute.sting.utils.classloader.PluginManager.createByName(PluginManager.java:288)
at org.broadinstitute.sting.gatk.GenomeAnalysisEngine.getWalkerByName(GenomeAnalysisEngine.java:331)
at org.broadinstitute.sting.gatk.CommandLineExecutable.getArgumentSources(CommandLineExecutable.java:202)
at org.broadinstitute.sting.commandline.CommandLineProgram.start(CommandLineProgram.java:196)
at org.broadinstitute.sting.commandline.CommandLineProgram.start(CommandLineProgram.java:146)
at org.broadinstitute.sting.gatk.CommandLineGATK.main(CommandLineGATK.java:93)

What would be wrong?

Best,

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Answers

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