error message

hi
i am getting following error message on linux system
Please Check Error:

[email protected]:~/NGS_run_sagar/bwa$ java -Xmx8G
-jar /home/iontorrent/NGS_sofware/GenomeAnalysisTK-3.6/GenomeAnalysisTK.jar
/
Exception in thread "main" java.lang.UnsupportedClassVersionError:
org/broadinstitute/gatk/engine/CommandLineGATK : Unsupported
major.minor version 52.0
at java.lang.ClassLoader.defineClass1(Native Method)
at java.lang.ClassLoader.defineClass(ClassLoader.java:643)
at java.security.SecureClassLoader.defineClass(SecureClassLoader.java:142)
at java.net.URLClassLoader.defineClass(URLClassLoader.java:277)
at java.net.URLClassLoader.access$000(URLClassLoader.java:73)
at java.net.URLClassLoader$1.run(URLClassLoader.java:212)
at java.security.AccessController.doPrivileged(Native Method)
at java.net.URLClassLoader.findClass(URLClassLoader.java:205)
at java.lang.ClassLoader.loadClass(ClassLoader.java:323)
at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:296)
at java.lang.ClassLoader.loadClass(ClassLoader.java:268)
at sun.launcher.LauncherHelper.checkAndLoadMain(LauncherHelper.java:406)

Answers

  • Geraldine_VdAuweraGeraldine_VdAuwera Cambridge, MAMember, Administrator, Broadie admin
    You're using the wrong version of Java, you must use Java 8 (jre/jdk 1.8).
  • thank you Geraldine_VdAuwera
    still after updating JAVA new error it is showing as
    Now Error is:

    ERROR ------------------------------------------------------------------------------------------
    ERROR A USER ERROR has occurred (version 3.6-0-g89b7209):
    ERROR
    ERROR This means that one or more arguments or inputs in your command are incorrect.
    ERROR The error message below tells you what is the problem.
    ERROR
    ERROR If the problem is an invalid argument, please check the online documentation guide
    ERROR (or rerun your command with --help) to view allowable command-line arguments for this tool.
    ERROR
    ERROR Visit our website and forum for extensive documentation and answers to
    ERROR commonly asked questions https://www.broadinstitute.org/gatk
    ERROR
    ERROR Please do NOT post this error to the GATK forum unless you have really tried to fix it yourself.
    ERROR
    ERROR MESSAGE: Argument with name '--analysis_type' (-T) is missing.
    ERROR ------------------------------------------------------------------------------------------
  • Geraldine_VdAuweraGeraldine_VdAuwera Cambridge, MAMember, Administrator, Broadie admin
    Well, now your command line is incomplete or badly formatted. Please read the getting started guide before asking any more questions.
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