This is a test version of Biostars. For the public version, visit https://www.biostars.org.
An Error About The Recombination Detection Software Dualbrothers

Hi, I tried to use the software DualBrothers to detect the recombination breakpoints in a set of genes. I installed the software as the instructions describe, but when I tested the software using the examples I received the following error:

*java.lang.ClassNotFoundException: edu.cornell.lassp.houle.RngPack.RandomElement
at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
    at java.security.AccessController.doPrivileged(Native Method)
    at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
    at java.lang.ClassLoader.loadClass(ClassLoader.java:306)
    at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:301)
    at java.lang.ClassLoader.loadClass(ClassLoader.java:247)*

Why was there an error? Does anyone know how to solve this problem? Hope to get a reply from you, and thank you !

recombination
• 2,196 views • link
updated by Biostar Biostar • written by Ontheway • Ontheway

While I'm not a Java person and I've never used the aforementioned program, this error would seem to indicate that whatever defines edu.cornell.lassp.houle.RngPack.RandomElement isn't in your Classpath.

• 14 views • link
written by Devon Ryan Devon Ryan

0 answers

No answers yet.

Log in to answer this question.

More posts like this
  • snpeff install error
    written by bestone • bestone
    Hello guys, I installed snpeff tools to my mac but even I update the java. It still giving the error like this: Error: A JNI …
  • Help with Fastqc error
    written by mink2mink2 • mink2mink2
    Hi, people. $sudo fastqc abc.basecaller.bam -o /mgm_test/ Exception in thread "main" java.lang.NoClassDefFoundError: htsjdk/samtools/SAMFormatException at uk.ac.babraham.FastQC.Sequence.SequenceFactory.getSequenceFile(SequenceFactory.java:100) at uk.ac.babraham.FastQC.Sequence.SequenceFactory.getSequenceFile(SequenceFactory.java:62) at uk.ac.babraham.FastQC.Analysis.OfflineRunner.processFile(OfflineRunner.java:129) at uk.ac.babraham.FastQC.Analysis.OfflineRunner.<init>(OfflineRunner.java:102) at uk.ac.babraham.FastQC.FastQCApplication.main(FastQCApplication.java:316) Caused by: …
  • cramtools Java NoClassDefFoundError
    written by ttom ttom
    Using cramtools 3.0 The same error was posted in https://github.com/enasequence/cramtools/issues/55 **cramtools cram -I TEST.bam -R Human_Decoy_REF/hs37d5.fa -O TEST.bam.cram** Exception in thread "main" java.lang.reflect.InvocationTargetException at sun.reflect.NativeMethodAccessorImpl.invoke0(Native …
  • error while using picard 2.1.0
    written by kirannbishwa01 kirannbishwa01
    I have been using picard for a while and it was working good. I just downloaded a new version of picard 2.1.0. While the previous …
  • Error using Hadoop BAM
    written by shalini.ravishankar • shalini.ravishankar
    Hello Everyone, I am new to Hadoop BAM and bio world. I tried to use hadoop bam as : ``` $ hadoop jar \ /usr/local/hadoop/share/hadoop/tools/lib/hadoop-streaming-2.5.1.jar …
  • the problem when I run vcffilterjs
    written by zengtony743 zengtony743
    I am sorry to post this again separately since i am not quite sure if this is the computer issue or the issue from the …
  • SnpEff error message
    written by eb050187 • eb050187
    I seem to get the same error message when I try to do anything using SnpEff. It seems like other people have addressed this error …
  • snpEFF Database building error
    written by Parimala Devi Parimala Devi
    I am using snpEFF for SNP annotation. I am building my own database. I added genome entry to snpEff's configuration. I'm building the database from …
  • Forum: Biojava Noclassdeffounderror
    written by Rks • Rks
    Hi All I searched if there is any thread regarding biojava `NoClassDefFoundError`, so here I am creating one. I am doing multiple sequence alignment using …
  • How To Get Picard-1.33 Working
    written by Biomed Biomed
    <p>I downloaded Picard-1.33 and I can't seem to get it working under a unix command line. Any help in how you should start this program …