>> When I used SnpEff in local galaxy instance, I got an error: >> Exception in thread "main" java.lang.UnsupportedClassVersionError: >> ca/mcgill/mcb/pcingola/snpSift/SnpSift : Unsupported major.minor version >> 51.0 at java.lang.ClassLoader.defineClass1(Native Method) at >> java.lang.ClassLoader.defineClassCond(ClassLoader.j
>Which Java version do you use. Please make sure you are running Java 1.7. Yes, it is figured, when I changed the java version to 1.7. Thank you so much! But, I got another error for snpEff. java.lang.RuntimeException: Property: 'dm5.30.genome' not found at ca.mcgill.mcb.pcingola.interval.Genome.<init>(Genome.java:92) at ca.mcgill.mcb.pcingola.snpEffect.Config.readGenomeConfig(Config.java:481) at ca.mcgill.mcb.pcingola.snpEffect.Config.readConfig(Config.java:444) at ca.mcgill.mcb.pcingola.snpEffect.Config.init(Config.java:345) at ca.mcgill.mcb.pcingola.snpEffect.Config.<init>(Config.java:96) at ca.mcgill.mcb.pcingola.snpEffect.commandLine.SnpEff.readConfig(SnpEff.java:245) at ca.mcgill.mcb.pcingola.snpEffect.commandLine.SnpEffCmdEff.run(SnpEffCmdEff.java:981) at ca.mcgill.mcb.pcingola.snpEffect.commandLine.SnpEffCmdEff.run(SnpEffCmdEff.java:963) at ca.mcgill.mcb.pcingola.snpEffect.commandLine.SnpEff.run(SnpEff.java:352) at ca.mcgill.mcb.pcingola.snpEffect.commandLine.SnpEff.run(SnpEff.java:320) at ca.mcgill.mcb.pcingola.snpEffect.commandLine.SnpEff.main(SnpEff.java:83) What does this mean? I found the similar error on this thead http://dev.list.galaxyproject.org/snpEff-on-Galaxy-td4659332.html, but there is no reply. Does this mean I need to add genome to Galaxy? Following this webpage: http://snpeff.sourceforge.net/SnpEff_manual.html? If yes, could you give me an example how to edit the snpEffect.xml file in dm (Drosophila) case as below? (In fact, on the drap-down menu of Genome in snpEff, there is different options for genome. Why the error shows '*.genome' not found? ) <param name="genomeVersion" type="select" label="Genome"> <option value="hg37">Human (hg37)<option> <option value="mm37.61">Mouse (mm37.61)<option> <param> ________________________________________ From: Björn Grüning [bjoern.gruen...@gmail.com] Sent: Wednesday, April 02, 2014 10:35 AM To: Wang, Xiaofei; galaxy-dev@lists.bx.psu.edu Subject: Re: [galaxy-dev] snpEff and FASTQ Summary Statistics errors Hi Xiaofei, > Dear there, > > When I used SnpEff in local galaxy instance, I got an error: > Exception in thread "main" java.lang.UnsupportedClassVersionError: > ca/mcgill/mcb/pcingola/snpSift/SnpSift : Unsupported major.minor version 51.0 > at java.lang.ClassLoader.defineClass1(Native Method) at > java.lang.ClassLoader.defineClassCond(ClassLoader.j Which Java version do you use. Please make sure you are running Java 1.7. > Also, when I used the FASTQ Summary Statistics, I got an error like this: > Traceback (most recent call last): File > "/Users/...../softwares/shed_tools/toolshed.g2.bx.psu.edu/repos/devteam/fastq_stats/9b7b4e0ca9db/fastq_stats/fastq_stats.py", > line 48, in if __name__ == "__main__": main() File "/Users/... Can you give us the complete error message. The important part is missing. Ciao, Bjoern > I tried to google and solve them by myself. But I really do not know how to > do that. Could anybody give me some clue? Thanks a lot for your help! > > > > > ___________________________________________________________ > Please keep all replies on the list by using "reply all" > in your mail client. To manage your subscriptions to this > and other Galaxy lists, please use the interface at: > http://lists.bx.psu.edu/ > > To search Galaxy mailing lists use the unified search at: > http://galaxyproject.org/search/mailinglists/ > ___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
