Ah, you're running OpenJDK IcedTea. Sometimes having versions of Java other than the official Sun one can cause problems with GUI-intensive applications such as MartEditor.
Try installing the official Sun Java and see if that fixes it. cheers, Richard On 21 Nov 2009, at 23:23, [email protected] wrote: > I removed .biomart/ folder as you suggested, it still doesn't work. > > ~]# uname -a && java -version > Linux 2.6.30.9-90.fc11.i686.PAE #1 SMP Sat Oct 17 11:24:32 EDT 2009 > i686 i686 i386 GNU/Linux > java version "1.6.0_0" > OpenJDK Runtime Environment (IcedTea6 1.6) (fedora-30.b16.fc11-i386) > OpenJDK Server VM (build 14.0-b16, mixed mode) > > > > > >> Did you try the thing about removing the config folder? >> >> It would be really useful to know the output of this command: >> >> uname -a && java -version >> >> cheers, >> Richard >> >> On 21 Nov 2009, at 00:56, [email protected] wrote: >> >>> it still doesn't work after I reinstalled martj-0.7 binary. i use fedora >>> 11. >>> >>> Thanks >>> >>> Dong >>> >>>> There is one quick thing you can do which will remove one possible >>>> cause >>>> (corrupt config files) - find your home directory, then find within it >>>> the >>>> .biomart or .martj folders (can't remember which one it is now) and >>>> delete/rename it. This will make MartEditor start up as if it were a >>>> clean >>>> install. If that does fix it, then the problem is most likely due to >>>> something that was broken in the config, e.g. pointing to a database >>>> which >>>> no longer exists. >>>> >>>> If that doesn't do it, then it sounds like something has changed >>>> locally >>>> then. It would still be useful to have the uname -a and java -version >>>> outputs to hand, as they would help work out what system you're using >>>> (for >>>> future reference if others have the same problem). >>>> >>>> Seeing as it used to work but has recently stopped - and I assume it >>>> used >>>> to work on this machine and not somewhere else - have you done a recent >>>> upgrade on any OS component, or recently installed or removed any other >>>> software? Have you recently upgraded to a newer version of BioMart, or >>>> updated the source if you're building from source? >>>> >>>> cheers, >>>> Richard >>>> >>>> On 20 Nov 2009, at 21:46, [email protected] wrote: >>>> >>>>> it used to work, and martbuilder still works >>>>> >>>>>> Hello, >>>>>> >>>>>> A bit more information will help diagnose your problem. Can you >>>>>> cut-and-paste the output from the following command line please: >>>>>> >>>>>> uname -a && java -version >>>>>> >>>>>> Also, what version of BioMart are you using, and did you download the >>>>>> binaries or did you build it from source? If source, which branch or >>>>>> tag >>>>>> in CVS did you check out? Did it used to work but has now stopped, or >>>>>> has >>>>>> it never worked? >>>>>> >>>>>> Does typing 'xterm' at the same prompt work? If not, you've probably >>>>>> got a >>>>>> general X windows misconfiguration. >>>>>> >>>>>> cheers, >>>>>> Richard >>>>>> >>>>>> On 20 Nov 2009, at 20:05, [email protected] wrote: >>>>>> >>>>>>> Hi, friends, >>>>>>> >>>>>>> I have a problem to start marteditor on my box, marteditor window >>>>>>> didn't >>>>>>> pop up when I type ./marteditor.sh, any suggestion? >>>>>>> >>>>>>> Thanks! >>>>>>> >>>>>>> Dong >>>>>>> >>>>>>> >>>>>>> -------------------------- >>>>>>> bin]# ./marteditor.sh >>>>>>> Starting MartEditor please wait .... >>>>>>> getting driver com.mysql.jdbc.Driver >>>>>>> >>>>>>> >>>>>>> ------------------------------------ >>>>>>> >>>>>>> >>>>>>> >>>>>> >>>>>> -- >>>>>> Richard Holland, BSc MBCS >>>>>> Operations and Delivery Director, Eagle Genomics Ltd >>>>>> T: +44 (0)1223 654481 ext 3 | E: [email protected] >>>>>> http://www.eaglegenomics.com/ >>>>>> >>>>>> >>>>> >>>>> >>>> >>>> -- >>>> Richard Holland, BSc MBCS >>>> Operations and Delivery Director, Eagle Genomics Ltd >>>> T: +44 (0)1223 654481 ext 3 | E: [email protected] >>>> http://www.eaglegenomics.com/ >>>> >>>> >>> >>> >> >> -- >> Richard Holland, BSc MBCS >> Operations and Delivery Director, Eagle Genomics Ltd >> T: +44 (0)1223 654481 ext 3 | E: [email protected] >> http://www.eaglegenomics.com/ >> >> > > -- Richard Holland, BSc MBCS Operations and Delivery Director, Eagle Genomics Ltd T: +44 (0)1223 654481 ext 3 | E: [email protected] http://www.eaglegenomics.com/
