Dear Junjun, Thanks for a prompt response and updating svn this quickly. The OS we are using is Linux(release 11) with direct access to the server. The deployment of BioMart server now works fine. I will definately stay connected with the community on how we are deploying of Biomart 0.8 rc-6.
Thanks, Parul Kudtarkar > Dear Parul, > > Based on the information you provided, it is not clear what might be the problem. The ERRORs in the log were not really errors, they are debug information but mistakenly logged as error. We have already fixed those. You may want to update your code using 'svn update' > > Please see my comments below for your specific questions: > > On 11-06-09 7:01 PM, "[email protected]" <[email protected]> wrote: > >>Biomart community, >>I am trying to install Biomart0.8 release 6. When I run martconfigurator script, I get following error messages and the web browser does not open to the home pages as expected(http://localhost:9000) > > Do you mean in MartConfigurator after you click on 'Start Server' button the web browser did not open? If so, I'd like to know more information about your OS environment. What's the operation systems you use, Windows, > Linux, or MAC? Were you using X11 forwarding in which MartConfigurator runs on a remote server? In such case, you will need to open the web browser manually then point it to http://your_remote_server_address:9000 > > If the web browser opened up but had problem loading the homepage, then you can look into a log file under 'dist/logs/' with a name like 'stdouterr.2011_xx_xx.log' for more information. > > >>./dist/scripts/martconfigurator.sh >>Starting MartConfigurator please wait .... >>[AWT-EventQueue-0] INFO martconfigurator - ...martconfigurator started. [AWT-EventQueue-0] INFO martconfigurator - Loading resources from org/biomart/configurator/resources/messages >>[AWT-EventQueue-0] INFO martconfigurator - Done loading resources [AWT-EventQueue-0] INFO martconfigurator - Done loading settings [Thread-4] ERROR martconfigurator - Trying to connect to: msd >>http://www.biomart.org:80/biomart/martservice?type=configuration&dataset=m sd&virtualschema=default >>[Thread-4] ERROR martconfigurator - Done >>[AWT-EventQueue-1] INFO martconfigurator - Done saving settings >>[Thread-9] INFO martconfigurator - ./scripts/biomart-server.sh stop [Thread-9] INFO martconfigurator - stop exitValue: 0 >>[Thread-9] ERROR martconfigurator - ./scripts/biomart-server.sh start [Thread-9] ERROR martconfigurator - <Info> >>1] Please comment on what could possibly cause these errors. I have checked the my system requirements as mentioned in the troble shooting section and they seemd to be okay, i.e. java and ant versions. > > As I mentioned earlier, these were not really errors. It was mistakenly logged as error. > > >>2] Also in the biomart manual section "4. Quick start" page 9 mentions that inorder to test msd resgistry restart the server. You will be prompted to save the registry file youʼve created, and after doing >> so >>the server will be deployed on your local machine, port 9000. >>What is the location that this resgistry file should be saved and is >> there >>any particular name that you ought to provide to save this registry file? > > When you are prompted to save the file, you can choose to save any where you have write permission. However it is recommended to save it under the > 'registry' folder. > > Hope this helps, and let us know how it goes. > > Best regards, > > Junjun > > > >>Thanks, >>Parul >>-- >>Parul V. Kudtarkar >>Scientific Programmer >>Center for Computational Regulatory Genomics >>Beckman Institute, >>California Institute of Technology >>_______________________________________________ >>Users mailing list >>[email protected] >>https://lists.biomart.org/mailman/listinfo/users > > -- Parul V. Kudtarkar Scientific Programmer Center for Computational Regulatory Genomics Beckman Institute, California Institute of Technology _______________________________________________ Users mailing list [email protected] https://lists.biomart.org/mailman/listinfo/users
