Hi Iry, ok. Try this: 1. Start MConfigurator 2. Add source. Type 'RDBMS'. Click 'source schema'. Edit the connection params. Hit 'Get' 3. Now you should be able to see databases listed in the left panel. Click the one that you want to process. 4. This should list tables on the right hand side. Click one, then 'Add'. 5. This should add a new data source on the left hand side. 6. In the right panel, click 'add access point'. Click 'OK'. 7. Once your access point has appeared in the right panel, click 'start server'. 8. This should start the web server running on your local machine (in my case my laptop) 9. You can now query it and see if everything works ok
Let me know how you get on a On Thu, Jan 17, 2013 at 6:48 PM, Iry Witham <[email protected]> wrote: > Hi Arek, > > I have the java based biomart installed and have run the "Quick Start" > to add MSD data source. However, what I need to do is add my own data > source from a mysql database I have built. > > Iry > > From: Arek Kasprzyk <[email protected]> > Date: Thursday, January 17, 2013 1:42 PM > To: Iry Witham <[email protected]> > Cc: "[email protected]" <[email protected]> > Subject: Re: [BioMart Users] Issues setting up a local biomart > > Hi Iry, > You need to give us a bit more details about your problems. Are you > talking about difficulties with the installation of the software or you not > sure how to represent the data or something entirely different ? > > > a > > > On Thu, Jan 17, 2013 at 3:29 PM, Iry Witham <[email protected]> wrote: > >> Hi Gang, >> >> I am very new to this and have been attempting to build a local biomart >> with my own mysql database. I started with biomart_0_7 and have had no >> success. I switched to biomart_0_8/release-0_8-candidate_6 with no >> success. I have reviewed the documentation and do not understand what to >> do from here. I am doing this on a SLES 11 VM. Please throw me a bone! >> >> Thanks, >> >> Iry Witham >> __________________________________ >> Scientific Applications Administrator >> Scientific Computing Group >> Computational Sciences Dept. >> The Jackson Laboratory >> 600 Main Street >> Bar Harbor, ME 04609 >> Phone: 207-288-6744 >> email: [email protected] >> >> >> The information in this email, including attachments, may be >> confidential and is intended solely for the addressee(s). If you believe >> you received this email by mistake, please notify the sender by return >> email as soon as possible. >> >> _______________________________________________ >> Users mailing list >> [email protected] >> https://lists.biomart.org/mailman/listinfo/users >> >> > > > -- > Arek Kasprzyk, MD, MSc, PhD > BioMart Project Lead > www.biomart.org > > The information in this email, including attachments, may be confidential > and is intended solely for the addressee(s). If you believe you received > this email by mistake, please notify the sender by return email as soon as > possible. > -- Arek Kasprzyk, MD, MSc, PhD BioMart Project Lead www.biomart.org
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