[Gmod-help] Re: [Gmod-gbrowse] mysql database for gbrowse

[shalabh sharma]

Hey Dave,
                  Thanks for reply. Actually what i was doing, i have
different gff file for different chromosome and i was just combining them
all and loading it.
But ya know the problem is solved. I loaded all the files (for different
chromosomes) together on single command line.

Thanks
Shalabh


On Fri, Oct 31, 2008 at 5:15 PM, Dave Clements, GMOD Help Desk <
gmodhelp at googlemail.com> wrote:

> Shalabh,
>
> More than one chromosome per GFF file and MySQL database should be
> fine.  Does each of the chomosomes have a full-length entry for it in
> the GFF file?  For example:
>
> chrI    SGD     chromosome      1       230208  .       .       .
> ID=chrI;dbxref=NCBI:NC_001133
> chrI ...
> chrII   SGD     chromosome      1       813178  .       .       .
> ID=chrII;dbxref=NCBI:NC_001134
> chrII ...
>
> Dave C.
>
>
> On Fri, Oct 31, 2008 at 7:23 AM, shalabh sharma
> <shalabh.sharma7 at gmail.com> wrote:
> > Hi,
> > I am using gbrowse V1.7 om MacOX (Tiger).
> > I am building a database on mysql . I have one (.gff3) file for all the
> > chromosomes (chr1-chr21).
> > I have loaded that file in mysql database, it worked fine.
> > But the problem is that when i type any other chromosome other then chr1
> > (like chr7 or chr21) it says :
> >
> > The landmark named chr7 is not recognized. See the help pages for
> > suggestions
> >
> > but its working fine for chr1.
> > Is it that i have to make different mysql database for different
> > chromosomes?
> > I would really appreciate if anyone can help me out.
> >
> > Thanks
> > Shalabh
> >
> >
> >
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>
>
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