[Gmod-help] Re: [Gmod-gbrowse] Hi-Res images of conservation tracks have the background turn blue.

[mark meyer]

Hi Angie,

Bill is out of the office today, but I can try to answer your questions.
Attached are the two screen shots, one is what the plugin looks like in the
gbrowse, just fine as it looks in UCSC.  The second is what happens when you
click on high-res image.

We are running gbrowse v1.69.  The plugin code was implemented and
downloaded about 1 month ago, just recently ran into this issue since we are
trying to make some publication figures from our Gbrowse data.

I can access conf files, etc. if you need to see them and try to do my best
to answer questions, but I may not be able to answer very detailed questions
in Bill's absence since he has been the one configuring this.

Thanks for checking into this for us,

Mark

On Thu, May 28, 2009 at 5:29 PM, Angie Hinrichs <angie at soe.ucsc.edu> wrote:

> Dave - yes, that sounds likely.
>
> Bill, what version of GBrowse are you running?  How recently did you
> grab the plugin code?  I didn't get the screenshot attachment so if
> you wouldn't mind sending that to me, that would be helpful.  If your
> GBrowse is on a public server, can you send the URL?
>
> Angie
>
> On Thu, 28 May 2009, Dave Clements, GMOD Help Desk wrote:
>
> > Hi Bill,
> >
> > I have no particular insight on why this is happening.  My guess is
> > that it is due some obscure interaction between the UCSC plugin and
> > core GBrowse, but I don't actually know.
> >
> > I've CC'd Angie at UCSC to see if she may have any insight.
> >
> > Dave C.
> >
> >
> >
> > On Tue, May 26, 2009 at 2:25 PM, Bill Pulec <wpulec at gmail.com> wrote:
> > > Hi All,
> > > I am attempting to view high-res images of conservation tracks but the
> > > background of these tracks in high-res is blue. This isn't the case
> when
> > > these tracks are displayed in gbrowse normally, it only happens when
> viewed
> > > as high-res. Also all the non-conservation tracks are fine in high res.
> Is
> > > there any reason why outputting these images in high-res would do this?
> Has
> > > anyone encountered other tracks doing this in high-res? Any insight
> would be
> > > appreciated. I have attached an example image of the track below.
> > >
> > > Thanks,
> > > Bill
> > >
> > >
> > >
> >
> > Was this helpful?  Let us know at
> http://gmod.org/wiki/Help_Desk_Feedback
> >
> > Learn more about GMOD at:
> >   SMBE:
> http://ccg.biology.uiowa.edu/smbe/symposia.php?action=view&sym_ID=27
> >   Arthropod Genomics: http://www.k-state.edu/agc/symp2009/seminar.html
> >   AGA Next Gen Seq in Non-Models:
> http://www.regonline.com/Nextgeneration
> >
>
>
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