[DAS] Stylesheets and contigview

[Tony Cox]

Hi Simon,

Ewan is right, Ensembl does not currently use (or even request) a stylesheet
from a remote DAS server. The resons are twofold. first it saves a bit of
time (although it would not be hard to cache it) and second it gives a
little more control over the consistency of the contigview tracks. If there
were enough shouts for stylesheet support we could bump it up the list
though.

regards

Tony

> On Fri, 27 Dec 2002, Simon Twigger wrote:
>
> > Hi there,
> >
> > Taking my first personal foray into DAS, have the LDAS server working
> > very nicely (Mac OS X 10.2) and I've been playing around with some rat
> > annotations viewed on the Ensembl contigview. I tried setting a style
> > sheet as described in the LDAS installation manual (which was great,
> > very easy to follow) and it doesnt seem to be having any effect on how
> > things appear on the contigview display.
>
> Simon - Great that you have got this working. This is wonderful news. I
> suspect that Ensembl does not honour all the stylesheet hints (I think DAS
> clients are allowed to do this). Tony Cox (cc'd in here) is the person who
> really knows what is happening.
>
>
> >
> > Sample .das annotations:
> >
> > [annotations]
> > SSLP D2Rat239 microsatellite epcr 1 16662 16847 . . .
> > SSLP D2Rat381 microsatellite epcr 1 72253 72498 . . .
> > SSLP D1Rat245 microsatellite epcr 1 1571523 1571694 . . .
> >
> > Style sheet:
> >
> > [microsatellite]
> > glyph = primers
> > bgcolor = black
> > fgcolor = red
> > height = 6
> > bump = 1
> >
> > Ignoring the fact that microsatellites thought to be on Chr2 are
> > appearing on chromosome 1 when we run ePCR, will this combination of
> > annotation and style sheet work to give me the primer glyph on
> > contigview? Everything displays as a box glyph (I presume this is the
> > default) and the color seems to be whatever I set in the 'Manage
> > Sources' options on the contigview.
> >
> > I noticed that the description of style sheets in the LDAS page is very
> > GBrowse-like whereas the official stylesheet documentation
> > (http://www.biodas.org/documents/spec.html) referred to on the LDAS
> > page is full blown XML - do both of these work, should I use one rather
> > than the other?
> >
> > Any advice would be most appreciated.
> >
> > Cheers,
> >
> > Simon.
> >
> >
> > ------------------------------------------------------------------------
> > --------------------------
> > Simon Twigger, Ph.D.
> > Assistant Professor, Bioinformatics Research Center
> >
> > Medical College of Wisconsin
> > 8701 Watertown Plank Road,
> > Milwaukee, WI, 53226
> > tel. 414-456-8802, fax 414-456-6595
> >
> > _______________________________________________
> > DAS mailing list
> > DAS@biodas.org
> > http://biodas.org/mailman/listinfo/das
> >
>
> -----------------------------------------------------------------
> Ewan Birney. Mobile: +44 (0)7970 151230, Work: +44 1223 494420
> <birney@ebi.ac.uk>.
> -----------------------------------------------------------------
>
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