Question: Integrating Genomeview As Display Application
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Marijn Vandevoorde • 10 wrote:
Hi all,
I'm trying to integrate genomeview as a display application. The
configuration of the display applications seems to be pretty
straightforward, but genomeview needs multiple input files.
I can of course write a cgi file that will take a bunch of get
parameters and use these as input files for the java applet. so on the
side of genomeview, there's not really a big problem.
however, to integrate it with galaxy, i don't see how to send multiple
datasets to genomeview. you can only add the "view with genomeview"
link
to one dataset (or to all, but all will be viewed seperately).
so i came up with the idea of a new datatype, .gvl, the genomeview
list.
in it, basically, a list of links to the datasets, so galaxy can work
with them. i could make a tool, gvl creator, to take several datasets
as
input and then create a really simple textfile containing one url per
line, for each dataset.
i think this is the way to go (if anyone has better suggestions,
please
tell!) but now come the real questions:
most important:
how do i get the public url of my datasets? all other tools use the
filesystem path, can't really find an example.
and secondly:
any idea how i could maybe take a dynamic number of inputs? i suppose
that's not possible. this is not that big a problem. i could combine
multiple gvl creators and then a gvl merger or something, no biggie!
all help really appreciated. and of course i'll be happy to share
everything with whoever is interested afterwards :-)
with kind regards,
marijn