Although still under initial development, you may want to look into the
visualization registry for the infrastructure to render the region and
allow the user to interact with it:
In a nutshell, it allows you to configure and include a link from the
history panel to a custom page that you create with the mako templating
resources (like your initial dataset) are parsed for you and available in
For the other half of the problem: creating new data from the interaction
of the user, you'll want to look into the tools API (which is what
Trackster uses). Still somewhat rough, there have been improvements to it
lately that should allow you to run a tool based on user input and keep the
chain of reproducibility.
Two things to note:
1. I'd recommend not using the upload tool via the API: not because it
doesn't work but because adding arbitrary data this way won't be
2. Both the visualizations registry and the tools API are still under
development. Feel free to contact me on IRC, email, or the mailing lists if
you have any trouble though.
I hope that helps and let me know if I can provide any more information,
On Fri, Nov 29, 2013 at 7:11 AM, Stephen Taylor <stephen.tay...@imm.ox.ac.uk
> I was wondering, if anyone could point me to any resources and that allow
> the user to interact with the view of the output of a tool in Galaxy. So
> for example, I would like to load an image, draw a region of interest (ROI)
> (probably via some js routine) and then store that information in a file,
> generating an input in the History view. This input could then be used for
> further analysis.
> I guess Trackster does something like this, but I don't know if its
> routines are generic enough to handle this type of interaction.
> Thanks for any info!
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