Re: [Gmod-ajax] Jbrowse track from external URL?

[Ian H. <ih...@be...>]

Mitch Skinner wrote:
> If you want something today, you could 
> just run your own JBrowse server and aggregate other people's data and 
> the standard annotation tracks yourself.  If you do that, you might also 
> be able to use Ian's TWiki plugin to allow other people to upload their 
> own data; I'm not sure if he considers it a proof-of-concept or 
> production-ready.

The TWiki plugin should work, but it requires some knowledge of how to
configure & administer a TWiki system, and also some (hopefully minimal)
education of users in how to operate a TWiki in general, and this plugin
in particular.

You should be aware that the user interface for the wiki plugin is less
intuitive than JBrowse (it looks like a genome browser embedded in a
wiki, so there is a bit of clutter)

Also, validation of user input is almost nonexistent (also true of the
command-line scripts, but more of a problem in a user-facing system)

In these ways it's a proof-of-concept system, but it should also work.

See the following ticket regarding input format validation:
http://jbrowse.lighthouseapp.com/projects/23792-jbrowse/tickets/28


As Mitch noted, the currently-supported interface to JBrowse is the
server scripts; we hope to document the JSON before too long, so that
people can extend JBrowse themselves, but we'd like to retain some
flexibility for now.