Hi Peter,

Greg will probably reply, but I'll throw in my $0.02 as well.

Peter Cock wrote:
> Hi Greg et al,
> 
> I've just been looking over your slides from last week about the new
> 'Galaxy Tool Shed', which are posted online here:
> 
> http://wiki.g2.bx.psu.edu/GCC2011
> 
> http://wiki.g2.bx.psu.edu/GCC2011?action=AttachFile&do=get&target=GalaxyToolShed.pdf
> 
> They talk about how you will be tracking individual tools in hg repositories.
> 
> I can see two ways this might work:
> 
> (1) Each of these tool specific repositories (or branches if you just make one
> repository for each tool owner) would be a full fork of the Galaxy code base.
> This allows in principle tools to include changes to core functionality (but
> that seems dangerous due to potential merge clashes), and any existing
> tool contributor's pre-existing hg forks on bitbucket might be reused.

The tool shed isn't really intended for framework changes - I would
suggest keeping these as bitbucket forks, although it would certainly be
good if we had a way to locate the list of such forks centrally.

> (2) Each of these tool specific repositories would ONLY track the tool 
> specific
> files you'd add to Galaxy to install the tool. So, typically there would be an
> XML file, perhaps a wrapper script, maybe a sample loc file, and a plain
> text readme file.
> 
> I'm guessing you've gone for something along the lines of idea (2), but I

Yep.

> would love to hear more about how this will all work. e.g. Where would
> the tool shed repositories be hosted, and would tool authors use hg to
> work with them, or something like the current web based tool upload?

They're hosted here, and you can check them out and work with them
locally as you do the Galaxy source itself, or use the new web-based
upload to upload individual files or tarballs.

Have a look at the test instance of the next-gen toolshed here if you'd
like to see how it works:

  http://testtoolshed.g2.bx.psu.edu/

Please feel free to use this as a sandbox and report any issues you find.

--nate

> 
> Regards,
> 
> Peter
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