Hi Peter, 

The problem is that I have multiple repositories in my repository_dependency 
file ... but they need to be installed in a specific order.  I can't seem to 
get galaxy to install them in the correct order.


PS: Sorry about the totally irrelevant subject line ... I've changed it.

On 05/03/2013, at 9:01 PM, Peter Cock <p.j.a.c...@googlemail.com> wrote:

> On Tue, Mar 5, 2013 at 6:49 AM, Ira Cooke <iraco...@gmail.com> wrote:
>> Hi,
>> I've just uploaded a set of updates to my proteomics tools on the toolshed.
>> These contain my best attempt to implement automatic dependency installation
>> ... and for the most part it seems to work.
>> I have encountered the following issues though
>> (1) I don't see any way to ensure that one repository_dependency is
>> installed before all others.  In my case this is important because I have an
>> installer package (galaxy_protk) which needs to be installed before other
>> package installs will work.
>> For example .. try installing
>> http://toolshed.g2.bx.psu.edu/view/iracooke/omssa
> I think in this case you just need to use a repository_dependencies.xml
> file (but note currently this only lets you point at other repositories in
> the same Tool Shed instance, i.e. http://toolshed.g2.bx.psu.edu/ here):
> http://wiki.galaxyproject.org/DefiningRepositoryDependencies
> Peter

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