Peter,

Unless you've made modifications to Galaxy that depend on external
libraries, switching to a virtualenv for the server itself should be
pretty safe. Tools themselves can still run without using the/any
virtualenv, if desired.

--nate

On Tue, Nov 18, 2014 at 8:24 AM, Peter Cock <p.j.a.c...@googlemail.com> wrote:
> On Nov 18, 2014 7:26 AM, "John Chilton" <jmchil...@gmail.com> wrote:
>>
>> I will admit to not actually understanding Galaxy's dependency management
>> but I think virtualenv is exactly the advice people who do understand it
>> give
>> http://dev.list.galaxyproject.org/Local-installation-problem-td4662627.html.
>> It is a widely used tool precisely designed to solve such problems - I think
>> it is the best way to go. I don't know why it would not be appropriate for
>> existing installations - I think it is in fact somethimg of a "best
>> practice" for existing installations.
>
> Our existing installation is not using a virtual env, and I fear switching to
> that could be disruptive.
>
>> Certainly that error message should be more helpful but I am not sure we
>> should do anything to address this beyond that - do you have a particular
>> idea in mind?
>
> Not show the IndexError exception? :P
>
> Here the user should be told something about a conflict between
> MarkupSafe and paramiko (assuming this is the real problem).
>
> Peter
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