On Mar 13, 2012, at 11:08 AM, Alban Lermine wrote:

>> Hi Alban,
>> 
>> Is your Galaxy server behind a firewall or without network access such that 
>> it cannot access http://eggs.g2.bx.psu.edu/ ?
>> 
>> What happens if you run `python scripts/fetch_eggs.py` by hand?
>> 
>> 
>>> Is there a way to downgrade Galaxy?
>>> 
>> 
>> Yes, in most cases you can downgrade with `hg update -r <old changeset id>`.
>> 
>> --nate
>> 
>> 
>> 
>> 
>>> Thanks by advance for your answer..
>>> 
>>> Alban
>>> 
>>> 
>>> -- 
>>> Alban Lermine 
>>> Unité 900 : Inserm - Mines ParisTech - Institut Curie
>>> « Bioinformatics and Computational Systems Biology of Cancer »
>>> 11-13 rue Pierre et Marie Curie (1er étage) - 75005 Paris - France
>>> Tel : +33 (0) 1 56 24 69 84
>>> 
>>> ___________________________________________________________
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>>> 
>> 
>> 
> Re,
> 
> Thanks for your fast answer..
> 
> I run fetch_eggs.py by hand, here is the return:
> 
> Fetched http://eggs.g2.bx.psu.edu/boto/boto-2.2.2-py2.6.egg
> Removed conflicting egg: <galaxy_dir>/galaxy-dist/eggs/boto-1.8d-py2.6.egg
> 
> I tried then to start Galaxy, and I also have a new error message:
> 
> Traceback (most recent call last):
>  File
> "/bioinfo/http/prod/hosted/galaxy.curie.fr/galaxy-dist/lib/galaxy/web/buildapp.py",
> line 82, in app_factory
>    app = UniverseApplication( global_conf = global_conf, **kwargs )
>  File
> "/bioinfo/http/prod/hosted/galaxy.curie.fr/galaxy-dist/lib/galaxy/app.py",
> line 24, in __init__
>    self.config.check()
>  File
> "/bioinfo/http/prod/hosted/galaxy.curie.fr/galaxy-dist/lib/galaxy/config.py",
> line 254, in check
>    raise ConfigurationError( "Unable to create missing directory:
> %s\n%s" % ( path, e ) )
> ConfigurationError: Unable to create missing directory: ./../shed_tools
> [Errno 13] Permission denied: './../shed_tools'
> 
> It seems it's now only a permission problem.. (I only have rights on
> galaxy-dist directory), I will ask our system engineer to rerun update..

Hi Alban,

You can fix this one by changing the path to the shed_tools directory in 
shed_tool_conf.xml.  It can be any directory you can write to, but should not 
be underneath the galaxy-dist directory.

--nate

> 
> Alban
> 
> -- 
> Alban Lermine 
> Unité 900 : Inserm - Mines ParisTech - Institut Curie
> « Bioinformatics and Computational Systems Biology of Cancer »
> 11-13 rue Pierre et Marie Curie (1er étage) - 75005 Paris - France
> Tel : +33 (0) 1 56 24 69 84
> 


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