Nate Coraor wrote:
> On Mar 13, 2012, at 10:36 AM, Alban Lermine wrote:
>
>   
>> Hi,
>>
>> I run upgrade: hg pull -u -r 40f1816d6857 on our local instance, and I'm
>> now unable to start Galaxy..
>>
>> Here is the content of Galaxy_log:
>>
>> Traceback (most recent call last):
>>  File "<galaxy_dir>/galaxy-dist/lib/galaxy/web/buildapp.py", line 81,
>> in app_factory
>>    from galaxy.app import UniverseApplication
>>  File "<galaxy_dir>/galaxy-dist/lib/galaxy/app.py", line 11, in <module>
>>    from galaxy.objectstore import build_object_store_from_config
>>  File "<galaxy_dir>/galaxy-dist/lib/galaxy/objectstore/__init__.py",
>> line 27, in <module>
>>    from galaxy.objectstore.s3_multipart_upload import multipart_upload
>>  File
>> "<galaxy_dir>/galaxy-dist/lib/galaxy/objectstore/s3_multipart_upload.py",
>> line 22, in <module>
>>    eggs.require('boto')
>>  File "<galaxy_dir>/galaxy-dist/lib/galaxy/eggs/__init__.py", line 415,
>> in require
>>    raise EggNotFetchable( str( [ egg.name for egg in e.eggs ] ) )
>> EggNotFetchable: ['boto']
>> Removing PID file <galaxy_dir>/galaxy-dist/galaxy.pid
>>
>> Is that an error specific to our instance?
>>     
>
> 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
>>
>> ___________________________________________________________
>> Please keep all replies on the list by using "reply all"
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>>
>>  http://lists.bx.psu.edu/
>>
>>     
>
>   
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..

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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