Thanks.

I'm trying to follow the instructions here to update the code:
http://wiki.galaxyproject.org/Admin/Get%20Galaxy#Keep_your_code_up_to_date

But I'm getting this error:

>hg incoming
Not trusting file /misc/local/galaxy/galaxy-dist/.hg/hgrc from
untrusted user galaxy, group scicomp
Not trusting file /misc/local/galaxy/galaxy-dist/.hg/hgrc from
untrusted user galaxy, group scicomp
abort: repository default not found!

-Greg

On Fri, Feb 15, 2013 at 9:45 AM, Greg Von Kuster <g...@bx.psu.edu> wrote:
> Hello Greg,
>
> What version of Galaxy are you running - it is likely older than the December 
> 20, 2012 Galaxy release.  You'll have to upgrade to at least that release to 
> use the main Galaxy tool shed.
>
> Greg Von Kuster
>
> On Feb 15, 2013, at 9:43 AM, greg wrote:
>
>> Hi guys,
>>
>> I'm getting an error when trying to install this from the toolshed?
>> Let me know what I should do?
>>
>> Thanks,
>>
>> Greg
>>
>> Error - <type 'exceptions.ValueError'>: too many values to unpack
>> URL: 
>> http://galaxy/admin_toolshed/prepare_for_install?tool_shed_url=http://toolshed.g2.bx.psu.edu/&repository_ids=67abe7fe2882a54c&changeset_revisions=cdd9791c0afa
>> File 
>> '/misc/local/galaxy/galaxy-dist/eggs/Paste-1.6-py2.7.egg/paste/exceptions/errormiddleware.py',
>> line 143 in __call__
>>  app_iter = self.application(environ, start_response)
>> File 
>> '/misc/local/galaxy/galaxy-dist/eggs/Paste-1.6-py2.7.egg/paste/recursive.py',
>> line 80 in __call__
>>  return self.application(environ, start_response)
>> File 
>> '/misc/local/galaxy/galaxy-dist/lib/galaxy/web/framework/middleware/remoteuser.py',
>> line 91 in __call__
>>  return self.app( environ, start_response )
>> File 
>> '/misc/local/galaxy/galaxy-dist/eggs/Paste-1.6-py2.7.egg/paste/httpexceptions.py',
>> line 632 in __call__
>>  return self.application(environ, start_response)
>> File '/misc/local/galaxy/galaxy-dist/lib/galaxy/web/framework/base.py',
>> line 160 in __call__
>>  body = method( trans, **kwargs )
>> File '/misc/local/galaxy/galaxy-dist/lib/galaxy/web/framework/__init__.py',
>> line 206 in decorator
>>  return func( self, trans, *args, **kwargs )
>> File 
>> '/misc/local/galaxy/galaxy-dist/lib/galaxy/webapps/galaxy/controllers/admin_toolshed.py',
>> line 1201 in prepare_for_install
>>  description, repository_clone_url, changeset_revision, ctx_rev,
>> repository_owner, tool_dependencies = repo_info_tuple
>> ValueError: too many values to unpack
>>
>>
>>
>> On Fri, Feb 15, 2013 at 9:39 AM, James Taylor <ja...@jamestaylor.org> wrote:
>>> You likely want the newest version (3)
>>>
>>> On Feb 15, 2013 9:37 AM, "greg" <margeem...@gmail.com> wrote:
>>>>
>>>> Thanks!  So one question, when I go to install it from the toolshed I
>>>> see two choices for a revision to select:
>>>>
>>>> 3:cdd9791c0afa
>>>> 0:c1eeccec29d1
>>>>
>>>> Which would I choose and why?
>>>>
>>>> Thanks,
>>>>
>>>> Greg
>>>>
>>>> On Fri, Feb 15, 2013 at 9:30 AM, James Taylor <ja...@jamestaylor.org>
>>>> wrote:
>>>>> The wrapper you are using is for MACS 1.3, there is a wrapper that is
>>>>> compatible with 1.4 in the toolshed.
>>>>>
>>>>> --
>>>>> James Taylor, Assistant Professor, Biology/CS, Emory University
>>>>>
>>>>>
>>>>> On Fri, Feb 15, 2013 at 9:26 AM, greg <margeem...@gmail.com> wrote:
>>>>>> Hi guys,
>>>>>>
>>>>>> I'm trying to run MACS in my local galaxy install (see screenshot:
>>>>>> http://snag.gy/5QGUH.jpg)
>>>>>>
>>>>>> And I'm getting this error:
>>>>>>
>>>>>> Usage: macs <-t tfile> [-n name] [-g genomesize] [options]
>>>>>>
>>>>>> Example: macs -t ChIP.bam -c Control.bam -f BAM -g h -n test -w
>>>>>> --call-subpeaks
>>>>>>
>>>>>> macs: error: no such option: --lambdaset
>>>>>>
>>>>>> Thanks in advance for any help.
>>>>>>
>>>>>> -Greg
>>>>>>
>>>>>> Here's how I installed Macs (I guess it doesn't come built in?)
>>>>>>
>>>>>>> cd /usr/local/galaxy/downloads/
>>>>>>> wget https://github.com/downloads/taoliu/MACS/MACS-1.4.2-1.tar.gz
>>>>>>> tar -xzvf MACS-1.4.2-1.tar.gz
>>>>>>> cd MACS-1.4.2
>>>>>>> source /usr/local/galaxy/job_environment_setup_file
>>>>>>> python setup.py install
>>>>>>> deactivate
>>>>>>> cd /misc/local/galaxy/galaxy_python/bin
>>>>>>> ln -s macs14 macs
>>>>>>
>>>>>> (and made sure /misc/local/galaxy/galaxy_python/bin is on the galaxy
>>>>>> user's path)
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