I will admit I don't understand how the mapper problem is related or
why it would occur in monitor_step or custom builds, but I do know
there is an important bug fix in release 15.05 from Dannon
(https://github.com/galaxyproject/galaxy/pull/198) that multiple
people have reported fixing the problem with mapper initialization. It
might be worth upgrading or applying the diffs manually to your
instance.

-John

On Wed, May 13, 2015 at 1:48 PM, Shrum, Donald C <dcsh...@admin.fsu.edu> wrote:
> Hi all,
>
>
>
> I have a public galaxy server here at FSU that is running behind an apache
> proxy and on our cluster file system so that jobs can be submitted to our
> hpc cluster.
>
>
>
> I have a user that receives an ‘Internal Server Error’ when going to ‘Custom
> Builds’  This error seems to only occur for the one user and from what I can
> see it may be the case that there is a single mapper is causing the problem.
> (Sys-admin here, not a bioinformatics person :)
>
>
>
> The errors I pulled from the logs are below.  Is it possible there is some
> mapper causing the problem?  If so is there a way I can remove it?
>
>
>
> Any help would be appreciated and thanks,
>
> Don Shrum
>
> FSU Research Computing Center
>
>
>
> InvalidRequestError: One or more mappers failed to initialize - can't
> proceed with initialization of other mappers.  Original exception was: Class
> 'kombu.transport.sqlalchemy.Message' is not mapped
>
> galaxy.jobs.handler ERROR 2015-05-13 13:44:25,150 Exception in monitor_step
>
>
>
>
>
> WSGI Variables
>
> --------------
>
>   application: <paste.recursive.RecursiveMiddleware object at 0x8691650>
>
>   is_api_request: False
>
>   original_wsgi.url_scheme: 'http'
>
>   paste.cookies: (<SimpleCookie:
> __utma='51326654.2116930099.1431360039.1431360039.1431360039.1'
> __utmz='51326654.1431360039.1.1.utmcsr=directory.fsu.edu|utmccn=(referral)|utmcmd=referral|utmcct=/'
> _ga='GA1.2.2116930099.1431360039'
> galaxysession='c6ca0ddb55be603abe1a0bf853fb54302d17fe1509e1ff998221f8b85399eb4a8bcf9d852c6fb740'>,
> '__utma=51326654.2116930099.1431360039.1431360039.1431360039.1;
> __utmz=51326654.1431360039.1.1.utmcsr=directory.fsu.edu|utmccn=(referral)|utmcmd=referral|utmcct=/;
> _ga=GA1.2.2116930099.1431360039;
> galaxysession=c6ca0ddb55be603abe1a0bf853fb54302d17fe1509e1ff998221f8b85399eb4a8bcf9d852c6fb740')
>
>   paste.expected_exceptions: [<class 'paste.httpexceptions.HTTPException'>]
>
>   paste.httpexceptions: <paste.httpexceptions.HTTPExceptionHandler object at
> 0x867ff10>
>
>   paste.httpserver.thread_pool: <paste.httpserver.ThreadPool object at
> 0x8a21f50>
>
>   paste.recursive.forward: <paste.recursive.Forwarder from />
>
>   paste.recursive.include: <paste.recursive.Includer from />
>
>   paste.recursive.include_app_iter: <paste.recursive.IncluderAppIter from />
>
>   paste.recursive.script_name: ''
>
>   paste.throw_errors: True
>
>   request_id: '57170782f99611e4af7a00219ba29ca2'
>
>   webob._parsed_query_vars: (MultiDict([]), '')
>
>   wsgi process: 'Multithreaded'
>
>
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