Prakash: not unless your default pull is* galaxy-central* repository.

M.


On Fri, Jan 3, 2014 at 11:49 AM, Velayutham, Prakash (Prakash) <
prakash.velayut...@cchmc.org> wrote:

>  Hi Nate,
>
>  If I do a "hg clone" of my default pull, this should already be there?
>
>  Thanks,
> Prakash
>
>  On Jan 3, 2014, at 11:45 AM, Nate Coraor <n...@bx.psu.edu>
>  wrote:
>
>  Hi Prakash,
>
>  This was not previously possible, but I have added a config option for
> it:
>
>
> https://bitbucket.org/galaxy/galaxy-central/commits/e92e13e9c103cc1f36dff65e1523479bf5cb17ed
>
>  If you're running the stable branch, you can apply the changes from this
> commit manually.
>
>  --nate
>
>
> On Thu, Jan 2, 2014 at 11:09 AM, Jennifer Jackson <j...@bx.psu.edu> wrote:
>
>> Hello Prakash,
>> I am going to move this over to the galaxy-...@bx.psu.edu mailing list
>> where it will have greater visibility within our development community.
>> Best,
>> Jen
>> Galaxy team
>> https://wiki.galaxyproject.org/MailingLists#The_lists
>>
>>
>> On 1/2/14 7:27 AM, Velayutham, Prakash (Prakash) wrote:
>>
>>  Hi,
>>
>>  We have a SSO environment provided by Oracle Fusion products and for
>> some reason, they don't like to send over HTTP_REMOTE_USER as a header
>> variable to downstream servers. I have seen it before with other web sites
>> I have integrated with Oracle Access Manager. Is there a way Galaxy can
>> accept another HEADER variable than REMOTE_USER for its external
>> authentication?
>>
>>  As an extension:
>>
>>
>>    - With just enabling HTTP_REMOTE_USER as a header variable from an
>>    external authenticator, Galaxy works without any issues. I tried this with
>>    a default Apache/mod_ldap/mod_authnz_ldap setup.
>>    - However, when I mix the Oracle gateways into the mix, things break
>>    down.
>>       - I made OAM send HTTP_AUTH_USER over to Galaxy.
>>       - I changed all instances of REMOTE_USER to AUTH_USER in the
>>       installed location of Galaxy in my server.
>>       - Authentication works fine, but I get issues with HISTORY part of
>>       Galaxy (below), when I access a workflow or basically any part of 
>> Galaxy
>>       that depends on HISTORY
>>
>>
>>   Error Traceback:
>> View as:   
>> Interactive<https://galaxy.research.cchmc.org/dataset/list?sort=-update_time&f-name=All&f-tags=All&f-deleted=False#>
>>   |  
>> Text<https://galaxy.research.cchmc.org/dataset/list?sort=-update_time&f-name=All&f-tags=All&f-deleted=False#>
>>   |  
>> XML<https://galaxy.research.cchmc.org/dataset/list?sort=-update_time&f-name=All&f-tags=All&f-deleted=False#>
>>  
>> (full)<https://galaxy.research.cchmc.org/dataset/list?sort=-update_time&f-name=All&f-tags=All&f-deleted=False#>
>>  ⇝ AttributeError: 'NoneType' object has no attribute 'user'
>>  URL:
>> http://xxx.xxx.xxx/dataset/list?sort=-update_time&f-name=All&f-tags=All&f-deleted=False
>>  Module weberror.evalexception.middleware:*364* in respond     <Mail
>> Attachment.jpeg>    
>> <https://galaxy.research.cchmc.org/dataset/list?sort=-update_time&f-name=All&f-tags=All&f-deleted=False#>
>>  
>> view<https://galaxy.research.cchmc.org/dataset/list?sort=-update_time&f-name=All&f-tags=All&f-deleted=False#>
>> >>  
>> >> <https://galaxy.research.cchmc.org/dataset/list?sort=-update_time&f-name=All&f-tags=All&f-deleted=False#>
>> app_iter *=* self*.*application*(*environ*,* detect_start_response*)*
>>  Module paste.recursive:*84* in __call__     <Mail Attachment.jpeg>    
>> <https://galaxy.research.cchmc.org/dataset/list?sort=-update_time&f-name=All&f-tags=All&f-deleted=False#>
>>  
>> view<https://galaxy.research.cchmc.org/dataset/list?sort=-update_time&f-name=All&f-tags=All&f-deleted=False#>
>> >>  
>> >> <https://galaxy.research.cchmc.org/dataset/list?sort=-update_time&f-name=All&f-tags=All&f-deleted=False#>
>> *return* self*.*application*(*environ*,* start_response*)*
>>  Module galaxy.web.framework.middleware.remoteuser:*91* in __call__     <Mail
>> Attachment.jpeg>    
>> <https://galaxy.research.cchmc.org/dataset/list?sort=-update_time&f-name=All&f-tags=All&f-deleted=False#>
>>  
>> view<https://galaxy.research.cchmc.org/dataset/list?sort=-update_time&f-name=All&f-tags=All&f-deleted=False#>
>>
>> >>  
>> >> <https://galaxy.research.cchmc.org/dataset/list?sort=-update_time&f-name=All&f-tags=All&f-deleted=False#>
>> *return* self*.*app*(* environ*,* start_response *)*
>>  Module paste.httpexceptions:*633* in __call__     <Mail Attachment.jpeg>
>>  
>> <https://galaxy.research.cchmc.org/dataset/list?sort=-update_time&f-name=All&f-tags=All&f-deleted=False#>
>>  
>> view<https://galaxy.research.cchmc.org/dataset/list?sort=-update_time&f-name=All&f-tags=All&f-deleted=False#>
>> >>  
>> >> <https://galaxy.research.cchmc.org/dataset/list?sort=-update_time&f-name=All&f-tags=All&f-deleted=False#>
>> *return* self*.*application*(*environ*,* start_response*)*
>>  Module galaxy.web.framework.base:*132* in __call__     <Mail
>> Attachment.jpeg>    
>> <https://galaxy.research.cchmc.org/dataset/list?sort=-update_time&f-name=All&f-tags=All&f-deleted=False#>
>>  
>> view<https://galaxy.research.cchmc.org/dataset/list?sort=-update_time&f-name=All&f-tags=All&f-deleted=False#>
>>
>> >>  
>> >> <https://galaxy.research.cchmc.org/dataset/list?sort=-update_time&f-name=All&f-tags=All&f-deleted=False#>
>> *return* self*.*handle_request*(* environ*,* start_response *)*
>>  Module galaxy.web.framework.base:*190* in handle_request     <Mail
>> Attachment.jpeg>    
>> <https://galaxy.research.cchmc.org/dataset/list?sort=-update_time&f-name=All&f-tags=All&f-deleted=False#>
>>  
>> view<https://galaxy.research.cchmc.org/dataset/list?sort=-update_time&f-name=All&f-tags=All&f-deleted=False#>
>>
>> >>  
>> >> <https://galaxy.research.cchmc.org/dataset/list?sort=-update_time&f-name=All&f-tags=All&f-deleted=False#>
>> body *=* method*(* trans*,* ****kwargs *)*
>>  Module galaxy.web.framework:*98* in decorator     <Mail Attachment.jpeg>
>>  
>> <https://galaxy.research.cchmc.org/dataset/list?sort=-update_time&f-name=All&f-tags=All&f-deleted=False#>
>>  
>> view<https://galaxy.research.cchmc.org/dataset/list?sort=-update_time&f-name=All&f-tags=All&f-deleted=False#>
>>
>> >>  
>> >> <https://galaxy.research.cchmc.org/dataset/list?sort=-update_time&f-name=All&f-tags=All&f-deleted=False#>
>> *return* func*(* self*,* trans*,* ***args*,* ****kwargs *)*
>>  Module galaxy.webapps.galaxy.controllers.dataset:*555* in list     <Mail
>> Attachment.jpeg>    
>> <https://galaxy.research.cchmc.org/dataset/list?sort=-update_time&f-name=All&f-tags=All&f-deleted=False#>
>>  
>> view<https://galaxy.research.cchmc.org/dataset/list?sort=-update_time&f-name=All&f-tags=All&f-deleted=False#>
>>
>> >>  
>> >> <https://galaxy.research.cchmc.org/dataset/list?sort=-update_time&f-name=All&f-tags=All&f-deleted=False#>
>> status*,* message *=* self*.*_copy_datasets*(* trans*,* hda_ids*,*
>> target_histories *)*
>>  Module galaxy.webapps.galaxy.controllers.dataset:*1127* in
>> _copy_datasets     <Mail Attachment.jpeg>    
>> <https://galaxy.research.cchmc.org/dataset/list?sort=-update_time&f-name=All&f-tags=All&f-deleted=False#>
>>  
>> view<https://galaxy.research.cchmc.org/dataset/list?sort=-update_time&f-name=All&f-tags=All&f-deleted=False#>
>> >>  
>> >> <https://galaxy.research.cchmc.org/dataset/list?sort=-update_time&f-name=All&f-tags=All&f-deleted=False#>
>> *if* user *!=* history*.*user*:*
>>  *AttributeError: 'NoneType' object has no attribute 'user'*
>>
>>  Thanks,
>> Prakash
>>
>>
>>  ___________________________________________________________
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>>
>> --
>> Jennifer Hillman-Jacksonhttp://galaxyproject.org
>>
>>
>> ___________________________________________________________
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>
>
>
> ___________________________________________________________
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