Help Please,
So I am feeling a bit dumb right now. I have set-up another local Galaxy test server and have enabled all of the user authentication stuff in the galaxy.ini. I am using nginx for proxy however am not using the external authentication or remote. Every time a user clicks on the User->Register - there is the following error:
Internal Server Error Galaxy was unable to successfully complete your request
URL: http://10.115.0.65:8080/user/create Module galaxy.web.framework.middleware.error:149 in __call__
http://10.115.0.65:8080/user/create app_iter = self.application(environ, sr_checker)
Module paste.recursive:84 in __call__
http://10.115.0.65:8080/user/create return self.application(environ, start_response)
Module paste.httpexceptions:633 in __call__
http://10.115.0.65:8080/user/create return self.application(environ, start_response)
Module galaxy.web.framework.base:133 in __call__
http://10.115.0.65:8080/user/create return self.handle_request( environ, start_response )
Module galaxy.web.framework.base:191 in handle_request
http://10.115.0.65:8080/user/create body = method( trans, **kwargs )
Module galaxy.webapps.galaxy.controllers.user:746 in create
http://10.115.0.65:8080/user/create status=status )
Module galaxy.web.framework.webapp:810 in fill_template
http://10.115.0.65:8080/user/create return self.fill_template_mako( filename, **kwargs )
Module galaxy.web.framework.webapp:818 in fill_template_mako
http://10.115.0.65:8080/user/create template = template_lookup.get_template( filename )
Module mako.lookup:218 in get_template
http://10.115.0.65:8080/user/create return self._load(srcfile, uri)
Module mako.lookup:283 in _load
http://10.115.0.65:8080/user/create **self.template_args)
Module mako.template:218 in __init__
http://10.115.0.65:8080/user/create module = self._compile_from_file(path, filename)
Module mako.template:245 in _compile_from_file
http://10.115.0.65:8080/user/create module = imp.load_source(self.module_id, path, open(path, 'rb'))
IOError: [Errno 13] Permission denied: '/home/galaxy/galaxy_dist/database/compiled_templates/user/register.mako.py' extra datahttp://10.115.0.65:8080/user/create#extra_data
full tracebackhttp://10.115.0.65:8080/user/create#full_traceback
text versionhttp://10.115.0.65:8080/user/create#text_version This may be an intermittent problem due to load or other unpredictable factors, reloading the page may address the problem.
Any help would be very much appreciated.
Sincerely Dallas Thomas
Do you think you may have run Galaxy previously as root (using sudo?). This could potentially create these compiled template files under a different user, preventing a non-root user from overwriting them.
In any event, it's safe to `rm -r database/compiled_templates`, and allow them to be regenerated.
On Tue, Jan 16, 2018 at 4:00 PM, Thomas, Dallas Dallas.Thomas@agr.gc.ca wrote:
Help Please,
So I am feeling a bit dumb right now. I have set-up another local Galaxy test server and have enabled all of the user authentication stuff in the galaxy.ini. I am using nginx for proxy however am not using the external authentication or remote. Every time a user clicks on the User->Register – there is the following error:
Internal Server Error Galaxy was unable to successfully complete your request
URL: http://10.115.0.65:8080/user/create Module galaxy.web.framework.middleware.error:*149* in __call__
http://10.115.0.65:8080/user/createapp_iter *=* self*.*application
*(*environ*,* sr_checker*)* Module paste.recursive:*84* in __call__
http://10.115.0.65:8080/user/create*return* self*.*application*(*
environ*,* start_response*)* Module paste.httpexceptions:*633* in __call__
http://10.115.0.65:8080/user/create*return* self*.*application*(*
environ*,* start_response*)* Module galaxy.web.framework.base:*133* in __call__
http://10.115.0.65:8080/user/create*return* self*.*handle_request*(*
environ*,* start_response *)* Module galaxy.web.framework.base:*191* in handle_request
http://10.115.0.65:8080/user/createbody *=* method*(* trans*,* ****
kwargs *)* Module galaxy.webapps.galaxy.controllers.user:*746* in create
http://10.115.0.65:8080/user/createstatus*=*status *)*
Module galaxy.web.framework.webapp:*810* in fill_template
http://10.115.0.65:8080/user/create*return* self*.*
fill_template_mako*(* filename*,* ****kwargs *)* Module galaxy.web.framework.webapp:*818* in fill_template_mako
http://10.115.0.65:8080/user/createtemplate *=* template_lookup*.*
get_template*(* filename *)* Module mako.lookup:*218* in get_template
http://10.115.0.65:8080/user/create*return* self*.*_load*(*srcfile
*,* uri*)* Module mako.lookup:*283* in _load
http://10.115.0.65:8080/user/create****self*.*template_args*)*
Module mako.template:*218* in __init__
http://10.115.0.65:8080/user/createmodule *=* self*.*
_compile_from_file*(*path*,* filename*)* Module mako.template:*245* in _compile_from_file
http://10.115.0.65:8080/user/createmodule *=* imp*.*load_source*(*
self*.*module_id*,* path*,* open*(*path*,* 'rb'*))* *IOError: [Errno 13] Permission denied: '/home/galaxy/galaxy_dist/database/compiled_templates/user/register.mako.py http://register.mako.py'* extra data http://10.115.0.65:8080/user/create#extra_data
full traceback http://10.115.0.65:8080/user/create#full_traceback
text version http://10.115.0.65:8080/user/create#text_version
This may be an intermittent problem due to load or other unpredictable factors, reloading the page may address the problem.
Any help would be very much appreciated.
Sincerely
Dallas Thomas
Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: https://lists.galaxyproject.org/
To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/
Hi Dallas,
this really does look like a permissions issue, could you please double check who owns that file? Alternatively you can just remove all the *.pyc in Galaxy's folders, it will be recreated with proper permissions during the first run.
Thanks for using Galaxy,
M.
On Tue, Jan 16, 2018 at 4:00 PM Thomas, Dallas Dallas.Thomas@agr.gc.ca wrote:
Help Please,
So I am feeling a bit dumb right now. I have set-up another local Galaxy test server and have enabled all of the user authentication stuff in the galaxy.ini. I am using nginx for proxy however am not using the external authentication or remote. Every time a user clicks on the User->Register – there is the following error:
Internal Server Error Galaxy was unable to successfully complete your request
URL: http://10.115.0.65:8080/user/create Module galaxy.web.framework.middleware.error:*149* in __call__
http://10.115.0.65:8080/user/createapp_iter *=* self*.*application
*(*environ*,* sr_checker*)* Module paste.recursive:*84* in __call__
http://10.115.0.65:8080/user/create*return* self*.*application*(*
environ*,* start_response*)* Module paste.httpexceptions:*633* in __call__
http://10.115.0.65:8080/user/create*return* self*.*application*(*
environ*,* start_response*)* Module galaxy.web.framework.base:*133* in __call__
http://10.115.0.65:8080/user/create*return* self*.*handle_request*(*
environ*,* start_response *)* Module galaxy.web.framework.base:*191* in handle_request
http://10.115.0.65:8080/user/createbody *=* method*(* trans*,* ****
kwargs *)* Module galaxy.webapps.galaxy.controllers.user:*746* in create
http://10.115.0.65:8080/user/createstatus*=*status *)*
Module galaxy.web.framework.webapp:*810* in fill_template
http://10.115.0.65:8080/user/create*return* self*.*
fill_template_mako*(* filename*,* ****kwargs *)* Module galaxy.web.framework.webapp:*818* in fill_template_mako
http://10.115.0.65:8080/user/createtemplate *=* template_lookup*.*
get_template*(* filename *)* Module mako.lookup:*218* in get_template
http://10.115.0.65:8080/user/create*return* self*.*_load*(*srcfile
*,* uri*)* Module mako.lookup:*283* in _load
http://10.115.0.65:8080/user/create****self*.*template_args*)*
Module mako.template:*218* in __init__
http://10.115.0.65:8080/user/createmodule *=* self*.*
_compile_from_file*(*path*,* filename*)* Module mako.template:*245* in _compile_from_file
http://10.115.0.65:8080/user/createmodule *=* imp*.*load_source*(*
self*.*module_id*,* path*,* open*(*path*,* 'rb'*))* *IOError: [Errno 13] Permission denied: '/home/galaxy/galaxy_dist/database/compiled_templates/user/register.mako.py http://register.mako.py'* extra data http://10.115.0.65:8080/user/create#extra_data
full traceback http://10.115.0.65:8080/user/create#full_traceback
text version http://10.115.0.65:8080/user/create#text_version
This may be an intermittent problem due to load or other unpredictable factors, reloading the page may address the problem.
Any help would be very much appreciated.
Sincerely
Dallas Thomas ___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: https://lists.galaxyproject.org/
To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/
galaxy-dev@lists.galaxyproject.org
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Dannon Baker -
Martin Čech -
Thomas, Dallas