problem with local toolshed
Hello, I cannot use my toolshed anymore because of a bug. The service is running, but the web page display this error : Module galaxy.web.framework.middleware.error:151 in __call__
<http://galaxy.iarc.fr:9009/#> app_iter = self.application(environ, sr_checker) Module paste.recursive:85 in __call__ <http://galaxy.iarc.fr:9009/#> return self.application(environ, start_response) Module galaxy.webapps.tool_shed.framework.middleware.hg:218 in __call__ <http://galaxy.iarc.fr:9009/#> return self.app( environ, start_response ) Module paste.httpexceptions:640 in __call__ <http://galaxy.iarc.fr:9009/#> return self.application(environ, start_response) Module galaxy.web.framework.base:131 in __call__ <http://galaxy.iarc.fr:9009/#> return self.handle_request( environ, start_response ) Module galaxy.web.framework.base:190 in handle_request <http://galaxy.iarc.fr:9009/#> body = method( trans, **kwargs ) Module galaxy.webapps.tool_shed.controllers.repository:1963 in index <http://galaxy.iarc.fr:9009/#> status=status ) Module galaxy.web.framework.webapp:858 in fill_template <http://galaxy.iarc.fr:9009/#> return self.fill_template_mako( filename, **kwargs ) Module galaxy.web.framework.webapp:872 in fill_template_mako <http://galaxy.iarc.fr:9009/#> return template.render( **data ) Module mako.template:445 in render <http://galaxy.iarc.fr:9009/#> return runtime._render(self, self.callable_, args, data) Module mako.runtime:829 in _render <http://galaxy.iarc.fr:9009/#> **_kwargs_for_callable(callable_, data)) Module mako.runtime:864 in _render_context <http://galaxy.iarc.fr:9009/#> _exec_template(inherit, lclcontext, args=args, kwargs=kwargs) Module mako.runtime:890 in _exec_template <http://galaxy.iarc.fr:9009/#> callable_(context, *args, **kwargs) Module _base_base_panels_mako:123 in render_body <http://galaxy.iarc.fr:9009/#> __M_writer(unicode(self.left_panel())) Module _webapps_tool_shed_index_mako:166 in render_left_panel <http://galaxy.iarc.fr:9009/#> __M_writer(filters.html_escape(unicode(trans.app.shed_counter.generation_time ))) UnicodeDecodeError: 'ascii' codec can't decode byte 0xc3 in position 2: ordinal not in range(128)
Thanks, Vincent
Hello Vincent, This looks like an encoding problem we we can fix. Could you please try the following patch? https://gist.github.com/martenson/22f6efc7cd577ea6af85a11694091d5f Thanks, Martin On Wed, Aug 24, 2016 at 5:17 AM Vincent Cahais <CahaisV@iarc.fr> wrote:
Hello,
I cannot use my toolshed anymore because of a bug.
The service is running, but the web page display this error :
Module galaxy.web.framework.middleware.error:*151* in __call__
<http://galaxy.iarc.fr:9009/#>app_iter = self.application(environ, sr_checker) Module paste.recursive:*85* in __call__ <http://galaxy.iarc.fr:9009/#>return self.application(environ, start_response) Module galaxy.webapps.tool_shed.framework.middleware.hg:*218* in __call__ <http://galaxy.iarc.fr:9009/#>return self.app( environ, start_response ) Module paste.httpexceptions:*640* in __call__ <http://galaxy.iarc.fr:9009/#>return self.application(environ, start_response) Module galaxy.web.framework.base:*131* in __call__ <http://galaxy.iarc.fr:9009/#>return self.handle_request( environ, start_response ) Module galaxy.web.framework.base:*190* in handle_request <http://galaxy.iarc.fr:9009/#>body = method( trans, **kwargs ) Module galaxy.webapps.tool_shed.controllers.repository:*1963* in index <http://galaxy.iarc.fr:9009/#>status=status ) Module galaxy.web.framework.webapp:*858* in fill_template <http://galaxy.iarc.fr:9009/#>return self.fill_template_mako( filename, **kwargs ) Module galaxy.web.framework.webapp:*872* in fill_template_mako <http://galaxy.iarc.fr:9009/#>return template.render( **data ) Module mako.template:*445* in render <http://galaxy.iarc.fr:9009/#>return runtime._render(self, self.callable_, args, data) Module mako.runtime:*829* in _render <http://galaxy.iarc.fr:9009/#>**_kwargs_for_callable(callable_, data)) Module mako.runtime:*864* in _render_context <http://galaxy.iarc.fr:9009/#>_exec_template(inherit, lclcontext, args=args, kwargs=kwargs) Module mako.runtime:*890* in _exec_template <http://galaxy.iarc.fr:9009/#>callable_(context, *args, **kwargs) Module _base_base_panels_mako:*123* in render_body <http://galaxy.iarc.fr:9009/#>__M_writer(unicode(self.left_panel())) Module _webapps_tool_shed_index_mako:*166* in render_left_panel <http://galaxy.iarc.fr:9009/#>__M_writer(filters.html_escape(unicode(trans.app.shed_counter.generation_time ))) *UnicodeDecodeError: 'ascii' codec can't decode byte 0xc3 in position 2: ordinal not in range(128)*
Thanks,
Vincent ___________________________________________________________ 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/
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Hello Vincent, I faced similar issues of UnicodeDecodeError: 'ascii' codec can't decode byte… specially when creating the virtualenv. I switched from LANG=fr_FR.UTF-8 to LANG=en_US.UTF-8. And not only in .profile ou .bashrc but also for the whole system (/etc/sysconfig/i18n in my case) Maybe it helps. Fred De : galaxy-dev [mailto:galaxy-dev-bounces@lists.galaxyproject.org] De la part de Martin Cech Envoyé : mercredi 24 août 2016 17:24 À : Vincent Cahais <CahaisV@iarc.fr>; galaxy-dev@lists.galaxyproject.org Objet : Re: [galaxy-dev] problem with local toolshed Hello Vincent, This looks like an encoding problem we we can fix. Could you please try the following patch? https://gist.github.com/martenson/22f6efc7cd577ea6af85a11694091d5f Thanks, Martin On Wed, Aug 24, 2016 at 5:17 AM Vincent Cahais <CahaisV@iarc.fr<mailto:CahaisV@iarc.fr>> wrote: Hello, I cannot use my toolshed anymore because of a bug. The service is running, but the web page display this error : Module galaxy.web.framework.middleware.error:151 in __call__
<http://galaxy.iarc.fr:9009/> app_iter = self.application(environ, sr_checker) Module paste.recursive:85 in __call__ <http://galaxy.iarc.fr:9009/> return self.application(environ, start_response) Module galaxy.webapps.tool_shed.framework.middleware.hg:218 in __call__ <http://galaxy.iarc.fr:9009/> return self.app( environ, start_response ) Module paste.httpexceptions:640 in __call__ <http://galaxy.iarc.fr:9009/> return self.application(environ, start_response) Module galaxy.web.framework.base:131 in __call__ <http://galaxy.iarc.fr:9009/> return self.handle_request( environ, start_response ) Module galaxy.web.framework.base:190 in handle_request <http://galaxy.iarc.fr:9009/> body = method( trans, **kwargs ) Module galaxy.webapps.tool_shed.controllers.repository:1963 in index <http://galaxy.iarc.fr:9009/> status=status ) Module galaxy.web.framework.webapp:858 in fill_template <http://galaxy.iarc.fr:9009/> return self.fill_template_mako( filename, **kwargs ) Module galaxy.web.framework.webapp:872 in fill_template_mako <http://galaxy.iarc.fr:9009/> return template.render( **data ) Module mako.template:445 in render <http://galaxy.iarc.fr:9009/> return runtime._render(self, self.callable_, args, data) Module mako.runtime:829 in _render <http://galaxy.iarc.fr:9009/> **_kwargs_for_callable(callable_, data)) Module mako.runtime:864 in _render_context <http://galaxy.iarc.fr:9009/> _exec_template(inherit, lclcontext, args=args, kwargs=kwargs) Module mako.runtime:890 in _exec_template <http://galaxy.iarc.fr:9009/> callable_(context, *args, **kwargs) Module _base_base_panels_mako:123 in render_body <http://galaxy.iarc.fr:9009/> __M_writer(unicode(self.left_panel())) Module _webapps_tool_shed_index_mako:166 in render_left_panel <http://galaxy.iarc.fr:9009/> __M_writer(filters.html_escape(unicode(trans.app.shed_counter.generation_time ))) UnicodeDecodeError: 'ascii' codec can't decode byte 0xc3 in position 2: ordinal not in range(128)
Thanks, Vincent ___________________________________________________________ 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/mailinglists/
It works, thank you. Vincent Le 24/08/2016 à 17:24, Martin Čech a écrit : Hello Vincent, This looks like an encoding problem we we can fix. Could you please try the following patch? https://gist.github.com/martenson/22f6efc7cd577ea6af85a11694091d5f Thanks, Martin On Wed, Aug 24, 2016 at 5:17 AM Vincent Cahais <CahaisV@iarc.fr<mailto:CahaisV@iarc.fr>> wrote: Hello, I cannot use my toolshed anymore because of a bug. The service is running, but the web page display this error : Module galaxy.web.framework.middleware.error:151 in __call__
<http://galaxy.iarc.fr:9009/#> app_iter = self.application(environ, sr_checker) Module paste.recursive:85 in __call__ <http://galaxy.iarc.fr:9009/#> return self.application(environ, start_response) Module galaxy.webapps.tool_shed.framework.middleware.hg:218 in __call__ <http://galaxy.iarc.fr:9009/#> return self.app( environ, start_response ) Module paste.httpexceptions:640 in __call__ <http://galaxy.iarc.fr:9009/#> return self.application(environ, start_response) Module galaxy.web.framework.base:131 in __call__ <http://galaxy.iarc.fr:9009/#> return self.handle_request( environ, start_response ) Module galaxy.web.framework.base:190 in handle_request <http://galaxy.iarc.fr:9009/#> body = method( trans, **kwargs ) Module galaxy.webapps.tool_shed.controllers.repository:1963 in index <http://galaxy.iarc.fr:9009/#> status=status ) Module galaxy.web.framework.webapp:858 in fill_template <http://galaxy.iarc.fr:9009/#> return self.fill_template_mako( filename, **kwargs ) Module galaxy.web.framework.webapp:872 in fill_template_mako <http://galaxy.iarc.fr:9009/#> return template.render( **data ) Module mako.template:445 in render <http://galaxy.iarc.fr:9009/#> return runtime._render(self, self.callable_, args, data) Module mako.runtime:829 in _render <http://galaxy.iarc.fr:9009/#> **_kwargs_for_callable(callable_, data)) Module mako.runtime:864 in _render_context <http://galaxy.iarc.fr:9009/#> _exec_template(inherit, lclcontext, args=args, kwargs=kwargs) Module mako.runtime:890 in _exec_template <http://galaxy.iarc.fr:9009/#> callable_(context, *args, **kwargs) Module _base_base_panels_mako:123 in render_body <http://galaxy.iarc.fr:9009/#> __M_writer(unicode(self.left_panel())) Module _webapps_tool_shed_index_mako:166 in render_left_panel <http://galaxy.iarc.fr:9009/#> __M_writer(filters.html_escape(unicode(trans.app.shed_counter.generation_time ))) UnicodeDecodeError: 'ascii' codec can't decode byte 0xc3 in position 2: ordinal not in range(128)
Thanks, Vincent ___________________________________________________________ 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/mailinglists/
participants (3)
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Martin Čech -
SAPET, Frederic -
Vincent Cahais