[galaxy-dev] CSV import of Sample information Error

[Greg Von Kuster]

Hello Joe,

Can you send me your csv file?

Thanks!

On Jun 7, 2011, at 10:45 AM, Joe Cruz wrote:

> Hello Everyone,
> 
> I wanted to ask if anyone has experience successfully importing sample information through a csv file.
> 
> I know there is an issue already created for csv file import, which I left a comment earlier:
> 
> https://bitbucket.org/galaxy/galaxy-central/issue/398/csv-import-of-sample-information-is-broken#comment-510683\
> 
> but my bug doesn't seem to deal with an 'Invalid Request ID' as the issue above states.
> 
> This is the error I get:
> 
> URL: http://localhost/requests_common/add_samples?cntrller=requests&id=a65cf3ca8eb85be3
> File '/home/galaxy1/galaxy-dist/eggs/Paste-1.6-py2.6.egg/paste/exceptions/errormiddleware.py', line 143 in __call__
>   app_iter = self.application(environ, start_response)
> File '/home/galaxy1/galaxy-dist/eggs/Paste-1.6-py2.6.egg/paste/debug/prints.py', line 98 in __call__
>   environ, self.app)
> File '/home/galaxy1/galaxy-dist/eggs/Paste-1.6-py2.6.egg/paste/wsgilib.py', line 539 in intercept_output
>   app_iter = application(environ, replacement_start_response)
> File '/home/galaxy1/galaxy-dist/eggs/Paste-1.6-py2.6.egg/paste/recursive.py', line 80 in __call__
>   return self.application(environ, start_response)
> File '/home/galaxy1/galaxy-dist/eggs/Paste-1.6-py2.6.egg/paste/httpexceptions.py', line 632 in __call__
>   return self.application(environ, start_response)
> File '/home/galaxy1/galaxy-dist/lib/galaxy/web/framework/base.py', line 145 in __call__
>   body = method( trans, **kwargs )
> File '/home/galaxy1/galaxy-dist/lib/galaxy/web/framework/__init__.py', line 84 in decorator
>   return func( self, trans, *args, **kwargs )
> File '/home/galaxy1/galaxy-dist/lib/galaxy/web/controllers/requests_common.py', line 829 in add_samples
>   return self.__import_samples( trans, cntrller, request, displayable_sample_widgets, libraries, **kwd )
> File '/home/galaxy1/galaxy-dist/lib/galaxy/web/controllers/requests_common.py', line 1109 in __import_samples
>   sample_copy_select_field=sample_copy_select_field )
> File '/home/galaxy1/galaxy-dist/lib/galaxy/web/framework/__init__.py', line 650 in fill_template
>   return self.fill_template_mako( filename, **kwargs )
> File '/home/galaxy1/galaxy-dist/lib/galaxy/web/framework/__init__.py', line 661 in fill_template_mako
>   return template.render( **data )
> File '/home/galaxy1/galaxy-dist/eggs/Mako-0.2.5-py2.6.egg/mako/template.py', line 133 in render
>   return runtime._render(self, self.callable_, args, data)
> File '/home/galaxy1/galaxy-dist/eggs/Mako-0.2.5-py2.6.egg/mako/runtime.py', line 364 in _render
>   _render_context(template, callable_, context, *args, **_kwargs_for_callable(callable_, data))
> File '/home/galaxy1/galaxy-dist/eggs/Mako-0.2.5-py2.6.egg/mako/runtime.py', line 381 in _render_context
>   _exec_template(inherit, lclcontext, args=args, kwargs=kwargs)
> File '/home/galaxy1/galaxy-dist/eggs/Mako-0.2.5-py2.6.egg/mako/runtime.py', line 414 in _exec_template
>   callable_(context, *args, **kwargs)
> File '/home/galaxy1/galaxy-dist/database/compiled_templates/base.mako.py', line 40 in render_body
>   __M_writer(unicode(next.body()))
> File '/home/galaxy1/galaxy-dist/eggs/Mako-0.2.5-py2.6.egg/mako/runtime.py', line 255 in <lambda>
>   return lambda *args, **kwargs:callable_(self.context, *args, **kwargs)
> File '/home/galaxy1/galaxy-dist/database/compiled_templates/requests/common/add_samples.mako.py', line 164 in render_body
>   __M_writer(unicode(render_samples_grid( cntrller, request, displayable_sample_widgets, action='edit_samples', adding_new_samples=True, encoded_selected_sample_ids=[], render_buttons=False, grid_header=grid_header )))
> File '/home/galaxy1/galaxy-dist/eggs/Mako-0.2.5-py2.6.egg/mako/runtime.py', line 255 in <lambda>
>   return lambda *args, **kwargs:callable_(self.context, *args, **kwargs)
> File '/home/galaxy1/galaxy-dist/database/compiled_templates/requests/common/common.mako.py', line 749 in render_render_samples_grid
>   sample_widget_history = sample_widget[ 'history' ]
> KeyError: 'history'
> 
> I greatly appreciate your help and patience.
> 
> Thanks,
> 
> joe
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Greg Von Kuster
Galaxy Development Team
greg at bx.psu.edu



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