Jorrit,
Thank you for uncovering that issue, I've commited a fix in the stable
branch of galaxy-central at 8887:d5896e8a60fa. To apply that changeset,
you'll need to run the following commands from your Galaxy directory:
$ hg pull -b stable https://bitbucket.org/galaxy/galaxy-central/
$ hg update stable
--Dave B.
On 2/18/13 21:57:18.000, jorrit poelen wrote:
Hey y'all,
I am testing how to best share a workflow through a tool shed. I stumbled
across a possible bug and am hoping that this is simply a configuration issue.
Steps to reproduce:
1. In local galaxy instance goto . . admin > search and browse tool sheds
2. locate select "Galaxy test tool shed"
3. search for "obo"
4. preview and install repository "obo_test_workflows"
5. in next screen click "install to Galaxy"
6. in next screen click "install"
7. in next screen click "obo_test_workflows"
8. in next screen, under workflows, click "TestOboWorkflow1"
9. in svg graphics page > repository actions > import workflow to galaxy
Expected results:
Workflow is installed and made available in workflow section in local Galaxy
instance.
Actual results:
URL:
http://galaxy:7474/admin_toolshed/import_workflow?repository_id=2d9035b3fc152403&workflow_name=0c2d739e4f60c1bed9e8e46f2f317141702ceb26%3A546573744f626f576f726b666c6f7731
File
'/home/ubuntu/galaxy-dist/eggs/WebError-0.8a-py2.7.egg/weberror/evalexception/middleware.py',
line 364 in respond
app_iter = self.application(environ, detect_start_response)
File '/home/ubuntu/galaxy-dist/eggs/Paste-1.6-py2.7.egg/paste/debug/prints.py',
line 98 in __call__
environ, self.app)
File '/home/ubuntu/galaxy-dist/eggs/Paste-1.6-py2.7.egg/paste/wsgilib.py', line
539 in intercept_output
app_iter = application(environ, replacement_start_response)
File '/home/ubuntu/galaxy-dist/eggs/Paste-1.6-py2.7.egg/paste/recursive.py',
line 80 in __call__
return self.application(environ, start_response)
File
'/home/ubuntu/galaxy-dist/eggs/Paste-1.6-py2.7.egg/paste/httpexceptions.py',
line 632 in __call__
return self.application(environ, start_response)
File '/home/ubuntu/galaxy-dist/lib/galaxy/web/framework/base.py', line 132 in
__call__
return self.handle_request( environ, start_response )
File '/home/ubuntu/galaxy-dist/lib/galaxy/web/framework/base.py', line 185 in
handle_request
body = method( trans, **kwargs )
File '/home/ubuntu/galaxy-dist/lib/galaxy/web/framework/__init__.py', line 216
in decorator
return func( self, trans, *args, **kwargs )
File
'/home/ubuntu/galaxy-dist/lib/galaxy/webapps/galaxy/controllers/admin_toolshed.py',
line 744 in import_workflow
tools_metadata = metadata[ 'tools' ]
KeyError: 'tools'
Thanks in advance for suggestions on how to solve / work around this issue.
-jorrit
PS Note that the workflow can be installed using a url pointing to the workflow
from a hg repository on bitbucket (ie.
https://bitbucket.org/jhpoelen/obo_workflows/raw/25d386a50562d02e03fa821d96a831cf75edcbae/Galaxy-Workflow-TestOboWorkflow1.ga).
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___________________________________________________________
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:
http://lists.bx.psu.edu/
