The method John suggests is definitely a better way to get the user's API
key.
That said, the 'get' change is due to sqlalchemy version changes that
happened quite a while back. You can no longer 'get' directly from the
model, you must use a query object. So, for example, this line:
model.User.get( id )
Became:
sa_session.query( self.model.User).get( id )
Hope that gives a little context,
-Dannon
On Tue, Aug 5, 2014 at 8:56 AM, John Chilton jmchil...@gmail.com wrote:
Hmm...
The following should work for the last at least three releases I
think: ${__user__.api_keys[0].key}. Not sure why get/find are
unavailable on the User model class in the cheetah template now. I
think this version is a little better. Is this okay? If not I can
create a Trello card to investigate and restore the old functionality.
-John
On Tue, Aug 5, 2014 at 2:26 AM, neil.burd...@csiro.au wrote:
Hi,
I have recently upgraded Galaxy from a version I had last year. In my
tool xml file I could state:
${ __app__.model.User.get( $__user_id__ ).api_keys[0].key }
in the command section to get the user's API. However, after updating
to
the current version of Galaxy I get the following error when using this
entry in the xml file:
Traceback (most recent call last):
File /home/bmladmin/galaxy-dist/lib/galaxy/jobs/runners/__init__.py,
line 153, in prepare_job
job_wrapper.prepare()
File /home/bmladmin/galaxy-dist/lib/galaxy/jobs/__init__.py, line
712,
in prepare
self.command_line, self.extra_filenames = tool_evaluator.build()
File /home/bmladmin/galaxy-dist/lib/galaxy/tools/evaluation.py, line
348, in build
self.__build_command_line( )
File /home/bmladmin/galaxy-dist/lib/galaxy/tools/evaluation.py, line
364, in __build_command_line
command_line = fill_template( command, context=param_dict )
File /home/bmladmin/galaxy-dist/lib/galaxy/util/template.py, line 9,
in
fill_template
return str( Template( source=template_text, searchList=[context] ) )
File
/home/bmladmin/galaxy-dist/eggs/Cheetah-2.2.2-py2.7-linux-x86_64-ucs4.egg/Cheetah/Template.py,
line 1004, in __str__
return getattr(self, mainMethName)()
File
cheetah_DynamicallyCompiledCheetahTemplate_1407207170_7_53169.py,
line 92, in respond
NotFound: cannot find 'get' while searching for 'get'
Any ideas?
Thanks
Neil
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