Victor and Nate;
Looks like its looking for the file_path. Do I set this in the universe_wsgi.ini and what should I set to?
galaxy-central > sudo python scripts/nglims/add_ng_defaults.py universe_wsgi.ini Traceback (most recent call last): File "scripts/nglims/add_ng_defaults.py", line 367, in <module> main(*args) File "scripts/nglims/add_ng_defaults.py", line 62, in main app = SimpleApp(db_con, config['file_path']) KeyError: 'file_path'
Just a heads up to Brad,
I recently changed galaxy.config so that almost everything that was "set" in universe_wsgi.ini was correctly defined as a default in the config, and then I commented out all of those values. The hope is that it makes it easier to maintain your config file against the sample as the sample changes over time. However, it means that a lot of the things your script expects to be defined aren't defined, so you may need to load galaxy.config yourself to access the defaults.
Nate, thanks for the details on the change. Victor, sorry to trip you up. I took a full look at this on a clean system with the new universe_wsgi.ini so hopefully have ironed out all of the problems. Could you do one more hg pull/hg update? Hopefully that'll take care of everything but definitely let us know if not. I also updated the documentation to be clearer for future users: http://bitbucket.org/galaxy/galaxy-central/wiki/LIMS/nglims If you have any suggestions about things I missed there, please feel free to add them. Thanks again, Brad