Hello,
To solve this warning, python used by Galaxy is now localized on our
server. I no longer use python available on our cluster. Thus, if python
version on the cluster evolves, it will not impact Galaxy.
Thanks to this modification, your script fetch_eggs.py have been start
and some eggs have been updated except for Markupsafe. So I downloaded
Markupsafe from Python website.
Since then I have no warning on my runs ;-)
Thanks,
Sarah
Nate Coraor a écrit :
On Apr 27, 2012, at 6:00 AM, Sarah Maman wrote:
Hello,
After pulling latest changes (March 2012 - r 40f1816d6857), jobs launched run
properly (output files OK) but I get the following warning:
/WARNING:galaxy.eggs:Warning: MarkupSafe (a dependent egg of Mako) cannot be
fetched/
Hi Sarah,
I'm guessing that you are using a cluster with Galaxy. If this is correct,
please try the following:
1. Log in to a cluster node as the user that runs Galaxy
2. cd to the galaxy-dist directory
3. run `python ./scripts/fetch_eggs.py`
This should grab any missing eggs.
In addition, Galaxy GUI is not exactly GUI seen in the cloud
(https://main.g2.bx.psu.edu/). For example, "Visualization" menu is absent and
I think it should be related to the previous warning?
See the 'enable_tracks' setting in universe_wsgi.ini to enable the
Visualization menu.
--nate
How to ensure that eggs be properly fetched?
Thank you in advance,
Sarah Maman
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