Vipin TS wrote:

Hi all,

Last day we upgraded our galaxy service computing cluster nodes operating system from Ubuntu hadry to lucid 10.4. We updated python eggs and now getting an Warning message, it apparently kills the galaxy jobs. Warning message as follows:

/home/abc/galaxy/lib/galaxy/eggs/__init__.py:332: UserWarning: Unbuilt egg for pytz [unknown version] (/usr/lib/python2.6/dist-packages) env = pkg_resources.Environment( platform=pkg_resources.get_platform() )

...

From the warning message I can see that the problem with unbuilt egg for pytz module. Before approaching you I googled the same and got a good thread which explains similar kind of issues ( https://bugs.launchpad.net/ubuntu/+source/distribute/+bug/576434). I followed #9 from TJ and made a work around and unfortunately no luck. Does anyone had a problem with this before, if yes I like to hear from you that how do u managed to get rid of the warning message.

Hi Vipin, If you haven't come up with a solution for this from the Ubuntu side, there should at least be a workaround within Galaxy (this is untested). In lib/galaxy/eggs/__init__.py, somewhere near the top: import warnings inside get_env(): def get_env(): with warnings.catch_warnings(): warnings.simplefilter("ignore") env = pkg_resources.Environment( search_path='', platform=pkg_resources.get_platform() ) for dist in pkg_resources.find_distributions( os.path.join( galaxy_dir, 'eggs' ), False ): env.add( dist ) return env --nate

Many thanks,

Vipin T S Friedrich Miescher Laboratory of the Max Planck Society Spemannstrasse 39, 72076 Tuebingen, Germany

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