This is the confusing thing. I've check the python versions and python path
of the vm running galaxy and where the jobs are run and it's 2.7 across the
board. I submit the script that fetches the eggs to the cluster using the
same environment as the jobs are submitted in. I was just wondering if I
was missing something obvious. It seems to be fetching the eggs after the
job is complete (otherwise I'd assume the first job ran would fail, rather
than the second).
I'll have another poke about.
On Fri, Feb 28, 2014 at 3:14 PM, Nate Coraor <nate(a)bx.psu.edu> wrote:
Something is automatically re-fetching the Python 2.6 eggs? Is the
Galaxy server itself using 2.6 perhaps?
On Fri, Feb 28, 2014 at 3:42 AM, Joseph Ward <j.x.ward(a)dundee.ac.uk>
> I've got a strange problem with python paths/eggs. When I run any tool
> produces html/text output I get the error:
> WARNING:galaxy.eggs:Warning: MarkupSafe (a dependent egg of Mako) cannot
> So if I close galaxy, delete the eggs folder, run fetch_eggs.py (on the
> cluster, sourcing the same files as galaxy does so the python path
> identical) it gathers all the eggs it needs for python 2.7.
> Running a job then ends with the proper results, no errors, but not with
> python 2.6 eggs present in the eggs folder alongside the 2.7 eggs.
> Re-running the same job, or running any other that produces html output,
> throws up the error mentioned above.
> I can't see anywhere where I've missed a python path or anywhere where
> python 2.6 is mentioned.
> Any idea what I'm missing here?
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