[yt-users] error when running on cluster nodes

[Matthew Turk]

Hi Tsz Ka,

Usually these problems are seen when you're running the wrong version
of Python, or you're using some combination of C++ compilers.  I think
unless you're running on Compute Node Linux, following the suggestions
on the XT5 Installation page may not be necessary, and I am afraid I
don't recognize the machine (ppc64) you're running on.  Which machine
is it -- can you tell me a little more about it?  And do you know if
the compute nodes have a full installation stack?  And can you verify
you're using the correct python executable?

Best,

Matt

On Wed, Feb 16, 2011 at 6:54 PM, Tsz Ka Li <tszkali2 at illinois.edu> wrote:
> Hi all,
> I run into an error which occurs when I submit a yt script to run on cluster
> nodes. The script runs successfully from the command line though, and I am
> NOT running MPI here. The error is as follows:
>
> Traceback (most recent call last):
>   File "MergerTree.py", line 1, in <module>
>     from yt.mods import *
>   File "/turing/home/tszkali2/yt-ppc64/src/yt-hg/yt/mods.py", line 92, in
> <module>
>     from yt.visualization.api import \
>   File "/turing/home/tszkali2/yt-ppc64/src/yt-hg/yt/visualization/api.py",
> line 34, in <module>
>     from plot_collection import \
>   File
> "/turing/home/tszkali2/yt-ppc64/src/yt-hg/yt/visualization/plot_collection.py",
> line 26, in <module>
>     from matplotlib import figure
>   File
> "/turing/home/tszkali2/yt-ppc64/lib/python2.6/site-packages/matplotlib/figure.py",
> line 16, in <module>
>     import artist
>   File
> "/turing/home/tszkali2/yt-ppc64/lib/python2.6/site-packages/matplotlib/artist.py",
> line 6, in <module>
>     from transforms import Bbox, IdentityTransform, TransformedBbox,
> TransformedPath
>   File
> "/turing/home/tszkali2/yt-ppc64/lib/python2.6/site-packages/matplotlib/transforms.py",
> line 34, in <module>
>     from matplotlib._path import affine_transform
> ImportError:
> /turing/home/tszkali2/yt-ppc64/lib/python2.6/site-packages/matplotlib/_path.so:
> undefined symbol:
> _ZZN2Py15PythonExtensionINS_22ExtensionModuleBasePtrEE9behaviorsEvE1p
>
> Apparently it is related to matplotlib. I tried to do something similar to
> the instructions on the wiki for CrayXT5 Installation
> (http://yt.enzotools.org/wiki/CrayXT5Installation) in the section 'Running
> on a compute node', but I still got the same error.
>
> Does anyone have ideas on what this means? I appreciate any help from you.
>
> Thanks,
> Tsz Ka
>
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