[yt-users] Iteration Problems

Stephen Skory stephenskory at yahoo.com
Fri Jun 25 13:35:19 PDT 2010


Brian,

>Traceback (most recent call last):
>  File "s_p_halos.py", line 46, in <module>
>    pc.save("test_images/%s_%i" % (pf,height))
>  File "/share/home/01450/bcrosby/yt-x86_64/src/yt-1.5/yt/raven/PlotCollection.py", line 81, in save
>    override=override, force_save=force_save))
>  File "/share/home/01450/bcrosby/yt-x86_64/src/yt-1.5/yt/raven/PlotTypes.py", line 112, in save_image
>    self._redraw_image()
>  File "/share/home/01450/bcrosby/yt-x86_64/src/yt-1.5/yt/raven/PlotTypes.py", line 352, in _redraw_image
>    newmin = na.nanmin(buff[bI])
>MemoryError
>TACC: Cleaning up after job: 1440927
>TACC: Done.
>
>
>So it would seem that I'm running up against a memory problem, but what we're hitting beyond that, I'm stumped.


I think you might be running into a known & fixed memory leak in the halo finding stuff. It is fixed in the svn trunk version of yt, and you might consider switching to that. There will be a point release of yt very soon (today or in a few days) if you want to wait for that. There are a whole slew of changes between 1.5 and what's coming, which will be outlined in the announcement email. If you feel up to switching now, you can do that inside the yt-1.5 directory like this:

svn sw http://svn.enzotools.org/yt/trunk
python setup.py develop

There are other possibilities, but this is the best one I can think of right now.

Good luck!


 _______________________________________________________
sskory at physics.ucsd.edu           o__  Stephen Skory
http://physics.ucsd.edu/~sskory/ _.>/ _Graduate Student
________________________________(_)_\(_)_______________




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