[yt-users] Making slices of Athena SMR data

[Nathan Goldbaum]

I looked at this earlier with Eve and noticed that there wasn't an obvious
way to load a parallel SMR Athena dataset.  I believe Eve's failing data
set was produced in parallel and was loaded using the path to the xtk file
in the id0 folder.

It might also help to see your script, specifically the call to 'load()'.

On Tuesday, August 6, 2013, John ZuHone wrote:

> Hi Eve,
>
> This is odd. I'm actually getting it to work:
>
> http://i.imgur.com/iMQttWd.png
>
> I don't get it, because it looks like your yt is up to date.
>
> Can you send your athinput.kh?
>
> John
>
> On Aug 6, 2013, at 12:56 AM, Eve Lee <elee at cita.utoronto.ca> wrote:
>
> > I've uploaded the figures here:
> >
> > http://i.imgur.com/7T5N11o.png
> > http://i.imgur.com/nOsLfQ9.png
> > http://i.imgur.com/BfojOOa.png
> >
> > Best Regards,
> >
> > Eve
> >
> > On 08/05/2013 08:56 PM, John ZuHone wrote:
> >> Also, could you send over some of the figures?
> >>
> >> John
> >>
> >> On Aug 5, 2013, at 11:30 PM, Eve Lee <elee at cita.utoronto.ca> wrote:
> >>
> >>> Hi John,
> >>>
> >>> Yes, it is. Thank you for your help.
> >>>
> >>> Best Regards,
> >>>
> >>> Eve
> >>>
> >>> On 08/05/2013 08:29 PM, John ZuHone wrote:
> >>>> Hi Eve,
> >>>>
> >>>> Is this just the 2-D K-H test simulation with SMR? If I could run it
> myself it would make it easier to debug.
> >>>>
> >>>> Best,
> >>>>
> >>>> John
> >>>>
> >>>> On Aug 5, 2013, at 5:28 PM, Eve Lee <elee at cita.utoronto.ca> wrote:
> >>>>
> >>>>> Hi John,
> >>>>>
> >>>>> Following is the output from yt instinfo
> >>>>>
> >>>>> yt module located at:
> >>>>>
> /home/evejlee/.local/lib/python2.7/site-packages/yt-2.6dev-py2.7-linux-x86_64.egg
> >>>>> The supplemental repositories are located at:
> >>>>>    /pfs/sw/yt-x86_64/src/yt-supplemental
> >>>>>
> >>>>> The current version of the code is:
> >>>>>
> >>>>> ---
> >>>>> f936432ed45d yt
> >>>>> ---
> >>>>>
> >>>>> Best Regards,
> >>>>>
> >>>>> Eve
> >>>>>
> >>>>> On 08/05/2013 02:22 PM, John ZuHone wrote:
> >>>>>> Hi Eve,
> >>>>>>
> >>>>>> Sorry that you're having trouble!
> >>>>>>
> >>>>>> Just wanted to check real quick before anything else--which version
> of yt are you using? Also, are you using the stable branch or the
> development branch? Support for Athena SMR exists in yt versions 2.5.3 and
> later.
> >>>>>>
> >>>>>> Best,
> >>>>>>
> >>>>>> John
> >>>>>>
> >>>>>> On Aug 5, 2013, at 5:13 PM, Eve Lee <elee at cita.utoronto.ca> wrote:
> >>>>>>
> >>>>>>> Hello,
> >>>>>>>
> >>>>>>> I'm trying to make a slice plot of Athena MPI SMR data using
> TimeSeriesData, and I find that the code only make slices out of the base
> level and blanks out deeper level regions.
> >>>>>>>
> >>>>>>> Following is how I read in the Athena vtk files:
> >>>>>>>
> >>>>>>> ts = TimeSeriesData.from_filenames('id0/kh*.vtk', parallel=True)
> >>>>>>> my_storage={}
> >>>>>>> for sto,pf in ts.piter(storage=my_storage):
> >>>>>>>   slc = SlicePlot(pf, 'z', 'Density')
> >>>>>>>   slc.set_zlim('Density', 0.0, 3.0)
> >>>>>>>   num = (pf.h.hierarchy_filename).split('.')[1]
> >>>>>>>   slc.save('./slice/'+num)
> >>>>>>>
> >>>>>>> all my vtk files are in id0, ..., idn where n=number of processors
> I used, and I'm only using 1 more level of refinement.
> >>>>>>>
> >>>>>>> Thanks in advance!
> >>>>>>>
> >>>>>>> Best Regards,
> >>>>>>>
> >>>>>>> Eve
> >>>>>>>
> >>>>>>> _______________________________________________
> >>>>>>> yt-users mailing list
> >>>>>>
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