[yt-users] Making slices of Athena SMR data

[John ZuHone]

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
>>>>> 
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