[yt-users] Cylindrical and Polar Slicing (FLASH)

[Morgan MacLeod]

Hello Matt,

Thank you! That works very nicely.

I was able to plot a test 2D polar simulation by commenting line 201 of
geometry/coordinate_handler.py
def pixelize(self, dimension, data_source, field, bounds, size, antialias =
True):
#raise NotImplimentedError

which appears in PolarCoordinateHandler.

I really appreciate the help, and the quick reply. Let me know if it is
helpful for me to send a small (68k) very low-res 2D polar snapshot for
your testing purposes.

Morgan






On Mon, Aug 19, 2013 at 9:10 AM, Matthew Turk <matthewturk at gmail.com> wrote:

> Hi Morgan,
>
> Sorry for the delay in replying.  I've spent some time looking at the
> polar coordinate handling in yt-3.0 this morning and I believe I have come
> up with the current status.
>
> As it stands, the actual creation of a nice plot like yt normally does --
> through the PlotWindow object -- is not yet possible.  There are a few more
> steps that need to happen before everything can be nicely integrated like
> that.  However, I have refreshed my memory on the coordinate handling
> system, and I have been able to make some nice images relatively easily.
>
> The code had to have a few changes to support this; I've put these changes
> into a pull request here:
>
>
> https://bitbucket.org/yt_analysis/yt-3.0/pull-request/82/fix-flash-polar-cylindrical-pixelization/diff
>
> You can get them by doing:
>
> cd $YT_DEST/src/yt-hg/
>
> (or wherever your yt-3.0 installation is) and doing:
>
> hg pull -r 12101b782ac8 https://bitbucket.org/MatthewTurk/yt-3.0
> hg up -r 12101b782ac8
> python2.7 setup.py build_ext -i -f
>
> (the -f will force every extension to rebuild; if you get funny errors
> with selector objects being the wrong size, you may need to do: "find .
> -name '*.pyx' | xargs touch" and then another build_ext run.)
>
> This script then created the correct output for me:
> http://paste.yt-project.org/show/3788/
>
> I've tested it on a few NIF items.  The changes I made were specifically
> in how the data is expected to be ordered; I'd incorrectly had cylindrical
> as rtz and polar as rzt in FLASH.  I've switched these in the PR.
>
> Roman, Suoqing and Anthony, I've listed you as reviewers on the PR because
> I know you have all looked at polar and/or cylindrical data in the past.
>  If you could give some feedback, and especially let me know if I have done
> something wrong.
>
> In the future, I would like to have things working such that we can do
> SlicePlot( ... ) like normal.  That will require a somewhat detailed
> discussion with PlotWindow experts about how to set up bounds for a window,
> but I think it should be doable in the not-too-distant future.
>
> Let me know if that works for you, and if you need any more help!
>
> Best,
>
> Matt
>
>
> On Thu, Aug 15, 2013 at 8:58 PM, Morgan MacLeod <morganmacleod at gmail.com>wrote:
>
>> Dear yt gurus,
>>
>> I've enjoyed using yt for a number of FLASH problems in cartesian
>> geometry. Right now I'm just starting on a setup in FLASH 2D polar
>> (eventually also in 3D cylindrical) geometries.
>>
>> These are ordered
>> 2D polar: r, theta
>> 3D cylindrical: r, theta, z
>>
>> I was intrigued when I noticed this image on the yt-blog (
>> http://blog.yt-project.org/post/WhatsUpWith30.html) -- which is almost
>> exactly what I would like to do.
>>
>> [image: http://blog.yt-project.org/attachments/cylindrical_pixelizer.png]
>>
>>
>> I have updated to yt-3.0, and tried the simplest "Sliceplot" of the data:
>>
>> fn = "const_rho_g_atm_hdf5_plt_cnt_0013"
>>   pf = load(fn)
>>   fig = SlicePlot(pf, 2,'dens').save("myfig.png")
>>
>> This reads loads the 2D polar plot file correctly, but renders the result
>> in a cartesian sense.
>>
>> Does anyone have advice/recipes for how to proceed with Slices rendered
>> "cylindrically"? I understand that this feature set is not yet fully
>> developed but I was curious if there was a solution (or parts of a
>> solution) floating around out there.
>>
>> Thanks so much,
>>
>> Morgan MacLeod
>> -------------------------------------------------
>> Graduate Student
>> Astronomy & Astrophysics
>> UC Santa Cruz
>>
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