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@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. 

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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