Re: [yt-users] Field extraction from arbitrary grids

Hi yt-users, I was able to get the arbitrary grid working by updating yt to the newest version. I am quite confused, however, by the output. If I extract my arbitrary grid: obj = ds.arbitrary_grid(left_edge, right_edge, dims=[256, 256, 256]) and extract the desired fields: temp = obj["temperature"] HIdens = obj["HI_Density"] (which all works successfully), I then want to write this to a file and would expect that such a file would have 256^3 = 16777216 lines, but I not only don't get this number of lines for my outputs, I even get different number of lines for different fields. Here is the part of my code https://pastebin.com/REcRd2u0 that writes the file. Ideas? Thanks in advance. Cheers, Carla 2017-07-12 12:35 GMT+02:00 Carla Bernhardt :

Hi Matthew,

Thank you for your reply. I was using yt Version 3.2.3 and am working out some installation issues on our server with version 3.3.5. As for the type of data, I have an enzo simulation with static nested grids as well as up to 6 levels AMR grids. I will have to get back to you once I get past the issues with the newest installation of yt.... Thanks for the initial pointers.

Cheers, Carla

2017-07-11 14:15 GMT+02:00 Matthew Turk :

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Hi Carla,

Interesting. It's possible, for the call to "temperature" (which raises NotImplementedError) that the version of yt you're on doesn't yet support mesh fields in arbitrary grids; that was added reasonably recently. For the others, I'm not totally sure why it's breaking -- which version of yt are you using, and what type of data? It may just be that they aren't deposit fields. In that case, try explicitly stating obj["gas","temperature"] or obj["gas","HI_Density"]. It may also be that the aliasing is getting in the way, in which case instead of "HI_Density" you might need to try "Hp0_density".

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Dear yt-users,

I am trying to extract a unigrid data cube within a specific region and specified dimensions, thus I am using arbitrary_grid(), however, beyond

On Tue, Jul 11, 2017 at 5:42 AM, Carla Bernhardt wrote: the

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example given in the docs, my field extractions all fail. I would like to extract temperature, HI_Density and HII_Density. Here is a snippet from my code:

obj = ds.arbitrary_grid(left_edge, right_edge, dims=[256, 256, 256]) print(obj["deposit", "all_density"]) print(obj["temperature"]) print(obj["HI_Density"])

The line print(obj["deposit", "all_density"]) works, but the two lines after both fail. Here is the traceback from the temperature, and I even tried out deposited temperature and deposited HI_Density. Am I formatting this incorrectly, or is there a different way to extract the fields?

Kind regards, Carla Bernhardt PhD Student ZAH Institut für Theoretische Astrophysik Universität Heidelberg

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