[yt-users] Problem with smoothed covering grid

Nathan Goldbaum nathan12343 at gmail.com
Tue Oct 6 08:14:09 PDT 2015


Hi Max,

This actually related to a new feature Bili Dong recently added:

https://bitbucket.org/yt_analysis/yt/pull-requests/1769/add-add_smoothed_particle_field/diff

This PR adds new functionality to make it easier to define SPH smoothed
fields. Maybe that will help?

-Nathan

On Tue, Oct 6, 2015 at 1:48 AM, Max Grönke <max.gronke at astro.uio.no> wrote:

> Hi Nathan.
> Thanks for your reply. Here's the new link:
> http://paste.yt-project.org/show/5930/
>
> I think I figured out the problem -- at least in theory ;)  I guess
> what I need is a "smoothed field". This meant I played around with
> "add_volume_weighted_smoothed_field". But although
>
> > fn_smooth =
> add_volume_weighted_smoothed_field("all","particle_position",
> "particle_mass", "smoothing_length",
> >                                               "particle_density",
> "particle_density", ds.field_info, 64)
>
> (where `ds' is my YT Particle Data Set)
>
> seems to work, I cannot access the newly created field?
> ("YTFieldNotFound: Could not find field '('deposit',
> 'all_smoothed_particle_density')' in ParticleData.")
>
> Thanks for your help,
> Max
>
>
> On 5 October 2015 at 17:41, Nathan Goldbaum <nathan12343 at gmail.com> wrote:
> > Hi Max,
> >
> > I'm unable to load the pastebin link in your e-mail.  Can you re-send
> using
> > a different pastebin service? We have paste.yt-project.org set up for
> this
> > purpose.
> >
> > Matt also has an open pull request that among other things adds support
> to
> > arbitrary_grid for fluid fields:
> >
> >
> https://bitbucket.org/yt_analysis/yt/pull-requests/1763/numpy-like-operations/diff
> >
> > -Nathan
> >
> > On Fri, Oct 2, 2015 at 10:23 AM, Max Grönke <max.gronke at astro.uio.no>
> wrote:
> >>
> >> Hi Matthew,
> >>
> >> thanks for your prompt response!
> >>
> >> I tried the covering_grid first but as I said we had problems with a
> >> lot of zero-valued grid points. It seems the values from the coarser
> >> grid are not duplicated downwards?
> >> I tried to post a MWE to illustrate what I mean:
> >> http://pastebin.com/yishxbjW
> >>
> >> For the arbitrary_grid: It says it cannot deal with fluid variables?
> >>
> >> Best,
> >> Max
> >>
> >> On 2 October 2015 at 16:44, Matthew Turk <matthewturk at gmail.com> wrote:
> >> > Hi Max,
> >> >
> >> > Ah, I think I see the problem.  If you're doing any type of particle
> >> > deposition, including smoothing, you might be better suited to using
> >> > the arbitrary_grid or the covering_grid objects, as
> >> > smoothed_covering_grid is designed for situations where values need to
> >> > be interpolated through a cascade of refinements.  It'd probably end
> >> > up being faster to use either arbitrary_grid or covering_grid, too.
> >> > Can you try that and let us know if it meets your needs?
> >> >
> >> > -Matt
> >> >
> >> > On Fri, Oct 2, 2015 at 9:42 AM, Max Grönke <max.gronke at astro.uio.no>
> >> > wrote:
> >> >> Hi everybody!
> >> >>
> >> >> I followed loosely the example provided here
> >> >>
> >> >>
> http://yt-project.org/docs/dev/examining/low_level_inspection.html#examining-grid-data-in-a-fixed-resolution-array
> >> >> but encountered an error message using a smoothed covering grid with
> >> >> SPH data instead of a covering grid. I posted an MWE here:
> >> >> http://pastebin.com/2sStpLmw which leads to the error message
> >> >> "AttributeError: 'YTSmoothedCoveringGrid' object has no attribute
> >> >> '_pdata_source' "
> >> >>
> >> >> I wanted to use a smoothed covering grid because I found that using
> >> >> SPH data a lot of "holes" are in `covering grid' (but not, e.g., in a
> >> >> slice plot). So I assumed there is some problem in duplicating the
> >> >> values from the coarser grids?
> >> >>
> >> >> My yt version is 3.2-dev.
> >> >>
> >> >> Thanks a lot for your time & help,
> >> >> Max
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