[yt-users] cutting plane not working or changed

[Slavin, Jonathan]

​Hi Nathan,

I finally got around to testing your code on LodegIt that uses the
IsolatedGalaxy data.  I ran it as is except I added some plotting
statements (using matplotlib) at the end.  I again do get the problem of
NaNs:

​In [2]: run slice_prob_test.py
Parsing Hierarchy : 100%|██████████████████| 173/173 [00:00<00:00,
23359.45it/s]
/export/slavin/python/anaconda/lib/python2.7/site-packages/yt/visualization/fixed_resolution.py:546:
RuntimeWarning: invalid value encountered in divide
  bounds).transpose()
(nan g/cm**3, nan g/cm**3)
True

​Where the (nan g/cm**3... line is from the print(image.max()...
statement.  Also np.any(np.isnan(image)) returns True.  The image that is
produced is shown in the attached png file.

The RuntimeWarning is apparently associated with this statement:
​buff = pixelize_off_axis_cartesian(
                               self.data_source['x'],
self.data_source['y'],   self.data_source['z'],
                               self.data_source['px'],
 self.data_source['py'],
                               self.data_source['pdx'],
self.data_source['pdy'], self.data_source['pdz'],
                               self.data_source.center,
self.data_source._inv_mat, indices,
                               self.data_source[item],
                               self.buff_size[0], self.buff_size[1],
                               bounds).transpose()

​which is in the __getitem__ method of ​the ObliqueFixedResolutionBuffer
class.  That's about all I could tell you at this point.

The package versions I'm using are yt 3.3.5, python 2.7.12, matplotlib
2.0.0 (running on Linux CentOS 6.8 if that matters).

​Regards,
Jon​



On Fri, Mar 10, 2017 at 4:05 PM, <yt-users-request at lists.spacepope.org>
wrote:

> Date: Fri, 10 Mar 2017 12:14:55 -0800
> From: Nathan Goldbaum <nathan12343 at gmail.com>
> To: Discussion of the yt analysis package
>         <yt-users at lists.spacepope.org>
> Subject: Re: [yt-users] cutting plane not working or changed behavior
> Message-ID:
>         <CAJXewOmWwY1CU4nrafG5_=GrAScGBnq=VMNxxh3s0OUzDzaGVw@
> mail.gmail.com>
> Content-Type: text/plain; charset="utf-8"
>
> Hi Jonathan,
>
> I'm not able to reproduce the behavior you're seeing with a test dataset
> (e.g. see http://paste.yt-project.org/show/7080/, this uses a dataset from
> yt-project.org/data).
>
> Is there any chance you can share a dataset that triggers this?
> Alternatively, can you reproduce this using one of the test datasets on
> yt-project.org/data?
>
> The yt curldrop might be useful to share a dataset that triggers the issue
> you're seeing, see docs.hub.yt. If you're not comfortable sharing the
> dataset publicly, feel free to share it with me off-list.
>
> -Nathan
>




-- 
________________________________________________________
Jonathan D. Slavin                 Harvard-Smithsonian CfA
jslavin at cfa.harvard.edu       60 Garden Street, MS 83
phone: (617) 496-7981       Cambridge, MA 02138-1516
cell: (781) 363-0035             USA
________________________________________________________
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