[yt-users] yt-users Digest, Vol 107, Issue 10

Nathan Goldbaum nathan12343 at gmail.com
Wed Jan 25 09:46:43 PST 2017


On Wed, Jan 25, 2017 at 7:15 AM, Slavin, Jonathan <jslavin at cfa.harvard.edu>
wrote:

> ​Hi Nathan,
>
> Thanks for your response.  I downgraded back to yt 3.2.3 so that I could
> get my work done, so I at the moment, I can't explore the grid hierarchy
> with yt 3.3.3​.  I'm happy to share my dataset with you.  I'll upload it to
> the curldrop site.
>

Thanks for sharing the dataset with me! Thanks also for taking the time to
report the regression, I very much appreciate getting reports like this so
we can take the time to fix the underlying issue.

I think I've fixed your issue here:

https://bitbucket.org/yt_analysis/yt/pull-requests/2501

Once that is merged I will make an effort to backport that fix along with
several others that have come in since yt 3.3.3 and do a release of yt
3.3.4. In the meantime you can try running yt from the development branch
to get the fix once it's merged in.


>
> Regards,
> Jon
>
> On Tue, Jan 24, 2017 at 7:31 PM, <yt-users-request at lists.spacepope.org>
> wrote:
>
>> Hi Jonathan,
>>
>> I just tried this using WDMerger_hdf5_chk_1000 (see yt-project.org/data),
>> which is a FLASH dataset from a simulation done in cylindrical
>> coordinates,
>> but it seems to work for me ok using that dataset:
>>
>>     $ yt load WDMerger_hdf5_chk_1000/WDMerger_hdf5_chk_1000.hdf5
>>
>>     In [1]: slc = ds.slice(2, 0.)
>>
>>     In [2]: slc['dr'].min()
>>     Out[2]: 25600000.0 code_length
>>
>> Somehow something is getting set to a NaN, my guess is gobj.LeftEdge[i].
>> In
>> this context gobj is a grid object, so for some reason grid.LeftEdge is
>> NaN
>> along one of your axes for at least one of your grids. You can navigate
>> the
>> grid hierarchy by looking at the grid array: ds.index.grids[0] should be a
>> reference to the root grid. You can also just iterate over ds.index.grids
>> to look at all the grids in your dataset.
>>
>> Is there any chance you can share the dataset that's causing this issue?
>> We
>> have the yt curldrop (https://docs.hub.yt/services.html#curldrop)
>> available
>> for sharing data publicly. If it's not ok to share the dataset publicly we
>> can try sharing it 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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