[yt-users] [YT-USERS] Incoherence when ploting a slice - from FLASH simulation

[Scott Feister]

Nathan,

Thanks for the lightning-fast response and workaround.

Best,

Scott


Scott Feister, Ph.D.
Postdoctoral Researcher, Flash Center for Computational Science
University of Chicago, Department of Astronomy and Astrophysics

On Tue, May 2, 2017 at 4:48 PM, Nathan Goldbaum <nathan12343 at gmail.com>
wrote:

> While we fix this issue (which will hopefully be soon), here is a
> workaround. I've modified your script to disable antialiasing:
>
> import yt
>
> ds = yt.load("lasslab_hdf5_plt_cnt_0000.hdf5")
> plot = yt.SlicePlot(ds, 'z', "dens")
> plot.frb.antialias = 0
> plot.save()
>
> That will avoid the artifacts until we fix this issue.
>
> On Tue, May 2, 2017 at 4:35 PM, Nathan Goldbaum <nathan12343 at gmail.com>
> wrote:
>
>> First, thanks for the report and for sending in the dataset to reproduce
>> with. I've opened an issue to track this:
>>
>> https://github.com/yt-project/yt/issues/1361
>>
>> I suspect that we're hitting a corner case bug in the code that generates
>> pixelized representations of AMR data. I will try to take a closer look at
>> this in the next few days.
>>
>> On Tue, May 2, 2017 at 4:17 PM, Gabriel RIGON <
>> rigon.g at bureau.luli.polytechnique.fr> wrote:
>>
>>> I've uploaded the dataset: http://use.yt/upload/364c7039
>>>
>>> Gabriel
>>>
>>> ------------------------------
>>> *De :* yt-users [yt-users-bounces at lists.spacepope.org] de la part de
>>> Nathan Goldbaum [nathan12343 at gmail.com]
>>> *Envoyé :* mardi 2 mai 2017 23:09
>>> *À :* Discussion of the yt analysis package
>>> *Objet :* Re: [yt-users] [YT-USERS] Incoherence when ploting a slice -
>>> from FLASH simulation
>>>
>>> Could one of you share a dataset that exhibits this behavior?
>>>
>>> You can use the yt curldrop to share datasets:
>>>
>>> https://docs.hub.yt/services.html#curldrop
>>>
>>> -Nathan
>>>
>>> On Tue, May 2, 2017 at 4:02 PM, Scott Feister <sfeister at gmail.com>
>>> wrote:
>>>
>>>> Gabriel,
>>>>
>>>> I would like to add that I have seen this problem as well in my own
>>>> usage of FLASH with yt. The streaks appear to be perfectly doubled in value
>>>> relative to their neighbors. I would love to hear if anyone in the yt
>>>> community has seen it and/or knows what might be going on! Note: These
>>>> streaks are not in the FLASH data; VisIt reproduces the data without the
>>>> streaks. Also, a yt ray output does not show the streaks; the slice plot
>>>> does.
>>>>
>>>> Best,
>>>>
>>>> Scott
>>>>
>>>>
>>>> Scott Feister, Ph.D.
>>>> Postdoctoral Researcher, Flash Center for Computational Science
>>>> University of Chicago, Department of Astronomy and Astrophysics
>>>>
>>>> On Tue, May 2, 2017 at 3:43 PM, Gabriel RIGON <
>>>> rigon.g at bureau.luli.polytechnique.fr> wrote:
>>>>
>>>>> Dear all,
>>>>>
>>>>> I recently start to work with yt to analyze my FLASH simulation. The
>>>>> output of those simulation is an hdf5 file.
>>>>>
>>>>> When I try to plot a slice of my simulation, some weird lines appear
>>>>> on it. Here is an example of the python script and the results it leads to.
>>>>>
>>>>> """
>>>>> import yt
>>>>>
>>>>> ds = yt.load("lasslab_hdf5_plt_cnt_0000.hdf5")
>>>>> yt.SlicePlot(ds, 'z', "dens").show()
>>>>>
>>>>> """
>>>>>
>>>>> Actually they also appear went plotting the results of a frb of a
>>>>> slice (even when I try to plot the x or y coordinate in 2d).
>>>>>
>>>>> Do you have any idea of the reason for such lines, or a solution for
>>>>> my problem?
>>>>>
>>>>> Best regards,
>>>>> Gabriel Rigon
>>>>>
>>>>>
>>>>>
>>>>> _______________________________________________
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>>>>>
>>>>>
>>>>
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>>
>
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