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

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 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 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@bureau.luli.polytechnique.fr> wrote:

...

I've uploaded the dataset: http://use.yt/upload/364c7039

Gabriel

------------------------------ *De :* yt-users [yt-users-bounces@lists.spacepope.org] de la part de Nathan Goldbaum [nathan12343@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 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@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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