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AMReX-Codes / Amrvis

Amrvis is a visualization package specifically designed to read and display output and profiling data from codes built on the AMReX framework.
https://amrex-codes.github.io/amrex/docs_html/Visualization.html
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Geometry rescaling error of Amrvis slices #4

Open ljcarson opened 5 years ago

ljcarson commented 5 years ago

I encountered the following error running the AMReX tutorial HeatEquation_EX1_C and using Amrvis to visualize the results. The error occurs in both DIM = 2 and 3 dimensions, but I will cite the DIM = 3 case here.

Plot files were produced using ./main3d.gnu.ex inputs_3d One plot file was brought into amrvis amrvis3d plt00000 & Invoking the menu item Help --> Info... yields the following file information: plt00000 HyperCLaw-V1.1 time: 0 levels: 1 prob domain: level 0: ((0,0,0) (127,127,127) (0,0,0)) refratios: probsize: 2 2 2 prob lo: -1 -1 -1 prob hi: 1 1 1 Note that the physical problem domain is [-1, 1] x [-1, 1] x [-1, 1].

To look at a two dimensional slice of this data, I ran the batch command, amrvis3d -newplt -zslice 80 plt00000 and brought this slice into amrvis via amrvis3d -fab plt00000.phi.zslice.80.Level_0.fab The information on this file reads plt00000.phi.zslice.80.Level_0.fab FromFAB time: 0 levels: 1 prob domain: level 0: ((0,0,80) (127,127,80) (0,0,0)) refratios: probsize: 1 1 1 prob lo: 0 0 0 prob hi: 1 1 1 The domain has been erroneously rescaled to [0, 1] x [0, 1] x [0, 1].

My original intent was to bring this Fab slice into amrvis2d so that I may extract line plots (which doesn't seem to be possible within amrvis3d). The command amrvis3d -fab plt00000.phi.zslice.80.Level_0.fab happily worked, but with the same rescaling error as above.

Previously I had encountered the same rescaling problems using amrvis2d to batch produce slices, which in that case were data along a line.

drummerdoc commented 5 years ago

This is because a Fab has no notion of a domain size or delta x. It is just data on a regular grid. amrvis has to draw something, so it makes something up for those values.

ljcarson commented 5 years ago

Marc,

Thanks, that explains it. I had forgotten how Fab’s were defined. I can just restore the physical coordinates manually.

Regards, Larry Carson

On Aug 16, 2019, at 2:58 PM, Marc Day notifications@github.com wrote:

This is because a Fab has no notion of a domain size or delta x. It is just data on a regular grid. amrvis has to draw something, so it makes something up for those values.

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