Hi Lukas, At the moment, to my knowledge we do not handle staggered grids at all, unfortunately. Interpolating everything to the cell-centered grid would make the most sense at least for yt. I suppose then the VTK file would have to be “structured_points” or something similar. Best, John

On Jun 2, 2016, at 4:47 PM, Lukas Bystricky wrote:

Hi John,

Yes, sorry it is vertex centered, I forgot to mention that. The data comes from a staggered grid however, (the velocities and pressures defined on separate grids); currently I'm just interpolating everything to the same grid. In principle I could interpolate everything to a cell centered grid (which is the native grid for the pressure), but I'd have to think about how to handle boundary conditions in that case. Does YT handle staggered grids in a natural way?

Thanks again,

Lukas

On Thu, Jun 2, 2016 at 3:49 PM, John Zuhone mailto:jzuhone@gmail.com> wrote: Hi Lukas,

So I was actually able to convert your file to binary VTK and get started with it in yt, but I hit a roadblock.

Your data is “vertex-centered” in our parlance, but we don’t as of yet support vertex-centered data.

If you can convert to cell-centered data, we can probably support you out of the box, but for now vertex-centered data is not yet implemented.

For example, here is what the header for an Athena VTK file looks like:

# vtk DataFile Version 3.0 PRIMITIVE vars at time= 2.700111e+03, level= 0, domain= 0 BINARY DATASET STRUCTURED_POINTS DIMENSIONS 257 257 257 ORIGIN -2.000000e+00 -2.000000e+00 -2.000000e+00 SPACING 1.562500e-02 1.562500e-02 1.562500e-02 CELL_DATA 16777216 SCALARS density float LOOKUP_TABLE default

Let us know…

John

...

On May 16, 2016, at 10:04 PM, Lukas Bystricky mailto:lukasbystricky@gmail.com> wrote:

Hi all,

I'm trying to load in some data from an ASCII VTK file (attached for reference) that I created following the guidelines here: http://www.vtk.org/wp-content/uploads/2015/04/file-formats.pdf http://www.vtk.org/wp-content/uploads/2015/04/file-formats.pdf. I can load this file into Visit and I was hoping that to load it into yt would be as simple as :

ds = yt.load("lid_driven_cavity_20.vtk")

When I try that however I get the error message:

Traceback (most recent call last): File "visualization.py", line 3, in <module> ds = yt.load("lid_driven_cavity_20.vtk") File "C:\Users\Dave\Anaconda2\lib\site-packages\yt\convenience.py", line 84, in load return candidates[0](*args, **kwargs) File "C:\Users\Dave\Anaconda2\lib\site-packages\yt\frontends\athena\data_structures.py", line 470, in __init__ Dataset.__init__(self, filename, dataset_type, units_override=units_override) File "C:\Users\Dave\Anaconda2\lib\site-packages\yt\data_objects\static_output.py", line 190, in __init__ self._parse_parameter_file() File "C:\Users\Dave\Anaconda2\lib\site-packages\yt\frontends\athena\data_structures.py", line 528, in _parse_parameter_file self.domain_left_edge = grid['left_edge'] KeyError: 'left_edge'

Is it possible to load in such a file to yt? If not, since I'm writing my own data file, how could I edit it to make it readable by yt?

Thanks in advance,

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