openPMD-viewer visualize static field

[lge0303]

The attached zip file includes 4 static fields, no errors from openPMD-validator check, they could be visualized by yt. There are errors for loading through openPMD-viewer.
hdf5.zip

[ax3l]

Hi @lge0303,

I looked at your files and they look great. Here is a work-around for you to visualize them:

ts = OpenPMDTimeSeries('./hdf5/', backend='h5py')

Thank you for reporting the issue with the visualization for those files!
There is an ambiguity / small defect in the openPMD standard with respect to particlesPath and mesh-only files; I will already go ahead and make this in openPMD-api more robust. This will be fixed with the next openPMD-api release (the current latest release is 0.13.2), so you don't need to add that extra backend='h5py' option anymore.

Refs.:

• No standard-conforming way to define a Series that only has meshes (resp. particles) in some iterations openPMD-standard#253

[ax3l]

@lge0303 now that I debug this - actually, you just need to update your openPMD attribute when you write from 1.0.0 to 1.1.0.

The relaxation that particlesPath is optional was introduced in that version of the standard.

[lge0303]

Axel, Thank you very much for solve this issue 😊 Lixin

[ax3l]

@lge0303 please feel free to report back once you have a chance to test this with the modified openPMD attribute and then we will close this issue :)

[lge0303]

Attached is the zip file for these files modified following your suggestions: attribute from 1.0.0 to 1.1.0.

Somehow I could not connect kernel on jupyter, so can not check the results now :-(. Do you have any suggestions for fixing the "kernel not found" on nersc jupyter? Thanks!
hdf5.zip

[lge0303]

@ax3l forgot ping you

[lge0303]

@ax3l I successfully use OpenPMD-viewer visualizing the static field. you can close this issue.

Thanks!