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:gift: HDF5 Example Files
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Add synergia example diagnostics output #21

Open s-sajid-ali opened 5 months ago

ax3l commented 5 months ago

@s-sajid-ali Thank you for the PR! I took a look at the file and albeit valid openPMD, it does not seem to contain particles. Can you double check?

$ h5ls -r synergia-fodo-diag.h5 
/                        Group
/data                    Group
/data/0                  Group
/data/1                  Group
/data/10                 Group
/data/11                 Group
/data/12                 Group
...
$ openpmd-ls synergia-fodo-diag.h5 
openPMD series: synergia-fodo-diag
openPMD standard: 1.1.0
openPMD extensions: 0

data author: unknown
data created: 2024-03-29 13:59:33 -0500
data backend: HDF5
generating machine: unknown
generating software: synergia3 (version: 2023.4.12-81c96e4d6)
generating software dependencies: unknown

number of iterations: 26 (groupBased)
  all iterations: 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 

number of meshes: 0

number of particle species: 0
s-sajid-ali commented 5 months ago

Yes it does not contain any particles, it is the output of custom diagnostics as defined here: https://github.com/fnalacceleratormodeling/synergia2/blob/1a85586989e545da5277a96131facc12d8b0d952/src/synergia/bunch/diagnostics_full2.cc#L60-L86

This was one of the files that the updater failed on before https://github.com/openPMD/openPMD-updater/pull/10. With the updates there it simply notes that data is not present and only updates the top level attributes.

s-sajid-ali commented 5 months ago

I can add file containing particles from the same run if that helps set the context for this file.

ax3l commented 5 months ago

I see. I would call this file something like _empty.h5 then maybe?

Let's also add a valid Synergia file that is a bit more instructive/useful for people to play with (vis, analysis, tests)?

s-sajid-ali commented 4 months ago

Updated with more files from running the example. Let me know it looks good now.