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Add JSON schema #1426

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Add JSON schema #1426

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franzpoeschel
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@franzpoeschel franzpoeschel commented Apr 18, 2023

TODO:

  • Define particlePatches
  • Fill in things like "description", "type", "title", ...
  • Maybe add support for abbreviated JSON representations Not now
  • Dataset layout

I have added a CLI tool openpmd-convert_json_toml, exposing internally existing functionality to convert between TOML and JSON. I think it's better to define and maintain the schema in terms of TOML (it can be commented and is more legible), and just compile it to JSON for verification.

x-ref #1436

@ax3l ax3l self-requested a review April 24, 2023 20:36
@ax3l ax3l self-assigned this Apr 24, 2023
@franzpoeschel franzpoeschel force-pushed the json-schema branch 3 times, most recently from 199a223 to 5b09f81 Compare May 31, 2023 09:53
@franzpoeschel franzpoeschel force-pushed the json-schema branch 3 times, most recently from b6b057b to e99b0fb Compare June 26, 2023 14:35
@franzpoeschel franzpoeschel force-pushed the json-schema branch 3 times, most recently from 3fb1ea9 to e866604 Compare August 10, 2023 09:10
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Great work, thank you!

Wondering a bit if validation of an XML backend would be easier.... not sure.

.github/workflows/linux.yml Show resolved Hide resolved
Comment on lines +259 to +279
# We need to exclude the thetaMode example since that has a different
# meshesPath and the JSON schema needs to hardcode that.
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Are we able to patch this in check.py?

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Not very easily. The JSON schema is on the file system and the single .json files refer to each other by their file names. Changing this would require (1) traversing the entire JSON schema and overriding the meshes path, the particles path and the references and (2) somehow setting up python-jsonschema to cross-reference in-memory schemas which I don't even know if it supports that, both at runtime of check.py.

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franzpoeschel commented Aug 17, 2023

Wondering a bit if validation of an XML backend would be easier.... not sure.

The major issue of the JSON schema approach is that it is not a predictive parser (https://en.wikipedia.org/wiki/Recursive_descent_parser), meaning that it deals with {"anyOf": [<option1>, <option2>, ...]}-like statements very naively. If there is an error somewhere deep down the hierarchy, the JSON schema just sees that all options have failed and cannot give any more details where the failure was.

If we want to seriously consider XML as an alternative, my opinion is that it must at least solve this particular issue .. which I doubt it can properly, since this involves a bit of parser theory and grammar transformation.

This job is better done by handwritten parsers, which the openPMD-api and the openPMD-validator are.

However, if we add an XML backend at some point, an XML schema is definitely at least worth a consideration.

@franzpoeschel franzpoeschel force-pushed the json-schema branch 2 times, most recently from bade114 to 09d8d96 Compare August 5, 2024 09:38
Written as .toml files for ease of documentation, maintailability and
readability.
Needed for "compiling" the schema to JSON
Also add a Makefile to further simplify this
The JSON schema verification package does not like that
Both of the form "data not found in places where data was expected"
Verify all JSON-openPMD files written by testing against the schema
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