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sgkit-dev / bio2zarr

Convert bioinformatics file formats to Zarr
Apache License 2.0
24 stars 6 forks source link

Returning a string from `.mkschema` #220

Closed hyanwong closed 3 months ago

hyanwong commented 3 months ago

It might be handy if the (undocumented) vcf2zarr.mkschema command returned the schema as a string if the second ("out") argument isn't given. You could then have a schema argument to pass this in to vcf2zarr.encode (it would then be an error to specify both schema and schema_path).

This would allow neater alteration of the schema programatically.

jeromekelleher commented 3 months ago

We'll probably want to have richer tools for working with schemas generally.

Like I say, the Python API just exists to support the CLI currently, I would actively discourage anyone from using it for anything.

Given this, I'm going to close this as "wontfix" (and open an issue to document the Python API status prominently)