Save conversion options in output file

[balbasty]

Should we save the options passed to the converter? I guess some of them are intrinsically stored in the zarr (all the chunking options and stuff), but maybe the full command should be also stored nonethless?

[calvinchai]

How about store the whole log including the full command aside the output zarr file?

[balbasty]

dcm2niix (a widely used software to convert DICOM data to BIDS) saves itself in the sidecar json file of the converted file, using keys "ConversionSoftware" and "ConversionSoftwareVersion". We should do the same. We could also add "ConversionSoftwareOptions" and save the arguments as a JSON.

See: https://github.com/rordenlab/dcm2niix/tree/master/BIDS

This makes me think that we should write BIDS-compatible sidecar JSON's for most of these files. But we need data-generating sites to provide us with proper metadata. I'll open another issue for this.

See: https://bids-specification.readthedocs.io/en/stable/modality-specific-files/microscopy.html#microscopy-metadata-sidecar-json