Makes the minimal set of changes allowing to re-use the existing infrastructure with bioformats2raw 0.5.0rc2 to generate OME-NGFF including:
bioformats2raw writing OME-NGFF HCS as defined by the OME-NGFF 0.4 specification, including the bioformat2raw layout with the OME metadata defined https://github.com/ome/ngff/pull/112
an extra step appending the OMERO metadata to each field of view
To do:
[ ] current test use --bfpath as the order of getImportedImageFilePaths is not guaranteed and cannot be used directly with bioformats2raw
[ ] review plate_to_zarr which is updated to allow overwriting the metadata only without rewriting the logic in a separate function.
Fixes #85
Makes the minimal set of changes allowing to re-use the existing infrastructure with bioformats2raw 0.5.0rc2 to generate OME-NGFF including:
To do:
--bfpathas the order ofgetImportedImageFilePathsis not guaranteed and cannot be used directly withbioformats2rawplate_to_zarrwhich is updated to allow overwriting the metadata only without rewriting the logic in a separate function.