☰ Choose Image
Dimensions (X x Y x Z x C x T)
$ build/bioformats2raw-0.2.1/bin/bioformats2raw \
  --file_type=zarr \
  --dimension-order=XYZCT \
  a.fake \
  output

$ find output
output
output/METADATA.ome.xml
output/data.zarr
output/data.zarr/.zattrs
output/data.zarr/.zgroup
output/data.zarr/0
output/data.zarr/0/.zattrs
output/data.zarr/0/.zgroup
output/data.zarr/0/0
output/data.zarr/0/0/0.0.0.0.0
output/data.zarr/0/0/.zarray
output/data.zarr/0/1
output/data.zarr/0/1/0.0.0.0.0
output/data.zarr/0/1/.zarray

$ mv output/data.zarr/0 /data/v0.1/6001240.zarr
                
$ pip install awscli

# upload
aws --endpoint-url https://s3.embassy.ebi.ac.uk cp \
    --acl public-read --recursive \
    /data/v0.1/6001240.zarr/  \
    s3://idr/zarr/v0.1/6001240.zarr

# download
$ aws --endpoint-url --no-sign-request \
    https://s3.embassy.ebi.ac.uk \
    s3 cp --recursive s3://idr/zarr/v0.1/6001240.zarr \
    /tmp/
$ git clone -b v0.1.1 git://github.com/ome/omero-ms-zarr
$ gradle build -x test
$ cat <<EOF > cfg
omero.data.dir=/tmp/ome1
omero.db.name=ome1
omero.db.user=postgres
omero.ms.zarr.net.path.image=/idr/zarr/v0.1/6001240.zarr/
EOF
$ gradle run --args=cfg
# https://workshop.openmicroscopy.org/image/6001240.zarr
$ pip install ome-zarr

$ ome_zarr download https://s3.embassy.ebi.ac.uk/6001240.zarr
$ ome_zarr info 6001240.zarr
url = 'https://s3.embassy.ebi.ac.uk/6001240.zarr'
zarr = ome_zarr.parse_url(url)
zarr.is_ome_zarr()
data = zarr.load_ome_zarr()
pyramid = data[0]
$ napari 'https://s3.embassy.ebi.ac.uk/6001240.zarr'
from dask.diagnostics import ProgressBar
import dask.array as da
import numpy as np

with ProgressBar():
    array = "https://s3.embassy.ebi.ac.uk/6001240.zarr/1"
    print(np.asarray(da.from_zarr(array)))

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