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Try import and use zarr v3 OR zarr v2 #24

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Try import and use zarr v3 OR zarr v2 #24

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23 changes: 18 additions & 5 deletions metadata/register.py
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Original file line number Diff line number Diff line change
Expand Up @@ -22,6 +22,15 @@
from urllib.parse import urlsplit
import zarr

FsspecStore = None
FSStore = None
try:
# zarr >= 3.0.0
from zarr.storage import FsspecStore
except ImportError:
# zarr 2
from zarr.storage import FSStore

import argparse

from numpy import iinfo, finfo
Expand Down Expand Up @@ -552,10 +561,13 @@ def main():
if endpoint:
storage_options['client_kwargs'] = {'endpoint_url': endpoint}

store = zarr.storage.FsspecStore.from_url(uri,
read_only=True,
storage_options=storage_options
)
if FsspecStore is not None:
store = FsspecStore.from_url(uri,
read_only=True,
storage_options=storage_options
)
else:
store = FSStore(uri, mode='r', **storage_options)

zattrs = load_attrs(store)
objs = []
Expand All @@ -572,7 +584,8 @@ def main():
print("Checking for series:", series)
obj = register_image(conn, store, args, None, image_path=str(series))
objs.append(obj)
except FileNotFoundError:
except:
# FileNotFoundError (zarr v3) or zarr.errors.PathNotFoundError (zarr v2)
series_exists = False
series += 1
else:
Expand Down