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Add zarr.zip handling #86

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Merged
DamienIrving merged 1 commit into from
May 30, 2025
Merged

Add zarr.zip handling #86

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20 changes: 16 additions & 4 deletions unseen/fileio.py
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Original file line number Diff line number Diff line change
Expand Up @@ -12,6 +12,7 @@
import yaml
import xarray as xr
import zipfile
import zarr

from . import array_handling
from . import dask_setup
Expand Down Expand Up @@ -67,8 +68,8 @@ def open_dataset(
----------
infiles : str or list
Input file path/s
file_format : str, optional
Formats/engines accepted by xarray.open_dataset (e.g. netcdf4, zarr, cfgrid).
file_format : {"netcdf4", "zarr", "zarr.zip"}, optional
Formats/engines accepted by xarray.open_dataset.
Estimated if not provided.
chunks : dict, optional
Chunks for xarray.open_mfdataset
Expand Down Expand Up @@ -158,8 +159,17 @@ def open_dataset(

preprocess = time_utils.switch_calendar if standard_calendar else None
engine = file_format if file_format else _guess_file_format(infiles)
if engine == "zarr.zip":
if isinstance(infiles, list):
infiles_io = [zarr.storage.ZipStore(infile, mode="r") for infile in infiles]
else:
infiles_io = zarr.storage.ZipStore(infiles, mode="r")
engine = "zarr"
else:
infiles_io = infiles

ds = xr.open_mfdataset(
infiles, engine=engine, preprocess=preprocess, use_cftime=True, chunks=chunks
infiles_io, engine=engine, preprocess=preprocess, use_cftime=True, chunks=chunks
)

# Metadata
Expand Down Expand Up @@ -537,7 +547,7 @@ def _guess_file_format(file_names):

Returns
-------
file_format : {'netcdf4', 'zarr'}
file_format : {'netcdf4', 'zarr', 'zarr.zip'}

Raises
------
Expand All @@ -553,6 +563,8 @@ def _guess_file_format(file_names):

if ".nc" in file_name:
file_format = "netcdf4"
elif ".zarr.zip" in file_name:
file_format = "zarr.zip"
elif ".zarr" in file_name:
file_format = "zarr"
else:
Expand Down
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