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to_restart: fix _FillValue incompatibility #349

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Merged
mikekryjak merged 1 commit into from
Jun 15, 2026
Merged

to_restart: fix _FillValue incompatibility #349

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12 changes: 12 additions & 0 deletions xbout/boutdataset.py
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Original file line number Diff line number Diff line change
Expand Up @@ -999,12 +999,24 @@ def to_restart(
self.data, variables, savepath, nxpe, nype, tind, prefix, overwrite
)

# Xarray sets _FillValue=NaN by default for floating-point variables,
# but BOUT++ rewrites restart-file attributes after writing data, which
# NetCDF does not allow for _FillValue. Disable that default here.
restart_encoding = {}
if restart_datasets:
restart_encoding = {
name: {"_FillValue": None}
for name, variable in restart_datasets[0].variables.items()
if np.issubdtype(variable.dtype, np.floating)
}

with ProgressBar():
xr.save_mfdataset(
restart_datasets,
paths,
compute=True,
engine=_check_filetype(paths[0]),
encoding=restart_encoding,
)

def animate_list(
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