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Adjust io.load_nifti_get_mask to expect 4 dimensions in timeseries and 3 in masks by default #48

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merged 1 commit into from
Dec 23, 2022
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Adjust io.load_nifti_get_mask to expect 4 dimensions in timeseries and 3 in masks by default #48

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10 changes: 8 additions & 2 deletions nigsp/io.py
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Original file line number Diff line number Diff line change
Expand Up @@ -193,8 +193,10 @@ def load_nifti_get_mask(fname, is_mask=False, ndim=4):
is_mask : bool, optional
If the file contains a mask.
Default: False
ndim : int
The number of dimensions expected in the mask
ndim : int or None, optional
The number of dimensions expected in the data.
If None (default), 4 dimensions are expected, unless is_mask=True.
In the latter case, 3 dimensions will be checked.

Returns
-------
Expand All @@ -220,6 +222,10 @@ def load_nifti_get_mask(fname, is_mask=False, ndim=4):
LGR.info(f"Loading {fname}.")
img = nib.load(fname)
data = img.get_fdata()

if ndim is None:
ndim = 3 if is_mask else 4

data = check_nifti_dim(fname, data, dim=ndim)

if is_mask:
Expand Down