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Fix: fetch specific label from gii labels #574

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merged 3 commits into from
Mar 1, 2024
Merged

Fix: fetch specific label from gii labels #574

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23f39f2
Fix: fetch specific label from gii labels
AhmetNSimsek Mar 1, 2024
a1d076d
`GiftiSurfaceLabeling.fetch(label)` e2e test
AhmetNSimsek Mar 1, 2024
342974e
giilabel - Mask should only contain 0 and 1
AhmetNSimsek Mar 1, 2024
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9 changes: 7 additions & 2 deletions siibra/volumes/providers/gifti.py
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Original file line number Diff line number Diff line change
Expand Up @@ -134,14 +134,19 @@ def __init__(self, url: Union[str, dict]):
else:
raise NotImplementedError(f"Urls for {self.__class__.__name__} are expected to be of type str or dict.")

def fetch(self, fragment: str = None, **kwargs):
def fetch(self, fragment: str = None, label: int = None, **kwargs):
"""Returns a 1D numpy array of label indices."""
labels = []
for fragment_name, loader in self._loaders.items():
if fragment is not None and fragment.lower() not in fragment_name.lower():
continue
assert len(loader.data.darrays) == 1
labels.append(loader.data.darrays[0].data)
if label is not None:
labels.append(
((loader.data.darrays[0].data == label) * label).astype('uint8')
)
else:
labels.append(loader.data.darrays[0].data)

return {"labels": np.hstack(labels)}

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