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fix prefetch in cached omezarr data module #326

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Merged
ziw-liu merged 1 commit into from
Oct 17, 2025
Merged

fix prefetch in cached omezarr data module #326

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8 changes: 6 additions & 2 deletions viscy/data/gpu_aug.py
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Original file line number Diff line number Diff line change
Expand Up @@ -203,8 +203,10 @@ class CachedOmeZarrDataModule(GPUTransformDataModule, SelectWell):
Skip caching for this dataset, by default False
include_wells : list[str], optional
List of well names to include in the dataset, by default None (all)
include_wells : list[str], optional
List of well names to include in the dataset, by default None (all)
exclude_fovs : list[str], optional
List of fovs names to exclude from the dataset, by default None (none)
prefetch_factor : int | None, optional
Number of batches loaded in advance by each worker.
"""

def __init__(
Expand All @@ -222,6 +224,7 @@ def __init__(
skip_cache: bool = False,
include_wells: list[str] | None = None,
exclude_fovs: list[str] | None = None,
prefetch_factor: int | None = None,
):
super().__init__()
self.data_path = data_path
Expand All @@ -237,6 +240,7 @@ def __init__(
self.skip_cache = skip_cache
self._include_wells = include_wells
self._exclude_fovs = exclude_fovs
self.prefetch_factor = prefetch_factor

@property
def train_cpu_transforms(self) -> Compose:
Expand Down