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Add kwargs to get_features #294

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Mar 26, 2024
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Add kwargs to get_features #294

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11 changes: 3 additions & 8 deletions fmcib/run.py
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Original file line number Diff line number Diff line change
Expand Up @@ -9,12 +9,7 @@
from .preprocessing import get_dataloader


def get_features(
csv_path,
weights_path=None,
spatial_size=(50, 50, 50),
precropped=False,
):
def get_features(csv_path, weights_path=None, spatial_size=(50, 50, 50), precropped=False, **kwargs):
"""
Extracts features from images specified in a CSV file.

Expand All @@ -23,13 +18,13 @@ def get_features(
weights_path (str, optional): Path to the pre-trained weights file. Default is None.
spatial_size (tuple, optional): Spatial size of the input images. Default is (50, 50, 50).
precropped (bool, optional): Whether the images are already pre-cropped. Default is False.

**kwargs: Additional arguments to be passed to the dataloader.
Returns:
pandas.DataFrame: DataFrame containing the original data from the CSV file along with the extracted features.
"""
logger.info("Loading CSV file ...")
df = pd.read_csv(csv_path)
dataloader = get_dataloader(csv_path, spatial_size=spatial_size, precropped=precropped)
dataloader = get_dataloader(csv_path, spatial_size=spatial_size, precropped=precropped, **kwargs)
device = "cuda" if torch.cuda.is_available() else "cpu"

if weights_path is None:
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