Error "height out of expected interval" in sq.im.calculate_image_features

[shangl02]

I am new to this area: trying to load visium data preprocessed by spaceranger, and test the sq.im.calculate_image_features function.

Unfortunately, I got an "ValueError: Expected height to be in interval [0, 2000], found 5935. Did I miss something here?

adata_squidpy = sq.read.visium('/media/hpc/grid/wip_drm_targetsciences/projects/p051_senescence_esf/p03_mouse_20230502/Project_034_visium/Analysis/f01_raw/spaceranger_V12N30-107_A1')
sq.pl.spatial_scatter(adata_squidpy)

arr = adata_squidpy.uns['spatial']['spaceranger_V12N30-107_A1']['images']['hires']
img =  sq.im.ImageContainer(arr, layer="img1")

# calculate features for different scales (higher value means more context)
for scale in [1.0, 2.0]:
    feature_name = f"features_summary_scale{scale}"
    sq.im.calculate_image_features(
        adata_squidpy,
        img.compute(),
        features="summary",
        key_added=feature_name,
        n_jobs=4,
        scale=scale,
    )

...