`anndataToGiotto` fails to load from H5AD

[xw363]

Hi, I encountered a warning and an error when loading an AnnData object using anndataToGiotto():

> giotto.obj <- anndataToGiotto(data_path)
...
Warning: Key 'connectivities' not found in adata.uns.
Error in py_call_impl(callable, call_args$unnamed, call_args$named) : 
  TypeError: 'NoneType' object is not subscriptable
Run `reticulate::py_last_error()` for details.

> reticulate::py_last_error()

── Python Exception Message ────────────────────────────────────────────────────────────────────────────────────────────────────
Traceback (most recent call last):
  File "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/GiottoClass/python/ad2g.py", line 322, in align_network_data
    w_nz = weights[idx_dist_not_sparse].astype(float)
TypeError: 'NoneType' object is not subscriptable

── R Traceback ─────────────────────────────────────────────────────────────────────────────────────────────────────────────────
    ▆
 1. └─GiottoClass::anndataToGiotto(data_path)
 2.   └─reticulate (local) align_network_data(distances = weights_ad, weights = distances_ad)
 3.     └─reticulate:::py_call_impl(callable, call_args$unnamed, call_args$named)
See `reticulate::py_last_error()$r_trace$full_call` for more details.

The AnnData object was first converted from a Xenium dataset using the spatialdata Python package and then processed using Scanpy (but not Giotto). Since the error seems to be related to nearest neighbor networks, I am also listing relevant info below:

> adata.uns['neighbors']
'connectivities_key': 'connectivities',
 'distances_key': 'distances',
 'params': {'method': 'umap',
  'metric': 'euclidean',
  'n_neighbors': 15,
  'n_pcs': 20,
  'random_state': 0}}

> adata.obsp
PairwiseArrays with keys: connectivities, distances

> adata.obsp['connectivities']
<Compressed Sparse Row sparse matrix of dtype 'float32'
	with 20864442 stored elements and shape (960632, 960632)>

> adata.obsp['distances']
<Compressed Sparse Row sparse matrix of dtype 'float32'
	with 15370112 stored elements and shape (960632, 960632)>

Software versions:

• R: 4.4.3
• Giotto: 4.2.2
• GiottoClass: 0.4.9