update for scipy 1.14 (#214)

* remove .A * adds release note
scverse · Jun 25, 2024 · 2e7d71f · 2e7d71f
1 parent b4785d7
commit 2e7d71f
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diff --git a/docs/release-notes/0.10.6.md b/docs/release-notes/0.10.6.md
@@ -8,6 +8,7 @@
 
 ```{rubric} Bug fixes
 ```
+ * removes `.A` to be compatible with scipy 1.14.0 {pr}`214` {smaller}`S Dicks`
 
 ```{rubric} Misc
 ```
diff --git a/src/rapids_singlecell/decoupler_gpu/_method_mlm.py b/src/rapids_singlecell/decoupler_gpu/_method_mlm.py
@@ -50,7 +50,7 @@ def mlm(mat, net, batch_size=10000, verbose=False):
         for i in tqdm(range(n_batches), disable=not verbose):
             # Subset batch
             srt, end = i * batch_size, i * batch_size + batch_size
-            y = mat[srt:end].A.T
+            y = mat[srt:end].toarray().T
 
             # Compute MLM for batch
             es[srt:end] = fit_mlm(net, cp.array(y), inv, df)[:, 1:]

diff --git a/src/rapids_singlecell/decoupler_gpu/_method_wsum.py b/src/rapids_singlecell/decoupler_gpu/_method_wsum.py
@@ -66,7 +66,7 @@ def wsum(mat, net, times, batch_size, seed, verbose):
         for i in tqdm(range(n_batches), disable=not verbose):
             # Subset batch
             srt, end = i * batch_size, i * batch_size + batch_size
-            tmp = mat[srt:end].A
+            tmp = mat[srt:end].toarray()
 
             # Run WSUM