Fix nox

Signed-off-by: zethson <[email protected]>
scverse · Jan 26, 2023 · 54b7f30 · 54b7f30
1 parent 3a506f0
commit 54b7f30
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Showing 2 changed files with 13 additions and 4 deletions.
diff --git a/pertpy/tools/_base_coda.py b/pertpy/tools/_base_coda.py
@@ -1383,11 +1383,11 @@ def from_scanpy(
     if covariate_obs:
         covariate_obs += sample_identifier
     else:
-        covariate_obs = sample_identifier
+        covariate_obs = sample_identifier  # type: ignore
 
     # join sample identifiers
     if type(sample_identifier) == list:
-        adata.obs["scCODA_sample_id"] = adata.obs[sample_identifier].agg('-'.join, axis=1)
+        adata.obs["scCODA_sample_id"] = adata.obs[sample_identifier].agg("-".join, axis=1)
         sample_identifier = "scCODA_sample_id"
 
     # get cell type counts

diff --git a/pertpy/tools/_mixscape.py b/pertpy/tools/_mixscape.py
@@ -383,8 +383,17 @@ def lda(
             return adata
 
     def _get_perturbation_markers(
-        self, adata, split_masks, categories, labels, control, layer, pval_cutoff, min_de_genes, logfc_threshold
-    ):
+        self,
+        adata: AnnData,
+        split_masks: list[np.ndarray],
+        categories: list[str],
+        labels: str,
+        control: str,
+        layer: str,
+        pval_cutoff: float,
+        min_de_genes: float,
+        logfc_threshold: float,
+    ) -> dict[tuple, np.ndarray]:
         """determine gene sets across all splits/groups through differential gene expression
 
         Args: