fix bugs perturbation nb

theislab · Jun 18, 2024 · 4cdb6d0 · 4cdb6d0
1 parent d79e1f0
commit 4cdb6d0
Show file tree

Hide file tree

Showing 3 changed files with 3 additions and 2 deletions.
diff --git a/docs/tutorials/scgen_perturbation_prediction.ipynb b/docs/tutorials/scgen_perturbation_prediction.ipynb
@@ -96,7 +96,7 @@
    "outputs": [],
    "source": [
     "train_new = train[~((train.obs[\"cell_type\"] == \"CD4T\") &\n",
-    "                    (train.obs[\"condition\"] == \"stimulated\"))]"
+    "                    (train.obs[\"condition\"] == \"stimulated\"))].copy()"
    ]
   },
   {

diff --git a/pyproject.toml b/pyproject.toml
@@ -55,6 +55,7 @@ scanpydoc = {version = ">=0.5", optional = true}
 scikit-misc = {version = ">=0.1.3", optional = true}
 scvi-tools = ">=0.20.0"
 seaborn = ">=0.11"
+numpy = "<2.0.0"
 sphinx = {version = ">=4.1,<4.4", optional = true}
 sphinx-autodoc-typehints = {version = "*", optional = true}
 sphinx-material = {version = "*", optional = true}

diff --git a/scgen/_scgen.py b/scgen/_scgen.py
@@ -447,7 +447,7 @@ def reg_mean_plot(
                 x=x,
                 y=y,
                 arrowprops=dict(arrowstyle="->", color="grey", lw=0.5),
-                force_points=(0.0, 0.0),
+                force_static=(0.0, 0.0),
             )
         if legend:
             pyplot.legend(loc="center left", bbox_to_anchor=(1, 0.5))