Use backed mode for reading anndatas through CLI

nictru · nictru · commit 6fb8f5005bdb · 2025-04-10T18:53:46.000+02:00
diff --git a/pyproject.toml b/pyproject.toml
@@ -1,6 +1,6 @@
 [project]
 name = "hugo-unifier"
-version = "0.2.1"
+version = "0.2.2"
 description = "Python package that can unify gene symbols across datasets based on the HUGO database."
 readme = "README.md"
 authors = [
diff --git a/src/hugo_unifier/main.py b/src/hugo_unifier/main.py
@@ -54,7 +54,7 @@ def get(input, outdir):
     # Build a dictionary from file names and adata.var.index
     symbols_dict = {}
     for file_path in input:
-        adata = ad.read_h5ad(file_path)
+        adata = ad.read_h5ad(file_path, backed="r")
         file_name = os.path.basename(file_path)
         symbols_dict[file_name] = adata.var.index.tolist()
 
diff --git a/uv.lock b/uv.lock
