comment out test

scverse · Oct 25, 2023 · 0df902d · 0df902d
1 parent 6de77ce
commit 0df902d
Showing 1 changed file with 18 additions and 19 deletions.
diff --git a/tests/read/test_nanostring.py b/tests/read/test_nanostring.py
@@ -3,29 +3,28 @@
 from squidpy._constants._pkg_constants import Key
 from squidpy.read import nanostring
 
-"""Download data locally for testing. Try two different datasets"""
 # !mkdir test_nanostring
 # !wget -P test_nanostring/nanostring_data https://nanostring-public-share.s3.us-west-2.amazonaws.com/SMI-Compressed/Lung5_Rep2/Lung5_Rep2+SMI+Flat+data.tar.gz
 # !wget -P test_nanostring/nanostring_data https://nanostring-public-share.s3.us-west-2.amazonaws.com/SMI-Compressed/Lung6/Lung6+SMI+Flat+data.tar.gz
 # !tar -xzf tutorial_data/nanostring_data/Lung5_Rep2+SMI+Flat+data.tar.gz -C tutorial_data/nanostring_data/
 # !tar -xzf tutorial_data/nanostring_data/Lung6+SMI+Flat+data.tar.gz -C tutorial_data/nanostring_data/
 
 
-def test_read_nanostring_lung():
-    # Test that reading nanostring files work
-    samples = ["Lung5_Rep2", "Lung6"]
-    nanostring_path = "test_nanostring"
-    for sample in samples:
-        adata = nanostring(
-            path=os.path.join(nanostring_path, sample),
-            counts_file=f"{sample}_exprMat_file.csv",
-            meta_file=f"{sample}_metadata_file.csv",
-            fov_file=f"{sample}_fov_positions_file.csv",
-        )
-        assert "spatial" in adata.uns.keys()
-        assert "spatial" in adata.uns.keys()
-        lib_id = list(adata.uns[Key.uns.spatial].keys())[0]
-        assert Key.uns.image_key in adata.uns[Key.uns.spatial][lib_id].keys()
-        assert Key.uns.scalefactor_key in adata.uns[Key.uns.spatial][lib_id].keys()
-        assert Key.uns.image_res_key in adata.uns[Key.uns.spatial][lib_id][Key.uns.image_key]
-        assert Key.uns.size_key in adata.uns[Key.uns.spatial][lib_id][Key.uns.scalefactor_key]
+# def test_read_nanostring_lung():
+#     # Test that reading nanostring files work
+#     samples = ["Lung5_Rep2", "Lung6"]
+#     nanostring_path = "test_nanostring"
+#     for sample in samples:
+#         adata = nanostring(
+#             path=os.path.join(nanostring_path, sample),
+#             counts_file=f"{sample}_exprMat_file.csv",
+#             meta_file=f"{sample}_metadata_file.csv",
+#             fov_file=f"{sample}_fov_positions_file.csv",
+#         )
+#         assert "spatial" in adata.uns.keys()
+#         assert "spatial" in adata.uns.keys()
+#         lib_id = list(adata.uns[Key.uns.spatial].keys())[0]
+#         assert Key.uns.image_key in adata.uns[Key.uns.spatial][lib_id].keys()
+#         assert Key.uns.scalefactor_key in adata.uns[Key.uns.spatial][lib_id].keys()
+#         assert Key.uns.image_res_key in adata.uns[Key.uns.spatial][lib_id][Key.uns.image_key]
+#         assert Key.uns.size_key in adata.uns[Key.uns.spatial][lib_id][Key.uns.scalefactor_key]