Merge pull request #58 from CSOgroup/test-data-git-lfs

Use Git LFS for test data
CSOgroup · Nov 7, 2024 · db98e5b · db98e5b
2 parents 5f5533f + 92d79d4
commit db98e5b
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Showing 4 changed files with 8 additions and 1 deletion.
diff --git a/.gitattributes b/.gitattributes
@@ -0,0 +1 @@
+tests/_data/codex_adata.h5ad filter=lfs diff=lfs merge=lfs -text
diff --git a/.github/workflows/test.yaml b/.github/workflows/test.yaml
@@ -42,6 +42,9 @@ jobs:
 
     steps:
       - uses: actions/checkout@v3
+        with:
+          lfs: true # Ensure LFS files are fetched
+
       - name: Set up Python ${{ matrix.python }}
         uses: actions/setup-python@v4
         with:

diff --git a/tests/_data/codex_adata.h5ad b/tests/_data/codex_adata.h5ad
diff --git a/tests/conftest.py b/tests/conftest.py
@@ -23,5 +23,5 @@ def adata() -> ad.AnnData:
 
 @pytest.fixture()
 def codex_adata() -> ad.AnnData:
-    adata = sc.read("tests/_data/codex_adata.h5ad", backup_url="https://figshare.com/ndownloader/files/46832722")
+    adata = sc.read("tests/_data/codex_adata.h5ad")
     return adata[adata.obs["sample"].isin(["BALBc-1", "MRL-5"])].copy()
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		@@ -0,0 +1 @@
		tests/_data/codex_adata.h5ad filter=lfs diff=lfs merge=lfs -text