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Use Git LFS for test data #58

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merged 3 commits into from
Nov 7, 2024
Merged

Use Git LFS for test data #58

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11b3004
Add test data using Git LFS
marcovarrone Nov 7, 2024
6c95f98
Load test data from Git LFS
marcovarrone Nov 7, 2024
92d79d4
[pre-commit.ci] auto fixes from pre-commit.com hooks
pre-commit-ci[bot] Nov 7, 2024
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1 change: 1 addition & 0 deletions .gitattributes
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Original file line number Diff line number Diff line change
@@ -0,0 +1 @@
tests/_data/codex_adata.h5ad filter=lfs diff=lfs merge=lfs -text
3 changes: 3 additions & 0 deletions .github/workflows/test.yaml
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Expand Up @@ -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:
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3 changes: 3 additions & 0 deletions tests/_data/codex_adata.h5ad
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Git LFS file not shown
2 changes: 1 addition & 1 deletion tests/conftest.py
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Expand Up @@ -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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