chore: troubleshooting CI

noamteyssier · Oct 3, 2024 · a1b612c · a1b612c
1 parent b49cf73
commit a1b612c
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Showing 2 changed files with 11 additions and 14 deletions.
diff --git a/.github/workflows/CI.yml b/.github/workflows/CI.yml
@@ -2,8 +2,8 @@ name: Python Package CI
 
 on: [push]
 
-env:
-  UV_SYSTEM_PYTHON: 1
+# env:
+#   UV_SYSTEM_PYTHON: 1
 
 jobs:
   ci:
@@ -39,24 +39,21 @@ jobs:
         run: |
           uv sync --all-extras --dev
 
-      - name: Activate venv
-        run: |
-          source .venv/bin/activate
+      # - name: Activate venv
+      #   run: |
+      #     source .venv/bin/activate
 
       - name: Test with pytest
         run: |
-          source .venv/bin/activate
-          pytest -v
+          uv run pytest -v
 
       - name: Test table io from commandline
         run: |
-          source .venv/bin/activate
-          geomux -i example/example.tsv.gz -o results_table.tab
+          uv run geomux -i example/example.tsv.gz -o results_table.tab
 
       - name: Test adat io from commandline
         run: |
-          source .venv/bin/activate
-          geomux -i example/example.h5ad -o results_table.tab
+          uv run geomux -i example/example.h5ad -o results_table.tab
 
   # ostest:
   #   runs-on: ${{ matrix.os }}

diff --git a/uv.lock b/uv.lock