Merge pull request #1224 from effigies/ci/codecov-mess

MNT: Fix CI codecov submission

Author: effigies

.github/workflows/misc.yml

@@ -59,9 +59,6 @@ jobs:
       - name: Run tests
         run: tools/ci/check.sh
         if: ${{ matrix.check != 'skiptests' }}
-      - name: Submit coverage
-        run: tools/ci/submit_coverage.sh
-        if: ${{ always() }}
       - name: Upload pytest test results
         uses: actions/upload-artifact@v3
         with:

.github/workflows/pre-release.yml

@@ -87,9 +87,10 @@ jobs:
       - name: Run tests
         run: tools/ci/check.sh
         if: ${{ matrix.check != 'skiptests' }}
-      - name: Submit coverage
-        run: tools/ci/submit_coverage.sh
+      - uses: codecov/codecov-action@v3
         if: ${{ always() }}
+        with:
+          files: cov.xml
       - name: Upload pytest test results
         uses: actions/upload-artifact@v3
         with:

.github/workflows/stable.yml

@@ -181,9 +181,10 @@ jobs:
       - name: Run tests
         if: ${{ matrix.check != 'skiptests' }}
         run: tools/ci/check.sh
-      - name: Submit coverage
+      - uses: codecov/codecov-action@v3
         if: ${{ always() }}
-        run: tools/ci/submit_coverage.sh
+        with:
+          files: cov.xml
       - name: Upload pytest test results
         if: ${{ always() && matrix.check == 'test' }}
         uses: actions/upload-artifact@v3

tools/ci/check.sh

@@ -23,7 +23,7 @@ elif [ "${CHECK_TYPE}" == "test" ]; then
     mkdir for_testing
     cd for_testing
     cp ../.coveragerc .
-    pytest --doctest-modules --doctest-plus --cov nibabel --cov-report xml \
+    pytest --doctest-modules --doctest-plus --cov nibabel --cov-report xml:../cov.xml \
         --junitxml=test-results.xml -v --pyargs nibabel -n auto
 elif [ "${CHECK_TYPE}" == "typing" ]; then
     mypy nibabel