Merge pull request NOAA-EMC#102 from jiandewang/feature/update-to-mai…

…n-20220820

update to MOM6 20220820 main branch

.codecov.yml

@@ -8,7 +8,3 @@ coverage:
             default:
                 threshold: 100%
                 base: parent
-comment:
-    # This is set to the number of TCs, plus unit, but can be removed
-    # (i.e. set to 1) when reporting is separated from coverage.
-    after_n_builds: 9

.github/actions/testing-setup/action.yml

@@ -32,7 +32,7 @@ runs:
       run: |
         echo "::group::Compile FMS library"
         cd .testing
-        make deps/lib/libFMS.a -s -j
+        REPORT_ERROR_LOGS=true make deps/lib/libFMS.a -s -j
         echo "::endgroup::"
 
     - name: Store compiler flags used in Makefile

.github/workflows/coverage.yml

@@ -3,16 +3,13 @@ name: Code coverage
 on: [push, pull_request]
 
 jobs:
-  build-test-nans:
+  build-coverage:
 
     runs-on: ubuntu-latest
     defaults:
       run:
         working-directory: .testing
 
-    env:
-      REPORT_COVERAGE: true
-
     steps:
     - uses: actions/checkout@v2
       with:
@@ -23,13 +20,29 @@ jobs:
     - uses: ./.github/actions/testing-setup
 
     - name: Compile unit testing
-      run: make -j build/unit/MOM6
+      run: make -j build/unit/MOM_unit_tests
 
     - name: Run unit tests
-      run: make unit.cov.upload
+      run: make run.cov.unit
+
+    - name: Report unit test coverage to CI (PR)
+      if: github.event_name == 'pull_request'
+      run: make report.cov.unit REQUIRE_COVERAGE_UPLOAD=true
+
+    - name: Report unit test coverage to CI (Push)
+      if: github.event_name != 'pull_request'
+      run: make report.cov.unit
 
-    - name: Compile MOM6 with code coverage
+    - name: Compile ocean-only MOM6 with code coverage
       run: make -j build/cov/MOM6
 
-    - name: Run and post coverage
-      run: make run.cov -k -s
+    - name: Run coverage tests
+      run: make -j -k run.cov
+
+    - name: Report coverage to CI (PR)
+      if: github.event_name == 'pull_request'
+      run: make report.cov REQUIRE_COVERAGE_UPLOAD=true
+
+    - name: Report coverage to CI (Push)
+      if: github.event_name != 'pull_request'
+      run: make report.cov

.gitmodules

@@ -1,6 +1,6 @@
 [submodule "pkg/CVMix-src"]
 	path = pkg/CVMix-src
-	url = https://github.com/CVMix/CVMix-src.git
+	url = https://github.com/mom-ocean/CVMix-src.git
 [submodule "pkg/GSW-Fortran"]
 	path = pkg/GSW-Fortran
-	url = https://github.com/TEOS-10/GSW-Fortran.git
+	url = https://github.com/mom-ocean/GSW-Fortran.git