Update CI workflows and add codecov.yml to avoid flaky dips in coverage

.github/actions/codecov/action.yml

@@ -14,7 +14,7 @@ runs:
       shell: bash
 
     - name: Upload coverage report to codecov.io
-      uses: codecov/codecov-action@v5.5.0
+      uses: codecov/codecov-action@v6
       with:
         token: ${{ inputs.codecov_token }}
         fail_ci_if_error: true

.github/workflows/camp.yml

@@ -8,7 +8,7 @@ jobs:
     runs-on: ubuntu-latest
 
     steps:
-    - uses: actions/checkout@v1
+    - uses: actions/checkout@v6
     - name: Build the testing docker image
       run: docker build -f Dockerfile.camp -t partmc-test .
     - name: Run the tests in the docker container

.github/workflows/cloud_parcel.yml

@@ -8,7 +8,7 @@ jobs:
     runs-on: ubuntu-latest
 
     steps:
-    - uses: actions/checkout@v1
+    - uses: actions/checkout@v6
     - name: Build the testing docker image
       run: docker build -f Dockerfile.cloud_parcel -t partmc-test .
     - name: Run the tests in the docker container

.github/workflows/doc.yml

@@ -14,7 +14,7 @@ jobs:
       contents: write
 
     steps:
-    - uses: actions/checkout@v3
+    - uses: actions/checkout@v6
     - name: Build the testing docker image
       run: docker build -t partmc-doc -f Dockerfile.doc .
     - name: Run container to generate docs

.github/workflows/images.yml

@@ -10,7 +10,7 @@ jobs:
     runs-on: ubuntu-latest
     steps:
       - name: Checkout
-        uses: actions/checkout@v2 # https://github.com/marketplace/actions/checkout
+        uses: actions/checkout@v6 # https://github.com/marketplace/actions/checkout
         with:
           fetch-depth: 0
       - name: Set up QEMU

.github/workflows/main.yml

@@ -8,7 +8,7 @@ jobs:
     runs-on: ubuntu-latest
 
     steps:
-    - uses: actions/checkout@v1
+    - uses: actions/checkout@v6
     - name: Build the testing docker image
       run: docker build -t partmc-test .
     - name: Run the tests in the docker container

.github/workflows/mpi.yml

@@ -8,7 +8,7 @@ jobs:
     runs-on: ubuntu-latest
 
     steps:
-    - uses: actions/checkout@v1
+    - uses: actions/checkout@v6
     - name: Build the testing docker image
       run: docker build -f Dockerfile.mpi -t partmc-test . 
     - name: Run the tests in the docker container

.github/workflows/tchem.yml.temporarily_off

@@ -8,7 +8,7 @@ jobs:
     runs-on: ubuntu-latest
 
     steps:
-    - uses: actions/checkout@v1
+    - uses: actions/checkout@v6
     - name: Build the testing docker image
       run: docker build -f Dockerfile.tchem -t partmc-test .
     - name: Run the tests in the docker container

codecov.yml

@@ -0,0 +1,10 @@
+coverage:
+  status:
+    project:
+      default:
+        target: auto
+        threshold: 1%
+    patch:
+      default:
+        target: auto
+        threshold: 1%