From dee5b120ab6bfcee1b73a8e35eff99bec9580e9d Mon Sep 17 00:00:00 2001
From: Davide Laghi <davide.laghi01@gmail.com>
Date: Thu, 8 Aug 2024 16:23:58 +0200
Subject: [PATCH 1/3] connect codecov

---
 .github/workflows/pytest.yml | 26 +++++++++++---------------
 README.md                    |  1 +
 2 files changed, 12 insertions(+), 15 deletions(-)

diff --git a/.github/workflows/pytest.yml b/.github/workflows/pytest.yml
index 1a9f55f6..3367abab 100644
--- a/.github/workflows/pytest.yml
+++ b/.github/workflows/pytest.yml
@@ -57,7 +57,7 @@ jobs:
         run: |
           set -o pipefail
           source /usr/local/Modules/init/sh
-          pytest --cov=. --cov-report html -cov-config=jade.coveragerc | tee pytest_output.log
+          pytest --cov=. --cov-report html -cov-config=jade.coveragerc --cov-report xml
         env:
           ACCESS_TOKEN_GITHUB: ${{ secrets.ACCESS_TOKEN_GITHUB }}
 
@@ -65,20 +65,16 @@ jobs:
       - name: Testing - Windows
         if: runner.os == 'Windows'
         run: |
-          pytest --cov=. --cov-report html -cov-config="jade.coveragerc" | tee pytest_output.log
+          pytest
         env:
           ACCESS_TOKEN_GITHUB: ${{ secrets.ACCESS_TOKEN_GITHUB }}
-
-      - name: Archive test results
-        if: always()
-        uses: actions/upload-artifact@v4
-        with:
-          name: pytest_output_${{matrix.os}}_${{matrix.python-version}}.log
-          path: pytest_output.log
-
-      - name: Archive test coverage
-        if: always()
-        uses: actions/upload-artifact@v4
+      
+      # Upload coverage to Codecov. Do it only for one case of the matrix.
+      - name: Upload coverage to Codecov
+        # do it only once for python 3.10
+        if: matrix.python-version == '3.11' && matrix.os == 'ubuntu-latest'
+        uses: codecov/codecov-action@v4
         with:
-          name: htmlcov${{matrix.os}}_${{matrix.python-version}}
-          path: htmlcov/
+          verbose: true
+        env:
+          CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }}
diff --git a/README.md b/README.md
index 04278625..126d9156 100644
--- a/README.md
+++ b/README.md
@@ -1,5 +1,6 @@
 [![Testing](https://github.com/JADE-V-V/JADE/actions/workflows/pytest.yml/badge.svg?branch=master)](https://github.com/JADE-V-V/JADE/actions/workflows/pytest.yml)
 [![Documentation Status](https://readthedocs.org/projects/jade-a-nuclear-data-libraries-vv-tool/badge/?version=latest)](https://jade-a-nuclear-data-libraries-vv-tool.readthedocs.io/en/latest/?badge=latest)
+[![codecov](https://codecov.io/gh/JADE-V-V/JADE/graph/badge.svg?token=C0Q75M9FVH)](https://codecov.io/gh/JADE-V-V/JADE)
 
 <img src="https://user-images.githubusercontent.com/25747626/118662537-5f124900-b7f0-11eb-8d69-282305f795c4.png" width="300" />
 

From fb285e2314600c52dd8be9d43470e61b82ef8aeb Mon Sep 17 00:00:00 2001
From: Davide Laghi <davide.laghi01@gmail.com>
Date: Thu, 8 Aug 2024 16:43:40 +0200
Subject: [PATCH 2/3] fix coverage config

---
 jade.coveragerc | 6 +++---
 1 file changed, 3 insertions(+), 3 deletions(-)

diff --git a/jade.coveragerc b/jade.coveragerc
index 3e0cf723..a2eccb31 100644
--- a/jade.coveragerc
+++ b/jade.coveragerc
@@ -2,9 +2,9 @@
 [run]
 omit =
     # No need to cover the test files
-    tests/*
+    */tests/*
     # The following are not developed directly by JADE
-    MCTAL_READER2.py
-    xsdirpyne.py
+    */MCTAL_READER2.py
+    */xsdirpyne.py
 [html]
 show_contexts = True
\ No newline at end of file

From b211844d20dcedc8ddf477567608e7a63af7b73d Mon Sep 17 00:00:00 2001
From: Davide Laghi <davide.laghi01@gmail.com>
Date: Thu, 8 Aug 2024 17:42:16 +0200
Subject: [PATCH 3/3] try ignore tests

---
 .github/workflows/pytest.yml | 2 +-
 codecov.yml                  | 3 +++
 2 files changed, 4 insertions(+), 1 deletion(-)
 create mode 100644 codecov.yml

diff --git a/.github/workflows/pytest.yml b/.github/workflows/pytest.yml
index 3367abab..c9ae67f5 100644
--- a/.github/workflows/pytest.yml
+++ b/.github/workflows/pytest.yml
@@ -57,7 +57,7 @@ jobs:
         run: |
           set -o pipefail
           source /usr/local/Modules/init/sh
-          pytest --cov=. --cov-report html -cov-config=jade.coveragerc --cov-report xml
+          pytest --cov=. -cov-config=jade.coveragerc --cov-report xml
         env:
           ACCESS_TOKEN_GITHUB: ${{ secrets.ACCESS_TOKEN_GITHUB }}
 
diff --git a/codecov.yml b/codecov.yml
new file mode 100644
index 00000000..8e060694
--- /dev/null
+++ b/codecov.yml
@@ -0,0 +1,3 @@
+# sample regex patterns
+ignore:
+  - "tests"  # ignore folders and all its contents
\ No newline at end of file