From 92c2bdea72bed6e9af09b40b82ee8dc6f0b3d566 Mon Sep 17 00:00:00 2001
From: matt garber <Matthew.Garber@childrens.harvard.edu>
Date: Fri, 19 Jul 2024 12:43:07 -0400
Subject: [PATCH] Added CI coverage report (#118)

* Added CI coverage report

* update action to 3.2
---
 .github/workflows/ci.yaml | 25 +++++++++++++++++++++++--
 pyproject.toml            |  1 +
 2 files changed, 24 insertions(+), 2 deletions(-)

diff --git a/.github/workflows/ci.yaml b/.github/workflows/ci.yaml
index 66a5606..389661c 100644
--- a/.github/workflows/ci.yaml
+++ b/.github/workflows/ci.yaml
@@ -1,5 +1,13 @@
 name: CI
-on: [push]
+on: 
+  pull_request:
+    paths-ignore:
+      - 'docs/**' 
+  push:
+    branches:
+      - main
+    paths-ignore:
+      - 'docs/**'
 jobs:
   unittest:
     name: unit tests
@@ -18,7 +26,20 @@ jobs:
           pip install ".[test]"
       - name: Test with pytest
         run: |
-          export AWS_DEFAULT_REGION=us-east-1; python -m pytest
+          export AWS_DEFAULT_REGION=us-east-1; python -m pytest --cov-report xml --cov=src tests
+
+      - name: Log missing coverage
+        run: |
+          coverage report -m --skip-covered
+      - name: Generate coverage report
+        if: github.ref != 'refs/heads/main'
+        uses: orgoro/coverage@v3.2
+        with:
+            coverageFile: coverage.xml
+            token: ${{ secrets.GITHUB_TOKEN }}
+            thresholdAll: .9
+            thresholdNew: 1
+            thresholdModified: .95
 
   lint:
     runs-on: ubuntu-22.04
diff --git a/pyproject.toml b/pyproject.toml
index ae49140..276cdd6 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -43,6 +43,7 @@ test = [
     "freezegun",
     "moto[s3,athena,sns] == 4.1.5",
     "pytest",
+    "pytest-cov",
     "pytest-mock"
 ]
 dev = [