From 30ec85ce20bbfe4335d378cc46f22f0063ce505f Mon Sep 17 00:00:00 2001
From: Dax Kellie <dax.kellie@csiro.au>
Date: Thu, 26 Oct 2023 10:48:03 +1100
Subject: [PATCH] Add codecov files

---
 .github/workflows/test-coverage.yaml | 50 ++++++++++++++++++++++++++++
 README.Rmd                           |  4 +--
 codecov.yml                          | 13 ++++++++
 3 files changed, 65 insertions(+), 2 deletions(-)
 create mode 100644 .github/workflows/test-coverage.yaml

diff --git a/.github/workflows/test-coverage.yaml b/.github/workflows/test-coverage.yaml
new file mode 100644
index 00000000..2c5bb502
--- /dev/null
+++ b/.github/workflows/test-coverage.yaml
@@ -0,0 +1,50 @@
+# Workflow derived from https://github.com/r-lib/actions/tree/v2/examples
+# Need help debugging build failures? Start at https://github.com/r-lib/actions#where-to-find-help
+on:
+  push:
+    branches: [main, master]
+  pull_request:
+    branches: [main, master]
+
+name: test-coverage
+
+jobs:
+  test-coverage:
+    runs-on: ubuntu-latest
+    env:
+      GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
+
+    steps:
+      - uses: actions/checkout@v3
+
+      - uses: r-lib/actions/setup-r@v2
+        with:
+          use-public-rspm: true
+
+      - uses: r-lib/actions/setup-r-dependencies@v2
+        with:
+          extra-packages: any::covr
+          needs: coverage
+
+      - name: Test coverage
+        run: |
+          covr::codecov(
+            quiet = FALSE,
+            clean = FALSE,
+            install_path = file.path(Sys.getenv("RUNNER_TEMP"), "package")
+          )
+        shell: Rscript {0}
+
+      - name: Show testthat output
+        if: always()
+        run: |
+          ## --------------------------------------------------------------------
+          find ${{ runner.temp }}/package -name 'testthat.Rout*' -exec cat '{}' \; || true
+        shell: bash
+
+      - name: Upload test results
+        if: failure()
+        uses: actions/upload-artifact@v3
+        with:
+          name: coverage-test-failures
+          path: ${{ runner.temp }}/package
diff --git a/README.Rmd b/README.Rmd
index 96eba98f..0d7f45c0 100644
--- a/README.Rmd
+++ b/README.Rmd
@@ -18,7 +18,7 @@ knitr::opts_chunk$set(
 
 [![CRAN
 status](https://www.r-pkg.org/badges/version/galah)](https://cran.r-project.org/package=galah)
-
+[![Codecov test coverage](https://codecov.io/gh/AtlasOfLivingAustralia/galah-R/branch/main/graph/badge.svg)](https://app.codecov.io/gh/AtlasOfLivingAustralia/galah-R?branch=main)
 <!-- badges: end -->
 
 ---
@@ -107,4 +107,4 @@ attr(occ, "doi")
 
 # Generate citation
 atlas_citation(occ)
-```
\ No newline at end of file
+```
diff --git a/codecov.yml b/codecov.yml
index 69cb7601..04c55859 100644
--- a/codecov.yml
+++ b/codecov.yml
@@ -1 +1,14 @@
 comment: false
+
+coverage:
+  status:
+    project:
+      default:
+        target: auto
+        threshold: 1%
+        informational: true
+    patch:
+      default:
+        target: auto
+        threshold: 1%
+        informational: true