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-rw-r--r--.Rbuildignore2
-rw-r--r--.github/.gitignore1
-rw-r--r--.github/workflows/test-coverage.yaml61
-rw-r--r--.travis.yml3
-rw-r--r--README.md5
-rw-r--r--codecov.yml14
6 files changed, 82 insertions, 4 deletions
diff --git a/.Rbuildignore b/.Rbuildignore
index e7cbe786..1a243475 100644
--- a/.Rbuildignore
+++ b/.Rbuildignore
@@ -35,3 +35,5 @@
^vignettes/web_only/.*$
^.*\.Rproj$
^\.Rproj\.user$
+^codecov\.yml$
+^\.github$
diff --git a/.github/.gitignore b/.github/.gitignore
new file mode 100644
index 00000000..2d19fc76
--- /dev/null
+++ b/.github/.gitignore
@@ -0,0 +1 @@
+*.html
diff --git a/.github/workflows/test-coverage.yaml b/.github/workflows/test-coverage.yaml
new file mode 100644
index 00000000..fefc52e2
--- /dev/null
+++ b/.github/workflows/test-coverage.yaml
@@ -0,0 +1,61 @@
+# 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
+
+permissions: read-all
+
+jobs:
+ test-coverage:
+ runs-on: ubuntu-latest
+ env:
+ GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
+
+ steps:
+ - uses: actions/checkout@v4
+
+ - 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, any::xml2
+ needs: coverage
+
+ - name: Test coverage
+ run: |
+ cov <- covr::package_coverage(
+ quiet = FALSE,
+ clean = FALSE,
+ install_path = file.path(normalizePath(Sys.getenv("RUNNER_TEMP"), winslash = "/"), "package")
+ )
+ covr::to_cobertura(cov)
+ shell: Rscript {0}
+
+ - uses: codecov/codecov-action@v4
+ with:
+ fail_ci_if_error: ${{ github.event_name != 'pull_request' && true || false }}
+ file: ./cobertura.xml
+ plugin: noop
+ disable_search: true
+ token: ${{ secrets.CODECOV_TOKEN }}
+
+ - name: Show testthat output
+ if: always()
+ run: |
+ ## --------------------------------------------------------------------
+ find '${{ runner.temp }}/package' -name 'testthat.Rout*' -exec cat '{}' \; || true
+ shell: bash
+
+ - name: Upload test results
+ if: failure()
+ uses: actions/upload-artifact@v4
+ with:
+ name: coverage-test-failures
+ path: ${{ runner.temp }}/package
diff --git a/.travis.yml b/.travis.yml
index 61b56979..006ba521 100644
--- a/.travis.yml
+++ b/.travis.yml
@@ -24,6 +24,3 @@ script:
after_failure:
- ./run.sh dump_logs
-
-after_success:
- - travis_wait 40 ./run.sh coverage
diff --git a/README.md b/README.md
index 98e3d0a7..dee59ed9 100644
--- a/README.md
+++ b/README.md
@@ -1,9 +1,12 @@
# mkin
+<!-- badges: start -->
[![](https://www.r-pkg.org/badges/version/mkin)](https://cran.r-project.org/package=mkin)
[![mkin status badge](https://jranke.r-universe.dev/badges/mkin)](https://jranke.r-universe.dev/ui/#package:mkin)
[![Build Status](https://app.travis-ci.com/jranke/mkin.svg?token=Sq9VuYWyRz2FbBLxu6DK&branch=main)](https://app.travis-ci.com/jranke/mkin)
-[![codecov](https://codecov.io/github/jranke/mkin/branch/main/graphs/badge.svg)](https://app.codecov.io/gh/jranke/mkin)
+[![Codecov test coverage](https://codecov.io/gh/jranke/mkin/branch/main/graph/badge.svg)](https://app.codecov.io/gh/jranke/mkin?branch=main)
+<!-- badges: end -->
+
The [R](https://www.r-project.org) package **mkin** provides calculation routines for the analysis of
chemical degradation data, including <b>m</b>ulticompartment <b>kin</b>etics as
diff --git a/codecov.yml b/codecov.yml
new file mode 100644
index 00000000..04c55859
--- /dev/null
+++ b/codecov.yml
@@ -0,0 +1,14 @@
+comment: false
+
+coverage:
+ status:
+ project:
+ default:
+ target: auto
+ threshold: 1%
+ informational: true
+ patch:
+ default:
+ target: auto
+ threshold: 1%
+ informational: true

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