Merge pull request #998 from wadpac/issue997_codecov

control codecov behaviour

.Rbuildignore

@@ -13,4 +13,5 @@ RELEASE_CYCLE.md
 ^vignettes/chapter*.Rmd
 ^dev-functions$
 .zenodo.json
-.chapterInProgress.Rmd
+.chapterInProgress.Rmd
+codecov.yml

.github/workflows/r_codecov.yml

@@ -1,4 +1,4 @@
-# Workflow derived from https://github.com/r-lib/actions/tree/master/examples
+# 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:
@@ -13,7 +13,7 @@ jobs:
     runs-on: ubuntu-latest
     env:
       GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
-    patch: off
+
     steps:
       - uses: actions/checkout@v3
 
@@ -23,8 +23,28 @@ jobs:
 
       - uses: r-lib/actions/setup-r-dependencies@v2
         with:
-          extra-packages: covr
+          extra-packages: any::covr
+          needs: coverage
 
       - name: Test coverage
-        run: covr::codecov()
-        shell: Rscript {0}
+        run: |
+          covr::codecov(
+            quiet = FALSE,
+            clean = FALSE,
+            install_path = file.path(normalizePath(Sys.getenv("RUNNER_TEMP"), winslash = "/"), "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

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

vignettes/HouseHoldCoanalysis.Rmd

@@ -168,7 +168,7 @@ you will find csv files with the time series per household.
 
 The data dictionary below shows the column names you would get for a household with
 two members: X and Y. Most of the columns are copied from the time series output files, which
-are documented [here](https://cran.r-project.org/web/packages/GGIR/vignettes/GGIR.html#571_Time_series_output_files).
+are documented [here](https://cran.r-project.org/package=GGIR/vignettes/GGIR.html#571_Time_series_output_files).
 Therefore, those column are not documented here.
 
 Variable name | Description