diff --git a/.github/workflows/codecovr.yaml b/.github/workflows/codecovr.yaml index bdf48c40..b43576f9 100644 --- a/.github/workflows/codecovr.yaml +++ b/.github/workflows/codecovr.yaml @@ -71,12 +71,15 @@ jobs: shell: Rscript {0} - name: Test coverage + env: + CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }} run: | library(AMR) library(tinytest) source_files <- list.files("AMR/R", pattern = ".R$", full.names = TRUE) test_files <- list.files("AMR/inst/tinytest", full.names = TRUE) cov <- covr::file_coverage(source_files = source_files, test_files = test_files, parent_env = asNamespace("AMR"), line_exclusions = list("R/atc_online.R", "R/mo_source.R", "R/translate.R", "R/resistance_predict.R", "R/aa_helper_functions.R", "R/aa_helper_pm_functions.R", "R/zzz.R")) - attr(cov, which = "package") <- list(path = "AMR") # until https://github.com/r-lib/covr/issues/478 is solved + print(cov) + attr(cov, which = "package") <- list(path = "") # until https://github.com/r-lib/covr/issues/478 is solved covr::codecov(cov, quiet = FALSE) shell: Rscript {0}