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covr update

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dr. M.S. (Matthijs) Berends 2021-05-22 09:22:39 +02:00
parent 0b1f59edec
commit adca43f8d9
1 changed files with 4 additions and 1 deletions
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5
.github/workflows/codecovr.yaml vendored
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@ -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}