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(v1.6.0.9060) unit tests

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dr. M.S. (Matthijs) Berends
2021-05-22 10:05:59 +02:00
parent adca43f8d9
commit fa2f5214b9
15 changed files with 22 additions and 21 deletions
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8
.github/workflows/codecovr.yaml vendored
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@ -60,7 +60,6 @@ jobs:
run: |
tar -xf data-raw/AMR_latest.tar.gz
Rscript -e "source('data-raw/_install_deps.R')"
Rscript -e "install.packages('covr')"
shell: bash
- name: Show session info
@ -76,10 +75,11 @@ jobs:
run: |
library(AMR)
library(tinytest)
library(covr)
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"))
cov <- file_coverage(source_files = source_files, test_files = test_files, parent_env = asNamespace("AMR"), line_exclusions = list("AMR/R/atc_online.R", "AMR/R/mo_source.R", "AMR/R/translate.R", "AMR/R/resistance_predict.R", "AMR/R/aa_helper_functions.R", "AMR/R/aa_helper_pm_functions.R", "AMR/R/zzz.R"))
print(cov)
attr(cov, which = "package") <- list(path = "") # until https://github.com/r-lib/covr/issues/478 is solved
covr::codecov(cov, quiet = FALSE)
attr(cov, which = "package") <- list(path = ".") # until https://github.com/r-lib/covr/issues/478 is solved
codecov(coverage = cov, quiet = FALSE)
shell: Rscript {0}