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unit tests

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dr. M.S. (Matthijs) Berends 2022-08-28 20:49:04 +02:00
parent 21b4552f5a
commit 1e4eaf23f2
3 changed files with 10 additions and 5 deletions
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11
.github/workflows/check.yaml vendored
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@ -124,11 +124,16 @@ jobs:
- name: Run R CMD check - name: Run R CMD check
if: always() if: always()
env: env:
# see https://rstudio.github.io/r-manuals/r-ints/Tools.html for an overview
_R_CHECK_CRAN_INCOMING_: false _R_CHECK_CRAN_INCOMING_: false
_R_CHECK_FORCE_SUGGESTS_: false
_R_CHECK_DEPENDS_ONLY_: true _R_CHECK_DEPENDS_ONLY_: true
_R_CHECK_LENGTH_1_CONDITION_: verbose _R_CHECK_LENGTH_1_CONDITION_: verbose
_R_CHECK_LENGTH_1_LOGIC2_: verbose _R_CHECK_LENGTH_1_LOGIC2_: verbose
# no check for old R versions - these packages require higher R versions
_R_CHECK_RD_XREFS_: {{ matrix.config.r != '3.0' && matrix.config.r != '3.1' && matrix.config.r != '3.2' && matrix.config.r != '3.3' && matrix.config.r != '3.4' }}
_R_CHECK_FORCE_SUGGESTS_: false
R_CHECK_CONSTANTS: 5
R_JIT_STRATEGY: 3
# during 'R CMD check', R_LIBS_USER will be overwritten, so: # during 'R CMD check', R_LIBS_USER will be overwritten, so:
R_LIBS_USER_GH_ACTIONS: ${{ env.R_LIBS_USER }} R_LIBS_USER_GH_ACTIONS: ${{ env.R_LIBS_USER }}
# this is a required value to run the unit tests: # this is a required value to run the unit tests:
@ -136,7 +141,7 @@ jobs:
run: | run: |
cd .. cd ..
R CMD build AMR R CMD build AMR
R CMD check --no-manual --run-donttest --run-dontrun AMR_*.tar.gz R CMD check --as-cran --no-manual --run-donttest --run-dontrun AMR_*.tar.gz
shell: bash shell: bash
- name: Show unit tests output - name: Show unit tests output
@ -151,4 +156,4 @@ jobs:
uses: actions/upload-artifact@v2 uses: actions/upload-artifact@v2
with: with:
name: artifacts-${{ matrix.config.os }}-r${{ matrix.config.r }} name: artifacts-${{ matrix.config.os }}-r${{ matrix.config.r }}
path: ../AMR.Rcheck path: ~/AMR.Rcheck

2
DESCRIPTION
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@ -1,5 +1,5 @@
Package: AMR Package: AMR
Version: 1.8.1.9041 Version: 1.8.1.9042
Date: 2022-08-28 Date: 2022-08-28
Title: Antimicrobial Resistance Data Analysis Title: Antimicrobial Resistance Data Analysis
Description: Functions to simplify and standardise antimicrobial resistance (AMR) Description: Functions to simplify and standardise antimicrobial resistance (AMR)

2
NEWS.md
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@ -1,4 +1,4 @@
# AMR 1.8.1.9041 # AMR 1.8.1.9042
### New ### New
* EUCAST 2022 and CLSI 2022 guidelines have been added for `as.rsi()`. EUCAST 2022 is now the new default guideline for all MIC and disks diffusion interpretations. * EUCAST 2022 and CLSI 2022 guidelines have been added for `as.rsi()`. EUCAST 2022 is now the new default guideline for all MIC and disks diffusion interpretations.