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unit test fix
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parent
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18
.github/workflows/check.yaml
vendored
18
.github/workflows/check.yaml
vendored
@ -112,13 +112,13 @@ jobs:
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shell: Rscript {0}
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- name: Remove vignettes on R without knitr support
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if: matrix.config.r == '3.0' || matrix.config.r == '3.1' || matrix.config.r == '3.2'
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# writing to DESCRIPTION2 and then moving to DESCRIPTION is required for R < 3.3 as writeLines() cannot overwrite
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if: matrix.config.r == '3.0' || matrix.config.r == '3.1' || matrix.config.r == '3.2' || matrix.config.r == '3.3'
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# writing to DESCRIPTION2 and then moving to DESCRIPTION is required for R <= 3.3 as writeLines() cannot overwrite
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run: |
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rm -rf AMR/vignettes
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Rscript -e "writeLines(readLines('AMR/DESCRIPTION')[!grepl('VignetteBuilder', readLines('AMR/DESCRIPTION'))], 'AMR/DESCRIPTION2')"
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rm AMR/DESCRIPTION
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mv AMR/DESCRIPTION2 AMR/DESCRIPTION
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rm -rf vignettes
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Rscript -e "writeLines(readLines('DESCRIPTION')[!grepl('VignetteBuilder', readLines('DESCRIPTION'))], 'DESCRIPTION2')"
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rm DESCRIPTION
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mv DESCRIPTION2 DESCRIPTION
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shell: bash
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- name: Run R CMD check
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@ -135,7 +135,6 @@ jobs:
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R_RUN_TINYTEST: true
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run: |
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cd ..
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ls -lh
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R CMD build AMR
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R CMD check --no-manual --run-donttest --run-dontrun AMR_*.tar.gz
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shell: bash
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@ -143,8 +142,7 @@ jobs:
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- name: Show unit tests output
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if: always()
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run: |
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ls -lh
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cd AMR
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cd ../AMR.Rcheck
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find . -name 'tinytest.Rout*' -exec cat '{}' \; || true
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shell: bash
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@ -153,4 +151,4 @@ jobs:
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uses: actions/upload-artifact@v2
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with:
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name: artifacts-${{ matrix.config.os }}-r${{ matrix.config.r }}
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path: AMR.Rcheck
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path: ../AMR.Rcheck
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@ -1,5 +1,5 @@
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Package: AMR
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Version: 1.8.1.9040
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Version: 1.8.1.9041
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Date: 2022-08-28
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Title: Antimicrobial Resistance Data Analysis
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Description: Functions to simplify and standardise antimicrobial resistance (AMR)
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