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# Conflicts:
#	NEWS.md
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billdenney committed Nov 1, 2023
2 parents 774a94e + bb23615 commit bc51530
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2 changes: 1 addition & 1 deletion .github/CONTRIBUTING.md
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Expand Up @@ -23,7 +23,7 @@ If your proposed contribution addresses multiple issues, it should ideally be br
* Make sure to track progress upstream (i.e., on our version of `janitor` at `sfirke/janitor`) by doing `git remote add upstream https://github.com/sfirke/janitor.git`. Before making changes make sure to pull changes in from upstream by doing either `git fetch upstream` then merge later or `git pull upstream` to fetch and merge in one step
* Make your changes (bonus points for making changes on a new feature branch)
* Push up to your account
* Submit a pull request to the master branch at `sfirke/janitor`
* Submit a pull request to the main branch at `sfirke/janitor`

### Prefer to discuss over email?
Email Sam. His email address is in the `DESCRIPTION` file of this repo.
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78 changes: 22 additions & 56 deletions .github/workflows/R-CMD-check.yaml
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@@ -1,14 +1,10 @@
# For help debugging build failures open an issue on the RStudio community with the 'github-actions' tag.
# https://community.rstudio.com/new-topic?category=Package%20development&tags=github-actions
# Workflow derived from https://github.com/r-lib/actions/tree/v2/examples
# Need help debugging build failures? Start at https://github.com/r-lib/actions#where-to-find-help
on:
push:
branches:
- main
- master
branches: [main, master]
pull_request:
branches:
- main
- master
branches: [main, master]

name: R-CMD-check

Expand All @@ -22,64 +18,34 @@ jobs:
fail-fast: false
matrix:
config:
- {os: macos-latest, r: 'release'}
- {os: windows-latest, r: 'release'}
- {os: macOS-latest, r: 'release'}
- {os: ubuntu-20.04, r: 'release', rspm: "https://packagemanager.rstudio.com/cran/__linux__/focal/latest"}
- {os: ubuntu-20.04, r: 'devel', rspm: "https://packagemanager.rstudio.com/cran/__linux__/focal/latest"}
- {os: ubuntu-latest, r: 'devel', http-user-agent: 'release'}
- {os: ubuntu-latest, r: 'release'}
- {os: ubuntu-latest, r: 'oldrel-1'}

env:
R_REMOTES_NO_ERRORS_FROM_WARNINGS: true
_R_CHECK_FORCE_SUGGESTS_: false
RSPM: ${{ matrix.config.rspm }}
GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
R_KEEP_PKG_SOURCE: yes

steps:
- uses: actions/checkout@v2
- uses: actions/checkout@v3

- uses: r-lib/actions/setup-r@v1
- uses: r-lib/actions/setup-pandoc@v2

- uses: r-lib/actions/setup-r@v2
with:
r-version: ${{ matrix.config.r }}
http-user-agent: ${{ matrix.config.http-user-agent }}
use-public-rspm: true

- uses: r-lib/actions/setup-pandoc@v1

- name: Query dependencies
run: |
install.packages('remotes')
saveRDS(remotes::dev_package_deps(dependencies = TRUE), ".github/depends.Rds", version = 2)
writeLines(sprintf("R-%i.%i", getRversion()$major, getRversion()$minor), ".github/R-version")
shell: Rscript {0}

- name: Cache R packages
if: runner.os != 'Windows'
uses: actions/cache@v2
- uses: r-lib/actions/setup-r-dependencies@v2
with:
path: ${{ env.R_LIBS_USER }}
key: ${{ runner.os }}-${{ hashFiles('.github/R-version') }}-1-${{ hashFiles('.github/depends.Rds') }}
restore-keys: ${{ runner.os }}-${{ hashFiles('.github/R-version') }}-1-

- name: Install system dependencies
if: runner.os == 'Linux'
run: |
while read -r cmd
do
eval sudo $cmd
done < <(Rscript -e 'writeLines(remotes::system_requirements("ubuntu", "20.04"))')
- name: Install dependencies
run: |
remotes::install_deps(dependencies = TRUE)
remotes::install_cran("rcmdcheck")
shell: Rscript {0}

- name: Check
env:
_R_CHECK_CRAN_INCOMING_REMOTE_: false
run: rcmdcheck::rcmdcheck(args = c("--no-manual", "--as-cran"), error_on = "warning", check_dir = "check")
shell: Rscript {0}
extra-packages: |
any::sf
any::rcmdcheck
needs: check

- name: Upload check results
if: failure()
uses: actions/upload-artifact@main
- uses: r-lib/actions/check-r-package@v2
with:
name: ${{ runner.os }}-r${{ matrix.config.r }}-results
path: check
upload-snapshots: true
58 changes: 31 additions & 27 deletions .github/workflows/pkgdown.yaml
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@@ -1,42 +1,46 @@
# Workflow derived from https://github.com/r-lib/actions/tree/v2/examples
# Need help debugging build failures? Start at https://github.com/r-lib/actions#where-to-find-help
on:
push:
branches: master
branches: [main, master]
pull_request:
branches: [main, master]
release:
types: [published]
workflow_dispatch:

name: pkgdown

jobs:
pkgdown:
runs-on: macOS-latest
runs-on: ubuntu-latest
# Only restrict concurrency for non-PR jobs
concurrency:
group: pkgdown-${{ github.event_name != 'pull_request' || github.run_id }}
env:
GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
steps:
- uses: actions/checkout@v2
- uses: actions/checkout@v3

- uses: r-lib/actions/setup-r@master
- uses: r-lib/actions/setup-pandoc@v2

- uses: r-lib/actions/setup-pandoc@master

- name: Query dependencies
run: |
install.packages('remotes')
saveRDS(remotes::dev_package_deps(dependencies = TRUE), ".github/depends.Rds", version = 2)
shell: Rscript {0}
- uses: r-lib/actions/setup-r@v2
with:
use-public-rspm: true

- name: Cache R packages
uses: actions/cache@v1
- uses: r-lib/actions/setup-r-dependencies@v2
with:
path: ${{ env.R_LIBS_USER }}
key: macOS-r-4.0-1-${{ hashFiles('.github/depends.Rds') }}
restore-keys: macOS-r-4.0-1-
extra-packages: any::pkgdown, local::.
needs: website

- name: Install dependencies
run: |
install.packages("remotes")
remotes::install_deps(dependencies = TRUE)
remotes::install_dev("pkgdown")
- name: Build site
run: pkgdown::build_site_github_pages(new_process = FALSE, install = FALSE)
shell: Rscript {0}

- name: Install package
run: R CMD INSTALL .

- name: Deploy package
run: pkgdown::deploy_to_branch(new_process = FALSE)
shell: Rscript {0}
- name: Deploy to GitHub pages 🚀
if: github.event_name != 'pull_request'
uses: JamesIves/[email protected]
with:
clean: false
branch: gh-pages
folder: docs
73 changes: 73 additions & 0 deletions .github/workflows/style.yaml
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@@ -0,0 +1,73 @@
# Workflow derived from https://github.com/r-lib/actions/tree/v2/examples
# Need help debugging build failures? Start at https://github.com/r-lib/actions#where-to-find-help
on:
push:
paths: ["**.[rR]", "**.[qrR]md", "**.[rR]markdown", "**.[rR]nw", "**.[rR]profile"]

name: Style

jobs:
style:
runs-on: ubuntu-latest
env:
GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
steps:
- name: Checkout repo
uses: actions/checkout@v3
with:
fetch-depth: 0

- name: Setup R
uses: r-lib/actions/setup-r@v2
with:
use-public-rspm: true

- name: Install dependencies
uses: r-lib/actions/setup-r-dependencies@v2
with:
extra-packages: any::styler, any::roxygen2
needs: styler

- name: Enable styler cache
run: styler::cache_activate()
shell: Rscript {0}

- name: Determine cache location
id: styler-location
run: |
cat(
"location=",
styler::cache_info(format = "tabular")$location,
"\n",
file = Sys.getenv("GITHUB_OUTPUT"),
append = TRUE,
sep = ""
)
shell: Rscript {0}

- name: Cache styler
uses: actions/cache@v3
with:
path: ${{ steps.styler-location.outputs.location }}
key: ${{ runner.os }}-styler-${{ github.sha }}
restore-keys: |
${{ runner.os }}-styler-
${{ runner.os }}-
- name: Style
run: styler::style_pkg()
shell: Rscript {0}

- name: Commit and push changes
run: |
if FILES_TO_COMMIT=($(git diff-index --name-only ${{ github.sha }} \
| egrep --ignore-case '\.(R|[qR]md|Rmarkdown|Rnw|Rprofile)$'))
then
git config --local user.name "$GITHUB_ACTOR"
git config --local user.email "[email protected]"
git commit ${FILES_TO_COMMIT[*]} -m "Style code (GHA)"
git pull --ff-only
git push origin
else
echo "No changes to commit."
fi
62 changes: 33 additions & 29 deletions .github/workflows/test-coverage.yaml
Original file line number Diff line number Diff line change
@@ -1,48 +1,52 @@
# Workflow derived from https://github.com/r-lib/actions/tree/v2/examples
# Need help debugging build failures? Start at https://github.com/r-lib/actions#where-to-find-help
on:
push:
branches:
- main
- master
branches: [main, master]
pull_request:
branches:
- main
- master
branches: [main, master]

name: test-coverage

jobs:
test-coverage:
runs-on: macOS-latest
runs-on: ubuntu-latest
env:
GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}

steps:
- uses: actions/checkout@v2
- uses: actions/checkout@v3

- uses: r-lib/actions/setup-r@v1
- uses: r-lib/actions/setup-r@v2
with:
use-public-rspm: true

- uses: r-lib/actions/setup-pandoc@v1
- uses: r-lib/actions/setup-r-dependencies@v2
with:
extra-packages: |
any::sf
any::covr
needs: coverage

- name: Query dependencies
- name: Test coverage
run: |
install.packages('remotes')
saveRDS(remotes::dev_package_deps(dependencies = TRUE), ".github/depends.Rds", version = 2)
writeLines(sprintf("R-%i.%i", getRversion()$major, getRversion()$minor), ".github/R-version")
covr::codecov(
quiet = FALSE,
clean = FALSE,
install_path = file.path(Sys.getenv("RUNNER_TEMP"), "package")
)
shell: Rscript {0}

- name: Cache R packages
uses: actions/cache@v2
with:
path: ${{ env.R_LIBS_USER }}
key: ${{ runner.os }}-${{ hashFiles('.github/R-version') }}-1-${{ hashFiles('.github/depends.Rds') }}
restore-keys: ${{ runner.os }}-${{ hashFiles('.github/R-version') }}-1-

- name: Install dependencies
- name: Show testthat output
if: always()
run: |
install.packages(c("remotes"))
remotes::install_deps(dependencies = TRUE)
remotes::install_cran("covr")
shell: Rscript {0}
## --------------------------------------------------------------------
find ${{ runner.temp }}/package -name 'testthat.Rout*' -exec cat '{}' \; || true
shell: bash

- name: Test coverage
run: covr::codecov()
shell: Rscript {0}
- name: Upload test results
if: failure()
uses: actions/upload-artifact@v3
with:
name: coverage-test-failures
path: ${{ runner.temp }}/package
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