move to gh actions for ci

.Rbuildignore

@@ -5,3 +5,5 @@
 ^_pkgdown\.yml$
 ^docs$
 ^pkgdown$
+^codecov\.yml$
+^\.github$

.github/.gitignore

@@ -0,0 +1 @@
+*.html

.github/workflows/R-CMD-check.yaml

@@ -0,0 +1,86 @@
+on:
+  push:
+    branches:
+      - master
+  pull_request:
+    branches:
+      - master
+
+name: R-CMD-check
+
+jobs:
+  R-CMD-check:
+    runs-on: ${{ matrix.config.os }}
+
+    name: ${{ matrix.config.os }} (${{ matrix.config.r }})
+
+    strategy:
+      fail-fast: false
+      matrix:
+        config:
+          - {os: windows-latest, r: '3.6'}
+          - {os: macOS-latest, r: '3.6'}
+          - {os: macOS-latest, r: 'devel'}
+          - {os: ubuntu-16.04, r: '3.2', cran: "https://demo.rstudiopm.com/all/__linux__/xenial/latest"}
+          - {os: ubuntu-16.04, r: '3.3', cran: "https://demo.rstudiopm.com/all/__linux__/xenial/latest"}
+          - {os: ubuntu-16.04, r: '3.4', cran: "https://demo.rstudiopm.com/all/__linux__/xenial/latest"}
+          - {os: ubuntu-16.04, r: '3.5', cran: "https://demo.rstudiopm.com/all/__linux__/xenial/latest"}
+          - {os: ubuntu-16.04, r: '3.6', cran: "https://demo.rstudiopm.com/all/__linux__/xenial/latest"}
+
+    env:
+      R_REMOTES_NO_ERRORS_FROM_WARNINGS: true
+      CRAN: ${{ matrix.config.cran }}
+
+    steps:
+      - uses: actions/checkout@v2
+
+      - uses: r-lib/actions/setup-r@master
+        with:
+          r-version: ${{ matrix.config.r }}
+
+      - uses: r-lib/actions/setup-pandoc@master
+
+      - name: Query dependencies
+        run: |
+          install.packages('remotes')
+          saveRDS(remotes::dev_package_deps(dependencies = TRUE), "depends.Rds", version = 2)
+        shell: Rscript {0}
+
+      - name: Cache R packages
+        if: runner.os != 'Windows'
+        uses: actions/cache@v1
+        with:
+          path: ${{ env.R_LIBS_USER }}
+          key: ${{ runner.os }}-r-${{ matrix.config.r }}-${{ hashFiles('depends.Rds') }}
+          restore-keys: ${{ runner.os }}-r-${{ matrix.config.r }}-
+
+      - name: Install system dependencies
+        if: runner.os == 'Linux'
+        env:
+          RHUB_PLATFORM: linux-x86_64-ubuntu-gcc
+        run: |
+          Rscript -e "remotes::install_github('r-hub/sysreqs')"
+          sysreqs=$(Rscript -e "cat(sysreqs::sysreq_commands('DESCRIPTION'))")
+          sudo -s eval "$sysreqs"
+
+      - name: Install dependencies
+        run: |
+          remotes::install_deps(dependencies = TRUE)
+          remotes::install_cran("rcmdcheck")
+        shell: Rscript {0}
+
+      - name: Check
+        run: rcmdcheck::rcmdcheck(args = "--no-manual", error_on = "warning", check_dir = "check")
+        shell: Rscript {0}
+
+      - name: Upload check results
+        if: failure()
+        uses: actions/upload-artifact@master
+        with:
+          name: ${{ runner.os }}-r${{ matrix.config.r }}-results
+          path: check
+
+      - name: Test coverage
+        if: matrix.config.os == 'macOS-latest' && matrix.config.r == '3.6'
+        run: covr::codecov(token = "${{secrets.CODECOV_TOKEN}}")
+        shell: Rscript {0}

.github/workflows/pkgdown.yaml

@@ -0,0 +1,24 @@
+on:
+  push:
+    branches: master
+
+name: pkgdown
+
+jobs:
+  pkgdown:
+    runs-on: macOS-latest
+    steps:
+      - uses: actions/checkout@v2
+      - uses: r-lib/actions/setup-r@master
+      - uses: r-lib/actions/setup-pandoc@master
+      - name: Install dependencies
+        run: |
+          install.packages("remotes")
+          remotes::install_deps(dependencies = TRUE)
+          remotes::install_dev("pkgdown")
+        shell: Rscript {0}
+      - name: Install package
+        run: R CMD INSTALL .
+      - name: Deploy package
+        run: pkgdown::deploy_to_branch(new_process = FALSE)
+        shell: Rscript {0}

.github/workflows/pr-commands.yaml

@@ -0,0 +1,52 @@
+on:
+  issue_comment:
+    types: [created]
+name: Commands
+jobs:
+  document:
+    if: startsWith(github.event.comment.body, '/document')
+    name: document
+    runs-on: macOS-latest
+    steps:
+      - uses: actions/checkout@v2
+      - uses: r-lib/actions/pr-fetch@master
+        with:
+          repo-token: ${{ secrets.GITHUB_TOKEN }}
+      - uses: r-lib/actions/setup-r@master
+      - name: Install dependencies
+        run: Rscript -e 'install.packages(c("remotes", "roxygen2"))' -e 'remotes::install_deps(dependencies = TRUE)'
+      - name: Document
+        run: Rscript -e 'roxygen2::roxygenise()'
+      - name: commit
+        run: |
+          git add man/\* NAMESPACE
+          git commit -m 'Document'
+      - uses: r-lib/actions/pr-push@master
+        with:
+          repo-token: ${{ secrets.GITHUB_TOKEN }}
+  style:
+    if: startsWith(github.event.comment.body, '/style')
+    name: style
+    runs-on: macOS-latest
+    steps:
+      - uses: actions/checkout@v2
+      - uses: r-lib/actions/pr-fetch@master
+        with:
+          repo-token: ${{ secrets.GITHUB_TOKEN }}
+      - uses: r-lib/actions/setup-r@master
+      - name: Install dependencies
+        run: Rscript -e 'install.packages("styler")'
+      - name: Style
+        run: Rscript -e 'styler::style_pkg()'
+      - name: commit
+        run: |
+          git add \*.R
+          git commit -m 'Style'
+      - uses: r-lib/actions/pr-push@master
+        with:
+          repo-token: ${{ secrets.GITHUB_TOKEN }}
+  # A mock job just to ensure we have a successful build status
+  finish:
+    runs-on: ubuntu-latest
+    steps:
+      - run: true

.github/workflows/render-readme.yaml

@@ -0,0 +1,24 @@
+on:
+  push:
+    paths:
+      - examples/README.Rmd
+      - examples/*yaml
+
+name: Render README
+
+jobs:
+  render:
+    name: Render README
+    runs-on: macOS-latest
+    steps:
+      - uses: actions/checkout@v2
+      - uses: r-lib/actions/setup-r@v1
+      - uses: r-lib/actions/setup-pandoc@v1
+      - name: Install rmarkdown
+        run: Rscript -e 'install.packages("rmarkdown")'
+      - name: Render README
+        run: Rscript -e 'rmarkdown::render("examples/README.Rmd")'
+      - name: Commit results
+        run: |
+          git commit examples/README.md -m 'Re-build README.Rmd' || echo "No changes to commit"
+          git push https://${{github.actor}}:${{secrets.GITHUB_TOKEN}}@github.com/${{github.repository}}.git HEAD:${{ github.ref }} || echo "No changes to commit"

DESCRIPTION

@@ -14,8 +14,9 @@ Authors@R:
 License: GPL-3
 Encoding: UTF-8
 LazyData: true
+URL: https://github.com/septic-tank/ricu
 Depends:
-    R (>= 3.1.0)
+    R (>= 3.2.0)
 Imports:
     data.table,
     curl,

README.Rmd

@@ -14,23 +14,21 @@ knitr::opts_chunk$set(
   out.width = "100%"
 )
 ```
-# sepsr
+# ricu
 
 <!-- badges: start -->
-[![Travis build status](https://travis-ci.com/septic-tank/sepsr.svg?branch=master)](https://travis-ci.com/septic-tank/sepsr)
-[![Azure pipelines build status](https://img.shields.io/azure-devops/build/septic-tank/sepsr/2)](https://dev.azure.com/septic-tank/sepsr/_build/latest?definitionId=1&branchName=master)
-[![Azure pipelines test status](https://img.shields.io/azure-devops/tests/septic-tank/sepsr/2?color=brightgreen&compact_message)](https://dev.azure.com/septic-tank/sepsr/_build/latest?definitionId=1&branchName=master)
-[![Azure pipelines coverage status](https://img.shields.io/azure-devops/coverage/septic-tank/sepsr/2)](https://dev.azure.com/septic-tank/sepsr/_build/latest?definitionId=1&branchName=master)
+[![R build status](https://github.com/septic-tank/ricu/workflows/R-CMD-check/badge.svg)](https://github.com/septic-tank/ricu/actions)
+[![Codecov test coverage](https://codecov.io/gh/septic-tank/ricu/branch/master/graph/badge.svg)](https://codecov.io/gh/septic-tank/ricu?branch=master)
 <!-- badges: end -->
 
-The goal of sepsr is to ...
+The goal of ricu is to ...
 
 ## Installation
 
-You can install the released version of sepsr from [CRAN](https://CRAN.R-project.org) with:
+You can install the released version of ricu from [CRAN](https://CRAN.R-project.org) with:
 
 ``` r
-install.packages("sepsr")
+install.packages("ricu")
 ```
 
 ## Example

codecov.yml

@@ -0,0 +1,12 @@
+comment: false
+
+coverage:
+  status:
+    project:
+      default:
+        target: auto
+        threshold: 1%
+    patch:
+      default:
+        target: auto
+        threshold: 1%