Speed up builds of R-based lessons
[rnaseq-cwl-training.git] / .github / workflows / website.yml
1 name: Website
2 on:
3   push:
4     branches: gh-pages
5   pull_request: []
6 jobs:
7   build-website:
8     if: ${{ !endsWith(github.repository, '/styles') }}
9     runs-on: ubuntu-latest
10     env:
11       RSPM: "https://packagemanager.rstudio.com/cran/__linux__/xenial/latest"
12       GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} 
13     defaults:
14       run:
15         shell: bash
16     steps:
17       - name: Set up Ruby
18         uses: actions/setup-ruby@v1
19         with:
20           ruby-version: '2.7'
21
22       - name: Set up Python
23         uses: actions/setup-python@v2
24         with:
25           python-version: '3.x'
26
27       - name: Install GitHub Pages, Bundler, and kramdown gems
28         run: |
29           gem install github-pages bundler kramdown
30
31       - name: Install Python modules
32         run: |
33           python3 -m pip install --upgrade pip setuptools wheel pyyaml==5.3.1 requests
34
35       - name: Checkout the lesson
36         uses: actions/checkout@master
37         with:
38           fetch-depth: 0
39           ref: ${{ github.event.pull_request.head.sha }}
40
41       - name: Look for R-markdown files
42         id: check-rmd
43         run: |
44           echo "::set-output name=count::$(shopt -s nullglob; files=($(find . -iname '*.Rmd')); echo ${#files[@]})"
45
46       - name: Set up R
47         if: steps.check-rmd.outputs.count != 0
48         uses: r-lib/actions/setup-r@master
49         with:
50           r-version: 'release'
51           http-user-agent: "R/4.0.0 (ubuntu-16.04) R (4.0.0 x86_64-pc-linux-gnu x86_64 linux-gnu) on GitHub Actions"
52
53       - name: Install needed packages
54         if: steps.check-rmd.outputs.count != 0
55         run: |
56           install.packages(c('remotes', 'rprojroot', 'renv', 'desc', 'rmarkdown', 'knitr'))
57         shell: Rscript {0}
58
59       - name: Query dependencies
60         if: steps.check-rmd.outputs.count != 0
61         run: |
62           source('bin/dependencies.R')
63           deps <- identify_dependencies()
64           create_description(deps)
65           saveRDS(remotes::dev_package_deps(dependencies = TRUE), ".github/depends.Rds", version = 2)
66           writeLines(sprintf("R-%i.%i", getRversion()$major, getRversion()$minor), ".github/R-version")
67         shell: Rscript {0}
68
69       - name: Cache R packages
70         if: steps.check-rmd.outputs.count != 0
71         uses: actions/cache@v1
72         with:
73           path: ${{ env.R_LIBS_USER }}
74           key: ${{ runner.os }}-${{ hashFiles('.github/R-version') }}-1-${{ hashFiles('.github/depends.Rds') }}
75           restore-keys: ${{ runner.os }}-${{ hashFiles('.github/R-version') }}-1-
76
77       - name: Install system dependencies for R packages
78         if: steps.check-rmd.outputs.count != 0
79         run: |
80           while read -r cmd
81           do
82             eval sudo $cmd
83           done < <(Rscript -e 'cat(remotes::system_requirements("ubuntu", "18.04"), sep = "\n")')
84
85       - run: make site
86       - run: make lesson-check
87         if: always()
88       - run: make lesson-check-all
89         if: always()