No need for User Agent string
[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__/bionic/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 ${#files[@]})"
45
46       - name: Set up R
47         if: steps.check-rmd.outputs.count != 0
48         uses: r-lib/actions/setup-r@master
49         with:
50           r-version: 'release'
51
52       - name: Install needed packages
53         if: steps.check-rmd.outputs.count != 0
54         run: |
55           install.packages(c('remotes', 'rprojroot', 'renv', 'desc', 'rmarkdown', 'knitr'))
56         shell: Rscript {0}
57
58       - name: Query dependencies
59         if: steps.check-rmd.outputs.count != 0
60         run: |
61           source('bin/dependencies.R')
62           deps <- identify_dependencies()
63           create_description(deps)
64           saveRDS(remotes::dev_package_deps(dependencies = TRUE), ".github/depends.Rds", version = 2)
65           writeLines(sprintf("R-%i.%i", getRversion()$major, getRversion()$minor), ".github/R-version")
66         shell: Rscript {0}
67
68       - name: Cache R packages
69         if: steps.check-rmd.outputs.count != 0
70         uses: actions/cache@v1
71         with:
72           path: ${{ env.R_LIBS_USER }}
73           key: ${{ runner.os }}-${{ hashFiles('.github/R-version') }}-1-${{ hashFiles('.github/depends.Rds') }}
74           restore-keys: ${{ runner.os }}-${{ hashFiles('.github/R-version') }}-1-
75
76       - name: Install system dependencies for R packages
77         if: steps.check-rmd.outputs.count != 0
78         run: |
79           while read -r cmd
80           do
81             eval sudo $cmd
82           done < <(Rscript -e 'cat(remotes::system_requirements("ubuntu", "18.04"), sep = "\n")')
83
84       - run: make site
85       - run: make lesson-check
86         if: always()
87       - run: make lesson-check-all
88         if: always()