diff --git a/.editorconfig b/.editorconfig index 1d7d564d5..5bf4860b1 100644 --- a/.editorconfig +++ b/.editorconfig @@ -9,6 +9,7 @@ trim_trailing_whitespace = true indent_size = 2 indent_style = space max_line_length = 100 # Please keep this in sync with bin/lesson_check.py! +trim_trailing_whitespace = false # keep trailing spaces in markdown - 2+ spaces are translated to a hard break (
) [*.r] max_line_length = 80 diff --git a/.github/ISSUE_TEMPLATE.md b/.github/ISSUE_TEMPLATE.md index ec2d4fe13..077de4cf3 100644 --- a/.github/ISSUE_TEMPLATE.md +++ b/.github/ISSUE_TEMPLATE.md @@ -1,11 +1,21 @@ -Please delete this line and the text below before submitting your contribution. +
+Instructions ---- +Thanks for contributing! :heart: -Thanks for contributing! If this contribution is for instructor training, please send an email to checkout@carpentries.org with a link to this contribution so we can record your progress. You’ve completed your contribution step for instructor checkout just by submitting this contribution. +If this contribution is for instructor training, please email the link to this contribution to +checkout@carpentries.org so we can record your progress. You've completed your contribution +step for instructor checkout by submitting this contribution! If this issue is about a specific episode within a lesson, please provide its link or filename. -Please keep in mind that lesson maintainers are volunteers and it may be some time before they can respond to your contribution. Although not all contributions can be incorporated into the lesson materials, we appreciate your time and effort to improve the curriculum. If you have any questions about the lesson maintenance process or would like to volunteer your time as a contribution reviewer, please contact The Carpentries Team at team@carpentries.org. +Keep in mind that **lesson maintainers are volunteers** and it may take them some time to +respond to your contribution. Although not all contributions can be incorporated into the lesson +materials, we appreciate your time and effort to improve the curriculum. If you have any questions +about the lesson maintenance process or would like to volunteer your time as a contribution +reviewer, please contact The Carpentries Team at team@carpentries.org. ---- +You may delete these instructions from your comment. + +\- The Carpentries +
diff --git a/.github/PULL_REQUEST_TEMPLATE.md b/.github/PULL_REQUEST_TEMPLATE.md index d9eb8c50a..07aadca2c 100644 --- a/.github/PULL_REQUEST_TEMPLATE.md +++ b/.github/PULL_REQUEST_TEMPLATE.md @@ -1,9 +1,19 @@ -Please delete this line and the text below before submitting your contribution. +
+Instructions ---- +Thanks for contributing! :heart: -Thanks for contributing! If this contribution is for instructor training, please send an email to checkout@carpentries.org with a link to this contribution so we can record your progress. You’ve completed your contribution step for instructor checkout just by submitting this contribution. +If this contribution is for instructor training, please email the link to this contribution to +checkout@carpentries.org so we can record your progress. You've completed your contribution +step for instructor checkout by submitting this contribution! -Please keep in mind that lesson maintainers are volunteers and it may be some time before they can respond to your contribution. Although not all contributions can be incorporated into the lesson materials, we appreciate your time and effort to improve the curriculum. If you have any questions about the lesson maintenance process or would like to volunteer your time as a contribution reviewer, please contact The Carpentries Team at team@carpentries.org. +Keep in mind that **lesson maintainers are volunteers** and it may take them some time to +respond to your contribution. Although not all contributions can be incorporated into the lesson +materials, we appreciate your time and effort to improve the curriculum. If you have any questions +about the lesson maintenance process or would like to volunteer your time as a contribution +reviewer, please contact The Carpentries Team at team@carpentries.org. ---- +You may delete these instructions from your comment. + +\- The Carpentries +
diff --git a/.github/workflows/template.yml b/.github/workflows/template.yml new file mode 100644 index 000000000..9ff0d6628 --- /dev/null +++ b/.github/workflows/template.yml @@ -0,0 +1,184 @@ +name: Test template +on: + push: + branches: gh-pages + pull_request: +jobs: + check-template: + name: ${{ matrix.lesson-name }} (${{ matrix.os-name }}) + if: github.repository == 'carpentries/styles' + runs-on: ${{ matrix.os }} + continue-on-error: ${{ matrix.experimental }} + strategy: + fail-fast: false + matrix: + lesson: [swcarpentry/shell-novice, datacarpentry/r-intro-geospatial, librarycarpentry/lc-git] + os: [ubuntu-20.04, macos-latest, windows-latest] + experimental: [false] + include: + - os: ubuntu-20.04 + os-name: Linux + - os: macos-latest + os-name: macOS + - os: windows-latest + os-name: Windows + - lesson: swcarpentry/shell-novice + lesson-name: (SWC) Shell novice + - lesson: datacarpentry/r-intro-geospatial + lesson-name: (DC) R Intro Geospatial + - lesson: librarycarpentry/lc-git + lesson-name: (LC) Intro to Git + - lesson: datacarpentry/astronomy-python + lesson-name: (DC) Foundations of Astronomical Data Science + experimental: true + os: ubuntu-20.04 + os-name: Linux + - lesson: carpentries/lesson-example + lesson-name: (CP) Lesson Example + experimental: false + os: ubuntu-20.04 + os-name: Linux + defaults: + run: + shell: bash # forces 'Git for Windows' on Windows + env: + RSPM: 'https://packagemanager.rstudio.com/cran/__linux__/focal/latest' + steps: + - name: Set up Ruby + uses: ruby/setup-ruby@v1 + with: + ruby-version: '2.7' + bundler-cache: true + + - name: Set up Python + uses: actions/setup-python@v2 + with: + python-version: '3.x' + + - name: Install GitHub Pages, Bundler, and kramdown gems + run: | + gem install github-pages bundler kramdown kramdown-parser-gfm + + - name: Install Python modules + run: | + if [[ $RUNNER_OS == macOS || $RUNNER_OS == Linux ]]; then + python3 -m pip install --upgrade pip setuptools wheel pyyaml==5.3.1 requests + elif [[ $RUNNER_OS == Windows ]]; then + python -m pip install --upgrade pip setuptools wheel pyyaml==5.3.1 requests + fi + + - name: Checkout the ${{ matrix.lesson }} lesson + uses: actions/checkout@master + with: + repository: ${{ matrix.lesson }} + path: lesson + fetch-depth: 0 + + - name: Sync lesson with carpentries/styles + working-directory: lesson + run: | + echo "::group::Fetch Styles" + if [[ -n "${{ github.event.pull_request.number }}" ]] + then + ref="refs/pull/${{ github.event.pull_request.number }}/head" + else + ref="gh-pages" + fi + + git config --global user.email "team@carpentries.org" + git config --global user.name "The Carpentries Bot" + + git remote add styles https://github.com/carpentries/styles.git + git fetch styles $ref:styles-ref + echo "::endgroup::" + echo "::group::Synchronize Styles" + # Sync up only if necessary + if [[ $(git rev-list --count HEAD..styles-ref) != 0 ]] + then + + # The merge command below might fail for lessons that use remote theme + # https://github.com/carpentries/carpentries-theme + echo "Testing merge using recursive strategy, accepting upstream changes without committing" + if ! git merge -s recursive -Xtheirs --no-commit styles-ref + then + + # Remove "deleted by us, unmerged" files from the staging area. + # these are the files that were removed from the lesson + # but are still present in the carpentries/styles repo + echo "Removing previously deleted files" + git rm $(git diff --name-only --diff-filter=DU) + + # If there are still "unmerged" files, + # let's raise an error and look into this more closely + if [[ -n $(git diff --name-only --diff-filter=U) ]] + then + echo "There were unmerged files in ${{ matrix.lesson-name }}:" + echo "$(git diff --compact-summary --diff-filter=U)" + exit 1 + fi + fi + + echo "Committing changes" + git commit -m "Sync lesson with carpentries/styles" + fi + echo "::endgroup::" + + - name: Look for R-markdown files + id: check-rmd + working-directory: lesson + run: | + echo "::set-output name=count::$(shopt -s nullglob; files=($(find . -iname '*.Rmd')); echo ${#files[@]})" + + - name: Set up R + if: steps.check-rmd.outputs.count != 0 + uses: r-lib/actions/setup-r@master + with: + r-version: 'release' + + - name: Install needed packages + if: steps.check-rmd.outputs.count != 0 + working-directory: lesson + run: | + source('bin/dependencies.R') + install_required_packages(.libPaths()[1]) + shell: Rscript {0} + + - name: Query dependencies + if: steps.check-rmd.outputs.count != 0 + working-directory: lesson + run: | + source('bin/dependencies.R') + deps <- identify_dependencies() + create_description(deps) + use_bioc_repos() + saveRDS(remotes::dev_package_deps(dependencies = TRUE), ".github/depends.Rds", version = 2) + writeLines(sprintf("R-%i.%i", getRversion()$major, getRversion()$minor), ".github/R-version") + shell: Rscript {0} + + - name: Restore Package Cache + if: runner.os != 'Windows' && steps.check-rmd.outputs.count != 0 + 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 stringi from source + if: runner.os == 'Linux' && steps.check-rmd.outputs.count != 0 + run: install.packages('stringi', repos='https://cloud.r-project.org') + shell: Rscript {0} + + - name: Install system dependencies for R packages + if: runner.os == 'Linux' && steps.check-rmd.outputs.count != 0 + working-directory: lesson + run: | + while read -r cmd + do + eval sudo $cmd || echo "Nothing to update" + done < <(Rscript -e 'cat(remotes::system_requirements("ubuntu", "20.04"), sep = "\n")') + + - run: make site + working-directory: lesson + + - run: make lesson-check-all + working-directory: lesson diff --git a/.github/workflows/website.yml b/.github/workflows/website.yml new file mode 100644 index 000000000..9d47e3008 --- /dev/null +++ b/.github/workflows/website.yml @@ -0,0 +1,122 @@ +name: Website +on: + push: + branches: + - gh-pages + - main + pull_request: [] +jobs: + build-website: + if: ${{ !endsWith(github.repository, '/styles') }} + runs-on: ubuntu-20.04 + env: + RSPM: "https://packagemanager.rstudio.com/cran/__linux__/focal/latest" + GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} + defaults: + run: + shell: bash + steps: + - name: Set up Ruby + uses: ruby/setup-ruby@v1 + with: + ruby-version: '2.7' + bundler-cache: true + + - name: Set up Python + uses: actions/setup-python@v2 + with: + python-version: '3.x' + + - name: Install GitHub Pages, Bundler, and kramdown gems + run: | + gem install github-pages bundler kramdown kramdown-parser-gfm + + - name: Install Python modules + run: | + python3 -m pip install --upgrade pip setuptools wheel pyyaml==5.3.1 requests + + - name: Checkout the lesson + uses: actions/checkout@master + with: + fetch-depth: 0 + ref: ${{ github.event.pull_request.head.sha }} + + - name: Look for R-markdown files + id: check-rmd + run: | + echo "::set-output name=count::$(shopt -s nullglob; files=($(find . -iname '*.Rmd')); echo ${#files[@]})" + + - name: Set up R + if: steps.check-rmd.outputs.count != 0 + uses: r-lib/actions/setup-r@master + with: + r-version: 'release' + + - name: Restore R Cache + if: steps.check-rmd.outputs.count != 0 + 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 needed packages + if: steps.check-rmd.outputs.count != 0 + run: | + source('bin/dependencies.R') + install_required_packages() + shell: Rscript {0} + + - name: Query dependencies + if: steps.check-rmd.outputs.count != 0 + run: | + source('bin/dependencies.R') + deps <- identify_dependencies() + create_description(deps) + use_bioc_repos() + 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: Install system dependencies for R packages + if: steps.check-rmd.outputs.count != 0 + run: | + while read -r cmd + do + eval sudo $cmd || echo "Nothing to update" + done < <(Rscript -e 'cat(remotes::system_requirements("ubuntu", "20.04"), sep = "\n")') + + - name: Render the markdown and confirm that the site can be built + run: make site + + - name: Checkout github pages + if: ${{ github.event_name == 'push' && steps.check-rmd.outputs.count != 0 && github.ref != 'refs/heads/gh-pages'}} + uses: actions/checkout@master + with: + ref: gh-pages + path: gh-pages + + - name: Commit and Push + if: ${{ github.event_name == 'push' && steps.check-rmd.outputs.count != 0 && github.ref != 'refs/heads/gh-pages'}} + run: | + # clean up gh-pages + cd gh-pages + git rm -rf . # remove all previous files + git restore --staged . # remove things from the stage + cd .. + # copy everything into gh-pages site + cp -r `ls -A | grep -v 'gh-pages' | grep -v '.git' | grep -v '.bundle/' | grep -v '_site'` gh-pages + # move into gh-pages, add, commit, and push + cd gh-pages + # setup git + git config --local user.email "actions@github.com" + git config --local user.name "GitHub Actions" + git add -A . + git commit --allow-empty -m "[Github Actions] render website (via ${{ github.sha }})" + git push origin gh-pages + # return + cd .. + + - run: make lesson-check-all + if: always() diff --git a/.gitignore b/.gitignore index 63552e192..e3ce3b79a 100644 --- a/.gitignore +++ b/.gitignore @@ -3,10 +3,16 @@ .DS_Store .ipynb_checkpoints .sass-cache +.jekyll-cache/ +.jekyll-metadata __pycache__ _site .Rproj.user .Rhistory .RData -.jekyll-cache - +.bundle/ +.vendor/ +vendor/ +.docker-vendor/ +Gemfile.lock +.*history diff --git a/404.md b/404.md new file mode 100644 index 000000000..c1cf9dd47 --- /dev/null +++ b/404.md @@ -0,0 +1,25 @@ +--- +layout: base +root: . +permalink: 404.html +title: "Page not found" +--- + +# Oops! We cannot find that page. +{: style="text-align: center;"} + +> ## Our apologies! +> +> We cannot seem to find the page you are looking for. +> Try going back to the previous page or +> navigate to any other page using the navigation bar above +> {%- if site.kind == "lesson" -%} or the schedule below {%- endif -%}. +> If you got here by clicking on a link in the +> {%- if site.kind == "lesson" -%} lesson {%- else -%} workshop {%- endif -%}, +> please report this link to the +> {%- if site.kind == "lesson" -%} lesson developers {%- else -%} workshop organizers {%- endif -%}. +{: .caution} + +{% if site.kind == "lesson" %} + {% include syllabus.html %} +{% endif%} diff --git a/CODE_OF_CONDUCT.md b/CODE_OF_CONDUCT.md index c3b966907..2cf1133bb 100644 --- a/CODE_OF_CONDUCT.md +++ b/CODE_OF_CONDUCT.md @@ -8,4 +8,5 @@ we pledge to follow the [Carpentry Code of Conduct][coc]. Instances of abusive, harassing, or otherwise unacceptable behavior may be reported by following our [reporting guidelines][coc-reporting]. -{% include links.md %} +[coc]: https://docs.carpentries.org/topic_folders/policies/code-of-conduct.html +[coc-reporting]: https://docs.carpentries.org/topic_folders/policies/incident-reporting.html diff --git a/Gemfile b/Gemfile new file mode 100644 index 000000000..8d69492bf --- /dev/null +++ b/Gemfile @@ -0,0 +1,14 @@ +# frozen_string_literal: true + +source 'https://rubygems.org' + +git_source(:github) { |repo_name| "https://github.com/#{repo_name}" } + +# Synchronize with https://pages.github.com/versions +ruby '>=2.7.1' + +gem 'github-pages', group: :jekyll_plugins + +if Gem::Version.new(RUBY_VERSION) >= Gem::Version.new('3.0.0') + gem 'webrick', '>= 1.6.1' +end \ No newline at end of file diff --git a/Makefile b/Makefile index 8569e7a4d..6bf02c6d5 100644 --- a/Makefile +++ b/Makefile @@ -3,69 +3,110 @@ # Settings MAKEFILES=Makefile $(wildcard *.mk) -JEKYLL=jekyll -JEKYLL_VERSION=3.7.3 +JEKYLL=bundle config set --local path .vendor/bundle && bundle install && bundle update && bundle exec jekyll PARSER=bin/markdown_ast.rb DST=_site -# Controls -.PHONY : commands clean files -.NOTPARALLEL: -all : commands - -## commands : show all commands. -commands : - @grep -h -E '^##' ${MAKEFILES} | sed -e 's/## //g' - -## docker-serve : use docker to build the site -docker-serve : - docker run --rm -it -v ${PWD}:/srv/jekyll -p 127.0.0.1:4000:4000 jekyll/jekyll:${JEKYLL_VERSION} make serve - -### jupyter : run JupyterHub and support a Python3 notebook with this data -jupyter : - docker run --rm -p 8888:8888 -e JUPYTER_ENABLE_LAB=yes -v ${PWD}:/home/jovyan/ jupyter/scipy-notebook:latest -## serve : run a local server. -serve : lesson-md +# Find Docker +DOCKER := $(shell which docker 2>/dev/null) + +# Check Python 3 is installed and determine if it's called via python3 or python +# (https://stackoverflow.com/a/4933395) +PYTHON3_EXE := $(shell which python3 2>/dev/null) +ifneq (, $(PYTHON3_EXE)) + ifeq (,$(findstring Microsoft/WindowsApps/python3,$(subst \,/,$(PYTHON3_EXE)))) + PYTHON := $(PYTHON3_EXE) + endif +endif + +ifeq (,$(PYTHON)) + PYTHON_EXE := $(shell which python 2>/dev/null) + ifneq (, $(PYTHON_EXE)) + PYTHON_VERSION_FULL := $(wordlist 2,4,$(subst ., ,$(shell python --version 2>&1))) + PYTHON_VERSION_MAJOR := $(word 1,${PYTHON_VERSION_FULL}) + ifeq (3, ${PYTHON_VERSION_MAJOR}) + PYTHON := $(PYTHON_EXE) + else + PYTHON_NOTE = "Your system does not appear to have Python 3 installed." + endif + else + PYTHON_NOTE = "Your system does not appear to have any Python installed." + endif +endif + + +# Default target +.DEFAULT_GOAL := commands + +## I. Commands for both workshop and lesson websites +## ================================================= + +.PHONY: site docker-serve repo-check clean clean-rmd + +## * serve : render website and run a local server +serve : lesson-md index.md ${JEKYLL} serve -## site : build files but do not run a server. -site : lesson-md +## * site : build website but do not run a server +site : lesson-md index.md ${JEKYLL} build -# repo-check : check repository settings. -repo-check : - @bin/repo_check.py -s . - -## clean : clean up junk files. +## * docker-serve : use Docker to serve the site +docker-serve : +ifeq (, $(DOCKER)) + $(error Your system does not appear to have Docker installed) +else + @$(DOCKER) pull carpentries/lesson-docker:latest + @$(DOCKER) run --rm -it \ + -v $${PWD}:/home/rstudio \ + -p 4000:4000 \ + -p 8787:8787 \ + -e USERID=$$(id -u) \ + -e GROUPID=$$(id -g) \ + carpentries/lesson-docker:latest +endif + +## * repo-check : check repository settings +repo-check : python + @${PYTHON} bin/repo_check.py -s . + +## * clean : clean up junk files clean : @rm -rf ${DST} @rm -rf .sass-cache @rm -rf bin/__pycache__ + @rm -rf .vendor + @rm -rf .bundle + @rm -f Gemfile.lock @find . -name .DS_Store -exec rm {} \; @find . -name '*~' -exec rm {} \; @find . -name '*.pyc' -exec rm {} \; -## clean-rmd : clean intermediate R files (that need to be committed to the repo). +## * clean-rmd : clean intermediate R files (that need to be committed to the repo) clean-rmd : @rm -rf ${RMD_DST} @rm -rf fig/rmd-* -## ---------------------------------------- -## Commands specific to workshop websites. + +## +## II. Commands specific to workshop websites +## ================================================= .PHONY : workshop-check -## workshop-check : check workshop homepage. -workshop-check : - @bin/workshop_check.py . +## * workshop-check : check workshop homepage +workshop-check : python + @${PYTHON} bin/workshop_check.py . + -## ---------------------------------------- -## Commands specific to lesson websites. +## +## III. Commands specific to lesson websites +## ================================================= -.PHONY : lesson-check lesson-md lesson-files lesson-fixme +.PHONY : lesson-check lesson-md lesson-files lesson-fixme install-rmd-deps # RMarkdown files -RMD_SRC = $(wildcard _episodes_rmd/??-*.Rmd) +RMD_SRC = $(wildcard _episodes_rmd/*.Rmd) RMD_DST = $(patsubst _episodes_rmd/%.Rmd,_episodes/%.md,$(RMD_SRC)) # Lesson source files in the order they appear in the navigation menu. @@ -84,41 +125,64 @@ HTML_DST = \ ${DST}/conduct/index.html \ ${DST}/setup/index.html \ $(patsubst _episodes/%.md,${DST}/%/index.html,$(sort $(wildcard _episodes/*.md))) \ - ${DST}/reference/index.html \ + ${DST}/reference.html \ $(patsubst _extras/%.md,${DST}/%/index.html,$(sort $(wildcard _extras/*.md))) \ ${DST}/license/index.html -## lesson-md : convert Rmarkdown files to markdown +## * install-rmd-deps : Install R packages dependencies to build the RMarkdown lesson +install-rmd-deps: + @${SHELL} bin/install_r_deps.sh + +## * lesson-md : convert Rmarkdown files to markdown lesson-md : ${RMD_DST} -_episodes/%.md: _episodes_rmd/%.Rmd - @bin/knit_lessons.sh $< $@ +_episodes/%.md: _episodes_rmd/%.Rmd install-rmd-deps + @mkdir -p _episodes + @$(SHELL) bin/knit_lessons.sh $< $@ -## lesson-check : validate lesson Markdown. -lesson-check : lesson-fixme - @bin/lesson_check.py -s . -p ${PARSER} -r _includes/links.md +## * lesson-check : validate lesson Markdown +lesson-check : python lesson-fixme + @${PYTHON} bin/lesson_check.py -s . -p ${PARSER} -r _includes/links.md -## lesson-check-all : validate lesson Markdown, checking line lengths and trailing whitespace. -lesson-check-all : - @bin/lesson_check.py -s . -p ${PARSER} -r _includes/links.md -l -w --permissive +## * lesson-check-all : validate lesson Markdown, checking line lengths and trailing whitespace +lesson-check-all : python + @${PYTHON} bin/lesson_check.py -s . -p ${PARSER} -r _includes/links.md -l -w --permissive -## unittest : run unit tests on checking tools. -unittest : - @bin/test_lesson_check.py +## * unittest : run unit tests on checking tools +unittest : python + @${PYTHON} bin/test_lesson_check.py -## lesson-files : show expected names of generated files for debugging. +## * lesson-files : show expected names of generated files for debugging lesson-files : @echo 'RMD_SRC:' ${RMD_SRC} @echo 'RMD_DST:' ${RMD_DST} @echo 'MARKDOWN_SRC:' ${MARKDOWN_SRC} @echo 'HTML_DST:' ${HTML_DST} -## lesson-fixme : show FIXME markers embedded in source files. +## * lesson-fixme : show FIXME markers embedded in source files lesson-fixme : - @fgrep -i -n FIXME ${MARKDOWN_SRC} || true + @grep --fixed-strings --word-regexp --line-number --no-messages FIXME ${MARKDOWN_SRC} || true + +## +## IV. Auxililary (plumbing) commands +## ================================================= -#------------------------------------------------------------------------------- -# Include extra commands if available. -#------------------------------------------------------------------------------- +.PHONY : commands python --include commands.mk +## * commands : show all commands. +commands : + @sed -n -e '/^##/s|^##[[:space:]]*||p' $(MAKEFILE_LIST) + +python : +ifeq (, $(PYTHON)) + $(error $(PYTHON_NOTE)) +else + @: +endif + +index.md : +ifeq (, $(wildcard index.md)) + $(error index.md not found) +else + @: +endif diff --git a/_includes/aio-script.md b/_includes/aio-script.md index 926e0a6ea..d90e6d684 100644 --- a/_includes/aio-script.md +++ b/_includes/aio-script.md @@ -1,38 +1,25 @@ {% comment %} As a maintainer, you don't need to edit this file. -If you notice that something doesn't work, please +If you notice that something doesn't work, please open an issue: https://github.com/carpentries/styles/issues/new {% endcomment %} - -{% comment %} -Create an anchor for every episode. -{% endcomment %} -{% for episode in site.episodes %} -
+{% include manual_episode_order.html %} + +{% for lesson_episode in lesson_episodes %} + +{% if site.episode_order %} + {% assign e = site.episodes | where: "slug", lesson_episode | first %} +{% else %} + {% assign e = lesson_episode %} +{% endif %} + +

{{ e.title }}

+ +{% include episode_overview.html teaching_time=e.teaching exercise_time=e.exercises episode_questions=e.questions episode_objectives=e.objectives %} + +{{ e.content }} + +{% include episode_keypoints.html episode_keypoints=e.keypoints %} +
{% endfor %} diff --git a/_includes/all_keypoints.html b/_includes/all_keypoints.html index e4fd289ff..f0abd251c 100644 --- a/_includes/all_keypoints.html +++ b/_includes/all_keypoints.html @@ -3,10 +3,16 @@ {% endcomment %} {% include base_path.html %} +{% include manual_episode_order.html %}

Key Points

-{% for episode in site.episodes %} +{% for lesson_episode in lesson_episodes %} + {% if site.episode_order %} + {% assign episode = site.episodes | where: "slug", lesson_episode | first %} + {% else %} + {% assign episode = lesson_episode %} + {% endif %} {% unless episode.break %} - {% for episode in site.episodes %} + {% if site.instructor_training %} + + {% if multiday %}{% endif %} + + + + + {% endif %} + {% for lesson_episode in lesson_episodes %} + {% if site.episode_order %} + {% assign episode = site.episodes | where: "slug", lesson_episode | first %} + {% else %} + {% assign episode = lesson_episode %} + {% endif %} {% if episode.start %} {% comment %} Starting a new day? {% endcomment %} {% assign day = day | plus: 1 %} {% if day > 1 %} {% comment %} If about to start day 2 or later, show finishing time for previous day {% endcomment %} @@ -65,6 +86,17 @@

Schedule

{% endfor %} {% assign hours = current | divided_by: 60 %} {% assign minutes = current | modulo: 60 %} + {% if site.instructor_training %} + + {% if multiday %}{% endif %} + + + + + {% assign current = current | plus: 15 %} + {% assign hours = current | divided_by: 60 %} + {% assign minutes = current | modulo: 60 %} + {% endif %} {% if multiday %}{% endif %} diff --git a/_layouts/base.html b/_layouts/base.html index 07a497272..67b6d7af4 100644 --- a/_layouts/base.html +++ b/_layouts/base.html @@ -16,6 +16,10 @@ + {% if page.math %} + + {% endif %} + {% include favicons.html %} @@ -28,7 +32,7 @@ {% if page.title %}{{ page.title }}{% endif %}{% if page.title and site.title %} – {% endif %}{% if site.title %}{{ site.title }}{% endif %} - + diff --git a/aio.md b/aio.md index 0ab72ea55..8d1806d29 100644 --- a/aio.md +++ b/aio.md @@ -3,8 +3,8 @@ permalink: /aio/index.html --- {% comment %} -As a maintainer, you don't need to edit this file. -If you notice that something doesn't work, please +As a maintainer, you do not need to edit this file. +If you notice that something does not work, please open an issue: https://github.com/carpentries/styles/issues/new {% endcomment %} diff --git a/assets/css/bootstrap.css b/assets/css/bootstrap.css index fcab41554..2be255914 100644 --- a/assets/css/bootstrap.css +++ b/assets/css/bootstrap.css @@ -1608,8 +1608,8 @@ pre code { margin-left: auto; } .row { - margin-right: -15px; - margin-left: -15px; + margin-right: -10px; + margin-left: -10px; } .row-no-gutters { margin-right: 0; diff --git a/assets/css/katex.min.css b/assets/css/katex.min.css new file mode 100644 index 000000000..e1dfc046a --- /dev/null +++ b/assets/css/katex.min.css @@ -0,0 +1 @@ +@font-face{font-family:KaTeX_AMS;font-style:normal;font-weight:400;src:url(fonts/KaTeX_AMS-Regular.woff2) format("woff2"),url(fonts/KaTeX_AMS-Regular.woff) format("woff"),url(fonts/KaTeX_AMS-Regular.ttf) format("truetype")}@font-face{font-family:KaTeX_Caligraphic;font-style:normal;font-weight:700;src:url(fonts/KaTeX_Caligraphic-Bold.woff2) format("woff2"),url(fonts/KaTeX_Caligraphic-Bold.woff) format("woff"),url(fonts/KaTeX_Caligraphic-Bold.ttf) format("truetype")}@font-face{font-family:KaTeX_Caligraphic;font-style:normal;font-weight:400;src:url(fonts/KaTeX_Caligraphic-Regular.woff2) format("woff2"),url(fonts/KaTeX_Caligraphic-Regular.woff) format("woff"),url(fonts/KaTeX_Caligraphic-Regular.ttf) format("truetype")}@font-face{font-family:KaTeX_Fraktur;font-style:normal;font-weight:700;src:url(fonts/KaTeX_Fraktur-Bold.woff2) format("woff2"),url(fonts/KaTeX_Fraktur-Bold.woff) format("woff"),url(fonts/KaTeX_Fraktur-Bold.ttf) format("truetype")}@font-face{font-family:KaTeX_Fraktur;font-style:normal;font-weight:400;src:url(fonts/KaTeX_Fraktur-Regular.woff2) format("woff2"),url(fonts/KaTeX_Fraktur-Regular.woff) format("woff"),url(fonts/KaTeX_Fraktur-Regular.ttf) 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+div.language-chapel::before { content: "Chapel"; } +div.language-cmake::before { content: "CMake"; } +div.language-cpp::before { content: "C++"; } +div.language-cuda::before { content: "Cuda"; } +div.language-d::before { content: "D"; } +div.language-fortran::before { content: "Fortran"; } +div.language-go::before { content: "Go"; } +div.language-html::before { content: "HTML"; } +div.language-java::before { content: "Java"; } +div.language-julia::before { content: "Julia"; } +div.language-kotlin::before { content: "Kotlin"; } +div.language-lua::before { content: "Lua"; } +div.language-make::before { content: "Make"; } +div.language-matlab::before { content: "MATLAB"; } +div.language-opencl::before { content: "OpenCL"; } +div.language-perl::before { content: "Perl"; } +div.language-python::before { content: "Python"; } +div.language-r::before { content: "R"; } +div.language-ruby::before { content: "Ruby"; } +div.language-rust::before { content: "Rust"; } +div.language-scala::before { 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diff --git a/_includes/base_path.html b/_includes/base_path.html index 7efb3570a..4f343afa8 100644 --- a/_includes/base_path.html +++ b/_includes/base_path.html @@ -1,27 +1,41 @@ -{% comment %} -This is adapted from: https://ricostacruz.com/til/relative-paths-in-jekyll +{%- comment -%} +When the website is built by GitHub Pages, +'site.url' is set to 'https://username.github.io' +'site.baseurl' is set to '/lesson-name' -`page.url` gives the URL of the current page with a leading /: +When we start a local server using `jekyll serve`, +'site.url' is set to 'http://localhost:4000' and +'site.baseurl' is empty. -- when the URL ends with the extension (e.g., /foo/bar.html) then we can get - the depth by counting the number of / and remove - 1 -- when the URL ends with a / (e.g. /foo/bar/) then the number / gives the depth - directly -{% endcomment %} +In both of the above cases we set 'relative_root_path' to 'site.baseurl'. -{% assign relative_root_path = '' %} +When we build a website locally with `jekyll build`, +both 'site.url' and 'site.baseurl' are empty. +This case is handled by the last 'else' in the code below. +The logic there follows the (adapted) instructions found at: + https://ricostacruz.com/til/relative-paths-in-jekyll -{% assign last_char = page.url | slice: -1 %} + `page.url` gives the URL of the current page with a leading /: -{% if last_char == "/"} -{% assign offset = 0 %} -{% else %} -{% assign offset = 1 %} -{% endif %} + - when the URL ends with an extension (e.g., /foo/bar.html), + we can get the 'depth' of the page by counting the number of + forward slashes ('/') and subtracting 1 + - when the URL ends with a forward slash (e.g. /foo/bar/), + we can get the depth of the page by counting the number of / +{%- endcomment -%} -{% assign depth = page.url | split: '/' | size | minus: offset %} -{% if depth <= 1 %}{% assign relative_root_path = '.' %} -{% elsif depth == 2 %}{% assign relative_root_path = '..' %} -{% elsif depth == 3 %}{% assign relative_root_path = '../..' %} -{% elsif depth == 4 %}{% assign relative_root_path = '../../..' %} +{% if site.url %} + {% assign relative_root_path = site.baseurl %} +{% else %} + {% assign last_char = page.url | slice: -1 %} + {% if last_char == "/" %} + {% assign offset = 0 %} + {% else %} + {% assign offset = 1 %} + {% endif %} + {% assign depth = page.url | split: '/' | size | minus: offset %} + {% if depth <= 1 %}{% assign relative_root_path = '.' %} + {% elsif depth == 2 %}{% assign relative_root_path = '..' %} + {% else %}{% capture relative_root_path %}..{% for i in (3..depth) %}/..{% endfor %}{% endcapture %} + {% endif %} {% endif %} diff --git a/_includes/episode_keypoints.html b/_includes/episode_keypoints.html index 2baa53ef0..5c283ea82 100644 --- a/_includes/episode_keypoints.html +++ b/_includes/episode_keypoints.html @@ -1,10 +1,17 @@ {% comment %} Display key points for an episode. {% endcomment %} + +{% if page.keypoints == nil %} +{% assign episode_keypoints = include.episode_keypoints %} +{% else %} +{% assign episode_keypoints = page.keypoints %} +{% endif %} +

Key Points

    - {% for keypoint in page.keypoints %} + {% for keypoint in episode_keypoints %}
  • {{ keypoint|markdownify }}
  • {% endfor %}
diff --git a/_includes/episode_navbar.html b/_includes/episode_navbar.html index ea368eba2..5abf86f2c 100644 --- a/_includes/episode_navbar.html +++ b/_includes/episode_navbar.html @@ -9,11 +9,17 @@ Navigation bar for an episode. {% endcomment %} +{% include manual_episode_order.html %} +{% comment %} + 'previous_episode' and 'next_episodes' are defined in 'manual_episode_order.html'. + These replace 'page.previous' and 'page.next' objects, correspondingly. +{% endcomment %} +

- {% if page.previous.url %} - previous episode + {% if previous_episode %} + previous episode {% else %} lesson home {% endif %} @@ -26,8 +32,8 @@

{{ site.title }}

- {% if page.next.url %} - next episode + {% if next_episode %} + next episode {% else %} lesson home {% endif %} diff --git a/_includes/episode_overview.html b/_includes/episode_overview.html index cb87e0f66..169ab26b6 100644 --- a/_includes/episode_overview.html +++ b/_includes/episode_overview.html @@ -1,19 +1,59 @@ {% comment %} - Display an episode's timings and learning objectives. + Display episode's timings and learning objectives. + + Regarding the `if page.*** == nil` below: + all-in-one page combines all episodes into one. + It, therefore, does not define its own objectives, exercises, + and questions, which 'normal' episodes define in the front matter. + + To display episodes' teaching and exercise times, as well as episode + questions and objectives, we pass them as parameters to the Liquid's + `include` statement when we generate the page: + + include episode_overview.html teaching_time=e.teaching ... + + Here we obtain the information we need either from the episode itself or + from the parameters passed in. {% endcomment %} + +{% if page.teaching == nil %} +{% assign teaching_time = include.teaching_time %} +{% else %} +{% assign teaching_time = page.teaching %} +{% endif %} + +{% if page.exercises == nil %} +{% assign exercise_time = include.exercise_time %} +{% else %} +{% assign exercise_time = page.exercises %} +{% endif %} + +{% if page.questions == nil %} +{% assign episode_questions = include.episode_questions %} +{% else %} +{% assign episode_questions = page.questions %} +{% endif %} + +{% if page.objectives == nil %} +{% assign episode_objectives = include.episode_objectives %} +{% else %} +{% assign episode_objectives = page.objectives %} +{% endif %} + +

Overview

- Teaching: {{ page.teaching }} min + Teaching: {{ teaching_time }} min
- Exercises: {{ page.exercises }} min + Exercises: {{ exercise_time }} min
Questions
    - {% for question in page.questions %} + {% for question in episode_questions %}
  • {{ question|markdownify }}
  • {% endfor %}
@@ -26,7 +66,7 @@

Overview

Objectives
    - {% for objective in page.objectives %} + {% for objective in episode_objectives %}
  • {{ objective|markdownify }}
  • {% endfor %}
diff --git a/_includes/javascript.html b/_includes/javascript.html index fcc74e6ec..1c4877a6c 100644 --- a/_includes/javascript.html +++ b/_includes/javascript.html @@ -4,6 +4,7 @@ + + +{% if page.math %} + + + +{% endif %} + +{%- comment -%} +AnchorJS: A JavaScript utility for adding deep anchor links +https://github.com/bryanbraun/anchorjs +https://cdn.jsdelivr.net/npm/anchor-js/anchor.min.js +{%- endcomment -%} + + + diff --git a/_includes/lesson_footer.html b/_includes/lesson_footer.html index 03091a7cd..b0eb29912 100644 --- a/_includes/lesson_footer.html +++ b/_includes/lesson_footer.html @@ -6,7 +6,7 @@
-

Setup Download files required for the lesson
Pre-training surveyPlease fill out our pre-training survey before the start of the course.
{% if hours < 10 %}0{% endif %}{{ hours }}:{% if minutes < 10 %}0{% endif +++ %}{{ minutes }}Post-training surveyPlease fill out our post-training survey after the course.
{% if hours < 10 %}0{% endif %}{{ hours }}:{% if minutes < 10 %}0{% endif %}{{ minutes }}
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