+# Use /bin/bash instead of /bin/sh
+export SHELL = /bin/bash
+
## ========================================
## Commands for both workshop and lesson websites.
# Settings
MAKEFILES=Makefile $(wildcard *.mk)
-JEKYLL=jekyll
+JEKYLL_VERSION=3.8.5
+JEKYLL=bundle install --path .vendor/bundle && bundle update && bundle exec jekyll
PARSER=bin/markdown_ast.rb
DST=_site
+# 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
+ 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})
+ ifneq (3, ${PYTHON_VERSION_MAJOR})
+ $(error "Your system does not appear to have Python 3 installed.")
+ endif
+ PYTHON := python
+ else
+ $(error "Your system does not appear to have any Python installed.")
+ endif
+endif
+
+
# Controls
.PHONY : commands clean files
-.NOTPARALLEL:
-all : commands
-## commands : show all commands.
-commands :
- @grep -h -E '^##' ${MAKEFILES} | sed -e 's/## //g'
+# Default target
+.DEFAULT_GOAL := commands
+
+## I. Commands for both workshop and lesson websites
+## =================================================
-## serve : run a local server.
+## * serve : render website and run a local server
serve : lesson-md
${JEKYLL} serve
-## site : build files but do not run a server.
+## * site : build website but do not run a server
site : lesson-md
${JEKYLL} build
-# repo-check : check repository settings.
+## * docker-serve : use Docker to serve the site
+docker-serve :
+ docker run --rm -it --volume ${PWD}:/srv/jekyll \
+ --volume=${PWD}/.docker-vendor/bundle:/usr/local/bundle \
+ -p 127.0.0.1:4000:4000 \
+ jekyll/jekyll:${JEKYLL_VERSION} \
+ bin/run-make-docker-serve.sh
+
+## * repo-check : check repository settings
repo-check :
- @bin/repo_check.py -s .
+ @${PYTHON} bin/repo_check.py -s .
-## clean : clean up junk files.
+## * clean : clean up junk files
clean :
@rm -rf ${DST}
@rm -rf .sass-cache
@find . -name '*~' -exec rm {} \;
@find . -name '*.pyc' -exec rm {} \;
-## clean-rmd : clean intermediate R files (that need to be committed to the repo).
-clear-rmd :
+## * clean-rmd : clean intermediate R files (that need to be committed to the repo)
+clean-rmd :
@rm -rf ${RMD_DST}
@rm -rf fig/rmd-*
-## ----------------------------------------
-## Commands specific to workshop websites.
+
+##
+## II. Commands specific to workshop websites
+## =================================================
.PHONY : workshop-check
-## workshop-check : check workshop homepage.
+## * workshop-check : check workshop homepage
workshop-check :
- @bin/workshop_check.py .
+ @${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
# Lesson source files in the order they appear in the navigation menu.
MARKDOWN_SRC = \
index.md \
- CONDUCT.md \
+ CODE_OF_CONDUCT.md \
setup.md \
$(sort $(wildcard _episodes/*.md)) \
reference.md \
$(patsubst _extras/%.md,${DST}/%/index.html,$(sort $(wildcard _extras/*.md))) \
${DST}/license/index.html
-## lesson-md : convert Rmarkdown files to markdown
+## * lesson-md : convert Rmarkdown files to markdown
lesson-md : ${RMD_DST}
-# Use of .NOTPARALLEL makes rule execute only once
-${RMD_DST} : ${RMD_SRC}
- @bin/knit_lessons.sh ${RMD_SRC}
+_episodes/%.md: _episodes_rmd/%.Rmd
+ @bin/knit_lessons.sh $< $@
-## lesson-check : validate lesson Markdown.
-lesson-check :
- @bin/lesson_check.py -s . -p ${PARSER} -r _includes/links.md
+# * lesson-check : validate lesson Markdown
+lesson-check : lesson-fixme
+ @${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 : validate lesson Markdown, checking line lengths and trailing whitespace
lesson-check-all :
- @bin/lesson_check.py -s . -p ${PARSER} -l -w --permissive
+ @${PYTHON} bin/lesson_check.py -s . -p ${PARSER} -r _includes/links.md -l -w --permissive
-## unittest : run unit tests on checking tools.
+## * unittest : run unit tests on checking tools
unittest :
- python bin/test_lesson_check.py
+ @${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
-#-------------------------------------------------------------------------------
-# Include extra commands if available.
-#-------------------------------------------------------------------------------
+##
+## IV. Auxililary (plumbing) commands
+## =================================================
--include commands.mk
+## * commands : show all commands.
+commands :
+ @sed -n -e '/^##/s|^##[[:space:]]*||p' $(MAKEFILE_LIST)
projects / rnaseq-cwl-training.git / blobdiff