Makefile

export DOCKER_NM='jreades/sds:2022'
export ENV_NM='base' # 'sds2022'
test: test_py # test_rs
stacks: py_stack # r_stack
test_py:
	docker run -v `pwd`:/home/jovyan/work ${DOCKER_NM} start.sh jupyter nbconvert --execute /home/jovyan/test/gds_py/check_py_stack.ipynb
test_r:
	docker run -v `pwd`:/home/jovyan/work ${DOCKER_NM} start.sh jupyter nbconvert --execute /home/jovyan/test/gds/check_r_stack.ipynb
py_stack: 
	# Python
	echo "SDS version: ${DOCKER_NM}" > conda/environment_py.txt
	docker run -v ${PWD}:/home/jovyan --rm ${DOCKER_NM} start.sh conda list -n ${ENV_NM} >> conda/environment_py.txt
	docker run -v ${PWD}:/home/jovyan --rm ${DOCKER_NM} start.sh conda list -n ${ENV_NM} --json >> conda/environment_py.json
	python -c "import subprocess, pandas; fo=open('conda/environment_py.md', 'w'); fo.write(pandas.read_json('conda/environment_py.json')[['name', 'version', 'build_string', 'channel']].to_markdown()); fo.close()"
	docker run -v ${PWD}:/home/jovyan --rm ${DOCKER_NM} start.sh sed -i "1s/^/\n/" conda/environment_py.md
r_stack: 
	# R
	#docker run -v ${PWD}:/home/jovyan --rm ${DOCKER_NM} start.sh Rscript -e "ip <- as.data.frame(installed.packages()[,c(1,3:4)]); print(ip)" > gds/stack_r.txt
	#docker run -v ${PWD}:/home/jovyan --rm ${DOCKER_NM} start.sh sed -i '1iSDS version: ${DOCKER_NM}' gds/stack_r.txt
	#docker run -v ${PWD}:/home/jovyan --rm ${DOCKER_NM} start.sh Rscript -e "library(knitr); ip <- as.data.frame(installed.packages()[,c(1,3:4)]); fc <- file('gds/stack_r.md'); writeLines(kable(ip, format = 'markdown'), fc); close(fc);"
	#docker run -v ${PWD}:/home/jovyan --rm ${DOCKER_NM} start.sh sed -i "1s/^/\n/" gds/stack_r.md
yml:
	# Do a full export of the conda environment in Docker 
	# and then try to remove the platform-specific content
	# except for one 'gotcha' in the Pip install of Sompy 
	# from GitHub and not the original repo (which doesn't
	# support Python3).
	DOCKER_NM=${DOCKER_NM} ENV_NM=${ENV_NM} ./conda/export.sh
website_build:
	cd website && \
	rm -rf _includes && \
	rm -rf _site
	mkdir -p website/_includes
	#--- Populate content ---#
	cp README.md website/_includes
	cp CONTRIBUTING.md website/_includes
	cp docker/install_guide.md website/_includes/docker_install_guide.md
	cp docker/build_guide.md website/_includes/docker_build_guide.md
	cp virtualbox/virtualbox_user_setup.md website/_includes
	cp virtualbox/README_docker-machine.md website/_includes
	cp virtualbox/README_vagrant.md website/_includes
	cp gds_py/stack_py.md website/_includes/stack_py.md
	cp gds/stack_r.md website/_includes/stack_r.md
	cp gds_py/README.md website/_includes/gds_py_README.md
	cp gds/README.md website/_includes/gds_README.md
	cp gds_dev/README.md website/_includes/gds_dev_README.md
	#---
website: website_build
	cd website && jekyll build
	rm -rf docs
	mv website/_site docs
	cd website && rm -rf _includes
	touch docs/.nojekyll
website_local: website_build
	# https://tonyho.net/jekyll-docker-windows-and-0-0-0-0/
	export JEKYLL_ENV=docker && \
	cd website && \
	jekyll serve --host 0.0.0.0 \
				 --incremental \
				 --config  _config.yml,_config.docker.yml && \
	rm -rf _includes
	export JEKYLL_ENV=development