Makefile

# Change paths for inputs, outputs, databases and logs in the host and in the container.

CONTAINER_NAME = regovar_test
IMAGE_NAME = PanelDINancyPipeline
PACKAGE_NAME = $(shell sed -n 's/.*"name"\s*:\s*"\([^"]*\)".*/\1/p' manifest.json)_v$(shell sed -n 's/.*"version"\s*:\s*"\([^"]*\)".*/\1/p' manifest.json).zip

package: $(PACKAGE_NAME)

$(PACKAGE_NAME): doc Dockerfile form.json LICENSE manifest.json Pipeline.mk README
	zip -r $@ $^ 

# To test the pipeline locally `make test`
build:
	docker build -t $(IMAGE_NAME) .

test: build
	mkdir -p /tmp/{inputs,outputs,databases,logs}
	docker run -a stdin -a stdout -it -v /tmp/inputs:/regovar/inputs:ro -v /tmp/outputs:/regovar/outputs -v /tmp/databases:/regovar/databases:ro -v /tmp/logs:/regovar/logs --name $(CONTAINER_NAME) --user $$(id -u):$$(id -g) $(IMAGE_NAME)
	docker rm $(CONTAINER_NAME)

.PHONY: build package test