Added tasks for starting and stopping the Shiny server, starting a sh…

…ell inside the container and for building a Singularity image

Makefile

@@ -10,3 +10,37 @@ release: build
 singularity: build
 	singularity build shiny-base-${version}.sif docker-daemon://crukcibioinformatics/shiny-base:${version}
 
+shell:
+	mkdir -p logs lib/bookmarks/shiny apps
+	chmod -R ugo+rwx lib logs
+	docker run \
+		--user shiny \
+		--interactive \
+		--tty \
+		--rm \
+		--entrypoint=bash \
+		--volume ${PWD}/shiny-server.conf:/etc/shiny-server/shiny-server.conf \
+		--volume ${PWD}/lib:/var/lib/shiny-server \
+		--volume ${PWD}/logs:/var/log/shiny-server \
+		--volume ${PWD}/apps:/srv/shiny-server/apps \
+		crukcibioinformatics/shiny-base:${version}
+
+start:
+	rm -rf logs
+	mkdir -p logs lib/bookmarks/shiny apps
+	chmod -R ugo+rwx lib logs
+	docker run \
+		--user shiny \
+		--detach \
+		--rm \
+		--name shiny_server \
+		--publish 8080:3838 \
+		--volume ${PWD}/shiny-server.conf:/etc/shiny-server/shiny-server.conf \
+		--volume ${PWD}/lib:/var/lib/shiny-server \
+		--volume ${PWD}/logs:/var/log/shiny-server \
+		--volume ${PWD}/apps:/srv/shiny-server/apps \
+		crukcibioinformatics/shiny-base:${version}
+
+stop:
+	docker stop shiny_server
+