create_and_run_container_locally.sh
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create_and_run_container_locally.sh
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			#!/usr/bin/env bash

			# Author: Balazs Laurenczy (ETHZ)
			# Date: 2017-06-30
			# This script requires Docker and Singularity to be installed. Run this in a vagrant virtual machine or alike.

			# remove old container(s)
			rm -rf *.img
			# build the Docker image using the "Dockerfile"
			sudo docker build -t hello_world_pipeline .
			# convert the Docker image to a Singularity image
			sudo docker run -v /var/run/docker.sock:/var/run/docker.sock -v $(pwd):/output --privileged -t --rm singularityware/docker2singularity hello_world_pipeline
			# rename the image
			mv hello_world_pipeline*.img hello_world_pipeline.img
			# run the image with some binding
			singularity run -B ./pipeline:/pipeline -B ./data:/data hello_world_pipeline.img