build.sh

#!/bin/bash
set -ex

cd /apollo/ && \
	echo '@import url("cpt.css");' >> client/apollo/css/main.css && \
	cp /apollo/cpt.css client/apollo/css/cpt.css && \
	./apollo deploy && \
	cp /apollo/annot.json /apollo/web-app/jbrowse/plugins/WebApollo/json/annot.json && \
	cp /apollo/annot.json /apollo/jbrowse-download/plugins/WebApollo/json/annot.json && \
	cp /apollo/annot.json /apollo/client/apollo/json/annot.json && \
	cp /apollo/AnnotTrack.js /apollo/client/apollo/js/View/Track/AnnotTrack.js && \
	cp /apollo/AnnotTrack.js /apollo/web-app/jbrowse/plugins/WebApollo/js/View/Track/AnnotTrack.js && \
	cp /apollo/AnnotTrack.js /apollo/jbrowse-download/plugins/WebApollo/js/View/Track/AnnotTrack.js && \
	./apollo clean-all && ./apollo deploy && \
	# Move to tmp dir
	cp /apollo/target/apollo*.war /tmp/apollo.war && \
    # remove cruft from image
    rm -rf /apollo/ || true && \
    # move the war back to standard location
    mv /tmp/apollo.war /apollo/