fetchDepthsFromMMSource.sh

#!/bin/bash

# get MM2 home
MM2_HOME=$1

EMU_VERSION="1.1"


if ! [ -d "$MM2_HOME" ]; then
	echo "[$MM2_HOME] is not a directory."
else
	# tests if mvn is installed
	command -v mvn >/dev/null 2>&1 || { echo >&2 "Failed to call mvn, are you sure Maven is installed?";}
	
	# tests if the Micro-Manager jars are present and deploy them
	MMJ="$MM2_HOME/plugins/Micro-Manager/MMJ_.jar"
	MMAcqEngine="$MM2_HOME/plugins/Micro-Manager/MMAcqEngine.jar"
	MMCoreJ="$MM2_HOME/plugins/Micro-Manager/MMCoreJ.jar"
	EMU="$MM2_HOME/mmplugins/Emu.jar"
	
	if [ -f "$MMJ" ] && [ -f "$MMAcqEngine" ] && [ -f "$MMCoreJ" ] && [ -f "$EMU" ]; then
		# deploy MM2 jars
		mvn install:install-file -Dfile="$MMJ" -DgroupId=org.micromanager  -DartifactId=MMJ_ -Dversion=2.0.1-SNAPSHOT -Dpackaging=jar
		mvn install:install-file -Dfile="$MMAcqEngine" -DgroupId=org.micromanager  -DartifactId=MMAcqEngine -Dversion=2.0.1-SNAPSHOT -Dpackaging=jar
		mvn install:install-file -Dfile="$MMCoreJ" -DgroupId=org.micromanager  -DartifactId=MMCoreJ -Dversion=2.0.1-SNAPSHOT -Dpackaging=jar
		mvn install:install-file -Dfile="$EMU" -DgroupId=de.embl.rieslab  -DartifactId=emu -Dversion=$EMU_VERSION -Dpackaging=jar
	
	else
		echo "Could not find MMJ_.jar, MMAcqEngine.jar, MMCoreJ.jar or Emu.jar. Did you input the correct directory?"
	fi
fi