tophat download site changed from tophat.cbcb.umd.edu to ccb.jhu.edu
Fix bundle version comparison
Merge branch 'data_beta' of https://github.com/chipster/chipster.git into data_beta
Update activemq to 5.10
Merge branch 'master' into data_beta

Conflicts:
	build.xml
Fix activemq.xml
Merge branch 'master' into data_beta
Add some files that are missing in bundles
Temporary: use www.nic
Back to bio.nic
Download Emboss from nic
Init genome browser also when cytoband data isn't available
Consider quotes when splitting gtf attributes
Parse command line with argparse4j
Merge remote-tracking branch 'origin/data_beta' into cli-client
Fix cli workflows