Add a couple of user-level file templates (used only as part of post_install for gvl_flavor) but could be used more broadly too
Remove perl cbuilder swapped into perl-modules and use debian mira packages. Fixes #78. Fixes #79.
Add wrapper scripts for dealing with postgres versions from CloudMan's standpoint when migrating CloudMan from 1 to 2. These scripts are not placed anywhere by the framework but if one wants to have old CloudMan clusters work with a new image, these scripts will need to be placed into the new image
Add a couple of log statments during Galaxy tool installation process and soften stringency on successfully running apt-get update
Update to latest bwa and picard
Merge branch 'master' of github.com:chapmanb/cloudbiolinux
Updates for installing on clean Ubuntu 12.04 in Vagrant environment
Update to latest version of snpEff. Avoid re-downloads of Galaxy len files
Initial work LWR integration.