Ensure CloudBioLinux PATH information starts on blank line, handling .bashrc files without a final line break
Pin samtools to 0.1.19 version to avoid homebrew-science regression. Fixes #125
Re-enable additional brew-based builds with --env=inherit set thanks to latest linuxbrew that allows use of external compiler environment Homebrew/linuxbrew#29
Remove custom GNU parallel custom target, replacing with brew GNU parallel build. Fixes chapmanb/bcbio-nextgen#160
Provide separate list of brew packages for bcbio-nextgen install. Avoid more complex builds that are not currently used in pipeline
Add bioconductor libraries to bcbio-nextgen installation flavor to start CNV support. Ensure R libraries explicitly installed inside system site-library instead of globally
Merge branch 'master' of https://github.com/chapmanb/cloudbiolinux