Provide hook to avoid updating ~/.bashrc with PATH and LD_LIBRARY_PATH for local installs
Merge branch 'master' of github.com:chapmanb/cloudbiolinux
Add libtool and pkg-config dependencies for biobambam autoconf. Fixes #121
Move to release versions of biobambam that do not require autoconf. gt1/biobambam#4
Provide function to handle downloads inside temporary directories, avoiding issues with partially completed downloads. Partial work towards chapmanb/bcbio-nextgen#127
Use new shared wget functionality to retrieve code and data files, avoiding potential issues with partial downloads and cleanly handling all wget peculiarities. Fixes chapmanb/bcbio-nextgen#127
Integrate linuxbrew into standard CloudBioLinux installation directory to avoid need for additional path manipulation. Work towards making linuxbrew builds first class alongside CloudBioLinux custom builds
Provide installation of specific program versions with homebrew/linuxbrew. Enables python style requirements (like 'samtools==0.1.18') in input YAML files. Wraps brew functionality to allow swapping between versions
Ensure brew specific versions are linked when previously existing binaries are in the way
Update grabix to latest version with large file fixes
Merge branch 'master' of https://github.com/chapmanb/cloudbiolinux
Merge branch 'master' of https://github.com/heuermh/cloudbiolinux