Initial version of automated script to install bcbio-nextgen, tool dependencies and data files
Finalize initial version of installation script. Update documentation
Generalize ipython cluster creation to allow heterogenous engines with multiple cores. Remove separate configuration step for clusters moving details into commandline arguments to ipcluster
Finalize generalized cluster launching through ipython, allowing configuration of engines with multiple cores
Provide framework to allow BAM input directly to aligners and control core usage requirements
Provide BAM input alignment with pipes between sorting, alignment and re-sorting steps to avoid IO
Dynamically choose ipython jobs and cores per job based on inputs to process and configured nodes required
Include suggested cores as part of ipython tests
Number ipython checkpoints to avoid conflicts due to calling same functions multiple times. Cleanup of SGE and calculation of cores to use
Changed free memory lookup to using psutil instead of free for portability.