Utilize new bcftools for bgzip/tabix index preparation of VCF files. Update split functionality to use bcftools subset
Update version detection to include all recently added third party tools. Utilize brew which to retrieve versions of tools installed via brew method.
Output genome resource data into the project summary file.

This way downstream tools can parse it to figure out what was
used.
More verbose project-summary output.
Command line improvements: provide useful errors for incorrect ipython/scheduler/queue args. Fixes #205. Provide useful help message for upgrade with no inputs. Increase allowed resource usage within available hard limits. Fixes #214
Merge branch 'master' of github.com:chapmanb/bcbio-nextgen
Added faux metadata fields for testing.
Inject full path of bcbio_system file into the config.
Restructure the output project summary file.

Sample information is under samples. The full path
to the bcbio_system file is under bcbio_system.
Add full path to upload directory to project summary.
Added additional items to the project summary YAML file.

Add full path to upload directory and current time.
Merge branch 'master' of github.com:chapmanb/bcbio-nextgen
Provide documentation on third party tools installed in manual installation section. Fixes #217. Include pandas as part of conda installs for future use.
Use batch mode for miniconda installation. Fixes #193. Add conda dependencies to support future work with matplotlib-ggplot
Fix typo in GRCh37 update for dbSNP 138
Add sample descriptions to the project summary file.
Merge branch 'master' of github.com:chapmanb/bcbio-nextgen
Handle writing project summary information with missing upload or bcbio system inputs
Support new samtools 0.20 and bcftools 0.20 as part of samtools variant calling. Begin integration of bcftools merge functionality into parallel by-chromosome merging
Bump ipython-cluster-helper to latest release with SGE fixes. #215