Added RNA-seq upload fix.
Begin work to remove requirement for fc_name and fc_date in favor of unique descriptions. Initial steps to remove non-maintained multiplexing code
Ensure BED files are parsed with pybedtools to support UCSC track lines. Fixes #88
Rework of processing internals to use consistent dictionary structure throughout. Simplify processing with removal of support for barcode multiplexing and original 'variant' analysis method
Remove requirement for fc_name and fc_date in configuration YAML: can now use only sample description as the unique identifier for intermediate file naming
Provide multicore implementations of BAM merging and gemini database preparation. Targets current bottlenecks for full analysis pipeline
Fixes for memory usage: samtools memory is per-thread, not global. Avoid decreasing memory usage throughout due to callability adjustment
Provide SOLiD specific options during GATK recalibration: fixes #89
Avoid creating gemini databases twice. Ugh
Additional error checking of input YAML configuration file: identify incorrect algorithm arguments, aligner and variantcaller inputs
Update installation script to recognize Mac OSX systems
Remove calling htseq via the command line.

Added the count script from Simon to the
count script instead to prevent being able to not find
the htseq-count command.
Test for failed anaconda installs and recover with reinstallation
Merge branch 'master' of github.com:chapmanb/bcbio-nextgen
Detect core and memory availability on multicore and ipython parallel runs. First step in providing general resource planning for memory intensive jobs
Pass predicted job memory requirements to cluster schedulers. Use available cores and memory to ensure submitted jobs fall within available resources and scale core requres to work with memory intensive jobs
Enable scaling of GATK HaplotypeCaller runs with increased memory usage using adjustments in resources. Scale jobs for single-core submissions to avoid overscheduling due to memory
Added OSX-specific Vagrant install instructions.
Make OSX title smaller.
Remove comments added during testing.