Standardize density window/bin naming
Move to stringent uniquely mapping processing and paired end SPOT processing
Add versioning tracking script
All key-value pairs should be tab delineated
Fix samtools command call
Attachd picard reports to an alignment, not the lane
Use samtools view correctly in process paired bam
Fix setup.sh rsync command for HiSeq
Merge pull request #11 from fwip/master

Fix setup.sh rsync command for HiSeq
Most of the browser_load script ported over

Still needs config data to be specified logically
Add browser config reading.

This expects browser configs to be placed in
`$STAMPIPES/config/ucsc_browser` and named like `BROWSER-PROJECT.config`
Fix up browserload option parsing
Merge pull request #12 from fwip/push_browser_load

How exciting!
Align bamcounts.py script with new filtering rules
Merge branch 'master', remote-tracking branch 'upstream/master'