First attempt at a hiseqx pipeline (without filtering)
First attempt at an improved viewer / editor
move bam12auxmerge into bwa_post_proc, and other minor changes
Changed names of bed files
improved viewer - work in progress
Handle vtf files as well as json and cfg files
Work in progress on the hiseqx pipeline
Work in progress for pipeline progress viewer. Animations and python cgi script working
Added -p flag to bwa mwm. Now runs to completion without errors.
Clear intervals before resetting them
Display job status (running, waiting, completed)
Clear intervalArray array
Tidying and minor UI improvements
removed unused template
Merge branch 'devel' of https://github.com/jenniferliddle/p4 into jenniferliddle-devel

Conflicts:
	data/tophat2_wtsi_stage2_template.vtf
Merge branch 'jenniferliddle-devel' into devel