May 2015
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Group Meetnig w/ Ran and Anik May 5
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-qb2:/projects added ran and anik and set facl
	set fact -dR -m u:aka029:rwx bishop

-see tmbshare refs wang2010.pdf for the sampling w/ multi-trajectories

-setup /simulations/mononucs/1kx5/frog/sol.in to 
	make solvated system w/out water but just ions
	NEEDS TO BE DONE FOR ALL 6 mononuc system

-TODO: 
	-standard selections for 
		H2B,H2A,H3,H4 based on sequence
		and for the core of each as defined int he rcsb files
	-standard selecitons for a.a. that differe btwn human,mouse,frog
		
	-dewater all 1-50dyn for 
	[1kx5,2cv5]/[frog,mouse,human]
	anik does 2cv5 
	ran does 1kx5
	will fit to initial sys.crd

	-rms calculated while dewatering
	-hbonding even jst #hbonds vs. time for each "uniq" a.a. in each histone
	-radius gyreation for full and core parts of each histone
	-cal Helix Parms
		??? do helix parm for dyn50 converge/diverge for the diff species?
		to early to tell or is 50ns enough?
	
	-begin to prep for BWIP
		-study advanced sampling methods
		-analysis tools and scripts into a complete workflow that
			roll building,simulation, analysis and ibiomes into one entity