See also altloc.txt

See also conformation-tests.txt


JSMOL:
scripts.js
	Not just *.ca, *.p:
	~mainChainAtomsBitset = {(protein and (*.n,*.ca,*.c)) or 
		(nucleic and (*.p,*.o3\',*.o5\',*.c3\',*.c4\',*.c5\'))}
	~cfg2ForkedBBBitset = {~mainChainAtomsBitset and config=2 and not config=1}

	~bbforks2 = {~cfg2ForkedBBBitset and (*.ca or *.p)};

util.js
	~altlocNlist (N = 1-5)

renderForks() is a JSMOL function, typically added to rendering scripts if (preferenceDetails).
It renders the thin backbone between main chain atoms and stars on *.ca, *.p.

JSMOL forkSpt in scripts.js defines
	~cfg1ForkedBBBitset (main chain atoms config1 and not config2)
		and 2 vice versa
	~bbforks1 bitset *.ca and *.p only config1 and not config2
		and 2 vice versa
	~bbforks bitset both configs 1,2 *.ca and *.p only

getForkDevs(mode) in util.js gets min av max BB altloc deviations,
	sets ~bbForksBool T/F,
	and populates devlistp, devlistn, devsump, devsumn.
-------------------------------------------------------------
JAVASCRIPT:
top.js
	bbForks gets set by setBBForks() (which uses JSMOL getForkDevs(mode))
	OBSOLETE: bbForks = (jmolEvaluate("{~cfg2ForkedBBBitset}.count") > 0);

var altlocBBDeviationSummaryProtein = ""; // populated by JSMOL getForkDevs("p").
var altlocBBDeviationSummaryNucleic = ""; // populated by JSMOL getForkDevs("n").

alertForks() and forksAlerted.

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First plan for 4.2 was whether ANY mainchain atoms have >= 2 configs.