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Initialize_Canonical() and getDistanceToHelix() updates for reference points other than (0,0,0) #29

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Fix _xCentre, _yCentre in the new Initialize_Canonical

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Initialize_Canonical() and getDistanceToHelix() updates for reference points other than (0,0,0) #29

Fix _xCentre, _yCentre in the new Initialize_Canonical
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