[runtools] don't alter selection when running cells #1145
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* don't loop twice in initialization * find cell applying to CodeMirror instance using $().closest rather than looping * use setCells function to simplify marked toggling functions * use is_marked function over duplicating code * use cells.length over notebook.ncells, which calls get_cells again * don't use notebook.get_cell (which gets all cells first, internally) when we already have a list of cells * use function for showing/hiding marked cells' inputs/outputs, rather than duplicating
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fixes #1126
Also makes a bunch of simplifications/efficiency improvements to runtools.