Changed World.Cube to Scene.Cube
"MDL files" instead of "mdls"
Changed World.Cube to Scene.Cube
Added "typical" simulation output.
Instructions before pictures and separated selecting and reading.
Update visualize_plot.rst
Moved picture after explanation
Changed MDL TIME_STEP from 1e-06 to 5e-06 consistent with instructions.
Removed face 1 from top's ELEMENT_LIST

For some reason, "top" was shown with faces 1,8,9 (which would be 3 triangles instead of 2). The first 4 verticies (0-3) have negative Z values (bottom of the cube) while the second 4 verticies (4-7) have positive Z values (top of the box). So triangles for the top of the cube would have to consist of verticies with indexes between 4 and 7 inclusive. Only faces 8 and 9 from the example fit that requirement, so 1 was removed.
Made release description match instructions (2000 and 2000)
Added a warning about using wrong "flavor" of single quotes.
Be sure to change cube to wireframe (not molecules).
Merge branch 'master' of https://github.com/cnlbob/cellblender_tutorials

Conflicts:
	examine_annotate.rst
	visualize_plot.rst

I had to resolve the differences between Bob's changes (typo fixes,
clarifying confusing sections, etc) with my changes to the images
(stored locally now).