Regenerated after c40b96fe

After \par Examples there should be an empty line

[makedoc]

[makedoc]

Notice that almost all files were updated with the astyle commit
2813d759

Year in header is here updated to 2017

This is a huge commit, applying indentation to the whole
code.

See #215

Given header file.h, it is good practice to have a file file.cpp
that includes it as first header.

I just fix the order of includes here. There are still several
headers which do not have a corresponding cpp file, and also
a few that are not included anywhere (which is obviosuly an error).

I will fix them in a later commit.

Prvented division by zero in calculation of average field and added TRANSFORM analogues of multicolvar filters

Changed from left to right handed axis system in MultiColvarDens and now doing proper spatial average of multicolvar values

N.B. Change to ActionPilot.h just makes getStride a public
rather than protected method.