Clarify that the energy CV is actually the potential energy

cc: @gtribello this is the reason why I would keep these instructions here

Spaces in `#include` statements where not matched correctly.

See 38eee95826f905ac20a388885523becdd9d883e5 and #570

See #549

Harmless bug, it was just showing an incorrect output in
./configure --help

@carlocamilloni

Make sure that output files are written out at the final step. Should fix issues with restarting reported by @PabloPiaggi

Plumedbot pull request

This commit contains changes automatically generated by plumedbot on Travis-ci.