Plumedtohtml

You can now show the c++ code that appears when you use commands like:

`
LOAD FILE=Distance2.cpp
`

If you rewrite this input as:

`
SETTINGS INPUTFILES=Distance2.cpp
LOAD FILE=Distance2.cpp
`

You can load a modal that shows the contents of the cpp file. Furthermore, the c++ code in that modal is syntax highlighted.

Bug fix release that deals with issue with using special replica syntax with nested parenthesis in better way.

Fixes bug in dealing with inputs that use very complex mda atom selections

Bug fix release for last version

Now able to handle include files that are different on different replicas

Deletes backed up plumed output files before running test calculation