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

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

cc @silviopipolo

(thanks to Pratyush Tiwary)

[makedoc]

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

Year in header is here updated to 2017

I replaced
verbatim
endverbatim
with
plumedfile
endplumedfile

in (hopefully) all the places where it was appropriate.

This is a huge commit, applying indentation to the whole
code. Notice that this commit is made on master branch
after having merged with -s ours from branch v2.3

See #215

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

See #215

I cleaned up some of the (innocuous) warnings

All components now have to be registered in registerKeywords so that
documentation on what componets are available in a given action are
available in the manual.  Currently the code gives a warning if a user
tries to use a component that is not properly described in the manual.
In the future (v2.2) this warning will be replaced by an error.  That
is to say you wont be allowed to use unregistered components.  This is
all described more in #76

I set it to 2 instead of 2.0, so that it will not be necessary
to update it

clang -Wextra-semi