PLUMED_STATIC_DEPENDENCIES was changed in 2.2. I restore here the value that
it had in 2.0 and 2.1 to keep it compatible with cp2k installation procedure

see https://groups.google.com/d/msgid/plumed-users/CAGZMOouB989WaXVd1E8%3DAVmi_BM7EnSpzN7P-NBjR%2BLXjWYV8A%40mail.gmail.com

This is useful for faster debugging. E.g. to check a Vector just use
std::cerr<<v<<"\n";

    Related to #175

Related to #175

[makedoc]

[makedoc]

[makedoc]

closes #158

Since plumed 2.2 creates a directory named src/lib/install
upon install, there could be ambiguity in the install target
in plumed 2.1 when switching branches without cleaning.
Now the target is PHONY, and should give no issue.

[makedoc]

Same as #171 but using C++ standard include file <ctime>

Closes #171

Closes #160

[makedoc]

This bug was introduced by me in 5e3aaf3a
The barrier on multi replicas was due to overcaution and
is only necessary when using WALKERS_MPI

The kernels were normalised incorrectly and their derivative when the
covariance matrix was non-diagonal was computed wrongly.  This check
affects a number of regtests.  analysis/rt0 changes beecause the kernels
were normalised incorrectly.  basic/rt44, basic/rt48, basic/rt49, basic/rt52
change because the derivatives output in the fes file have changed sign

This is to avoid using an outdated file

This hack was necessary to support DESTDIR.

Now that all installed files are placed in src/lib/install,
this is not necessary anymore

This makes these options consistent with others.

THIS REQUIRES ./configure AGAIN!!

This makes readdir option consistent with others.

THIS REQUIRES ./configure AGAIN!!