[IMP-dev] First significant code review

[Daniel Russel <drussel@gmail.com>]

I changed the interfaces of DistanceRestraint and ExclusionRestraint  
to make them more consistent and more general.

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 Warning, it is quite long due to many similar changes in the test  
cases. Yeah for sed, but I wouldn't want to read through the diff :-)
DistanceRestraint now takes a pair of ParticleIndexes and a ScoreFunc  
which it then owns. I also removed the constructor with a passed  
radius as that does add any power and adds another path which has to  
be tested and maintained.
ExclusionRestraint takes a list or lists of ParticleIndexes (instead  
of ints). Various unused member variables are removed.
Restraint::show now has a default argument so it can be called from  
python.
Applying it requires first applying the decorators patch I sent before  
(since I removed the redundant creation of the FloatKeys in  
DistanceRestraint). It might also require the more minor kernel patch  
also included.

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