Merge branch 'master' of github.com:plumed/plumed2 into molfiles-module

CHANGES/Unreleased.txt

CHANGES/v2.0.txt

README.git

VERSION

autoconf/configure

autoconf/configure.ac

developer-doc/AddingAColvar.txt

developer-doc/AddingAMultColvar.txt

developer-doc/plmdIntro.txt

developer-doc/usingDoxygen.txt

patches/gromacs-4.6.5.diff/src/kernel/md.c

patches/gromacs-4.6.5.diff/src/kernel/mdrun.c

patches/gromacs-4.6.5.diff/src/mdlib/force.c

patches/gromacs-4.6.5.diff/src/mdlib/force.c.preplumed

patches/gromacs-4.6.5.diff/src/mdlib/minimize.c

patches/gromacs-4.6.5.diff/src/mdlib/minimize.c.preplumed

patches/lammps-6Apr13.config

regtest/analysis/rt0/plumed.dat

regtest/basic/rt-mpi0/COLVAR.reference

regtest/basic/rt-mpi0/deriv.reference