Consolidate MD algorithm atom setup
commit2ccd934df15d48240865e6fa097a11f213893437
authorBerk Hess <hess@kth.se>
Mon, 5 Sep 2016 09:27:43 +0000 (5 11:27 +0200)
committerMark Abraham <mark.j.abraham@gmail.com>
Tue, 6 Sep 2016 11:49:24 +0000 (6 13:49 +0200)
tree66d29eebd19af0729a52714278e94ecb275e9c0f
parentf3cf6c4e0f0ecbcc5bb398a1566467c8dd54306d
Consolidate MD algorithm atom setup

The setup of atom data for several MD algorithms that was called in
do_md, init_em and dd_partition_system has been moved to a single
routine called mdAlgorithmsSetupAtomData.
We should also move algorithm initialization cals to a single routine.

Change-Id: I3c87394e793e92d66555dc60388a47cedf6eeac9
src/gromacs/domdec/domdec.cpp
src/gromacs/domdec/domdec.h
src/gromacs/gmxana/gmx_disre.cpp
src/gromacs/gmxpreprocess/readpull.cpp
src/gromacs/mdlib/mdatoms.cpp
src/gromacs/mdlib/mdsetup.cpp [new file with mode: 0644]
src/gromacs/mdlib/mdsetup.h [new file with mode: 0644]
src/gromacs/mdlib/minimize.cpp
src/gromacs/mdlib/tpi.cpp
src/programs/mdrun/md.cpp