Diffusion lammps 8afed61db1c8

Upgrade to oxDNA2
8afed61db1c8
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Authored by Oliver Henrich <o.henrich@epcc.ed.ac.uk> on Mar 28 2017, 19:16.

Description

Upgrade to oxDNA2

Details

Committed

Oliver Henrich <o.henrich@epcc.ed.ac.uk>

Mar 28 2017, 19:16

Pushed

junge

Oct 19 2017, 09:53

Parents

rLAMMPSaf0b5b0e84e1: Removed dead code

Branches

Unknown

Tags

Unknown

Event Timeline

Oliver Henrich <o.henrich@epcc.ed.ac.uk> committed rLAMMPS8afed61db1c8: Upgrade to oxDNA2 (authored by Oliver Henrich <o.henrich@epcc.ed.ac.uk>).Mar 28 2017, 19:16

Changes (57)

		Path
M		doc/src/PDF/USER-CGDNA-overview.pdf
M		doc/src/Section_packages.txt
M		doc/src/bond_oxdna.txt
M		doc/src/bonds.txt
M		doc/src/pair_oxdna.txt
A		doc/src/pair_oxdna2.txt
M		doc/src/pairs.txt
M		examples/USER/cgdna/README
M		examples/USER/cgdna/examples/oxDNA/duplex1/input.duplex1
V		examples/USER/cgdna/examples/oxDNA/duplex1/{log.17Mar17.duplex1.g++.1 → log.24Mar17.duplex1.g++.1}
V		examples/USER/cgdna/examples/oxDNA/duplex1/{log.17Mar17.duplex1.g++.4 → log.24Mar17.duplex1.g++.4}
V		examples/USER/cgdna/examples/oxDNA/duplex1/{log.24Mar17.duplex1.g++.1 ← log.17Mar17.duplex1.g++.1}
V		examples/USER/cgdna/examples/oxDNA/duplex1/{log.24Mar17.duplex1.g++.4 ← log.17Mar17.duplex1.g++.4}
M		examples/USER/cgdna/examples/oxDNA/duplex2/input.duplex2
V		examples/USER/cgdna/examples/oxDNA/duplex2/{log.17Mar17.duplex2.g++.1 → log.24Mar17.duplex2.g++.1}
V		examples/USER/cgdna/examples/oxDNA/duplex2/{log.17Mar17.duplex2.g++.4 → log.24Mar17.duplex2.g++.4}
V		examples/USER/cgdna/examples/oxDNA/duplex2/{log.24Mar17.duplex2.g++.1 ← log.17Mar17.duplex2.g++.1}
V		examples/USER/cgdna/examples/oxDNA/duplex2/{log.24Mar17.duplex2.g++.4 ← log.17Mar17.duplex2.g++.4}
A	(dir)	examples/USER/cgdna/examples/oxDNA2/
A	(dir)	examples/USER/cgdna/examples/oxDNA2/duplex1/
P		examples/USER/cgdna/examples/oxDNA2/duplex1/data.duplex1 Copied from examples/USER/cgdna/examples/oxDNA/duplex1/data.duplex1
A		examples/USER/cgdna/examples/oxDNA2/duplex1/input.duplex1
A		examples/USER/cgdna/examples/oxDNA2/duplex1/log.24Mar17.duplex1.g++.1
A		examples/USER/cgdna/examples/oxDNA2/duplex1/log.24Mar17.duplex1.g++.4
A	(dir)	examples/USER/cgdna/examples/oxDNA2/duplex2/
P		examples/USER/cgdna/examples/oxDNA2/duplex2/data.duplex2 Copied from examples/USER/cgdna/examples/oxDNA/duplex2/data.duplex2
A		examples/USER/cgdna/examples/oxDNA2/duplex2/input.duplex2
A		examples/USER/cgdna/examples/oxDNA2/duplex2/log.24Mar17.duplex2.g++.1
A		examples/USER/cgdna/examples/oxDNA2/duplex2/log.24Mar17.duplex2.g++.4
M		examples/USER/cgdna/util/sequence_simple.txt
P		src/USER-CGDNA/bond_oxdna2_fene.cpp Copied to src/USER-CGDNA/pair_oxdna2_stk.cpp
M		src/USER-CGDNA/bond_oxdna2_fene.h
M		src/USER-CGDNA/bond_oxdna_fene.cpp
M		src/USER-CGDNA/bond_oxdna_fene.h
M		src/USER-CGDNA/fix_nve_dot.cpp
M		src/USER-CGDNA/fix_nve_dot.h
M		src/USER-CGDNA/fix_nve_dotc_langevin.cpp
M		src/USER-CGDNA/fix_nve_dotc_langevin.h
M		src/USER-CGDNA/mf_oxdna.h
M		src/USER-CGDNA/pair_oxdna2_coaxstk.cpp
M		src/USER-CGDNA/pair_oxdna2_coaxstk.h
A		src/USER-CGDNA/pair_oxdna2_dh.cpp
P		src/USER-CGDNA/pair_oxdna2_dh.h Copied from src/USER-CGDNA/pair_oxdna_excv.h
M		src/USER-CGDNA/pair_oxdna2_excv.cpp
P		src/USER-CGDNA/pair_oxdna2_excv.h Copied to src/USER-CGDNA/pair_oxdna2_stk.h
P		src/USER-CGDNA/pair_oxdna2_stk.cpp Copied from src/USER-CGDNA/bond_oxdna2_fene.cpp
P		src/USER-CGDNA/pair_oxdna2_stk.h Copied from src/USER-CGDNA/pair_oxdna2_excv.h
M		src/USER-CGDNA/pair_oxdna_coaxstk.cpp
M		src/USER-CGDNA/pair_oxdna_coaxstk.h
M		src/USER-CGDNA/pair_oxdna_excv.cpp
P		src/USER-CGDNA/pair_oxdna_excv.h Copied to src/USER-CGDNA/pair_oxdna2_dh.h
M		src/USER-CGDNA/pair_oxdna_hbond.cpp
M		src/USER-CGDNA/pair_oxdna_hbond.h
M		src/USER-CGDNA/pair_oxdna_stk.cpp
M		src/USER-CGDNA/pair_oxdna_stk.h
M		src/USER-CGDNA/pair_oxdna_xstk.cpp
M		src/USER-CGDNA/pair_oxdna_xstk.h