Page Menu
Home
c4science
Search
Configure Global Search
Log In
Files
F98341498
in.neb.hop1
No One
Temporary
Actions
View File
Edit File
Delete File
View Transforms
Subscribe
Mute Notifications
Award Token
Subscribers
None
File Metadata
Details
File Info
Storage
Attached
Created
Sun, Jan 12, 06:49
Size
1 KB
Mime Type
text/plain
Expires
Tue, Jan 14, 06:49 (1 d, 17 h)
Engine
blob
Format
Raw Data
Handle
23564904
Attached To
rLAMMPS lammps
in.neb.hop1
View Options
# 2d NEB surface simulation, hop from surface to become adatom
dimension 2
boundary p s p
atom_style atomic
neighbor 0.3 bin
neigh_modify delay 5
atom_modify map array sort 0 0.0
variable u uloop 20
# create geometry with flat surface
lattice hex 0.9
region box block 0 20 0 10 -0.25 0.25
create_box 3 box
create_atoms 1 box
mass * 1.0
# LJ potentials
pair_style lj/cut 2.5
pair_coeff * * 1.0 1.0 2.5
pair_modify shift yes
# initial minimization to relax surface
minimize 1.0e-6 1.0e-4 1000 10000
reset_timestep 0
# define groups
region 1 block INF INF INF 1.25 INF INF
group lower region 1
group mobile subtract all lower
set group lower type 2
timestep 0.005
# group of NEB atoms - either block or single atom ID 412
region surround block 10 18 17 20 0 0 units box
group nebatoms region surround
#group nebatoms id 412
set group nebatoms type 3
group nonneb subtract all nebatoms
fix 1 lower setforce 0.0 0.0 0.0
fix 2 nebatoms neb 1.0
fix 3 all enforce2d
thermo 100
dump 1 nebatoms atom 10 dump.neb.$u
dump 2 nonneb atom 10 dump.nonneb.$u
# run NEB for 2000 steps or to force tolerance
min_style quickmin
neb 0.0 0.1 1000 1000 100 final.hop1
Event Timeline
Log In to Comment