MD melting problem
4985... at qq.com
4985... at qq.com
Thu May 3 12:18:49 UTC 2018
Hello, Matt, thanks for the answer, but I am a little confused. Should I
use the STRESS_TENSOR DIAGONAL_ANALYTICAL instead of the MM force field or
to analysis the stress changing during the simulation?
在 2018年5月3日星期四 UTC+8下午6:04:44,Matt W写道:
>
> Probably unrelated to you actual question, but changing to
>
> STRESS_TENSOR DIAGONAL_ANALYTICAL
>
> should give you a big speed up.
>
> Matt
>
> On Thursday, May 3, 2018 at 1:37:55 AM UTC+1, 498... at qq.com wrote:
>>
>> Hello, everyone, I want to simulate the melting structure of molten
>> salts. The simulation began with crystal structure and temperature was set
>> at 3000 K in NPT ensemble, which is far more higher than the melting point.
>> However, the result is frustrating. After 100 ps runs, the ions still in
>> crystal structure. The parameters in the force field is in published paper
>> and widely used, so I wonder somewhere in the input file is wrong. The file
>> is listed below, could anyone tell me the possible problems? Thanks very
>> much.
>>
>>
>> &GLOBAL ! Section with general information
>> regarding which kind of simulation to perform an parameters for the whole
>> PROGRAM
>> PROJECT C6 ! Name of the project. This word will
>> appear as part of a name of all ouput files (except main ouput file,
>> specified with -o option)
>> RUN_TYPE MD ! Molecular Dynamics
>> PRINT_LEVEL low
>> &END GLOBAL
>>
>>
>> &FORCE_EVAL ! This section defines method for calculating energy and
>> forces
>> METHOD FIST ! Using Molecular Mechanics
>> STRESS_TENSOR NUMERICAL
>> &MM
>> &FORCEFIELD ! This section specifies forcefield parameters
>> ..........
>> &END FORCEFIELD
>> &POISSON ! This section specifies parameters for the Poisson solver
>> &EWALD ! This section specifies parameters for the EWALD summation
>> method (for the electrostatics)
>> EWALD_TYPE none ! Standard real-space coulomb potential is
>> computed together with the non-bonded contributions.
>> &END EWALD
>> &END POISSON
>> &NEIGHBOR_LISTS
>> GEO_CHECK TRUE
>> NEIGHBOR_LISTS_FROM_SCRATCH TRUE
>> VERLET_SKIN 1
>> &END NEIGHBOR_LISTS
>> &END MM
>> &SUBSYS ! This section defines the system
>> &CELL ! Unit cell set up
>> ABC 22.56 22.56 22.56 ! Lengths of the cell vectors A, B, and C
>> ALPHA_BETA_GAMMA 90.0 90.0 90.0
>> PERIODIC XYZ
>> &END CELL
>> &TOPOLOGY
>> COORD_FILE_NAME NaCl.xyz
>> COORDINATE xyz ! The type of the file is XYZ
>> &END TOPOLOGY
>> &END SUBSYS
>> &END FORCE_EVAL
>>
>> &MOTION ! This section defines a set of tool connected with the motion
>> of the nuclei.
>> &PRINT
>> &TRAJECTORY
>> LOG_PRINT_KEY T
>> FORMAT XMOL
>> &EACH
>> MD 10000
>> &END EACH
>> ADD_LAST NUMERIC
>> &END TRAJECTORY
>> &END PRINT
>> &MD
>> ENSEMBLE NPT_I
>> TEMPERATURE 3000
>> &BAROSTAT
>> PRESSURE 0
>> TEMPERATURE 3000
>> &END BAROSTAT
>> &THERMOSTAT
>> TYPE NOSE
>> REGION GLOBAL
>> &NOSE
>> TIMECON 100
>> LENGTH 3
>> MTS 2
>> &END NOSE
>> &END THERMOSTAT
>> TIMESTEP 1.0
>> STEPS 100000
>> &END MD
>>
>> &PRINT
>> &RESTART
>> LOG_PRINT_KEY T
>> &EACH
>> MD 10000
>> &END EACH
>> ADD_LAST NUMERIC
>> &END RESTART
>> &END PRINT
>> &END MOTION
>> &END
>> &END MOTION
>>
>>
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