A strange problem when running CP2K
yoman
gogo... at gmail.com
Wed Mar 16 11:28:24 UTC 2011
Hi everyone!
I have a problem that the job will stop writing output file when the cluster
server shows the job is still running. Moreover, there is no error message.
Is this the way CP2K told me the job is dead? Let me describe this problem
in detail. I run a Molecular dynamics simulation of iceIh using BLYP or PBE
functional for 30 ps.( timestep = 0.5 fs) The BLYP job would run well in
certain nodes and cores. The best combination is 8nodes and each node has 8
cpus. When I increase the number of nodes to 12 (each has 8 cpus) the job
will have the problem I have mentioned within 500 steps. Moreover,
restarting the job will have the same problem. Besides, when I try to use
the same setting (same nodes with the same cores) to run the PBE job. It has
the problem again. Did anyone has the same problem? The following is my
input file of the job.
Thanks in advance for any reply
Yu-ming Hung
Institute of Atomic and Molecular Sciences, Academia Sinica
&FORCE_EVAL
METHOD QS
STRESS_TENSOR ANALYTICAL
&DFT
BASIS_SET_FILE_NAME ./GTH_BASIS_SETS
POTENTIAL_FILE_NAME ./POTENTIAL
&MGRID
CUTOFF 300
NGRIDS 4
&END MGRID
&QS
EPS_DEFAULT 1.0E-12
EXTRAPOLATION PS
EXTRAPOLATION_ORDER 3
&END QS
&SCF
SCF_GUESS ATOMIC
EPS_SCF 1.0E-6
MAX_SCF 300
&OT ON
MINIMIZER DIIS
PRECONDITIONER FULL_KINETIC
&END OT
&PRINT
&RESTART OFF
&END
&END
&END SCF
&XC
&XC_FUNCTIONAL PBE
&END XC_FUNCTIONAL
&END XC
&LOCALIZE
EPS_LOCALIZATION 1E-7
METHOD JACOBI
&END LOCALIZE
&PRINT
&LOCALIZATION
&WANNIER_CENTERS
IONS+CENTERS TRUE
FILENAME ./96_iceIh_150_NPT
COMMON_ITERATION_LEVELS 1
&EACH
&END EACH
&END WANNIER_CENTERS
&MOLECULAR_DIPOLES
FILENAME ./96_iceIh_150_NPT
COMMON_ITERATION_LEVELS 1
&EACH
&END EACH
&END MOLECULAR_DIPOLES
&TOTAL_DIPOLE
FILENAME ./96_iceIh_150_NPT
COMMON_ITERATION_LEVELS 1
&EACH
&END EACH
&END TOTAL_DIPOLE
&END LOCALIZATION
&END PRINT
&END DFT
I skip the coordinate and velocity of atoms
&KIND H
BASIS_SET TZV2P-GTH
POTENTIAL GTH-PBE-q1
MASS 2.0
ELEMENT H
&END KIND
&KIND O
BASIS_SET TZV2P-GTH
POTENTIAL GTH-PBE-q6
&END KIND
&END SUBSYS
&END FORCE_EVAL
&GLOBAL
PROJECT 96_iceIh_NPT
RUN_TYPE MD
PRINT_LEVEL LOW
&END GLOBAL
&MOTION
&MD
ENSEMBLE NPT_F
STEPS 60000
TIMESTEP 0.5
TEMPERATURE 150.0
&THERMOSTAT
REGION MASSIVE
&NOSE
LENGTH 3
YOSHIDA 3
TIMECON 100
MTS 2
&END NOSE
&END THERMOSTAT
&BAROSTAT
PRESSURE 1.0
&END BAROSTAT
&END MD
&PRINT
&VELOCITIES
&END
&RESTART
BACKUP_COPIES 1
&END RESTART
&END PRINT
&END MOTION
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