From NWChem
Viewed 1598 times, With a total of 3 Posts
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Clicked A Few Times
Threads 9
Posts 19
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| 6:17:51 PM PDT - Tue, May 21st 2013 |
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I am doing DFT calculations with C70, and although my optimizations and single point calculations are going fine, my attempt to run a frequency calculation on the optimized geometry keeps crashing. I have been running it on large memory nodes. My first attempt, in which I ran on it on 8 nodes with only one process per node and 40 GB per process, made it this far and then crashed with this error:
HESSIAN: the one electron contributions are done in 101.1s
0:armci_malloc:malloc 2 failed: -1323215288
(rank:0 hostname:n162 pid:27425):ARMCI DASSERT fail. ../../ga-5-1/armci/src/memory/memory.c:PARMCI_Malloc():895 cond:0
When I doubled the number of nodes, it made it a little further and crashed again with the same error:
HESSIAN: the two electron contributions are done in 7412.0s
0:armci_malloc:malloc 2 failed: -1323215288
(rank:0 hostname:n181 pid:8082):ARMCI DASSERT fail. ../../ga-5-1/armci/src/memory/memory.c:PARMCI_Malloc():895 cond:0
The .e* file contains the error:
Last System Error Message from Task 7:: Numerical result out of range
I cut-and-pasted the input file below. I would be grateful for any suggestions on what could be causing this crash.
title "C70"
echo
memory total 40000 stack 10000 heap 10000 global 20000 mb
scratch_dir ./scratch
geometry autosym units angstroms noautoz
C 0 1.23334161 3.96232805
C 1.17297757 0.38112352 3.96232805
C 0.72494001 -0.99779432 3.96232805
C -0.72494001 -0.99779432 3.96232805
C -1.17297757 0.38112352 3.96232805
C 2.29219242 0.74477847 3.2162988
C 3.00148533 -0.24686632 2.43857472
C 2.57335703 -1.56450976 2.43857472
C 1.41665283 -1.94985534 3.2162988
C 0.69272615 -2.93086807 2.43857472
C -0.69272615 -2.93086807 2.43857472
C -1.41665283 -1.94985534 3.2162988
C -2.57335703 -1.56450976 2.43857472
C -3.00148533 -0.24686632 2.43857472
C -2.29219242 0.74477847 3.2162988
C -2.28314826 1.96394786 2.43857472
C -1.1622938 2.77829629 2.43857472
C 0 2.41015374 3.2162988
C 1.1622938 2.77829629 2.43857472
C 2.28314826 1.96394786 2.43857472
C -0.71596444 3.38763064 1.20439728
C 0.71596444 3.38763064 1.20439728
C 3.44307337 0.3659128 1.20439728
C 3.00058302 1.72775808 1.20439728
C -3.00058302 1.72775808 1.20439728
C -3.44307337 0.3659128 1.20439728
C -2.57042673 -2.31981742 1.20439728
C -1.41197193 -3.1614841 1.20439728
C 1.41197193 -3.1614841 1.20439728
C 2.57042673 -2.31981742 1.20439728
C 3.08266695 -1.77363472 0
C 3.53644628 -0.37704554 0
C 2.63942333 2.38370722 0
C 1.45141362 3.2468468 0
C -1.45141362 3.2468468 0
C -2.63942333 2.38370722 0
C -3.08266695 -1.77363472 0
C -3.53644628 -0.37704554 0
C 0.73423038 -3.47987376 0
C -0.73423038 -3.47987376 0
C 2.57042673 -2.31981742 -1.20439728
C 1.41197193 -3.1614841 -1.20439728
C 3.00058302 1.72775808 -1.20439728
C 3.44307337 0.3659128 -1.20439728
C 0.71596444 3.38763064 -1.20439728
C -0.71596444 3.38763064 -1.20439728
C -1.41197193 -3.1614841 -1.20439728
C -2.57042673 -2.31981742 -1.20439728
C -3.44307337 0.3659128 -1.20439728
C -3.00058302 1.72775808 -1.20439728
C -2.28314826 1.96394786 -2.43857472
C -1.1622938 2.77829629 -2.43857472
C 1.1622938 2.77829629 -2.43857472
C 2.28314826 1.96394786 -2.43857472
C 3.00148533 -0.24686632 -2.43857472
C 2.57335703 -1.56450976 -2.43857472
C 0.69272615 -2.93086807 -2.43857472
C -0.69272615 -2.93086807 -2.43857472
C -3.00148533 -0.24686632 -2.43857472
C -2.57335703 -1.56450976 -2.43857472
C 1.41665283 -1.94985534 -3.2162988
C -1.41665283 -1.94985534 -3.2162988
C -2.29219242 0.74477847 -3.2162988
C 0 2.41015374 -3.2162988
C 2.29219242 0.74477847 -3.2162988
C 0 1.23334161 -3.96232805
C 1.17297757 0.38112352 -3.96232805
C 0.72494001 -0.99779432 -3.96232805
C -1.17297757 0.38112352 -3.96232805
C -0.72494001 -0.99779432 -3.96232805
end
basis
carbon library 6-311G*
end
scf
semidirect memsize 100000000 filesize 0
end
dft
xc b3lyp
print "information"
iterations 200
vectors input C70_optimization.movecs output C70.movecs
end
task dft freq
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Clicked A Few Times
Threads 4
Posts 9
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| 1:33:40 AM PDT - Wed, May 22nd 2013 |
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I had a same problem for C60. But I used "freq numerical" and worked fine for me.
If you have symmetry (I think at least can be D5h for your case) you have just 5 unique atoms. (I think)
I think you can get very accurate result (nearly same as analytical) if you have accurate integration.
I got accurate and correct results for C60 just by setting this criteria
CONVERGENCE energy 1e-8 \
density 1e-6 \ ## maybe not necessary
gradient 1e-5 ##maybe not necessary
GRID fine
TOLERANCES tight
Also I optimized with the tight criteria.
Results were in excellent agreement with experiment.
and on 80 processor took less than 5 hours. (not too much)
I hope it help.
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Edited On 2:28:16 AM PDT - Wed, May 22nd 2013 by Shahabnaghavi
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S. Shahab Naghavi
(SISSA)
Scuola Internazionale Superiore di Studi Avanzati
Via Bonomea 265, Tireste, Italy
Phone: +39-403787448
Email(1): snaghavi@sissa.it
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Clicked A Few Times
Threads 9
Posts 19
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| 7:36:26 AM PDT - Thu, May 23rd 2013 |
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| Thank you so much, "freq numerical" worked!
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Bert Forum:Admin, Forum:Mod, NWChemDeveloper, bureaucrat, sysop
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Forum Vet
Threads 4
Posts 597
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| 9:15:32 AM PDT - Tue, May 28th 2013 |
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I was able to run this calculation with 16 processors using the following memory settings:
Input: memory 3500 mb
Job script: setenv ARMCI_DEFAULT_SHMMAX 2048
I think the huge memory allocations are creating the problems.
Bert
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