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| − | STEP2) With the job still running, use the following echo command to trigger generation of restart files at which point the file D3KIL will vanish: | + | STEP2) With the job still running, use the following echo command to trigger generation of restart files at which point the file D3KIL will vanish as described here http://www.dynasupport.com/tutorial/ls-dyna-users-guide/sense-switch-control: |
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Revision as of 16:52, 10 April 2013
| LS-DYNA |
|---|
| Description: Suite of programs for transient dynamic finite element program |
| SHARCNET Package information: see LS-DYNA software page in web portal |
| Full list of SHARCNET supported software |
Contents
Introduction
Before a research group can use LSDYNA on sharcnet, a license must be purchased directly from LSTC for the sharcnet license server. Alternately, if a research group resides at a institution that has sharcnet computing hardware (mac, uwo, guelph, waterloo) it maybe possible to use a pre-existing site license hosted on an accessible institutional license server.
Usage
These usage instructions apply to the module based installation of lsdyna found under directory /opt/sharcnet/lsdyna on licensed clusters shown in the above Availability Table. To access and use this software you must be a member of the lsdyna group. Users who belong to a licensed department will be given a 5 digit port number. The value should then be inserted into the appropriate departmental export statement before loading the module file as follows:
o UWO Civil and Environmental Engineering Dept
export LSTC_LICENSE_SERVER='PortNumber'@license1.uwo.sharcnet
o McGill Mechanical Engineering Department
export LSTC_LICENSE_SERVER='PortNumber'@license2.uwo.sharcnet
o UW Mechanical and Mechatronics Engineering Dept
export LSTC_LICENSE_SERVER='PortNumber'@license3.uwo.sharcnet
Module Selection
[roberpj@orc-login1:~] module avail lsdyna -------------------------------------- /opt/sharcnet/modules --------------------------------------- lsdyna/ls971mpp6.0.0 lsdyna/ls971mpp6.1.1 lsdyna/ls971smp6.1.0 lsdyna/ls980mppB1 lsdyna/ls971mpp6.1.0 lsdyna/ls971smp6.0.0 lsdyna/ls971smp6.1.1 lsdyna/ls980smpB1
o For serial or threaded jobs, using ls971 do:
module load lsdyna/ls971smp6.1.1
o For mpi jobs, using ls971 do:
module unload intel openmpi lsdyna module load intel/11.1.069 openmpi/intel/1.5.4 lsdyna/ls971mpp6.1.1
o For serial or threaded jobs, using version ls980 do:
module load lsdyna/ls980smpB1
o For mpi jobs, using version ls980 do:
module unload intel openmpi lsdyna module load intel/12.1.3 openmpi/intel/1.4.5 lsdyna/ls980mppB1
Job Submission
To run the single or double precision solvers specify lsdyna_s or lsdyna_d respectively:
o SUBMIT 1CPU SERIAL JOB
sqsub -r 7d -q serial -o ofile.%J --mpp=2G lsdyna_d i=airbag.deploy.k ncpu=1
o SUBMIT 4CPU SMP JOB
sqsub -r 7d -q threaded -n 4 -o ofile.%J --mpp=2G lsdyna_d i=airbag.deploy.k ncpu=4
o SUBMIT 4CPU MPI JOB
sqsub -r 7d -q mpi -n 4 -o ofile.%J --mpp=1G lsdyna_d i=airbag.deploy.k
Example Job
STEP1) The following shows a sample sqsub jobs submission for the airbag example to the mpi queue as shown in this link http://www.dynaexamples.com/examples-manual/misc/airbag:
cp -a /opt/sharcnet/lsdyna/ls971smp6.1.1/examples /work/$USER/test-lsdyna cd /work/$USER/test-lsdyna/misc/airbag gunzip airbag.deploy.k.gz module unload intel openmpi lsdyna module load intel/11.1.069 openmpi/intel/1.5.4 lsdyna/ls971mpp6.1.1 export LSTC_LICENSE_SERVER=#####@license#.uwo.sharcnet sqsub -r 1h -q mpi --mpp=4G -n 8 -o ofile.%J lsdyna_d i=airbag.deploy.k
STEP2) With the job still running, use the following echo command to trigger generation of restart files at which point the file D3KIL will vanish as described here http://www.dynasupport.com/tutorial/ls-dyna-users-guide/sense-switch-control:
echo "sw3" > D3KIL
STEP3) Now either manually kill off the job or wait until it exceeds the -r time limit:
sqkill job#
STEP4) Before the job can be restarted, the following two lines must be added to the airbag.deploy.restart.k file:
*CHANGE_CURVE_DEFINITION
1
STEP5) Now resubmit the job as follows using "r=" to specify the restart file:
sqsub -r 1h -q mpi --mpp=4G -n 8 -o ofile.%J lsdyna_d i=airbag.deploy.restart.k r=d3dump01
General Notes
Checking Job Status
To check the status of your job in the queue use the sqjobs command. On x86_64 systems you can check whether any of your jobs are queued on the license server use lstc_qrun. Its possible that sqsub will start your job but it will sit idle until enough license are available on the license server and the lstc_qrun command will reveal this:
[roberpj@hnd19:~/samples/lsdyna] lstc_qrun Defaulting to server 1 specified by LSTC_LICENSE_SERVER variable Running Programs User Host Program Started # procs ----------------------------------------------------------------------------- hsnmoham 12208@orc271.orca.shar MPPDYNA Mon Jan 7 18:17 24 roberpj 9767@hnd15 LS-DYNA_971 Mon Jan 7 19:42 4 No programs queued
Checking License Details
At the time of this writing UWO is running on a 4cpu demo license as follows:
[roberpj@hnd19:~/samples/lsdyna] lstc_qrun -R Defaulting to server 1 specified by LSTC_LICENSE_SERVER variable LICENSE INFORMATION PROGRAM EXPIRATION CPUS USED FREE MAX | QUEUE ---------------- ---------- ----- ------ ------ | ----- LS-DYNA_971 05/31/2013 - 172 200 | 0 roberpj 9767@hnd15 4 MPPDYNA_971 05/31/2013 0 172 200 | 0 LS-DYNA 05/31/2013 0 172 200 | 0 MPPDYNA 05/31/2013 - 172 200 | 0 hsnmoham 12208@orc271.orca.sharcnet 24 LICENSE GROUP 28 172 200 | 0 PROGRAM EXPIRATION CPUS USED FREE MAX | QUEUE ---------------- ---------- ----- ------ ------ | ----- LS-OPT 05/31/2013 0 200 200 | 0 LICENSE GROUP 0 200 200 | 0
Legacy Version Instructions
The following binaries remain available on saw and orca for backward compatibility testing:
[roberpj@orc-login2:~] cd /opt/sharcnet/local/lsdyna [roberpj@orc129:/opt/sharcnet/local/lsdyna] ls ls971* ls971_d_R3_1 ls971_d_R4_2_1 ls971_s_R3_1 ls971_s_R4_2_1 ls971_s_R5_1_1 ls971_d_R4_2_0 ls971_d_R5_0 ls971_s_R4_2_0 ls971_s_R5_0
There are currently no sharcnet modules for these versions, hence jobs should be submitted as follows:
module load lsdyna export PATH=/opt/sharcnet/local/lsdyna:$PATH export LSTC_LICENSE_SERVER=XXXXX@license3.uwo.sharcnet cp /opt/sharcnet/local/lsdyna/examples/airbag.deploy.k airbag.deploy.k SERIAL JOB: sqsub -q serial -r 1d -o ofile.%J ls971_d_R4_2_1 i=airbag.deploy.k THREADED JOB: sqsub -q threaded -n 4 -r 1d -o ofile.%J ls971_d_R4_2_1 ncpu=4 para=2 i=airbag.deploy.k
Note! the ls971_s_R3_1 and ls971_d_R3_1 binaries do not work, a fix is being looked for.
References
o LSTC LS-DYNA Homepage
http://www.lstc.com/lsdyna.htm