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Archive Trac vortexshedding dn
madscatt edited this page Jun 20, 2026
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1 revision
Legacy Trac archive page imported from
vortexshedding_dn. Source: https://genapp.rocks/wiki/wiki/vortexshedding_dn. Review age, links, and examples before treating as current.
Emre:
#Command to execute on the gateway server with -g individual_user_id -p project_id -e gateway_admin_email -j job name and end with temporary directory and the files with a comma after the first one. In this case we used an example called ext_cyl.* Comet is comet.sdsc.edu
# The map file and SIE file can be omitted and will be generated in situ.
/usr/bin/gsissh -p 22 -x Comet /home/gridchem/bin/dev/gridchem_common -C nek5000 -a uic151 -q compute -W 1:30 -n 24 -M 4000 -g spamidig -p spamidig_proj -e <redacted-email> -O /home/gridchem/spamidig/tempdirs/tempdirhNebfVJ -l 0 -j default_job /home/gridchem/spamidig/tempdirs/tempdirhNebfVJ/ext_cyl.usr,ext_cyl.rea,ext_cyl.map,SIZE
This remote command should return something like
##################
INFO: Currently the walltime is translated to cputime directly
INFO: /home/gridchem/bin/dev/gridchem_common Job to be submitted using 24 processors for Hrs:Min _1:30_ in queue _compute_ with PSN _uic151_
INFO: we are in DOMAIN sdsc_comet
INFO: SOURCING /home/gridchem/bin/dev/gridchem_local_sdsc_comet (LOCAL STUFF ie variables that change from site to site)
DEBUG: DATE:Tue Jul 14 13:06:45 PDT 2015 - COMMAND_RECEIVED: /home/gridchem/bin/dev/gridchem_common -C nek5000 -a uic151 -q compute -W 1:30 -n 24 -M 4000 -g spamidig -p spamidig_pr
oj -e <redacted-email> -O /home/gridchem/spamidig/tempdirs/tempdirhNebfVJ -l 0 -j default_job /home/gridchem/spamidig/tempdirs/tempdirhNebfVJ/ext_cyl.usr,ext_cyl.rea,e
xt_cyl.map,SIZE
INFO: Temporarily setting the X509_USER_PROXY to /tmp/x509up_p27019.fileSKs9ti.1 based on grid-proxy-info
INFO: setting the X509_USER_PROXY to /home/gridchem/spamidig/tempdirs/tempdirhNebfVJ/x509up_p27019.fileSKs9ti.1 and copied the cert there from /tmp
DEBUG: processors request based on input is
/home/gridchem/bin/dev/gridchem_common: line 469: [: : integer expression expected
DEBUG: processors request based on input is 24
DEBUG: CPU_Time_arg=1:30 before making it pure minutes
DEBUG: CPU_Time_arg=90 after making it pure minutes
DEBUG: local_preamble_part1=
INFO: cd'ing into /home/gridchem/spamidig/tempdirs/tempdirhNebfVJ
DEBUG: pwd is /home/gridchem/spamidig/tempdirs/tempdirhNebfVJ
SUBMITTING JOB
QSUB OUTPUT IS:
Submitted batch job 688101
JOBID_FROM_CLUSTER_SCRIPT= 688101
SCRATCHDIR_FROM_CLUSTER_SCRIPT= /home/gridchem/spamidig/spamidig_proj/default_job.comet.sdsc.xsede.org.688101.150714
JOB_SUBMITTED_DATE=150714
INFO: executing /usr/bin/qstat 688101
Job id Name Username Time Use S Queue
------------------- ---------------- --------------- -------- - ---------------
688101 default_job gridchem 00:00:00 Q compute
##########################
The key has been added.
If you have any questions please let me know.
Thanks,
Sudhakar.