- To learn how to use the cluster, read Introduction to Scyld
Clusterware. Paticularly, you should read Reference
Guide and Users
Guide. You may monitor the system by using Ganglia Web Mornitoring
- To remotely access the cluster, install VNC in your Windows system.
to open a vnc server (e.g., #5), type
vncserver -geometry 1280x1024 :5
to kill a vnc server (e.g., #5), type
cat /home/zhut/.vnc/atom.me.gatech.edu:5.pid
kill "job id'
- To remotely access the cluster using VNC, but outside Georgia
Tech, you may first log into mse-uc01 through VNC viewer, then type
vncviewer -Shared -via zhut@atom.me.gatech.edu localhost:1
- To run Abaqus, see demos
- To run Abaqus (cae|viewer) through VNC, add the -mesa switch to the command, i.e.,
abaqus cae -mesa
- To run Matlab, see demos
- To learn how to use various softwares, read Bulletin at
mse-uc01
- To remotely power on/off any compute node, e.g., node 2 (Note:
node 0 needs to powered on/off manually), type
ipmitool -H 10.54.2.102 -U admin -P admin chassis power reset
if the system is already on, or else:
ipmitool -H 10.54.2.102 -U admin -P admin chassis power on
if the system is currently off.
- The local drives on each nodes are mounted at /scratch. The bpcp command can be used to put or get data from a specific node, e.g.,
bpcp file 1:/scratch
- To use atomeye, type
a ***.cfg &
- To securely copy a direcory from, e.g., "mse-uc01", type
scp -r zhut@mse-uc01.eng.ohio-state.edu:/home/zhut/test .
- To find a file, e.g., "index.html", type
find -name index.html
- To estimate the size of a directory, e.g., "abaqus_demo", type
du -sh abaqus_demo
- remote ipmi functions
Usage:
# ripmi [last host addr] [ipmi commands]
Examples:
Check nodes n1/ n4 chassis status and even log
# ripmi 101 chassis status
# ripmi 101 sel list
# ripmi 104 chassis status
# ripmi 104 sel list
Check power status of all the node .101 - .110
# for i in 101 102 103 104 105 106 107 108 109 110; do echo -n "Node $i: ";ripmi $i chassis status | grep "System Power"; done
- add reference to MyBibliography.bib
When you add reference to MyBibliography.bib, save the references from Web of Science, and then type
'is /tmp/savedrecs.txt' or 'is ~/savedrecs-4.txt'
on uc01 or atom.gatech
- MPI VASP
MPI VASP (various variants) work now...
atom% ls /usr/local/VASP/exe/
4.6
vasp_4.6.28_gamma_HenkelmanVTST_mpich_chain_em64t
vasp_4.6.28_gamma_HenkelmanVTST_mpich_em64t
vasp_4.6.28_gamma_HenkelmanVTST_serial_em64t
vasp_4.6.28_gamma_mpich_em64t
vasp_4.6.28_gamma_serial_em64t
vasp_4.6.28_HenkelmanVTST_mpich_chain_em64t
vasp_4.6.28_HenkelmanVTST_mpich_em64t
vasp_4.6.28_HenkelmanVTST_serial_em64t
vasp_4.6.28_mpich_em64t
vasp_4.6.28_serial_em64t
cd
rm -rf bench.Hg
mkdir bench.Hg
cd bench.Hg
tar xvfz /home/Beowulf/VASP/4.6/bench.Hg.tar.gz
set tick = `date +%s`
mpirun -np 8 /usr/local/VASP/exe/vasp_4.6.28_gamma_mpich_em64t
@ tock = `date +%s` - $tick
echo real time spent = $tock seconds