IgvFromComputeNode: Difference between revisions
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= Remote display from compute node = | = Remote X11 display from compute node = | ||
Alternately, you can use VNC which can be faster for slow connections: [[Setting_Up_VNC_Session]] | |||
Example program: IGV | Example program: IGV | ||
== Install/Start X on Desktop == | |||
* Windows: X-Win32 from [http://www.uab.edu/it/software UAB IT] | * '''Windows''': X-Win32 from [http://www.uab.edu/it/software UAB IT] | ||
== ssh conection with X11 support == | |||
=== ssh -X to cheaha === | |||
Connect to cheaha head node with X-forwarding: | |||
ssh -X cheaha.uabgrid.uab.edu | ssh -X cheaha.uabgrid.uab.edu | ||
# check that "echo $DISPLAY" shows you something | # check that "echo $DISPLAY" shows you something | ||
# check that "xterm" works | # check that "xterm" works | ||
=== Windows/ PuTTY ssh === | |||
Check that Connection > SSH > X11 has a checkmark next to "Enable X11 forwarding" | |||
== Get a compute node == | |||
* allocate compute node with qlogin, with appropriate time/memory | * allocate compute node with qlogin, with appropriate time/memory | ||
** '''WARNING''': if you run IGV on the cluster head-node, you will bring on the wrath of the cluster admins!! | ** '''WARNING''': if you run IGV on the cluster head-node, you will bring on the wrath of the cluster admins!! | ||
# 4 hours, 6G RAM | # 4 hours, 6G RAM | ||
qlogin -l h_rt=0:04:00,vf=6G | qlogin -N IGV_6g -l h_rt=0:04:00,vf=6G | ||
# check that "echo $DISPLAY" shows you something | # check that "echo $DISPLAY" shows you something | ||
# check that "xterm" works | # check that "xterm" works | ||
== Launch app == | |||
=== IGV === | |||
# '''WARNING''': run only on compute nodes, NEVER on head-node | # '''WARNING''': run only on compute nodes, NEVER on head-node | ||
/share/apps/ngs-ccts/IGV/igv.sh | /share/apps/ngs-ccts/IGV/igv.sh | ||
# or | # or | ||
/share/apps/ngs-ccts/IGV/igv6g # doesn't seem to give 6G ram... | /share/apps/ngs-ccts/IGV/igv6g # doesn't seem to give 6G ram... | ||
Latest revision as of 16:22, 20 March 2014
Remote X11 display from compute node
Alternately, you can use VNC which can be faster for slow connections: Setting_Up_VNC_Session
Example program: IGV
Install/Start X on Desktop
- Windows: X-Win32 from UAB IT
ssh conection with X11 support
ssh -X to cheaha
Connect to cheaha head node with X-forwarding:
ssh -X cheaha.uabgrid.uab.edu # check that "echo $DISPLAY" shows you something # check that "xterm" works
Windows/ PuTTY ssh
Check that Connection > SSH > X11 has a checkmark next to "Enable X11 forwarding"
Get a compute node
- allocate compute node with qlogin, with appropriate time/memory
- WARNING: if you run IGV on the cluster head-node, you will bring on the wrath of the cluster admins!!
# 4 hours, 6G RAM qlogin -N IGV_6g -l h_rt=0:04:00,vf=6G # check that "echo $DISPLAY" shows you something # check that "xterm" works
Launch app
IGV
# WARNING: run only on compute nodes, NEVER on head-node /share/apps/ngs-ccts/IGV/igv.sh # or /share/apps/ngs-ccts/IGV/igv6g # doesn't seem to give 6G ram...