IgvFromComputeNode

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(Install/Start X on Desktop)
(Get a compute node)
Line 16: Line 16:
 
** '''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 ==
 
== Launch app ==
 
=== IGV ===
 
=== IGV ===

Revision as of 12:35, 16 July 2013

Contents

Remote display from compute node

Example program: IGV

Install/Start X on Desktop

  • Windows: X-Win32 from UAB IT

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

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...
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