User Tools

Site Tools


documents:101103imagej_cluster_short

Differences

This shows you the differences between two versions of the page.

Link to this comparison view

Both sides previous revision Previous revision
Next revision
Previous revision
documents:101103imagej_cluster_short [2010/11/25 07:32]
kota
documents:101103imagej_cluster_short [2016/06/01 02:57] (current)
kota
Line 1: Line 1:
 ====== Using Cluster (Quick Version) ====== ====== Using Cluster (Quick Version) ======
 +
 +**Note: This page is outdated (June 1, 2016)**. I will prepare a newer version. ​
  
 Since most of the scripts for cluster use is located under a specific directory in the ALMF server, I recommend you to add the path to your .tcshrc as below. ​ Since most of the scripts for cluster use is located under a specific directory in the ALMF server, I recommend you to add the path to your .tcshrc as below. ​
Line 6: Line 8:
 </​code>​ </​code>​
 Otherwise, please add the path above in front of script name.  Otherwise, please add the path above in front of script name. 
 +
 +===== Interactive Usage of Cluster CPU =====
 +
 +Before submitting huge data with your script, you might want to test run the script interactively to see if it is indeed working. To do so, you could access cluster in interactive mode. 
 +
 +  - Log in to sub-master
 +  - then "qsub -I"
 +    - wait for some seconds, you will be assigned to a specific node where you could test around. ​
 +    - To enable multi-threaded computation,​ do "qsub -I -l select=ncpus=2:​mem=3gb"​ (in this case, uses 2 CPUs and 3Gb of memory).
 + 
  
 ===== Processing by ImageJ from Command Line ===== ===== Processing by ImageJ from Command Line =====
documents/101103imagej_cluster_short.1290699128.txt.gz ยท Last modified: 2016/05/24 05:46 (external edit)