Wednesday, September 30, 2015 3:55 PM
- About: Fiji is just ImageJ with plugins
- Category: Graphics
- URL: http://fiji.sc
- Interactive executable: ImageJ_mem
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Running Fiji/ImageJ Interactively
Use the interactive command to get connected to a compute node with X11 forwarding enabled.
interactive -t 2:00:00 -n 1 --mem=16gb
Once your job starts, you should find yourself on a compute node. Then you can load fiji and launch ImageJ using
module load fiji ImageJ_mem
Note the use of ImageJ_mem. This is a script that extracts the amount of memory for your job from the slurm environment and launches ImageJ with that amount of memory.
also see Using Software.