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Thank you for the quick reply. I was, in fact, not running them as two command lines. Still encountering some problems. I have the ec_plot.sh.txt file stored in my home directory (~). I am running the command from another directory where the .ecclog file is stored (named ABELD001_eddy.ecclog). See below for the two commands I entered: [cmewborn@psygtfs1 MR]$ chmod 755 ~/ec_plot.sh.txt [cmewborn@psygtfs1 MR]$ ~/ec_plot.sh.txt ABELD001_eddy.ecclog When I do this, I get an error message which says: -bash: /home/millerlab/cmewborn/ec_plot.sh.txt: /bin/sh^M: bad interpreter: No such file or directory Any suggestions for what I should try next? ######################################################################## To unsubscribe from the FSL list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1