On Wed, 15 May 2013 21:47:12 -0000, you wrote: RUN BATCON seems to not start. It might need started earlier though. BATCON cannot be RUNned. It gets started by Galaxy when needed. Try this: .copy test.ctl=tty: .dir <--- you have to type the dot too! ^Z .submit/notify/out:nolog test [Batch job TEST queued, request #58, limit 0:05:00] . [From SYSTEM: Job TEST request #58 finished executing at 0:32:40] If everything goes well, you'll receive the completion message and there will be a TEST.LOG file in your directory. TYPE it to see if it's all OK. /notify let's you know when the job finishes, /output:nolog prevents queueing the log for printing (given that there is no printer emulation on KLH10...). HTH, G.