Unless something has recently changed, you will need to set up a cluster to get jobs to persist across galaxy restarts. You can do this with just a single node acting as both queue master and job runner using sun grid engine (i think, I have not tried this myself) Brad On Aug 27, 2012, at 12:51 PM, kauerbach@comcast.net<mailto:kauerbach@comcast.net> wrote: Hello, If I were to stop and re-start the Galaxy server with the run.sh script would jobs that are aleady running or are in the queue be lost when the server is re-started? If so, is there another method to use which would not lose the running or queued jobs? Thank you. ___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ -- Brad Langhorst langhorst@neb.com<mailto:langhorst@neb.com> 978-380-7564