How does Galaxy determine that a job has failed? Does it simply see if the STDERR is empty? What happens if an application normally outputs to STDERR?
This is a problem for our local installation, as I have enabled it to run as the local user on the backend cluster. If a user has an error in the .bashrc file, it will automatically write to STDERR, and all jobs, no matter what, are labelled as failing. David Hoover Helix Systems Staff ___________________________________________________________ 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/