On Tue, Jul 26, 2011 at 5:16 PM, Duddy, John <jdu...@illumina.com> wrote: > I can give you a very good example - if you are doing alignment and for some > reason need to convert the input file before operating on them, such that you > need a complete copy, /tmp may not have enough room. I have had this happen > to me running lots of instances of an aligner, temporarily using 100G+ of > temp space. > > I don't see the need to have a "shared" temp space, but I do see the need to > be able to tell the tools where you want them to put temp files.
So in your setup, the cluster nodes are not likely to have 100G+ on /tmp (i.e. the local hard drive of the node), so you want them to use a temp folder on the cluster shared storage? I think needs will differ between tools - in some cases you really want a fast local drive for temp files, and putting them on a network drive will just kill performance. Using /tmp seems a safe default. Is there any guidance for tool authors on where to put temp files, and how to access any related Galaxy settings? There is nothing currently listed here: http://wiki.g2.bx.psu.edu/Admin/Tools/Tool%20Config%20Syntax Peter ___________________________________________________________ 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/
