On Thu, Sep 08, 2016 at 02:00:17PM +0100, William Hay wrote: > On Thu, Sep 08, 2016 at 10:10:51AM +1000, Derrick Lin wrote: > > Hi all, > > Each of our execution nodes has a scratch space mounted as > > /scratch_local. > > I notice there is tmpdir variable can be changed in a queue's conf. > > According to doc, SGE will create a per job dir on tmpdir, and set path > > in > > var TMPDIR and TMP. > > I have setup a complex tmp_requested which a job can specify during > > submission. I want to ensure a job could not utilize what it claims at > > tmp_requested. For example, I would like to set a quota to a job's TMPDIR > > according to tmp_requested. > > What is the best way for doing that? > > Cheers, > > Derrick > We do something along those lines here and making some improvements to it > is on my todo list. I'll outline my current plan: > 1. Hand all the spare disk space on a node over to a nice btrfs filesystem. > 2. Our JSV adds an environment variable to the job recording the amount > of disk requested (you could try parsing it out of the job spool but > this is easier). > 3. The prolog creates a btrfs subvolume and assigns it an appropriate quota. > 4. In starter_method point TMPDIR and TMP at the created volume. We use > ssh for qlogin etc and ForceCommand can do the same job for it. > 5. In the epilog delete the subvolume. > > At present we're using a huge swap partition and TMPFS instead of btrfs. > You could probably do this with a volume manager and creating a > regular filesystem as well but it would be slower. > > We don't use the grid engine configured TMPDIR as this is also used > for internal gridengine communication and mounting filesystems on > it causes problems.
So far, TMPDIR usage is more of an annoyance than a problem for us, though we have thought about doing something similar. Another option would be to create a sparse file with dd, make a filesystem on it, and mount it over a loopback device at TMPDIR. A wrapper script executed through sudo would probably be pretty secure to run as the user in prolog. -- -- Skylar Thompson (skyl...@u.washington.edu) -- Genome Sciences Department, System Administrator -- Foege Building S046, (206)-685-7354 -- University of Washington School of Medicine _______________________________________________ users mailing list users@gridengine.org https://gridengine.org/mailman/listinfo/users
