SGE issue: could not connect

[dkoslicki]

I tried using the following example:

using ClusterManagers
ClusterManagers.addprocs_sge(4)

And got the following output:

job id is 2559006, waiting for job to start ............................................................
    From worker 0:  Master process (id 1) could not connect within 60.0 seconds.
    From worker 0:  exiting.

I noticed (using qstat -U) that the jobs were started:

-bash-4.1$ qstat -U koslickd
job-ID  prior   name       user         state submit/start at     queue                          slots ja-task-ID 
-----------------------------------------------------------------------------------------------------------------
2559006 0.50500 julia-3457 koslickd     t     10/07/2015 21:58:44 all.q@chrom15.cgrb.oregonstate     1 4
2559006 0.50500 julia-3457 koslickd     t     10/07/2015 21:58:44 all.q@chrom16.cgrb.oregonstate     1 3
2559006 0.50500 julia-3457 koslickd     t     10/07/2015 21:58:44 all.q@chrom22.cgrb.oregonstate     1 2
2559006 0.50500 julia-3457 koslickd     r     10/07/2015 21:58:44 math@math0.cgrb.oregonstate.lo     1 1

But shortly thereafter, the jobs seemed to disappear:

-bash-4.1$ qstat -U koslickd
job-ID  prior   name       user         state submit/start at     queue                          slots ja-task-ID 
-----------------------------------------------------------------------------------------------------------------
2559006 0.50500 julia-3457 koslickd     r     10/07/2015 21:58:44 math@math0.cgrb.oregonstate.lo     1 1

Julia then seemed to freeze indefinitely and had to be killed manually.

Any ideas as to what went wrong?

Thanks,

~David

[gcamilo]

I think the problem is that the nodes are not being launched with the --worker flags, but It's curious that I ran into some problems that you did not. Try adding to line 29 in qsub.jl --worker after $execflags.

[dkoslicki]

I think I may have found the problem: I'm using Julia version 0.3.3, so Pkg.add("ClusterManagers") was giving me version 0.0.2. I'll have to ask the sys admin to update Julia to v 0.4.0 I guess.

[gcamilo]

I installed Julia to my user directory as that path could take months over here.

[dkoslicki]

Yeah, that will probably be the best route, thanks!

[jiahao]

Closing as probably fixed by upgrading to Julia 0.4