So I just tried qlogin instead of qrsh, the user output is slightly
different:
derlin@login-gpu:~$ qlogin
Your job 18 ("QLOGIN") has been submitted
waiting for interactive job to be scheduled ...
Your interactive job 18 has been successfully scheduled.
Your interactive job 18 has been successfully scheduled.
Your interactive job 18 has been successfully scheduled.
Your interactive job 18 has been successfully scheduled.
Your interactive job 18 has been successfully scheduled.
Your interactive job 18 has been successfully scheduled.
Your interactive job 18 has been successfully scheduled.
Your interactive job 18 has been successfully scheduled.
....
But the symptom at the backend compute node is the same, prolog log file
generated but is empty.
Cheers,
Derrick
On Wed, Jan 9, 2019 at 11:14 AM Derrick Lin <klin...@gmail.com> wrote:
> Hi guys,
>
> I just brought up a new SGE cluster, but somehow the qrsh session does not
> work:
>
> tester@login-gpu:~$ qrsh
> ^Cerror: error while waiting for builtin IJS connection: "got select
> timeout"
>
> after I hit entered, the session just stuck there forever instead of bring
> me to a compute node. I have to entered Crtl+c to terminate and it gave the
> above error.
>
> I noticed, the SGE did send my qrsh request to a compute node as I could
> tell from qstat:
>
>
> ---------------------------------------------------------------------------------
> short.q@zeta-4-15.local BIP 0/1/80 0.01 lx-amd64
> 15 0.55500 QRLOGIN tester r 01/09/2019 10:47:13 1
>
> We have a prolog script configured globally, the script deals with local
> disk quota and keep all output to a log file for each job. So I went to
> that compute node, and check, found that a log file was created but it was
> empty.
>
> So my thinking so far is, my qrsh stuck because the prolog script is not
> fully executed.
>
> qsub job are working fine.
>
> Any idea will be appreciated
>
> Cheers,
> Derrick
>
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