Am 14.01.2014 um 18:04 schrieb Ian Johnson: > Reuti, > > There is no output from the script at all in the ~smartmate/job.sh.o[0-9]+ > files. The home directory of the smartmate user is local disk. However, grid > engine is installed on an NFS share.
Do you have any file staging installed? Otherwise the output will not be send to the real home directory of the user. Also the input files could be missing on the execution host. -- Reuti > Is there other information you require? Is there any way to get the function > call that is failing in shepherd, e.g. more verbose tracing? > > Thanks, > > Ian > > On Tue, 14 Jan 2014 15:19:34 -0000, Reuti <[email protected]> wrote: > >> Hi, >> >> Am 14.01.2014 um 15:19 schrieb Ian Johnson: >> >>> I have a simple job, which echoes `date` to stdout, that I'm using to test >>> an Open Grid Engine installation. Running qsub as root the job is run >>> successfully. However, using another non-superuser, in this case smartmate >>> user, the output from qacct -j says that the job has exited with exit >>> status 11. The shepherd trace confirms this (see below). >> >> Do you have any output? 11 means "Resource temporarily unavailable", which >> could mean it can't write to the (mounted?) home directory of the user. How >> is it mount configured? >> >> AFAICS the user is known, as otherwise you would face a different error. >> >> -- Reuti >> >> >>> Would anyone have an idea as to what is going on? Thank you. >>> >>> <shepherd_trace> >>> 01/14/2014 14:08:56 [0:2723]: shepherd called with uid = 0, euid = 0 >>> 01/14/2014 14:08:56 [0:2723]: starting up 2011.11 >>> 01/14/2014 14:08:56 [0:2723]: setpgid(2723, 2723) returned 0 >>> 01/14/2014 14:08:56 [0:2723]: do_core_binding: "binding" parameter not >>> found in config file >>> 01/14/2014 14:08:56 [0:2723]: no prolog script to start >>> 01/14/2014 14:08:56 [0:2723]: parent: forked "job" with pid 2724 >>> 01/14/2014 14:08:56 [0:2724]: child: starting son(job, >>> /opt/capitati/ge2011.11/smartmate/spool/exec-1/job_scripts/32, 0); >>> 01/14/2014 14:08:56 [0:2724]: pid=2724 pgrp=2724 sid=2724 old pgrp=2723 >>> getlogin()=root >>> 01/14/2014 14:08:56 [0:2723]: parent: job-pid: 2724 >>> 01/14/2014 14:08:56 [0:2724]: reading passwd information for user >>> 'smartmate' >>> 01/14/2014 14:08:56 [0:2724]: setosjobid: uid = 0, euid = 0 >>> 01/14/2014 14:08:56 [0:2724]: setting limits >>> 01/14/2014 14:08:56 [0:2724]: RLIMIT_CPU setting: (soft >>> 18446744073709551615(INFINITY), hard 18446744073709551615(INFINITY)) >>> resulting: (soft 18446744073709551615(INFINITY), hard >>> 18446744073709551615(INFINITY)) >>> 01/14/2014 14:08:56 [0:2724]: RLIMIT_FSIZE setting: (soft >>> 18446744073709551615(INFINITY), hard 18446744073709551615(INFINITY)) >>> resulting: (soft 18446744073709551615(INFINITY), hard >>> 18446744073709551615(INFINITY)) >>> 01/14/2014 14:08:56 [0:2724]: RLIMIT_DATA setting: (soft >>> 18446744073709551615(INFINITY), hard 18446744073709551615(INFINITY)) >>> resulting: (soft 18446744073709551615(INFINITY), hard >>> 18446744073709551615(INFINITY)) >>> 01/14/2014 14:08:56 [0:2724]: RLIMIT_STACK setting: (soft >>> 18446744073709551615(INFINITY), hard 18446744073709551615(INFINITY)) >>> resulting: (soft 18446744073709551615(INFINITY), hard >>> 18446744073709551615(INFINITY)) >>> 01/14/2014 14:08:56 [0:2724]: RLIMIT_CORE setting: (soft >>> 18446744073709551615(INFINITY), hard 18446744073709551615(INFINITY)) >>> resulting: (soft 18446744073709551615(INFINITY), hard >>> 18446744073709551615(INFINITY)) >>> 01/14/2014 14:08:56 [0:2724]: RLIMIT_VMEM/RLIMIT_AS setting: (soft >>> 18446744073709551615(INFINITY), hard 18446744073709551615(INFINITY)) >>> resulting: (soft 18446744073709551615(INFINITY), hard >>> 18446744073709551615(INFINITY)) >>> 01/14/2014 14:08:56 [0:2724]: RLIMIT_RSS setting: (soft >>> 18446744073709551615(INFINITY), hard 18446744073709551615(INFINITY)) >>> resulting: (soft 18446744073709551615(INFINITY), hard >>> 18446744073709551615(INFINITY)) >>> 01/14/2014 14:08:56 [0:2724]: setting environment >>> 01/14/2014 14:08:56 [0:2724]: Initializing error file >>> 01/14/2014 14:08:56 [0:2724]: switching to intermediate/target user >>> 01/14/2014 14:08:56 [0:2723]: wait3 returned 2724 (status: 2816; >>> WIFSIGNALED: 0, WIFEXITED: 1, WEXITSTATUS: 11) >>> 01/14/2014 14:08:56 [0:2723]: job exited with exit status 11 >>> 01/14/2014 14:08:56 [0:2723]: reaped "job" with pid 2724 >>> 01/14/2014 14:08:56 [0:2723]: job exited not due to signal >>> 01/14/2014 14:08:56 [0:2723]: job exited with status 11 >>> 01/14/2014 14:08:56 [0:2723]: now sending signal KILL to pid -2724 >>> 01/14/2014 14:08:56 [0:2723]: writing usage file to "usage" >>> 01/14/2014 14:08:56 [0:2723]: no tasker to notify >>> 01/14/2014 14:08:56 [0:2723]: no epilog script to start >>> </shepherd_trace> >>> >>> <job_script> >>> #!/bin/bash >>> # >>> #$ -j y >>> # >>> #$ -S /bin/bash >>> >>> echo "Hello World" >>> echo `date` >>> </job_script> >>> >>> Ian Johnson >>> Software Engineer >>> >>> >>> Capita Translation and Interpreting >>> Riverside Court, Huddersfield Road, Delph, Oldham, OL3 5FZ | Tel (UK): +44 >>> 845 367 7000 | Tel (US): +1 (800) 579-5010 >>> | [email protected] | Skype ID: ian.johnson_als >>> www.capitatranslationinterpreting.com >>> _______________________________________________ >>> users mailing list >>> [email protected] >>> https://gridengine.org/mailman/listinfo/users >> > > > -- > Kind regards, > > Ian Johnson > Software Engineer > > Capita Translation and Interpreting > Riverside Court, Huddersfield Road, Delph, Oldham, OL3 5FZ | Tel (UK): +44 > 845 367 7000 | Tel (US): +1 (800) 579-5010 > | [email protected] | Skype ID: ian.johnson_als > www.capitatranslationinterpreting.com _______________________________________________ users mailing list [email protected] https://gridengine.org/mailman/listinfo/users
