Please keep the list posted! Am 19.03.2014 um 14:36 schrieb Abhinav Mittal:
> abhinav@abhnav:~$ qconf -sq New > qname New > hostlist abhnav > seq_no 0 > load_thresholds np_load_avg=1.75 > suspend_thresholds NONE > nsuspend 1 > suspend_interval 00:05:00 > priority 0 > min_cpu_interval 00:05:00 > processors 2 Most likely this should be set to UNDEFINED unless you are running one of the supported OS for this option. Please have a look at `man queue_conf` for an explanation. -- Reuti > qtype BATCH INTERACTIVE > ckpt_list NONE > pe_list make > rerun FALSE > slots 1 > tmpdir /tmp > shell /bin/csh > prolog NONE > epilog NONE > shell_start_mode posix_compliant > starter_method NONE > suspend_method NONE > resume_method NONE > terminate_method NONE > notify 00:00:60 > owner_list NONE > user_lists arusers > xuser_lists NONE > subordinate_list NONE > complex_values NONE > projects NONE > xprojects NONE > calendar NONE > initial_state default > s_rt INFINITY > h_rt INFINITY > s_cpu INFINITY > h_cpu INFINITY > s_fsize INFINITY > h_fsize INFINITY > s_data INFINITY > h_data INFINITY > s_stack INFINITY > h_stack INFINITY > s_core INFINITY > h_core INFINITY > s_rss INFINITY > h_rss INFINITY > s_vmem INFINITY > h_vmem INFINITY > > On Wed, Mar 19, 2014 at 6:54 PM, Reuti <[email protected]> wrote: >> Am 19.03.2014 um 14:02 schrieb Abhinav Mittal: >> >>> -------------------------------------------------------------------------------------------------------------------------------- >>> abhinav@abhnav:~$ qconf -sel >>> abhnav >>> abhinav@abhnav:~$ qconf -sql >>> New >>> abhinav@abhnav:~$ qconf -sconf >>> #global: >>> execd_spool_dir /var/spool/gridengine/execd >>> mailer /usr/bin/mail >>> xterm /usr/bin/xterm >>> load_sensor none >>> prolog none >>> epilog none >>> shell_start_mode posix_compliant >>> login_shells bash,sh,ksh,csh,tcsh >>> min_uid 0 >>> min_gid 0 >>> user_lists none >>> xuser_lists none >>> projects none >>> xprojects none >>> enforce_project false >>> enforce_user auto >>> load_report_time 00:00:40 >>> max_unheard 00:05:00 >>> reschedule_unknown 00:00:00 >>> loglevel log_warning >> >> This I suggest to change to: >> >> loglevel log_info >> >> >>> administrator_mail root >>> set_token_cmd none >>> pag_cmd none >>> token_extend_time none >>> shepherd_cmd none >>> qmaster_params none >>> execd_params none >>> reporting_params accounting=true reporting=false \ >>> flush_time=00:00:15 joblog=false >>> sharelog=00:00:00 >>> finished_jobs 100 >>> gid_range 65400-65500 >>> max_aj_instances 2000 >>> max_aj_tasks 75000 >>> max_u_jobs 0 >>> max_jobs 0 >>> auto_user_oticket 0 >>> auto_user_fshare 0 >>> auto_user_default_project none >>> auto_user_delete_time 86400 >>> delegated_file_staging false >>> reprioritize 0 >>> rlogin_daemon /usr/sbin/sshd -i >>> rlogin_command /usr/bin/ssh >>> qlogin_daemon /usr/sbin/sshd -i >>> qlogin_command /usr/share/gridengine/qlogin-wrapper >>> rsh_daemon /usr/sbin/sshd -i >>> rsh_command /usr/bin/ssh >> >> Did you set this up? The default is to use the builtin tools for the >> commands above. >> >> >>> jsv_url none >>> jsv_allowed_mod ac,h,i,e,o,j,M,N,p,w >> >> Fine. >> >> >>> abhinav@abhnav:~$ qstat -f >>> queuename qtype resv/used/tot. load_avg arch >>> states >>> --------------------------------------------------------------------------------- >>> New@abhnav BIP 0/0/1 0.68 lx26-amd64 >>> >>> ############################################################################ >>> - PENDING JOBS - PENDING JOBS - PENDING JOBS - PENDING JOBS - PENDING JOBS >>> ############################################################################ >>> 3 0.75000 emt0.0.0.t abhinav qw 03/16/2014 00:54:30 1 >>> 5 0.75000 emt0.0.0.t abhinav qw 03/16/2014 07:44:02 1 >>> 6 0.75000 emt0.0.0.t abhinav qw 03/16/2014 07:46:05 1 >>> 7 0.75000 emt0.0.0.t abhinav qw 03/18/2014 22:16:49 1 >>> 9 0.75000 emt0.0.0.t abhinav qw 03/18/2014 22:23:41 1 >>> 10 0.75000 emt0.0.0.t abhinav qw 03/18/2014 22:25:11 1 >>> 11 0.75000 emt0.0.0.t abhinav qw 03/18/2014 22:27:40 1 >>> 12 0.75000 emt0.0.0.t abhinav qw 03/18/2014 22:47:21 1 >>> 13 0.75000 emt0.0.0.t abhinav qw 03/18/2014 23:14:14 1 >>> 14 0.75000 emt0.0.0.t abhinav qw 03/18/2014 23:14:48 1 >>> 15 0.75000 emt0.0.0.t abhinav qw 03/19/2014 16:06:01 1 >>> 16 0.25000 script.sh abhinav qw 03/19/2014 17:03:34 1 >>> 17 0.25000 script.sh abhinav qw 03/19/2014 17:04:14 1 >>> 18 0.25000 script.sh abhinav qw 03/19/2014 17:04:54 1 >>> 19 0.25000 script.sh abhinav qw 03/19/2014 17:07:08 1 >> >> So, what does the queue look like: >> >> $ qconf -sq New >> >> -- Reuti >> >> >>> abhinav@abhnav:~$ hostname >>> abhnav >>> >>> On Wed, Mar 19, 2014 at 5:24 PM, Reuti <[email protected]> wrote: >>>> >>>> Am 19.03.2014 um 12:37 schrieb Abhinav Mittal: >>>> >>>>> Not working >>>>> >>>>> abhinav@abhnav:~$ qconf -ss >>>>> abhnav >>>>> localhost >>>>> abhinav@abhnav:~$ hostname >>>>> abhnav >>>>> abhinav@abhnav:~$ qsub script.sh >>>>> Unable to run job: warning: abhinav your job is not allowed to run in any >>>>> queue >>>>> Your job 18 ("script.sh") has been submitted. >>>>> Exiting. >>>>> >>>>> Same for qsub -b y as well >>>>> >>>>> On Wed, Mar 19, 2014 at 4:30 PM, Reuti <[email protected]> wrote: >>>>>> Hi, >>>>>> >>>>>> Am 19.03.2014 um 11:45 schrieb Abhinav Mittal: >>>>>> >>>>>>> I am trying to run a software called >>>>>>> "Segway"(http://noble.gs.washington.edu/proj/segway/doc/1.1.0/segway.html) >>>>>> >>>>>> Before looking into any application specific problems: is a simple >>>>>> script echo'ing "Hello World" working? Can you submit a binary with >>>>>> `qsub -b y hostname` too? >>>>>> >>>>>> -- Reuti >>>>>> >>>>>> >>>>>>> and getting an error "your job is not allowed to run in any que". >>>>>>> submit host : localhost , abhnav >>>>>>> hostname : abhnav >>>>>>> Still I am getting this error >>>>>>> Please help. >>>>>>> >>>>>>> ----------------------------------------------------------------------------------------------------------------- >>>>>>> >>>>>>> abhinav@abhnav:~$ segway --num-labels=4 train test.genomedata traindir >>>>>>> traindir/observations/chr21.0000.float32 (9411193, 9595548) >>>>>>> ____ PROGRAM ENDED SUCCESSFULLY WITH STATUS 0 AT Wednesday March 19 >>>>>>> 2014, 16:06:01 IST ____ >>>>>>> Traceback (most recent call last): >>>>>>> File "/home/abhinav/arch/Linux-x86_64/bin/segway", line 9, in <module> >>>>>>> load_entry_point('segway==1.1.0', 'console_scripts', 'segway')() >>>>>>> File "/home/abhinav/arch/Linux-x86_64/lib/python2.7/segway/run.py", >>>>>>> line 3592, in main >>>>>>> return runner() >>>>>>> File "/home/abhinav/arch/Linux-x86_64/lib/python2.7/segway/run.py", >>>>>>> line 3429, in __call__ >>>>>>> self.run(*args, **kwargs) >>>>>>> File "/home/abhinav/arch/Linux-x86_64/lib/python2.7/segway/run.py", >>>>>>> line 3407, in run >>>>>>> self.run_train() >>>>>>> File "/home/abhinav/arch/Linux-x86_64/lib/python2.7/segway/run.py", >>>>>>> line 3038, in run_train >>>>>>> instance_params = run_train_func(num_segs_range) >>>>>>> File "/home/abhinav/arch/Linux-x86_64/lib/python2.7/segway/run.py", >>>>>>> line 3056, in run_train_singlethread >>>>>>> res = [self.run_train_instance()] >>>>>>> File "/home/abhinav/arch/Linux-x86_64/lib/python2.7/segway/run.py", >>>>>>> line 2937, in run_train_instance >>>>>>> self.run_train_round(instance_index, round_index, **kwargs) >>>>>>> File "/home/abhinav/arch/Linux-x86_64/lib/python2.7/segway/run.py", >>>>>>> line 2899, in run_train_round >>>>>>> round_index, **kwargs) >>>>>>> File "/home/abhinav/arch/Linux-x86_64/lib/python2.7/segway/run.py", >>>>>>> line 2770, in queue_train_parallel >>>>>>> res.queue(restartable_job) >>>>>>> File >>>>>>> "/home/abhinav/arch/Linux-x86_64/lib/python2.7/segway/cluster/__init__.py", >>>>>>> line 174, in queue >>>>>>> self._queue_unconditional(restartable_job) >>>>>>> File >>>>>>> "/home/abhinav/arch/Linux-x86_64/lib/python2.7/segway/cluster/__init__.py", >>>>>>> line 164, in _queue_unconditional >>>>>>> jobid = restartable_job.run() >>>>>>> File >>>>>>> "/home/abhinav/arch/Linux-x86_64/lib/python2.7/segway/cluster/__init__.py", >>>>>>> line 116, in run >>>>>>> res = self.session.runJob(job_template) >>>>>>> File >>>>>>> "/home/abhinav/arch/Linux-x86_64/lib/python2.7/drmaa-0.7.6-py2.7.egg/drmaa/session.py", >>>>>>> line 314, in runJob >>>>>>> c(drmaa_run_job, jid, sizeof(jid), jobTemplate) >>>>>>> File >>>>>>> "/home/abhinav/arch/Linux-x86_64/lib/python2.7/drmaa-0.7.6-py2.7.egg/drmaa/helpers.py", >>>>>>> line 299, in c >>>>>>> return f(*(args + (error_buffer, sizeof(error_buffer)))) >>>>>>> File >>>>>>> "/home/abhinav/arch/Linux-x86_64/lib/python2.7/drmaa-0.7.6-py2.7.egg/drmaa/errors.py", >>>>>>> line 151, in error_check >>>>>>> raise _ERRORS[code - 1](error_string) >>>>>>> drmaa.errors.DeniedByDrmException: code 17: warning: abhinav your job >>>>>>> is not allowed to run in any queue >>>>>>> Your job 15 ("emt0.0.0.traindir.43308e4eaf5211e3a4741803736f5e43") has >>>>>>> been submitted >>>>>>> abhinav@abhnav:~$ hostname >>>>>>> abhnav >>>>>>> abhinav@abhnav:~$ qconf -ss >>>>>>> abhnav >>>>>>> localhost >>>>>>> _______________________________________________ >>>>>>> users mailing list >>>>>>> [email protected] >>>>>>> https://gridengine.org/mailman/listinfo/users >>>>>> >>>> >>>> >>>> _______________________________________________ >>>> users mailing list >>>> [email protected] >>>> https://gridengine.org/mailman/listinfo/users >> _______________________________________________ users mailing list [email protected] https://gridengine.org/mailman/listinfo/users
