Maybe the machine is blocked by an ACL too: $ qconf -se abhnav
-- Reuti Am 19.03.2014 um 18:10 schrieb Abhinav Mittal: > algorithm default > schedule_interval 0:0:15 > maxujobs 0 > queue_sort_method load > job_load_adjustments np_load_avg=0.50 > load_adjustment_decay_time 0:7:30 > load_formula np_load_avg > schedd_job_info true > flush_submit_sec 0 > flush_finish_sec 0 > params none > reprioritize_interval 0:0:0 > halftime 168 > usage_weight_list cpu=1.000000,mem=0.000000,io=0.000000 > compensation_factor 5.000000 > weight_user 0.250000 > weight_project 0.250000 > weight_department 0.250000 > weight_job 0.250000 > weight_tickets_functional 0 > weight_tickets_share 0 > share_override_tickets TRUE > share_functional_shares TRUE > max_functional_jobs_to_schedule 200 > report_pjob_tickets TRUE > max_pending_tasks_per_job 50 > halflife_decay_list none > policy_hierarchy OFS > weight_ticket 0.500000 > weight_waiting_time 0.278000 > weight_deadline 3600000.000000 > weight_urgency 0.500000 > weight_priority 0.000000 > max_reservation 0 > default_duration INFINITY > > On Wed, Mar 19, 2014 at 10:27 PM, Reuti <[email protected]> wrote: >> You changed the queue setting? >> >> $ qconf -sq New >> >> Another place to look to could be: >> >> $ qconf -ssconf >> >> -- Reuti >> >> >> Am 19.03.2014 um 17:54 schrieb Abhinav Mittal: >> >>> Still ...... >>> >>> abhinav@abhnav:~$ qconf -sql >>> New >>> abhinav@abhnav:~$ qconf -sel >>> abhnav >>> localhost >>> 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 >>> 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 >>> jsv_url none >>> jsv_allowed_mod ac,h,i,e,o,j,M,N,p,w >>> >>> abhinav@abhnav:~$ qsub script.sh >>> Unable to run job: warning: abhinav your job is not allowed to run in any >>> queue >>> Your job 29 ("script.sh") has been submitted. >>> Exiting. >>> >>> On Wed, Mar 19, 2014 at 10:11 PM, Reuti <[email protected]> wrote: >>>> Am 19.03.2014 um 16:34 schrieb Abhinav Mittal: >>>> >>>>> YES abhnav and abhinav are different! >>>> >>>> Ok. >>>> >>>>> On Wed, Mar 19, 2014 at 9:00 PM, Reuti <[email protected]> wrote: >>>>>>>>>>>> <snip> >>>>>>>>>>>> user_lists arusers >>>> >>>> Why are "arusers" set here? By default this is empty. >>>> >>>> $ qconf -su arusers >>>> >>>> Either set it to NONE or attach yourself to the list. >>>> >>>> -- Reuti >>>> >>>> >>>>>>>>>>>> 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
