I’ve send a job yesterday. Today, I opened a window to monitor the progress of my job. It seems the job was ok until the error at the end of the file:
…
Structure 29: running
Structure 30: running
Structure 151: running
Structure 152: running
Structure 29: running
Structure 30: running
creating file.list in /home/enmr/services-enmr/HADDOCK/server/run/userrun000982/run1/structures/it1
creating file.nam in /home/enmr/services-enmr/HADDOCK/server/run/userrun000982/run1/structures/it1
creating file.cns in /home/enmr/services-enmr/HADDOCK/server/run/userrun000982/run1/structures/it1
starting analysis scripts for /home/enmr/services-enmr/HADDOCK/server/run/userrun000982/run1/structures/it1
calculating average structure and rmsds
queue command:
/home/enmr/software/bin/ssub haddock complex_run1_get_average.job
waiting for the average structure…
QUEUE_DOWN
pbs_iff: cannot read reply from pbs_server
No Permission.
qsub: cannot connect to server master.cm.cluster (errno=15007) Unauthorized Request
Queue command failed, retrying in 15 seconds
QUEUE_DOWN
Connection timed out
qsub: cannot connect to server master.cm.cluster (errno=110) Connection timed out
Queue command failed, retrying in 30 seconds
QUEUE_DOWN
Connection timed out
qsub: cannot connect to server master.cm.cluster (errno=110) Connection timed out
Queue command failed, retrying in 60 seconds
QUEUE_DOWN
pbs_iff: cannot read reply from pbs_server
No Permission.
qsub: cannot connect to server master.cm.cluster (errno=15007) Unauthorized Request
Queue command failed, retrying in 120 seconds
QUEUE_DOWN
pbs_iff: cannot read reply from pbs_server
No Permission.
qsub: cannot connect to server master.cm.cluster (errno=15007) Unauthorized Request
Queue command failed, retrying in 240 seconds
QUEUE_DOWN
pbs_iff: cannot read reply from pbs_server
No Permission.
qsub: cannot connect to server master.cm.cluster (errno=15007) Unauthorized Request
Queue command failed, retrying in 480 seconds
QUEUE_DOWN
pbs_iff: cannot read reply from pbs_server
No Permission.
qsub: cannot connect to server master.cm.cluster (errno=15007) Unauthorized Request
Queue command failed, retrying in 960 seconds
QUEUE_DOWN
pbs_iff: cannot read reply from pbs_server
No Permission.
qsub: cannot connect to server master.cm.cluster (errno=15007) Unauthorized Request
Queue command failed, retrying in 1920 seconds
Exception in thread Thread-204:
Traceback (most recent call last):
File “/usr/local/lib/python2.5/threading.py”, line 486, in __bootstrap_inner
self.run()
File “/usr/local/lib/python2.5/threading.py”, line 446, in run
self.__target(*self.__args, **self.__kwargs)
File “/home/enmr/software/haddock2.1-grid/Haddock/Main/QueueThread.py”, line 16, in runqueuecommand
if failures == 8: raise HaddockError(“Your queue command is not working”)
HaddockError:
Your queue command is not working
Should I wait for my structure anyway or there are something wrong with my job? I didn’t receive any message saying the job failed.
More about the output here: http://milou.science.uu.nl/enmr/serviceresults/HADDOCK/3958484546/cxcr2-il8/haddock.out
Thanks in advance,
Mauricio Menegatti Rigo