help
help > Job manager Background process, test fails
Sep 2, 2017 04:09 AM | Alfonso Nieto-Castanon - Boston University
Job manager Background process, test fails
Hi Clas,
That is curious, so it seems that the process was run locally (the "21832" output was likely the process id), yet it did not manage to start matlab (otherwise the matlab output file will contain at least some initialization strings) and it did so without producing any error (otherwise the submission command output would contain the error message). Could you please, from a linux terminal window, type:
bash /autofs/homes/013/linnman/Desktop/.qlog/170901125803884/node.0001170901125803884.sh
and see whether that runs without any problems? Also please type:
which bash
ls -al /bin/bash
and let me know the output (this is to double-check that the standard shell is not being re-directed somewhere else, which could explain the strange behavior). If none of these seem to bring any light to this case please also zip and send me the contents of the /autofs/homes/013/linnman/Desktop/.qlog/170901125803884/ folder for me to be able to take a closer look.
Best
Alfonso
Originally posted by Clas Linnman:
That is curious, so it seems that the process was run locally (the "21832" output was likely the process id), yet it did not manage to start matlab (otherwise the matlab output file will contain at least some initialization strings) and it did so without producing any error (otherwise the submission command output would contain the error message). Could you please, from a linux terminal window, type:
bash /autofs/homes/013/linnman/Desktop/.qlog/170901125803884/node.0001170901125803884.sh
and see whether that runs without any problems? Also please type:
which bash
ls -al /bin/bash
and let me know the output (this is to double-check that the standard shell is not being re-directed somewhere else, which could explain the strange behavior). If none of these seem to bring any light to this case please also zip and send me the contents of the /autofs/homes/013/linnman/Desktop/.qlog/170901125803884/ folder for me to be able to take a closer look.
Best
Alfonso
Originally posted by Clas Linnman:
hi, here is what I get.
submission script
#!/bin/bash
/autofs/cluster/matlab/8.6/bin/matlab -nodesktop -nodisplay -nosplash -singleCompThread -logfile '/autofs/homes/013/linnman/Desktop/.qlog/170901125803884/node.0001170901125803884.stdlog' -r "addpath /autofs/space/oyster_001/users/Clas_oyster/spm12; addpath /autofs/space/oyster_001/users/Clas_oyster/conn; cd /autofs/homes/013/linnman/Desktop/.qlog/170901125803884; conn_jobmanager('rexec','/autofs/homes/013/linnman/Desktop/.qlog/170901125803884/node.0001170901125803884.mat'); exit"
echo _NODE END_
submission command
/bin/bash '/autofs/homes/013/linnman/Desktop/.qlog/170901125803884/node.0001170901125803884.sh' 2> '/autofs/homes/013/linnman/Desktop/.qlog/170901125803884/node.0001170901125803884.stderr' 1> '/autofs/homes/013/linnman/Desktop/.qlog/170901125803884/node.0001170901125803884.stdout' &
submission command output
status command output
21832
submission script
#!/bin/bash
/autofs/cluster/matlab/8.6/bin/matlab -nodesktop -nodisplay -nosplash -singleCompThread -logfile '/autofs/homes/013/linnman/Desktop/.qlog/170901125803884/node.0001170901125803884.stdlog' -r "addpath /autofs/space/oyster_001/users/Clas_oyster/spm12; addpath /autofs/space/oyster_001/users/Clas_oyster/conn; cd /autofs/homes/013/linnman/Desktop/.qlog/170901125803884; conn_jobmanager('rexec','/autofs/homes/013/linnman/Desktop/.qlog/170901125803884/node.0001170901125803884.mat'); exit"
echo _NODE END_
submission command
/bin/bash '/autofs/homes/013/linnman/Desktop/.qlog/170901125803884/node.0001170901125803884.sh' 2> '/autofs/homes/013/linnman/Desktop/.qlog/170901125803884/node.0001170901125803884.stderr' 1> '/autofs/homes/013/linnman/Desktop/.qlog/170901125803884/node.0001170901125803884.stdout' &
submission command output
status command output
21832
Threaded View
| Title | Author | Date |
|---|---|---|
| Clas Linnman | Sep 1, 2017 | |
| Alfonso Nieto-Castanon | Sep 1, 2017 | |
| Clas Linnman | Sep 1, 2017 | |
| Alfonso Nieto-Castanon | Sep 2, 2017 | |
| Clas Linnman | Sep 3, 2017 | |