Michael,
I have opened new terminal before I have run it after editing. I think
it should be enough. Or do you think something else?
Definitelly, this works in the terminal where I have run it.
labounek@emperor:~$ echo $FSLPARALLEL
condor
labounek@emperor:~$
Rene
Cituji Michael Hanke <[email protected]>:
Hey,
maybe a stupid question, but after you edited the config file, did you
source it again in the shell where you started bedpost?
Michael
On Feb 29, 2016 3:40 PM, "Labounek René" <[email protected]>
wrote:
Dear Neurodebian users,
I am not able to paralelize fsl via condor. I have installed condor based
grid of 2 computers (called emperor and magellan).
On emperor: condor_master, condor_startd, condor_shedd, condor_collector,
condor_negotiator and condor_procd are running
On magellan: condor_master, condor_startd and condor_procd are running.
condor_status output looks ok:
labounek@magellan:~$ condor_status
Name OpSys Arch State Activity LoadAv Mem
ActvtyTime
[email protected] LINUX X86_64 Unclaimed Idle 0.470 2682 14
+02:32:15
[email protected] LINUX X86_64 Unclaimed Idle 0.000 2682
14+02:32:16
[email protected] LINUX X86_64 Unclaimed Idle 0.000 2682
14+02:32:17
[email protected] LINUX X86_64 Unclaimed Idle 1.000 2682
14+02:32:12
[email protected] LINUX X86_64 Unclaimed Idle 1.000 2682
14+02:32:15
[email protected] LINUX X86_64 Unclaimed Idle 1.000 2682
14+02:32:16
[email protected] LINUX X86_64 Unclaimed Idle 1.000 2682
14+02:32:17
[email protected] LINUX X86_64 Unclaimed Idle 1.000 2682
14+02:32:18
[email protected] LINUX X86_64 Unclaimed Idle 1.000 2682
14+02:32:19
[email protected] LINUX X86_64 Unclaimed Idle 1.000 2682
14+02:32:20
[email protected] LINUX X86_64 Unclaimed Idle 1.000 2682
14+02:32:13
[email protected] LINUX X86_64 Unclaimed Idle 1.000 2682
14+02:32:14
[email protected] LINUX X86_64 Unclaimed Idle 0.990 1333 0
+02:44:39
[email protected] LINUX X86_64 Unclaimed Idle 0.000 1333
0+02:45:06
[email protected] LINUX X86_64 Unclaimed Idle 0.000 1333
0+02:45:07
[email protected] LINUX X86_64 Unclaimed Idle 0.000 1333
0+02:45:08
[email protected] LINUX X86_64 Unclaimed Idle 0.000 1333
0+02:45:09
[email protected] LINUX X86_64 Unclaimed Idle 0.000 1333
0+02:45:10
Total Owner Claimed Unclaimed Matched Preempting
Backfill
X86_64/LINUX 18 0 0 18 0 0
0
Total 18 0 0 18 0 0
0
labounek@magellan:~$
I have set FSLPARALLEL=condor in /etc/fsl/fsl.sh file (symbolic link to
/etc/fsl/5.0/fsl.sh) as it is written here:
http://neuro.debian.net/blog/2012/2012-03-09_parallelize_fsl_with_condor.html
I have tried to run bedpostx but it is still running on one core under
my_user_account (labounek) and not under condor_account at multiple-cores.
Does somebody has an idea what is wrong?
Here is the terminal output and now is running xfibers on one core for
labounek user.
labounek@emperor:~/test$ bedpostx dti/
subjectdir is /home/labounek/test/dti
Making bedpostx directory structure
Queuing preprocessing stages
Queuing parallel processing stage
----- Bedpostx Monitor -----
Regards,
Rene Labounek
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