<p dir="ltr">Hey,</p>
<p dir="ltr">maybe a stupid question, but after you edited the config file, did you source it again in the shell where you started bedpost?</p>
<p dir="ltr">Michael</p>
<div class="gmail_quote">On Feb 29, 2016 3:40 PM, "Labounek René" <<a href="mailto:xlabou01@stud.feec.vutbr.cz">xlabou01@stud.feec.vutbr.cz</a>> wrote:<br type="attribution"><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">Dear Neurodebian users,<br>
<br>
I am not able to paralelize fsl via condor. I have installed condor based grid of 2 computers (called emperor and magellan).<br>
<br>
On emperor: condor_master, condor_startd, condor_shedd, condor_collector, condor_negotiator and condor_procd are running<br>
<br>
On magellan: condor_master, condor_startd and condor_procd are running.<br>
<br>
condor_status output looks ok:<br>
<br>
labounek@magellan:~$ condor_status<br>
Name OpSys Arch State Activity LoadAv Mem ActvtyTime<br>
<br>
slot10@emperor.fno LINUX X86_64 Unclaimed Idle <a href="tel:0.470%202682%2014" value="+49470268214" target="_blank">0.470 2682 14</a>+02:32:15<br>
slot11@emperor.fno LINUX X86_64 Unclaimed Idle 0.000 2682 14+02:32:16<br>
slot12@emperor.fno LINUX X86_64 Unclaimed Idle 0.000 2682 14+02:32:17<br>
slot1@emperor.fnol LINUX X86_64 Unclaimed Idle 1.000 2682 14+02:32:12<br>
slot2@emperor.fnol LINUX X86_64 Unclaimed Idle 1.000 2682 14+02:32:15<br>
slot3@emperor.fnol LINUX X86_64 Unclaimed Idle 1.000 2682 14+02:32:16<br>
slot4@emperor.fnol LINUX X86_64 Unclaimed Idle 1.000 2682 14+02:32:17<br>
slot5@emperor.fnol LINUX X86_64 Unclaimed Idle 1.000 2682 14+02:32:18<br>
slot6@emperor.fnol LINUX X86_64 Unclaimed Idle 1.000 2682 14+02:32:19<br>
slot7@emperor.fnol LINUX X86_64 Unclaimed Idle 1.000 2682 14+02:32:20<br>
slot8@emperor.fnol LINUX X86_64 Unclaimed Idle 1.000 2682 14+02:32:13<br>
slot9@emperor.fnol LINUX X86_64 Unclaimed Idle 1.000 2682 14+02:32:14<br>
slot1@magellan.fno LINUX X86_64 Unclaimed Idle <a href="tel:0.990%201333%20%200" value="+4999013330" target="_blank">0.990 1333 0</a>+02:44:39<br>
slot2@magellan.fno LINUX X86_64 Unclaimed Idle 0.000 1333 0+02:45:06<br>
slot3@magellan.fno LINUX X86_64 Unclaimed Idle 0.000 1333 0+02:45:07<br>
slot4@magellan.fno LINUX X86_64 Unclaimed Idle 0.000 1333 0+02:45:08<br>
slot5@magellan.fno LINUX X86_64 Unclaimed Idle 0.000 1333 0+02:45:09<br>
slot6@magellan.fno LINUX X86_64 Unclaimed Idle 0.000 1333 0+02:45:10<br>
Total Owner Claimed Unclaimed Matched Preempting Backfill<br>
<br>
X86_64/LINUX 18 0 0 18 0 0 0<br>
<br>
Total 18 0 0 18 0 0 0<br>
labounek@magellan:~$<br>
<br>
<br>
I have set FSLPARALLEL=condor in /etc/fsl/fsl.sh file (symbolic link to /etc/fsl/5.0/fsl.sh) as it is written here:<br>
<br>
<a href="http://neuro.debian.net/blog/2012/2012-03-09_parallelize_fsl_with_condor.html" rel="noreferrer" target="_blank">http://neuro.debian.net/blog/2012/2012-03-09_parallelize_fsl_with_condor.html</a><br>
<br>
I have tried to run bedpostx but it is still running on one core under my_user_account (labounek) and not under condor_account at multiple-cores.<br>
<br>
Does somebody has an idea what is wrong?<br>
<br>
Here is the terminal output and now is running xfibers on one core for labounek user.<br>
<br>
labounek@emperor:~/test$ bedpostx dti/<br>
subjectdir is /home/labounek/test/dti<br>
Making bedpostx directory structure<br>
Queuing preprocessing stages<br>
Queuing parallel processing stage<br>
<br>
----- Bedpostx Monitor -----<br>
<br>
Regards,<br>
Rene Labounek<br>
<br>
<br>
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</blockquote></div>