Hi Steve, You have been right, it was my fault, because I misinterpreted something in the fsl_sub file and made a change that was causing the problem. There is a part where the SGE initialisation is done: [...] METHOD=SGE if [ "x$SGE_ROOT" = "x" ] ; then if [ -f /usr/local/share/sge/default/common/settings.sh ] ; then . /usr/local/share/sge/default/common/settings.sh elif [ -f /usr/local/sge/default/common/settings.sh ] ; then . /usr/local/sge/default/common/settings.sh else METHOD=NONE fi fi [...] I assumed that I have to set the file for my environment ('/usr/sge/default/common/settings.sh'), and of course this was setting again the variable SGE_ROOT. So I guess that this kind of problem I introduced could occur whenever someone sets up SGE with the paths as specified here. Would it not be more reliable to check whether the variable SGE_ROOT is set and decide based on this to use SGE? Anyway, now everything seems to work fine again and I am happy. Sorry for causing this problem by myself. wolf Steve Smith wrote: > Yes - you could - though I have never seen this problem before - for > me, unsetting SGE_ROOT always works - maybe you have a locally > modified fsl_sub that doesn't obey this? > Cheers. > > > On 13 Aug 2009, at 03:58, Xue, Feng wrote: > >> try modify $FSLDIR/bin/fsl_sub and in method config section, set >> METHOD=NONE below the outer "fi" line >> >> On Thu, Aug 13, 2009 at 3:19 AM, wolf >> zinke<[log in to unmask]> wrote: >>> Hi, >>> >>> I try desperately to run FEAT without using SGE, but I have not >>> found a good >>> solution.I tried to use "unset SGE_ROOT" or "SGE_ROOT='';export >>> SGE_ROOT" >>> before calling "feat some.fsf" from the same shell. But for some >>> reason it >>> always submits all jobs to SGE. I want to run a set of feat analysis >>> single >>> threaded because otherwise I am running out of RAM pretty fast. It >>> would be >>> great to have a simple flag withing Feat that sets whether to use or >>> not to >>> use SGE facilities via fsl_sub. Is there such an reliable option >>> already >>> available? >>> >>> Thanks for all the help, >>> wolf >>> >> >> >> >> -- >> Best Regards >> >> >> National Key Laboratory of Cognitive Neuroscience and Learning >> Beijing Normal University >> Beijing, China. 100875 >> Tel: +86-13810154455 >> web: http://psychbrain.bnu.edu.cn >> ============================================== >> Welcome to MuDuo JinSheng BBS @ Beijing Normal University >> telnet://bbs.mdjs.org >> http://bbs.mdjs.org >> > > > --------------------------------------------------------------------------- > > Stephen M. Smith, Professor of Biomedical Engineering > Associate Director, Oxford University FMRIB Centre > > FMRIB, JR Hospital, Headington, Oxford OX3 9DU, UK > +44 (0) 1865 222726 (fax 222717) > [log in to unmask] http://www.fmrib.ox.ac.uk/~steve > --------------------------------------------------------------------------- >