Hmmm..it's starting to maybe sound more like it's the data than the
computing environment - could you tar up the (incomplete) feat directory
(no need to send the input data) and compress it and put it on a web/ftp
site and we'll take a look.
Cheers.
On Tue, 27 Jul 2004, Anda van Stegeren wrote:
> I tried rerunning several times. same effect: error at that same point.... starting with "Signal 6" ??
> How do you want to define "large datasets" : the analyses that do run, create a .FEAT directory that is a bit more than half GB. The EPI's are around 115 MB.
>
> ...
> Anda
>
>
> Drs. Anda van Stegeren,
> University of Amsterdam
> Department of Clinical Psychology
> Roetersstraat 15
> 1018 WB Amsterdam
> The Netherlands
> tel. ++ 31 20 525 6799
> fax. ++31 20 639 1369
> E-mail: [log in to unmask]
>
>
>
> -----Original Message-----
> From: FSL - FMRIB's Software Library [mailto:[log in to unmask]]On
> Behalf Of Stephen Smith
> Sent: dinsdag 27 juli 2004 14:12
> To: [log in to unmask]
> Subject: Re: [FSL] Error in First Level Analysis
>
>
> Hi - no, that should be fine. Are these particularly large datasets? What
> happens if you try again to run one of the failed analyses?
>
> Cheers.
>
>
> On Tue, 27 Jul 2004, Anda van Stegeren wrote:
>
> > Mark,
> > Swap size in Windows is 1536 Mb...
> >
> > what I meant is, that i managed to finish new analyses of other participants.
> > could the analysis be bothered by others that were 'ready to go" but timed with a "delay before starting"?
> >
> > thanks
> > Anda
> >
> > Drs. Anda van Stegeren,
> > University of Amsterdam
> > Department of Clinical Psychology
> > Roetersstraat 15
> > 1018 WB Amsterdam
> > The Netherlands
> > tel. ++ 31 20 525 6799
> > fax. ++31 20 639 1369
> > E-mail: [log in to unmask]
> >
> >
> >
> > -----Original Message-----
> > From: FSL - FMRIB's Software Library [mailto:[log in to unmask]]On
> > Behalf Of Mark Woolrich
> > Sent: maandag 26 juli 2004 18:03
> > To: [log in to unmask]
> > Subject: Re: [FSL] Error in First Level Analysis
> >
> >
> > Anda,
> >
> > When you say you had a "correct analysis" after these errors, what do
> > actually mean? I would be surprised given the nature of the error
> > message, as no stats would have been produced for that subject.
> >
> > What swap size have you got set in Windows?
> >
> > Cheers, Mark.
> >
> > Mark Woolrich.
> >
> > Oxford University Centre for Functional MRI of the Brain (FMRIB),
> > John Radcliffe Hospital, Headington, Oxford OX3 9DU, UK.
> >
> > Tel: (+44)1865-222782 Homepage: http://www.fmrib.ox.ac.uk/~woolrich
> >
> > On Mon, 26 Jul 2004, Anda van Stegeren wrote:
> >
> > > Hi Mark,
> > > Thanks for your fast reply.
> > > I did think of that, but have 1 GB as RAM memory and 49 GB free disk space. Working in Windows XP with Cygwin.
> > >
> > > as i wrote... did manage to have a correct analysis after some of these errors....which makes it even more cryptic to me...
> > > Anda
> > >
> > >
> > >
> > > Drs. Anda van Stegeren,
> > > University of Amsterdam
> > > Department of Clinical Psychology
> > > Roetersstraat 15
> > > 1018 WB Amsterdam
> > > The Netherlands
> > > tel. ++ 31 20 525 6799
> > > fax. ++31 20 639 1369
> > > E-mail: [log in to unmask]
> > >
> > >
> > >
> > > -----Original Message-----
> > > From: FSL - FMRIB's Software Library [mailto:[log in to unmask]]On
> > > Behalf Of Mark Woolrich
> > > Sent: maandag 26 juli 2004 14:45
> > > To: [log in to unmask]
> > > Subject: Re: [FSL] Error in First Level Analysis
> > >
> > >
> > > Anda,
> > >
> > > How much RAM and swap space do you have? This is crashing at a point when
> > > more memory is being grabbed. We recommend RAM of 512MB or more, and swap
> > > space at least equal to RAM (although 2GB min recommended). Failing
> > > that, what platform are you on?
> > >
> > > Cheers, Mark.
> > >
> > > Mark Woolrich.
> > >
> > > Oxford University Centre for Functional MRI of the Brain (FMRIB),
> > > John Radcliffe Hospital, Headington, Oxford OX3 9DU, UK.
> > >
> > > Tel: (+44)1865-222782 Homepage: http://www.fmrib.ox.ac.uk/~woolrich
> > >
> > > On Mon, 26 Jul 2004, Anda van Stegeren wrote:
> > >
> > > > Hi,
> > > >
> > > > In a FLA i get a strange error report in some subjects, where others with exactly the same design.fsf run perfect. Everything is checked in terms of: correct data files (design is with 3-column format) and nr. of EVs and the design in these subjects is accepted without any problem. Something goes wrong after the "smoothing" and i get this message that differs from the other log reports starting with "Signal 6":
> > > >
> > > > rm -rf stats/postSmoothVol* stats/preSmoothVol* stats/usanSize*
> > > > Completed
> > > > Tukey M = 24
> > > > Tukey estimates... Completed
> > > > Completed
> > > > Prewhitening and Computing PEs...
> > > > Percentage done:
> > > > 1,2,3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,23,24,25,26,27,28,29,30,31,32,33,34,35,36,37,38,39,40,41,42,43,44,45,46,47,48,49,50,51,52,53,54,55,56,57,58,59,60,61,62,63,64,65,66,67,68,69,70,71,72,73,74,75,76,77,78,79,80,81,82,83,84,85,86,87,88,89,90,91,92,93,94,95,96,97,98,99,Completed
> > > > Saving results...
> > > > Unthresholding Series... Completed
> > > > Saving image... Completed
> > > > Thresholding Series... Completed
> > > > Unthresholding Series... Signal 6
> > > >
> > > > /usr/local/fsl/bin/contrast_mgr stats design.con
> > > > AvwOpen: Error while opening header!: No such file or directory
> > > > Signal 11
> > > > Rendering using zmin=2.3 zmax=8
> > > >
> > > > /usr/local/fsl/bin/tsplot . -f filtered_func_data
> > > > Cannot open volume ./stats/pe1.hdr for reading!
> > > >
> > > > Can anybody help here ?
> > > >
> > > > thanks, Anda
> > > >
> > > > Drs. Anda van Stegeren,
> > > > University of Amsterdam
> > > > Department of Clinical Psychology
> > > > Roetersstraat 15
> > > > 1018 WB Amsterdam
> > > > The Netherlands
> > > > tel. ++ 31 20 525 6799
> > > > fax. ++31 20 639 1369
> > > > E-mail: [log in to unmask]
> > > >
> > >
> >
>
> Stephen M. Smith DPhil
> Associate Director, FMRIB and Analysis Research Coordinator
>
> Oxford University Centre for Functional MRI of the Brain
> John Radcliffe Hospital, Headington, Oxford OX3 9DU, UK
> +44 (0) 1865 222726 (fax 222717)
>
> [log in to unmask] http://www.fmrib.ox.ac.uk/~steve
>
Stephen M. Smith DPhil
Associate Director, FMRIB and Analysis Research Coordinator
Oxford University Centre for Functional MRI of the Brain
John Radcliffe Hospital, Headington, Oxford OX3 9DU, UK
+44 (0) 1865 222726 (fax 222717)
[log in to unmask] http://www.fmrib.ox.ac.uk/~steve
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