Hi - just to check - you are using a 64-bit build of FSL on your 64-
bit machine?
But anyway, I don't think that RAM is the problem, looking at the
error messages before the final one. It seems like there's a problem
with the design matrix or contrasts. Could you email me the
design.fsf and .mat and .con files or even better just upload the (in)
complete FEAT output directory?
Please upload the files in a single compressed tarfile to
http://www.fmrib.ox.ac.uk/cgi-bin/upload.cgi
and then email me the upload ID.
Cheers, Steve.
On 14 Nov 2006, at 19:02, Manish Saggar wrote:
> Hi,
>
> I was analysing some large chunk of data (400 volumes * 31 slices =
> 12400
> images) using FSL. I am getting the following error while using
> FEAT, any
> clues why this is happening :
>
> "Error: FILM did not complete - it probably ran out of memory"
>
> I checked the FSL forums but of no help.
>
> I have plenty of disk space. The machine I am working on is a 64 bit
> processor. I have increased the swap space from 2GB to 4GB. I can't
> reduce
> the slices and also I am using only 2 EVs so can't reduce that either.
>
> Also one thing that I noticed is that, the program is not using the
> swap
> space at all, its totally unused during the execution of FEAT (I
> periodically checked during its execution by free -m command)
>
> Can anybody help me on this ?, Also below is the log file.
>
> -Manish
>
> ----------------------------------------------------------------------
> -------------------------------------------------------
> FEAT output is
> /proj/meditation/kau-medi-004/unnamed/analysisManish/Sub01_EP_RPI.feat
>
> /bin/cp /tmp/feat_80ixvB.fsf design.fsf
>
> /usr/local/fsl/bin/feat_model design
> Total original volumes = 400
>
> /usr/local/fsl/bin/avwroi
> /proj/meditation/kau-medi-004/unnamed/analysisManish/Sub01_EP_RPI
> example_func 200 1
>
> /usr/local/fsl/bin/mcflirt -in
> /proj/meditation/kau-medi-004/unnamed/analysisManish/Sub01_EP_RPI -out
> prefiltered_func_data_mcf -mats -plots -refvol 200 -rmsrel -rmsabs
>
> /bin/mkdir mc ; /bin/mv -f prefiltered_func_data_mcf.mat
> prefiltered_func_data_mcf.par prefiltered_func_data_mcf_abs.rms
> prefiltered_func_data_mcf_abs_mean.rms
> prefiltered_func_data_mcf_rel.rms
> prefiltered_func_data_mcf_rel_mean.rms mc
>
> /usr/local/fsl/bin/convert rot.ppm rot.gif
>
> /usr/local/fsl/bin/convert trans.ppm trans.gif
>
> /usr/local/fsl/bin/convert disp.ppm disp.gif
>
> /bin/rm -f rot.ppm trans.ppm disp.ppm
>
> /usr/local/fsl/bin/betfunc prefiltered_func_data_mcf
> prefiltered_func_data_bet
>
> /usr/local/fsl/bin/ip prefiltered_func_data_bet filtered_func_data 10
> -s 2.54777070064 -m mask -i 10000 -t 16.6666666667 -1 | grep THRESHOLD
> | awk '{ print }' -
> 1000.000000
>
> /usr/local/fsl/bin/avwmaths filtered_func_data -Tmean mean_func
>
> rm -rf prefiltered_func_data*
>
> /usr/local/fsl/bin/film_gls -rn stats -sa -ms 5 -sp
> /usr/local/fsl/bin/susan_smooth filtered_func_data design.mat
> 1000.000000
> Log directory is: stats
> Calculating residuals...
> Completed
> Estimating residual autocorrelation...
> Calculating raw AutoCorrs... Completed
>
>
> An exception has been thrown
> Logic error:- detected by Newmat: index error: requested index = 1
>
> MatrixType = Rect # Rows = 0; # Cols = 1
> Trace: Histogram::generate; AutoCorrEstimator::spatiallySmooth.
>
> Error: FILM did not complete - it probably ran out of memory
------------------------------------------------------------------------
---
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
------------------------------------------------------------------------
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