Hi,
The COG total=0 warning occurs when the images are empty - that is, all
zeros.
Are you sure that your data is OK?
If your installation passed the feeds test then it should be fine.
Try looking at your data with fslview or slices.
All the best,
Mark
Jari Kätsyri wrote:
>We have made a pilot fMRI experiment at our laboratory, which we analyzed
>with FSL outside our own network. I managed to persuade our administrators
>to install the FSL also into our local network. The problem is that the same
>FEAT analysis which finished succesfully elsewhere doesn't succeed with our
>installation of FSL. The log (see below) shows that the following problem
>occurs already at the motion correction module: "WARNING::in calculating
>COG, total = 0.0".
>
>Both FSLs have been installed on Linuxes and we use exactly the same data in
>the analyses. I've also ran the feeds tests with our installation. These
>tests were passed succesfully.
>
>Please, does anyone have experience with a similar problem or have good
>suggestions on how to solve it? Thank you for any advices.
>
>--
>
>Started FEAT at Tue Dec 9 12:24:20 EET 2003 on erginus.lce.hut.fi
>
>/bin/cp /tmp/feat_TyqQ1q.fsf design.fsf
>
>/usr/local/fsl/bin/feat_model design
>Total original volumes = 400
>Deleting 2 volume(s) - BE WARNED for future analysis!
>
>/usr/local/fsl/bin/avwroi /proj/emotion/fmri_data/emootiot
>prefiltered_func_data 2 398
>
>/usr/local/fsl/bin/avwroi prefiltered_func_data example_func 199 1
>
>/usr/local/fsl/bin/mcflirt -in prefiltered_func_data -out
>prefiltered_func_data_mcf -plots -refvol 199 -rmsrel -rmsabs
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>WARNING::in calculating COG, total = 0.0
>
>/bin/mkdir mc ; /bin/mv -f 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
>2.12314225053 -m mask -I 10000 -t 35.0 -1 | grep THRESHOLD | awk '{ print
>}' -
>1000.000000
>
>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
>Loading image... Completed
>Applying threshold to Series... Completed
>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.
>
>
>/usr/local/fsl/bin/contrast_mgr stats design.con
>AvwOpen: Error while opening header!: No such file or directory
>Rendering using zmin=2.3 zmax=8
>
>/usr/local/fsl/bin/tsplot . -f filtered_func_data
>Cannot open volume ./stats/pe1.hdr for reading!
>
>mkdir tsplot
>
>Finished FEAT at Tue Dec 9 12:42:33 EET 2003
>To view the FEAT report point your web browser at
>/proj/emotion/fmri_data/emootiot.feat/report.html
>
>
>---
>Jari Kätsyri
>Researcher, M.Sc., (student of humanities)
>Laboratory of Computational Engineering, Helsinki University of Technology
>P.O.Box 9203, FIN-02015 HUT, FINLAND
>
>
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