Hello,
Can you upload your functional data to the oxfile link ( https://oxfile.ox.ac.uk/oxfile/work/extBox?id=700839B35190E48BF ) so I can check what is happening? Also can you let me know which version of FSL you are using?
Kind Regards
Matthew
> On 23 Jun 2016, at 21:56, Erin W. <[log in to unmask]> wrote:
>
> Hi Mark (and FSL community),
>
> I wanted to reply to this (old) thread as I am experiencing the same issue. I used --dummy=4 in the fsl_motion_outliers command to remove the first 4 volumes. This is consistent with my entry in the FEAT GUI (and .fsf template for batch scripting as well).
>
> For motion outliers, I am running the following command:
>
> fsl_motion_outliers -i $FUNCFILE -o $DATADIR/motion_confound.txt -s $DATADIR/fd.txt -p $DATADIR/fd_plot.txt --fd --thresh=0.9 --dummy=4 -v
>
> When I run this, the fd.txt document shows 328 timepoints (what I want). However, the outlier matrix (motion_confound.txt) shows 329 lines. I assume this causing the incompatibility within FEAT when I attempt to run the 1st level model, entering it in as an additional confound EV.
>
> Is there a reason for the additional line? Any suggestion for a fix?
>
> Thank you for help!
>
> Best,
> Erin
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