Hi Karen
Is it possible that there are no outliers in this dataset? I don’t think fsl_motion_outliers will write a confound file if there are no outliers.
You could test this by manually setting the threshold below some of the peaks in your DVARS plot.
Cheers, Sean
> On 6 May 2019, at 15:49, Karen Seymour <[log in to unmask]> wrote:
>
> FSL experts,
>
> I am trying to use fsl_motion_outliers on an event-related fMRI dataset using the following command:
>
> fsl_motion_outliers -i ${a}_MB_run1motion.nii.gz -o ${a}_MB_run1motion_confound -p ${a}_run1_dvars.png -s ${a}_run1_dvars.txt --dvars \
> --nomoco
>
>
> I get the plot and values for DVARS, but I don't get the actual output file created. Thoughts?
>
> Thanks,
>
> Karen
>
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