Hi Jamie, did you look at the help for mri_glmfit? Run it with --help. doug ps. Please post questions to the list so that others can benefit. thanks!

On 05/13/2013 04:12 PM, Jaime Ide wrote:

Dear Douglas,

Thanks for your helpful page at https://surfer.nmr.mgh.harvard.edu/fswiki/PairedAnalysis

I am having problems in the last step running mri_glmfit. It should be a very simple bug to fix... *"ERROR: you must use '--surface subject hemi' with surface data"* (the complete message is at the bottom of this email..)

I wonder to know if you could help me on this. Thanks very much in advance, Jaime

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cmdline mri_glmfit --glmdir lh.paired-diff --y lh.paired-diff.thickness.sm05.mgh --fsgd paired-diff.fsgd --C mean.mtx sysname Linux hostname unifesp-monkey3 machine x86_64 user jaime FixVertexAreaFlag = 1 UseMaskWithSmoothing 1 OneSampleGroupMean 0 y /home/jaime/ji_freesurfer/ji_scripts/lh.paired-diff.thickness.sm05.mgh logyflag 0 usedti 0 FSGD paired-diff.fsgd glmdir lh.paired-diff IllCondOK 0 ReScaleX 1 DoFFx 0 Creating output directory lh.paired-diff Loading y from /home/jaime/ji_freesurfer/ji_scripts/lh.paired-diff.thickness.sm05.mgh *ERROR: you must use '--surface subject hemi' with surface data*