Could be that you have "-surf" instead of "--surf"?

newfei@nmr.mgh.harvard.edu wrote:

Hi,

I encountered the error of 'option fsaverage unknown' when running the mri_glmfit. Any idea on what I have missed during the steps leading to this?

[audrey:newfeiGLM] (nmr-std-env) mri_glmfit --y lh.Vis_schiz.thickness.10.mgh --fsgd Vis_schiz.fsgd dods --C age.mtx -surf fsaverage lh --cortex --glmdir lh.Vis_schiz.glmdir gdfReadHeader: reading Vis_schiz.fsgd INFO: DeMeanFlag keyword not found, DeMeaning will NOT be done. Continuous Variable Means (all subjects) 0 Age 41.2941 1 PremorbidIQ 107.942 2 BDI 5.41176 Class Means of each Continuous Variable 1 Control 41.3333 113.6880 2.4000 2 Schiz 41.2632 103.4053 7.7895 INFO: gd2mtx_method is dods ERROR: Option fsaverage unknown

Thanks in advance, Newfei

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