Looks like the most up-to-date version of mri_surfcluster did not get into the distribution. Try this one

https://gate.nmr.mgh.harvard.edu/safelinks/greve/mri_surfcluster

Hi Freesurfer Team,

I came across the following error while running mri_glmfit-sim. What is vwsigmax?

Thanks for your help again.

The full log is as follows:

$Id: FreeSurferEnv.csh,v 1.89 2016/06/09 14:54:31 zkaufman Exp $

Sat Nov 19 02:00:45 GMT 2016

Darwin dhcp-10-240-201-24.cp.wireless.private.cam.ac.uk 14.5.0 Darwin Kernel Version 14.5.0: Thu Jun 16 19:58:21 PDT 2016; root:xnu-2782.50.4~1/RELEASE_X86_64 x86_64

MacPro

setenv SUBJECTS_DIR /Volumes/TITAN/cth_wmh_study

FREESURFER_HOME //Users/MacPro/Documents/freesurfer_b6

Original mri_glmfit command line:

cmdline mri_glmfit.bin --y y.mgh --fsgd FSGDs/FSGD_Z_cthVsCTH_AD_age dods --C Contrasts/C --surf fsaverage lh --cortex --glmdir Glmdirs/ProjectAD

DoSim = 0

UseCache = 1

DoPoll = 0

DoPBSubmit = 0

DoBackground = 0

DiagCluster = 0

gd2mtx = dods

fwhm = 20.927757

CSD //Users/MacPro/Documents/freesurfer_b6/average/mult-comp-cor/fsaverage/lh/cortex/fwhm21/abs/th30/mc-z.csd

mri_surfcluster --in Glmdirs/ProjectAD/C/sig.mgh --mask Glmdirs/ProjectAD/mask.mgh --cwsig Glmdirs/ProjectAD/C/cache.th30.abs.sig.cluster.mgh --sum Glmdirs/ProjectAD/C/cache.th30.abs.sig.cluster.summary --ocn Glmdirs/ProjectAD/C/cache.th30.abs.sig.ocn.mgh --annot aparc --cwpvalthresh 0.05 --o Glmdirs/ProjectAD/C/cache.th30.abs.sig.masked.mgh --no-fixmni --csd //Users/MacPro/Documents/freesurfer_b6/average/mult-comp-cor/fsaverage/lh/cortex/fwhm21/abs/th30/mc-z.csd --csdpdf Glmdirs/ProjectAD/C/cache.th30.abs.pdf.dat --vwsig Glmdirs/ProjectAD/C/cache.th30.abs.sig.voxel.mgh --vwsigmax Glmdirs/ProjectAD/C/cache.th30.abs.sig.voxel.max.dat --oannot Glmdirs/ProjectAD/C/cache.th30.abs.sig.ocn.annot --bonferroni 2 --surf white

ERROR: Option --vwsigmax unknown

Best Wishes,

Elijah

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