Can you send the terminal output that starts with mris_preproc?

On 01/28/2014 02:01 PM, Wanda Truong wrote:
> Hi everyone,
>
> I get this error when running surface area analysis in QDEC:
>
> Vinas-iMac:~/Documents/Wanda/Wanda_SFS] vinagoghari% mri_glmfit --y
> /Users/vinagoghari/Documents/Wanda/Wanda_SFS/qdec/Untitled/y.mgh
> --fsgd
> /Users/vinagoghari/Documents/Wanda/Wanda_SFS/qdec/Untitled/qdec.fsgd
> dods --glmdir
> /Users/vinagoghari/Documents/Wanda/Wanda_SFS/qdec/Untitled --surf
> fsaverage lh --label
> /Users/vinagoghari/Documents/Wanda/Wanda_SFS/fsaverage/label/lh.aparc.label
> --C
> /Users/vinagoghari/Documents/Wanda/Wanda_SFS/qdec/Untitled/contrasts/lh-Avg-Intercept-area.mat
> --C
> /Users/vinagoghari/Documents/Wanda/Wanda_SFS/qdec/Untitled/contrasts/lh-Diff-Control-Relative-Intercept-area.mat
> gdfReadHeader: reading
> /Users/vinagoghari/Documents/Wanda/Wanda_SFS/qdec/Untitled/qdec.fsgd
> INFO: DeMeanFlag keyword not found, DeMeaning will NOT be done.
> Continuous Variable Means (all subjects)
> 0 Age 40.6327 13.0176
> 1 IntraCranialVol 1.50352e+06 187456
> Class Means of each Continuous Variable
> 1 GroupControl  38.8261 1480505.5707
> 2 GroupRelative  42.2308 1523881.3029
> INFO: gd2mtx_method is dods
> Reading source surface
> /Users/vinagoghari/Documents/Wanda/Wanda_SFS/fsaverage/surf/lh.white
> Number of vertices 163842
> Number of faces    327680
> Total area         65416.648438
> AvgVtxArea       0.399267
> AvgVtxDist       0.721953
> StdVtxDist       0.195470
>
> $Id: mri_glmfit.c,v 1.196.2.6 2011/05/05 20:54:25 greve Exp $
> cwd /Users/vinagoghari/Documents/Wanda/Wanda_SFS
> cmdline mri_glmfit --y
> /Users/vinagoghari/Documents/Wanda/Wanda_SFS/qdec/Untitled/y.mgh
> --fsgd
> /Users/vinagoghari/Documents/Wanda/Wanda_SFS/qdec/Untitled/qdec.fsgd
> dods --glmdir
> /Users/vinagoghari/Documents/Wanda/Wanda_SFS/qdec/Untitled --surf
> fsaverage lh --label
> /Users/vinagoghari/Documents/Wanda/Wanda_SFS/fsaverage/label/lh.aparc.label
> --C
> /Users/vinagoghari/Documents/Wanda/Wanda_SFS/qdec/Untitled/contrasts/lh-Avg-Intercept-area.mat
> --C
> /Users/vinagoghari/Documents/Wanda/Wanda_SFS/qdec/Untitled/contrasts/lh-Diff-Control-Relative-Intercept-area.mat
>
> sysname  Darwin
> hostname Vinas-iMac.local
> machine  x86_64
> user     vinagoghari
> FixVertexAreaFlag = 1
> UseMaskWithSmoothing     1
> OneSampleGroupMean 0
> y  /Users/vinagoghari/Documents/Wanda/Wanda_SFS/qdec/Untitled/y.mgh
> logyflag 0
> usedti  0
> FSGD /Users/vinagoghari/Documents/Wanda/Wanda_SFS/qdec/Untitled/qdec.fsgd
> labelmask
>  /Users/vinagoghari/Documents/Wanda/Wanda_SFS/fsaverage/label/lh.aparc.label
> maskinv 0
> glmdir /Users/vinagoghari/Documents/Wanda/Wanda_SFS/qdec/Untitled
> IllCondOK 0
> ReScaleX 1
> DoFFx 0
> Creating output directory
> /Users/vinagoghari/Documents/Wanda/Wanda_SFS/qdec/Untitled
> Loading y from
> /Users/vinagoghari/Documents/Wanda/Wanda_SFS/qdec/Untitled/y.mgh
> INFO: gd2mtx_method is dods
> Saving design matrix to
> /Users/vinagoghari/Documents/Wanda/Wanda_SFS/qdec/Untitled/Xg.dat
> Normalized matrix condition is 400.101
> Matrix condition is 1e+08
> Found 148151 points in label.
> Pruning voxels by thr: 0.000000
> Found 148025 voxels in mask
> Saving mask to
> /Users/vinagoghari/Documents/Wanda/Wanda_SFS/qdec/Untitled/mask.mgh
> Reshaping mriglm->mask...
> search space = 73649.347769
> ERROR: dimension mismatch between y and X.
>   y has 3528 inputs, X has 49 rows.
>
> My QDEC table has 49 subjects,2 groups, and 4 variables.
>
> Many thanks,
> Wanda
>
> --
> Wanda Truong, MSc
>
>

> _______________________________________________
> Freesurfer mailing list
> Freesurfer@nmr.mgh.harvard.edu
> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

--
Douglas N. Greve, Ph.D.
MGH-NMR Center
greve@nmr.mgh.harvard.edu
Phone Number: 617-724-2358
Fax: 617-726-7422

Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2
www.nmr.mgh.harvard.edu/facility/filedrop/index.html
Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/

_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer


The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.