Hi Doug,

I currently have 40.64 GB of disk space (is this enough)? 

I tried just now with half the subjects and it gave me the same error. I was successful in completing a thickness analysis using this same method, the only thing difference this time is that I am trying to do a surface area analysis. 

Wanda


On 30 January 2014 13:12, Douglas N Greve <greve@nmr.mgh.harvard.edu> wrote:
Hi Wanda, I can see that it is failing, I just can't see why it is
failing (and cannot replicate it here). Can you try a couple of things.
First, make sure that the disk is not filling up. Next, can you try it
with, say, half the subjects? Does this always occur or is it just recently?

doug


On 01/28/2014 04:36 PM, Wanda Truong wrote:
> Hi Doug,
>
> Attached is the full error message I get, starting from mris_preproc.
>
> Thanks!!
> Wanda
>
>
>
> On 28 January 2014 12:34, Douglas N Greve <greve@nmr.mgh.harvard.edu
> <mailto:greve@nmr.mgh.harvard.edu>> wrote:
>
>
>     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 <tel: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
>     <mailto: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 <mailto:greve@nmr.mgh.harvard.edu>
>     Phone Number: 617-724-2358 <tel:617-724-2358>
>     Fax: 617-726-7422 <tel:617-726-7422>
>
>     Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
>     <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting>
>     FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2
>     www.nmr.mgh.harvard.edu/facility/filedrop/index.html
>     <http://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 <mailto: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.
>
>
>
>
> --
> 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



--
Wanda Truong, MSc