That should be enough space. Can you try it with the other half? I'm
thinking it might be one subject who is messing things up.
On 01/30/2014 04:04 PM, Wanda Truong wrote:
> 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
> <mailto:greve@nmr.mgh.harvard.edu>> wrote:> > <mailto:greve@nmr.mgh.harvard.edu
>
> 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>
> <tel:1480505.5707 <tel:1480505.5707>>> <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>
> > <mailto:Freesurfer@nmr.mgh.harvard.edu> > > 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>
> <mailto:Freesurfer@nmr.mgh.harvard.edu>>> <mailto:greve@nmr.mgh.harvard.edu <mailto:greve@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>
> <tel:617-724-2358 <tel:617-724-2358>>
> > Fax: 617-726-7422 <tel:617-726-7422> <tel:617-726-7422
> <tel:617-726-7422>>> <mailto:Freesurfer@nmr.mgh.harvard.edu
> >
> > Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
> <http://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>
> > <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>
> <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
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> > the e-mail
> > contains patient information, please contact the Partners
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> >
> >
> >
> > --
> > 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
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> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
>
>
>
>
> --
> 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/
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