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 <gr...@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 <gr...@nmr.mgh.harvard.edu > > <mailto:gr...@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 > > gr...@nmr.mgh.harvard.edu <mailto:gr...@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 > gr...@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
_______________________________________________ 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.
