Can you tar or compress /home/abby/Desktop/qdecyoung/qdec/Untitled/ and
upload it here
ftp://surfer.nmr.mgh.harvard.edu/transfer/incoming
Let me know when it is there and what the file name is

On 7/9/19 6:35 AM, Abby tang wrote:
>
>         External Email - Use Caution
>
> Hello FreeSurfer Developers,
> I want to compare the relationship between age and thickness, which is
> controlled the effect about sex,education and eTIV, so QDEC was used.
> However I met a problem when I use it, such as picture1.
> I get the wrong message, Error in Analyze: command failed: mri_glmfit
> --y /home/abby/Desktop/qdecyoung/qdec/Untitled/y.mgh --fsgd
> /home/abby/Desktop/qdecyoung/qdec/Untitled/qdec.fsgd dods --glmdir
> /home/abby/Desktop/qdecyoung/qdec/Untitled --surf fsaverage lh --label
> /home/abby/Desktop/qdecyoung/fsaverage/label/lh.aparc.label --C
> /home/abby/Desktop/qdecyoung/qdec/Untitled/contrasts/lh-Avg-Intercept-thickness.mat
> --C
> /home/abby/Desktop/qdecyoung/qdec/Untitled/contrasts/lh-Avg-thickness-age-Cor.mat
> --C
> /home/abby/Desktop/qdecyoung/qdec/Untitled/contrasts/lh-Diff-Female-Male-Intercept-thickness.mat
> --C
> /home/abby/Desktop/qdecyoung/qdec/Untitled/contrasts/lh-Diff-Female-Male-Cor-thickness-age.mat.
> So I tried to put those to terminal, the feedback is:
> gdfRead(): reading /home/abby/Desktop/qdecyoung/qdec/Untitled/qdec.fsgd
> INFO: DeMeanFlag keyword not found, DeMeaning will NOT be done.
> Continuous Variable Means (all subjects)
> 0 age 80.3537 2.43637
> 1 education 12.189 3.6099
> 2 eTIV 1.33934e+06 242446
> Class Means of each Continuous Variable
> 1 sexFemale  80.0568  11.4773 1265564.4638
> 2 sexMale  80.6974  13.0132 1424768.7681
> INFO: gd2mtx_method is dods
> Reading source surface
> /usr/local/freesurfer/subjects/fsaverage/surf/lh.white
> Number of vertices 163842
> Number of faces    327680
> Total area         65416.984375
> AvgVtxArea       0.399269
> AvgVtxDist       0.721953
> StdVtxDist       0.195470
>
> $Id: mri_glmfit.c,v 1.241.2.4 2016/12/08 22:02:40 zkaufman Exp $
> cwd /home/abby/Desktop/qdecyoung/qdec
> cmdline mri_glmfit.bin --y
> /home/abby/Desktop/qdecyoung/qdec/Untitled/y.mgh --fsgd
> /home/abby/Desktop/qdecyoung/qdec/Untitled/qdec.fsgd dods --glmdir
> /home/abby/Desktop/qdecyoung/qdec/Untitled --surf fsaverage lh --label
> /home/abby/Desktop/qdecyoung/fsaverage/label/lh.aparc.label --C
> /home/abby/Desktop/qdecyoung/qdec/Untitled/contrasts/lh-Avg-Intercept-thickness.mat
> --C
> /home/abby/Desktop/qdecyoung/qdec/Untitled/contrasts/lh-Avg-thickness-age-Cor.mat
> --C
> /home/abby/Desktop/qdecyoung/qdec/Untitled/contrasts/lh-Diff-Female-Male-Intercept-thickness.mat
> --C
> /home/abby/Desktop/qdecyoung/qdec/Untitled/contrasts/lh-Diff-Female-Male-Cor-thickness-age.mat
>
> sysname  Linux
> hostname abby-virtual-machine
> machine  x86_64
> user     abby
> FixVertexAreaFlag = 1
> UseMaskWithSmoothing     1
> OneSampleGroupMean 0
> y    /home/abby/Desktop/qdecyoung/qdec/Untitled/y.mgh
> logyflag 0
> usedti  0
> FSGD /home/abby/Desktop/qdecyoung/qdec/Untitled/qdec.fsgd
> labelmask  /home/abby/Desktop/qdecyoung/fsaverage/label/lh.aparc.label
> maskinv 0
> glmdir /home/abby/Desktop/qdecyoung/qdec/Untitled
> IllCondOK 0
> ReScaleX 1
> DoFFx 0
> Creating output directory /home/abby/Desktop/qdecyoung/qdec/Untitled
> Loading y from /home/abby/Desktop/qdecyoung/qdec/Untitled/y.mgh
>    ... done reading.
> INFO: gd2mtx_method is dods
> Saving design matrix to /home/abby/Desktop/qdecyoung/qdec/Untitled/Xg.dat
> Computing normalized matrix
> Normalized matrix condition is 9294.65
> Matrix condition is 1e+08
> Found 148151 points in label.
> Pruning voxels by thr: 1.175494e-38
> Found 139197 voxels in mask
> Saving mask to /home/abby/Desktop/qdecyoung/qdec/Untitled/mask.mgh
> Reshaping mriglm->mask...
> search space = 69257.619818
> DOF = 156
> Starting fit and test
> Fit completed in 0.338183 minutes
> Computing spatial AR1 on surface
> Residual: ar1mn=0.995542, ar1std=0.000996, gstd=6.054132, fwhm=14.256391
> Writing results
>   lh-Avg-Intercept-thickness
>     maxvox sig=10.0394  F=48.3686  at  index 13210 0 0  seed=1563457975
> MatrixMultiplyD(): m2 is null
>  break matrix.c:415
>
> No such file or directory
>
> When same operations were did with other files, Qdec running normally.
> I don't know why. Please help me. Thank you
> Best regards
>
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> Freesurfer@nmr.mgh.harvard.edu
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