I see the file there, but it has zero length. Check whether your source file actually has something in it. If it does, try uploading it again (you may have to use a different file name)

On 7/10/2019 9:17 PM, Abby tang wrote:

        External Email - Use Caution        

Hi Greve

Can you download those files? I have uploaded it in ftp, the file name is QDEC.tar.gz.

Hope you can help me. Thank you very much.

Abby

Abby tang <abbytang0925@gmail.com> 于2019年7月10日周三 上午9:46写道：

Hi

I have uploaded it in ftp, the file name is /home/abby/QDEC.tar.gz or QDEC.tar.gz.

Thank you.

Greve, Douglas N.,Ph.D. <DGREVE@mgh.harvard.edu> 于2019年7月9日周二 下午10:42写道：

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
>
> _______________________________________________
> Freesurfer mailing list
> Freesurfer@nmr.mgh.harvard.edu
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