did you run recon-all -qcache ... on all your subjects?

On 7/25/19 3:35 PM, Renew Andrade wrote:

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Dear FreeSurfer experts: I am processing in qdec 3 subjects with the GUI and I have this terminal output.

Error in Analyze: Couldn't open /Applications/freesurfer/subjects/IXI_22_Guys_T1/surf/lh.thickness.fwhm10.fsaverage.mgz or .mgh file. lh-Avg-Intercept-thickness ----------------------- Does the average thickness differ from zero? Nuisance factors: Right-Hippocampus  1.000   0.000   0.000;

I have executed recon-all -s IXI_20_Guys_T1 -s IXI_22_Guys_T1 -s IXI_25_Guys_T1 -qcache -target avgsubj20_22_25 -no-isrunning without any errors. Also make_average_subject make_average_subject --out avgsubj20_22_25 --subjects IXI_20_Guys_T1 IXI_22_Guys_T1 IXI_25_Guys_T1 without any errors.

The problem is that I only have files like “...fwhm10.fsaverage.mgz" in one subject in this case IXI_25_Guys_T1 not in IXI_22_Guys_T1 or IXI_20_Guys_T1. I do not know if that is a mistake of processing or myself it seems by the output in qdec that I need files like “...fwhm10.fsaverage.mgz” in every subject subdirectory “surf”.

Thanks for your help in advance!

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