does that file exist? Did you run recon-all -qcache ?

On 11/11/15 7:54 AM, Heidi Foo wrote:

Apologies, the error message should be /Error in analyze: couldn't open /Users/nnidementia/Documents/PDFS/FSVASE_002/surf/lh.thickness.fwhm10.fsaverage.mgz or .mgh file./

On Wed, Nov 11, 2015 at 8:48 PM, Heidi Foo <heidifoo92@gmail.com mailto:heidifoo92@gmail.com> wrote:

Hi Dr Greve,

Thank you for your advice, it is deeply appreciated. I removed the
blank lines of wmh.levels and included a carriage return at the
end of the long.qdec.table.txt.

However, there is still /error in analyze: Couldn't open
/Users/nnidementia/Documents/PDFS/FS_PD002_1.nii/surf/lh.thickness.fwhm10.fsaverage.mgz
or .mgh file./
/
/
I checked my qdec.table.txt (both cross and long) but I did not
see any fsaverage included in the list of subjects. Am I missing
something?

Thank you.

Regards,
Heidi Foo
/
/

On Wed, Nov 11, 2015 at 12:28 AM, Douglas N Greve
<greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>> wrote:

    Also, try removing the blank line at the end of wmh.levels,
    and make sure you have a carriage return at the end of
    long.qdec.table.txt. This may fix the 2nd error

    On 11/09/2015 10:38 PM, Heidi Foo wrote:

        Dear Dr Greve,

        Thanks for your reply. I have already linked fsaverage to
        my SUBJECTS_DIR but the error still persists.

        Attached is my qdec (long and cross) files.

        Thanks.

        Regards,
        Heidi Foo



        On Tue, Nov 10, 2015 at 6:36 AM, Douglas N Greve
        <greve@nmr.mgh.harvard.edu
        <mailto:greve@nmr.mgh.harvard.edu>
        <mailto:greve@nmr.mgh.harvard.edu
        <mailto:greve@nmr.mgh.harvard.edu>>> wrote:



            On 11/06/2015 09:35 PM, Heidi Foo wrote:

                Dear FreeSurfer experts,

                I am trying to compare between stable WMH group
        and rapid
                progressed WMH group in regards to the cortical
        thickness as
                well as volume changes in the gray matter. The
        nuisance
                variable in my case is age. I ran my analysis
        using QDEC but
                encountered a few problems:

                1. There is error in analyze: couldn't open file

            It looks like it cannot find fsaverage. Link it to your
            SUBJECTS_DIR if you have not already.

                2. If this error doesn't appear, another one does.
                QdecGlmDesign::Create: zero factors!
                (Attached the screenshot of the errors for your
        perusal)

            please send the qdec file


                I am hoping that you could give me a solution to
        my problems.

                Thank you so much.

                Regards,
                Heidi


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            MGH-NMR Center
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