Just put the name of the seed file, not its full path, i,e

-taskreg connect_FEF2FEF.txt

same for -nuisreg

doug

On 11/08/2013 12:34 AM, Scott Cameron Kolbe wrote:

Hi there We are performing a connectivity analysis using a seed mask we have drawn from a label on the average surface in tksurfer. We put the label into subject surface space using mri_label2label then made the label into a volume using mri_label2vol. We then extracted the seed timecourse using fcseed-config and fcseed-sess. We then have a text file containing the seed region timeseries in the fMRI data folder. We then ran mkanalysis-sess with the -notask flag and after the -taskreg flag we input the seed region timeseries text file.

mkanalysis-sess -a connectivity -surface fsaverage lh -notask -taskreg Sess01/rest/001/connect_FEF2FEF.txt 1 -nuisreg Sess01/rest/001/ica_reg.txt -1 -fsd rest -TR 2.5

When we run selxavg3-sess after this we get an error after it starts matlab:

ERROR: cannot find volume matching /data/project2/pMelb0036/om_2013/freesurfer/project/Sess01/rest/001/Sess01/rest/001/connect_FEF2FEF.txt ERROR: loading nonpar reg /data/project2/pMelb0036/om_2013/freesurfer/project/Sess01/rest/001/Sess01/rest/001/connect_FEF2FEF.txt

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ERROR: fast_selxavg3() failed\n

I'm not sure why it can't find the file as it's definitely there in the directory containing fmcpr.nii

can anyone help?

many thanks Scott

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