Thanks Doug, I was just a bit confused because I thought the help for mri_glmfit mentioned an osgm directory that wasn't there. I was given a matlab script that does that now. I'm using a command like this: mri_glmfit --y tal.ces.000.nii --osgm --glmdir tal.rfx.osgm --nii --mask ../tal.mask.nii
Thanks Mx 2009/10/15 Doug Greve <gr...@nmr.mgh.harvard.edu> > > isxconcat-sess creates the files that you pass to mri_glmfit (ie, > multi-frame volumes and/or surfaces where each frame is a > subject). Something like: > > > AVG08/Analyse_Simple_Confidence/High_confidence__Low_confidence_vs_HSF_gabor__LSF_gabor/tal.ces.nii > > You can then use this as input to mri_glmfit passing it with > the --y option. You can get more help from the FS FAST tutorial. Go to > the wiki, type "isxconcat-sess" in the Search field, then hit the > "Text" button. > > doug > > > > On Wed, 14 Oct 2009, Maximilien Chaumon wrote: > > Hi freesurfers, >> >> I've been running isxconcat-sess with this line >> >> chaumon[/homes/11/chaumon/data] (nmr-std-env) isxconcat-sess -sf >> subjlist.txt -analysis Analyse_Simple_Confidence -c >> High_confidence__Low_confidence_vs_HSF_gabor__LSF_gabor -o AVG08 >> >> I was expecting to find a directory called osgm in the specified analysis >> directory with which I could feed data to mri_glmfit, but I can't find it. >> >> /homes/11/chaumon/bomba/AVG08/Analyse_Simple_Confidence/High_confidence__Low_confidence_vs_HSF_gabor__LSF_gabor >> >> The log file is attached. I don't find "error" in the text. >> >> Where am I wrong? >> Is there any mri_glmfit-sess like script somewhere? It's going to be >> pretty >> tough to find each parameter to feed to mri_glmfit... >> >> Thanks, >> Max >> >> > -- > Douglas N. Greve, Ph.D. > MGH-NMR Center > gr...@nmr.mgh.harvard.edu > Phone Number: 617-724-2358 > Fax: 617-726-7422 > > In order to help us help you, please follow the steps in: > surfer.nmr.mgh.harvard.edu/fswiki/BugReporting > >
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