Re: [Freesurfer] label2annot issue

Doug, did you receive my files? I received an email explaining that the mail is too big and I need to wait for an authorisation from the moderator. Thank you, Redwan On Aug 4, 2017 10:34 AM, "Redwan Maatoug" wrote: > Thank you very much Doug, I really appreciate your

Re: [Freesurfer] label2annot issue

Yes, send me two label files and the ctab again. On 8/4/17 12:49 PM, Redwan Maatoug wrote: Hi Douglas, I tried to rename the parcel files and in the ctab but it does not change anything. I have the feeling that sometime label2abnot can read the colors because as you can see in the

Re: [Freesurfer] label2annot issue

Hi Douglas, I tried to rename the parcel files and in the ctab but it does not change anything. I have the feeling that sometime label2abnot can read the colors because as you can see in the screenshots there is some colors on the brain. If I give you the files could you help me to follow the

Re: [Freesurfer] label2annot issue

that would mean that mris_label2annot is probably not reading any of your labels because it is expecting the label name to be, eg, lh.parcel_1.mgh-0001.label.label based on what you have told me. Try changing he label name in the folder to lh.parcel_1.mgh-001.label and change the ctab names to

Re: [Freesurfer] label2annot issue

In the Yeo_split_surf/ the label have exactly the same names as in the ctab. They are named like that : parcel_1.mgh-0001.label parcel_2.mgh-0001.label parcel_3.mgh-0001.label ... parcel_112.mgh-0001.label Yes we had to split the Yeo_split_surface because the goal was to do some analyzes in fMRI

Re: [Freesurfer] label2annot issue

It may have to do with the label names that get created from the ctab. What are the names of the labels in Yeo_split_surf/ ? I can't figure out what you are doing with that code. Looks like you have broken the yeo atlas into labels, then you're combining them together again? On 08/03/2017

Re: [Freesurfer] label2annot issue

Thank you ffor your quick answer, I have attached the --ctab Here is the link for the .mgh files. https://drive.google.com/open?id=0BxeTLKLWIP9OeFBaQm9iYVRfYVE So my command line to extract the coordinates from the .mgh files : *I)* for f in ${1}/*.mgh do mri_surfcluster --in ${f} --hemi

Re: [Freesurfer] label2annot issue

Please send your full command line, terminal output, and the ctabfile On 08/03/2017 04:30 PM, Redwan Maatoug wrote: > Hi all, > > So my issue is the following : > > I have 112 mgh files. (They come from the Yeo 17 Network atlas (we > split the atlas in smaller regions). I have extracted the