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Dear Freesurfer Expert,

I have figured out the problem is that I didn’t specify lh before the annot file. However, in this method, I didn’t get the right label for I have loaded the label into the subject file. It is the scatter points. 

I want to create label through mri_glm-fit-sim clusters. What command I should use? Please specify it for me. Thanks a lot! 

Your help means a lot.

Regards,
Ting 
On Oct 3, 2018, at 9:38 PM, Ting Li <txli1@ualr.edu> wrote:

I have also tried the command without annot in specifying the annotation file. Thanks a lot.

Regards,

Ting
On Oct 3, 2018, at 9:36 PM, Ting Li <txli1@ualr.edu> wrote:

Dear Freesurfer Experts,

I really need your attention and help. Thanks a lot.

We want to create label through the mri_glm-fit-sim cluster results. 

We have found the same topic in 2013 and tried the method you have provided. However, it doesn’t work. If you think it is not the right way, could you give me an example to do it right. I really appreciate your great help. Thanks a lot.

Here is my code:

mri_annotation2label --subject F999  --hemi lh --annotation cache.th20.neg.sig.ocn.annot --labelbase lh.test_label

Here is my error information:
subject = F999
annotation = cache.th20.neg.sig.ocn.annot
hemi = lh
labelbase = lh.test_label
surface   = white

Reading surface 
 /media/set2iscsi/ting/origin_gz_data/F999/surf/lh.white
Loading annotations from /media/set2iscsi/ting/origin_gz_data/F999/label/lh.cache.th20.neg.sig.ocn.annot.annot
could not read annot file /media/set2iscsi/ting/origin_gz_data/F999/label/lh.cache.th20.neg.sig.ocn.annot.annot
No such file or directory
INFO: could not load from /media/set2iscsi/ting/origin_gz_data/F999/label/lh.cache.th20.neg.sig.ocn.annot.annot, trying /media/set2iscsi/ting/origin_gz_data/F999/label/lh_cache.th20.neg.sig.ocn.annot.annot
could not read annot file /media/set2iscsi/ting/origin_gz_data/F999/label/lh_cache.th20.neg.sig.ocn.annot.annot
No such file or directory
ERROR: MRISreadAnnotation() failed

This is the annot files in my directory F999:
ls F999/label/*.annot
F999/label/cache.th20.neg.sig.ocn.annot  F999/label/lh.BA_exvivo.annot         F999/label/rh.aparc.DKTatlas.annot
F999/label/lh.aparc.a2009s.annot         F999/label/lh.BA_exvivo.thresh.annot  F999/label/rh.BA_exvivo.annot
F999/label/lh.aparc.annot                F999/label/rh.aparc.a2009s.annot      F999/label/rh.BA_exvivo.thresh.annot
F999/label/lh.aparc.DKTatlas.annot       F999/label/rh.aparc.annot