v5.0.0 is too old. I'd suggest grabbing the current 5.1.0 build and then just using the 'mri_annotation2label' from that.
On Thu Feb 28 12:17:02 2013, Sudhin A. Shah wrote: > freesurfer-Linux-centos4_x86_64-stable-pub-v5.0.0 > > > On Feb 28, 2013, at 12:12 PM, Rudolph Pienaar wrote: > >> It looks like you might be running a too-old version of >> mri_annotation2label. What FS build/version are you running? >> >> >> On Thu Feb 28 11:36:50 2013, Sudhin A. Shah wrote: >>> Hi I got an error -lobesStrict unknown. I am running mri_annotation2label >>> version stable5. >>> >>> Is there a workaround? >>> >>> On Feb 28, 2013, at 10:47 AM, Rudolph Pienaar wrote: >>> >>>> After a conventional FS run you can do the following: >>>> >>>> $>mri_annotation2label --subject <subj> --hemi <hemi> --lobesStrict >>>> <hemi>.lobesStrict.annot >>>> >>>> Which will create an annotation file <hemi>.lobesStrict.annot containing >>>> the lobar labels. To extract these into their own individual label files, >>>> do >>>> >>>> $>mri_annotation2label --subject <subj> --hemi <hemi> --annotation >>>> lobesStrict --outdir <subj>/label >>>> >>>> This will populate the <subj>/label directory with files: >>>> >>>> <hemi>.frontal.label >>>> <hemi>.parietal.label >>>> <hemi>.temporal.label >>>> <hemi>.occiptal.label >>>> <hemi>.cingulate.label >>>> >>>> So, to be pendantic, if you want the lobar labels for the left hemisphere >>>> of a subject called 'sub1', you would >>>> >>>> $>mri_annotation2label --subject sub1 --hemi lh --lobesStrict >>>> lh.lobesStrict.annot >>>> $>mri_annotation2label --subject sub1 --hemi lh --annotation lobesStrict >>>> --outdir sub1/label >>>> >>>> HTH >>>> -=R >>>> >>>> >>>> On Thu Feb 28 09:24:58 2013, Sudhin A. Shah wrote: >>>>> Hello, >>>>> >>>>> Is there a lookup table I can use to convert free surfer labels to lobes? >>>>> Either label nos (1006, 2006 etc) or label names >>>>> (ctx-rh-superiorfrontal)? I have 86 labels and want an easy way to >>>>> differentiate them into the corresponding lobes. >>>>> >>>>> Thanks, >>>>> S >>>>> _______________________________________________ >>>>> Freesurfer mailing list >>>>> Freesurfer@nmr.mgh.harvard.edu >>>>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>>>> >>>>> >>>> >>>> >>>> >>>> -- >>>> Rudolph Pienaar, M.Eng, D.Eng / email: rudo...@nmr.mgh.harvard.edu >>>> MGH/MIT/HMS Athinoula A. Martinos Center for Biomedical Imaging >>>> 149 (2301) 13th Street, Charlestown, MA 02129 USA >>>> >>>> >>>> >>>> The information in this e-mail is intended only for the person to whom it >>>> is >>>> addressed. If you believe this e-mail was sent to you in error and the >>>> e-mail >>>> contains patient information, please contact the Partners Compliance >>>> HelpLine at >>>> http://www.partners.org/complianceline . If the e-mail was sent to you in >>>> error >>>> but does not contain patient information, please contact the sender and >>>> properly >>>> dispose of the e-mail. >>> >>> >> >> >> >> -- >> Rudolph Pienaar, M.Eng, D.Eng / email: rudo...@nmr.mgh.harvard.edu >> MGH/MIT/HMS Athinoula A. Martinos Center for Biomedical Imaging >> 149 (2301) 13th Street, Charlestown, MA 02129 USA >> >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > -- Rudolph Pienaar, M.Eng, D.Eng / email: rudo...@nmr.mgh.harvard.edu MGH/MIT/HMS Athinoula A. Martinos Center for Biomedical Imaging 149 (2301) 13th Street, Charlestown, MA 02129 USA _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
