The command line for mapping the labels from fsaverage to the subject (april) was,
mri_label2label —srcsubject fsaverage —srclabel rh.aprilOne.label —trgsubject april —trglabel rh.aprilOne.label —hemi rh —regmethod surface this was repeated 5 more times for labels rh.aprilTwo.label to rh.aprilSix.label The command line for creating the annot file on the subject (april) was mris_label2annot —s april —h rh —ctab april.annot.ctab —a rh.april —l rh.aprilOne.label —l rh.aprilTwo.label —l rh.aprilThree.label —l rh.aprilFour.label —l rh.aprilFive.label —l rh.aprilSix.label We initially defined the label using tksurfer on the pial surface to utilize the fold lines to define the regions. We then ran through the above process and found that the regions were showing substantial holes. We then tried redefining the regions on the inflated surface of fsaverage using tksurfer (calling the labels back in on the inflated surface, tracing the outlines and re-saving). We repeated the mapping and annot file creation and this substantially reduced the number of holes in the regions mapped onto our subjects but holes were still present (as shown in previous images). April On Aug 1, 2014, at 4:12 PM, Douglas N Greve <gr...@nmr.mgh.harvard.edu> wrote: > what was your command line? > > On 07/21/2014 03:43 PM, April Clausen wrote: >> Hi Dr. Greve, I tried to upload the images with the Martinos Centre Dropbox >> but I could not activate the dropbox … so the images are attached. The 6 >> labels and annot file were created on fsaverage and the image shows no holes >> in the regions. The 6 labels were mapped to a subject and an annot file was >> created … the subject files shows holes in the regions. >> >> April Clausen >> > > -- > Douglas N. Greve, Ph.D. > MGH-NMR Center > gr...@nmr.mgh.harvard.edu > Phone Number: 617-724-2358 > Fax: 617-726-7422 > > Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting > FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 > www.nmr.mgh.harvard.edu/facility/filedrop/index.html > Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ > > > > 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. > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
