External Email - Use Caution Hi Eugenio,
I tried running the tool on three subjects: - In one, it shows 0 in the right anterior-inferior and right anterior-superior - In another, it shows 0 in the left anterior-inferior and right anterior-inferior - In the third one, it didn't fail Best, Miguel El vie, 7 mar 2025 a las 6:49, Iglesias Gonzalez, Juan E. (< jiglesiasgonza...@mgh.harvard.edu>) escribió: > Dear Migueel Ángel, > > Which is the problematic subregion? > > Also: would you be able / willing to share a problematic case? > > Cheers, > > /Eugenio > > > > -- > > Juan Eugenio Iglesias > > http://secure-web.cisco.com/1TRGBg7QLsFVr-nt43t1mjVceuIHkl-NyZh6ssorGKcZPD5JUjlPEk96nmePnaAeoAQu7sVIppAzO4eEJuvxBKz_nUluPWXWLZdjZ1mtKsXEod82TL8ZVVSD0bbO6Rer8CgDQSouywgtG8_gEBfzV_F7vfbXeP9uaPy5tUIN1R8yNE0z6inFNO03qNg_rCEc4nZdI21ovpgphwZ_vGSDjElx46DXOl8-gN7QUoGJaNWa3gw2dNN6OFJf1PfG2BzwyfC1lpluweNf2UEC34tF23X4Cg_hk07mv_ah3X1EKDkAyhZPMGMr1Oqt09ot3g8Rv/http%3A%2F%2Fwww.jeiglesias.com > > > > *From: *freesurfer-boun...@nmr.mgh.harvard.edu < > freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Miguel Ángel Rivas > Fernández <miguelrivasf...@gmail.com> > *Date: *Thursday, March 6, 2025 at 11:52 PM > *To: *Freesurfer support list <freesurfer@nmr.mgh.harvard.edu> > *Subject: *[Freesurfer] Hypothalamic subunits segmentation: volumes = 0 > > * External Email - Use Caution * > > Dear FreeSurfer devs, > > I have tried to use the hypothalamic segmentation tool on my T1w data > (voxel size = 1mm), but in in some subjects, one of the volume measurements > of the structures is equal to 0. I have used the following command: > > mri_segment_hypothalamic_subunits --i /home/user1/data/scans/ --o > /home/user1/data/segmentations/ --vol > /home/user1/data/hypothalamic_volumes.csv > > I am using FreeSurfer version 8.0.0. Am I forgetting any important flag in > the command? Any help to solve this issue would be appreciated. > > Thank you very much for your time. > > Best, > > -- > > *Miguel Ángel Rivas Fernández* > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://secure-web.cisco.com/1hbBvRorke2nL-GVUqJ7gLRGEN6YKVM9izYJ-wHE9LQfWZ4YfJkge_zb7KzbwKzrINONXCwVrH0PGIG5N6uVd9KzAxbmE_fGW7tU6_JAFnD9S6VWNE4uJ7iWZmSFDD3h6xN7lGSEvn3GB2motXCyXti20H80wTsU5uXMkNcX3iMpLg3qzPxPWiktGZ-HmPhiilFperD-ypdSyLJV-nIyE_gevvuOfVL6lrHrcn0B4BsrcHECstgTS5yRzlmSbx6_ihETdiGqe871JTRxFdKMMtEPnz9odD9mfxXFnvN8TWRkMEpLCViSDcEi5NgJVaX2sBzKfkJWZ22ZSf7TyDTlnow/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer > 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 Mass General > Brigham Compliance HelpLine at > https://secure-web.cisco.com/1xD-TocDYjQtLZxkzfB9Jk7GBKcVqyEnw4E4H4p2W_a22W7wNFoDzUJxGjkhynmPr0GO_BjkNGpQ76njTqTLt7-XgBmAfXmubkp2ROGu3twSxMvbN7EzSwMDNokPiXHnJibXPB_cpEYWHlhznn1_hKjJMyovr0-yhzOhH7PEDRnn6wlkiZh-4mBw7ymFSkAbCuK-CmdRpcX83l7zVqG0GfBqnks_eYEKBZLPgALPSZJhLQP81KPOOoHGU47PwKoxUZKtsbafeeKixYcMmRL9cQeCkQNypgbfzubLX2jHoVVkOepMwaSYDi-IgVeit56nj4MhGn66MX8SB87cDJ9I9tw/https%3A%2F%2Fwww.massgeneralbrigham.org%2Fcomplianceline > < > https://secure-web.cisco.com/1xD-TocDYjQtLZxkzfB9Jk7GBKcVqyEnw4E4H4p2W_a22W7wNFoDzUJxGjkhynmPr0GO_BjkNGpQ76njTqTLt7-XgBmAfXmubkp2ROGu3twSxMvbN7EzSwMDNokPiXHnJibXPB_cpEYWHlhznn1_hKjJMyovr0-yhzOhH7PEDRnn6wlkiZh-4mBw7ymFSkAbCuK-CmdRpcX83l7zVqG0GfBqnks_eYEKBZLPgALPSZJhLQP81KPOOoHGU47PwKoxUZKtsbafeeKixYcMmRL9cQeCkQNypgbfzubLX2jHoVVkOepMwaSYDi-IgVeit56nj4MhGn66MX8SB87cDJ9I9tw/https%3A%2F%2Fwww.massgeneralbrigham.org%2Fcomplianceline> > . > -- *Miguel Ángel Rivas Fernández*
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