External Email - Use Caution FS_HOME/python/packages/ERC_bayesian_segmentation/scripts/segment_fast.py isn’t in the 7.4.1 release from June of 2023 (now 2 years old). You would need to switch to an install of one of the more recent packages from one of the development builds which you can find under, https://secure-web.cisco.com/1C2Ar2D42F31zW_7LdVanyLS5o5uQzqY0lbs-9lUFxdV56r_FVo_3AyryCuUCJVUvi17vzPF9JjHzKVdgOXyNvOW9m88qoFUzaQYPBW7hAiKXAavEb1b3auiuVDrq36SsK5--q5H3ZAp4760dsB4votjkMT-2RFt6N9hVV3kepaqSSxRV3z3xwEW5B1lYoYBRqrGgGWNsA0U20T6kVOsJlRng0kmy-t2CiqD_Vu3PZ8dT8QAAz8QVQ62m-UHBOollVKL3nvVkv-Q21CybSSnUuJG4aPF_GjN--Hd0nmW00dqgQPTW4WNNJINm05_gpBOy0yRjiu3TxMWnD5Gu7DKd2A/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Fpub%2Fdist%2Ffreesurfer%2Fdev%2F There are some caveats that go along with switching to a different release, Important Note: When processing a group of subjects for your study, it is essential to process all your subjects with the same version of FreeSurfer, on the same OS platform and vendor, and for safety, even the same version of the OS. While we continue to work to ensure that results match across platforms, there are none-the-less system-level libraries that are OS dependent. An exception to this rule is that you may view and edit files across any platform or version, and run some post-processing tools (outside the recon-all stream) if you check with us first (for instance you may run the longitudinal processing with newer versions). - R.
On Jan 20, 2025, at 05:54, AmirHussein Abdolalizadeh <amirhussei...@gmail.com> wrote: External Email - Use Caution Hi Freesurfer users/experts, I was trying to run NextBrain (cloned from here: MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://secure-web.cisco.com/14eLrRV3Lqib6Tav7bYz9kPh7vG-KbczSql2CtTPnMCseVH4kASlRpk2rmmlCXTyF1Kj85kq7nolqz6WsVK9usVufOfC0WSNbn9LoGb-7JcH1pBNG8SRcirSSjEkIkAA_dfeG9PtGJqjOC1ttlILYYO7gcD6L5D-Evn7R2DknbUfR3xbGviMFduvrRGI0JoXkb8InUf6elHkwAUZhnkEijD2L99sy7_wS-kREusOwr3DQ9Najb6RmMKTvjLYUiydc5A6VMF-M9jmjzj9INe6tBk7fLu1dbMd8kS-ytQfnxBR4_34JHstSiidwsD2bZessQ-r0uDwQCu5zgJIat0GAJQ/https%3A%2F%2Fgithub.com%2Ffreesurfer%2Ffreesurfer%2Ftree%2Fdev%2Fmri_histo_util), and asked HPC admin to install atlas_full and atlas_simplified in the designated folders, but encountered this error that segment_fast.py is not available in FS_HOME/python/packages/ERC_bayesian_segmentation/scripts/segment_fast..py (or segment_fireants.py). The code I run (in the folder of the downloaded tool):./mri_histo_atlas_segment_fireants /path/to/input/T1.nii.gz /path/to/output/folder 0 dct I'm using FreeSurfer 7.4.1. Any help would be appreciated. Best,Amir _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://secure-web.cisco.com/1CDVwd9EaNYDWvqQc8hMimAN9CIoe95--mDhbMVqe2jhePSlQCAj3gxlHCzl89xjTj5U14VT77XId_MZb7vyXN3GOaBNp4VIi_opv38sh2m63QAS-VSwiiuSYY2fevFkOC2vf15NmIXM83yHLD9H9crGl2jZrYpJYj9grBs82ByXQjNfmTHexGrMw9BCPLV-gHqlcaT4G6mAEkQzeOxqE2CJC5vpC7A1L5jNfixdtkADiNOFvxP8vhJHmM3cFrKDGbsI2-Eh6i192SPyvwIA9SRjB31SI6O2c_Axu5fWkvgBVfUMa6Ov26OXWcUx-GlwV-w7YPQh2N3etl-8V5LoGIg/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer
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