Re: [Freesurfer] Longitudinal samseg not working - TypeError: transform() got an unexpected keyword argument 'affine'

2025-03-11 Thread Paola Di Filippo
External Email - Use Caution Thank you so much yujing, it worked. Il giorno lun 10 mar 2025 alle 14:24 Huang, Yujing ha scritto: > I have attached SamsegLongitudinal.py to fix the python error. Copy it to > /Applications/freesurfer/8.0.0/python/packages/gems/SamsegLongitudinal.

Re: [Freesurfer] Some library issues with segmentAAN

2025-03-11 Thread Payam Sadeghi Shabestari
External Email - Use Caution Thank you so much Yujing, It worked! From: freesurfer-boun...@nmr.mgh.harvard.edu on behalf of Huang, Yujing Date: Monday, 10 March 2025 at 13:24 To: Freesurfer support list Subject: Re: [Freesurfer] Some library issues with segmentAAN You need th

Re: [Freesurfer] Freesurfer 8.0.0 version: gtmseg

2025-03-11 Thread Douglas N. Greve
Try adding --samseg to the command line On 3/8/2025 7:06 PM, Miguel Ángel Rivas Fernández wrote: External Email - Use Caution Dear Freesurfer developers, I have run the recon-all command with version 8.0.0 and now I would like to run the gtmseg command. However, I received the messa

[Freesurfer] "mri_segment_hypothalamic_subunits" killed error

2025-03-11 Thread Payam Sadeghi Shabestari
External Email - Use Caution Hi FS dev team, I tried to run mri_segment_hypothalamic_subunits with my ubuntu 20.04.6 and FS 8.0.0, and MCRv97. I tried both using cpu and gpu, but it returns me the “killed” message when I use 1 thread and another error when I use multiple thread

Re: [Freesurfer] "mri_segment_hypothalamic_subunits" killed error

2025-03-11 Thread fsbuild
External Email - Use Caution   An applications process(es) can be killed by the OS when the application requests more resources then the machine has to allocate, e.g., it requests too much memory, CPU resources, etc.   So it could be your Linux machine does not meet the system