[Freesurfer] Password request for Ubuntu 18.04.06 compressed image with the FreeSurfer 7.2.0 release installed

2023-03-24 Thread Rato Mendes, Pedro Fernando
External Email - Use Caution Dear Sirs, Following the instructions on VM_67 FreeSurferWiki page, I kindly ask you to please send me a valid pass code for the FS_7_2_0_Ubuntu_18_04_06.ova.7z archive. Thank you for your attention, best regards Pedro Rato-Mendes --*

Re: [Freesurfer] the virtual machine developer password RE: Password ubuntu password

2023-03-24 Thread FS build
External Email - Use Caution Sent this again directly to your email. Please also check your spam/junk mail filters. - R. > On Mar 23, 2023, at 14:04, Zhao, Don wrote: > > External Email - Use Caution > > The Freesurfer VirtualBox instructions state:“login as the user “developer

[Freesurfer] mri_cvs_register cost function

2023-03-24 Thread Federica Di Antonio
External Email - Use Caution Dear experts, May I ask you which cost function is used by mri_cvs_register? Thank you so much for your support! Federica Di Antonio ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nm

[Freesurfer] negative uptakes after GTM pvc correction

2023-03-24 Thread Federica Di Antonio
External Email - Use Caution Dear experts, I report an answer you gave about some negative values avatar partial volume correction: "[...] Usually this only happens in small ROIs and/or low uptake regions. Why might the model not be perfect? It could be a number of things: 1. th

[Freesurfer] -gcareg dropped from -autorecon2-volonly

2023-03-24 Thread Christopher Markiewicz
External Email - Use Caution Hi all, This is a duplicate of a bug report on GitHub (https://secure-web.cisco.com/1C5EnDIMtZh6wk0SJMqe8l166ycKmSdnL5atT3CIHDPAY15Ixtf93Rif0FmPFCZaftXbqlhK5AbXT22OXXCJq9JgIiSOyglr8IF1n3lOAzrtCIHcr8C2aLwqsXcMciJwp9Mz2DV4vmcWjm2v_xTUmw6hoea4u37a4hkUyIk

[Freesurfer] SAMSEG in MS terminal error

2023-03-24 Thread Gabriel Vieira
External Email - Use Caution Hi, I'm having difficulty with the command to assess WM lesion in MS, using the SAMSEG. I have already installed tensorflow and python3.9, however when typing in the terminal the command "run_samseg --input /home/username/data/t1.nii /home/username/dat

[Freesurfer] Postdoctoral Position in Cognitive and Translational Neuroscience at Brown University

2023-03-24 Thread Elizabeth Sharp
External Email - Use Caution Postdoctoral Position in Cognitive and Translational Neuroscience at Brown University Area: Cognitive Neuroscience of Visual Memory, Aging, and Alzheimer’s disease Depts. of Cognitive, Linguistic, and Psychological Sciences (CLPS) and Psychiatry and

Re: [Freesurfer] SAMSEG in MS terminal error

2023-03-24 Thread Cerri, Stefano,PHD
Hi Gabriel, These messages look like TensorFlow warnings. They just mean that you're running it on a system without GPUs. They should not stop the run. Is this the last message printed by run_samseg, or does the algorithm continues? Can you provide more details on when the run terminates? Stef

[Freesurfer] PETsurfer registration

2023-03-24 Thread Douglas N. Greve
On the PETsurfer wiki, https://surfer.nmr.mgh.harvard.edu/fswiki/PetSurfer, I had recommended using mri_coreg to register your PET to the FS anatomical using the following command line: mri_coreg --s subject --mov template.nii.gz --reg template.reg.lta This works well for PET scans that do not