Re: [Freesurfer] issue with lesions

2019-09-24 Thread Sam W
External Email - Use Caution Hi Doug, anat is a T1w image and is well aligned with orig when I run the tkregisterfv command. But I suspect I know what the problem might be. When I run mri_vol2vol --mov /data/sub01/anat.nii --fstarg --reg /data/sub01/reg.lta --o anat-in-fs.mgz --s

Re: [Freesurfer] Command not found

2019-09-24 Thread fsbuild
External Email - Use Caution Hello Samer, The git bash shell on Windows will not be sufficient to run freesurfer programs on Windows.  Freesurfer is supported on CentOs Linux, Ubuntu Linux and MacOS.  However, some folks use the Ubuntu shell as supported on Windows 10.  This

[Freesurfer] Command not found

2019-09-24 Thread Samer Muhareb
External Email - Use Caution Hello, I am having trouble adding Freesurfer onto my PC. I have the program downloaded, but when I attempt to input a command from the Freesurfer program, it tells me that my command was not found. [image: image.png] This is my first time downloading

Re: [Freesurfer] Error during processing data. mris_make_surfaces malloc: *** error for object 0x2431900024317: pointer being freed was not allocated.

2019-09-24 Thread Bruce Fischl
Are you running out of memory on the machine? If not, and you upload the entire subject dir we will see if we can replicate and fix this problem. cheers Bruce On Tue, 24 Sep 2019, Троицкий Антон Александрович wrote: External Email - Use Caution Hello FreeSurfer Developers, during t

Re: [Freesurfer] help! Hippocampal subfield segmentation with FS development version

2019-09-24 Thread Liwen Zhang
External Email - Use Caution Dear Eugenio, Many thanks for your prompt reply and explanation. May I ask few follow-up questions, please? 1) You mentioned "we rebuilt the atlas ... change the code...", would you please explain a little bit more about what you mean with "rebuilt"?

[Freesurfer] Corpus Callosum area

2019-09-24 Thread Fernanda Hansen P. de Moraes
External Email - Use Caution Dear Freesurfer experts, how can I extract the corpus callosum cross sectional area for each hemisphere? Thank you very much in advance, Fernanda Hansen P. de Moraes fernandahmor...@gmail.com Física Médica | Rede D'Or São Luiz Doutoranda em Ciências