Re: [Freesurfer] Hippocampal subfields error

2020-09-21 Thread Emily K Clarke
lesias Senior research fellow CMIC (UCL), MGH (HMS) and CSAIL (MIT) https://urldefense.com/v3/__http://www.jeiglesias.com__;!!OToaGQ!54kYqoLJMazG-e4wE3yKpehQ-BMMjAGSsGWeQv_zzG6tzdVr_8s9dgvsAg3rWMo$ From: on behalf of Emily K Clarke Reply-To: Freesurfer support list Da

Re: [Freesurfer] Freesurfer hippocampal error

2020-09-02 Thread Emily K Clarke
External Email - Use Caution Hi Douglas, Could you point me to the documentation about creating hippocampal files outside of recon-all? I’m not familiar with running this method outside of recon-all since I’ve typically followed the ENIGMA hippocampal pipeline. Best, Emily

[Freesurfer] amygdala segmentation atlas influence

2018-09-26 Thread Emily K Clarke
External Email - Use Caution Hello all, I have run the amygdala segmentation in my datasets to obtain volumes of nuclei. I am aware from the fswiki that the volumes should be interpreted with caution because of the reliance on the atlas. When running FS, is there a way to get

Re: [Freesurfer] Amygdala segmentation runtime error

2018-01-12 Thread Emily K Clarke
fer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>> on behalf of Emily K Clarke <ek...@duke.edu<mailto:ek...@duke.edu>> Reply-To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu<mailto:freesurfer@nmr.mgh.harvard.edu>

[Freesurfer] Amygdala segmentation runtime error

2018-01-11 Thread Emily K Clarke
object file: No such file or directory I checked with our cluster administrator, and we do have the Matlab R2012 runtime installed. Does anyone have any insight into what could be causing this error? I’ve attached my full output as well as my script in case that’s any help! Thanks, Emily K