I followed up with Ryan off the list one this one yesterday, i.e., he tried one of the later dev builds which fixes those lib issues. I think recon-all runs for him now w/o the lib errors, but he is getting a non-zero exit from something else.

- rob

On Jun 19, 2018, at 11:00 AM, Hoopes, Andrew <AHOOPES@mgh.harvard.edumailto:AHOOPES@mgh.harvard.edu> wrote:

Hi Ryan, this issue should be fixed in the freesurfer development version, but as a temporary fix to get things working in v6, I would suggest disabling SIP and rerunning: http://osxdaily.com/2015/10/05/disable-rootless-system-integrity-protection-... best Andrew

From: <freesurfer-bounces@nmr.mgh.harvard.edumailto:freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Ryan Flores <ryan10@stanford.edumailto:ryan10@stanford.edu> Reply-To: FS Help <freesurfer@nmr.mgh.harvard.edumailto:freesurfer@nmr.mgh.harvard.edu> Date: Monday, June 18, 2018 at 1:07 PM To: FS Help <freesurfer@nmr.mgh.harvard.edumailto:freesurfer@nmr.mgh.harvard.edu> Subject: [Freesurfer] Recon-all exited with errors

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Dear FS developers,

I tried running recon-all using the -parallel flag over the weekend, but to my surprise they all exited with errors. I’m hoping the problem is something subtle, but I’m having trouble understanding the error log (please see attached). Can someone point out the issue? Thank you for your help.

Best,

Ryan

-- Ryan Flores Clinical Research Coordinator _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edumailto:Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer