Hi Steven, PNM is an FSL tool, not freesurfer, but if you’re having remote-access permissions issues it might be best to contact the martinos help desk.

Are you setting “output basename” to a writable directory?

best

Andrew

From: <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of "Meisler, Steven Lee" <SMEISLER@mgh.harvard.edu>
Reply-To: FS Help <freesurfer@nmr.mgh.harvard.edu>
Date: Wednesday, December 19, 2018 at 4:35 PM
To: FS Help <freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] PNM Gui

Hello Freesurfer developers,

I just wanted to kindly follow up to my previous message. I'm working from a remote Martinos linux server, so I've found that sometimes I don't have proper permissions to run important scripts, such as the physiological noise modeling processing pipeline that I referenced in my first message. Thank you in advance for your assistance.

Best,

Steven

---

From: Meisler, Steven Lee
Sent: Tuesday, December 4, 2018 9:38:12 AM
To: freesurfer@nmr.mgh.harvard.edu
Subject: PNM Gui

Hello FS team,

When I try to run Physiological Noise Modeling through the PNM GUI, I get an error message saying that I don't have permission to run the script "_pnm_stage3." Do you know how I may remedy this?

Thanks,

Steven

--------------

Steven L. Meisler, M.S.E.

Clinical Research Coordinator II

Laboratory for NeuroImaging of Coma and Consciousness

175 Cambridge Street, Suite 300

Boston, MA 02114

smeisler@mgh.harvard.edu | (617)-726-1884

https://www.linkedin.com/in/steven-meisler