External Email - Use Caution

Hi Andrew,

Thank you for your reply, I really appreciate it. Sudo would not allow, so instead I downloaded MATLAB separately and attempted to follow that protocol. I managed to get quite far into the SegmentThalamicNuclei.sh process, but have reached the following error message;

Constructing image-to-world transform from header information (asmr1.mgz) Constructing image-to-world transform from header information (/Applications/freesurfer/7.1.1/subjects/subject01/tmp/THnuclei_v12_useTwoComponents_1_T1/imageDump.mgz) Wrote image to file asmr2.mgz This file does not contain MRI parameters Caught unexpected exception of unknown type.

------------------------------------------------------------------------ Segmentation violation detected at Tue Mar 23 09:06:57 2021 ------------------------------------------------------------------------

Configuration: Crash Decoding : Disabled Current Visual : Quartz Default Encoding : ISO-8859-1 MATLAB Architecture: maci64 MATLAB Root : /Applications/MATLAB_R2014b.app MATLAB Version : 8.4.0.150421 (R2014b) Operating System : Darwin 20.2.0 Darwin Kernel Version 20.2.0: Wed Dec 2 20:40:21 PST 2020; root:xnu-7195.60.75~1/RELEASE_ARM64_T8101 x86_64 Processor ID : x86 Family 6 Model 44 Stepping 0, GenuineIntel Software OpenGL : 0 Virtual Machine : Java 1.7.0_55-b13 with Oracle Corporation Java HotSpot(TM) 64-Bit Server VM mixed mode Window System : Quartz

Fault Count: 1

Abnormal termination: Segmentation violation

I’m wondering if I could please once again ask for your expertise - does this fault look familiar?

Kindest regards, Matt On 16 Mar 2021, at 19:59, Hoopes, Andrew <AHOOPES@MGH.HARVARD.EDUmailto:AHOOPES@MGH.HARVARD.EDU> wrote:

Hi Matt,

Hopefully this isn’t specific to M1, but I’m not sure it would be in this case. Maybe try running fs_install_mcr with sudo in front? Some users are suggesting it here: https://secure-web.cisco.com/1c9OKMsIwRhixctyQql_y3T12j0Bz-PrVsCBEIzI6-loqKZ...

best Andrew

From: freesurfer-bounces@nmr.mgh.harvard.edumailto:freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edumailto:freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Cleary, Matthew <M.Cleary2@liverpool.ac.ukmailto:M.Cleary2@liverpool.ac.uk> Date: Friday, March 12, 2021 at 10:08 AM To: freesurfer@nmr.mgh.harvard.edumailto:freesurfer@nmr.mgh.harvard.edu <freesurfer@nmr.mgh.harvard.edumailto:freesurfer@nmr.mgh.harvard.edu> Subject: [Freesurfer] Matlab Runtime error line 334 External Email - Use Caution

Hi team,

I’m wondering if I could please ask for help - I am trying to install fs_install_mcr R2014b on a 2020 M1 chip MacBook. I’m encountering an error at the end, that goes as follows;

inflating: sys/java/jre/maci64/jre/THIRDPARTYLICENSEREADME.txt inflating: sys/java/jre/maci64/jre/Welcome.html inflating: trademarks.txt ./install: line 334: /var/folders/2f/fyngt3b52mn39mcc6_419q8h0000gn/T/tmp.rt0pgVdq/bin/unknown/install_unix: No such file or directory ls: /var/folders/2f/fyngt3b52mn39mcc6_419q8h0000gn/T/tmp.rt0pgVdq/install-target/v*: No such file or directory

Do you have any idea how I can fix this? Any help would be massively appreciated.

Kindest regards, Matt

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