Dear Annchen,

Do you get this error with a more recent stable version, e.g., 7.4.1?

Cheers,

/Eugenio

--

Juan Eugenio Iglesias

http://www.jeiglesias.com

From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Annchen Knodt <annchen.knodt@duke.edu>
Date: Tuesday, September 3, 2024 at 1:57 PM
To: freesurfer@nmr.mgh.harvard.edu <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] Error in SegmentSubfieldsT1Longitudinal (line 2148)

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Hello,

I'm running the longitudinal hippocampal subfields module in ~300 individuals - it ran fine in most but with 8 i'm running into an error with the right hemisphere, which seems to be similar to the one posted in this unresolved thread, though my exact error is:

In an assignment  A(:) = B, the number of elements in A and B must be the same.

Error in SegmentSubfieldsT1Longitudinal (line 2148)

My environment:

$ cat $FREESURFER_HOME/build-stamp.txt
freesurfer-Linux-centos7_x86_64-dev-20171219-d5d1e74

$ cat /etc/os-release

NAME="AlmaLinux"

VERSION="9.4 (Seafoam Ocelot)"

ID="almalinux"

ID_LIKE="rhel centos fedora"

VERSION_ID="9.4"

PLATFORM_ID="platform:el9"

...

I can tell which of the 6 timepoints each of the 8 subjects are failing on, and i don't see anything particularly different about the input images from the failing tp, so i'm not sure what's going on or where to begin troubleshooting.  I have tried simply re-running and gotten the same result.  Attaching an example log file.

Any help is appreciated - thanks!!

Annchen