Hi Ursula,
I was just reminded that we purposely don’t include MCR in the container due to
redistribution-restrictions by the MCR license. So, it’s up to the user to
install or provide the MCR library if needed.
best
Andrew
From: freesurfer-boun...@nmr.mgh.harvard.edu
<freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Hoopes, Andrew
<ahoo...@mgh.harvard.edu>
Date: Friday, March 19, 2021 at 1:06 PM
To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] Freesurfer 6.0.0 Container & MCR
Hi Ursula,
Thanks for pointing this out. I think it’s just the case that MCR wasn’t
installed in that container. I’m surprised this hasn’t been brought up before.
We’ll update the container with it.
best
Andrew
From: freesurfer-boun...@nmr.mgh.harvard.edu
<freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Ursula Tooley
<utoo...@gmail.com>
Date: Friday, March 19, 2021 at 12:23 PM
To: freesurfer@nmr.mgh.harvard.edu <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] Freesurfer 6.0.0 Container & MCR
External Email - Use Caution
Hi Freesurfer experts,
I’m trying to use the official FS 6.0.0 container from Dockerhub on a new HPC
(for consistency with previous pipelines), and got the error below about not
finding the Matlab Compiler Runtime in the container. I have worked around it
by explicitly binding the mcr on the HPC to the container with “-B
/cbica/software/external/matlab/mcr/v711/:/opt/freesurfer/MCRv80”, but is this
the expected behavior? Or is there some issue? My understanding was that one of
the advantages of mcr was that you could include it in containers and
distribute compiled code, so was surprised to find this come up.
Thanks in advance,
Ursula
---
Ursula Tooley
Ph.D. Candidate
Neuroscience Graduate Group
University of Pennsylvania
she/her/hers
utoo...@gmail.com<mailto:utoo...@gmail.com>
202.413.5627
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