Hi Lauri,

This error is occurring because the libstdc++.so.6 library included with the linked matlab is older than the version shipped with centos7. While I think about the best way to resolve this, setting the following environment variable before running recon-all should clear everything up for now:

or

best

Andrew

On Jan 11, 2018, at 2:43 PM, Hoopes, Andrew <AHOOPES@mgh.harvard.edu> wrote:

I think this is related to a matlab incompatibility. Can I see a copy of the log?
Andrew

On Jan 11, 2018, at 12:09 PM, Iglesias Gonzalez, Eugenio <e.iglesias@ucl.ac.uk> wrote:

Dear Lauri,
Your problem is that GLIBCXX_3.4.15 was not found by kvlApplyTransform, so the left model was not successfully flipped to create the right model – which is why your right hippocampus appears flipped.
Andrew: any ideas on how to fix this?
Cheers,
/Eugenio
PS: the dev version does not depend on this executable anymore

--
Juan Eugenio Iglesias
ERC Senior Research Fellow
Translational Imaging Group
University College London
http://www.jeiglesias.com
http://cmictig.cs.ucl.ac.uk/


On 10/01/2018, 21:29, "freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Iglesias Gonzalez, Eugenio" <freesurfer-bounces@nmr.mgh.harvard.edu on behalf of e.iglesias@ucl.ac.uk> wrote:

  Dear Lauri,
  Would you mind sending me the log of the subfield segmentation?
  Cheers,
  /Eugenio

  --
  Juan Eugenio Iglesias
  ERC Senior Research Fellow
  Translational Imaging Group
  University College London
  http://www.jeiglesias.com
  http://cmictig.cs.ucl.ac.uk/


  On 08/01/2018, 22:04, "freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Tuominen, Lauri Johannes" <freesurfer-bounces@nmr.mgh.harvard.edu on behalf of LTUOMINEN@mgh.harvard.edu> wrote:

      Dear Freesurfers,
      When I run freesurfer 6.0 recon-all -hippocampal-subfields-T1 command to segment an MNI152 template, the resulting segmentation of left hippocampus got flipped in left-right dimension. Otherwise the right hippocampus and other subcortical segmentations in the aseg-file look fine. I encountered a similar problem when I tried to segment a T1 acquired at 7T. I run the command both locally and then on launchpad. Would you know how to fix this?

      Thanks so much for your advice!  
      Lauri Tuominen
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