Ciao Daniele, This is weird. Would you mind verifying that file T1resampled.mgz actually exists in the temporary directory of the subject? You can do that by CDing to $SUBJECT_DIR/[SUBJECT_NAME]/tmp and running the command: find . -name “T1resampled.mgz” 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 7 Nov 2016, at 16:39, Daniele Orlandi <dorlandi@fatebenefratelli.eumailto:dorlandi@fatebenefratelli.eu> wrote:

Dear experts, I've finished FSv5.3 longitudinal analysis and I'm now running FSv6.0(beta) for hippocampal subfield features extraction (always on Ubuntu 14.01 environment).

After several trial I realized that before pipeline ends I've got the following error:

/opt/FreeSurfer-6-Beta/bin//mri_mask -T 0.5 T1resampled.mgz hippoMaskResampledDilated.mgz T1resampled.mgz >/dev/null: Signal 127 Error using kvlGEMSMatlab /cluster/koen/eugenio/GEMS/itkMGHImageIO.cxx:216: itk::ERROR: MGHImageIO(0x7fe88bcda050): Can't find/open file: T1resampled.mgz

Error in kvlReadCroppedImage (line 11)

Error in segmentSubjectT1_autoEstimateAlveusML (line 588)

Could you help me? Best Daniele

PS: Even though one of the last row display " finished without error", no output is generated in the /mri/ folder.

-- -- Daniele Orlandi, PsyD IRCCS Fatebenefratelli Via Pilastroni 4 25125 Brescia - Italy tel: +39 030 35 01 563 e-mail: dorlandi@fatebenefratelli.eumailto:dorlandi@fatebenefratelli.eu _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edumailto:Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

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