Thanks a lot, Pierre. I’ll get this sorted out as soon as possible. I’m in the process of modifying the module so it supports data with resolution >1mm, and also incorporating the longitudinal segmentation method described in https://doi.org/10.1016/j.neuroimage.2016.07.020 Cheers, Eugenio
Juan Eugenio Iglesias Translational Imaging Group University College London http://www.jeiglesias.com http://cmictig.cs.ucl.ac.uk/
On 20 Jul 2016, at 09:57, pierre deman <deman.pierre@gmail.commailto:deman.pierre@gmail.com> wrote:
Hi,
I downloaded the new freesurfer development version and I still have the same problem when running the hippocampal-subfields
"Invalid MEX-file '/tmp/MCR_4195017647/.mcrCache8.0/segmen0/autofs/cluster/koen/koen/GEMS-Release/bin/kvlGEMSMatlab.mexa64': libkvlGEMSCommon.so: cannot open shared object file: No such file or directory Error in kvlClear (line 11)
Error in segmentSubjectT1_autoEstimateAlveusML (line 133)
MATLAB:invalidMEXFile".
Does anyone have any idea about a solution ?
Cheers, Pierre
On Wed, Jul 13, 2016 at 12:22 PM, Iglesias, Eugenio <e.iglesias@ucl.ac.ukmailto:e.iglesias@ucl.ac.uk> wrote: And thanks to Zeke, of course ;-)
Juan Eugenio Iglesias Translational Imaging Group University College London http://www.jeiglesias.comhttp://www.jeiglesias.com/ http://cmictig.cs.ucl.ac.uk/
On 13 Jul 2016, at 11:19, Iglesias, Eugenio <e.iglesias@ucl.ac.ukmailto:e.iglesias@ucl.ac.uk> wrote:
Dear all, our expert developer Zeke Kaufman figured out what the problem was. We have now fixed the Linux version; the MAC version will hopefully be ready as well in a couple of days. I have also fixed other bugs (including the problem that caused the code to get stuck every once in a while). You can downloaded the latest development version from our website. Thanks everyone for your feedback. Cheers, Eugenio
Juan Eugenio Iglesias Translational Imaging Group University College London http://www.jeiglesias.comhttp://www.jeiglesias.com/ http://cmictig.cs.ucl.ac.uk/
On 8 Jul 2016, at 12:14, Iglesias, Eugenio <e.iglesias@ucl.ac.ukmailto:e.iglesias@ucl.ac.uk> wrote:
I think I identified the problem; hopefully this will be sorted out very soon. Cheers, Eugenio
Juan Eugenio Iglesias Translational Imaging Group University College London http://www.jeiglesias.comhttp://www.jeiglesias.com/ http://cmictig.cs.ucl.ac.uk/
On 7 Jul 2016, at 19:23, Perea Camargo, Rodrigo Dennis <RPEREACAMARGO@mgh.harvard.edumailto:RPEREACAMARGO@mgh.harvard.edu> wrote:
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Hi all, I am currently trying to run hippocampal subfields in a couple of my participants using FreeSurfer6.0 (located at *nmr*:/usr/local/freesurfer/stable6).
It did run successfully for many of my subjects earlier in the year but some of them only had a let hemisphere segmentation. So I decided to re-run them using launchpad and also my local nmr computer.
Now, none of the hippocampal sufields segmentations appear (no rh/lh.hippoSfLabels-T1-T2.*.mgz appears). I looked at <FSSUBJECT>/scripts/scripts/hippocampal-subfields-T1T2.log and the error I get is:
Error:Cannot find CTF archive /autofs/cluster/freesurfer/centos6_x86_64/stable6/bin/segmentSubjectT1T2_autoEstimateAlveusML.ctf
Could a missing *.ctf cause the error? (btw, the re-run happened after the major hardware crash).
Thanks in advance for your help, Rodrigo
PS: I am attaching the *log files as suggested in the bug reporting page.
--- Rodrigo Dennis Perea Research Fellow Department of Radiology Athinoula A. Martinos Center Massachusetts General Hospital rpereacamargo@mgh.harvard.edumailto:rpereacamargo@mgh.harvard.edu
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-- DEMAN Pierre Mobile : +33 7 82 57 80 94 _______________________________________________ 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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