On Dec 24, 2015 8:30 PM, <freesurfer-request@nmr.mgh.harvard.edu> wrote:

Send Freesurfer mailing list submissions to
        freesurfer@nmr.mgh.harvard.edu

To subscribe or unsubscribe via the World Wide Web, visit
        https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
or, via email, send a message with subject or body 'help' to
        freesurfer-request@nmr.mgh.harvard.edu

You can reach the person managing the list at
        freesurfer-owner@nmr.mgh.harvard.edu

When replying, please edit your Subject line so it is more specific
than "Re: Contents of Freesurfer digest..."


Today's Topics:

   1. Recon-all error (Emad Ahmadi)


----------------------------------------------------------------------

Message: 1
Date: Thu, 24 Dec 2015 09:50:52 -0500
From: Emad Ahmadi <emad@nmr.mgh.harvard.edu>
Subject: [Freesurfer] Recon-all error
To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Message-ID: <B3495F09-E1E9-4057-B839-C407B2182364@nmr.mgh.harvard.edu>
Content-Type: text/plain; charset="utf-8"

Hi,

I ran recon-all on the dicoms of a subject, obtained at Bay 4, and I received the following error:

mris_calc -o lh.area.mid lh.area add lh.area.pial
dyld: lazy symbol binding failed: Symbol not found: ___emutls_get_address
  Referenced from: /Applications/freesurfer/bin/../lib/gcc/lib/libgomp.1.dylib
  Expected in: /usr/lib/libSystem.B.dylib

dyld: Symbol not found: ___emutls_get_address
  Referenced from: /Applications/freesurfer/bin/../lib/gcc/lib/libgomp.1.dylib
  Expected in: /usr/lib/libSystem.B.dylib

Trace/BPT trap
Wed Dec 23 21:59:54 EST 2015
ERROR: vertexvol
mris_calc -o lh.area.mid lh.area add lh.area.pial
Darwin MGH000844.local 15.2.0 Darwin Kernel Version 15.2.0: Fri Nov 13 19:56:56 PST 2015; root:xnu-3248.20.55~2/RELEASE_X86_64 x86_64

recon-all -s 3Lt_002 exited with ERRORS at Wed Dec 23 21:59:54 EST 2015

For more details, see the log file /Users/Emad/Projects/3LT/subjDir/3Lt_002/scripts/recon-all.log
To report a problem, see http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting

I have attached the log file. I?d truly appreciate your help.

Thank you, and with best wishes for a wonderful holiday season for everyone,
Emad


Emad Ahmadi, MD
-----------------------------------------------
Research Fellow in Radiology
Massachusetts General Hospital
Harvard Medical School

25 New Chardon Street, Suite 400
Boston, MA 02114
Tel: 617 726 5237
Email: emad@nmr.mgh.harvard.edu

-------------- next part --------------
An HTML attachment was scrubbed...
URL: http://mail.nmr.mgh.harvard.edu/pipermail/freesurfer/attachments/20151224/f523716e/attachment-0003.html
-------------- next part --------------
A non-text attachment was scrubbed...
Name: recon-all.error
Type: application/octet-stream
Size: 461 bytes
Desc: not available
Url : http://mail.nmr.mgh.harvard.edu/pipermail/freesurfer/attachments/20151224/f523716e/attachment-0002.obj
-------------- next part --------------
An HTML attachment was scrubbed...
URL: http://mail.nmr.mgh.harvard.edu/pipermail/freesurfer/attachments/20151224/f523716e/attachment-0004.html
-------------- next part --------------
A non-text attachment was scrubbed...
Name: recon-all.log
Type: application/octet-stream
Size: 242261 bytes
Desc: not available
Url : http://mail.nmr.mgh.harvard.edu/pipermail/freesurfer/attachments/20151224/f523716e/attachment-0003.obj
-------------- next part --------------
An HTML attachment was scrubbed...
URL: http://mail.nmr.mgh.harvard.edu/pipermail/freesurfer/attachments/20151224/f523716e/attachment-0005.html

------------------------------

_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

End of Freesurfer Digest, Vol 142, Issue 43
*******************************************


The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.