can you send the terminal output and recon-all.log?
thanks
On 9/7/18 9:58 AM, Song, Da-Yea wrote:
External Email - Use Caution
Hello,
I’m running some subjects through recon-all but have noticed that some
error out (terminate the job) within seconds of starting. Any
suggestions would be really appreciated. Here is the recon-all.cmd
error message:
#---------------------------------
# New invocation of recon-all Fri Sep 7 09:34:58 EDT 2018
mri_convert /g5/dcn/freesurfer/MPRAGE/PS070/001
/g5/dcn/freesurfer/subjects/PS070/mri/orig/001.mgz
#--------------------------------------------
#@# MotionCor Fri Sep 7 09:35:30 EDT 2018
cp /g5/dcn/freesurfer/subjects/PS070/mri/orig/001.mgz
/g5/dcn/freesurfer /subjects/PS070/mri/rawavg.mgz
mri_convert /g5/dcn/freesurfer/subjects/PS070/mri/rawavg.mgz
/g5/dcn/freesurfer /subjects/PS070/mri/orig.mgz --conform
mri_add_xform_to_header -c /g5/dcn/freesurfer
/subjects/PS070/mri/transforms/talairach.xfm /g5/dcn/freesurfer
/subjects/PS070/mri/orig.mgz /g5/dcn/freesurfer
/subjects/PS070/mri/orig.mgz
#--------------------------------------------
#@# Talairach Fri Sep 7 09:35:44 EDT 2018
mri_nu_correct.mni --no-rescale --i orig.mgz --o orig_nu.mgz --n 1
--proto-iters 1000 --distance 50
#---------------------------------
# New invocation of recon-all Fri Sep 7 09:36:58 EDT 2018
#---------------------------------
# New invocation of recon-all Fri Sep 7 09:37:03 EDT 2018
#---------------------------------
# New invocation of recon-all Fri Sep 7 09:39:43 EDT 2018
#---------------------------------
# New invocation of recon-all Fri Sep 7 09:39:47 EDT 2018
#---------------------------------
# New invocation of recon-all Fri Sep 7 09:42:58 EDT 2018
#---------------------------------
# New invocation of recon-all Fri Sep 7 09:43:02 EDT 2018
Best,
Da-yea
------------------------------------------------------------------------
Disclaimer:
The materials in this e-mail are private and may contain Protected
Information. Please note that e-mail communication is not encrypted by
default. You have the right to request further emails be encrypted by
notifying the sender. Your continued use of e-mail constitutes your
acknowledgment of these confidentiality and security limitations. If
you are not the intended recipient, be advised that any unauthorized
use, disclosure, copying, distribution, or the taking of any action in
reliance on the contents of this information is strictly prohibited.
If you have received this e-mail in error, please immediately notify
the sender via telephone or return e-mail.
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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.
