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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

 

 

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