External Email - Use Caution
I reran after adding ">> log", it went through...
It's strange that it won't run without >>log....
Thank you.
-Seonjoo
On 6/9/18, 10:15 PM, "freesurfer-boun...@nmr.mgh.harvard.edu on behalf of
Bruce Fischl" <freesurfer-boun...@nmr.mgh.harvard.edu on behalf of
fis...@nmr.mgh.harvard.edu> wrote:
hmmm, I don't. Does your disk have space on it? Can you try rerunning the
last command in the recon-all.cmd file and see if it completes?
Bruce
On Sun, 10
Jun 2018, Lee, Seonjoo wrote:
>
> External Email - Use Caution
>
> Hi Bruce,
>
> recon-all did not run, and I could not figure out the problem. Do you
have any clue what could be?
> The log file does not tell anything…
>
> The command was the most simplest one (using only t1).
>
> If you need more information to figure out the cause of this error,
please let me know.
>
> Thank you.
>
> -Seonjoo
>
>
>
> ====
>
> #@# MotionCor Sat Jun 9 21:04:46 EDT 2018
>
> Found 1 runs
>
> subject/mri/orig/001.mgz
>
> Checking for (invalid) multi-frame inputs...
>
> WARNING: only one run found. This is OK, but motion
>
> correction cannot be performed on one run, so I'll
>
> copy the run to rawavg and continue.
>
> \n cp subject/mri/orig/001.mgz subject/mri/rawavg.mgz \n
>
> subject
>
> \n mri_convert subject/mri/rawavg.mgz subject/mri/orig.mgz --conform \n
>
> mri_convert.bin subject/mri/rawavg.mgz subject/mri/orig.mgz --conform
>
> $Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $
>
> reading from subject/mri/rawavg.mgz...
>
> TR=6.81, TE=3.16, TI=0.00, flip angle=9.00
>
> i_ras = (-0, -1, 0)
>
> j_ras = (-0, -0, -1)
>
> k_ras = (1, -0, 0)
>
> changing data type from short to uchar (noscale = 0)...
>
> MRIchangeType: Building histogram
>
> Reslicing using trilinear interpolation
>
> writing to subject/mri/orig.mgz...
>
> Darwin Seonjoos-iMac.local 17.5.0 Darwin Kernel Version 17.5.0: Mon Mar
5 22:24:32 PST 2018;
> root:xnu-4570.51.1~1/RELEASE_X86_64 x86_64
>
>
>
> recon-all -s subid exited with ERRORS at Sat Jun 9 21:04:51 EDT 2018
>
>
>
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