what is your command line? Please send the recon-all.log file

Dear Freesurfer users,

I have big issues performing recon-all into the freesurfer VirtualBox.

I dont get any error but no files are created except the 0001.mgz.

Here is what I get.

WARNING: tcsh v6.17.06 has an exit code bug! Please update tcsh!

Subject Stamp: freesurfer-Linux-centos4-stable-pub-v5.3.0
Current Stamp: freesurfer-Linux-centos4-stable-pub-v5.3.0
INFO: SUBJECTS_DIR is /usr/local/freesurfer/subjects
Actual FREESURFER_HOME /usr/local/freesurfer
Linux xubuntu-VirtualBox 3.2.0-23-generic #36-Ubuntu SMP Tue Apr 10 20:41:14 UTC 2012 i686 i686 i386 GNU/Linux
/usr/local/freesurfer/subjects/Groove_009

 mri_convert /media/sf_T1_Groove/Groove_009/Sujet_24_20161214_001_024_T1w.nii /usr/local/freesurfer/subjects/Groove_009/mri/orig/001.mgz

mri_convert /media/sf_T1_Groove/Groove_009/Sujet_24_20161214_001_024_T1w.nii /usr/local/freesurfer/subjects/Groove_009/mri/orig/001.mgz
INFO: using NIfTI-1 qform
$Id: mri_convert.c,v 1.179.2.7 2012/09/05 21:55:16 mreuter Exp $
reading from /media/sf_T1_Groove/Groove_009/Sujet_24_20161214_001_024_T1w.nii...
TR=0.00, TE=0.00, TI=0.00, flip angle=0.00
i_ras = (0.0603182, -0.982945, 0.173726)
j_ras = (-0.125291, 0.16521, 0.978268)
k_ras = (0.990285, 0.0807736, 0.113189)
writing to /usr/local/freesurfer/subjects/Groove_009/mri/orig/001.mgz...

Could you please help me I read ;ost threads and tried ;any solutions but I didnt found a solution,

Many thanks in advance,

Aurelie

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