Dear All,

I am   getting this   error  message on a scan.I deleted the created  subject folders and re-ran the command,but no luck.Any suggestions?

Thanks in advance,

CV

setting up environment for FreeSurfer/FS-FAST (and FSL)

FREESURFER_HOME   /usr/local/freesurfer

FSFAST_HOME       /usr/local/freesurfer/fsfast

FSF_OUTPUT_FORMAT nii.gz

SUBJECTS_DIR      /usr/local/freesurfer/subjects

MNI_DIR           /usr/local/freesurfer/mni

freesurfer@freesurfer-VirtualBox:~$ recon-all -i /home/freesurfer/Desktop/10035BL/T1pre/Image00001 -autorecon-all -s 10035BLFS

Subject Stamp: freesurfer-Linux-centos4_x86_64-stable-pub-v5.1.0

Current Stamp: freesurfer-Linux-centos4_x86_64-stable-pub-v5.1.0

INFO: SUBJECTS_DIR is /usr/local/freesurfer/subjects

Actual FREESURFER_HOME /usr/local/freesurfer

Linux freesurfer-VirtualBox 3.2.0-38-generic #61-Ubuntu SMP Tue Feb 19 12:18:21 UTC 2013 x86_64 x86_64 x86_64 GNU/Linux

/usr/local/freesurfer/subjects/10035BLFS

 mri_convert /home/freesurfer/Desktop/10035BL/T1pre/Image00001 /usr/local/freesurfer/subjects/10035BLFS/mri/orig/001.mgz 

mri_convert /home/freesurfer/Desktop/10035BL/T1pre/Image00001 /usr/local/freesurfer/subjects/10035BLFS/mri/orig/001.mgz 

file not found or unknown file type for file /home/freesurfer/Desktop/10035BL/T1pre/Image00001

#--------------------------------------------

#@# MotionCor Mon Jun 10 16:03:45 CEST 2013

ERROR: no run data found in /usr/local/freesurfer/subjects/10035BLFS/mri. Make sure to

have a volume called 001.mgz in  /usr/local/freesurfer/subjects/10035BLFS/mri/orig.

If you have a second run of data call it 002.mgz, etc.

See also: http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/Conversion

Linux freesurfer-VirtualBox 3.2.0-38-generic #61-Ubuntu SMP Tue Feb 19 12:18:21 UTC 2013 x86_64 x86_64 x86_64 GNU/Linux

recon-all -s 10035BLFS exited with ERRORS at Mon Jun 10 16:03:45 CEST 2013

For more details, see the log file /usr/local/freesurfer/subjects/10035BLFS/scripts/recon-all.log

To report a problem, see http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting

freesurfer@freesurfer-VirtualBox:~$ 

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