Hi,
Have been tried that but still exited with errors.
is it because of iMac doesn't enable freesurfer to create the subject files
without security password?
do anybody know how to settle this problems?
Thank you.
Best,
Isma
________________________________
From: Jürgen Hänggi <j.haen...@psychologie.uzh.ch>
To: aini ismafairus <aini_ismafai...@yahoo.com.my>; Freesurfer Mailinglist
<freesurfer@nmr.mgh.harvard.edu>
Sent: Saturday, 1 December 2012 12:42 PM
Subject: Re: [Freesurfer] recon-all error
Re: [Freesurfer] recon-all error
Dear Aina
Unzip us03.nii.gz and try it again
Cheers
Jürgen
On [DATE], "aini ismafairus" <[ADDRESS]> wrote:
Hello,
>
>I still new in using freesurfer.
>the freesurfer was successfully installed.
>but when i tried to run recon-all it give an error.
>
>
>[Ainis-iMac:~] ismafairus% setenv FREESURFER_HOME Applications/freesurfer
>[Ainis-iMac:~] ismafairus% source $FREESURFER_HOME/SetUpFreeSurfer.csh
>-------- freesurfer-Darwin-leopard-i686-stable-pub-v5.1.0 --------
>Setting up environment for FreeSurfer/FS-FAST (and FSL)
>FREESURFER_HOME Applications/freesurfer
>FSFAST_HOME Applications/freesurfer/fsfast
>FSF_OUTPUT_FORMAT nii.gz
>SUBJECTS_DIR Applications/freesurfer/subjects
>MNI_DIR Applications/freesurfer/mni
>FSL_DIR FSL/fsl
>
>Ainis-iMac:~] ismafairus% recon-all -i $SUBJECTS_DIR/us03.nii.gz -o us03 -all
>ERROR: cannot find Applications/freesurfer/subjects/us03.nii.gz
>Darwin Ainis-iMac.local 12.2.1 Darwin Kernel Version 12.2.1: Thu Oct 18
>12:13:47 PDT 2012; root:xnu-2050.20.9~1/RELEASE_X86_64 x86_64
>
>recon-all -s exited with ERRORS at Sat Dec 1 11:42:54 CET 2012
>
>
>Advice on how to troubleshoot this would be appreciate.
>
>Thank you.
>
>Regards,
>Isma
>
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Division Neuropsychology
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