Hi Duy

it is Unix permissions you need to check. It looks like the subject's label
dir doesn't exist or couldn't be created.
cheers
Bruce


On Sat, 27 May 2017, Duy Nguyen wrote:

> Dear Doug 
> Thank you for your quick response.
> I got the data from oasis website. How can I get the permission to continue
> my analysis?
>
> Thanks
> Duy
> On Fri, May 26, 2017 at 8:46 PM Douglas Greve <greve@nmr.mgh.harvard.edu>
> wrote:
>
>       Do you have write permission into that folder?
>
>       The surface is just the surface that the annotation is on. Once
>       you have your label, you can use it for thickness
>
>
> On 5/26/17 3:54 AM, Duy Nguyen wrote:
>       Dear FreeSurfer experts
>
> I am trying to extract the label using standard aparc.annot and
> will be using mri_mergelabels to create my own lobes to do GLM
> fit later on for ROI analysis.
> However, it shows me the error like this when I check there are
> the files aparc.annot and the file from surf folder.
> [toibigi2007@localhost OASIS_Data]$ mri_annotation2label
> --subject OASIS_0002_MR1 --hemi lh --outdir
> $SUBJECTS_DIR/OASIS_0002_MR1/label
> subject = OASIS_0002_MR1
> annotation = aparc
> hemi = lh
> outdir = /media/3B110EAE3B9DE8E0/OASIS_Data/OASIS_0002_MR1/label
> surface   = white
>
> ERROR: creating directory
> /media/3B110EAE3B9DE8E0/OASIS_Data/OASIS_0002_MR1/label
> No such file or directory
>
> One more question is that it says default is "white" surface,
> but I want to measure the cortical thickness.  Can I leave white
> in like this or do I change into --surf to gray for this?
>
> Thank you and best regards,
> --v-- Peace --v--
> Duy Nguyễn  Biomedical Engineering Department- IU HCMC
> Cell: (+84)909999056
> Email: duy.nguyenbme@gmail.com
>
>
> _______________________________________________
> Freesurfer mailing list
> Freesurfer@nmr.mgh.harvard.edu
> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
>
>
> _______________________________________________
> Freesurfer mailing list
> Freesurfer@nmr.mgh.harvard.edu
> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
>
>
> The information in this e-mail is intended only for the person to whom
> it is
> addressed. If you believe this e-mail was sent to you in error and the
> e-mail
> contains patient information, please contact the Partners Compliance
> HelpLine at
> http://www.partners.org/complianceline . If the e-mail was sent to you
> in error
> but does not contain patient information, please contact the sender
> and properly
> dispose of the e-mail.
>
> --
> Sent from Iphone
>
>_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer


The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.