Re: [Freesurfer] importing my data

thanks Zeke! Bruce On Tue, 11 Jun 2013, clelia pellicano wrote:

Hi,

thank you so much, now it's working! I have deleted the "%" from the path (moving the files), and now it's ok. Thank you again,

C.

On Tue, Jun 11, 2013 at 5:43 PM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote: Hi clelia

  can you ls that file and confirm that exists? And check the
  permissions? Also, note that even if it had found it you didn't
  tell it to do anything. You probably want to specify -all on the
  recon-all command line as well.

  cheers
  Bruce

  On Tue, 11 Jun 2013, clelia pellicano wrote:

        Dear all,

        I'm trying to import my data in Freesurfer. I have
        it on a folder on my
        desktop. I set my SUBJECTS_DIR variable to my
        subjects directory (other
        folder on my desktop). When I run recon-all -i
        paths_to_myimputfiles -subjid
        my_sub_name, I got:

        [cpellica@wmen-ps2208 freesurfer]$ recon-all -i
        /home/cpellica/Desktop/MRIs%201-5/001/IM-0003-0001.dcm
        -subjid 001
        ERROR: cannot find
        /home/cpellica/Desktop/MRIs%201-5/001/IM-0003-0001.dcm
        Linux wmen-ps2208 2.6.32-358.11.1.el6.x86_64 #1 SMP
        Wed May 15 10:48:38 EDT
        2013 x86_64 x86_64 x86_64 GNU/Linux

        recon-all -s  exited with ERRORS at Tue Jun 11
        17:24:51 BST 2013

        I don't understand why it is not finding my data
        since they are on my
        desktop.
        Could you help me?


        Thanks


        C.

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