Re: [Freesurfer] ERROR: You are trying to re-run an existing subject

The error output below tells you what to do. If the subject folder (HPTU_vol11_2012) already exists. Since it has your dicom data in it, you should not delete it. Instead, rename that directory and keep your command-line (changing the -i path to point to the new dicom file but keeping the same subject name), or change the name of the subject. doug

On 09/14/2012 03:44 PM, Carolina Valencia wrote:

the directory exists and trying without / doesn't change anything, any advice? One week ago, I was processing with the same command line with other subjects without problems,

2012/9/14 Douglas N Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu>

And before you run this, does $SUBJECTS_DIR/HPTU_vol11_2012 exist?
BTW, try it without a slash at the end of the name.
doug


On 09/14/2012 02:09 PM, Carolina Valencia wrote:


    Sure!
    cvalencia@cvalencia-Precision-WorkStation-T3400:~/freesurfer/subjects/volumetria$
    recon-all -s HPTU_vol11_2012/ -i
    HPTU_vol11_2012/dicom/MPRAGE.Ser1.Img0.dcm

    2012/9/14 Douglas N Greve <greve@nmr.mgh.harvard.edu
    <mailto:greve@nmr.mgh.harvard.edu>
    <mailto:greve@nmr.mgh.harvard.edu
    <mailto:greve@nmr.mgh.harvard.edu>>>


        What is your command line?
        doug



        On 09/14/2012 12:23 PM, Carolina Valencia wrote:
    > Hi Freesurfer users:
    >
    > I'm trying to run recon-all command in a single subject and
    > I don't know why always there is an error message about the
    names, I
    > tried the suggestionsin the message, rename the files, folders,
    > eliminate the folders etc
    > But I don't succeed to star to running my data.
    > Many thanks,
    >
    >
    > ERROR: You are trying to re-run an existing subject with
    (possibly)
    >  new input data (-i). If this is truly new input data, you
        should delete
    >  the subject folder and re-run, or specify a different
    subject name.
    >  If you are just continuing an analysis of an existing
    subject, then
    >  omit all -i flags.
    >
    > --
    > --
    > *Carolina Valencia Muñoz*
    >
    >
    >
    >
    > _______________________________________________
    > Freesurfer mailing list
    > Freesurfer@nmr.mgh.harvard.edu
    <mailto:Freesurfer@nmr.mgh.harvard.edu>
    <mailto:Freesurfer@nmr.mgh.harvard.edu
    <mailto:Freesurfer@nmr.mgh.harvard.edu>>

    > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

        --
        Douglas N. Greve, Ph.D.
        MGH-NMR Center
    greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>
    <mailto:greve@nmr.mgh.harvard.edu
    <mailto:greve@nmr.mgh.harvard.edu>>
        Phone Number: 617-724-2358 <tel:617-724-2358>
    <tel:617-724-2358 <tel:617-724-2358>>
        Fax: 617-726-7422 <tel:617-726-7422> <tel:617-726-7422
    <tel:617-726-7422>>

        Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
    <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting>
    <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting>
        FileDrop:
    www.nmr.mgh.harvard.edu/facility/filedrop/index.html
    <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html>
    <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html>

        _______________________________________________
        Freesurfer mailing list
    Freesurfer@nmr.mgh.harvard.edu
    <mailto:Freesurfer@nmr.mgh.harvard.edu>
    <mailto:Freesurfer@nmr.mgh.harvard.edu
    <mailto: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.




-- 
Douglas N. Greve, Ph.D.
MGH-NMR Center
greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>
Phone Number: 617-724-2358 <tel:617-724-2358>
Fax: 617-726-7422 <tel:617-726-7422>

Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
<http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting>
FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html
<http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html>

--