yes On Wed, 5 Jun 2013, Claudia Dacquino wrote:

Thanks.So the very first step I'll run recon-all -all, then I'll do all my corrections and rerun just recon-all -autorecon2-cp -autorecon3 ... Is that right? Cheers Claudia

2013/6/5 Bruce Fischl fischl@nmr.mgh.harvard.edu Hi Claudia

  recon-all -autorecon2-cp -autorecon3 ...

  will run everything the autorecon2-wm and autorecon2-pial would
  and more, so you can just run that.

  cheers
  Bruce


  On Wed, 5 Jun 2013, Claudia Dacquino wrote:

        Hi everyone,I'm sorry, this is a probably very basic
        question, but I'm a
        little bit confused about the recon-all correct
        flowchart.

        I mean, the first step is 
        recon-all -s <subjid> -all (comprising autorecon1,
        autorecon2 and
        autorecon3), correct?

        After this step if I want to add control points then
        I have to re-run: 
        recon-all -s <subject> -autorecon2-cp -autorecon3

        The same if I want to edit pial surface:

        recon -all -s <subject> -autorecon2-pial -autorecon3

        Or to edit white matter:

        recon-all -s <subject> -autorecon2-wm -autorecon3.

        Is that correct?

        Is there a system to reduce processing time once
        I've run eh first step (rec
        on-all -s -all)?

        I mean if I want to add control points, then to edit
        pial surface and white matter, have I to do the
        three processes separately, or there is a way to do
         the three things at once and then running just one
        autorecon?

        If that is permissible, which is the correct command
        line at the end of the porcess?

        I'm sorry for the confusion.

        Thanks in advance to everyone.

        Claudia

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.