You did not send your recon-all command but my guess is that it stopped without error because you did not include a directive (eg, -all). But in any event, you cannot run an MT image through recon-all
On 10/29/2021 3:35 AM, Marlene Tahedl wrote: > External Email - Use Caution > > Hi! > > > I have a couple of Magnetization Transfer MR images from a group of patients > which I would like to analyze using the FreeSurfer pipeline. However, when > applying "recon-all" to those images, the algorithm stops after just a few > minutes. Although it says "finished without error", no images have been > produced. Is there a way to apply recon-all to MT, maybe some conversion to > make the MT images look more like a T1? > > > Thanks! > Marlene. > > > > > _______________________________________________ > 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 Mass General Brigham Compliance HelpLine at http://www.massgeneralbrigham.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. Please note that this e-mail is not secure (encrypted). If you do not wish to continue communication over unencrypted e-mail, please notify the sender of this message immediately. Continuing to send or respond to e-mail after receiving this message means you understand and accept this risk and wish to continue to communicate over unencrypted e-mail.
