Hi Bruce, The exact command I ran was recon-all -autorecon1 -autorecon2 -subjid DNS_highRes_N892
I do have ~1000 scans, but it is not a longitudinal study. They are located under the DNS_highRes_n892/mri/orig/ directory in the .mgz format. Let me know if you need anymore information. Thanks! On Wed, Aug 6, 2014 at 3:09 PM, Bruce Fischl <fis...@nmr.mgh.harvard.edu> wrote: > Hi Esha > > what are you trying to do? From this output it looks like you are runing a > ~1000 time point longiutdinal study, which I assume is not what you meant. > > Please be sure to include the exact command you ran! > > cheers > Bruce > > > On Wed, 6 Aug 2014, Esha Mehta wrote: > > Hello, >> I am extremely new FreeSurfer user, and have hit a bump in the road while >> trying to run -autorecon1 and -autorecon2. The process seemed to be >> running >> smoothly until I got the following warning messages for every file number, >> and then it was randomly killed- >> >> * WARNING: TP 890 to 1 did not converge !! >> >> * WARNING: TP 891 to 1 did not converge !! >> >> * WARNING: TP 892 to 1 did not converge !! >> >> mapping movs and creating initial template... >> >> allow intensity scaling >> >> Linux login4 2.6.32-431.5.1.el6.x86_64 #1 SMP Fri Jan 10 14:46:43 EST 2014 >> x86_64 x86_64 x86_64 GNU/Linux >> >> recon-all -s DNS_highRes_N892 exited with ERRORS at Mon Jul 21 10:48:23 >> EDT >> 2014 >> >> >> Within the error log, there was also an extremely lengthy command, and I >> believe could have been part of the issue as well. It is way to long to >> post >> here, but here is how it begins and ends- >> >> CMD mri_robust_template --mov >> /groups/wallacegrp/DNS_highRes_N892/mri/orig/000.mgz >> /groups/wallacegrp/DNS_highRes_N892/mri/orig/001.mgz >> /groups/wallacegrp/DNS_highRes_N892/mri/orig/002.mgz >> >> ... >> >> /groups/wallacegrp/DNS_highRes_N892/mri/orig/888.lta >> /groups/wallacegrp/DNS_highRes_N892/mri/orig/889.lta >> /groups/wallacegrp/DNS_highRes_N892/mri/orig/890.lta >> /groups/wallacegrp/DNS_highRes_N892/mri/orig/891.lta >> >> >> I was hoping you could give me some advice on how to deal with this error, >> or help me determine whether this is a freesurfer error, or has to do with >> something else. >> >> Thanks so much! >> >> -- >> Esha Mehta585-967-7223 >> emeht...@gwu.edu >> George Washington University, Class of 2017 >> >> > _______________________________________________ > 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. > > -- Esha Mehta 585-967-7223 emeht...@gwu.edu George Washington University, Class of 2017
_______________________________________________ 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.
