Oops, I meant to write "Ubuntu 16 comes with a version of perl that is *incompatible* with the MNI tools..."
On 10/18/2016 10:03 AM, Z K wrote: > Ubuntu 16 comes with a version of perl that is compatible with the MNI > tools shipped with the version of freesurfer you are using. > > The easiest way to remedy the situation is to download and install the > development version of freesurfer which fixes this issue and will be > included in the upcoming 6.0 release (see "Development Version"): > > https://surfer.nmr.mgh.harvard.edu/fswiki/DownloadAndInstall > > -Zeke > > On 10/17/2016 09:28 AM, Burkhard Maess wrote: >> hello Freesurfer developers, >> >> during the recon-all (autorecon1) processing, it seems that the >> mne_nu_correct procedure does not always manage to finish successfully. I >> have searched the net, found a question in the mailing list, which seemed to >> be similar, but no answer >> (http://www.bic.mni.mcgill.ca/pipermail/minc-users/2015-November/004205.html). >> >> Our status file shows, that we had sometimes runs which were completed >> without errors. Maybe, we should not have started the recon-all a second >> time. It would be very great if you could help with further hints. For >> instance, could we remove a file or several files to roll back to the >> situation when it worked? >> >> all the best, >> Burkhard >> >> ..................... >> >> FREESURFER_VERSION: freesurfer-x86_64-unknown-linux-gnu-stable5-20130513 >> Platform: ubuntu 16.04 (xfce) >>> uname -a >> Linux ren 4.4.0-38-generic #57-Ubuntu SMP Tue Sep 6 15:42:33 UTC 2016 x86_64 >> x86_64 x86_64 GNU/Linux >> >> Command: >> freesurfer=5.3.0_maess@ren:/scr/eber2/intstats > recon-all -autorecon1 >> -nuintensitycor-3T -subjid is09 >> >> >> >> >> -- >> Dr. Burkhard Maess >> Max Planck Institute for Human Cognitive and Brain Sciences >> Stephanstr. 1a, P.O. Box 500355, D-04303 Leipzig >> Aussenstelle Bennewitz, phone/fax: +49(3425)8875-2526/-2511 mail: maess >> 'at' cbs.mpg.de, http://www.cbs.mpg.de >> >> >> >> _______________________________________________ >> 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 > > _______________________________________________ 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.
