It is not clear why it failed for these subjects (always happens at the same place). Can you upload one of them for me to take a look at? here are the instructions
From the linux command line, Create the file you want to upload, eg, cd $SUBJECTS_DIR tar cvfz subject.tar.gz ./subject Now log into our anonymous FTP site: ftp surfer.nmr.mgh.harvard.edu It will ask you for a user name: use "anonymous" (no quotes) It will ask you for a password: use "anonymous" (no quotes) cd transfer/incoming binary put subject.tar.gz Send an email that the file has been and the name of the file.
On 1/6/20 11:49 AM, Sahil Bajaj wrote:
External Email - Use Caution
Hi Dough,
I finished recon -all on about 515 subjects and I get error in 11 out of 515 subjects. Here I am attaching recon-all.log files of all those 11 subjects. I would really appreciate your help in fixing these errors.
Thanks, Sahil
On Thu, Jan 2, 2020 at 10:03 AM Greve, Douglas N.,Ph.D. <DGREVE@mgh.harvard.edu mailto:DGREVE@mgh.harvard.edu> wrote:
Can you send the recon-all.log file? You sent the .error file On 12/20/2019 10:13 AM, Sahil Bajaj wrote:External Email - Use Caution Hello FS experts, I am trying to run recon all on about 100 subjects. But one out of 100 subjects finishes recon all with error, and doesn't complete the process. Here I am attaching recon all log for your reference. Also, before installing freesurfer on MAC Catalina, I ran sudo spctl - -master -disable I would really appreciate any help in resolving this. Thanks, Sahil 1) FreeSurfer version: freesurfer-Darwin-OSX-stable-pub-v6.0.0-2beb96c 2) Platform: MACOS Catalina 3) recon-all.log: see attached _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer