Hello all,
I think this is a fairly simple question, but I could not find an existing answer online. If I close out the terminal window while recon is running, will the process end? I've had the issue in the past where my computer has gone to sleep and the process ends up exiting with error.
Also, is it possible to rerun a recon command after a previous failed attempt without being prompted to delete the older files that had already been made? I know that usually if you attempt to rerun a recon command after you have already tried, you're usually prompted to remove the older files. This time around, I wasn't ever prompted to do that but the scripts show that the last time recon-all ran, it completed without error.
Thanks very much!
On 03/18/2014 05:05 PM, Lin, Amy (NIH/NIMH) [F] wrote:
Hello all,
I think this is a fairly simple question, but I could not find an existing answer online. If I close out the terminal window while recon is running, will the process end? I've had the issue in the past where my computer has gone to sleep and the process ends up exiting with error.
I would expect the process to die. You can try running it with "nohup", ie, something like
nohup recon-all -s subject -all
Also, is it possible to rerun a recon command after a previous failed attempt without being prompted to delete the older files that had already been made? I know that usually if you attempt to rerun a recon command after you have already tried, you're usually prompted to remove the older files. This time around, I wasn't ever prompted to do that but the scripts show that the last time recon-all ran, it completed without error.
What older files? It may prompt you to delete the "IsRunning" file. Or you can add -no-isrunning to the command line doug
Thanks very much!
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Hi Amy
if you run it with "&" at the end of the line, it shouldn't end when you close the terminal window. Of course it will stop if the computer goes to sleep though.
To rerun a recon that has partially finished, try using the -make all directive on the recon-all command line instead of any specific autorecon targets
cheers Bruce
On Tue, 18 Mar 2014, Lin, Amy (NIH/NIMH) [F] wrote:
Hello all,
I think this is a fairly simple question, but I could not find an
existing answer online. If I close out the terminal window while recon is running, will the process end? I've had the issue in the past where my computer has gone to sleep and the process ends up exiting with error.
Also, is it possible to rerun a recon command after a previous failed
attempt without being prompted to delete the older files that had already been made? I know that usually if you attempt to rerun a recon command after you have already tried, you're usually prompted to remove the older files. This time around, I wasn't ever prompted to do that but the scripts show that the last time recon-all ran, it completed without error.
Thanks very much!
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
freesurfer@nmr.mgh.harvard.edu
-
Bruce Fischl -
Douglas N Greve -
Lin, Amy (NIH/NIMH) [F]