Hi Vasudev, if you're using freesurfer 6.0 or the development version, you can update the recon-all makefile by running the following (this might require sudo):
cd $FREESURFER_HOME/bin mv recon-all.makefile recon-all.makefile.backup curl https://raw.githubusercontent.com/freesurfer/freesurfer/dev/scripts/recon-al... -o recon-all.makefile chmod +x recon-all.makefile
Now, you should be able to successfully use the "-make all" flag with recon-all, which will start it from where it was terminated.
best Andrew
On 10/7/18, 11:25 AM, "Bruce Fischl" fischl@nmr.mgh.harvard.edu wrote:
Hi Vasudev
there is a patch to recon-all that fixes the -make all functionality, that should start wherever you left off. Andrew: can you post the location of the makefile patches?
thanks Bruce
On Sun, 7 Oct 2018, Dev vasu wrote:
> > External Email - Use Caution > > Dear all, > > I was trying to run recon-all, the pipeline terminated in middle now i would like to know if there > is any way i can restart it from the point where it was terminated?. > > > Thanks > Vasudev > >