Hi, Doug, Thank you; I guess we'll wait a week.
Greg On 8/29/07 12:38 PM, "Doug Greve" <[EMAIL PROTECTED]> wrote: > Hi Greg, > > Nick programmed all the makefile stuff, so we'll have to wait until his > return next week to get this resolved. Can you use the traditional flags? > > doug > > Greg Harris wrote: > >> Dear FreeSurfers, >> >> I am trying to be a user of 'recon-all -make all'. The method stops when it >> attempts the step 'recon-all -s $(subj) -hemi lh -finalsurfs'. The problem >> at that point is that the file mri/brain.finalsurfs.mgz does not exist. The >> command to create this file, the only possible command if we go through rec >> on-all, is 'recon-all -s $(subj) -maskbfs'. Doing this command by hand >> after the error permits a repeated 'recon-all -make all' command to continue >> happily. One plausible place to fix this is in bin/recon-all.makefile, at >> or about line 83-84: >> >> $(BRAIN): $(BRAINMASK) $(NORM) >> recon-all -s $(subj) -normalization2 >> recon-all -s $(subj) -maskbfs >> >> i.e. add the step for making the brain masked brain.finalsurfs.mgz file >> after the -normalization2 step. Would this be correct, and should I do this >> or something like it? >> >> Sincerely, >> Greg >> _______________________________________________ >> 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
