so what i should be able to do is run make_average_surface and make_average_volume separately with a --no-aseg flag on make_average_volume.
On 6/4/12, Gregory Kirk <gk...@wisc.edu> wrote: > so it seems that i ran make_average_volume which does have a --no-aseg flag > > make_average_subject really just runs 2 other commands > make_average_surface and make_average_volume. > > bruce the reason i did this is that mike was running a `super` average, i.e. > the average > subject of 2 different syudies, i.e. ave_study1, ave_study2 > > and he was running make_average_subject --subjects ave_study1 ave_study2 > --out superave. > > we were doing this so we could map labels from one study to another > and we were getting an error in the log file from make_average_volume > that indicated it was having a problem with the aseg after the > make_average_surface had already finished without error. > > really we could just skip it i think as we are not actually doing anything > with the average volume. > > greg > > On 06/04/12, Bruce Fischl wrote: >> Hi Michael >> >> a couple of typos. It should be "make_average_subject" (note no "s"), and >> it should be --subjects (note the ending "s"). I also don't see a flag >> named --no-aseg, which I think is why it's being included as a subject. >> What are you trying to do? >> >> cheers >> Bruce >> >> On Mon, 4 Jun 2012, michael kruepke wrote: >> >> >Hi all - >> >Having a bit of an issue with trying to run a make_average with the flag >> >--no-aseg. When written >> > >> >make_average_subjects --subject subject1 subject2 --no-aseg --out >> >superaverage >> > >> >the propt runs as if --no-aseg and --out superaverage are subjects i wish >> > to >> >average in with subjects1 and subject2. This is obviously and issue, >> > hoping >> >someone might have an idea of a solution. I have tried moving these flags >> > to >> >somewhere else in the prompt seeing if that would solve it, no luck >> > there. >> > >> >Best- >> >Michael >> > >> >-- >> >Michael D. Kruepke >> >PhD - University of Illinois at Urbana-Champaign >> >BA - Psych - University of Wisconsin-Madison >> >mdkrue...@gmail.com >> >(262)-483-7449 >> > >> > >> > >> >> >> _______________________________________________ >> 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. > -- Michael D. Kruepke BA-Psychology University of Wisconsin-Madison mdkrue...@uwalumni.com (262)-483-7449 _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
