yes, that should work
On 6/4/12 6:53 PM, mdkruepke@uwalumni.com wrote:
doug-
When i try to do this it still brings up an error with the make_average_subject regarding the --no-aseg as a subject to be averaged. I went ahead and ran make_average_surface and make_average_volume with a --no-aseg flag. This should recreate the process of the make_average_subject correct?
michael
On 6/4/12, Douglas N Grevegreve@nmr.mgh.harvard.edu wrote:
you should be able to run make_average_subject with --no-aseg
On 06/04/2012 06:25 PM, mdkruepke@uwalumni.com wrote:
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 Kirkgkirk@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 mdkruepke@gmail.com (262)-483-7449
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