yes, that should work
On 6/4/12 6:53 PM, mdkrue...@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 Greve<gr...@nmr.mgh.harvard.edu> wrote: >> you should be able to run make_average_subject with --no-aseg >> >> On 06/04/2012 06:25 PM, mdkrue...@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 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. >> -- >> Douglas N. Greve, Ph.D. >> MGH-NMR Center >> gr...@nmr.mgh.harvard.edu >> Phone Number: 617-724-2358 >> Fax: 617-726-7422 >> >> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting >> FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html >> >> _______________________________________________ >> 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
