Hi Catherine, what does mris_preproc --version give you?
Thanks, Martin On Jun 20, 2013, at 4:27 AM, Catherine Bois <c.b...@sms.ed.ac.uk> wrote: > Hi! > > I am running 5.3...Typing freesurfer into the command window leads to; > > You are running this version of FreeSurfer: > > freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0 > > This should be the correct version? > > Best > > > Quoting Martin Reuter <mreu...@nmr.mgh.harvard.edu> on Wed, 19 Jun 2013 > 20:36:10 -0400: > >> Hi Catherine, >> >> probably you are not using 5.3. otherwise it should recognize the >> --qdec-long flag. You can open mris_preproc and take a look (it is a text >> file), there should be a "qdec-long" if you search it. >> >> Best, Martin >> >> On Jun 17, 2013, at 12:04 PM, Catherine Bois <c.b...@sms.ed.ac.uk> wrote: >> >>> Dear Freesurfer experts, >>> >>> I am trying to prepare my data for linear mixed modeling using the matlab >>> add ons, with this command >>> >>> mris_preproc --qdec-long qdec.table.dat --target fsaverage --hemi lh --meas >>> thickness --out lh.thickness.mgh >>> >>> However I keep getting this error message ERROR: flag --qdec-long not >>> recognized >>> >>> I am using version 5.3 and read on the release notes that qdec-long only >>> works with unix input text files (\n newline). I thought that was the >>> format of my textfile, and also confused as to why the wrong format of the >>> file would make the flag unrecognized as opposed to the textfile...I was >>> also wondering whether the -long table needs to be "shrunk" to >>> cross-sectional format as it does in the two stage model? I have attached >>> an excerpt of my textfile qdec, would greatly appreciate help in >>> establishing whether it is somehow the format of the textfile that is the >>> problem? >>> >>> Thank you very much for your help, >>> >>> Best Wishes, >>> >>> Cathy >>> >>> >>> >>> -- >>> The University of Edinburgh is a charitable body, registered in >>> Scotland, with registration number SC005336. >>> >>> <qdec.table.dat>_______________________________________________ >>> Freesurfer mailing list >>> Freesurfer@nmr.mgh.harvard.edu >>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> >> --------------------------------- >> Dr. Martin Reuter >> Assistant in Neuroscience - Massachusetts General Hospital >> Instructor in Neurology - Harvard Medical School >> MGH / HMS / MIT >> >> A.A.Martinos Center for Biomedical Imaging >> 149 Thirteenth Street, Suite 2301 >> Charlestown, MA 02129 >> >> Phone: +1-617-724-5652 >> Email: >> mreu...@nmr.mgh.harvard.edu >> reu...@mit.edu >> Web : http://reuter.mit.edu >> >> >> >> 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. >> > > > > -- > The University of Edinburgh is a charitable body, registered in > Scotland, with registration number SC005336. > > > --------------------------------- Dr. Martin Reuter Assistant in Neuroscience - Massachusetts General Hospital Instructor in Neurology - Harvard Medical School MGH / HMS / MIT A.A.Martinos Center for Biomedical Imaging 149 Thirteenth Street, Suite 2301 Charlestown, MA 02129 Phone: +1-617-724-5652 Email: mreu...@nmr.mgh.harvard.edu reu...@mit.edu Web : http://reuter.mit.edu
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