Hi Marie, Thanks for the the response. I've done that a few times and still, the lgi option does not come up in qdec as a measure. Could it be that I'm using an outdated version of Qdec? My freesurfer v is 5.3 so unless I need to update qdec on its own, I don't think that this is the problem. Any other ideas?
Best, Krista On Fri, Feb 28, 2014 at 4:16 PM, Marie Schaer <marie.sch...@unige.ch> wrote: > > Hi Krista, > > You need to add the following line in your .Qdecrc: > MEASURE1 = pial_lgi > and save the change. > > I don't think it matters where you add it, I have it before all the Qdec > lines. > > Then start qdec again, it should work. If not, check again the .Qdecrc > file, and look whether starting qdec erases the added line. > > Let me know, > > Marie > > On Feb 28, 2014, at 1:09 PM, krista kelly <krista.kell...@gmail.com> > wrote: > > Hi Marie, > > The ?h.pial_lgi.fwhm?.fsaverage.mgh files in the surf folder are there. Here > is the output when I run more ~/.Qdecrc: > > # This file is automatically generated by the application > # If you change any lines or add new lines, note that all > # coments and empty lines will be deleted. Every line has > # to be in format: > # key = value > # > Qdec1\Dialogs\ExitApplication = 0 > Qdec1\Dialogs\SendErrorLog = 0 > Qdec1\Geometry\MainPanelSize = 375 > Qdec1\Geometry\MainPanelVisibility = 1 > Qdec1\Geometry\SaveUserInterfaceGeometry = 1 > Qdec1\Geometry\SecondaryPanelSize = 250 > Qdec1\Geometry\SecondaryPanelVisibility = 0 > Qdec1\Geometry\ViewPanelPosition = Right > Qdec1\Geometry\WindowGeometry = 900x700+787+1 > Qdec1\MRU\File00 = > /Applications/freesurfer/subjects/qdec/qdec.tableNoBV45orBV46.dat > Qdec1\MRU\File00Cmd = LoadDataTable > Qdec1\RunTime\MostRecentVersionLaunched = 1.4 > Qdec1\RunTime\PrintTargetDPI = 100.000000 > Qdec1\RunTime\ShowBalloonHelp = 1 > Qdec1\RunTime\ShowSplashScreen = 1 > Qdec1\RunTime\ToolbarFlatButtons = 1 > Qdec1\RunTime\ToolbarFlatFrame = 1 > > > Thanks! > Krista > > > On Wed, Feb 26, 2014 at 7:12 PM, Marie Schaer <marie.sch...@unige.ch>wrote: > >> >> Hi Krista, >> >> Can you please run: >> more ~/.Qdecrc >> and copy paste the output for me? >> >> The "rm: No match" issue in the qcache is not a problem, it's >> independent from the issue of listing lGI in the qdec menu. Even with the >> no match output in the qcache command, all the files should have been >> created properly (you can check that you have some files named >> ?h.pial_lgi.fwhm?.fsaverage.mgh in the surf folder of one of your subject >> if you want to be sure. >> >> Let me know, >> >> Marie >> >> On Feb 25, 2014, at 6:55 PM, krista kelly <krista.kell...@gmail.com> >> wrote: >> >> Hi Marie, >> >> I have tried adding the .Qdecrc file into the home folder as well but >> that does not work. The lgi measure is not appearing in the dropdown menu >> in the design tab in Qdec. Further, when I ran recon-all -qcache -measure >> pial_lgi, there were error messages saying 'rm: No match', although the >> -qcache exited without errors. Could this be the problem? If not, does >> anyone have any ideas? >> >> Thanks! >> Krista >> >> >> On Mon, Feb 24, 2014 at 4:29 PM, Marie Schaer <marie.sch...@unige.ch>wrote: >> >>> >>> Hi Krista, >>> >>> Can you be more specific about what is not coming up? If lGI not listed >>> in the menu of qdec, look at the following post: >>> http://www.mail-archive.com/freesurfer%40nmr.mgh.harvard.edu/msg33427.html >>> >>> Otherwise can you describe more precisely the issue? >>> >>> Best, >>> >>> Marie >>> >>> On Feb 24, 2014, at 1:21 PM, krista kelly <krista.kell...@gmail.com> >>> wrote: >>> >>> > Hello, >>> > >>> > I followed instructions on how to incorporate the lgi_pial measure >>> into QDec, however, it's not coming up when I go to choose this as a >>> measure. I ran recon-all -s my_subject_id -qcache -measure pial_lgi and >>> created a Qdecrc file in my $SUBJECTS_DIR directory. Does anyone have any >>> insight as to why this may be occurring? >>> > >>> > Thanks, >>> > Krista >>> > _______________________________________________ >>> > 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. >>> >>> >> >> > >
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