SOLVED. On Fri, Aug 14, 2015 at 4:08 PM, Saeed Mahdizadeh Bakhshmand < saeedbakhshm...@gmail.com> wrote:
> Hello, > > I am trying to load surface overlays in 3D Slicer on top of surface meshes > (e.g. lh.Inflated), > but surface overlays somehow don't load properly into 3D slicer, I am > trying right surface files (lh.sulc , lh.curve e.g.)? > > On Fri, Aug 7, 2015 at 10:14 AM, Saeed Mahdizadeh Bakhshmand < > saeedbakhshm...@gmail.com> wrote: > >> Hi Lee, >> >> Perfect, Thanks. >> >> Saeed >> >> On Thu, Aug 6, 2015 at 5:15 PM, Lee Tirrell <ltirr...@nmr.mgh.harvard.edu >> > wrote: >> >>> Hi Saeed, >>> >>> You can run either of the following commands to overlay the ?h.sulc or >>> ?h.curv file: >>> >>> tksurfer subject hemisphere surface -snap <file name> -sulc >>> tksurfer subject hemisphere surface -snap <file name> -curv >>> >>> Best, >>> Lee >>> >>> >>> On Thu, 6 Aug 2015, Saeed Mahdizadeh Bakhshmand wrote: >>> >>> I used it as this:tksurfer subject hemisphere surface -snap <file name> >>>> -overlay <file name> >>>> And it adds a gray scale version of sulcus map to the plain gray, How >>>> can I activate colors? >>>> >>>> Thanks, >>>> Saeed >>>> >>>> On Thu, Aug 6, 2015 at 4:20 PM, Bruce Fischl < >>>> fis...@nmr.mgh.harvard.edu> wrote: >>>> load them as "curvature" files >>>> >>>> cheers >>>> Bruce >>>> >>>> On Thu, 6 Aug 2015, Saeed Mahdizadeh Bakhshmand wrote: >>>> >>>> And are they treated as label files (e.g. lh.aparc.annot ) >>>> in the label >>>> directory? And how they can be added to the tksurfer >>>> snapshot procedure? >>>> >>>> On Thu, Aug 6, 2015 at 4:04 PM, Bruce Fischl < >>>> fis...@nmr.mgh.harvard.edu> >>>> wrote: >>>> no, the scalar overlays are stored separately (e.g. >>>> lh.curv, >>>> lh.sulc, etc...) >>>> On Thu, 6 Aug 2015, Saeed Mahdizadeh Bakhshmand wrote: >>>> >>>> Hello, >>>> Is scalar overlay information embedded into >>>> surface >>>> file itself? When I open >>>> them in freeview they are loaded with color >>>> overlays >>>> (sulcus/gyrus), but >>>> when I load same models into 3D slicer or take a >>>> snapshot in tksurfer, they >>>> are plain gray. >>>> >>>> Thanks, >>>> Saeed >>>> >>>> >>>> _______________________________________________ >>>> 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. >>>> >>>> >>>> >>>> >>>> _______________________________________________ >>>> 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. >>>> >>>> >>>> >>>> >>> _______________________________________________ >>> 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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