thank you, doug! i was hung up on the names of the .label files when all that matters is the order of the labels in the lookup table. i should have figured that one out!
cheers, @rno On Sun, Jun 24, 2012 at 3:50 PM, Douglas N Greve <gr...@nmr.mgh.harvard.edu>wrote: > what was your command line? Can you send your color table? It will assign > the first label to the first entry in the color table. > > > On 06/24/2012 11:43 AM, Arno Klein wrote: > >> >> yes, but i am confused as to how mris_label2annot uses the color table. >> according to http://surfer.nmr.mgh.harvard.**edu/fswiki/** >> LabelsClutsAnnotationFiles<http://surfer.nmr.mgh.harvard.edu/fswiki/LabelsClutsAnnotationFiles>, >> each .label file contains columns of vertex numbers, coordinate values, and >> a column of zeros. i assume that mris_label2annot assigns the coordinates >> in the file to the anatomical name corresponding to the name of the file, >> but when i tried to set the color table region names to be the same as the >> names of the .label files, the output was the same as what i sent earlier: >> >> 1 11829830 Left-Cerebral-Exterior >> 2 16119285 Left-Cerebral-White-Matter >> ... >> >> even though my color table didn't have label numbers 1, 2, etc.! >> >> cheers, >> @rno >> >> On Sun, Jun 24, 2012 at 11:22 AM, Douglas Greve < >> gr...@nmr.mgh.harvard.edu >> <mailto:gr...@nmr.mgh.harvard.**edu<gr...@nmr.mgh.harvard.edu>>> >> wrote: >> >> Weren't you concerned that the names in the annotation were >> incorrect? You get to pick the names and the colors to be whatever >> you want to be. By default, it uses FreeSurferColorLUT.txt. >> doug >> >> >> On 6/23/12 9:54 PM, Arno Klein wrote: >> >>> >>> dear doug, >>> >>> thank you for your response. for the custom color table, what do >>> i assign for the different anatomical names and color values? >>> why wouldn't the names and colors in FreeSurferColorLUT.txt work? >>> >>> cheers, >>> @rno >>> >> >> > -- > 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<http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> > FileDrop: > www.nmr.mgh.harvard.edu/**facility/filedrop/index.html<http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> > > > > > 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<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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