Hi Donna, Thank you so much. I made a pal file as attached. However, it shows an error message when I load this new pal file into CARET.
The error message is "Unable to determine number of colors in palette", supposed to be 256 colors. Could you please find anything wrong in this pal file? Li-Wei 2011/1/25 Donna Dierker <[email protected]> > On 01/25/2011 09:27 AM, Li-Wei Kuo wrote: > > Hi Donna, > > > > Yes, I checked the palette file what CARET saves. It looks different > > than mine. > > Because I want to display the phase of the retinotopy, do you > > recommend any colormap I can use by the default CARET setting? > Sorry, I have no experience doing that, so I have no recommendation. > > You could probably convert your new-style AFNI palette to old-style by > hand. See this page: > > > http://brainvis.wustl.edu/CaretHelpAccount/caret5_help/file_formats/file_formats.html#paletteFile > > You need to add "colorname =" to each of your color lines. Then you > need to specify the bins with the color names, as shown in the above web > page. It's doable with a text editor, although I did not say it would > be fun. > > > > BTW, another question, is there any way to output the borders on the > > surface as the ROI in volume domain? > Borders? No. Paint regions, yes. If you can paint the region enclosed > by a closed border, then you can project the paint swath to volume-land > using Attributes: Paint: Convert Paint column to paint volume, and then > use File: Save Data File to write the resulting paint volume. > > > > Thanks! > > > > Li-Wei > > > > 2011/1/25 Donna Dierker <[email protected] > > <mailto:[email protected]>> > > > > That palette file format looks different from the older version AFNI > > palette file. > > > > If AFNI changed their file format, then this is probably why Caret > > can't > > read it properly. > > > > I wonder if there is a way to write it out old style. > > > > On 01/24/2011 04:42 PM, Li-Wei Kuo wrote: > > > Hi Donna, > > > > > > Thanks so much for your reply. > > > After loading the palette file, I didn't see it in the list of the > > > palette drop-down menu. > > > There are still all the default colormaps. > > > Is it correct to load the *.pal file by "File => Open Data File"? > > > Do I need to do other procedure like "adding to spec file" or > > anything > > > else? > > > > > > Attached is my palette file. > > > Could you please check if this file is correct or not? > > > Again, thanks for your great helps! > > > > > > Li-Wei > > > > > > 2011/1/24 Donna Dierker <[email protected] > > <mailto:[email protected]> > > > <mailto:[email protected] <mailto:[email protected] > >>> > > > > > > Hi Li-Wei, > > > > > > Sorry I missed your message somehow. > > > > > > After loading into Caret, the next step is to press Toolbar: > D/C > > > and select Metric Settings from the Page Selection menu at > > the top. > > > > > > Near the middle of that page, there is a Palette drop-down > menu, > > > just above Display Color Bar. (See attached capture, in > > which the > > > selection is labeled /tmp/test.pal.) > > > > > > Your custom palette should be listed at the bottom of the > > palette > > > drop-down menus. > > > > > > Donna > > > > > > -------- Original Message -------- > > > Subject: Fwd: [caret-users] Display fMRI with AFNI *.pal > > > colormap > > > Date: Sun, 23 Jan 2011 21:25:20 -0600 > > > From: David Van Essen <[email protected] > > <mailto:[email protected]> > > > <mailto:[email protected] <mailto:[email protected]>>> > > > To: Donna Dierker <[email protected] > > <mailto:[email protected]> > > > <mailto:[email protected] > > <mailto:[email protected]>>> > > > References: > > > > > <[email protected] > > <mailto:[email protected] > > > > > > > <mailto:[email protected] > > <mailto:[email protected] > >>> > > > > > > > > > > > > Donna, > > > > > > Is there an easy answer for this query? (I don't know the > > answer.) > > > > > > David > > > > > > Begin forwarded message: > > > > > > *From: *Li-Wei Kuo <[email protected] > > <mailto:[email protected]> > > > <mailto:[email protected] > > <mailto:[email protected]>> <mailto:[email protected] > > <mailto:[email protected]> > > > <mailto:[email protected] <mailto:[email protected] > >>>> > > > *Date: *January 18, 2011 10:23:15 PM CST > > > *To: *[email protected] > > <mailto:[email protected]> > > > <mailto:[email protected] > > <mailto:[email protected]>> > > > <mailto:[email protected] > > <mailto:[email protected]> > > > <mailto:[email protected] > > <mailto:[email protected]>>> > > > *Subject: **[caret-users] Display fMRI with AFNI *.pal > > colormap* > > > *Reply-To: *"Caret, SureFit, and SuMS software users" > > > <[email protected] > > <mailto:[email protected]> > > > <mailto:[email protected] > > <mailto:[email protected]>> > > > <mailto:[email protected] > > <mailto:[email protected]> > > > <mailto:[email protected] > > <mailto:[email protected]>>>> > > > > > > Hi all, > > > I would like to load AFNI *.pal files into Caret for > > coloring > > > my fMRI results. I open and load *.pal files by "File => > > Open > > > Data File". However, I cannot figure out what the next > > step is > > > to display the fMRI with my custom colormap. > > > Any input will be so appreciated, thank you so much! > > > > > > Best, Li-Wei > _______________________________________________ > > > caret-users mailing list > > > [email protected] > > <mailto:[email protected]> > > > > _______________________________________________ > caret-users mailing list > [email protected] > http://brainvis.wustl.edu/mailman/listinfo/caret-users >
test_caret_phase.pal
Description: Binary data
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