I can't find anything wrong with it, except perhaps no space between "[256]" and the beginning of this line:
***PALETTES PHASE256_0[256] I tried changing it to this: ***PALETTES PHASE256_0 [256] ... and it loaded just fine. But then I tried loading your version, and it loaded just fine, too. And I see PHASE256 in the Metric Settings palette drop-down menu. It seems to work. I'm using Caret v5.614. What version are you using? Can't reproduce the problem. On 01/25/2011 06:42 PM, Li-Wei Kuo wrote: > 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] > <mailto:[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]> > > <mailto:[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]>> > > > <mailto:[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]>> > > > <mailto:[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]>> > > > <mailto:[email protected] > <mailto:[email protected]> > > <mailto:[email protected] > <mailto:[email protected]>>>> > > > References: > > > > > > <[email protected] > <mailto:[email protected]> > > > <mailto:[email protected] > <mailto:[email protected]>> > > > > > > <mailto:[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]>>> > <mailto:[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]>>> > > > <mailto:[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]>>> > > > <mailto:[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] http://brainvis.wustl.edu/mailman/listinfo/caret-users
