Dear David, In the "Apply Deformation Map" dialog box, I specified the following items:
1) Deformation Map File: the 23-LDMK deform_map file 2) File Type: Metric 3) Flat Max Edge Length: 10.00 4) Metric Deformation: Nearest Node (not sure which one is better?) 5) Smooth One Iteration (Except Flat) The other buttons were not clickable (the dialog box does not allow me to use them). When I click the "Apply" button, I immediately receive the following error message: Deform Error Is deformation map file valid? You must select a data file for deformation. You must select the output name for the deformed file. I tried to apply deformation map from two different .spec files: 1) Macaque F99 atlas directory, which has deformed metric files (from individual macaque to F99). I added/appended the .deform_map file to this .spec file before applying deformation. 2) COMPARE_MACAQUE_HUMAN directory (as a part of CARET_TUTORIAL_SEPT06 directory). I added/appended my metric files to this .spec file before applying deformation. In both cases, I got the same error. Thanks for your helpful comments/suggestions, Reza > Reza, > > On Mar 10, 2007, at 9:31 PM, Reza Rajimehr wrote: > >> Dear caret-users, >> >> David Van Essen suggested me to use the following .deform_map file for >> deformation of macaque F99 to Human PALS: >> >> RegF99toPALS_23-LDMK-VE_Macaque.F99UA1.RIGHT.Register-with-PALS_23- >> LDMK-VE.73730.spec.deform_map > > Once you have a deform_map file, you can use it to register data > sets from monkey to human WITHOUT re-running a registration. This > is done using the Surface: Deformation: Apply Deformation Map > option. If you want to register paint files, metric files, and most > other files, you don't need anything other than the deform_map file > to get the job done, and the dialog window is fairly self- > explanatory. If you want to register a border projection file or a > coordinate file, then you need additional coordinate and topology > files that are available as part of the Caret Sept_06 tutorial dataset: > http://sumsdb.wustl.edu/sums/archivelist.do? > archive_id=6595051&archive_name=COMPARE_PALS_MacaqueF99.73730.spec > > The only reason to actually re-run an interspecies registration is IF > you don't like the particular set of landmarks used and you want to > try your own. If so, you should start with borderproj files also in: > http://sumsdb.wustl.edu/sums/archivelist.do? > archive_id=6595051&archive_name=COMPARE_PALS_MacaqueF99.73730.spec > and make your additions and subtractions from there. > > See Part 4 of the latest Caret tutorial for more details on monkey- > human comparisons. > http://sumsdb.wustl.edu/sums/directory.do? > id=6585200&dir_name=CARET_TUTORIAL_SEPT-06 > >> >> I specified this as my .deform_map file in the Spherical Parameters >> tab in >> the Spherical Surface Deformation dialog box. My question is what I >> should >> specify as .borderproj file. I have a borderproj file in my F99 >> directory >> (that I used for the registration of individual macaque to F99). I >> also >> have a borderproj file in my PALS directory (that I used for the >> registration of individual human to PALS). Should I use these >> borderproj >> files in the Individual and Atlas tabs in the Spherical Surface >> Deformation dialog box? Or there are other files that I should use? >> >> I also assume that the macaque F99 .spec file should be used in the >> Individual tab, and the human PALS .spec file should be used in the >> Atlas >> tab. > > See above. These steps should not be necessary for your purposes. > > I hope this helps. > > David > >> >> Thanks for your help, >> Reza >> >> ******************************** >> Reza Rajimehr, MD >> >> NMR Athinoula A. Martinos Center >> Department of Radiology >> Massachusetts General Hospital (MGH) >> Building 149, 13th St. >> Charlestown, MA 02129 >> >> Email: [EMAIL PROTECTED] >> ******************************** >> _______________________________________________ >> caret-users mailing list >> caret-users@brainvis.wustl.edu >> http://pulvinar.wustl.edu/mailman/listinfo/caret-users > > _______________________________________________ > caret-users mailing list > caret-users@brainvis.wustl.edu > http://pulvinar.wustl.edu/mailman/listinfo/caret-users ******************************** Reza Rajimehr, MD NMR Athinoula A. Martinos Center Department of Radiology Massachusetts General Hospital (MGH) Building 149, 13th St. Charlestown, MA 02129 Email: [EMAIL PROTECTED] ********************************
