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>If you use > >avwstats thresh_zstat -l 0.001 -R > >you'll get the correct 'positive' image range. Similarly, > >avwstats thresh_zstat -u -0.001 -R > >gives you the right 'negative' intensity range. Use these for the >overlay call and things should work fine wonderful, thanks. i did this and it works: % avwstats ica/stats/thresh_zstat20 -l 0.001 -R 2.760078 12.001950 % avwstats ica/stats/thresh_zstat20 -u 0.001 -R -9.468304 0.000000 % overlay 1 0 ffd_49 -a \ ica/stats/thresh_zstat20 2.760078 12.001950 \ ica/stats/thresh_zstat20 -0.01 -9.468304 over20e % slicer over20e -s 0.6 -A 500 oversli20e_060_500.png (nb: i needed to change <s2min> from 0.00 to something smaller in order to get out of the greyscale range. i saw this logic in melreport.cc.) http://godzilla.kennedykrieger.org/~bettyann/oversli20e_060_500.png >Alternatively, you can directly change the code in melreport.cc and >re-compile. i considered this but since most programs in FSL are called with an absolute pathname, ie, $FSLDIR/melodic, i would have to redefine $FSLDIR to point to my test directory which snowballs into lots of extra work. if calls to programs were not prefaced with an absolute path, i could define my own $PATH environment variable such that the directory containing my test binaries were defined in $PATH prior to the inclusion of $FSLDIR in $PATH. also, i want to crop the overlaid volume to remove "gutter" space within each slice. my final goal is to have the .png images contain as much image information in as small an area as possible. this cuts down on scrolling and allows the us to get a quick "overview" of the spatial map. another question that i cannot resolve: how do i include the colorbar in the .png? when i run avwstat -w on the overlaid image, i get coordinates that indicate no cropping can be done. do you put some artificial pixel in the corner of the volume in order to do this overlay? thank you for all your help. greatly appreciated, - bettyann _____________________________________ BettyAnn Chodkowski F.M. Kirby Center e: [log in to unmask] Kennedy Krieger Institute v: 443.923.9524 707 N. Broadway f: 443.923.9279 Baltimore, MD, USA 21205