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If your defaults are set up so that ANALYZE images are stored right-handed, then ignoring the warning shouldn't be ignored. The solution is to either start spm before running your scripts (so the defaults are loaded), or just run spm_defaults Best regards, -John On Wednesday 26 September 2007 15:47, Garrett McGrath wrote: > To any/all: > I've been working on a series of spm scripts for working with the Multi > Voxel Pattern Analysis software package from Princeton university. > However I've run into a snag. specifically this warning: > > Warning: Cant get default Analyze orientation - assuming flipped > > Appears to be shooting me in the foot. If I load a file then save it to > a new file it doesn't compare properly as the file has been flipped left > to right. I didn't discover the issue until I compared the file to a > afni BRIK/HEAD version of the same file which appears to not have this > issue in matlab. Overall the issue isn't a huge problem so long as it's > kept in mind and i could probably just code a patch into our opening > command but I'd rather nail down the actual issue at hand and fix it > accordingly. > > To note, the command 'nifti' generates the same error and appears to > create the same issues as our opening scripts (which simply utilize spm5). > -Garrett