Hi Jim,
I am glad that the option '-numout #' fixed the trouble.
Yes, this error ("3dDeconvolve Error: Input stimulus time series file **** is too short.") is really hard for the user to debug. The next version of 3dDeconvolve will supposedly integrate waver, 3dDeconvolve and a few other functions into one program so that the user does not have to worry about the regressor length and other tedious details.
In the meantime, it makes sense to update the waver manual and include some cautioning words in the documents in the release. Thank you very much for the suggestions.
Gang