I don't have much experience feeding wav files to julius, but I did try with one of my prompt recordings and it processed fine. The only changes were to comment out my input mic in julian.jconf, specify -input rawfile -filelist filelist (where filelist is a text file containing the path and name of a file to be processed) in the julius command and it worked correctly. My smpFreq in this file and in jconf is 48000 but other frequencies will work.
The kind of error messages you are getting seem to indicate perhaps that your list of files is pointing at different files than you have been editing?
--- (Edited on 10/1/2011 9:54 am [GMT-0500] by colbec) ---
I just realized my jconf was using controlapp's toy grammar. How do I get Julius/Julian to support arbitrarily large grammars?
--- (Edited on 10/1/2011 10:06 am [GMT-0500] by Cerin) ---
Since the reason for opening the thread seems to have been resolved, perhaps it is a bad idea to fork into a different issue in the same thread. It's probably in your best interest to open up a different thread with an explicit subject line, that way it will be read by others who will be able to address the issue.
--- (Edited on 10/1/2011 10:44 am [GMT-0500] by colbec) ---