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Have you tried to debug this function? there is no error here in the code as far as I can see - does the file actually exist? does it actually get opened? what you describe could happen if the loop never runs because it cannot find the file.
Try putting some report statements in code for debug.
One a second note: quartus does not support using textio for initialising constants. So this code cannot be synthesised.
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Hm, I found a problem with the array index which solved the file loading problem in ModelSim.
But that Quartus does not support textio is bad, so I will have to change my Matlab script to produce VHDL code. Are their any information available when Quartus will support textio?
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