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I tried this a year or so ago and as I remember I got a "EPCS32" choice in the Configuration device box of the Convert programming files menu. I can not get that choice now. I have tried on QUARTUS 9.1 and 13.1
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Have you recently upgraded to a newer version of Quartus? When Quartus installs a new version, it will create an entirely new folder, so you will have to find the new directory for the version that you are using and add a quartus.ini file in the bin directory there too. Additionally, if you are using a 64-bit operating system then the .ini file should be placed in the bin64 folder.
To be consistent, keep a copy of the quartus.ini file in each bin folder of each version.
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