The sample programs amqsput/amqsputc will put each line of the file as a separate message. The AMI has sample programs that do file transfer over MQ. A search for 'File to Message MQ' returns lots of hits in search engines.
Another easy way to do this is the MA0P supportpac - MQSeries FTP Client, if you want to do it from a script. There are lots of other options, see these urls, or try a search on this site.
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