As ffmpeg compilation might varies by default in your distro, this one is tested on 16.04. Else you can happily recompile ffmpeg from git with your preferred flag
for i in `ls -1 *.m4v`;do ffmpeg -i $i -acodec copy -vcodec copy `basename $i .m4v`.mp4;done
for i in `ls -1 *.m4v`;do ffmpeg -i $i -acodec copy -vcodec copy `basename $i .m4v`.mp4;done
Yeah, I knew. ffmpeg rocks!
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