manuals: Updates to reflect that MACHINE defaults to qemux86-64

meta-yocto commit 69ddecdb1516 [local.conf.sample: change default
MACHINE to qemux86-64] switched the default MACHINE from 'qemux86' to
'qemux86-64' but some documents which either explicitly mentioned the
default, or where this was implicit didn't receive an equivalent
update.

Where it made sense we continue this change in default to the docs. In
other places, such as the kernel-dev manual, we note the new default
and instruct the user how to switch back to 'qemux86'. Eventually we
should probably update the kernel-dev manual to use the default, but
for now the intention was to limit the impact of these changes.

Note that ext3 has also been replaced with ext4 for image generation,
so while we are modifying runqemu lines to qemux86-64 we also make the
change to reference ext4 such that the runqemu commands will function
properly.

(From yocto-docs rev: 8c1d8ab1170f47a2c2692beb903ab0b7c6835b7b)

Signed-off-by: Mark Asselstine <mark.asselstine@windriver.com>
Signed-off-by: Richard Purdie <richard.purdie@linuxfoundation.org>

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