This change consists of two relatively independent parts, but they are
both about handling the granularity, so bundling them together.

First, in #415 there is a discussion that having a granularity mode by
source lines but with inlines hidden would be useful. The agreement is
also that adding `-linenoinlines` granularity would make the granularity
flags too messy (and they are already somewhat messy with `-addresses`
and `-addressnoinlines`. So, it was proposed to make `-noinlines` a
separate flag, which is what this change does. Note that the flag is now
pulled out of the granularity group so it's a bit of backward
incompatible change but I think it is acceptable. For the example in
issue #415 the user would now be able to specify `-list foo -noinlines`
to produce annotated source where the metrics from the inlined functions
are attributed to the calling inliner line.

With this change, I am also dropping the `-addressnoinlines` granularity
which is now supported as `-addresses -noinlines` combination. I
couldn't find any usage of this option at least internally at Google, so
I think it's safe to remove it.

Second, I am adding a separate `-filefunctions` granularity which groups
the data by both function and file. This is a follow-up to #110 from the
past where we changed the `-functions` granularity to not group by file
(it used to), and since then there was a couple of reports where using
just function name alone would over-aggregate the data in cases when a
function with the same name is contained in multiple source files (e.g.
see b/18874275 internally).

Also, make a number of assorted documentation and `-help` fixes.