sci-libs/vtk: improve all-modules USE flag

- add missing flags to REQUIRED_USE
- add new mysql USE flag - needed by all-modules, adds new dependency on
	dev-db/mysql-connector-c. Dev-db/mariadb-connector-c isn't supported
	by this version. Fix an issue with using of deprecated my_bool when
	using mysql-connector-c.
- remove xdmf2 USE flag, block sci-libs/xdmf2 with all-modules:
	sci-libs/xdmf2 doesn't ship any cmake configuration files, which leads
	to configuration errors when trying to build against external xdmf2
- block sci-libs/xdmf2: when built against internal xdmf2, there are header
	file collisions with the header files installed by sci-libs/xdmf2
- add dependency on sci-libs/kissfft, bug #754684) and drop bundled
- fix an issue with xdmf3 library being installed in both library locations,
	lib and lib64
- fix QA issues with RPATH
- byte compile python files
- disable searching for zfp (no package in tree)
- addresses some QA issues with defined but unused cmake variables: fixing all
	of them would need a thorough testing of each single USE flag and checking
	where these belong to, in this over-complex build system (bug #660582)

Closes: https://bugs.gentoo.org/793839
Closes: https://bugs.gentoo.org/754684
Closes: https://bugs.gentoo.org/646846
Bug: https://bugs.gentoo.org/660582
Package-Manager: Portage-3.0.19, Repoman-3.0.3
Signed-off-by: Bernd Waibel <waebbl-gentoo@posteo.net>
Signed-off-by: Sam James <sam@gentoo.org>

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