Add a few additional diags (divE etc.) (#844)

* Start implementation of new averaging with staggering:

- face-to-cell-center and edge-to-cell-center replaced so far;
- TODO: node-to-cell-center and 1D behavior (AMREX_SPACEDIM=1).

* first implementation of Diags base classes

* add example, temporarily

* Continue implementation of new averaging with staggering:

- new function takes reference to single MultiFab (no vector);
- TODO: node-to-cell-center still in progress.

* Fix small bug and clean up

* Fix bug in loop over n=0,...,ncomp-1 and clean up

* add more functions

* Add Doxygen documentation and clean up

* Small clean-up in Doxygen documentation

* Compile in single precision: add _rt suffix to avoid unnecessary conversions

* Avoid accessing staggering index directly from IntVect in innermost loops

* Replace do-while loop with for loop (default ncomp=1)

* Remove temporary pointer and pass reference to MultiFab (instead of MultiFab*)

* Replace AMREX_LAUNCH_HOST_DEVICE_LAMBDA with ParallelFor

* cleaning and initialize output mf

* use general average routine

* move flush in new class, and implemented the Plotfile derived class

* add comments

* eol

* free memory in destructor

* typo

* typo

* no need to clear MF pointers there

* though shalt not break existing tests

* FlushRaw doesnt have to be virtual for now

* The importance of being constant

* Capability to select fields in output files

* EOL

* revert to old inputs

* const in right place

* avoid brace initializer there

* oops, fix logic error in is_in

* user can choose flush interval, same behavior as plot_int

* Add option to plot raw fields

* eol

* replace ter flush with dump to avoid confusion

* add options

* Diagnostics stores a vector of functors to compute diags on the fly

* eol

* Field gather from diags to sync particle quantities

* New diagnostics handle RZ with same behavior as old ones

* cleaning and doc

* const ref for string

* smarter for loop from Axel and typo fix from Reva

* Functors to compute some fields

* simplify code following Dave's comments

* Create subfolders and add more output options (divE etc.)

* eol

* rename mode_avg to convertRZmodes2cartesian

* Update CellCenterFunctor.H

* fill varnames and vector of functors at the same time

* output rho_new, not rho_old

* WarpX instance not needed here

* add const

* little bit more of reorganization

* Apply suggestions from code review

Co-Authored-By: Axel Huebl <axel.huebl@plasma.ninja>

* add a bunch of const

* make derived classes final

Co-authored-by: Edoardo Zoni <ezoni@lbl.gov>
Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>

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