Add QED particle creaction routines (#698)

* Initial work to add back QED particle generation

* Work in progress: port old QED routines

* Add two distinct CopyFuncs

* modified getMFItInfo and CopyFunc (not working)

* bugfixing & work to add back QED particle creation routines

* bugfixing

* added back quantum photon emission

* bugfixing

* bugfixing

* added back pair generation (still some bugs in photon emission)

* removed unwanted check

* bugfixing

* bugfixing

* bugfixing

* Moved QED folder

* added comments + some refactoring

* added comments

* remove some virtual functions to make lgtm happy

* updated tests

* added PhysicalParticleType

* bugfixing

* added copyright

* improved comments

* improved comments

* Update Source/Particles/ElementaryProcess/QEDPairGeneration.H

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

* Update Source/Particles/ElementaryProcess/QEDPairGeneration.H

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

* Update Source/Particles/ElementaryProcess/QEDPairGeneration.H

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

* Update Source/Particles/ElementaryProcess/QEDPairGeneration.H

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

* Update Source/Particles/ElementaryProcess/QEDPairGeneration.H

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

* Update Source/Particles/ElementaryProcess/QEDPairGeneration.H

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

* Update Source/Particles/ElementaryProcess/QEDPairGeneration.H

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

* Update Source/Particles/ElementaryProcess/QEDPairGeneration.H

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

* Update Source/Particles/ElementaryProcess/QEDPairGeneration.H

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

* moved inclusion of QEDInternals folder

* moved some inclusion directives between Make files

* moved some inclusion directives between Make files (forgot to add a file)

* Update Source/Particles/PhysicalParticleContainer.H

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

* Update Source/Particles/PhysicalParticleContainer.H

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

* Update Source/Particles/PhysicalParticleContainer.H

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

* Update Source/Particles/PhysicalParticleContainer.H

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

* Update Source/Particles/PhysicalParticleContainer.H

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

* Update Source/Particles/MultiParticleContainer.cpp

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

* Update Source/Particles/ElementaryProcess/QEDPhotonEmission.H

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

* Update Source/Particles/ElementaryProcess/QEDPhotonEmission.H

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

* Update Source/Particles/ElementaryProcess/QEDPhotonEmission.H

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

* Update Source/Particles/ElementaryProcess/QEDPhotonEmission.H

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

* Update Source/Particles/ElementaryProcess/QEDPhotonEmission.H

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

* Update Source/Particles/MultiParticleContainer.cpp

Co-Authored-By: MaxThevenet <mthevenet@lbl.gov>

* Update Source/Particles/MultiParticleContainer.cpp

Co-Authored-By: MaxThevenet <mthevenet@lbl.gov>

* Update Source/Particles/ElementaryProcess/QEDPhotonEmission.H

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

* Update Source/Particles/ElementaryProcess/QEDPhotonEmission.H

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

* Update Source/Particles/MultiParticleContainer.cpp

Co-Authored-By: MaxThevenet <mthevenet@lbl.gov>

* Update Source/Particles/MultiParticleContainer.cpp

Co-Authored-By: MaxThevenet <mthevenet@lbl.gov>

* Update Source/Particles/MultiParticleContainer.cpp

Co-Authored-By: MaxThevenet <mthevenet@lbl.gov>

* Update Source/Particles/MultiParticleContainer.H

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

* corrected alignment

* Update Source/Particles/ElementaryProcess/QEDPairGeneration.H

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

* removed some unnecessary amrex::

* add missing comment

* Replaced BL_PROFILE with WARPX_PROFILE

* bugfixing and making some variables const

* removed some moves

* removed some moves

* started to change tau into optical_depth_BW or optical_depth_QSR

* Using initialization policy to initialize optical depth

* bugfixing

* forgot to add a file

* fixed bug

* Revert "fixed bug"

This reverts commit a3fb98d10cc30327635aeaa71451a05ca2229ff4.

* Update Source/Particles/ElementaryProcess/QEDPairGeneration.H

Co-Authored-By: MaxThevenet <mthevenet@lbl.gov>

* Update Source/Particles/MultiParticleContainer.cpp

Co-Authored-By: MaxThevenet <mthevenet@lbl.gov>

* Added doQEDEvents to OneStep_sub1

* add a bunch of const

* add _rt suffix

* Update Source/Particles/MultiParticleContainer.cpp

Co-Authored-By: MaxThevenet <mthevenet@lbl.gov>

* added path to included files

* Introduced a templated AmIA<something> function using physical_species

* Update Source/Particles/ElementaryProcess/QEDPhotonEmission.H

Co-Authored-By: MaxThevenet <mthevenet@lbl.gov>

* Update Source/Particles/ElementaryProcess/QEDPhotonEmission.H

Co-Authored-By: MaxThevenet <mthevenet@lbl.gov>

* Update Source/Particles/ElementaryProcess/QEDPhotonEmission.H

Co-Authored-By: MaxThevenet <mthevenet@lbl.gov>

* added paths to included headers

* updated documentation

* updated examples

* bugfixing

* bugfixing

* fixing examples

* fixed example

* fixed example

* correct a misprint in error message

* fixed issue related to 1./mass for photons

* Update Source/Particles/MultiParticleContainer.cpp

Co-Authored-By: MaxThevenet <mthevenet@lbl.gov>

* Update Source/Particles/MultiParticleContainer.cpp

Co-Authored-By: MaxThevenet <mthevenet@lbl.gov>

* Update Source/Particles/MultiParticleContainer.cpp

Co-Authored-By: MaxThevenet <mthevenet@lbl.gov>

* Update Source/Particles/ElementaryProcess/QEDPhotonEmission.H

Co-Authored-By: MaxThevenet <mthevenet@lbl.gov>

* make the use of energy_threshold more transparent

* remove unnecessary checks

* bigfixing

* added comment

* separate checks for QED processes

* added a CheckIonizationProductSpecies for consistency

* bugfixing

* now using a new variable for photon energy creation threshold

* removed unwanted comment

* added option to set a user-defined threshold for photon creation

* bugfixing

* updated documentation

* updated example to include new option

* updated doc

* fixed merge conflict

* correct bug in example

* reorganized function

Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>
Co-authored-by: MaxThevenet <mthevenet@lbl.gov>

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