GitLab

fixing problem with 3D fieldmaps that start at z < 0; adjust its behavior in this respect to what the other fieldmap typed do

Transform particles first to the elements local coordinate system, then compute Particle-Matter interaction

ParallelTTracker. Particle-Matter interaction doesn't work either at the moment.

I hope that I didn't create too much of a mess when merging!

- There were some code changes done that were
  not part of Tulin's code. It got now also removed.
  All rest of AMR should be reusable.

modified:   src/Algorithms/ParallelTTracker.cpp
modified:   src/Algorithms/ParallelTTracker.h
modified:   src/Structure/FieldSolver.cpp
modified:   src/Structure/FieldSolver.h
modified:   src/Track/TrackRun.cpp
modified:   src/Track/TrackRun.h

modified:   CMakeLists.txt
modified:   src/Algorithms/ParallelTTracker.cpp
modified:   src/Algorithms/ParallelTTracker.h
modified:   src/CMakeLists.txt
deleted:    src/Solvers/amr/Accel.H
deleted:    src/Solvers/amr/Accel.cpp
deleted:    src/Solvers/amr/AccelBld.cpp
deleted:    src/Solvers/amr/AccelParticles.cpp
deleted:    src/Solvers/amr/Accel_F.H
deleted:    src/Solvers/amr/Accel_advance.cpp
deleted:    src/Solvers/amr/Accel_error.cpp
deleted:    src/Solvers/amr/Accel_error_F.H
deleted:    src/Solvers/amr/Accel_output.cpp
deleted:    src/Solvers/amr/Accel_setup.cpp
deleted:    src/Solvers/amr/BoundaryDomain.h
deleted:    src/Solvers/amr/CMakeLists.txt
deleted:    src/Solvers/amr/Derive_F.H
deleted:    src/Solvers/amr/ElectroMagneticParticleClass.H
deleted:    src/Solvers/amr/Electrostatic.H
deleted:    src/Solvers/amr/Electrostatic.cpp
deleted:    src/Solvers/amr/Electrostatic_F.H
deleted:    src/Solvers/amr/ExternalFields.cpp
deleted:    src/Solvers/amr/ParticleDerive.cpp
deleted:    src/Solvers/amr/Src_3d/Derive_3d.f90
deleted:    src/Solvers/amr/Src_3d/Electrostatic_3d.f90
deleted:    src/Solvers/amr/Src_3d/Make.package
deleted:    src/Solvers/amr/Src_3d/Nyx_3d.f90
deleted:    src/Solvers/amr/Src_3d/ProbInit.f90
deleted:    src/Solvers/amr/Src_3d/Tagging_3d.f90
deleted:    src/Solvers/amr/Src_3d/bc_fill_3d.f90
deleted:    src/Solvers/amr/TrilinosSolver.cpp
deleted:    src/Solvers/amr/TrilinosSolver.h
deleted:    src/Solvers/amr/init_trilinos.cpp
deleted:    src/Solvers/amr/main.cpp
modified:   src/Structure/FieldSolver.cpp
modified:   src/Structure/FieldSolver.h
modified:   src/Track/TrackRun.cpp

     to compile with the "amrcore" branch of BoxLib.

We had to comment several lines of the following files:

modified:   src/Algorithms/ParallelTTracker.cpp
modified:   src/Solvers/amr/ElectroMagneticParticleClass.H
modified:   src/Solvers/amr/Electrostatic.cpp
modified:   src/Solvers/amr/ParticleDerive.cpp
modified:   src/Track/TrackRun.cpp

Correctly handle multiple degraders and multiple degraders that follow each other, min particles per core set back to 0

Workaround to run the degrader and not break the regressiontests. This is TEMPORARLY until we have understood the problem and At THE SAME TIME satisfy our users

- emitSecondaryFurmanPivi(): interface changed

- adapted to changed interface of BoundaryGeometry::emitSecondaryVaughan()
- whitespace changes

This reverts commit 90dc2956.

- Expressions: adding error function
- LossDataSink: we are using git
- OpalBeamline: let Autophase tracker smoothly (i.e. don't throw a segmentation fault) even if there are no cavities
- ParallelTTracker: don't save phase space after last step if saved at end of last step

- fix bug in collection of all sections with surface physics - slightly improve performance of CollimatorPhysics::deleteParticleFromLocalVector()