Implicit, Fokker-Planck, self collisions for ion species - #353

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mrhardman wants to merge 169 commits into

implicit-fp-collisions-precon-debug

Commits on Feb 21, 2025

Input file for implicit advance of ion collisions only.
mrhardman
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ff0226b
Update post processing to be consistent with new flag "warn_unexpected". See comment in issue #323.
mrhardman
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c6644ad
Changes to start trying to use the JFNK solver by J. Omotani for advancing standard kinetics with FP collisions.
mrhardman
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cd84df2

Commits on Feb 26, 2025

Commits on Feb 27, 2025

Commits on Mar 3, 2025

Add initial prototype preconditioner matrix based on the linearised test-particle operator C[dF,F0].
mrhardman
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3ca3907

Commits on Mar 4, 2025

Prototype version of code using preconditioner -- generates NaNs at 43rd iteration.
mrhardman
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e0c7120

Commits on Mar 5, 2025

Attempt to refactor the precondition matrix option in an attempt to debug it.
mrhardman
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3f44b6c

Commits on Mar 6, 2025

Commits on Mar 9, 2025

Temporarily disable NCDatasets in some CI tests
johnomotani
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7d1982b
Install NCDatasets in 'debug checks' CI test
johnomotani
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6e28085

Commits on Mar 10, 2025

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Commits on Apr 9, 2025

Changes to support bc = "zero" for vpa and vperp. These changes allow a mix of "zero" and "none" boundary conditions, but no other conditions are supported. An error exception is added to remind th…
mrhardman
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a6c0930

Commits on Apr 10, 2025

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Commits on Apr 25, 2025

Merge pull request #354 from mabarnes/implicit-fp-collisions-refactor-inputs
mrhardman
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d0b79f0

Commits on Apr 28, 2025

Use preconditioner for FP implicit collisions by default.
mrhardman
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364587d
Simple time diagnostics in test_scripts/ImplicitCollisionsTest.jl
mrhardman
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c2d0613
Change from CRLF to LF line endings.
mrhardman
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8d59ac2

Commits on May 1, 2025

Handle old implicit ion flags in update-input-file.jl
johnomotani
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639c666

Commits on May 2, 2025

Make `use_test_particle_preconditioner` in `[fokker_planck_collisions]` for users to switch between using or not using the preconditioner for collisions.
mrhardman
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8b38463

Commits on May 6, 2025

Update moment_kinetics/src/moment_kinetics_input.jl

mrhardman
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johnomotani
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f3b9c2f
Update moment_kinetics/src/nonlinear_solvers.jl

mrhardman
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johnomotani
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b57db14
Update moment_kinetics/src/nonlinear_solvers.jl

mrhardman
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johnomotani
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5e69885
Update moment_kinetics/src/nonlinear_solvers.jl

mrhardman
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johnomotani
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14388a8
Update moment_kinetics/src/nonlinear_solvers.jl

mrhardman
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johnomotani
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a41c65d
Update moment_kinetics/src/nonlinear_solvers.jl

mrhardman
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johnomotani
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e1b2e98
Update moment_kinetics/src/nonlinear_solvers.jl

mrhardman
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johnomotani
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0bb4cce
Update moment_kinetics/src/nonlinear_solvers.jl

mrhardman
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johnomotani
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64ec7f0
Update moment_kinetics/src/nonlinear_solvers.jl

mrhardman
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johnomotani
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4528d57
Update moment_kinetics/src/nonlinear_solvers.jl

mrhardman
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johnomotani
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51ba7c9
Update moment_kinetics/src/nonlinear_solvers.jl

mrhardman
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johnomotani
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852ee61
Update moment_kinetics/src/nonlinear_solvers.jl

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johnomotani
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9c1b720
Update moment_kinetics/src/fokker_planck.jl

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johnomotani
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294a725
Update moment_kinetics/test/fokker_planck_time_evolution_tests.jl

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johnomotani
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9d6cf2c
Update moment_kinetics/test/fokker_planck_tests.jl

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johnomotani
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257338b
Update moment_kinetics/test/fokker_planck_tests.jl

mrhardman
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johnomotani
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cb109d6
Update moment_kinetics/src/nonlinear_solvers.jl

mrhardman
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johnomotani
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110d60b
Update moment_kinetics/src/nonlinear_solvers.jl

mrhardman
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johnomotani
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5f484dc
Update moment_kinetics/src/nonlinear_solvers.jl

mrhardman
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johnomotani
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88216f7
Update moment_kinetics/src/nonlinear_solvers.jl

mrhardman
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johnomotani
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2110591
Update moment_kinetics/src/nonlinear_solvers.jl

mrhardman
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johnomotani
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9d1492e
Remove change in workflows w.r.t. master.
mrhardman
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40c987b
Merge branch 'implicit-fp-collisions-precon-debug' into implicit-fp-collisions-sensible-preconditioner-defaults
mrhardman
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963f82f
Merge pull request #357 from mabarnes/implicit-fp-collisions-sensible-preconditioner-defaults
mrhardman
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f6d4af4

Commits on May 7, 2025

Initial attempt to merge master into #353. Expect tests to fail.
mrhardman
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34f13f7

Commits on May 8, 2025

Align whitespace in print.
mrhardman
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cb38555
Update input.
mrhardman
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e215da5
Correct factor of 2 in correction terms due to redefinition of qpar.
mrhardman
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e713c33
Relax atol for tests from 1e-14 to 2e-14, perhaps reasonable now that normalisations are changed.
mrhardman
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3c3c89d
Explicit test of conserving_corrections!() where corrections are not small.
mrhardman
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d6bdced
Attempt to fix makie_post_processing test script.
mrhardman
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50b0ac4
Use F_Beam() in appropriate locations.
mrhardman
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e277f2c
Add facility for inspecting qpar and allow initial condition a nonzero qpar, if abs(zbeam) > 0, zbeam /= 1.
mrhardman
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6086c33
Relax atol for rmom.
mrhardman
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5593ea4

Commits on May 9, 2025

Commits on May 12, 2025

Commits on May 13, 2025

Only calculate preconditioner on process 0, trim trailing whitespace.
mrhardman
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5035ad1
Remove unused function.
mrhardman
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ab45bf5

Commits on Jun 16, 2025

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Commits on Jul 13, 2025

Merge pull request #382 from mabarnes/implicit-fp-collisions-precon-debug-parallelise-precon-construction
johnomotani
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9a70eb9