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Implement an iterative Poisson solver#69

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pbartholomew08 wants to merge 130 commits intoxcompact3d:mainxcompact3d/x3d2:mainfrom pbartholomew08:44-poisson-solver-iterative-solverpbartholomew08/x3d2:44-poisson-solver-iterative-solverCopy head branch name to clipboard

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Commits on Feb 19, 2024

• Add a Poisson solver selection mechanism.

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• Implement a dedicated class for the FFT based Poisson solver.

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• Store compact scheme coefficients in tdsops class.

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• Store domain length and dx in dirps_t.

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• Change the way we initialise poisson_fft class.

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• Construct the waves array for all periodic BCs.

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• Create cufft plans.

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• Add postprocessing in spectral space.

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Commits on Feb 20, 2024

• Merge branch 'poisson' into 44-poisson-solver-iterative-solver

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• Ignore emacs project configuration file

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• Merge branch 'main' into 44-poisson-solver-iterative-solver

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Commits on Feb 29, 2024

• Add a Poisson solver selection mechanism.

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• Implement a dedicated class for the FFT based Poisson solver.

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• Store compact scheme coefficients in tdsops class.

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• Store domain length and dx in dirps_t.

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• Change the way we initialise poisson_fft class.

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• Construct the waves array for all periodic BCs.

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• Create cufft plans.

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• Add postprocessing in spectral space.

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• Store plans at poisson_fft class level.

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• Add forward FFT transforms.

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• Add backward FFT transforms.

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• Fix allocation size of the waves array on GPU.

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• Change shape of the c_x/y/z arrays.

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• Add postprocessing kernel call.

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• Add complex reordering functions.

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• Call complex reordering functions in forward and backward FFTs.

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• No need to initialise backends with dirps any more.

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• Cleanups.

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Commits on Mar 1, 2024

• Cleanup and style fix.

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• Add reshape subrotines for transposing pencil groups.

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• Use reshapes to carry out local transposes.

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• Change the Poisson solver selection mechanism.

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• Add initial conditions for TGV.

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Commits on Mar 4, 2024

• Merge branch 'poisson' into 44-poisson-solver-iterative-solver

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• Add configure option to select FFT or Iterative Poisson solver

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• Find and link PETSc

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Commits on Mar 5, 2024

• Outline the skeleton of the iterative solver class

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• Make the possmult subroutine iterative-solver independent

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Commits on Mar 7, 2024

• Merge branch 'main' into 44-poisson-solver-iterative-solver

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Commits on Mar 8, 2024

• Remove dirps from backend initialisation (correcting merge)

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• Remove redefinition of simulation parameters

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Commits on Mar 9, 2024

• Move the PETSc definitions to a PETSc-specific submodule

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Commits on Mar 18, 2024

• Merge branch 'main' into 44-poisson-solver-iterative-solver

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• Ensure POISSON_SOLVER is set in CMakeLists before testing value

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Commits on Mar 22, 2024

• Merge branch 'main' into 44-poisson-solver-iterative-solver

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Commits on Apr 2, 2024

• Merge branch 'main' into 44-poisson-solver-iterative-solver

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• Indent consistently with fprettify

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Commits on Apr 3, 2024

• Add PETSc->x3d2->PETSc operations

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• Remove out of date comment

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Commits on Apr 30, 2024

• Merge branch 'main' into 44-poisson-solver-iterative-solver

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Commits on May 3, 2024

• Implement test for Laplacian operator

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Commits on May 13, 2024

• Make the CG/Laplacian test serial for now

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Commits on Jun 21, 2024

• Add test for Laplacian with variable field

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• Merge branch 'main' into 44-poisson-solver-iterative-solver

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• Bump the Fortran standard to F2018 for GNU compilers

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• Merge branch 'update-to-F2018' into 44-poisson-solver-iterative-solver

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• Merge branch 'main' into 44-poisson-solver-iterative-solver

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Commits on Jun 24, 2024

• Update PETSc/CG solver to use mesh object

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• Cleanup PETSc/Poisson solver

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• Correct typo in CG test

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Commits on Jun 26, 2024

• Implement OMP scalar product

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• Implement vecAdd

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• Add error messages to mesh dims getters

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• Implement OMP sum_yintox

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• Implement OMP sum_zintox

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• Implement vecadd and scalar product in vectorised form

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• Make sure inner loop indices are private

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• Run fprettify

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Commits on Jun 27, 2024

• Merge branch '93-implement-omp-backend-for-basic-math-operators' into 44-poisson-solver-iterative-solver

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Commits on Jul 3, 2024

• Merge branch 'main' into 44-poisson-solver-iterative-solver

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• Rewrite Poisson/CG test to support refinement

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Commits on Jul 8, 2024

• Poisson CG test passes for varying field

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• Improve CG/Poisson test

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• Ensure test status is always set in Poisson/CG Laplacian test

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Commits on Jul 21, 2024

• Simplify the Poisson_CG interface

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• Update the Poisson object

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• Fix error in backend

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• Pass backend (target) through Poisson CG

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• Allocate backend in CG test

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• Give up passing matrix context and use a module global

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• Remove debug prints

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• Refine matrix through test

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• Rewrite Poisson CG to run in DIR_Z orientation

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• Add a 7-point star preconditioner (WIP)

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• Analytical solution and RHS were back to front

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Commits on Jul 22, 2024

• Correct order of setting mat options

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• Check if PETSc is initialised (for convergence testing, etc)

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• Finalise PETSc in test

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• Initialise PETSc properly

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Commits on Jul 24, 2024

• Set Null space on Poisson matrices

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Commits on Jul 25, 2024

• Merge branch 'main' into 44-poisson-solver-iterative-solver

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Commits on Jul 30, 2024

• Update iterative Poisson solver to latest x3d2 and begin parallelisation

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• Correct solver setup - use O6 operator, O2 preconditioner

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• Revert to serial preconditioner for time being

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• Clean up test

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• Integrate CG Poisson with solver -- serial only

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• Nonzero initial guess goes faster

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Commits on Aug 26, 2024

• Implement halo->global map for PETSc/Poisson preconditioner

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Commits on Sep 2, 2024

• Correct local counter for index map

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• Correcting how the local map is built

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• Correct seeting entries in the matrix

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• Fix deadlock issue in preconditioner definition

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Commits on Oct 21, 2024

• Resolve parallel indexing issues for PETSc

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Commits on Oct 28, 2024

• Test the Poisson solver in parallel

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Commits on Nov 5, 2024

• Generalise the Poisson evaluation test to work with generic linear operators

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Commits on Nov 12, 2024

• Correct preconditioner indices

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Commits on Dec 2, 2024

• Integrate preconditioner class and CG class

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• Documenting the Poisson/CG code

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Commits on Feb 10, 2025

• Enable building the project without PETSc

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• Silence unused compiler warnings

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• Enable running the high-order Poisson operator tests without PETSc

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• Merge branch 'main' into 44-poisson-solver-iterative-solver

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• Correct Laplacian implementation by setting BCs...

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• Apply fprettify

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• Re-apply fprettify

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• Remove submodules (CG/dummy) build

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Commits on Feb 11, 2025

• Remove submodules (CG/petsc) build

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Commits on Feb 13, 2025

• Test change of field location due to set_field_data

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• Correct set_field_data implementation to prevent changing the field's location

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• Correcting test

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• Remove unused variables from test

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Commits on Feb 17, 2025

• Correct extracting array shape in field set tests

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• Merge branch '156-calling-set_field_data-drops-fields-data-location-when-it-reorders' into 44-poisson-solver-iterative-solver

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Commits on Feb 18, 2025

• Implementing div(grad) in vector calculus for Poisson solver

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• WIP: Implement 27-point Poisson preconditioner

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Commits on Feb 23, 2025

• Implement 27-point preconditioner based on PETSc DMDA

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Commits on Feb 27, 2025

• 27-point stencil application working in serial

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• Fix DMDA vector interactions

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Commits on Mar 3, 2025

• Correct pointer use in PETSc solver

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