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[WIP] Fractal with bconds#486

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pdziekan wants to merge 133 commits intoigfuw:masterigfuw/libmpdataxx:masterfrom pdziekan:fractal_with_bcondspdziekan/libmpdataxx:fractal_with_bcondsCopy head branch name to clipboard

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Commits

Commits on Feb 28, 2022

• sgs_fra solver declaration

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Commits on Mar 1, 2022

• wip on fractal refinement

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Commits on Mar 2, 2022

• working allocation of refined arrays

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• refined grid size dependant on the number of fractal reconstructions

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• fix refine_grid_size()

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• mem_factory function

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• consitional choice of shmem / shmem_refined

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Commits on Mar 3, 2022

• consitional choice of shmem / shmem_refined - upgraded

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• working shmem / shmem_recon stuff? (openmp and 3d only for now)

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• solver_family protected again + solver doesnt inherit from family tag

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• use mem_factory in all concurr types

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• second ctor for shmem_refined in mem_t in each concurr type

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• alloc tmp with custom grid size in 1d and 2d

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Commits on Mar 7, 2022

• hdf5: store refined data

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• xmf: record refined aux

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• hdf5: store refined X,Y,Z TODO: make it conditional

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• xmf writer: add reference writing

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• xmf: write refined data using separate xmf_writer

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Commits on Mar 15, 2022

• Merge branch 'master' of github.com:igfuw/libmpdataxx into fractal

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Commits on Mar 16, 2022

• fix grid size refinement strategy

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• wip on refinement: fixed positions in output, added refined ijk

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Commits on Mar 17, 2022

• refined fields without halos

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• refined grid: halo of n_ref/2

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• Revert "refined grid: halo of n_ref/2"

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• wip on refined interpolation

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Commits on Mar 18, 2022

• wip on interpolation

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• interpolation: hardocode two iterations, still no interpolation at sharedmem and MPI boundaries

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Commits on Mar 21, 2022

• wip on interpolation at edges

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Commits on Mar 31, 2022

• shmem_ref: require grid size that makes fractal reconstruction easier

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• refinement: wip

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Commits on Apr 1, 2022

• refinement: fix interpolation for distmem!

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Commits on Apr 19, 2022

• working interpolation of scalars

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• pbl: refine u too

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Commits on Apr 20, 2022

• fra rec wip

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• fra rec in 3 steps:

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• fra rec wip

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Commits on Apr 21, 2022

• fra rec wip

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Commits on Apr 25, 2022

• fra rec wip

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• new ref ranges working interpolation

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• cleanup

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• cleanup + wip on reconstruction

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Commits on Apr 26, 2022

• working reconstruction? at least for 1 iteration

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• working recon, at least 1 iter

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Commits on Apr 27, 2022

• working recon

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• reconstruction and interpolation: move similar code to functions

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Commits on Apr 28, 2022

• random stretching parameter

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Commits on Apr 29, 2022

• move fractal reconstruction formulas to formulae/

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• Revert "move fractal reconstruction formulas to formulae/"

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• Revert "Revert "move fractal reconstruction formulas to formulae/""

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• pbl smg: set fra iter

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• pbl smg: fra iter 4

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Commits on May 4, 2022

• alloc refined arrays only for required advectees

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Commits on May 9, 2022

• grid refinement: refined boundary in the middle between mpi domains

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• cleanup

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Commits on Jun 6, 2022

• comments

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Commits on Sep 27, 2022

• include <random> in fractal reconstruction

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• stop on first compilation error in Debug mode

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• sgs fra make typdefs public

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Commits on Sep 28, 2022

• hdf5 output: handle sgs_fra family tag

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• domain decmposition functions static

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• add hook_ante_record_all

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• hook_pre_record_all -> hook_ante_record_all

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• barrier in output common

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Commits on Sep 30, 2022

• interpolate ref: dont calc stretchin params

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Commits on Oct 3, 2022

• record prof refined

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Commits on Oct 5, 2022

• comment

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• formulae for averaging from refined to regular grid

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• formulae for averaging from refined to regular grid: working but without bcond

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Commits on Oct 18, 2022

• averaging from refined to regular: fixes for edge cells

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Commits on Oct 19, 2022

• hdf output: record_aux_refined

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• refined arrays: add halo size 1

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Commits on Oct 21, 2022

• additional set of bconds for refined arrays

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• TEMP: add refinement to pbl

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• concurr_reg for separate init()

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Commits on Oct 24, 2022

• refined courant spatial interpolation

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Commits on Oct 25, 2022

• reconstruction: barrier after stretching parameters are created

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Commits on Oct 26, 2022

• fix remote refined bconds

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Commits on Oct 27, 2022

• mpi grid refinemet wip

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Commits on Oct 28, 2022

• xchng_ref

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• delete debug output

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Commits on Nov 24, 2022

• for doubles use mt19937_64

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• do not generate stretching parameters at each reconsteuction, make user do it

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• do not generate stretching parameters at each reconsteuction, make user do it

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Commits on Nov 30, 2022

• track conc_reg

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• Merge branch 'fractal_with_bconds' of github.com:pdziekan/libmpdataxx into fractal_with_bconds

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• fixes for non-mpi compilation

  

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Commits on Mar 8, 2023

• comment

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• comment

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Commits on Mar 9, 2023

• negative reconstructuion dbg

  

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• fix neg recon debug

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• Merge branch 'master' into fractal_with_bconds

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Commits on Mar 10, 2023

• record prof const for refined

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Commits on Mar 13, 2023

• record prof hlpr assert fix

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Commits on Mar 14, 2023

• fractal: remove tabs

  

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• fractal neg dbg: print d

  

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• fractal neg dbg: comment it out

  

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Commits on Mar 22, 2023

• hdf and hdf5_xdmf: wip on specializations for solvers with refinemenet

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• Merge branch 'fractal_with_bconds' of github.com:pdziekan/libmpdataxx into fractal_with_bconds

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• hdf5_xdmf: ctor fix

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• hdf5: move _ref output to ref specialization

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Commits on Mar 23, 2023

• hdf5: move _ref output to ref specialization: aux_dsc

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• record aux dsc hlpr ref/nonref separation

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• cd hdf5_ref ...

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• cd hdf5_ref ...

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• record aux dsc hlpr ref/nonref separation

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Commits on Mar 24, 2023

• record aux dsc hlpr ref/nonref separation: compiling version (3D only)

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Commits on Mar 27, 2023

• ref hdf5 fixes

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Commits on Apr 3, 2023

• fill refinee distmem only if distmem size > 1

  

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• xchng_ref after generating d_j

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Commits on Apr 5, 2023

• use halo in spatial_avergae_ref_2_reg; TODO: if it works, grid_size is not needed

  

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Commits on Apr 6, 2023

• Revert "use halo in spatial_avergae_ref_2_reg; TODO: if it works, grid_size is not needed"

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• spatial average r2r weighting: account for domain edges

  

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Commits on Apr 7, 2023

• add avg_edge_sclr_ref and spatial_average_ref2reg

  

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• avg_edge_sclr_ref and spatial_average protected

  

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• remove nancheck

  

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Commits on Apr 11, 2023

• DBG: dont do spatial averaging ref_2_reg, just copy corresponding cells

  

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• Revert "DBG: dont do spatial averaging ref_2_reg, just copy corresponding cells"

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• Revert "Revert "DBG: dont do spatial averaging ref_2_reg, just copy corresponding cells""

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Commits on Apr 12, 2023

• do avg_edge_sclr_ref after refinemenet/interpolation

  

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Commits on Apr 13, 2023

• more barriers in refine/interpolate

  

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Commits on Apr 18, 2023

• full spatial_ref_2_reg

  

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Commits on Apr 19, 2023

• Revert "full spatial_ref_2_reg"

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Commits on Apr 21, 2023

• Revert "Revert "full spatial_ref_2_reg""

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Commits on Apr 25, 2023

• stretching parameters from E. Akinlabi: move the to separate namespace

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• for reference, include the stretching parameter data from E. Akinlabi

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• include the stretching parameter data from M. Waclawczyk

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• add a readme to stretching parameters from Marta

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• stretchin parameters from LES data: formulae for th subsat

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• formulae: move stretchng parameters to separate file

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• other stretching parameters WIP: check distribution of values, seems to bo a lot of extremes

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Commits on Apr 26, 2023

• Marta's stretch params: dat->hpp

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• add other stretching parameters from Marta

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Commits on May 17, 2023

• new stretch params: LES supersat, but halved

  

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