Memory test PR - #3

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jhmatthews wants to merge 36 commits into

jhmatthews:memory-formattingfrom

sirocco-rt:memory

Commits on Mar 19, 2026

Split plasma_dummy and macro_dummy into sub-structs for future

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0627182

Commits on Mar 20, 2026

Modernize function declarations: remove K&R style and empty-paren prototypes

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1c9d1ff
Update developer docs to describe plasma/macro sub-struct memory model

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78d50ad

Commits on Mar 21, 2026

Implement MPI-3 shared memory for plasma/macro dynamic arrays

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96cc54c
Move fixed-size plasma arrays to shared contiguous blocks

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7a00daf
Dynamically size n_bf_in/n_bf_out to nphot_total instead of N_PHOT_PROC=500

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a6d5c65
Share wind struct (wmain) via MPI-3 shared memory

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5819f9d
Dynamically size cell_spec_flux with -cell_spec_dim flag

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9362f1f

Commits on Mar 22, 2026

Share matom_matrix via MPI-3 shared memory

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c1f4f6c
Reduce peak transient memory in macro-atom communication

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641647a

Commits on Mar 31, 2026

Work around macOS MPI-3 shared-memory SEGV_ACCERR for wmain

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7595621

Commits on Apr 1, 2026

Convert K&R function definitions to modern prototypes

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bf727a1
Fix remaining warnings in make all (MPI build)

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dc217a8

Commits on Apr 8, 2026

Add a big disk to regress3d
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b070ade

Commits on Apr 16, 2026

Fix unit tests for memory branch restructuring

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839087e

Commits on Apr 17, 2026

Remove agn_cyl_big.pf from memory (belongs on xmem3d branch)

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d036427
Merge origin/dev into memory, keeping memory's run_check.py fixes

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7a496fb
Fix MPI shared-memory race conditions and clean up unit test warnings

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3e579f0

Commits on Apr 18, 2026

Rename mpi_comms.rst to mixed_memory_model.rst and restructure

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7d7056d

Commits on Apr 20, 2026

Fix rad_hydro_files MPI initialization for memory branch

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4fe09bf

Commits on Apr 21, 2026

Fix macOS load warnings, windsave shared-memory bug, and add C executables docs

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201594e

Commits on May 5, 2026

Standardize regression_plot.py try/except to polar version

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cf7ec00

Commits on May 17, 2026

Mpich (#1182)
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c0c3fbb

Commits on May 18, 2026

Mpich and rad_hydro (#1183)
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a496ccf

Commits on May 26, 2026

Merge branch 'dev' into memory
jhmatthews
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6aa1e45

Commits on Jun 6, 2026

Fix: spherical_ds_in_cell infinite loop at outer cell boundary

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57da495
Fix: two bugs in velocity gradient computation (gradv.c)

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4474ed9
Fix: move ext.txt to diag folder; only open when actually needed

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47982be
Fix: correct spherical_ds_in_cell cherry-pick for memory branch

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4032349
Add macro2simple.py: convert macro-atom atomic data to simple-atom format

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3878576

Commits on Jun 17, 2026

Add ConvertMacro2Simple.py: camel-case copy of macro2simple.py for macOS

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aefa080
Remove macro2simple.py: replaced by ConvertMacro2Simple.py

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2502208
Add CLAUDE.md: rule against case-only filename differences for macOS compat

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3c68041
Update CLAUDE.md: replace stub with full project documentation

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4c990a0

Commits on Jun 18, 2026

Fix cell_spec_flux persistence and -cell_spec_dim for new runs

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e1287e0

Commits on Jul 7, 2026

Merge branch 'dev' into memory2607
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4b076b5