Fix silent contact-matrix/transmission-mode misattribution#20

Merged

mtcorread merged 23 commits into

IDAS-Durham:mainfrom

gavdoubleu:default_contact_matrix_fix

Jul 24, 2026

Commits on May 28, 2026

Add conda environment.yml
gavdoubleu
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Commits on Jun 10, 2026

Merge branch 'main' of https://github.com/IDAS-Durham/JUNE2
gavdoubleu
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Commits on Jun 29, 2026

Merge branch 'main' of https://github.com/IDAS-Durham/JUNE2
gavdoubleu
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Commits on Jul 7, 2026

Merge branch 'main' of https://github.com/IDAS-Durham/JUNE2
gavdoubleu
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Commits on Jul 14, 2026

Merge branch 'main' of https://github.com/IDAS-Durham/JUNE2
gavdoubleu
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Commits on Jul 17, 2026

Merge branch 'main' of https://github.com/IDAS-Durham/JUNE2
gavdoubleu
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Commits on Jul 22, 2026

Rewrite test fixtures off ContactMatrixConfig::default_contacts
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Add per-mode default contact-matrix support, drop opaque scalar fallback
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Fix loadContactMatrices to honour modes: form of default_contacts_matrix
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Fail loud in lookupContactsForBinPair instead of returning 0.0
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Fix virtual-encounter matrices to honour default-matrix fallback
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Consolidate duplicated bin-resolution logic in ContactMatrixConfig::resolve
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Remove dead default_contacts key from tracked config YAMLs
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Untrack config_plague_fitting and config_plague_fitting_short
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Fix silently-dropped per-mode default contact matrix
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Re-consolidate bin-resolution logic reduplicated by finalizeDefaultModeMatrices
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Fix disease/contact-matrix transmission-mode positional mismatch
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Close two review-found gaps in disease-mode/contact-matrix alignment
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Commits on Jul 23, 2026

Apply clang-format-20 to config.cpp/simulator.cpp
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Rename susceptibility_multiplier to mode_transmissibility_multiplier
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Fix clang-format after mode_transmissibility_multiplier rename
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Remove docs/ from public branch, ignore going forward

gavdoubleu
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claude
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Commits on Jul 24, 2026

Merge branch 'main' into default_contact_matrix_fix
mtcorread
authored