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Migrate to TOM - #202

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tokebe wants to merge 20 commits into
mainfrom
tom
Open

Migrate to TOM#202
tokebe wants to merge 20 commits into
mainfrom
tom

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@tokebe

@tokebe tokebe commented Aug 25, 2026

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tokebe added 20 commits July 24, 2026 14:00
Also adds proxy scripts for testing
Since humans rarely look at /asyncquery_status, logs are left out to
avoid log retrieval overhead.
Responses are now only stored to a proportion, given that clients are
not expected to retrieve responses outside of normal http response or
async callback, we can limit storage to a sample for debugging purposes.
Merges some redundancies and downgrades some levels
Gandalf already properly dedupes edges, we should trust it and not waste
compute time.
# Conflicts:
#	src/retriever/lookup/lookup.py
#	src/retriever/types/trapi.py
#	src/retriever/types/trapi_pydantic.py
# Conflicts:
#	src/retriever/data_tiers/tier_0/base_query.py
#	src/retriever/lookup/utils.py
# Conflicts:
#	src/retriever/data_tiers/tier_0/base_query.py
# Conflicts:
#	config/config.default.yaml
#	src/retriever/background.py
#	src/retriever/config/general.py
#	src/retriever/utils/redis.py
@codecov

codecov Bot commented Aug 25, 2026

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Codecov Report

❌ Patch coverage is 57.75336% with 346 lines in your changes missing coverage. Please review.

Files with missing lines Patch % Lines
src/retriever/metadata/optable.py 35.35% 62 Missing and 2 partials ⚠️
src/retriever/lookup/subquery.py 6.25% 30 Missing ⚠️
src/retriever/server.py 0.00% 24 Missing ⚠️
src/retriever/utils/health_coordinator.py 75.00% 21 Missing and 2 partials ⚠️
src/retriever/utils/logs.py 28.57% 19 Missing and 1 partial ⚠️
src/retriever/lookup/validate.py 18.18% 18 Missing ⚠️
src/retriever/lookup/qgx.py 27.27% 16 Missing ⚠️
src/retriever/lookup/utils.py 31.81% 14 Missing and 1 partial ⚠️
src/retriever/utils/redis.py 60.00% 14 Missing ⚠️
src/retriever/data_tiers/tier_0/base_query.py 36.84% 12 Missing ⚠️
... and 23 more
Files with missing lines Coverage Δ
src/retriever/__main__.py 0.00% <ø> (ø)
src/retriever/config/general.py 96.32% <100.00%> (+0.08%) ⬆️
src/retriever/config/openapi.py 87.35% <ø> (-0.29%) ⬇️
.../elasticsearch/constraints/qualifiers/qualifier.py 95.55% <100.00%> (-0.10%) ⬇️
src/retriever/data_tiers/tier_manager.py 44.82% <100.00%> (ø)
src/retriever/types/dingo.py 100.00% <100.00%> (ø)
src/retriever/types/general.py 100.00% <100.00%> (ø)
src/retriever/types/metakg.py 100.00% <100.00%> (ø)
src/retriever/types/status.py 100.00% <100.00%> (ø)
src/retriever/types/trapi.py 100.00% <100.00%> (ø)
... and 36 more

... and 1 file with indirect coverage changes

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