Test/no rule evals - #12

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janisshin wants to merge 19 commits into

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test/no-rule-evals

Commits on Apr 13, 2026

chore: fix import statements and ignore test model folder and results
janisshin
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d396487
fix: add catch for empty dataframe exception
janisshin
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a57f3e6

Commits on Apr 16, 2026

fix(reaction): preserve unmapped metabolites and drop dead failed_mapping handling
janisshin
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051aea4

Commits on Apr 17, 2026

feat: create option for reaction annotations generation only (no evaluation) through rulesbased
janisshin
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1029207
feat: create option to in-/ex-clude exchange reactions for reaction annotation
janisshin
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d35c0e9

Commits on Apr 21, 2026

feat(curation): support KEGG reaction curation + KEGG-compound species fallback
janisshin
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face06f
test: evaluate reaction annotation pipeline
janisshin
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17dbc7c
add timestamping to each evalution run
janisshin
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fc4857b

Commits on Apr 23, 2026

feat(reaction-kegg): support KEGG-compound species inputs and add model context for LLM ranking
janisshin
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1191e5f

Commits on May 1, 2026

Commits on May 10, 2026

results file; add toggle to disable cofactor removal
janisshin
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ff84c0e

Commits on May 11, 2026

Commits on May 14, 2026

add time boxplots
janisshin
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a0d7680
add toggle for disabling ontology expansion
janisshin
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e0bb628