Fix parse_ml_filename() misparsing year/country-stratified filenames - #34
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eboyer221 wants to merge 1 commit into
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Fix parse_ml_filename() misparsing year/country-stratified filenames#34eboyer221 wants to merge 1 commit into
eboyer221 wants to merge 1 commit into
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…t filenames, not after the drug value so there was mislabeling. Corrected the token order to match was regex expects, and added regression tests for the stratified and unstratified cases.
eboyer221
requested review from
AbhirupaGhosh,
amcim,
epbrenner and
jananiravi
August 12, 2026 21:24
7 tasks
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##Description
parse_ml_filename()inR/merge_ml_results.Rexpected the stratification token (year/country) to appear after the drug value in a filename, but the actual filenames written by the matrix-generation code place it before the drug value (e.g.Csp_drug_year_AMX_2010-2015_genes_binary_year_42_performance.tsv). This caused stratified filenames to be parsed with the wrong drug and a missing seed, with no error.Why it matters
parse_ml_filename()is exported and documented as supporting stratified filenames, so any code parsing a stratified result filename with it gets silently wrong metadata.Fix
Reordered the token-parsing logic so the strat label is read immediately after
drug/drug_class, before the drug value, matching the grammar already used bybuildPerfPqYearCountry().Testing
Added
tests/testthat/test-merge-ml-results.Rcovering: unstratified drug, unstratified drug_class, shuffled, year-stratified drug, and country-stratified drug_class filenames. Full suite passes (230/230).Found while reviewing #32. Resolves PR1) of Issue #33.