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DEV-41601: modularize ms_extractlabs #12

Open scarnecchia.net
targeting staging from DEV-41601
Open opened by and assigned to scarnecchia.net
targeting staging from DEV-41601

Summary #

  • Modularized ms_extractlabs.sas: the nested macros are now standalone, the triplicated post-extraction and write/append logic is consolidated into helpers, and the hidden newrun state is removed.
  • LABCODSMAP, PATIDLEN, and LABPXLEN are explicit parameters with empty defaults; LABTABLE and NUMPARTITIONS remain ambient globals by design.
  • All 10 in-repo call sites across 9 files pass the new parameters.

Changes #

  • getlabres(labresult=) and createseqadate(labdatetype=) extracted to top level with explicit parameter lists; bodies unchanged apart from the parameter references.
  • New ms_lab_filterresults(indata=, outdata=, labresult=, labdatetype=, caresettingvar=, mindate=, ptlocfilter=) consolidates the triplicated criteria/date/patient-location filter step. LAB01 calls it with ptlocfilter=N (no pt_loc filter, exactly as before); LAB02/LABXX call it with ptlocfilter=Y.
  • New ms_lab_writeorappend(outfile=, data=, cleanup=) replaces the newrun %IF/%ELSE blocks: it appends when %isdata reports that OUTFILE already holds observations, and replaces otherwise. Equivalence argument: in the old code newrun flipped to 1 exactly when a prior replace executed with at least one observation — i.e. exactly when OUTFILE holds observations at decision time (OUTFILE is always created empty up front; a replace of an empty extraction leaves it empty). The old LAB03-only %let newrun=1; had no reader and is dropped.
  • Entry validation: empty PATIDLEN/LABPXLEN now fail loudly with ERROR: lines and skip the body. Empty LABTABLE (global) and empty LABCODSMAP (parameter) remain a supported no-labs state that still creates the empty attributed OUTFILE.
  • Internal symbols are %local-declared.
  • Header and comments (later rounds): usage example and @param corrected to the actual parameter spelling LABCODSMAP; PATIDLEN documented as a required numeric length in bytes (3–8, per the SCDM PatID column) and the example value corrected from 18 to 8; the never-read indata.&PROCTABLE. input line dropped; the two closing %END guards relabeled (*is labtable; labeled the datafile check); paraphrase comments removed and the load-bearing warnings (caller-local MESSAGE contract, NOBS reset) moved beside the statements they explain. No executable statement changed in these rounds.
  • Callers updated: ms_cidanum.sas (x2), t4_cidanum.sas, t4_scenarioloop.sas, combo.sas, ms_cidacov_codeextraction.sas, t4_cidacov_codeextraction.sas, ms_concomitantuse.sas, ms_createmicohorts.sas, ms_switching.sas — each passes labcodsmap=, patidlen=, labpxlen= resolved from the same values the old macro read ambiently (resolution-equivalent: the old code resolved them one frame deeper, in a scope that never declared them locally).
  • Known log-only delta: each extraction block emits extra %isdata banner lines from ms_lab_writeorappend, and the global NOBS holds OUTFILE's observation count at macro exit (no in-repo consumer reads it before resetting it).

Validation #

  • Statement-level equivalence: a whitespace-normalized diff of the pre-refactor macro against the new file contains exactly the intended changes (helpers moved to top level, newrun blocks replaced by helpers, parameter renames, %local + entry validation) and nothing else; the extracted helper bodies are byte-identical to the old nested macros modulo the parameter substitution.
  • Structural checks (all pass): 5 top-level macros with parameter lists, no nested definitions, every %mend named, no newrun/patid_len/labpx_len stragglers, ptlocfilter=N exactly once and ptlocfilter=Y exactly twice, all 10 call sites carry the three new parameters.
  • Adversarial implementation review over the full diff found no behavioral issues in the macro or the caller updates; findings in the test harness itself were fixed.
  • Not run — no SAS runtime in this environment. A full old-vs-new equivalence harness (ms_extractlabs_equivalence_test.sas: scenarios S1-S14 covering every criteria operator, both init branches, partitioned/unpartitioned guards, replace-with-empty, Lab_var=Raw, covlabs, datafilewhere, empty lookfile, empty lab table, no-labs state, and the new entry validation) is prepared for the operator's SAS environment. It compares PROC COMPARE all-values-equal, dictionary.columns structure (name/varnum/type/length/format), and log-scraped WARNING lines. Merge is gated on its results.

Review notes #

  • Merge stays with the operator, gated on the SAS equivalence harness results.
  • The four commits include one reverted experiment (round 3 added %symexist(LABCODESMAP) guards at six call sites after an unconfirmed warning report; round 4 reverted them when it did not reproduce). The net caller change equals round 2.
  • call symput('message',...) inside ms_lab_filterresults deliberately writes the missing-Adate warning into the caller's %local MESSAGE; the %let message=; at the top of MS_EXTRACTLABS is load-bearing (commented in code).
  • ms_mfu.sas contains near-duplicate lab logic with a different output shape and join targets; a possible future follow-up, untouched here.
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