Reject Date Arithmetic in a Condition

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Summary

EditUnder reviewWhat this benchmark means

README.md

Public entries: Python and R. Passing coverage requires an installed inventory.

Goal: flag adverse events (AE) whose onset falls inside a 30-day post-treatment review window in REVIEWFL.

Input: collected adverse events with onset date (AESTDTC) and the end of treatment (TRTEDT).

Variables:

REVIEWFL would contain Y when the onset is no more than 30 days after treatment ended, otherwise N.

Note: the condition adds 30 to the treatment end date, but arithmetic takes numbers and TRTEDT is a date, so the run is rejected before any data is read and no artifact is accepted.

How to fix

Carry the day count in its own column and compare the named value:

- name: WINDOWDY
  type: int
  label: Days from Treatment End to Onset
  derivation:
    diff:
      type: date
      start: TRTEDT
      end: ASTDT
      unit: day
- name: REVIEWFL
  type: str
  label: Protocol Review Flag
  derivation:
    flag:
      condition: "WINDOWDY <= 30"
      false_value: "N"
      missing: "N"

Expected failure

Editthe run is rejected; no artifact is accepted

expected/error.yaml

phase: validation
condition: incompatible_input_type
rule: FORMULA-12

expected/error.yaml

phase: validation
condition: incompatible_input_type
spec_paths:
  - columns.REVIEWFL.derivation.flag.condition
rule: FORMULA-12
context:
  expr: "ASTDT <= TRTEDT + 30"
  source: TRTEDT
  expected: numeric
  actual: date

YAML specification

1 spec file

spec.yaml

Edit50 lines

1yamaa: "1.0"2type: spec3model: ADaM4domain: ADAE5keys: [STUDYID, USUBJID, AESEQ]6input:7  AE:8    path: input/ae.csv9    types: {AESEQ: int, AESTDTC: date, TRTEDT: date}1011output:12  path: adae.csv13  columns: [STUDYID, USUBJID, AESEQ, ASTDT, TRTEDT, REVIEWFL]1415columns:16  - name: STUDYID17    type: str18    label: Study Identifier19    derivation: AE.STUDYID2021  - name: USUBJID22    type: str23    label: Unique Subject Identifier24    derivation: AE.USUBJID2526  - name: AESEQ27    type: int28    label: Sequence Number29    derivation: AE.AESEQ3031  - name: ASTDT32    type: date33    label: Analysis Start Date34    derivation: AE.AESTDTC3536  - name: TRTEDT37    type: date38    label: Date of Last Exposure to Treatment39    derivation: AE.TRTEDT4041  # Intentionally invalid: a condition compares named values and cannot42  # do date arithmetic, so TRTEDT + 30 is refused.43  - name: REVIEWFL44    type: str45    label: Protocol Review Flag46    derivation:47      flag:48        condition: "ASTDT <= TRTEDT + 30"49        false_value: "N"50        missing: "N"

Inputs

Under review1 source file

input/ae.csv

Edit2 rows

input/ae.csv
STUDYID	USUBJID	AESEQ	AETERM	AESTDTC	TRTEDT
PILOT7		1	Headache	2025-03-10	2025-03-01
PILOT7		2	Nausea	2025-04-15	2025-03-01

Unexpected Output

Under reviewNo artifact is produced

No fixture files in this directory.

Shaded columns are derived— = missing value

Human review and assessment

Dataset Name	Variable Name	Variable Label	Type	Codelist/Controlled Terms	Computational Method	Origin
ADAE	STUDYID	Study Identifier	character		Copy value from AE.STUDYID.	Predecessor
ADAE	USUBJID	Unique Subject Identifier	character		Copy value from AE.USUBJID.	Predecessor
ADAE	AESEQ	Sequence Number	numeric		Copy value from AE.AESEQ.	Predecessor
ADAE	ASTDT	Analysis Start Date	numeric	ISO 8601	Copy value from AE.AESTDTC.	Predecessor
ADAE	TRTEDT	Date of Last Exposure to Treatment	numeric	ISO 8601	Copy value from AE.TRTEDT.	Predecessor
ADAE	REVIEWFL	Protocol Review Flag	character		"Y" when ASTDT <= TRTEDT + 30; "N" otherwise; "N" when the condition is unknown.	Derived

Version	Date	Author	Description
1.7	2026-10-20	yamaa docs build	Read a specification in the 1.0 surface as its 0.5 counterpart; state that missing values stay missing where a mapping declares no missing handler, and leave out a declared missing answer that restates a handler's default
1.6	2026-10-17	yamaa docs build	Describe collected date parts written as ISO 8601 date text and times of day counted in seconds since midnight
1.5	2026-10-17	yamaa docs build	Name collected precision in words instead of letter codes; state imputation fallbacks, minimum source precision, bounds ignored outside the collected period, and invalid text with no handler as an error; describe date and datetime shifts, imputation flag codes, and partial text giving no date part
1.4	2026-10-15	yamaa docs build	State datetime precision codes through the hour and minute, and complete only the time parts a collected datetime lacks
1.3	2026-09-29	yamaa docs build	Show study codelist names, external dictionaries, and ISO 8601 formats in variable rows; list the document's codelist values and metadata
1.2	2026-09-29	yamaa docs build	Classify ADaM copies from a declared input as Predecessor and recodes as Derived, and SDTM recodes of locally derived columns as Derived
1.1	2026-09-29	yamaa docs build	Resolve lookups into the donor record they select, and give every derivation shape a plain-language rule instead of its raw YAML
1.0		yamaa docs build	Initial generation from spec.yaml

How to fix

input/ae.csv

Your review

Mapping spec