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Summary
EditUnder reviewWhat this benchmark meansREADME.mdPublic entries: Python and R. Passing coverage requires an installed inventory.
Goal: arrange adverse event (AE) records so each subject's
events read together, newest onset first, carrying the reported
term (AETERM) and onset date (ASTDT).
Input: collected adverse event records carrying the reported
term (AETERM) and the onset date (AESTDTC).
Variables:
AETERMwould be the reported term for the event, carried over from the collected records.ASTDTwould be the date the event began, carried over from the collected onset date.
Note: the records are to be presented by subject ascending, then by onset date with the most recent first, then by subject descending again. The subject takes two places with opposite directions, and the second can never change the order the first already fixed, so the intended order is unclear. The run is rejected before any data is read and no artifact is accepted.
How to fix
Decide which position the subject holds and state it once. Grouping a subject's events together while reading the newest first is the subject ascending first and the date descending:
output:
path: adae.csv
columns: [STUDYID, USUBJID, ASEQ, AETERM, ASTDT]
order_by:
- USUBJID
- variable: ASTDT
direction: desc
Presenting the subjects in reverse instead means declaring the subject descending once, in the first position, rather than adding a second entry for it.
Expected failure
Editthe run is rejected; no artifact is acceptedexpected/error.yaml- phase
- validation
- condition
- duplicate_order_term
- rule
- OUTPUT-12
expected/error.yaml
phase: validation
condition: duplicate_order_term
spec_paths:
- output.order_by[2]
rule: OUTPUT-12
context:
column: USUBJID
Inputs
Under review1 source fileinput/ae.csv
Edit3 rows| STUDYID | USUBJID | AESEQ | AETERM | AESTDTC |
|---|---|---|---|---|
| PILOT7 | 1 | Nausea | 2025-03-10 | |
| PILOT7 | 2 | Rash | 2025-03-12 | |
| PILOT7 | 1 | Headache | 2025-04-02 |
Unexpected Output
Under reviewNo artifact is producedNo fixture files in this directory.
Human review and assessment
| Dataset Name | Variable Name | Variable Label | Type | Codelist/Controlled Terms | Core | 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 | ASEQ | Analysis Sequence Number | numeric | Copy value from AE.AESEQ. | Predecessor | ||
| ADAE | AETERM | Reported Term for the Adverse Event | character | Copy value from AE.AETERM. | Predecessor | ||
| ADAE | ASTDT | Analysis Start Date | numeric | ISO 8601 | Copy value from AE.AESTDTC. | Predecessor |
| Version | Date | Author | Description | Reviewer | Sign-off |
|---|---|---|---|---|---|
| 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 |