yamaa As a clinical trial statistician or programmer, answer two short questions in Your review: the task and the inputs. Agreeing with both approves this benchmark; disagreeing with either needs a comment. Propose a fix with the Edit button on any source file, or add it to your comments.
We suggest spending no more than 5 minutes on a review. The other tabs beside Your review are background for assessment, not under review.
Summary
EditUnder reviewWhat this benchmark meansREADME.mdPublic entries: Python and R. Passing coverage requires an installed inventory.
Goal: turn each collected visit's blood pressure into one systolic and
one diastolic analysis record, number each subject's visits in AVISITN,
and flag the records of the subject's first visit in ABLFL.
Input: collected vital signs with one record per subject and visit,
carrying the visit date (VSDTC) and the systolic (SYSBP) and diastolic
(DIABP) blood pressure.
Variables:
PARAMCDwould beSYSBPon the systolic record andDIABPon the diastolic record of each visit.AVISITNwould number each subject's visits from 1 in date order; the two records of one visit share its number.ADTwould be the visit date.AVALwould be the systolic or diastolic blood pressure the record names; missing when the visit did not collect it.ABLFLwould beYon the records of the subject's first visit, which this study takes as baseline, and blank on every other record.
Note: visits are numbered only after every analysis record has been built, so the visit number is available only to values listed after it, exactly like any other value. The baseline flag is listed before the visit number it reads, so the run is rejected before any data is read and no artifact is accepted.
How to fix
List AVISITN before ABLFL, so the flag reads a visit number that has
already been counted:
- name: AVISITN
type: int
derivation:
rank:
method: dense
window:
group_by: [STUDYID, USUBJID]
order_by: [ADT]
- name: ABLFL
type: str
derivation:
flag: "AVISITN = 1"
Expected failure
Editthe run is rejected; no artifact is acceptedexpected/error.yaml- phase
- validation
- condition
- forward_reference
- rule
- COLUMN-5
expected/error.yaml
phase: validation
condition: forward_reference
spec_paths:
- columns.ABLFL.derivation.flag
rule: COLUMN-5
context:
column: ABLFL
dependency: AVISITN
Inputs
Under review1 source fileinput/vs_raw.csv
Edit2 rows| STUDYID | USUBJID | VSDTC | SYSBP | DIABP |
|---|---|---|---|---|
| YAMAA-01 | 2024-03-04 | 132 | 84 | |
| YAMAA-01 | 2024-03-18 | 126 | 80 |
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 |
|---|---|---|---|---|---|---|---|
| ADVS | STUDYID | Study Identifier | character | Copy value from VS_RAW.STUDYID. | Predecessor | ||
| ADVS | USUBJID | Unique Subject Identifier | character | Copy value from VS_RAW.USUBJID. | Predecessor | ||
| ADVS | PARAMCD | Parameter Code | character | Set per constructed row; see the Row construction sheet. | Derived | ||
| ADVS | ADT | Analysis Date | numeric | ISO 8601 | Copy value from VS_RAW.VSDTC. | Predecessor | |
| ADVS | AVAL | Analysis Value | numeric | Set per constructed row; see the Row construction sheet. | Derived | ||
| ADVS | ABLFL | Baseline Record Flag | character | "Y" when AVISITN = 1; blank otherwise. | Derived | ||
| ADVS | AVISITN | Analysis Visit (N) | numeric | Rank rows from 1 within each group of STUDYID, USUBJID, ordered by ADT; ties share a number and the next distinct value follows without a gap. | Derived |
| Template | Include when | PARAMCD | AVAL |
|---|---|---|---|
| systolic | Constant "SYSBP" | Copy VS_RAW.SYSBP | |
| diastolic | Constant "DIABP" | Copy VS_RAW.DIABP |
| 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 |