R Observatory: Metrics for metacore version 0.3.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

metacore

0.3.0Package record

A Centralized Metadata Object Focus on Clinical Trial Data Programming Workflows

1packages dependsuggested by 4

21Kdownloads / year

91.7%test coverage

13/13flavors OK

Overview

About

Maintained by Liam HobbyCRAN page ↗GitHub ↗Website ↗Issues ↗Declared funder: GSK/Atorus JPT

Create an immutable container holding metadata for the purpose of better enabling programming activities and functionality of other packages within the clinical programming workflow.

Changes in 0.3.0

One of the primary goals of these updates is to make the package less "noisy", reducing the number of messages and warnings produced by the package and providing users more options for controlling them.

verbose argument added to metacore, spec_to_metacore, define_to_metacore, and select_dataset to expand the user's ability to selectively suppress messages and warnings #135. Permits the options:
**silent**: Suppresses both messages and warnings.
**collapse**: Warnings are collapsed into a single message that indicates the number of warnings suppressed.
**warn**: Warnings are permitted but messages are suppressed.
**message**: Both warnings and messages are permitted.
quiet argument in metacore, spec_to_metacore, define_to_metacore, and select_dataset functions soft deprecated in favour of verbose. Default functionality of quiet = TRUE now achieves the same result as verbose = "silent" to suppress optional messages, notes and warnings #126.
keep variable in ds_vars table has been changed to mandatory to better reflect the CDISC standard terminology. In the function metacore the input for the supplied column keep is still available but a deprecation warning has been attached to its usage. Users supplying keep will not encounter an error as this has been mapped to the new column mandatory. #128.
Cleaned up some of the validation procedures for supp columns. Validation of the supp table is now only performed if it contains greater than zero rows to reduce the number of warnings produced when reading in specs. #144.
Various functions have had the appearence and UX of their error messages improved to provide additional context and guidance for the users.

From NEWS.md in the release

Install

R (CRAN)pak (dev)Ubuntu (r2u)Fedora (COPR)openSUSE (OBS)

install.packages("metacore", repos = "https://cloud.r-project.org/")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

if (!requireNamespace("pak", quietly = TRUE))
  install.packages("pak", repos = "https://cloud.r-project.org/")
pak::pak("atorus-research/metacore")

Development version from atorus-research/metacore. Installs pak first if it is not already available.

Release

# enable cranapt (r2u) if it is not already set up, then install
grep -rqs r2u.stat.illinois.edu /etc/apt/sources.list /etc/apt/sources.list.d/ \
  || curl -fsSL https://raw.githubusercontent.com/eddelbuettel/r2u/master/inst/scripts/add_cranapt_noble.sh | sudo bash
sudo apt install -y r-cran-metacore

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled. We list this channel from recorded r2u download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

bspm (used by r2u) also needs make: sudo apt install make

# enable the iucar/cran COPR if it is not already present, then install
ls /etc/yum.repos.d/*iucar*cran*.repo >/dev/null 2>&1 \
  || sudo dnf copr enable -y iucar/cran
sudo dnf install -y R-CRAN-metacore

RPMs from the iucar/cran COPR, rebuilt from CRAN.

For install.packages() integration in R, also: sudo dnf install R-CoprManager

# add the autoCRAN OBS repo (Tumbleweed) if it is missing, then install
zypper -q lr | grep -qi autoCRAN \
  || sudo zypper addrepo https://download.opensuse.org/repositories/devel:/languages:/R:/autoCRAN/openSUSE_Tumbleweed/devel:languages:R:autoCRAN.repo
sudo zypper install -y R-metacore

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed). We list this channel from recorded autoCRAN download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

Health

CRAN checks

13OK

CRAN check page ↗

Slowest check: 3.0 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.3.0

READMEYes · 1,326 wordsVignettesYes · 2 · dynamicNEWSYes · 100% structured · mentions 0.3.0Citation fileNoWebsiteYes · pkgdown

Help pages: 33 (2 internal)includes a package overview page
Examples that run: 75%6 run in a plain check · 2 never run
Exported functions with examples: 28%
Documented parameters: 82%
Return-value docs: 93%
Help pages citing references: 0%

Vignettes (2)

Building Specification Readers HTML
Example HTML

How these are measured

Downloads

21K

CRAN downloads in the past year

Rank #3,058 · ~57/day · ~1.7K/mo

Releases R versions

Daily download trend is not available in this view yet.

1.5K30 days

4.3K90 days

21K1 year

Compare downloads with other packages →

Also on215 r2u1 autocran854 conda_forge

How downloads are counted

Repository

atorus-research/metacore ↗Organization: atorus-research

52Stars

18Forks

31Open issues

4Open PRs

9Releases

535Commits

19Commit identities

535 commits · Last activity 2026-06-10 · +4% stars, 30d

Responsiveness

How these are sampled

PRs merged (all time): 95%
Median days to close, 50 most recently updated closed issues: 76
Median days to close, 50 most recently updated closed PRs: 0

Stars over time

2025-09-24 · 402026-10-23 · 52

How these are measured

PracticesBeta

12 development-tooling and community-health practices detected across 6 families in the upstream repository

Checks run against github.com/atorus-research/metacore on 2026-10-21.

Continuous integration (2)

GitHub ActionsR CMD check workflow

The R CMD check workflow runs on Linux, macOS and Windows, and on R-devel

Docs source (4)

README.Rmdpkgdown

GitHub Pages site last deployed 2026-06-10 · The repository has a site deploy workflow

pkgdown site last built 2026-06-10

Coverage (1)

Coverage reporting

CRAN release process (2)

cran-comments.mdCRAN-SUBMISSION

Show all practicesHide 2 practices

Lint, format, editor (2)

Lint workflowRStudio project

Git structural (1)

.gitattributes

How this is detected·Detection ruleset v4 (2026-10-20)

AI coding toolsBeta

This repository shows signs of AI coding tools.

GitHub Copilotfirst seen 2025-11-24
Pull request: opened by its own account

From outside contributors

Claude Code
Pull requests: 1 from outside contributors, first on 2026-09-30, 1 from forks

How this is detected·Detection ruleset v4 (updated 2026-09-27)

Dependencies

Declared dependencies

17 external dependencies (excludes base and recommended)

Installing metacore adds 28 packages (14 with compiled code, 20 MB of source tarballs). Heaviest: stringi 11 MB, readxl 2.1 MB, vctrs 1.0 MB.

Depends (1)

R >= 4.1.0

Imports (13)

cli dplyr lifecycle magrittr purrr R6 readxl rlang stringr tibble tidyr tidyselect xml2

LinkingTo (0)

none

Suggests (4)

covr knitr rmarkdown testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

0indirect

Imports 1

Suggested by 4

Depends, Imports or LinkingTo, most downloaded first

metatools

Suggests, most downloaded first

pharmaverseadam xportr trialdiff r4subpharma

How these are counted

Code & Tests

Datasets

People & History

People (8)

Liam Hobby

Author, Maintainer since 0.2.0 (2025) · added in 0.2.0

Bill Denney

Author · added in 0.2.0

Christina Fillmore

Author

Maya Gans

Author

Tamara Senior

Author · added in 0.1.3

Mike Stackhouse

Author

Ashley Tarasiewicz

Author

GSK/Atorus JPT

Copyright holder, Funder

Previously maintained by Christina Fillmore (0.0.3 to 0.1.3).

Releases (9)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
0.3.0Latest
record
2026-04-22 · current release · diff ↗
0.2.1
record
2025-07-21 · diff ↗
0.2.0
record
2025-07-15 · diff ↗ ·
added 2 exports
is_DatasetMeta, verify_DatasetMeta
R
R 4.5.0 released · 2025-04-11
0.1.3
record
2024-05-02 · diff ↗ ·
added 1 export
get_keys
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
unarchivedReturned to CRAN
2023-03-02
0.1.2
record
2023-03-02 · diff ↗
archivedRemoved from CRAN
2023-03-01
issues were not corrected despite reminders
0.1.1
record
2022-12-07 · diff ↗ ·
added 4 exports
check_inconsistent_formats, check_inconsistent_labels, check_inconsistent_types, is_metacore
0.1.0
record
2022-10-04 · diff ↗
R
R 4.2.0 released · 2022-04-22
0.0.4
record
2022-03-31 · diff ↗
0.0.3
record
2022-02-14

Show 1 earlier eventHide 1 earlier event

R
R 4.1.0 released · 2021-05-18

Package metadata

First published: 2022-02-14
Total releases: 9 / 4 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 4.1.0
Download size: 1.5 MB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("metacore")

Format

Hobby, L., GSK/Atorus JPT, Denney, B., Fillmore, C., Gans, M., Senior, T., Stackhouse, M., & Tarasiewicz, A. (2026). metacore: A Centralized Metadata Object Focus on Clinical Trial Data Programming Workflows (Version 0.3.0) [Computer software]. https://doi.org/10.32614/CRAN.package.metacore

This package has no citation file, so citation() returns this entry built from DESCRIPTION.

Cite the R Observatory

For a number measured here: a download total, a coverage figure, an archival date.

Format

APA

Balamuta, J. J. (2026). R Observatory: Metrics for metacore version 0.3.0 [Data set]. HJJB, LLC. Data release v2026-10-24. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-24, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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