R Observatory: Metrics for APCalign version 2.0.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

APCalign

2.0.0

Resolving Plant Taxon Names Using the Australian Plant Census

0packages depend

8Kdownloads / year

91.6%test coverage

13/13checks pass

Overview

About

Maintained by Elizabeth WenkFirst published 2023-10-118 releasesCRAN page ↗GitHub ↗

The process of resolving and updating taxon names is necessary when working with biodiversity data. 'APCalign' uses the Australian Plant Census (APC) and the Australian Plant Name Index (APNI) to align and update plant taxon names to current, accepted standards. 'APCalign' also supplies information about the establishment status (i.e. native or introduced) of plant taxa across different states/territories.

Install

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

install.packages("APCalign", 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("traitecoevo/APCalign")

Development version from traitecoevo/APCalign. 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-apcalign

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled.

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-APCalign

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-APCalign

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed).

Health

CRAN checks

13OK

Slowest check: 6.7 min · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 5.29

91.6%

Coverage · measured lines

100%

Documentation · exports

12

Dependencies · direct

Check history

OK2026-08-05
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-08-01
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-03-13
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-03-12
13 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 486 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 56%
Documented parameters: 100%
Return-value docs: 100%
References docs: 5%

Downloads

8K

CRAN downloads in the past year

Rank #5,089 · ~22/day · ~667/mo

Releases R versions

Daily download trend is not available in this view yet.

31930 days

1.5K90 days

8K1 year

Compare downloads with other packages →

Also on218 r2u45 autocran

Repository

GitHub ↗ traitecoevo/apcalign

5Stars

6Forks

4Open issues

0Open PRs

18Releases

228Commits

8Contributors

r-package

228 commits · Last activity 2026-08-05

Stars over time

2025-05-25 · 52026-07-07 · 5

Repository practices

Upstream repositoryBeta

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

Checks run against github.com/traitecoevo/apcalign on 2026-08-16.

Continuous integration (1)

GitHub Actions

CRAN release process (2)

cran-comments.mdCRAN-SUBMISSION

Docs source (1)

README.Rmd

Research and citation (1)

CITATION.cff

Show all practices

Lint, format, editor (1)

RStudio project

Coverage (1)

Codecov

How this is detected·Detection ruleset v1 (2026-07-18)

Development tooling

AI-assisted toolingBeta

Uses AI-assisted development tooling (declared in repo)

Earliest detected marker: claude on 2026-03-23

claude

Most recent: claude on 2026-03-23

Evidence

claude: on 2026-03-23 · evidence B, D
agents-md: on 2026-07-08 · evidence D

How this is detected·Detection ruleset v2 (updated 2026-07-29)

Dependencies

Declared dependencies

20 external dependencies (excludes base and recommended)

Depends (1)

R >= 4.1.0

Imports (12)

readr purrr dplyr stringr stringi stringdist crayon httr jsonlite curl arrow rlang

LinkingTo (0)

none

Suggests (8)

janitor tidyr covr knitr rmarkdown kableExtra here testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (5)

Maintainer (1)

Elizabeth Wenk

Author, Maintainer, Copyright holder

Authors (4)

Elizabeth Wenk

Author, Maintainer, Copyright holder

Will Cornwell

Author, Contributor

Daniel Falster

Author, Contributor

Fonti Kar

Author, Contributor

Contributors (4)

Author, Contributor

Author, Contributor

Author, Contributor

Contributor

Copyright holders (1)

Elizabeth Wenk

Author, Maintainer, Copyright holder

Package Timeline

8 releases. Pick two to compare their code metrics. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
2.0.0Latest
2026-03-27 · current release · diff ↗
R
R 4.5.0 released · 2025-04-11
1.1.3
2025-02-11 · diff ↗
1.1.2
2025-01-28 · diff ↗
unarchivedReturned to CRAN
2025-01-28
archivedRemoved from CRAN
2025-01-10
issues were not corrected despite reminders
1.1.0
2024-08-19 · diff ↗
1.0.2
2024-08-18 · diff ↗
1.0.1
2024-05-30 · diff ↗
unarchivedReturned to CRAN
2024-05-30
R
R 4.4.0 released · 2024-04-24
archivedRemoved from CRAN
2024-03-26
policy violation On Internet access
0.1.3
2023-11-16 · diff ↗
0.1.2
2023-10-11
R
R 4.3.0 released · 2023-04-21

Package metadata

First published: 2023-10-11
Total releases: 8 / 3 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 4.1.0
Bundled data: 6.1 KB / 1 file
Download size: 3.8 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("APCalign")

The authors publish a CITATION.cff, so they have said how they want this cited. Run citation() and use what it gives you.

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 APCalign version 2.0.0 [Data set]. HJJB, LLC. Data release v2026-08-16. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-16, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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