R Observatory: Metrics for taxalight version 0.1.5

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

taxalight

0.1.5Package record

A Lightweight and Lightning-Fast Taxonomic Naming Interface

0packages dependsuggested by 1

21.4Kdownloads / year

78.6%test coverage

11/13flavors OK

Overview

About

Maintained by Carl BoettigerCRAN page ↗GitHub ↗Issues ↗

Creates a local Lightning Memory-Mapped Database ('LMDB') of many commonly used taxonomic authorities and provides functions that can quickly query this data. Supported taxonomic authorities include the Integrated Taxonomic Information System ('ITIS'), National Center for Biotechnology Information ('NCBI'), Global Biodiversity Information Facility ('GBIF'), Catalogue of Life ('COL'), and Open Tree Taxonomy ('OTT'). Name and identifier resolution using 'LMDB' can be hundreds of times faster than either relational databases or internet-based queries. Precise data provenance information for data derived from naming providers is also included.

Changes in 0.1.5

get_ids example in docs now uses "itis_test" data, not full ITIS

From NEWS.md in the release

Install

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

install.packages("taxalight", 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("cboettig/taxalight")

Development version from cboettig/taxalight. 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-taxalight

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-taxalight

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-taxalight

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

2NOTE11OK

Check messages

NOTECRAN incoming feasibilityr-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc

Maintainer: ‘Carl Boettiger <cboettig@gmail.com>’

The BugReports field in DESCRIPTION has
  https://github.com/cboettig/taxalight
which should likely be
  https://github.com/cboettig/taxalight/issues
instead.

CRAN check page ↗

Slowest check: 57 s · r-oldrel-windows-x86_64

Status changes

NOTE11 OK, 2 NOTENow
NOTE12 OK, 2 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.1.5

READMEYes · 424 wordsVignettesNoNEWSYes · 100% structured · mentions 0.1.5Citation fileNoWebsitenot declared in DESCRIPTION

Help pages: 5
Examples that run: 20%1 run in a plain check · 4 only when donttest examples are enabled (R CMD check --as-cran)
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 60%
Help pages citing references: 0%

How these are measured

Downloads

21.4K

CRAN downloads in the past year

Rank #3,028 · ~59/day · ~1.8K/mo

Releases R versions

Daily download trend is not available in this view yet.

1.4K30 days

4.4K90 days

21.4K1 year

Compare downloads with other packages →

Also on75 r2u2 autocran

How downloads are counted

Repository

cboettig/taxalight ↗Account: cboettig

5Stars

1Forks

0Open issues

0Open PRs

0Releases

58Commits

3Commit identities

rpackagetaxonomy

58 commits · Last activity 2021-09-10

Responsiveness

not measured

Stars over time

2023-05-16 · 52026-07-07 · 5

How these are measured

PracticesBeta

6 development-tooling and community-health practices detected across 5 families in the upstream repository

Checks run against github.com/cboettig/taxalight on 2026-10-22.

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 (1)

README.Rmd

Reproducibility and dev environment (1)

data-raw/

CRAN release process (1)

cran-comments.md

Show all practicesHide 1 practice

Lint, format, editor (1)

RStudio project

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

Dependencies

Declared dependencies

11 external dependencies (excludes base and recommended)

Installing taxalight adds 13 packages (10 with compiled code, 5.0 MB of source tarballs). Heaviest: fs 1.4 MB, openssl 1.1 MB, jsonlite 1.0 MB.

Depends (1)

R >= 4.0

Imports (2)

thor contentid

LinkingTo (0)

none

Suggests (9)

jsonlite spelling testthat covr knitr rmarkdown progress utf8 crayon

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Suggested by 1

Suggests, most downloaded first

RNeXML

How these are counted

Code & Tests

Datasets

People & History

People (2)

Carl Boettiger

Author, Maintainer since 0.1.1 (2021)

Kari Norman

Author

Releases (5)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
R
R 4.2.0 released · 2022-04-22
0.1.5Latest
record
2021-09-14 · current release · diff ↗
0.1.4
record
2021-08-04 · diff ↗
R
R 4.1.0 released · 2021-05-18
0.1.3
record
2021-03-13 · diff ↗ ·
removed 2 exports
tl_import, tl_provenance

added 1 export
tl_dir
0.1.2
record
2021-03-03 · diff ↗
0.1.1
record
2021-03-01
R
R 4.0.0 released · 2020-04-24

Package metadata

First published: 2021-03-01
Total releases: 5 / 5 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 4.0
Download size: 21 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("taxalight")

Format

Boettiger, C., & Norman, K. (2021). taxalight: A Lightweight and Lightning-Fast Taxonomic Naming Interface (Version 0.1.5) [Computer software]. https://doi.org/10.32614/CRAN.package.taxalight

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 taxalight version 0.1.5 [Data set]. HJJB, LLC. Data release v2026-10-23. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-23, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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