R Observatory: Metrics for coffee version 0.4.3

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

coffee

0.4.3Package record

Chronological Ordering for Fossils and Environmental Events

0packages depend

3.8Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Maarten BlaauwCRAN page ↗GitHub ↗

While individual calibrated radiocarbon dates can span several centuries, combining multiple dates together with any chronological constraints can make a chronology much more robust and precise. This package uses Bayesian methods to enforce the chronological ordering of radiocarbon and other dates, for example for trees with multiple radiocarbon dates spaced at exactly known intervals (e.g., 10 annual rings). For methods see Christen 2003 doi:10.11141/ia.13.2. Another example is sites where the relative chronological position of the dates is taken into account - the ages of dates further down a site must be older than those of dates further up (Buck, Kenworthy, Litton and Smith 1991 doi:10.1017/S0003598X00080534; Nicholls and Jones 2001 doi:10.1111/1467-9876.00250). The paper accompanying this R package is Blaauw et al. 2024 doi:10.1017/RDC.2024.56.

Changes in 0.4.3

further corrections regarding a bug in the Vignette.

From NEWS.md in the release

Install

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

install.packages("coffee", 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("Maarten14C/coffee")

Development version from Maarten14C/coffee. 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-coffee

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-coffee

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-coffee

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: 3.4 min · r-oldrel-macos-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 0.4.3

READMEYes · 138 wordsVignettesYes · 1 · dynamicNEWSYes · 100% structured · mentions 0.4.3Citation fileYes · cites a publicationWebsitenot declared in DESCRIPTION

Help pages: 15 (1 internal)includes a package overview page
Examples that run: 80%4 run in a plain check · 1 never run
Exported functions with examples: 36%
Documented parameters: 100%
Return-value docs: 86%
Help pages citing references: 13%

Vignettes (1)

coffee HTML

How these are measured

Downloads

3.8K

CRAN downloads in the past year

Rank #10,768 · ~10/day · ~314/mo

Releases R versions

Daily download trend is not available in this view yet.

37630 days

97690 days

3.8K1 year

Compare downloads with other packages →

Also on81 r2u5 autocran

How downloads are counted

Repository

maarten14c/coffee ↗Account: Maarten14C

7Stars

0Forks

0Open issues

0Open PRs

0Releases

58Commits

2Commit identities

58 commits · Last activity 2025-12-11 · 0% stars, 30d · Default branch at 0.5.0, ahead of CRAN 0.4.3 (checked 2026-10-21)

Responsiveness

How these are sampled

PRs merged (all time): 100%
Median days to close, 50 most recently updated closed issues: not measured
Median days to close, 50 most recently updated closed PRs: 1

Stars over time

2024-09-30 · 72026-07-07 · 7

How these are measured

PracticesBeta

3 development-tooling and community-health practices detected across 2 families in the upstream repository

Checks run against github.com/maarten14c/coffee on 2026-10-21.

Continuous integration (1)

GitHub Actions

CRAN release process (2)

cran-comments.mdCRAN-SUBMISSION

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

Dependencies

Declared dependencies

6 external dependencies (excludes base and recommended)

Installing coffee adds 22 packages (10 with compiled code, 27 MB of source tarballs). Heaviest: ggplot2 6.0 MB, data.table 5.7 MB, rice 2.8 MB.

Depends (0)

none

Imports (3)

data.table rintcal rice

LinkingTo (0)

none

Suggests (3)

knitr rmarkdown utf8

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

Datasets

People & History

People (3)

Maarten Blaauw

Author, Maintainer since 0.1.1 (2021)

Marco A. Aquino Lopez

Author, Contributor · added in 0.2.0

J. Andres Christen

Author, Contributor, Copyright holder

Releases (6)

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
0.4.3Latest
record
2024-12-06 · current release · diff ↗ ·
added 2 exports
MCMCrings, draw.MCMCrings
0.4.1
record
2024-09-26 · diff ↗ ·
removed 2 exports
ccurve, glue.ccurves

added 1 export
strat.cleanup
0.4.0
record
2024-09-04 · diff ↗ ·
added 2 exports
ccurve, glue.ccurves
R
R 4.4.0 released · 2024-04-24
0.3.0
record
2024-01-29 · diff ↗ ·
added 3 exports
scissors, thinner, withinhpd
0.2.0
record
2023-07-14 · diff ↗ ·
added 1 export
ages.undated
R
R 4.3.0 released · 2023-04-21
R
R 4.2.0 released · 2022-04-22
0.1.1
record
2021-08-21
R
R 4.1.0 released · 2021-05-18

Package metadata

First published: 2021-08-21
Total releases: 6 / 5 yrs
License: GPL (>= 2) OSI
Download size: 854 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("coffee")

The package provides a citation file that builds its entry when R runs it. Run citation() to see it.

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 coffee version 0.4.3 [Data set]. HJJB, LLC. Data release v2026-10-25. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-25, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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