DAMOCLES

2.3

Dynamic Assembly Model of Colonization, Local Extinction and Speciation

0packages depend

3.2Kdownloads / year

30.0%test coverage

11/13checks pass

Overview

About

Maintained by Rampal S. EtienneFirst published 2014-10-294 releasesCRAN page ↗

Simulates and computes (maximum) likelihood of a dynamical model of community assembly that takes into account phylogenetic history.

Install

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

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

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

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-damocles

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-DAMOCLES

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-DAMOCLES

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

Health

CRAN checks

2NOTE11OK

Failing flavors

NOTE r-devel-linux-x86_64-debian-clang
NOTE r-devel-linux-x86_64-debian-gcc

Slowest check: 3.2 min · r-devel-linux-x86_64-fedora-clang

Code health

Yes

Tests · ratio 0.03

30.0%

Coverage · measured lines

100%

Documentation · exports

Dependencies · direct

Check history

NOTE2026-06-09
11 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-08
11 OK · 1 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
NOTE2026-03-10
12 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 191 wordsVignettesNopkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 88%
Return-value docs: 100%
References docs: 80%

Downloads

3.2K

CRAN downloads in the past year

Rank #12,389 · ~9/day · ~270/mo

Releases R versions

Daily download trend is not available in this view yet.

29430 days

83190 days

3.2K1 year

Compare downloads with other packages →

Also on100 r2u27 autocran58 c2d4u

Dependencies

Declared dependencies

9 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.0

Imports (11)

caper ape deSolve matrixStats expm picanteMatrixDDDstatsmethodsHmisc

LinkingTo (0)

none

Suggests (1)

testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (0)

Author records are not tracked yet for this package.

Listed in earlier versions (1)

Rampal S. Etienne & Alex L. Pigot

no longer listed · 1.0 to 2.3

Package Timeline

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

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
R
R 4.1.0 released · 2021-05-18
2.3Latest
2020-08-12 · current release · diff ↗
R
R 4.0.0 released · 2020-04-24
2.2
2020-01-22 · diff ↗
R
R 3.6.0 released · 2019-04-26
R
R 3.5.0 released · 2018-04-23
R
R 3.4.0 released · 2017-04-21
R
R 3.3.0 released · 2016-05-03
R
R 3.2.0 released · 2015-04-16
1.1
2015-03-05 · diff ↗
1.0
2014-10-29

Show 1 earlier events

R
R 3.1.0 released · 2014-04-10

Package metadata

First published: 2014-10-29
Total releases: 4 / 12 yrs
License: GPL-2 OSI
Minimum R: ≥ 3.0
Bundled data: 3.0 KB / 1 file
Download size: 34 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Appears in task views

Phylogenetics

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