R Observatory: Metrics for actel version 1.4.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

actel

1.4.0Package record

Acoustic Telemetry Data Analysis

0packages depend

7Kdownloads / year

91.2%test coverage

11/13flavors OK

Overview

About

Maintained by Hugo FlávioCRAN page ↗GitHub ↗Website ↗Issues ↗

Designed for studies where animals tagged with acoustic tags are expected to move through receiver arrays. This package combines the advantages of automatic sorting and checking of animal movements with the possibility for user intervention on tags that deviate from expected behaviour. The three analysis functions (explore(), migration() and residency()) allow the users to analyse their data in a systematic way, making it easy to compare results from different studies. CJS calculations are based on Perry et al. (2012) https://www.researchgate.net/publication/256443823_Using_mark-recapture_models_to_estimate_survival_from_telemetry_data.

Changes in 1.4.0

Fixes:

Fix warning bug when reporting duplicated signals in the presence of dual-signal tags.
Gracefully stop in the presence of "" array names (issue #95).
Fix minor aesthetic bug that would cause invalid detections to show up as NA in the captions of individual detection plots.
Fix crash when running migration analysis with only one array (issue #113).
Fix crash when running residency analysis and a group of animals is never detected (issue #114).
Remove "Index" column from residency list tables with one row (issue #93).
Fix silent bug causing time.ratios (residency analysis) to occasionally calculate exceedingly long times when using timestep = hours (issue #89).
Fixed loadDistances() issue where R objects were causing errors but .csv files were non-issue (issue #134).
Fixed inactiveness check crash if distances matrix contains NAs (issue #148).
Fixed circular plot warnings issued when no tags passed by an array (issue #151).
Fixed bug where edge arrays were only correctly identified following the expected direction of movement. E.g. A1 -- A2 -- B1 -- B2 would identify A2 as edge but not B1.

Show all changes in 1.4.0Hide the rest of the changes in 1.4.0

Fixed issue #79, which prevented setting up parallel sections.

Changes:

Column "Status" in object status.df is now character (was factor before).
Column "Status" in object status.df will now show "Never detected" for tags that were never detected (showed the top level section before).
Column "Status" in object status.df now shows "Disap. between X and Y" when a tag is last heard at the edge of two sections. Shows "Disap. between X, Y, and Z" if it is a triple edge. Shows "Disap. between X and n other sections" for more complex edges.
Section "Section Survival" in the migration() report has been renamed to "Section Summary". The contents were adapted to reflect the possibility of parallel sections.
If the spatial input does not have a "Section" column, a column is generated with a warning. All arrays are assigned to section "All". Previous behaviour was to limit input usability to explore() only.
Built-in object example.results was updated to reflect latest changes in output format.

Enhancements:

Improve timestamp handling when importing data through preload() (issue #94).
Improve column name checks to avoid accidentally matching anything to the dot wildcard.
Add new "first to first" method to speed calculations (issue #96)
New processInnovaseaFile() function to handle updated Innovasea detection file format (issue #97).
New convertLotekCDMAFile() function to prepare Lotek txt logs for further analyses (issue #103).
New plotDot() function to help users inspect their spatial.txt files (issue #55).
Improved internal mechanisms for message/warning/debug/stop reporting. new internal function event() replaces the old appendTo(), stopAndReport(), and emergencyBreak() (issue #135). Note: this introduced a repetitive warning bug that was later found and fixed (introduced with 1.3.0.9015, corrected in 1.3.0.9022).
Added the ability to use output of loadSpatial() as 'starters' for distancesMatrix() when 'actel' is 'TRUE'. This allows a user to input their spatial.csv if located in a separate working directory (issue #133)
Distance matrix is now retained in the output of explore(), residency(), and migration() analysis when invalid. Additionally, if the distance matrix is not available NA will be denoted in the output. (issue #142)
Improved the inner mechanics of extractSignals() and extractCodeSpaces() so they're much faster now.
New arguments back.warning and back.error included to migration() to give users more control over warnings and user interaction prompts.
New column "Last.section" in status.df.
New argument y.order for function plotDetections() following user request (issue #183).

From NEWS.md in the release

Install

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

install.packages("actel", 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("hugomflavio/actel")

Development version from hugomflavio/actel. 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-actel

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-actel

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-actel

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

NOTEdependencies in R coder-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc

Namespace in Imports field not imported from:
  ‘svglite’
All declared Imports should be used.

CRAN check page ↗

Slowest check: 5.4 min · r-oldrel-windows-x86_64

Status changes

NOTE11 OK, 2 NOTE2026-09-08
ERROR11 OK, 1 NOTE, 1 ERROR2026-09-07
NOTE11 OK, 2 NOTE2026-06-09
ERROR10 OK, 2 NOTE, 1 ERROR2026-06-08
NOTE12 OK, 2 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.4.0

READMEYes · 574 wordsVignettesYes · 1 · staticNEWSYes · 100% structured · mentions 1.4.0Citation fileYes · cites a publicationWebsiteYes

Help pages: 204 (168 internal)includes a package overview page
Examples that run: 72%26 run in a plain check · 9 only when donttest examples are enabled (R CMD check --as-cran) · 1 hold no code
Exported functions with examples: 100%
Documented parameters: 93%
Return-value docs: 100%
Help pages citing references: 1%

Vignettes (1)

actel-website HTML

How these are measured

Downloads

7K

CRAN downloads in the past year

Rank #4,829 · ~19/day · ~584/mo

Releases R versions

Daily download trend is not available in this view yet.

66630 days

1.7K90 days

7K1 year

Compare downloads with other packages →

Also on151 r2u26 autocran81 c2d4u

How downloads are counted

Repository

hugomflavio/actel ↗Account: hugomflavio

28Stars

7Forks

39Open issues

1Open PRs

10Releases

1,603Commits

3Commit identities

rtelemetry-dataacoustic-telemetryfish-packages

1,603 commits · Last activity 2026-06-03 · 0% stars, 30d · Default branch at 1.4.0.9005, ahead of CRAN 1.4.0 (checked 2026-10-21)

Responsiveness

How these are sampled

PRs merged (all time): 96%
Median days to close, 50 most recently updated closed issues: 14
Median days to close, 50 most recently updated closed PRs: 0

Stars over time

2025-06-19 · 262026-07-07 · 28

How these are measured

PracticesBeta

5 development-tooling and community-health practices detected across 4 families in the upstream repository

Checks run against github.com/hugomflavio/actel 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 (1)

GitHub Pages site last deployed 2022-04-03

Coverage (1)

Coverage reporting

CRAN release process (1)

cran-comments.md

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

Dependencies

Declared dependencies

23 external dependencies (excludes base and recommended)

Installing actel adds 79 packages (46 with compiled code, 70 MB of source tarballs). Heaviest: stringi 11 MB, ggplot2 6.0 MB, data.table 5.7 MB.

Depends (1)

R >= 3.6

Imports (19)

circular data.table DiagrammeR DiagrammeRsvg fasttime ggplot2graphicsgrDevicesknitr readr reshape2 rmarkdown rsvg scalesstatsstringi stringr svgliteutils

LinkingTo (0)

none

Suggests (8)

gdistance gWidgets2 gWidgets2tcltk raster sp sf terra testthat

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 (2)

Hugo Flávio

Author, Maintainer since 1.0.0 (2020)

Devon Smith

Contributor · added in 1.4.0

Releases (7)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
1.4.0Latest
record
2026-03-06 · current release · diff ↗ ·
added 2 exports
convertLotekCDMAFile, plotDot
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
1.3.0
record
2023-10-19 · diff ↗ ·
added 2 exports
blankWorkspace, shapeToRaster
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
1.2.1
record
2021-01-05 · diff ↗
1.2.0
record
2020-11-01 · diff ↗ ·
removed 1 export
stripCodeSpaces

added 2 exports
plotLive, recoverLog
1.1.1
record
2020-09-11 · diff ↗ ·
added 5 exports
plotArray, plotDetections, plotRatios, plotResidency, plotSensors
1.1.0
record
2020-08-01 · diff ↗ ·
added 5 exports
extractCodeSpaces, extractSignals, getSpeeds, preload, stationName
1.0.0
record
2020-06-13
R
R 4.0.0 released · 2020-04-24

Package metadata

First published: 2020-06-13
Total releases: 7 / 6 yrs
License: GPL-3 OSI
Minimum R: ≥ 3.6
Bundled data: 174 KB / 2 files
Download size: 802 KB

Appears in task views

Processing and Analysis of Tracking Data

Cite

Cite this package

Run in R for the authors' entry:

citation("actel")

The package provides a citation file, so citation() returns the authors' own entry.

It points to 10.1111/2041-210x.13503.

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 actel version 1.4.0 [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.

Report a problem with this page →