R Observatory: Metrics for retistruct version 0.8.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

retistruct

0.8.1Package record

Retinal Reconstruction Program

0packages depend

2.9Kdownloads / year

54.2%test coverage

13/13flavors OK

Overview

About

Maintained by David C. SterrattCRAN page ↗GitHub ↗Website ↗Issues ↗

Reconstructs retinae by morphing a flat surface with cuts (a dissected flat-mount retina) onto a curvilinear surface (the standard retinal shape). It can estimate the position of a point on the intact adult retina to within 8 degrees of arc (3.6% of nasotemporal axis). The coordinates in reconstructed retinae can be transformed to visuotopic coordinates. For more details see Sterratt, D. C., Lyngholm, D., Willshaw, D. J. and Thompson, I. D. (2013) doi:10.1371/journal.pcbi.1002921.

Changes in 0.8.1

BUG FIXES

Issue #76: High resolution images not being output correctly https://github.com/davidcsterratt/retistruct/issues/76 In the Shiny interface the "Maximum Width of Projection" option was not being respected.
Issue #73: Bugs opening files due to Shiny JS not loading properly https://github.com/davidcsterratt/retistruct/issues/73 Due to Shiny JS not loading properly and hard-coding directory names at compile-time, files would not open in the file chooser in the Windows and Mac binaries. Thanks to Jan Okul, who carried out this work as part of his undergraduate dissertation at the University of Edinburgh School of Informatics.

Show all changes in 0.8.1Hide the rest of the changes in 0.8.1

Issue #74: Testing issues with at least one Mac M1 configuration https://github.com/davidcsterratt/retistruct/issues/74 A floating point issue with Apple clang 17 on the Mac M1 architecture caused RTriangle to give different triangulations on that architecture from other architectures. This triangulation caused a reproducibility test in Retistruct to fail. This issue was fixed in RTriangle 1.6-0.15 (https://github.com/davidcsterratt/RTriangle/issues/23) and we increase the version of RTriangle required correspondingly. Thanks to the CRAN team for reporting.

From NEWS in the release

Install

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

install.packages("retistruct", 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("davidcsterratt/retistruct")

Development version from davidcsterratt/retistruct. 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-retistruct

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

# 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-retistruct

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

Additional issues

linux-arm64

CRAN check page ↗

Slowest check: 5.3 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK14 OK2026-04-10
ERROR13 OK, 1 ERROR2026-04-09
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.8.1

READMEYes · 129 wordsVignettesNoNEWSYes · 33% structured · mentions 0.8.1Citation fileYes · cites a publicationWebsiteYes

Help pages: 128
Examples that run: 100%6 run in a plain check
Exported functions with examples: 7%
Documented parameters: 98%
Return-value docs: 60%
Help pages citing references: 5%

Also includes 9 demo scripts (run with demo())

How these are measured

Downloads

2.9K

CRAN downloads in the past year

Rank #11,691 · ~8/day · ~242/mo

Releases R versions

Daily download trend is not available in this view yet.

38730 days

91490 days

2.9K1 year

Compare downloads with other packages →

Also on386 r2u3 autocran

How downloads are counted

Repository

davidcsterratt/retistruct ↗Account: davidcsterratt

9Stars

8Forks

16Open issues

0Open PRs

12Releases

1,699Commits

6Commit identities

1,699 commits · Last activity 2025-06-08 · 0% stars, 30d

Responsiveness

How these are sampled

PRs merged (all time): 83%
Median days to close, 50 most recently updated closed issues: 25
Median days to close, 50 most recently updated closed PRs: 2

Stars over time

2025-01-21 · 82026-07-07 · 9

How these are measured

PracticesBeta

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

Checks run against github.com/davidcsterratt/retistruct on 2026-10-11.

Continuous integration (1)

Travis CI (config file)

Docs source (1)

GitHub Pages site last deployed 2025-06-08

Reproducibility and dev environment (1)

Makefile

How this is detected·Detection ruleset v3 (2026-09-26)

Dependencies

Declared dependencies

17 external dependencies (excludes base and recommended)

Installing retistruct adds 68 packages (36 with compiled code, 48 MB of source tarballs). Heaviest: bslib 5.6 MB, sp 4.3 MB, rgl 4.0 MB.

Depends (1)

R >= 3.5.0

Imports (16)

foreignRImageJROI png ttutils sp geometry RTriangle rgl R.matlab R6 tiff shiny shinyjs shinyFiles bslib fs

LinkingTo (0)

none

Suggests (2)

spelling 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 (3)

David C. Sterratt

Daniel Lyngholm

Author, Copyright holder

Jan Okul

Author, Copyright holder · added in 0.8.0

Listed in earlier versions (1)

David C.

no longer listed · 0.8.0 to 0.8.1

Releases (10)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
0.8.1Latest
record
2025-06-08 · current release · diff ↗
R
R 4.5.0 released · 2025-04-11
unarchivedReturned to CRAN
2025-03-10
0.8.0
record
2025-03-10 · diff ↗ ·
removed 2 exports
retistruct.batch.analyse.summaries, retistruct.batch.analyse.summary

added 1 export
morph.dataset.to.parabola
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
archivedRemoved from CRAN
2022-10-03
check issues were not corrected despite reminders
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
R
R 4.0.0 released · 2020-04-24
0.6.3
record
2020-04-04 · diff ↗
0.6.2
record
2019-12-14 · diff ↗ ·
added 1 export
FeatureSetCommon
0.6.1
record
2019-12-09 · diff ↗ ·
added 2 exports
ReconstructedOutline, report
0.6.0
record
2019-07-10 · diff ↗ ·
removed 31 exports
Outline, ReconstructedDataset, RetinalReconstructedDataset, addTear, azel.to.sphere.colattitude, getDss, getDssHullarea, getDssMean, getFlatRimLength, getGss, getIDs, getIms, getKDE, getKR, getSss, getSssMean, getTear, getTss, labelTearPoints, mergePointsEdges, nameLandmark, optimiseMapping, projectToSphere, recfile.version, removeTear, retistruct.batch.plot.ods, retistruct.potential.od, setFixedPoint, solveMappingCart, titrate.reconstructedOutline and 1 more

added 13 exports
CountSet, FeatureSet, LandmarkSet, PathOutline, PointSet, ReconstructedCountSet, ReconstructedFeatureSet, ReconstructedLandmarkSet, ReconstructedPointSet, RetinalOutline, TriangulatedFragment, azel.to.sphere.colatitude, depthplot3D
R
R 3.6.0 released · 2019-04-26

Show 9 earlier eventsHide 9 earlier events

R
R 3.5.0 released · 2018-04-23
0.5.12
record
2017-08-09 · diff ↗ ·
added 2 exports
AnnotatedOutline, Outline
0.5.11
record
2017-07-15 · diff ↗ ·
removed 1 export
retistruct.global.revision
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
0.5.10
record
2015-02-16 · diff ↗ ·
added 2 exports
bary.to.sphere.cart, sphere.cart.to.sphere.spherical
0.5.9
record
2014-12-02
R
R 3.1.0 released · 2014-04-10

Package metadata

First published: 2014-12-02
Total releases: 10 / 12 yrs
License: CC BY-NC-SA 4.0
Minimum R: ≥ 3.5.0
Download size: 1.0 MB

Cite

Cite this package

Run in R for the authors' entry:

citation("retistruct")

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

It points to 10.1371/journal.pcbi.1002921.

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 retistruct version 0.8.1 [Data set]. HJJB, LLC. Data release v2026-10-18. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-18, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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