R Observatory: Metrics for rEDM version 2.0.2

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

rEDM

2.0.2Package record

Empirical Dynamic Modeling ('EDM')

1packages depend

11.1Kdownloads / year

–test coverage

12/13flavors OK

Overview

About

Maintained by Joseph ParkCRAN page ↗

An implementation of 'EDM' algorithms based on research software developed at the Sugihara Lab ('UCSD/SIO'). Primary methods include 'Simplex' projection from Sugihara & May (1990) doi:10.1038/344734a0, Sequential locally-weighted global linear maps 'S-map': Sugihara (1994) doi:10.1098/rsta.1994.0106, Convergent cross mapping described in Sugihara et al. (2012) doi:10.1126/science.1227079, and, 'Multiview embedding' from Ye & Sugihara (2016) doi:10.1126/science.aag0863.

Changes in 2.0.2

Version 2.0.2 is a bugfix relase. Parameter E is required as in previous releases. Embed() returns a data.frame with named columns as in previous releases. Neighbor ties in Simplex are resolved.

From NEWS.md in the release

Install

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

install.packages("rEDM", 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-redm

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-rEDM

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-rEDM

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

1ERROR12OK

Check messages

ERRORre-building of vignette outputsr-oldrel-macos-arm64

Error(s) in re-building vignettes:
--- re-building ‘rEDM-tutorial.Rmd’ using rmarkdown
2026-10-23 20:06:42.222 R[47825:70859] XType: Using static font registry.

 *** caught segfault ***
address 0x110, cause 'invalid permissions'

 *** caught segfault ***
address 0x110, cause 'invalid permissions'

 *** caught segfault ***
address 0x110, cause 'invalid permissions'

 *** caught segfault ***
address 0x110, cause 'invalid permissions'

Traceback:
 1: RowCumsum(valid)
 2: FindNeighbors(embedding, lib_i, pred_i, knn, exclusionRadius = exclusionRadius,     validLib = validLib, libOverlap = idx$libOverlap, backend = backend,     tieBreak = FALSE, verbose = verbose)
 3: SMap(dataFrame, columns, target, lib, pred, E = E, Tp = Tp, knn = knn,     tau = tau, theta = th, exclusionRadius = exclusionRadius,     embedded = embedded, validLib = validLib, noTime = noTime,     ignoreNan = ignoreNan, backend = backend)

Traceback:
 4:  1: ComputeError(predictions$Observations, predictions$Predictions)Row
...[truncated]...
",         file, conditionMessage(e)))})
58: tools::buildVignettes(dir = "/Volumes/Builds/packages/big-sur-arm64/results/4.5/rEDM.Rcheck/vign_test/rEDM",     skip = TRUE, ser_elibs = "/Volumes/Temp/tmp/Rtmpxhxkq3/file857135e6bed4.rds")
An irrecoverable exception occurred. R is aborting now ...

Quitting from rEDM-tutorial.Rmd:466-469 [smap_thrips]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `data.frame()`:
! arguments imply differing number of rows: 15, 0
---
Backtrace:
    ▆
 1. └─rEDM::PredictNonlinear(...)
 2.   └─base::data.frame(Theta = theta, rho = rho)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'rEDM-tutorial.Rmd' failed with diagnostics:
arguments imply differing number of rows: 15, 0
--- failed re-building ‘rEDM-tutorial.Rmd’

SUMMARY: processing the following file failed:
  ‘rEDM-tutorial.Rmd’

Error: Vignette re-building failed.
Execution halted

CRAN check page ↗

Slowest check: 4.1 min · r-devel-linux-x86_64-debian-gcc

Status changes

ERROR12 OK, 1 ERRORNow
ERROR7 OK, 5 NOTE, 1 ERROR2026-08-01
NOTE1 OK, 13 NOTE2026-04-22
ERROR1 OK, 12 NOTE, 1 ERROR2026-04-18
NOTE1 OK, 13 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 2.0.2

READMEYes · 529 wordsVignettesYes · 1 · dynamicNEWSYes · 33% structured · mentions 2.0.2Citation fileNoWebsitenot declared in DESCRIPTION

Help pages: 26 (3 internal)includes a package overview page
Examples that run: 100%9 run in a plain check
Exported functions with examples: 69%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 27%

Vignettes (1)

Empirical Dynamic Modeling

How these are measured

Downloads

11.1K

CRAN downloads in the past year

Rank #3,857 · ~31/day · ~929/mo

Releases R versions

Daily download trend is not available in this view yet.

87630 days

2.4K90 days

11.1K1 year

Compare downloads with other packages →

Also on421 r2u6 autocran

How downloads are counted

Dependencies

Declared dependencies

5 external dependencies (excludes base and recommended)

Installing rEDM adds 1 package (1 with compiled code, 59 KB of source tarballs). Heaviest: RANN 59 KB.

Depends (0)

none

Imports (5)

statsutilsgraphicsparallelRANN

LinkingTo (0)

none

Suggests (4)

testthat knitr rmarkdown formatR

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

0indirect

Imports 1

Depends, Imports or LinkingTo, most downloaded first

EWSmethods

How these are counted

Code & Tests

Datasets

People & History

People (4)

Joseph Park

Author, Maintainer since 1.3.8 (2020) · added in 1.2.2

Ethan Deyle

Author

George Sugihara

Author, ccp · added in 0.5.3

The Regents of the University of California

Copyright holder · added in 1.3.8

Previously maintained by George Sugihara (1.2.3) and Joseph Park (1.2.2).

Listed in earlier versions (15)

Show 8 of 15 peopleHide 8 people

Adam Clark

no longer listed · 0.4.4 to 1.2.3

Hao Ye

no longer listed · 0.4.4 to 1.15.4

Oliver Keyes

no longer listed · 0.5.3 to 0.7.2

Jun Cai