R Observatory: Metrics for spectr version 1.0.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

spectr

1.0.1Package record

Calculate the Periodogram of a Time-Course

0packages depend

2.7Kdownloads / year

95.6%test coverage

10/13flavors OK

Overview

About

Maintained by Jake HugheyCRAN page ↗GitHub ↗Website ↗

Provides a consistent interface to use various methods to calculate the periodogram and estimate the period of a rhythmic time-course. Methods include Lomb-Scargle, fast Fourier transform, and three versions of the chi-square periodogram. See Tackenberg and Hughey (2021) doi:10.1371/journal.pcbi.1008567.

Changes in 1.0.1

Revised code to not need globalVariables() in order to pass R CMD check.

From NEWS.md in the release

Install

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

install.packages("spectr", 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("hugheylab/spectr")

Development version from hugheylab/spectr. 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-spectr

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-spectr

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-spectr

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

3ERROR10OK

Check messages

ERRORtestsr-release-macos-arm64, r-release-macos-x86_64, r-release-windows-x86_64

r-release-macos-arm64

Running ‘testthat.R’ [1s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(spectr)
  > 
  > test_check('spectr')
  Saving _problems/test_pgram-15.R
  Saving _problems/test_pgram-24.R
  Saving _problems/test_pgram-33.R
  Saving _problems/test_pgram-41.R
  Saving _problems/test_pgram-49.R
  Saving _problems/test_spectr-15.R
  Saving _problems/test_spectr-24.R
  Saving _problems/test_spectr-33.R
  Saving _problems/test_spectr-42.R
  Saving _problems/test_spectr-51.R
  [ FAIL 10 | WARN 0 | SKIP 0 | PASS 3 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test_pgram.R:15:3'): CSP greedy ─────────────────────────────────────
  Error in `dyn.load(file, DLLpath = DLLpath, ...)`: unable to load shared object '/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/qs/libs/qs.so':
    dlopen(/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/qs/libs/qs.so, 0x0006): Symbol not found: _SET_CLOENV
    Referen
...[truncated]...
t_spectr.R:42:3
   2.   └─base::library.dynam(lib, package, package.lib)
   3.     └─base::dyn.load(file, DLLpath = DLLpath, ...)
  ── Error ('test_spectr.R:51:3'): spectr FFT ────────────────────────────────────
  Error in `dyn.load(file, DLLpath = DLLpath, ...)`: unable to load shared object '/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/qs/libs/qs.so':
    dlopen(/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/qs/libs/qs.so, 0x0006): Symbol not found: _SET_CLOENV
    Referenced from: <AA665871-E63C-349E-A381-34F936D898C9> /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/qs/libs/qs.so
    Expected in:     <463735C6-E22F-3AE6-AEF9-E59BA5B5FC66> /Library/Frameworks/R.framework/Versions/4.6/Resources/lib/libR.dylib
  Backtrace:
      ▆
   1. └─base::loadNamespace(x) at test_spectr.R:51:3
   2.   └─base::library.dynam(lib, package, package.lib)
   3.     └─base::dyn.load(file, DLLpath = DLLpath, ...)
  
  [ FAIL 10 | WARN 0 | SKIP 0 | PASS 3 ]
  Error:
  ! Test failures.
  Execution halted

r-release-macos-x86_64

Running ‘testthat.R’ [3s/4s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(spectr)
  > 
  > test_check('spectr')
  Saving _problems/test_pgram-15.R
  Saving _problems/test_pgram-24.R
  Saving _problems/test_pgram-33.R
  Saving _problems/test_pgram-41.R
  Saving _problems/test_pgram-49.R
  Saving _problems/test_spectr-15.R
  Saving _problems/test_spectr-24.R
  Saving _problems/test_spectr-33.R
  Saving _problems/test_spectr-42.R
  Saving _problems/test_spectr-51.R
  [ FAIL 10 | WARN 0 | SKIP 0 | PASS 3 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test_pgram.R:15:3'): CSP greedy ─────────────────────────────────────
  Error in `dyn.load(file, DLLpath = DLLpath, ...)`: unable to load shared object '/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/qs/libs/qs.so':
    dlopen(/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/qs/libs/qs.so, 0x0006): Symbol not found: _SET_CLOENV
    Ref
...[truncated]...
:3
   2.   └─base::library.dynam(lib, package, package.lib)
   3.     └─base::dyn.load(file, DLLpath = DLLpath, ...)
  ── Error ('test_spectr.R:51:3'): spectr FFT ────────────────────────────────────
  Error in `dyn.load(file, DLLpath = DLLpath, ...)`: unable to load shared object '/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/qs/libs/qs.so':
    dlopen(/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/qs/libs/qs.so, 0x0006): Symbol not found: _SET_CLOENV
    Referenced from: <38F2B027-A0B8-34C3-82BB-B64B0EC2EA4D> /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/qs/libs/qs.so
    Expected in:     <174E517E-2847-39E5-BA5A-7AD14DA5B6DC> /Library/Frameworks/R.framework/Versions/4.6-x86_64/Resources/lib/libR.dylib
  Backtrace:
      ▆
   1. └─base::loadNamespace(x) at test_spectr.R:51:3
   2.   └─base::library.dynam(lib, package, package.lib)
   3.     └─base::dyn.load(file, DLLpath = DLLpath, ...)
  
  [ FAIL 10 | WARN 0 | SKIP 0 | PASS 3 ]
  Error:
  ! Test failures.
  Execution halted

r-release-windows-x86_64

Running 'testthat.R' [4s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(spectr)
  > 
  > test_check('spectr')
  Saving _problems/test_pgram-15.R
  Saving _problems/test_pgram-24.R
  Saving _problems/test_pgram-33.R
  Saving _problems/test_pgram-41.R
  Saving _problems/test_pgram-49.R
  Saving _problems/test_spectr-15.R
  Saving _problems/test_spectr-24.R
  Saving _problems/test_spectr-33.R
  Saving _problems/test_spectr-42.R
  Saving _problems/test_spectr-51.R
  [ FAIL 10 | WARN 0 | SKIP 0 | PASS 3 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test_pgram.R:15:3'): CSP greedy ─────────────────────────────────────
  Error in `inDL(x, as.logical(local), as.logical(now), ...)`: unable to load shared object 'D:/RCompile/CRANpkg/lib/4.6/qs/libs/x64/qs.dll':
    LoadLibrary failure:  Die angegebene Prozedur wurde nicht gefunden.
  
  Backtrace:
      ▆
   1. └─base::loadNamespace(x) at 
...[truncated]...
.dll':
    LoadLibrary failure:  Die angegebene Prozedur wurde nicht gefunden.
  
  Backtrace:
      ▆
   1. └─base::loadNamespace(x) at test_spectr.R:42:3
   2.   └─base::library.dynam(lib, package, package.lib)
   3.     └─base::dyn.load(file, DLLpath = DLLpath, ...)
   4.       └─base (local) inDL(x, as.logical(local), as.logical(now), ...)
  ── Error ('test_spectr.R:51:3'): spectr FFT ────────────────────────────────────
  Error in `inDL(x, as.logical(local), as.logical(now), ...)`: unable to load shared object 'D:/RCompile/CRANpkg/lib/4.6/qs/libs/x64/qs.dll':
    LoadLibrary failure:  Die angegebene Prozedur wurde nicht gefunden.
  
  Backtrace:
      ▆
   1. └─base::loadNamespace(x) at test_spectr.R:51:3
   2.   └─base::library.dynam(lib, package, package.lib)
   3.     └─base::dyn.load(file, DLLpath = DLLpath, ...)
   4.       └─base (local) inDL(x, as.logical(local), as.logical(now), ...)
  
  [ FAIL 10 | WARN 0 | SKIP 0 | PASS 3 ]
  Error:
  ! Test failures.
  Execution halted

CRAN check page ↗

Slowest check: 1.7 min · r-release-windows-x86_64

Status changes

ERROR10 OK, 3 ERRORNow
ERROR13 OK, 1 ERROR2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.0.1

README· In the repository, left out of the releaseVignettesNoNEWSYes · 100% structured · mentions 1.0.1Citation fileNoWebsiteYes · pkgdown

Help pages: 1
Examples that run: 100%1 run in a plain check
Exported functions with examples: 100%
Documented parameters: 90%
Return-value docs: 100%
Help pages citing references: 0%

How these are measured

Downloads

2.7K

CRAN downloads in the past year

Rank #20,143 · ~7/day · ~224/mo

Releases R versions

Daily download trend is not available in this view yet.

23330 days

66290 days

2.7K1 year

Compare downloads with other packages →

Also on65 r2u3 autocran

How downloads are counted

Repository

hugheylab/spectr ↗Organization: hugheylab

1Stars

0Forks

0Open issues

0Open PRs

1Releases

263Commits

2Commit identities

263 commits · Last activity 2022-12-01 · 0% stars, 30d · Default branch at 1.0.2, ahead of CRAN 1.0.1 (checked 2026-10-22)

Responsiveness

How these are sampled

PRs merged (all time): 100%
Median days to close, 50 most recently updated closed issues: 0
Median days to close, 50 most recently updated closed PRs: 6

Stars over time

2025-05-24 · 12026-07-07 · 1

How these are measured

PracticesBeta

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

Checks run against github.com/hugheylab/spectr on 2026-10-22.

Continuous integration (1)

GitHub Actions

Docs source (2)

pkgdown

pkgdown site last built 2022-12-01

Coverage (1)

Coverage reporting

CRAN release process (1)

cran-comments.md

Show all practicesHide 1 practice

Lint, format, editor (1)

RStudio project

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

Dependencies

Declared dependencies

8 external dependencies (excludes base and recommended)

Installing spectr adds 69 packages (35 with compiled code, 65 MB of source tarballs). Heaviest: stringi 11 MB, ggplot2 6.0 MB, data.table 5.7 MB.

Depends (1)

R >= 3.6

Imports (3)

data.table foreach lomb

LinkingTo (0)

none

Suggests (5)

doParallel knitr qs rmarkdown testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

People & History

People (3)

Jake Hughey

Author, Maintainer since 1.0.1 (2022)

Michael Tackenberg

Author

Josh Schoenbachler

Contributor

Releases (1)

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
1.0.1Latest
record
2022-02-07 · current release
R
R 4.1.0 released · 2021-05-18

Package metadata

First published: 2022-02-07
Total releases: 1 / 4 yrs
License: GPL-2 OSI
Minimum R: ≥ 3.6
Download size: 13 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("spectr")

Format

Hughey, J., Schoenbachler, J., & Tackenberg, M. (2022). spectr: Calculate the Periodogram of a Time-Course (Version 1.0.1) [Computer software]. https://doi.org/10.32614/CRAN.package.spectr

This package has no citation file, so citation() returns this entry built from DESCRIPTION.

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 spectr version 1.0.1 [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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