R Observatory: Metrics for Rcwl version 1.28.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

Rcwl

Bioc current

An R interface to the Common Workflow Language

v1.28.0 · software · GPL-2 | file LICENSE

View on Bioconductor ↗ Source ↗

Release Lineage

Entered 3.9 · May 3, 2019

Current · Requires R 4.6

1.0 In 15 of 49 releases 3.23

Description

The Common Workflow Language (CWL) is an open standard for development of data analysis workflows that is portable and scalable across different tools and working environments. Rcwl provides a simple way to wrap command line tools and build CWL data analysis pipelines programmatically within R. It increases the ease of usage, development, and maintenance of CWL pipelines.

Test coverage

Line coverage

–

Expression

–

Tests / Examples

–

Functions

87 67 exported

Complexity

3.3 avg / 20 max

Call network

87 nodes / 96 edges

Test coverage is not measured for Bioconductor packages; nodes fall back to a neutral fill.

Call graph

Open call graph →

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Lowest coverage

Per-function coverage is not measured for this package yet.

Code

Structure

Lines of code

5,089

Files

111

Compiled share

0%

Has compiled src

No

Language breakdown

R 2,912 (57.2%)Tests 124 (2.4%)Docs 1,435 (28.2%)Vignettes 618 (12.1%)

API

Exported functions

68

Internal functions

20

Recent export changes

v3.9+41 arguments<-, baseCommand<-, cwlClass<- +38 more

v3.20+2 stepInputs, stepOutputs

Testing & CI

Has tests

Yes

Test-to-code ratio

0.04

testthat edition

–

CI present

Yes

CI type

["github-actions"]

PR gated

Yes

Docs

Roxygen coverage

100%

Health & Security signals

Informational signals; not verdicts.

on.exit coverage

50%

Unsafe pattern score

25

Dep constraint coverage

0%

Secret pattern count

0

Bundled 3rd-party code

2 items

Portability & License

Min R version

3.6

System requirements

–

C++ standard

–

License

GPL-2 | file LICENSE

License flags

SPDX valid, not OSI

History

Versions

15

First release

2019-10-11

Latest release

2026-04-28

Avg cadence

182 days

Cold removal rate

100%

Dep drift

1

LOC over versions

Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.

Documentation

READMEYes · 46 wordsVignettesYes · dynamicpkgdown siteYesNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 98%
Return-value docs: 85%
References docs: 0%

Topics

Software

Software › WorkflowStep

Software › ResearchField › Immunology › ImmunoOncology

Depended on by (2)

Bioconductor (2)

RcwlPipelines ReUseData

People

Qiang Hu author maintainer
Qian Liu author

At a glance

Version: 1.28.0
Category: software
License: GPL-2 | file LICENSE
Requires R: ≥ 4.6
Maintainer: Qiang Hu
Entered: 3.9 · May 3, 2019
Current: 3.23 · Apr 29, 2026

Available on

CRAN r2u Bioconductor autoCRAN COPR

Dependencies

Depends

R (>= 3.6)yamlmethodsS4VectorsBioc

Imports

utilsstatsBiocParallelBiocbatchtools DiagrammeR shiny R.utils codetoolsbasiliskBioc

Suggests

testthat knitr rmarkdownBiocStyleBioc

Source & history

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("Rcwl")

Format

Hu, Q., & Liu, Q. (2026). Rcwl: An R interface to the Common Workflow Language (Version 1.28.0) [Computer software]. https://bioconductor.org/packages/Rcwl

This is what citation() produces when a package has no citation file of its own. If it prints something else, use that.

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 Rcwl version 1.28.0 [Data set]. HJJB, LLC. Data release v2026-08-22. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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