reproducible

A set of tools for R that enhance reproducibility beyond package management

https://github.com/predictiveecology/reproducible

Science Score: 54.0%

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CITATION.cff file
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Keywords

r-package reproducibility reproducible-research

Keywords from Contributors

interpretability standardization hack

Last synced: 6 months ago · JSON representation ·

Repository

A set of tools for R that enhance reproducibility beyond package management

Basic Info

Host: GitHub
Owner: PredictiveEcology
Language: R
Default Branch: master
Homepage: https://reproducible.predictiveecology.org/
Size: 18.9 MB

Statistics

Stars: 40
Watchers: 5
Forks: 17
Open Issues: 30
Releases: 33

Topics

r-package reproducibility reproducible-research

Created over 8 years ago · Last pushed 7 months ago

Metadata Files

Readme Changelog Contributing Citation

reproducible

A set of tools for R that enhance reproducibility for data analytics and forecasting. This package aims at making high-level, robust, machine and OS independent tools for making deeply reproducible and reusable content in R. The suggested package geodata can be installed from the repository (https://PredictiveEcology.r-universe.dev).

News

See updates from latest CRAN and development versions. Note that versions 2.0.0 and later are not compatible with previous versions. The current version can be much faster and creates smaller repository files (each with specific options set using Suggests packages) and allows for different (e.g., RPostgres backends for the database^1 -- not the saved files, however; these are still saved locally).

Reproducible workflows

A reproducible workflow is a series of code steps (e.g., in a script) that, when run, produce the same output from the same inputs every time. The big challenge with such a workflow is that many steps are so time consuming that a scientist tends to not re-run each step every time. After many months of work, it is often unclear if the code will actually function from the start. Is the original dataset still there? Have the packages that were used been updated? Are some of the steps missing because there was some "point and clicking"?

The best way to maintain reproducibility is to have all the code re-run all the time. That way, errors are detected early and can be fixed. The challenge is how to make all the steps fast enough that it becomes convenient to re-run everything from scratch each time.

`Cache`

Caching is the principle tool to achieve this reproducible work-flow. There are many existing tools that support some notion of caching. The main tool here, Cache, can be nested hierarchically, becoming very powerful for the data science developer who is regularly working at many levels of an analysis.

rnorm(1) # give a random number Cache(rnorm, 1) # generates a random number Cache(rnorm, 1) # recovers the previous random number because call is identical

`prepInputs`

A common data problem is starting from a raw (spatial) dataset and getting it into shape for an analysis. Often, copies of a dataset are haphazardly placed in ad hoc local file systems. This makes it particularly difficult to share the workflow. The solution to this is use a canonical location (e.g., cloud storage, permalink to original data provider, etc.) and use tools that are smart enough to download only once.

Get a geospatial dataset. It will be checksummed (locally), meaning if the file is already in place locally, it will not download it again.

```

Using dlFun -- a custom download function -- passed to preProcess

test1 <- prepInputs(targetFile = "GADM2.8LUX_adm0.rds", # must specify currently dlFun = "raster::getData", name = "GADM", country = "LUX", level = 0, path = dPath) ```

`Cache` with `prepInputs`

Putting these tools together allows for very rich data flows. For example, with prepInputs and using the fun argument or passing a studyArea, a raw dataset can be downloaded, loaded into R, and post processed -- all potentially very time consuming steps resulting in a clean, often much smaller dataset. Wrapping all these with a Cache can make it very quick.

test1 <- Cache(prepInputs, targetFile = "GADM_2.8_LUX_adm0.rds", # must specify currently dlFun = "raster::getData", name = "GADM", country = "LUX", level = 0, path = dPath)

See vignettes and help files for many more real-world examples.

Installation

Current release (on CRAN)

Install from CRAN:

r install.packages("reproducible")

Install from GitHub:

```r

install.packages("devtools")

library("devtools") install_github("PredictiveEcology/reproducible", dependencies = TRUE) ```

Development version

Install from GitHub:

```r

install.packages("devtools")

library("devtools") install_github("PredictiveEcology/reproducible", ref = "development", dependencies = TRUE) ```

Contributions

Please see CONTRIBUTING.md for information on how to contribute to this project.

Owner

Name: Predictive Ecology Group
Login: PredictiveEcology
Kind: organization
Location: Victoria, BC, Canada

Website: https://PredictiveEcology.org
Repositories: 119
Profile: https://github.com/PredictiveEcology

Ecological forecasting models and data

Citation (CITATION.cff)

# --------------------------------------------
# CITATION file created with {cffr} R package
# See also: https://docs.ropensci.org/cffr/
# --------------------------------------------
 
cff-version: 1.2.0
message: 'To cite package "reproducible" in publications use:'
type: software
license: GPL-3.0-only
title: 'reproducible: Enhance Reproducibility of R Code'
version: 2.1.2
identifiers:
- type: doi
  value: 10.32614/CRAN.package.reproducible
abstract: A collection of high-level, machine- and OS-independent tools for making
  reproducible and reusable content in R. The two workhorse functions are Cache()
  and prepInputs(). Cache() allows for nested caching, is robust to environments and
  objects with environments (like functions), and deals with some classes of file-backed
  R objects e.g., from terra and raster packages. Both functions have been developed
  to be foundational components of data retrieval and processing in continuous workflow
  situations. In both functions, efforts are made to make the first and subsequent
  calls of functions have the same result, but faster at subsequent times by way of
  checksums and digesting. Several features are still under development, including
  cloud storage of cached objects allowing for sharing between users. Several advanced
  options are available, see ?reproducibleOptions().
authors:
- family-names: McIntire
  given-names: Eliot J B
  email: eliot.mcintire@canada.ca
  orcid: https://orcid.org/0000-0002-6914-8316
- family-names: Chubaty
  given-names: Alex M
  email: achubaty@for-cast.ca
  orcid: https://orcid.org/0000-0001-7146-8135
preferred-citation:
  type: manual
  title: 'reproducible: Enhance Reproducibility of R Code'
  authors:
  - family-names: McIntire
    given-names: Eliot J B
    email: eliot.mcintire@canada.ca
    orcid: https://orcid.org/0000-0002-6914-8316
  - family-names: Chubaty
    given-names: Alex M
    email: achubaty@for-cast.ca
    orcid: https://orcid.org/0000-0001-7146-8135
  - family-names: Micheletti
    given-names: Tati
    email: tati.micheletti@gmail.com
    orcid: https://orcid.org/0000-0003-4838-8342
  - family-names: Barros
    given-names: Ceres
    email: ceres.barros@ubc.ca
    orcid: https://orcid.org/0000-0003-4036-977X
  - family-names: Eddy
    given-names: Ian
    email: ian.eddy@nrcan-rncan.gc.ca
    orcid: https://orcid.org/0000-0001-7397-2116
  year: '2024'
  notes: R package version 2.1.2
  url: https://reproducible.predictiveecology.org
repository: https://CRAN.R-project.org/package=reproducible
repository-code: https://github.com/PredictiveEcology/reproducible
url: https://reproducible.predictiveecology.org
date-released: '2024-12-11'
contact:
- family-names: McIntire
  given-names: Eliot J B
  email: eliot.mcintire@canada.ca
  orcid: https://orcid.org/0000-0002-6914-8316
keywords:
- r-package
- reproducibility
- reproducible-research
references:
- type: software
  title: 'R: A Language and Environment for Statistical Computing'
  notes: Depends
  url: https://www.R-project.org/
  authors:
  - name: R Core Team
  institution:
    name: R Foundation for Statistical Computing
    address: Vienna, Austria
  year: '2024'
  version: '>= 4.1'
- type: software
  title: cli
  abstract: 'cli: Helpers for Developing Command Line Interfaces'
  notes: Imports
  url: https://cli.r-lib.org
  repository: https://CRAN.R-project.org/package=cli
  authors:
  - family-names: Csárdi
    given-names: Gábor
    email: csardi.gabor@gmail.com
  year: '2024'
  doi: 10.32614/CRAN.package.cli
- type: software
  title: data.table
  abstract: 'data.table: Extension of `data.frame`'
  notes: Imports
  url: https://r-datatable.com
  repository: https://CRAN.R-project.org/package=data.table
  authors:
  - family-names: Barrett
    given-names: Tyson
    email: t.barrett88@gmail.com
    orcid: https://orcid.org/0000-0002-2137-1391
  - family-names: Dowle
    given-names: Matt
    email: mattjdowle@gmail.com
  - family-names: Srinivasan
    given-names: Arun
    email: asrini@pm.me
  - family-names: Gorecki
    given-names: Jan
  - family-names: Chirico
    given-names: Michael
    orcid: https://orcid.org/0000-0003-0787-087X
  - family-names: Hocking
    given-names: Toby
    orcid: https://orcid.org/0000-0002-3146-0865
  - family-names: Schwendinger
    given-names: Benjamin
    orcid: https://orcid.org/0000-0003-3315-8114
  year: '2024'
  doi: 10.32614/CRAN.package.data.table
  version: '>= 1.10.4'
- type: software
  title: digest
  abstract: 'digest: Create Compact Hash Digests of R Objects'
  notes: Imports
  url: https://dirk.eddelbuettel.com/code/digest.html
  repository: https://CRAN.R-project.org/package=digest
  authors:
  - family-names: Eddelbuettel
    given-names: Dirk
    email: edd@debian.org
    orcid: https://orcid.org/0000-0001-6419-907X
  year: '2024'
  doi: 10.32614/CRAN.package.digest
- type: software
  title: filelock
  abstract: 'filelock: Portable File Locking'
  notes: Imports
  url: https://r-lib.github.io/filelock/
  repository: https://CRAN.R-project.org/package=filelock
  authors:
  - family-names: Csárdi
    given-names: Gábor
    email: csardi.gabor@gmail.com
  year: '2024'
  doi: 10.32614/CRAN.package.filelock
- type: software
  title: fpCompare
  abstract: 'fpCompare: Reliable Comparison of Floating Point Numbers'
  notes: Imports
  url: https://github.com/PredictiveEcology/fpCompare
  repository: https://CRAN.R-project.org/package=fpCompare
  authors:
  - family-names: Chubaty
    given-names: Alex M
    email: achubaty@for-cast.ca
    orcid: https://orcid.org/0000-0001-7146-8135
  year: '2024'
  doi: 10.32614/CRAN.package.fpCompare
- type: software
  title: fs
  abstract: 'fs: Cross-Platform File System Operations Based on ''libuv'''
  notes: Imports
  url: https://fs.r-lib.org
  repository: https://CRAN.R-project.org/package=fs
  authors:
  - family-names: Hester
    given-names: Jim
  - family-names: Wickham
    given-names: Hadley
    email: hadley@posit.co
  - family-names: Csárdi
    given-names: Gábor
    email: csardi.gabor@gmail.com
  year: '2024'
  doi: 10.32614/CRAN.package.fs
- type: software
  title: lobstr
  abstract: 'lobstr: Visualize R Data Structures with Trees'
  notes: Imports
  url: https://lobstr.r-lib.org/
  repository: https://CRAN.R-project.org/package=lobstr
  authors:
  - family-names: Wickham
    given-names: Hadley
    email: hadley@rstudio.com
  year: '2024'
  doi: 10.32614/CRAN.package.lobstr
- type: software
  title: methods
  abstract: 'R: A Language and Environment for Statistical Computing'
  notes: Imports
  authors:
  - name: R Core Team
  institution:
    name: R Foundation for Statistical Computing
    address: Vienna, Austria
  year: '2024'
- type: software
  title: stats
  abstract: 'R: A Language and Environment for Statistical Computing'
  notes: Imports
  authors:
  - name: R Core Team
  institution:
    name: R Foundation for Statistical Computing
    address: Vienna, Austria
  year: '2024'
- type: software
  title: utils
  abstract: 'R: A Language and Environment for Statistical Computing'
  notes: Imports
  authors:
  - name: R Core Team
  institution:
    name: R Foundation for Statistical Computing
    address: Vienna, Austria
  year: '2024'
- type: software
  title: archive
  abstract: 'archive: Multi-Format Archive and Compression Support'
  notes: Suggests
  url: https://archive.r-lib.org/
  repository: https://CRAN.R-project.org/package=archive
  authors:
  - family-names: Hester
    given-names: Jim
    orcid: https://orcid.org/0000-0002-2739-7082
  - family-names: Csárdi
    given-names: Gábor
    email: csardi.gabor@gmail.com
  year: '2024'
  doi: 10.32614/CRAN.package.archive
- type: software
  title: covr
  abstract: 'covr: Test Coverage for Packages'
  notes: Suggests
  url: https://covr.r-lib.org
  repository: https://CRAN.R-project.org/package=covr
  authors:
  - family-names: Hester
    given-names: Jim
    email: james.f.hester@gmail.com
  year: '2024'
  doi: 10.32614/CRAN.package.covr
- type: software
  title: curl
  abstract: 'curl: A Modern and Flexible Web Client for R'
  notes: Suggests
  url: https://jeroen.r-universe.dev/curl
  repository: https://CRAN.R-project.org/package=curl
  authors:
  - family-names: Ooms
    given-names: Jeroen
    email: jeroenooms@gmail.com
    orcid: https://orcid.org/0000-0002-4035-0289
  year: '2024'
  doi: 10.32614/CRAN.package.curl
- type: software
  title: DBI
  abstract: 'DBI: R Database Interface'
  notes: Suggests
  url: https://dbi.r-dbi.org
  repository: https://CRAN.R-project.org/package=DBI
  authors:
  - name: R Special Interest Group on Databases (R-SIG-DB)
  - family-names: Wickham
    given-names: Hadley
  - family-names: Müller
    given-names: Kirill
    email: kirill@cynkra.com
    orcid: https://orcid.org/0000-0002-1416-3412
  year: '2024'
  doi: 10.32614/CRAN.package.DBI
- type: software
  title: future
  abstract: 'future: Unified Parallel and Distributed Processing in R for Everyone'
  notes: Suggests
  url: https://future.futureverse.org
  repository: https://CRAN.R-project.org/package=future
  authors:
  - family-names: Bengtsson
    given-names: Henrik
    email: henrikb@braju.com
    orcid: https://orcid.org/0000-0002-7579-5165
  year: '2024'
  doi: 10.32614/CRAN.package.future
- type: software
  title: geodata
  abstract: 'geodata: Download Geographic Data'
  notes: Suggests
  url: https://github.com/rspatial/geodata/issues/
  repository: https://CRAN.R-project.org/package=geodata
  authors:
  - family-names: Hijmans
    given-names: Robert J.
  - family-names: Barbosa
    given-names: Márcia
  - family-names: Ghosh
    given-names: Aniruddha
  - family-names: Mandel
    given-names: Alex
  year: '2024'
  doi: 10.32614/CRAN.package.geodata
- type: software
  title: glue
  abstract: 'glue: Interpreted String Literals'
  notes: Suggests
  url: https://glue.tidyverse.org/
  repository: https://CRAN.R-project.org/package=glue
  authors:
  - family-names: Hester
    given-names: Jim
    orcid: https://orcid.org/0000-0002-2739-7082
  - family-names: Bryan
    given-names: Jennifer
    email: jenny@posit.co
    orcid: https://orcid.org/0000-0002-6983-2759
  year: '2024'
  doi: 10.32614/CRAN.package.glue
- type: software
  title: googledrive
  abstract: 'googledrive: An Interface to Google Drive'
  notes: Suggests
  url: https://googledrive.tidyverse.org
  repository: https://CRAN.R-project.org/package=googledrive
  authors:
  - family-names: D'Agostino McGowan
    given-names: Lucy
  - family-names: Bryan
    given-names: Jennifer
    email: jenny@posit.co
    orcid: https://orcid.org/0000-0002-6983-2759
  year: '2024'
  doi: 10.32614/CRAN.package.googledrive
- type: software
  title: httr
  abstract: 'httr: Tools for Working with URLs and HTTP'
  notes: Suggests
  url: https://httr.r-lib.org/
  repository: https://CRAN.R-project.org/package=httr
  authors:
  - family-names: Wickham
    given-names: Hadley
    email: hadley@posit.co
  year: '2024'
  doi: 10.32614/CRAN.package.httr
- type: software
  title: httr2
  abstract: 'httr2: Perform HTTP Requests and Process the Responses'
  notes: Suggests
  url: https://httr2.r-lib.org
  repository: https://CRAN.R-project.org/package=httr2
  authors:
  - family-names: Wickham
    given-names: Hadley
    email: hadley@posit.co
  year: '2024'
  doi: 10.32614/CRAN.package.httr2
- type: software
  title: knitr
  abstract: 'knitr: A General-Purpose Package for Dynamic Report Generation in R'
  notes: Suggests
  url: https://yihui.org/knitr/
  repository: https://CRAN.R-project.org/package=knitr
  authors:
  - family-names: Xie
    given-names: Yihui
    email: xie@yihui.name
    orcid: https://orcid.org/0000-0003-0645-5666
  year: '2024'
  doi: 10.32614/CRAN.package.knitr
- type: software
  title: parallel
  abstract: 'R: A Language and Environment for Statistical Computing'
  notes: Suggests
  authors:
  - name: R Core Team
  institution:
    name: R Foundation for Statistical Computing
    address: Vienna, Austria
  year: '2024'
- type: software
  title: qs
  abstract: 'qs: Quick Serialization of R Objects'
  notes: Suggests
  url: https://github.com/qsbase/qs
  repository: https://CRAN.R-project.org/package=qs
  authors:
  - family-names: Ching
    given-names: Travers
    email: traversc@gmail.com
  year: '2024'
  doi: 10.32614/CRAN.package.qs
- type: software
  title: raster
  abstract: 'raster: Geographic Data Analysis and Modeling'
  notes: Suggests
  url: https://rspatial.org/raster
  repository: https://CRAN.R-project.org/package=raster
  authors:
  - family-names: Hijmans
    given-names: Robert J.
    email: r.hijmans@gmail.com
    orcid: https://orcid.org/0000-0001-5872-2872
  year: '2024'
  doi: 10.32614/CRAN.package.raster
  version: '>= 3.5-15'
- type: software
  title: RCurl
  abstract: 'RCurl: General Network (HTTP/FTP/...) Client Interface for R'
  notes: Suggests
  repository: https://CRAN.R-project.org/package=RCurl
  authors:
  - family-names: Temple Lang
    given-names: Duncan
    email: duncan@r-project.org
    orcid: https://orcid.org/0000-0003-0159-1546
  year: '2024'
  doi: 10.32614/CRAN.package.RCurl
  version: '>= 1.95-4.8'
- type: software
  title: rlang
  abstract: 'rlang: Functions for Base Types and Core R and ''Tidyverse'' Features'
  notes: Suggests
  url: https://rlang.r-lib.org
  repository: https://CRAN.R-project.org/package=rlang
  authors:
  - family-names: Henry
    given-names: Lionel
    email: lionel@posit.co
  - family-names: Wickham
    given-names: Hadley
    email: hadley@posit.co
  year: '2024'
  doi: 10.32614/CRAN.package.rlang
- type: software
  title: rmarkdown
  abstract: 'rmarkdown: Dynamic Documents for R'
  notes: Suggests
  url: https://pkgs.rstudio.com/rmarkdown/
  repository: https://CRAN.R-project.org/package=rmarkdown
  authors:
  - family-names: Allaire
    given-names: JJ
    email: jj@posit.co
  - family-names: Xie
    given-names: Yihui
    email: xie@yihui.name
    orcid: https://orcid.org/0000-0003-0645-5666
  - family-names: Dervieux
    given-names: Christophe
    email: cderv@posit.co
    orcid: https://orcid.org/0000-0003-4474-2498
  - family-names: McPherson
    given-names: Jonathan
    email: jonathan@posit.co
  - family-names: Luraschi
    given-names: Javier
  - family-names: Ushey
    given-names: Kevin
    email: kevin@posit.co
  - family-names: Atkins
    given-names: Aron
    email: aron@posit.co
  - family-names: Wickham
    given-names: Hadley
    email: hadley@posit.co
  - family-names: Cheng
    given-names: Joe
    email: joe@posit.co
  - family-names: Chang
    given-names: Winston
    email: winston@posit.co
  - family-names: Iannone
    given-names: Richard
    email: rich@posit.co
    orcid: https://orcid.org/0000-0003-3925-190X
  year: '2024'
  doi: 10.32614/CRAN.package.rmarkdown
- type: software
  title: RSQLite
  abstract: 'RSQLite: SQLite Interface for R'
  notes: Suggests
  url: https://rsqlite.r-dbi.org
  repository: https://CRAN.R-project.org/package=RSQLite
  authors:
  - family-names: Müller
    given-names: Kirill
    email: kirill@cynkra.com
    orcid: https://orcid.org/0000-0002-1416-3412
  - family-names: Wickham
    given-names: Hadley
  - family-names: James
    given-names: David A.
  - family-names: Falcon
    given-names: Seth
  year: '2024'
  doi: 10.32614/CRAN.package.RSQLite
- type: software
  title: R.utils
  abstract: 'R.utils: Various Programming Utilities'
  notes: Suggests
  url: https://henrikbengtsson.github.io/R.utils/
  repository: https://CRAN.R-project.org/package=R.utils
  authors:
  - family-names: Bengtsson
    given-names: Henrik
    email: henrikb@braju.com
  year: '2024'
  doi: 10.32614/CRAN.package.R.utils
- type: software
  title: sf
  abstract: 'sf: Simple Features for R'
  notes: Suggests
  url: https://r-spatial.github.io/sf/
  repository: https://CRAN.R-project.org/package=sf
  authors:
  - family-names: Pebesma
    given-names: Edzer
    email: edzer.pebesma@uni-muenster.de
    orcid: https://orcid.org/0000-0001-8049-7069
  year: '2024'
  doi: 10.32614/CRAN.package.sf
- type: software
  title: sp
  abstract: 'sp: Classes and Methods for Spatial Data'
  notes: Suggests
  url: https://github.com/edzer/sp/
  repository: https://CRAN.R-project.org/package=sp
  authors:
  - family-names: Pebesma
    given-names: Edzer
    email: edzer.pebesma@uni-muenster.de
  - family-names: Bivand
    given-names: Roger
    email: Roger.Bivand@nhh.no
  year: '2024'
  doi: 10.32614/CRAN.package.sp
  version: '>= 1.4-2'
- type: software
  title: terra
  abstract: 'terra: Spatial Data Analysis'
  notes: Suggests
  url: https://rspatial.org/
  repository: https://CRAN.R-project.org/package=terra
  authors:
  - family-names: Hijmans
    given-names: Robert J.
    email: r.hijmans@gmail.com
    orcid: https://orcid.org/0000-0001-5872-2872
  year: '2024'
  doi: 10.32614/CRAN.package.terra
  version: '>= 1.7-20'
- type: software
  title: testthat
  abstract: 'testthat: Unit Testing for R'
  notes: Suggests
  url: https://testthat.r-lib.org
  repository: https://CRAN.R-project.org/package=testthat
  authors:
  - family-names: Wickham
    given-names: Hadley
    email: hadley@posit.co
  year: '2024'
  doi: 10.32614/CRAN.package.testthat
- type: software
  title: withr
  abstract: 'withr: Run Code ''With'' Temporarily Modified Global State'
  notes: Suggests
  url: https://withr.r-lib.org
  repository: https://CRAN.R-project.org/package=withr
  authors:
  - family-names: Hester
    given-names: Jim
  - family-names: Henry
    given-names: Lionel
    email: lionel@posit.co
  - family-names: Müller
    given-names: Kirill
    email: krlmlr+r@mailbox.org
  - family-names: Ushey
    given-names: Kevin
    email: kevinushey@gmail.com
  - family-names: Wickham
    given-names: Hadley
    email: hadley@posit.co
  - family-names: Chang
    given-names: Winston
  year: '2024'
  doi: 10.32614/CRAN.package.withr

GitHub Events

Total

Issues event: 11
Delete event: 7
Issue comment event: 14
Push event: 268
Pull request event: 26
Fork event: 6
Create event: 20

Last Year

Issues event: 11
Delete event: 7
Issue comment event: 14
Push event: 268
Pull request event: 26
Fork event: 6
Create event: 20

Committers

Last synced: 10 months ago

All Time

Total Commits: 4,514
Total Committers: 12
Avg Commits per committer: 376.167
Development Distribution Score (DDS): 0.535

Past Year

Commits: 106
Committers: 6
Avg Commits per committer: 17.667
Development Distribution Score (DDS): 0.302

Top Committers

Name	Email	Commits
Eliot McIntire	e**e@g**m	2,097
Alex Chubaty	a**y@g**m	1,104
Eliot McIntire	e**i@m**a	1,046
CeresBarros	c**s@m**a	95
Tati Micheletti	t**i@g**m	91
Ian Eddy	i**y@g**m	64
CeresBarros	c**s@h**m	8
CeresBarros	c**s@g**a	3
github-actions[bot]	4****]	2
Melina Houle	h**a@g**m	2
Stefan Widgren	s**n@g**m	1
Niklas Barthel	6****e	1

Committer Domains (Top 20 + Academic)

mail.ubc.ca: 2 gov.bc.ca: 1

Issues and Pull Requests

Last synced: 6 months ago

All Time

Total issues: 112
Total pull requests: 111
Average time to close issues: 12 months
Average time to close pull requests: 18 days
Total issue authors: 11
Total pull request authors: 7
Average comments per issue: 1.94
Average comments per pull request: 0.35
Merged pull requests: 90
Bot issues: 0
Bot pull requests: 0

Past Year

Issues: 11
Pull requests: 23
Average time to close issues: about 18 hours
Average time to close pull requests: 5 days
Issue authors: 3
Pull request authors: 3
Average comments per issue: 0.45
Average comments per pull request: 0.35
Merged pull requests: 14
Bot issues: 0
Bot pull requests: 0

View more stats

Top Authors

Issue Authors

achubaty (56)
CeresBarros (29)
eliotmcintire (8)
ianmseddy (6)
tati-micheletti (5)
tdhock (1)
rsbivand (1)
rygill (1)
see24 (1)
nbsmokee (1)
rhijmans (1)

Pull Request Authors

eliotmcintire (85)
CeresBarros (20)
achubaty (7)
ianmseddy (6)
tati-micheletti (2)
tylerdrudolph (2)
nbsmokee (1)

Top Labels

Issue Labels

high priority (2) enhancement (1)

Pull Request Labels

Packages

Total packages: 1
Total downloads:
- cran 748 last-month

Total dependent packages: 4
Total dependent repositories: 14
Total versions: 38
Total maintainers: 1

cran.r-project.org: reproducible

Enhance Reproducibility of R Code

Homepage: https://reproducible.predictiveecology.org
Documentation: http://cran.r-project.org/web/packages/reproducible/reproducible.pdf
License: GPL-3
Latest release: 2.1.2
published about 1 year ago

Versions: 38
Dependent Packages: 4
Dependent Repositories: 14
Downloads: 748 Last month

Rankings

Forks count: 5.5%

Dependent repos count: 7.7%

Stargazers count: 7.8%

Average: 8.2%

Dependent packages count: 9.1%

Downloads: 10.6%

Maintainers (1)

eliot.mcintire@canada.ca

Last synced: 7 months ago

Dependencies

.github/workflows/R-CMD-check.yaml actions

actions/checkout v3 composite
actions/upload-artifact main composite
r-lib/actions/check-r-package v2 composite
r-lib/actions/setup-pandoc v2 composite
r-lib/actions/setup-r v2 composite
r-lib/actions/setup-r-dependencies v2 composite

.github/workflows/test-coverage.yaml actions

actions/checkout v2 composite
r-lib/actions/setup-pandoc v2 composite
r-lib/actions/setup-r v2 composite
r-lib/actions/setup-r-dependencies v2 composite

DESCRIPTION cran

R >= 3.6 depends
DBI * imports
RSQLite * imports
Require * imports
data.table >= 1.10.4 imports
digest * imports
fpCompare * imports
gdalUtilities * imports
glue * imports
magrittr * imports
methods * imports
raster * imports
rlang * imports
sp >= 1.4 imports
utils * imports
RCurl >= 1.95 suggests
covr * suggests
crayon * suggests
fastdigest * suggests
fasterize * suggests
future * suggests
gdalUtils * suggests
googledrive * suggests
httr * suggests
knitr * suggests
lwgeom * suggests
parallel * suggests
qs * suggests
rgdal * suggests
rgeos * suggests
rmarkdown * suggests
sf * suggests
stats * suggests
terra * suggests
testthat * suggests

.github/workflows/lint.yaml actions

PredictiveEcology/actions/install-spatial-deps v0.1 composite
actions/checkout v3 composite
r-lib/actions/setup-r v2 composite
r-lib/actions/setup-r-dependencies v2 composite

.github/workflows/pkgdown.yaml actions

JamesIves/github-pages-deploy-action 4.1.4 composite
PredictiveEcology/actions/install-spatial-deps v0.1 composite
actions/checkout v3 composite
r-lib/actions/setup-pandoc v2 composite
r-lib/actions/setup-r v2 composite
r-lib/actions/setup-r-dependencies v2 composite

.github/workflows/update-citation-cff.yaml actions

PredictiveEcology/actions/install-spatial-deps v0.1 composite
actions/checkout v3 composite
r-lib/actions/setup-r v2 composite
r-lib/actions/setup-r-dependencies v2 composite

reproducible

Science Score: 54.0%

Keywords

Keywords from Contributors

Repository

Basic Info

Statistics

Topics

Metadata Files

README.md

reproducible

News

Reproducible workflows

Cache

prepInputs

Using dlFun -- a custom download function -- passed to preProcess

Cache with prepInputs

Installation

Current release (on CRAN)

install.packages("devtools")

Development version

install.packages("devtools")

Contributions

Owner

Citation (CITATION.cff)

GitHub Events

Total

Last Year

Committers

All Time

Past Year

Top Committers

Committer Domains (Top 20 + Academic)

Issues and Pull Requests

All Time

Past Year

Top Authors

Issue Authors

Pull Request Authors

Top Labels

Issue Labels

Pull Request Labels

Packages

cran.r-project.org: reproducible

Rankings

Maintainers (1)

Dependencies

`Cache`

`prepInputs`

`Cache` with `prepInputs`