The Rockerverse: Packages and Applications for Containerisation with R

Daniel Nüst; Dirk Eddelbuettel; Dom Bennett; Robrecht Cannoodt; Dav Clark; Gergely Daróczi; Mark Edmondson; Colin Fay; Ellis Hughes; Lars Kjeldgaard; Sean Lopp; Ben Marwick; Heather Nolis; Jacqueline Nolis; Hong Ooi; Karthik Ram; Noam Ross; Lori Shepherd; Péter Sólymos; Tyson Lee Swetnam; Nitesh Turaga; Charlotte Van Petegem; Jason Williams; Craig Willis; Nan Xiao

doi:10.32614/rj-2020-007

The Rockerverse: Packages and Applications for Containerisation with R

Daniel Nüst^*
, Dirk Eddelbuettel
, Dom Bennett
, Robrecht Cannoodt
, Dav Clark
, Gergely Daróczi
, Mark Edmondson
, Colin Fay
, Ellis Hughes
, Lars Kjeldgaard
, Sean Lopp
, Ben Marwick
, Heather Nolis
, Jacqueline Nolis
, Hong Ooi
, Karthik Ram
, Noam Ross
, Lori Shepherd
, Péter Sólymos
, Tyson Lee Swetnam

Nitesh Turaga, Charlotte Van Petegem, Jason Williams, Craig Willis, Nan Xiao

^*Corresponding author for this work

University of Münster
University of Illinois at Urbana-Champaign
University of Gothenburg
Ghent University
Gigantum, Inc.
Optimum Dosing Strategies
Alphabet Inc.
ThinkR
Fred Hutchinson Cancer Research Center
Danish Tax Authorities
RStudio, Inc.
University of Washington
T-Mobile USA
LLC
Level 5
University of California at Berkeley
EcoHealth Alliance
Roswell Park Cancer Institute
Analythium Solutions
University of Arizona
Cold Spring Harbor Laboratory
Seven Bridges Genomics Inc

Research output: Contribution to journal › Article › peer-review

Abstract (may include machine translation)

The Rocker Project provides widely used Docker images for R across different application scenarios. This article surveys downstream projects that build upon the Rocker Project images and presents the current state of R packages for managing Docker images and controlling containers. These use cases cover diverse topics such as package development, reproducible research, collaborative work, cloud-based data processing, and production deployment of services. The variety of applications demonstrates the power of the Rocker Project specifically and containerisation in general. Across the diverse ways to use containers, we identified common themes: reproducible environments, scalability and efficiency, and portability across clouds. We conclude that the current growth and diversification of use cases is likely to continue its positive impact, but see the need for consolidating the Rockerverse ecosystem of packages, developing common practices for applications, and exploring alternative containerisation software.

Original language	English
Pages (from-to)	437-461
Number of pages	25
Journal	R Journal
Volume	12
Issue number	1
DOIs	https://doi.org/10.32614/rj-2020-007
State	Published - 2020
Externally published	Yes

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10.32614/rj-2020-007License: CC BY

Daroczi-Gergely3_2020Publisher version, 251 KBLicense: CC BY

Cite this

Nüst, D., Eddelbuettel, D., Bennett, D., Cannoodt, R., Clark, D., Daróczi, G., Edmondson, M., Fay, C., Hughes, E., Kjeldgaard, L., Lopp, S., Marwick, B., Nolis, H., Nolis, J., Ooi, H., Ram, K., Ross, N., Shepherd, L., Sólymos, P., ... Xiao, N. (2020). The Rockerverse: Packages and Applications for Containerisation with R. R Journal, 12(1), 437-461. https://doi.org/10.32614/rj-2020-007

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title = "The Rockerverse: Packages and Applications for Containerisation with R",

abstract = "The Rocker Project provides widely used Docker images for R across different application scenarios. This article surveys downstream projects that build upon the Rocker Project images and presents the current state of R packages for managing Docker images and controlling containers. These use cases cover diverse topics such as package development, reproducible research, collaborative work, cloud-based data processing, and production deployment of services. The variety of applications demonstrates the power of the Rocker Project specifically and containerisation in general. Across the diverse ways to use containers, we identified common themes: reproducible environments, scalability and efficiency, and portability across clouds. We conclude that the current growth and diversification of use cases is likely to continue its positive impact, but see the need for consolidating the Rockerverse ecosystem of packages, developing common practices for applications, and exploring alternative containerisation software.",

author = "Daniel N{\"u}st and Dirk Eddelbuettel and Dom Bennett and Robrecht Cannoodt and Dav Clark and Gergely Dar{\'o}czi and Mark Edmondson and Colin Fay and Ellis Hughes and Lars Kjeldgaard and Sean Lopp and Ben Marwick and Heather Nolis and Jacqueline Nolis and Hong Ooi and Karthik Ram and Noam Ross and Lori Shepherd and P{\'e}ter S{\'o}lymos and Swetnam, \{Tyson Lee\} and Nitesh Turaga and Petegem, \{Charlotte Van\} and Jason Williams and Craig Willis and Nan Xiao",

year = "2020",

doi = "10.32614/rj-2020-007",

language = "English",

volume = "12",

pages = "437--461",

journal = "R Journal",

issn = "2073-4859",

publisher = "Technische Universitaet Wien",

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}

Nüst, D, Eddelbuettel, D, Bennett, D, Cannoodt, R, Clark, D, Daróczi, G, Edmondson, M, Fay, C, Hughes, E, Kjeldgaard, L, Lopp, S, Marwick, B, Nolis, H, Nolis, J, Ooi, H, Ram, K, Ross, N, Shepherd, L, Sólymos, P, Swetnam, TL, Turaga, N, Petegem, CV, Williams, J, Willis, C & Xiao, N 2020, 'The Rockerverse: Packages and Applications for Containerisation with R', R Journal, vol. 12, no. 1, pp. 437-461. https://doi.org/10.32614/rj-2020-007

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T1 - The Rockerverse

T2 - Packages and Applications for Containerisation with R

AU - Nüst, Daniel

AU - Eddelbuettel, Dirk

AU - Bennett, Dom

AU - Cannoodt, Robrecht

AU - Clark, Dav

AU - Daróczi, Gergely

AU - Edmondson, Mark

AU - Fay, Colin

AU - Hughes, Ellis

AU - Kjeldgaard, Lars

AU - Lopp, Sean

AU - Marwick, Ben

AU - Nolis, Heather

AU - Nolis, Jacqueline

AU - Ooi, Hong

AU - Ram, Karthik

AU - Ross, Noam

AU - Shepherd, Lori

AU - Sólymos, Péter

AU - Swetnam, Tyson Lee

AU - Turaga, Nitesh

AU - Petegem, Charlotte Van

AU - Williams, Jason

AU - Willis, Craig

AU - Xiao, Nan

PY - 2020

Y1 - 2020

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AB - The Rocker Project provides widely used Docker images for R across different application scenarios. This article surveys downstream projects that build upon the Rocker Project images and presents the current state of R packages for managing Docker images and controlling containers. These use cases cover diverse topics such as package development, reproducible research, collaborative work, cloud-based data processing, and production deployment of services. The variety of applications demonstrates the power of the Rocker Project specifically and containerisation in general. Across the diverse ways to use containers, we identified common themes: reproducible environments, scalability and efficiency, and portability across clouds. We conclude that the current growth and diversification of use cases is likely to continue its positive impact, but see the need for consolidating the Rockerverse ecosystem of packages, developing common practices for applications, and exploring alternative containerisation software.

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VL - 12

SP - 437

EP - 461

JO - R Journal

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ER -

The Rockerverse: Packages and Applications for Containerisation with R

Abstract (may include machine translation)

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