Question

Feature request: Freezing Bioconductor packages to a specific date

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Michael Steinbaugh ▴ 90

@mjsteinbaugh

Last seen 12 months ago

Cambridge, MA

The recently released RStudio Package Manager (RSPM) enables easy management of versioned snapshots for all CRAN packages. The Microsoft R Application Network (MRAN) also provides similar snapshots via the CRAN time machine, but this doesn't currently support R 4.0. This functionality is super useful for improving reproducibility, and helps simplify the building of Docker recipes. To my knowledge, there's currently no way to freeze installation of Bioconductor packages to a specific date, correct?

installation time machine mran rspm • 1.3k views

ADD COMMENT • link updated 4.2 years ago by Martin Morgan 25k • written 4.2 years ago by Michael Steinbaugh ▴ 90

score 1 · Answer 1 · 2020-09-02

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Martin Morgan 25k

@martin-morgan-1513

Last seen 4 months ago

United States

check out https://github.com/Bioconductor/BiocManager/issues/71 and https://github.com/Bioconductor/BiocManager/tree/add_mran for our plans. Also, setting options(repos=c(CRAN=...)) sets the CRAN repo, e.g., to an RSPM snapshot.

ADD COMMENT • link 4.2 years ago Martin Morgan 25k

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Awesome, thanks Martin! I have the RSPM repo currently enabled in my site config, and it works great. In case anyone is interested, here's a link to my current shared Rprofile configuration file, which works on Linux and macOS.

ADD REPLY • link 4.2 years ago Michael Steinbaugh ▴ 90