Question

Adding information to the Installation document (https://www.bioconductor.org/install/)

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Nicolas Delhomme ▴ 320

@nicolas-delhomme-6252

Last seen 6.0 years ago

Sweden

Hej!

I was just upgrading from Bioc 3.7 to 3.8 and by reading the Installation instruction at https://www.bioconductor.org/install, I realised that it might be good if these were extended to:

Detail how one can migrate from a previous version to the next; i.e. running BiocManager::install(version="3.8") at present to move from 3.7 to 3.8
Add more details about the version argument, in particular adding a section to explain how to switch back from "devel" to "current" would be a good use case

Best,

Nico

Website Documentation • 1.3k views

ADD COMMENT • link 6.0 years ago Nicolas Delhomme ▴ 320

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Hi Nico,

Thank you for your feedback. We have made a small adjustment to theinstall page on Bioconductor.org. The pull request can be seen here: https://github.com/Bioconductor/bioconductor.org/pull/18

To (sort of) answer your question, we have detailed how to do 1 and 2 in the vignette and we hope that by putting it in the install page, the BiocManager vignette will be more visible.

You can refer to the vignette here: https://cran.r-project.org/web/packages/BiocManager/vignettes/BiocManager.html

Best regards,
Marcel

ADD REPLY • link 6.0 years ago Marcel Ramos 700

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Hej Marcel! Thanks for the quick feedback. And yes, that solution works for me. I had actually not thought that BiocManager would have a vignette; I just pictured it like a wrapper around install.packages; my bad. Best, Nico --------------------------------------------------------------- Nicolas Delhomme, PhD UPSC bioinformatics facility Manager Umeå Plant Science Center, Swedish University of Agricultural Sciences (SLU) and Umeå University Tel: +46 90 786 5478 Email: nicolas.delhomme@umu.se SLU - Umeå universitet Umeå S-901 87 Sweden www.slu.se/framtidiskogen --------------------------------------------------------------- > On 8 Nov 2018, at 19:34, Marcel Ramos [bioc] <noreply@bioconductor.org> wrote: > > Activity on a post you are following on support.bioconductor.org > User Marcel Ramos wrote Comment: Adding information to the Installation document (https://www.bioconductor.org/install/): > > Hi Nico, Thank you for your feedback. We have made a small adjustment to the `install` page on Bioconductor.org. The pull request can be seen here: https://github.com/Bioconductor/bioconductor.org/pull/18 To (sort of) answer your question, we have detailed how to do `1` and `2` in the vignette and we hope that by putting it in the `install` page, the BiocManager vignette will be more visible. Best regards, Marcel > > Post tags: Website, Documentation > > You may reply via email or visit C: Adding information to the Installation document (https://www.bioconductor.org/in >

ADD REPLY • link 6.0 years ago Nicolas Delhomme ▴ 320