How to select a CRAN mirror in conda-build?

[Marek Gierliński]

I'm trying to install R package kableExtra in my environment:

conda skeleton cran kableextra

conda-build --R 3.4.2 r-kableextra

Every time I do this I get an error message:

Downloading https://mran.microsoft.com/snapshot/2018-01-01/src/contrib/kableExtra_0.8.0.tar.gz

Error: HTTP 404 NOT FOUND for url <https://mran.microsoft.com/snapshot/2018-01-01/src/contrib/kableExtra_0.8.0.tar.gz>

There is a cran_mirror variable in the r-kableextra/meta.yaml file and, in this case, it defaults to https://mran.microsoft.com/snapshot/2018-01-01/. Alas, the package is not found there.

I couldn't find any way of changing this variable via conda-build or conda skeleton parameters, so I had to edit the meta.yaml file and manually replaced {{ cran_mirror }} with https://cran.r-project.org. This solved the problem.

How do I select CRAN mirror without editing the meta.yaml file?

[Ray Donnelly]

An alternative is to pass --cran-url when you call conda skeleton cran, e.g. with  https://mran.microsoft.com/snapshot/2018-01-01/

We've switched to MRAN since it provides snapshotting which is a very useful feature for reproducibility.

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[Marek Gierliński]

I believe I tried this, but the resulting meta.yaml file still contained cran_mirror variable.

I will try the other method.

Thanks a lot!

Marek

--

Dr Marek Gierliński

The Data Analysis Group

The Barton Group
Computational Biology and GRE
School of Life Sciences
University of Dundee, Dundee, Scotland, UK.
Tel: +44 1382 386427
www.compbio.dundee.ac.uk/dag.html

--- Ceterum censeo stultitiam esse delendam ---

[Ray Donnelly]

It *will* contain the variable, that's never expanded, however when it looks up the versions available it will check MRAN and not CRAN then when conda-build defaults to looking on MRAN too it will find that version.