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Adding R package for installation from Github to Dockerfile

How do I add installation instruction for R package using github with my Dockerfile.

A common command in R environment:

devtools::install_github("smach/rmiscutils")

But so far there has been no success. Tried adding the github repo in the installation instructions:

RUN install2.r --error \ 
    -r 'http://cran.rstudio.com' \
    -r 'http://github.com/smach/rmiscutils'

But I am getting the error:

error in download. Status was '404 Not found'

Maybe a vanilla R call is being used, but cannot define the command. Any hints?

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1 answer


Try the following:

RUN installGithub.r smach/rmiscutils \
&& rm -rf /tmp/downloaded_packages/

It is good practice to remove all downloaded packages to reduce the image size.



Added command here when installing from Bioconductor (in case anyone ends up looking for help here)

RUN install2.r -r http://bioconductor.org/packages/3.0/bioc --deps TRUE \
    phyloseq \
    && rm -rf /tmp/downloaded_packages/
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