Installation for alakazam

General
1

I have a simple docker recipe:

# Base R image
FROM rocker/rstudio:4.4

RUN install2.r -e rmarkdown ggplot2 kableExtra dplyr readxl stringr reshape2 httr BiocManager parallel

RUN R -e 'BiocManager::install(ask = F)'
RUN R -e 'BiocManager::install(c("biomaRt","XVector","Biostrings","GenomicAlignments","DECIPHER",ask = F))'

RUN install2.r -e alakazam
#docker build -t moonshot . --no-cache

But it breaks in the last step, alakazam, it says:

ERROR: dependencies ‘Biostrings’, ‘GenomicAlignments’ are not available for package ‘alakazam’

Any suggestions?

2

This sounds more like an rstudio issue than Docker, so here might not be the best place to ask.

3

Thank you, I am just confused as this installs fine in R and RStudio so I wasn’t sure if there is a docker trick that I was not aware of. Will ask elsewhere.

4

Did you check their site?