Update bnlearn cpu bound dockerfile with new packages

genophenoenvo / docker

List of Docker images used in analyses

GNU General Public License v3.0

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Update bnlearn cpu bound dockerfile with new packages #21

Closed rbartelme closed 4 years ago

rbartelme commented 4 years ago

[x] add installs for pgcalc, deal, graph, igraph, gRain (only works with discrete networks at the moment), Rgraphviz
[x] Check for shiny install
[x] local build of Docker container
[x] Troubleshoot inevitable dependency issues
[x] Run Docker container locally
[x] Update GenoPhenoEnvo docker repo with new files
[x] Update phenophasebbn docker repo with new files
[x] Push container to CyVerse VICE Dockerhub
[x] Update CyVerse VICE app tools

rbartelme commented 4 years ago

[x] Check log file from failed build on June 08 2020
[x] Push original dockerfiles to github account
[x] Narrow down list of packages to install (may need to update Rocker base image)

rbartelme commented 4 years ago

Install error for Rgraphviz comes from using install.packages("Rgraphviz") vs. BiocManager::install("Rgraphviz")
Really only need to add Rgraphviz for pretty network plotting and deal to extend the learning/fitting algorithms.

rbartelme commented 4 years ago

Log file indicates that Rgraphviz had a non-zero exit status (likely due to what is described in the above comment), and deal installed properly. Will revise these installs to test build locally.

rbartelme commented 4 years ago

Added next steps after successfully building with the libraries: Rgraphviz and deal

rbartelme commented 4 years ago

Next enhancement should include installs of vcfR for importing/manipulating VCF files.

rbartelme commented 4 years ago

Updated Dockerfile