From 27025db8343dc7a92b37742ccd6140b5ea615a9c Mon Sep 17 00:00:00 2001 From: Thomas Yu Date: Tue, 1 Oct 2019 17:03:53 -0700 Subject: [PATCH] Install bioconductor packages correctly --- docker/installPackages.R | 9 +++++---- 1 file changed, 5 insertions(+), 4 deletions(-) diff --git a/docker/installPackages.R b/docker/installPackages.R index bf60b7ce..9fc49b1b 100644 --- a/docker/installPackages.R +++ b/docker/installPackages.R @@ -5,12 +5,13 @@ install.packages("rmarkdown", repo="https://ftp.osuosl.org/pub/cran/") install.packages("UpSetR", repo="https://ftp.osuosl.org/pub/cran/") install.packages("testthat", repo="https://ftp.osuosl.org/pub/cran/") -source("https://bioconductor.org/biocLite.R") -biocLite("VariantAnnotation") +install.packages("BiocManager", repo="https://ftp.osuosl.org/pub/cran/") +BiocManager::install("VariantAnnotation") library(synapser) library(dplyr) library(argparse) library(UpSetR) -library(VariantAnnotation) -library(testthat) \ No newline at end of file +library(rmarkdown) +library(testthat) +library(VariantAnnotation) \ No newline at end of file