From ea71a34bbea59b60040b559985b3089b56114a53 Mon Sep 17 00:00:00 2001 From: Markus Riester Date: Sat, 18 Nov 2023 12:57:28 -0500 Subject: [PATCH] Updated Dockerfile. --- Dockerfile | 8 ++++---- README.md | 2 +- 2 files changed, 5 insertions(+), 5 deletions(-) diff --git a/Dockerfile b/Dockerfile index 5985435..08eea7c 100644 --- a/Dockerfile +++ b/Dockerfile @@ -1,5 +1,5 @@ -#FROM bioconductor/bioconductor_docker:RELEASE_3_17 -FROM bioconductor/bioconductor_docker:devel +FROM bioconductor/bioconductor_docker:RELEASE_3_18 +#FROM bioconductor/bioconductor_docker:devel # install base packages RUN Rscript -e 'if (!requireNamespace("BiocManager", quietly = TRUE)){install.packages("BiocManager")}; \ @@ -62,8 +62,8 @@ RUN Rscript -e 'library(remotes);\ remotes::install_github("nalinigans/GenomicsDB-R", ref="develop", configure.args="--with-genomicsdb=/opt/GenomicsDB/")' # install PureCN -#RUN Rscript -e 'BiocManager::install("PureCN", dependencies = TRUE)' -RUN Rscript -e 'BiocManager::install("lima1/PureCN", ref = "RELEASE_3_17", dependencies = TRUE)' +RUN Rscript -e 'BiocManager::install("PureCN", dependencies = TRUE)' +#RUN Rscript -e 'BiocManager::install("lima1/PureCN", ref = "RELEASE_3_18", dependencies = TRUE)' ENV PURECN=/usr/local/lib/R/site-library/PureCN/extdata # add symbolic link and paths diff --git a/README.md b/README.md index 4f3e2d1..11946a1 100644 --- a/README.md +++ b/README.md @@ -31,7 +31,7 @@ For outdated R/Bioconductor versions, you can try backporting the latest stable version (this should work fine for Bioconductor 3.3 and later): ``` -BiocManager::install("lima1/PureCN", ref = "RELEASE_3_17") +BiocManager::install("lima1/PureCN", ref = "RELEASE_3_18") ``` If you want the latest and greatest from the developer branch: