From 4c3a1a7b3923d8890db125a5c13a94faebe11f11 Mon Sep 17 00:00:00 2001 From: = Date: Mon, 22 Jul 2024 14:39:29 +0000 Subject: [PATCH] Pin verson of Alakazam to 1.2.0 as version 1.3.0 breaks the lineage.R script --- Dockerfile | 3 ++- 1 file changed, 2 insertions(+), 1 deletion(-) diff --git a/Dockerfile b/Dockerfile index 5636ead..1a2543b 100644 --- a/Dockerfile +++ b/Dockerfile @@ -77,7 +77,8 @@ RUN tar xvzf trim_galore.tar.gz && mv TrimGalore-0.6.10/trim_galore /usr/bin #R dependencies RUN R -e "install.packages('BiocManager')" RUN R -e "BiocManager::install(c('GenomicAlignments', 'Biostrings', 'IRanges'))" -RUN R -e "install.packages(c('alakazam', 'ggplot2'), repos='http://cran.us.r-project.org')" +RUN R -e "install.packages(c('remotes', 'ggplot2'), repos='http://cran.us.r-project.org')" +RUN R -e "require(remotes);install_version('alakazam', version = '1.2.0', repos='http://cran.us.r-project.org')" #Bowtie 2 as needs version 2.5.1 due to a bug in 2.5.0