From 6efab19f88e087d788730f3d8291106687f3e169 Mon Sep 17 00:00:00 2001
From: Dominik Brilhaus <brilhaus@nfdi4plants.org>
Date: Tue, 5 Nov 2024 16:21:38 +0100
Subject: [PATCH] try building deseq2 docker
---
workflows/deseq2/Dockerfile | 6 ++----
1 file changed, 2 insertions(+), 4 deletions(-)
diff --git a/workflows/deseq2/Dockerfile b/workflows/deseq2/Dockerfile
index 277379d..fb3edf1 100644
--- a/workflows/deseq2/Dockerfile
+++ b/workflows/deseq2/Dockerfile
@@ -1,7 +1,5 @@
-FROM quay.io/biocontainers/bioconductor-deseq2:1.42.0--r43hf17093f_2
-
-# Since our base image is an R docker base we will use BiocManager install
+FROM rstudio/r-base:4.3-jammy
RUN apt-get update && \
- R -e "install.packages(c('BiocManager'), repos='https://cloud.r-project.org/');BiocManager::install('tximport')" && \
+ R -e "install.packages(c('BiocManager'), repos='https://cloud.r-project.org/'); BiocManager::install('DESeq2'); BiocManager::install('tximport'); BiocManager::install('rhdf5'); \\" && \
apt-get clean -y
\ No newline at end of file
--
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