From e257be6ad00f57e9057908c11cc21742533283fc Mon Sep 17 00:00:00 2001
From: Alexandru Mahmoud <almahmoudresearch@gmail.com>
Date: Mon, 6 May 2024 14:16:04 -0400
Subject: [PATCH] Bump versions to 3.19

---
 .github/workflows/build_ghcr.yaml | 2 +-
 apt_setup.sh                      | 2 +-
 builder.Dockerfile                | 2 +-
 user.Dockerfile                   | 2 +-
 4 files changed, 4 insertions(+), 4 deletions(-)

diff --git a/.github/workflows/build_ghcr.yaml b/.github/workflows/build_ghcr.yaml
index 257bf8e..f12d4ed 100644
--- a/.github/workflows/build_ghcr.yaml
+++ b/.github/workflows/build_ghcr.yaml
@@ -17,7 +17,7 @@ jobs:
         type: [builder, user]
         ubuntu: ['jammy'] #[focal, jammy]
         platform: [linux/amd64]
-        biocversion: ['3.18']
+        biocversion: ['3.19']
 
     name: Build container images for GHCR
     runs-on: ubuntu-latest
diff --git a/apt_setup.sh b/apt_setup.sh
index 227e229..c90f401 100644
--- a/apt_setup.sh
+++ b/apt_setup.sh
@@ -1,5 +1,5 @@
 #!/bin/bash
-BIOC_VERSION=${1:-"3.18"}
+BIOC_VERSION=${1:-"3.19"}
 export UBUNTU_CODENAME=$(grep '^VERSION_CODENAME=' /etc/os-release | cut -d= -f2)
 apt update -qq
 apt install -y --no-install-recommends curl ca-certificates
diff --git a/builder.Dockerfile b/builder.Dockerfile
index a1e1207..dd193a9 100644
--- a/builder.Dockerfile
+++ b/builder.Dockerfile
@@ -1,5 +1,5 @@
 ARG BASE_IMAGE=ghcr.io/bioconductor/r2u
 ARG UBUNTU_TAG=jammy
 FROM ${BASE_IMAGE}:${UBUNTU_TAG} AS base
-ARG BIOC_VERSION=3.18
+ARG BIOC_VERSION=3.19
 RUN apt update -qq && apt install git-all build-essential binutils lintian debhelper dh-make devscripts curl vim dh-r -y && curl -O https://raw.githubusercontent.com/Bioconductor/bioconductor_docker/devel/bioc_scripts/install_bioc_sysdeps.sh && bash install_bioc_sysdeps.sh $BIOC_VERSION 
diff --git a/user.Dockerfile b/user.Dockerfile
index 5bf0f39..f89cc74 100644
--- a/user.Dockerfile
+++ b/user.Dockerfile
@@ -1,7 +1,7 @@
 ARG BASE_IMAGE=ubuntu
 ARG UBUNTU_TAG=jammy
 FROM ${BASE_IMAGE}:${UBUNTU_TAG} AS base
-ARG BIOC_VERSION=3.18
+ARG BIOC_VERSION=3.19
 USER root
 COPY apt_setup.sh /bioc_scripts/apt_setup.sh
 RUN bash /bioc_scripts/apt_setup.sh $BIOC_VERSION