From 888caa672fb1db05bb8697e8891fe167a1695293 Mon Sep 17 00:00:00 2001
From: Sudaraka88 <sudarakm@Sudarakas-MacBook-Pro.local>
Date: Wed, 12 Jun 2024 13:44:36 +1000
Subject: [PATCH] fix workflow bug

---
 .github/workflows/r.yml | 6 ++++--
 1 file changed, 4 insertions(+), 2 deletions(-)

diff --git a/.github/workflows/r.yml b/.github/workflows/r.yml
index b470e26..d980618 100644
--- a/.github/workflows/r.yml
+++ b/.github/workflows/r.yml
@@ -27,15 +27,16 @@ jobs:
         config:
           - {os: windows-latest, r: 'release'}
           - {os: macOS-latest, r: 'release'}
-          - {os: ubuntu-20.04, r: 'release', rspm: "https://packagemanager.rstudio.com/cran/__linux__/focal/latest"}
+          - {os: ubuntu-latest, r: 'release'}
 
     env:
       R_REMOTES_NO_ERRORS_FROM_WARNINGS: true
       RSPM: ${{ matrix.config.rspm }}
       GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
+      R_KEEP_PKG_SOURCE: yes
 
     steps:
-      - uses: actions/checkout@v2
+      - uses: actions/checkout@v4
 
       - uses: r-lib/actions/setup-r@v2
         with:
@@ -73,6 +74,7 @@ jobs:
           remotes::install_cran("formatR")
           remotes::install_cran("rmarkdown")
           remotes::install_bioc("ggtree")
+          remotes::install_bioc("VariantAnnotation")
         shell: Rscript {0}
 
       - name: Check