From 68ac6dbf43f76bf7f7ec7fc3d7722c8b03d3ff66 Mon Sep 17 00:00:00 2001
From: Thomas N Lawson <thomas.nigel.lawson@gmail.com>
Date: Tue, 29 Aug 2023 16:20:53 +0100
Subject: [PATCH] update for github workflows

---
 .github/workflows/check-bioc.yml | 16 ++++++++--------
 1 file changed, 8 insertions(+), 8 deletions(-)

diff --git a/.github/workflows/check-bioc.yml b/.github/workflows/check-bioc.yml
index 40d0793..f307f1f 100644
--- a/.github/workflows/check-bioc.yml
+++ b/.github/workflows/check-bioc.yml
@@ -209,14 +209,14 @@ jobs:
         continue-on-error: true
         shell: Rscript {0}
 
-      - name: Install dependencies pass 2
-        run: |
-          ## Pass #2 at installing dependencies
-          ## This pass does not use AnVIL and will thus update any packages
-          ## that have seen been updated in Bioconductor
-          message(paste('****', Sys.time(), 'pass number 2 at installing dependencies: any remaining dependencies ****'))
-          remotes::install_local(dependencies = TRUE, repos = BiocManager::repositories(), build_vignettes = TRUE, upgrade = TRUE, force = TRUE)
-        shell: Rscript {0}
+      # - name: Install dependencies pass 2
+      #   run: |
+      #     ## Pass #2 at installing dependencies
+      #     ## This pass does not use AnVIL and will thus update any packages
+      #     ## that have seen been updated in Bioconductor
+      #     message(paste('****', Sys.time(), 'pass number 2 at installing dependencies: any remaining dependencies ****'))
+      #     remotes::install_local(dependencies = TRUE, repos = BiocManager::repositories(), build_vignettes = TRUE, upgrade = TRUE, force = TRUE)
+      #   shell: Rscript {0}
 
       - name: Install BiocGenerics
         if:  env.has_RUnit == 'true'