From 123406fa315c725511b9d016ee36cf4521293aff Mon Sep 17 00:00:00 2001 From: lcolladotor Date: Mon, 20 May 2024 22:09:03 -0400 Subject: [PATCH] Use BiocManager for the install commands. Fix repo for recount. --- .github/workflows/check-bioc.yml | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-) diff --git a/.github/workflows/check-bioc.yml b/.github/workflows/check-bioc.yml index f9ea550..56cb959 100644 --- a/.github/workflows/check-bioc.yml +++ b/.github/workflows/check-bioc.yml @@ -174,11 +174,11 @@ jobs: install.packages(c("rcmdcheck", "BiocCheck"), repos = BiocManager::repositories()) ## Install all the regionReport dependencies - remotes::install_github("leekgroup/derfinderPlot") ## regionReport 1.29.1 needs derfinderPlot 1.29.1 - remotes::install_github("leekgroup/regionReport", dependencies = TRUE) + BiocManager::install("leekgroup/derfinderPlot") ## regionReport 1.29.1 needs derfinderPlot 1.29.1 + BiocManager::install("leekgroup/regionReport", dependencies = TRUE) ## Install devel version of recount for now - remotes::install_github("lcolladotor/recount") + BiocManager::install("leekgroup/recount") ## Pass #1 at installing dependencies message(paste('****', Sys.time(), 'pass number 1 at installing dependencies: local dependencies ****'))