diff --git a/.github/workflows/check-package.yml b/.github/workflows/check-package.yml index 74433fe..baec96c 100644 --- a/.github/workflows/check-package.yml +++ b/.github/workflows/check-package.yml @@ -17,6 +17,10 @@ jobs: run: | sudo apt-get update sudo apt-get -y install libcurl4-openssl-dev libharfbuzz-dev libfribidi-dev libgeos-dev + - name: Install required install packages and remote repos + run: | + install.packages(c("remotes", "BiocManager")) + BiocManager::install(version = "3.18") # name: Install required packages not listed in the package description # run: | # install.packages(c("BiocManager", "caret", "Seurat", "tidyverse")) diff --git a/.github/workflows/deploy.yml b/.github/workflows/deploy.yml index 6eaaa02..84bb0bc 100644 --- a/.github/workflows/deploy.yml +++ b/.github/workflows/deploy.yml @@ -28,7 +28,7 @@ jobs: - name: Install required install packages and remote repos run: | install.packages(c("remotes", "BiocManager")) - BiocManager::install(version = "3.17") + BiocManager::install(version = "3.18") BiocManager::install(c('BiocGenerics', 'GenomeInfoDbData', 'limma', 'zlibbioc')) BiocManager::install(ask = F) remotes::install_version("rsconnect", "0.8.29") @@ -39,7 +39,7 @@ jobs: APPNAME: cytomarker SERVER: shinyapps.io run: | - options(repos=c(BiocManager::repositories(version = "3.17")), rsconnect.packrat = TRUE) + options(repos=c(BiocManager::repositories(version = "3.18")), rsconnect.packrat = TRUE) rsconnect::setAccountInfo("${{ secrets.SHINYAPPS_ACC }}", "${{ secrets.SHINYAPPS_TOKEN }}", "${{ secrets.SHINYAPPS_SEC }}") rsconnect::deployApp(appName = "${{ env.APPNAME }}", account = "${{ secrets.SHINYAPPS_ACC }}", server = "${{ env.SERVER }}") shell: Rscript {0} diff --git a/DESCRIPTION b/DESCRIPTION index 141c45a..20bb52d 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -36,7 +36,7 @@ Imports: RColorBrewer, shinytest2, tidyr, - htmlwidgets, + htmlwidgets (== 1.6.2), shinydashboard, shinyBS, stringr, diff --git a/deploy.R b/deploy.R index 89fb26b..0dad0b3 100644 --- a/deploy.R +++ b/deploy.R @@ -2,6 +2,6 @@ library(rsconnect) devtools::load_all() -options(repos=c(BiocManager::repositories(version = "3.17"))) +options(repos=c(BiocManager::repositories(version = "3.18"))) rsconnect::deployApp(account = 'camlab')