diff --git a/.github/workflows/check-bioc.yml b/.github/workflows/check-bioc.yml index 170be59..68a84dc 100644 --- a/.github/workflows/check-bioc.yml +++ b/.github/workflows/check-bioc.yml @@ -137,7 +137,7 @@ jobs: BiocManager::install(c("decoupleR", "SpatialExperiment"), ask = FALSE) install.packages(c("pkgdown", "sctransform")) install.packages(c("stringi", "ridge"), type="source", repos="https://cloud.r-project.org/") - BiocManager::install("OmnipathR", ask=FALSE) + BiocManager::install(c("OmnipathR", "progeny", ask=FALSE) install.packages(c("janitor", "reticulate", "Seurat", "SeuratObject", "tidyverse")) ## modified from pkgdown::deploy_to_branch diff --git a/vignettes/FunctionalPipelinePathwayActivityLigands.Rmd b/vignettes/FunctionalPipelinePathwayActivityLigands.Rmd index 594f5d5..724116d 100644 --- a/vignettes/FunctionalPipelinePathwayActivityLigands.Rmd +++ b/vignettes/FunctionalPipelinePathwayActivityLigands.Rmd @@ -43,6 +43,7 @@ library(tidyverse) # Pathways and annotation library(decoupleR) library(OmnipathR) +library(progeny) # Cleaning names library(janitor)