Skip to content
Snippets Groups Projects
Commit 93b06dc4 authored by Triana's avatar Triana
Browse files

Solve Seurat compatibility to include 3.2.4

parent d92a3805
No related branches found
No related tags found
No related merge requests found
Pipeline #24295 passed
...@@ -10,5 +10,4 @@ ADD app/ /srv/shiny-server/ ...@@ -10,5 +10,4 @@ ADD app/ /srv/shiny-server/
RUN Rscript packages.R RUN Rscript packages.R
RUN sed -i '2ienv | grep AWS > /home/shiny/.Renviron && chown shiny.shiny /home/shiny/.Renviron\n' /usr/bin/shiny-server.sh
...@@ -29,7 +29,6 @@ require(plotly) ...@@ -29,7 +29,6 @@ require(plotly)
require(shinycustomloader) require(shinycustomloader)
require(aws.s3) require(aws.s3)
require(future) require(future)
require(shinyBS)
#require(minio.s3) #require(minio.s3)
plan("multiprocess", workers = 4) plan("multiprocess", workers = 4)
......
if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("remotes")
install.packages("BiocManager") remotes::install_version("rsvd", version = "1.0.3", repos = "http://cran.us.r-project.org")
BiocManager::install("multtest") remove.packages(grep("spatstat", installed.packages(), value = T))
install.packages("metap") remotes::install_version("spatstat", version = "1.64-1", repos = "http://cran.us.r-project.org",
install.packages("mutoss") upgrade = "never",force = T)
install.packages("BIOMOD", repos="http://R-Forge.R-project.org") remotes::install_version("Seurat", version = "3.2.3",repos = "http://cran.us.r-project.org",upgrade ="never" )
install.packages("mclust")
install.packages("devtools") install.packages("devtools")
library(devtools) library(devtools)
devtools::install_github("thomasp85/patchwork") devtools::install_github("thomasp85/patchwork")
install.packages("plotly")
install.packages("shinycustomloader") install.packages("shinycustomloader")
install.packages("rpart")
install.packages("rpart.plot")
install.packages("xml2") install.packages("xml2")
install.packages("rgeos", repos="http://R-Forge.R-project.org", type="source") install.packages("rgeos", repos="http://R-Forge.R-project.org", type="source")
install.packages("ggplot2")
install.packages("reshape2")
install.packages("plyr") install.packages("plyr")
install.packages("gridExtra") install.packages("gridExtra")
install.packages("waiter") install.packages("waiter")
install.packages("grid") install.packages("grid")
install.packages("DT") install.packages("DT")
install.packages("ggrepel")
install.packages("RColorBrewer")
install.packages("dplyr")
install.packages("future") install.packages("future")
##devtools::install_github(repo = 'satijalab/seurat', ref = 'develop') install.packages("mclust")
install.packages(c("sp", "polyclip"))
if (!requireNamespace("BiocManager", quietly = TRUE))
install.packages("BiocManager")
remotes::install_version("Seurat", version = "3.2.3")
0% Loading or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment