diff --git a/apt-install_R_dependencies.sh b/apt-install_R_dependencies.sh index 1f4faf0..ff929bd 100755 --- a/apt-install_R_dependencies.sh +++ b/apt-install_R_dependencies.sh @@ -7,7 +7,7 @@ wget -qO- https://cloud.r-project.org/bin/linux/ubuntu/marutter_pubkey.asc | sudo tee -a /etc/apt/trusted.gpg.d/cran_ubuntu_key.asc sudo add-apt-repository --yes "deb https://cloud.r-project.org/bin/linux/ubuntu $(lsb_release -cs)-cran40/" -#sudo add-apt-repository --yes ppa:c2d4u.team/c2d4u4.0+ +sudo add-apt-repository --yes ppa:c2d4u.team/c2d4u4.0+ sudo apt install --no-install-recommends -y \ r-cran-ape \ @@ -17,6 +17,7 @@ r-cran-vioplot \ r-cran-plyr \ r-cran-dplyr \ r-cran-ggplot2 \ +r-cran-stringi \ r-cran-stringr \ r-cran-seqinr \ && sudo apt clean && apt purge && rm -rf /var/lib/apt/lists/* /tmp/* /var/tmp/* diff --git a/install_R_deps.R b/install_R_deps.R index 179a6de..4f098d1 100755 --- a/install_R_deps.R +++ b/install_R_deps.R @@ -40,7 +40,7 @@ repository = 'https://CRAN.R-project.org' # ; 'http://cran.rstudio.com' # 'https # 2024-04-13: removed "cluster", "dendextend", "factoextra", which are only required by hcluster_pangenome_matrix.sh, # which is distributed through the GET_HOMOLOGUES GitHub repo. # 2024-04-15: replaced devtools for the much lighter remotes. -required_packages = c("remotes", "ape", "gplots", "vioplot", "plyr", "dplyr", "ggplot2", "stringr", "seqinr") +required_packages = c("remotes", "ape", "gplots", "vioplot", "plyr", "dplyr", "ggplot2", "stringi" "stringr", "seqinr") local_lib = "./lib/R"