2021-02-25 12:20:07 +01:00
|
|
|
---
|
2021-02-25 14:09:55 +01:00
|
|
|
#
|
2021-07-02 16:30:54 +02:00
|
|
|
# https://cran.r-project.org/bin/linux/ubuntu/
|
2021-02-25 14:09:55 +01:00
|
|
|
#
|
|
|
|
# To list the installed R packages
|
|
|
|
# Run R, then execute
|
|
|
|
# packinfo <- installed.packages (fields = c ("Package", "Version"))
|
|
|
|
# packinfo[,c("Package", "Version")]
|
|
|
|
#
|
|
|
|
# The install/remove script has been taken from here: http://adamj.eu/tech/2014/07/19/installing-and-removing-r-packages-with-ansible/
|
|
|
|
#
|
|
|
|
# Set to True if you want install from the CRAN deb repository
|
2023-12-07 15:36:07 +01:00
|
|
|
r_install_cran_repo: false
|
2021-07-02 16:30:02 +02:00
|
|
|
# This si the CRAN main repository, that contains the r-base-* packages
|
|
|
|
r_cran_ubuntu_repo_key: 'E298A3A825C0D65DFD57CBB651716619E084DAB9'
|
2021-07-02 16:35:20 +02:00
|
|
|
r_cran_ubuntu_repo: 'deb https://cloud.r-project.org/bin/linux/ubuntu {{ ansible_distribution_release }}-cran40/'
|
2021-03-02 11:27:16 +01:00
|
|
|
# Use 'marutter/c2d4u3.5' for R 3.6
|
2021-07-02 15:52:58 +02:00
|
|
|
r_cran_ubuntu_packages_ppa_trusty: 'ppa:marutter/c2d4u'
|
|
|
|
# 4.1, Ubuntu 18.04+
|
|
|
|
r_cran_ubuntu_packages_ppa: 'ppa:c2d4u.team/c2d4u4.0+'
|
|
|
|
r_apt_additional_repos_trusty:
|
|
|
|
- 'ppa:opencpu/jq'
|
2024-10-23 14:21:05 +02:00
|
|
|
#r_apt_additional_repos:
|
|
|
|
# - 'ppa:cran/v8'
|
|
|
|
# - 'ppa:ubuntugis/ppa'
|
|
|
|
# - 'ppa:cran/libgit2'
|
2021-07-02 15:52:58 +02:00
|
|
|
|
2023-12-07 15:36:07 +01:00
|
|
|
r_cran_set_default_mirror: true
|
2021-02-25 14:09:55 +01:00
|
|
|
r_cran_mirror_site: https://cran.mirror.garr.it/mirrors/CRAN/
|
2023-12-07 15:36:07 +01:00
|
|
|
r_base_versioned: false
|
|
|
|
r_base_pkg_version: 4.2.3-1.1804.0
|
2021-02-25 14:09:55 +01:00
|
|
|
r_sitelib_path: '/usr/local/lib/R/site-library'
|
2023-12-07 15:36:07 +01:00
|
|
|
r_plugins_from_deb: true
|
|
|
|
r_packages_cleanup: false
|
|
|
|
r_install_rprofile_site: true
|
2021-02-25 14:09:55 +01:00
|
|
|
#
|
2023-12-07 15:36:07 +01:00
|
|
|
r_packages_updater: true
|
|
|
|
r_package_updater_via_subversion: false
|
2021-02-25 14:09:55 +01:00
|
|
|
r_package_updater_subversion_repo: http://svn.research-infrastructures.eu/public/d4science/gcube/trunk/data-analysis/RConfiguration/RPackagesManagement/
|
|
|
|
r_packages_svn_base_dir: /srv/r_updater
|
2023-12-07 15:36:07 +01:00
|
|
|
r_package_updater_via_git: true
|
2021-07-02 15:52:58 +02:00
|
|
|
r_package_updater_git_repo: 'https://code-repo.d4science.org/gCubeSystem/r-packages-list'
|
|
|
|
r_packages_git_base_dir: /srv/r_updater
|
|
|
|
r_packages_files_prefix: ''
|
2023-12-07 15:36:07 +01:00
|
|
|
r_packages_updater_also_upgrades_installed_packages: true
|
|
|
|
r_packages_updater_for_github_only: true
|
2023-12-15 16:34:12 +01:00
|
|
|
# Set this to true if you want to run the installer once, and then never after the first execution
|
|
|
|
r_packages_updater_run_once: false
|
2021-02-25 14:09:55 +01:00
|
|
|
# They need to be flat text files
|
|
|
|
# 1 package per line
|
|
|
|
#r_debian_packages_list_url
|
|
|
|
#r_el_packages_list_url
|
|
|
|
# package[:cran mirror]
|
|
|
|
# The CRAN mirror URL is optional
|
|
|
|
#r_cran_packages_list_url
|
|
|
|
# The CRAN mirror URL is optional
|
|
|
|
#r_cran_packages_list_url
|
|
|
|
# user/package_name
|
|
|
|
#r_github_packages_list_url
|
|
|
|
|
|
|
|
r_source_plugins_dest_dir: /var/cache/R
|
|
|
|
|
|
|
|
r_base_packages_list:
|
|
|
|
- r-base
|
2021-07-02 15:52:58 +02:00
|
|
|
- r-base-core
|
|
|
|
- r-base-dev
|
|
|
|
- r-base-html
|
|
|
|
- r-mathlib
|
|
|
|
|
2023-12-07 15:36:07 +01:00
|
|
|
r_base_versioned_packages_list:
|
|
|
|
# - r-base=4.2.3-1.1804.0 # r-recommended is a requirement and it cannot be installed
|
|
|
|
- "r-base-core={{ r_base_pkg_version }}"
|
|
|
|
- "r-base-dev={{ r_base_pkg_version }}"
|
|
|
|
- "r-base-html={{ r_base_pkg_version }}"
|
|
|
|
- "r-mathlib={{ r_base_pkg_version }}"
|
|
|
|
|
2021-07-02 15:52:58 +02:00
|
|
|
r_distribution_required_packages:
|
|
|
|
- jags
|
|
|
|
- git
|
|
|
|
- subversion
|
|
|
|
- gdal-bin
|
|
|
|
- libgdal-dev
|
|
|
|
- libgeos-dev
|
|
|
|
- libspatialite-dev
|
|
|
|
- proj-bin
|
|
|
|
- proj-data
|
|
|
|
- libproj-dev
|
|
|
|
- libcurl4-openssl-dev
|
|
|
|
- texlive
|
|
|
|
- texlive-base
|
|
|
|
- texlive-binaries
|
|
|
|
- texlive-latex-base
|
|
|
|
- texlive-latex-extra
|
|
|
|
- texlive-formats-extra
|
|
|
|
- texlive-xetex
|
|
|
|
- libnetcdf-dev
|
|
|
|
- netcdf-bin
|
2023-12-07 16:30:31 +01:00
|
|
|
- libfribidi-dev
|
|
|
|
- libfribidi-bin
|
|
|
|
- libfreetype6-dev
|
|
|
|
- libxft-dev
|
2021-02-25 14:09:55 +01:00
|
|
|
|
2023-12-07 15:36:07 +01:00
|
|
|
# Some packages that must be put on hold
|
2021-02-25 14:09:55 +01:00
|
|
|
r_base_packages_hold_list: []
|
2023-12-07 15:36:07 +01:00
|
|
|
# - r-base-core
|
|
|
|
# - r-base-dev
|
|
|
|
# - r-base-html
|
|
|
|
# - r-mathlib
|
2021-02-25 14:09:55 +01:00
|
|
|
|
2021-07-02 15:52:58 +02:00
|
|
|
r_plugins_packages_list: []
|
2021-02-25 14:09:55 +01:00
|
|
|
|
|
|
|
# RHEL/CentOS:
|
|
|
|
# http://springdale.princeton.edu/data/springdale/7/x86_64/os/Computational/
|
|
|
|
#
|
|
|
|
r_sitelib_el_path: '/usr/local/lib/R/library'
|
2023-12-07 16:30:31 +01:00
|
|
|
r_el_dev_pkgs: true
|
2021-02-25 14:09:55 +01:00
|
|
|
r_base_packages_el:
|
|
|
|
- R
|
|
|
|
- R-core
|
|
|
|
- libRmath
|
|
|
|
|
|
|
|
r_base_packages_dev_el:
|
|
|
|
- R-core-devel
|
|
|
|
- libRmath-devel
|
|
|
|
|
|
|
|
r_base_packages_java_el:
|
|
|
|
- R-java
|
|
|
|
|
|
|
|
r_base_packages_java_dev_el:
|
|
|
|
- R-java-devel
|
|
|
|
|
2021-02-25 17:46:11 +01:00
|
|
|
r_distribution_required_el_packages: []
|
2021-03-02 11:27:16 +01:00
|
|
|
|
2023-12-07 16:30:31 +01:00
|
|
|
r_cran_install_from_ppa: "{% if r_base_versioned %}false{% else %}true{% endif %}"
|
2021-07-02 15:52:58 +02:00
|
|
|
r_cran_ubuntu_packages:
|
|
|
|
- r-cran-abind
|
|
|
|
- r-cran-askpass
|
|
|
|
- r-cran-backports
|
|
|
|
- r-cran-base64enc
|
|
|
|
- r-cran-bayesplot
|
|
|
|
- r-cran-bh
|
|
|
|
- r-cran-boot
|
|
|
|
- r-cran-bslib
|
|
|
|
- r-cran-cachem
|
|
|
|
- r-cran-callr
|
|
|
|
- r-cran-checkmate
|
|
|
|
- r-cran-class
|
|
|
|
- r-cran-cli
|
|
|
|
- r-cran-cluster
|
|
|
|
- r-cran-coda
|
|
|
|
- r-cran-codetools
|
|
|
|
- r-cran-colorspace
|
|
|
|
- r-cran-colourpicker
|
|
|
|
- r-cran-commonmark
|
|
|
|
- r-cran-cpp11
|
|
|
|
- r-cran-crayon
|
|
|
|
- r-cran-crosstalk
|
|
|
|
- r-cran-curl
|
|
|
|
- r-cran-desc
|
|
|
|
- r-cran-digest
|
2021-07-09 17:01:25 +02:00
|
|
|
- r-cran-doparallel
|
2021-07-02 15:52:58 +02:00
|
|
|
- r-cran-dplyr
|
|
|
|
- r-cran-dt
|
|
|
|
- r-cran-dygraphs
|
|
|
|
- r-cran-ellipsis
|
|
|
|
- r-cran-fansi
|
|
|
|
- r-cran-farver
|
|
|
|
- r-cran-fastmap
|
|
|
|
- r-cran-foreign
|
|
|
|
- r-cran-fs
|
|
|
|
- r-cran-generics
|
|
|
|
- r-cran-ggplot2
|
|
|
|
- r-cran-ggridges
|
|
|
|
- r-cran-glue
|
|
|
|
- r-cran-gridextra
|
|
|
|
- r-cran-gtable
|
|
|
|
- r-cran-gtools
|
|
|
|
- r-cran-htmltools
|
|
|
|
- r-cran-htmlwidgets
|
|
|
|
- r-cran-httpuv
|
|
|
|
- r-cran-igraph
|
|
|
|
- r-cran-inline
|
|
|
|
- r-cran-isoband
|
|
|
|
- r-cran-jquerylib
|
|
|
|
- r-cran-jsonlite
|
|
|
|
- r-cran-kernsmooth
|
|
|
|
- r-cran-labeling
|
|
|
|
- r-cran-later
|
|
|
|
- r-cran-lattice
|
|
|
|
- r-cran-lazyeval
|
|
|
|
- r-cran-lifecycle
|
|
|
|
- r-cran-littler
|
|
|
|
- r-cran-lme4
|
|
|
|
- r-cran-loo
|
|
|
|
- r-cran-magrittr
|
|
|
|
- r-cran-maptools
|
|
|
|
- r-cran-markdown
|
|
|
|
- r-cran-mass
|
|
|
|
- r-cran-matrix
|
|
|
|
- r-cran-matrixstats
|
|
|
|
- r-cran-mgcv
|
|
|
|
- r-cran-mime
|
|
|
|
- r-cran-miniui
|
|
|
|
- r-cran-minqa
|
|
|
|
- r-cran-munsell
|
|
|
|
- r-cran-nlme
|
|
|
|
- r-cran-nloptr
|
|
|
|
- r-cran-nnet
|
|
|
|
- r-cran-openssl
|
|
|
|
- r-cran-packrat
|
|
|
|
- r-cran-pillar
|
|
|
|
- r-cran-pkgbuild
|
|
|
|
- r-cran-pkgconfig
|
|
|
|
- r-cran-plyr
|
|
|
|
- r-cran-prettyunits
|
|
|
|
- r-cran-processx
|
|
|
|
- r-cran-promises
|
|
|
|
- r-cran-ps
|
|
|
|
- r-cran-purrr
|
2021-07-09 17:01:25 +02:00
|
|
|
- r-cran-r2jags
|
2021-07-02 15:52:58 +02:00
|
|
|
- r-cran-r6
|
|
|
|
- r-cran-rappdirs
|
|
|
|
- r-cran-rcolorbrewer
|
|
|
|
- r-cran-rcpp
|
|
|
|
- r-cran-rcppeigen
|
|
|
|
- r-cran-rcppparallel
|
|
|
|
- r-cran-reshape2
|
|
|
|
- r-cran-rjags
|
|
|
|
- r-cran-rlang
|
|
|
|
- r-cran-rodbc
|
|
|
|
- r-cran-rpart
|
|
|
|
- r-cran-rprojroot
|
|
|
|
- r-cran-rsconnect
|
|
|
|
- r-cran-rstanarm
|
|
|
|
- r-cran-rstantools
|
|
|
|
- r-cran-rstudioapi
|
|
|
|
- r-cran-sass
|
|
|
|
- r-cran-scales
|
|
|
|
- r-cran-shiny
|
|
|
|
- r-cran-shinyjs
|
|
|
|
- r-cran-shinystan
|
|
|
|
- r-cran-shinythemes
|
|
|
|
- r-cran-sourcetools
|
|
|
|
- r-cran-sp
|
|
|
|
- r-cran-spatial
|
|
|
|
- r-cran-stanheaders
|
|
|
|
- r-cran-stringi
|
|
|
|
- r-cran-stringr
|
|
|
|
- r-cran-survival
|
|
|
|
- r-cran-svglite
|
|
|
|
- r-cran-sys
|
|
|
|
- r-cran-systemfonts
|
|
|
|
- r-cran-threejs
|
|
|
|
- r-cran-tibble
|
|
|
|
- r-cran-tidyselect
|
|
|
|
- r-cran-utf8
|
|
|
|
- r-cran-v8
|
|
|
|
- r-cran-vctrs
|
|
|
|
- r-cran-viridislite
|
|
|
|
- r-cran-withr
|
|
|
|
- r-cran-xfun
|
|
|
|
- r-cran-xtable
|
|
|
|
- r-cran-xts
|
|
|
|
- r-cran-yaml
|
|
|
|
- r-cran-zoo
|
|
|
|
|
2023-12-07 16:30:31 +01:00
|
|
|
r_cran_install_from_sources: true
|
2021-02-25 14:09:55 +01:00
|
|
|
r_plugins_list_to_install: []
|
2021-07-02 15:52:58 +02:00
|
|
|
# - { name: 'robis', repo: '{{ r_cran_mirror_site }}' }
|
2021-02-25 14:09:55 +01:00
|
|
|
|
|
|
|
r_plugins_from_sources: []
|
|
|
|
# - { name: 'plyr', version: '1.7.1', source: 'plyr_1.7.1.tar.gz', url: 'http://cran.r-project.org/src/contrib/Archive/plyr/plyr_1.7.1.tar.gz' }
|
|
|
|
|
2021-07-05 15:21:46 +02:00
|
|
|
# The 'repo' scope is required
|
|
|
|
# r_plugins_from_github_api_token: 'Put it into a vault file'
|
2021-09-21 16:32:28 +02:00
|
|
|
# The 'version' parameter is optional. The default is 'master'
|
2021-02-25 14:09:55 +01:00
|
|
|
r_plugins_from_github: []
|
2021-09-21 16:32:28 +02:00
|
|
|
# - { plugin_name: 'RFigisGeo', github_user: 'openfigis', version: 'v0.2-beta1' }
|
2021-02-25 14:09:55 +01:00
|
|
|
# - { plugin_name: 'rsdmx', github_user: 'opensdmx' }
|
|
|
|
|
|
|
|
#
|
|
|
|
r_plugins_list_to_remove: []
|