New way to stick to a specific version of R.

defaults/main.yml

@@ -10,7 +10,7 @@
 # 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
-r_install_cran_repo: False
+r_install_cran_repo: false
 # This si the CRAN main repository, that contains the r-base-* packages
 r_cran_ubuntu_repo_key: 'E298A3A825C0D65DFD57CBB651716619E084DAB9'
 r_cran_ubuntu_repo: 'deb https://cloud.r-project.org/bin/linux/ubuntu {{ ansible_distribution_release }}-cran40/'
@@ -25,27 +25,25 @@ r_apt_additional_repos:
   - 'ppa:ubuntugis/ppa'
   - 'ppa:cran/libgit2'
 
-r_cran_set_default_mirror: True
+r_cran_set_default_mirror: true
 r_cran_mirror_site: https://cran.mirror.garr.it/mirrors/CRAN/
-r_base_specific_version: False
+r_base_versioned: false
-r_base_pkg_version: 4.1.0
+r_base_pkg_version: 4.2.3-1.1804.0
-r_packages_main_state: present
-r_packages_state: '{{ r_packages_main_state }}'
 r_sitelib_path: '/usr/local/lib/R/site-library'
-r_plugins_from_deb: True
+r_plugins_from_deb: true
-r_packages_cleanup: False
+r_packages_cleanup: false
-r_install_rprofile_site: True
+r_install_rprofile_site: true
 #
-r_packages_updater: True
+r_packages_updater: true
-r_package_updater_via_subversion: False
+r_package_updater_via_subversion: false
 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
-r_package_updater_via_git: True
+r_package_updater_via_git: true
 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: ''
-r_packages_updater_also_upgrades_installed_packages: True
+r_packages_updater_also_upgrades_installed_packages: true
-r_packages_updater_for_github_only: True
+r_packages_updater_for_github_only: true
 # They need to be flat text files
 # 1 package per line
 #r_debian_packages_list_url
@@ -67,6 +65,13 @@ r_base_packages_list:
   - r-base-html
   - r-mathlib
 
+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 }}"
+
 r_distribution_required_packages:
   - jags
   - git
@@ -89,8 +94,12 @@ r_distribution_required_packages:
   - libnetcdf-dev
   - netcdf-bin
 
-# Some packages must be put on hold
+# Some packages that must be put on hold
 r_base_packages_hold_list: []
+  # - r-base-core
+  # - r-base-dev
+  # - r-base-html
+  # - r-mathlib
 
 r_plugins_packages_list: []
 
@@ -215,7 +224,6 @@ r_cran_ubuntu_packages:
   - r-cran-rpart
   - r-cran-rprojroot
   - r-cran-rsconnect
-  - r-cran-rstan
   - r-cran-rstanarm
   - r-cran-rstantools
   - r-cran-rstudioapi

meta/main.yml

@@ -1,14 +1,11 @@
 galaxy_info:
   author: Andrea Dell'Amico
-  description: Systems Architect
+  description: ansible role that installs R and a list of R packages from CRAN or any other repositories
   company: ISTI-CNR
-
+  namespace: adellam
-  issue_tracker_url: https://redmine-s2i2s.isti.cnr.it/projects/provisioning
+  role_name: r_distribution
-
   license: EUPL 1.2+
-
+  min_ansible_version: "2.14"
-  min_ansible_version: 2.8
-
   # To view available platforms and versions (or releases), visit:
   # https://galaxy.ansible.com/api/v1/platforms/
   #
@@ -16,10 +13,8 @@ galaxy_info:
     - name: Ubuntu
       versions:
         - bionic
-    - name: EL
+        - focal
-      versions:
+        - jammy
-        - 7
-
   galaxy_tags:
     - R
     - CRAN

tasks/r-installation-deb.yml

@@ -1,101 +1,117 @@
 ---
-- block:
+- name: r-installation-deb | Manage the CRAN PPA
-  - name: Add the CRAN repository (Ubuntu Trusty PPA)
-    apt_repository:
-      repo: '{{ r_cran_ubuntu_packages_ppa_trusty }}'
-      state: present
-      update_cache: yes
-
-  - name: Install some additional repositories. They provide dependencies for some R packages. Ubuntu Bionic
-    apt_repository:
-      repo: '{{ item }}'
-      state: present
-      update_cache: yes
-    loop: '{{ r_apt_additional_repos_trusty }}'
-
   when:
     - r_install_cran_repo
     - ansible_distribution_version is version_compare('14.04', '==')
-  tags: [ 'r_software', 'r_repo' ]
+  tags: ['r_software', 'r_repo']
+  block:
+    - name: r-installation-deb | Add the CRAN repository (Ubuntu Trusty PPA)
+      ansible.builtin.apt_repository:
+        repo: '{{ r_cran_ubuntu_packages_ppa_trusty }}'
+        state: present
+        update_cache: true
 
-- block:
+    - name: r-installation-deb | Install some additional repositories. They provide dependencies for some R packages. Ubuntu Bionic
-  - name: Install the CRAN main R repository key
+      ansible.builtin.apt_repository:
-    apt_key:
+        repo: '{{ item }}'
-      keyserver: 'keyserver.ubuntu.com'
+        state: present
-      id: '{{ r_cran_ubuntu_repo_key }}'
+        update_cache: true
-
+      loop: '{{ r_apt_additional_repos_trusty }}'
-  - name: Install the CRAN main R repository
-    apt_repository:
-      repo: '{{ r_cran_ubuntu_repo }}'
-      state: present
-      update_cache: yes
-
-  - name: Add the CRAN repository (Ubuntu Bionic PPA)
-    apt_repository:
-      repo: '{{ r_cran_ubuntu_packages_ppa }}'
-      state: present
-      update_cache: yes
-
-  - name: Install some additional repositories. They provide dependencies for some R packages. Ubuntu Bionic
-    apt_repository:
-      repo: '{{ item }}'
-      state: present
-      update_cache: yes
-    loop: '{{ r_apt_additional_repos }}'
 
+- name: r-installation-deb | Manage the CRAN PPA on Ubuntu >= 16.04
   when:
     - r_install_cran_repo
     - ansible_distribution_version is version_compare('18.04', '>=')
-  tags: [ 'r_software', 'r_repo' ]
+  tags: ['r_software', 'r_repo']
+  block:
+    - name: r-installation-deb | Install the CRAN main R repository key
+      ansible.builtin.apt_key:
+        keyserver: 'keyserver.ubuntu.com'
+        id: '{{ r_cran_ubuntu_repo_key }}'
 
-- block:
+    - name: r-installation-deb | Install the CRAN main R repository
-  - name: Remove the CRAN repositores
+      ansible.builtin.apt_repository:
-    apt_repository:
+        repo: '{{ r_cran_ubuntu_repo }}'
-      repo: '{{ r_cran_ubuntu_packages_ppa }}'
+        state: present
-      state: absent
+        update_cache: true
-      update_cache: yes
 
-  - name: Remove the CRAN main repository
+    - name: r-installation-deb | Add the CRAN repository (Ubuntu Bionic PPA)
-    apt_repository:
+      ansible.builtin.apt_repository:
-      repo: '{{ r_cran_ubuntu_repo }}'
+        repo: '{{ r_cran_ubuntu_packages_ppa }}'
-      state: absent
+        state: present
-      update_cache: yes
+        update_cache: true
 
+    - name: r-installation-deb | Install some additional repositories. They provide dependencies for some R packages. Ubuntu Bionic
+      ansible.builtin.apt_repository:
+        repo: '{{ item }}'
+        state: present
+        update_cache: true
+      loop: '{{ r_apt_additional_repos }}'
+
+
+- name: r-installation-deb | Remove the CRAN repo when we do not want it
   when: not r_install_cran_repo
-  tags: [ 'r_software', 'r_repo' ]
+  tags: ['r_software', 'r_repo']
+  block:
+    - name: r-installation-deb | Remove the CRAN repositores
+      ansible.builtin.apt_repository:
+        repo: '{{ r_cran_ubuntu_packages_ppa }}'
+        state: absent
+        update_cache: true
 
-- block:
+    - name: r-installation-deb | Remove the CRAN main repository
-  - name: Remove the hold state from the debian R packages
+      ansible.builtin.apt_repository:
-    shell: apt-mark unhold {{ item }}
+        repo: '{{ r_cran_ubuntu_repo }}'
-    with_items: '{{ r_base_packages_hold_list | default([]) }}'
+        state: absent
-    when: r_base_packages_hold_list is defined
+        update_cache: true
-    ignore_errors: True
-    tags: [ 'r_software', 'r_pkg', 'r_pkg_hold' ]
 
-  - name: Install the R base packages.
-    apt:
-      pkg: '{{ r_base_packages_list }}'
-      state: '{{ r_packages_main_state }}'
-      cache_valid_time: 3600
 
-  - name: When we install specific R deb packages, put them on hold
+- name: r-installation-deb | Install the R base packages from the repository, unversioned
-    shell: apt-mark hold {{ item }}
+  when: not r_base_versioned
-    with_items: '{{ r_base_packages_hold_list| default([]) }}'
+  tags: ['r_software', 'r_pkg', r_unversioned_packages]
-    when: r_base_specific_version
+  block:
-    ignore_errors: True
+    - name: r-installation-deb | Remove the hold state from the debian R packages
-    tags: [ 'r_software', 'r_pkg', 'r_pkg_hold' ]
+      ansible.builtin.dpkg_selections:
+        name: "{{ item }}"
+        selection: install
+      with_items: '{{ r_base_packages_hold_list | default([]) }}'
+      tags: ['r_software', 'r_pkg', 'r_pkg_hold']
 
-  - name: Install the R additional modules from the deb repo
+    - name: r-installation-deb | Install the R base packages.
-    apt:
+      ansible.builtin.apt:
-      pkg: '{{ r_plugins_packages_list }}'
+        pkg: '{{ r_base_packages_list }}'
-      state: '{{ r_packages_state }}'
+        state: present
-      cache_valid_time: 3600
+        cache_valid_time: 3600
 
-  - name: Install some packages needed by R packages when installed from source
+- name: r-installation-deb | Install the R base packages from the repository, versioned. Put them on hold
-    apt:
+  when: r_base_versioned
-      pkg: '{{ r_distribution_required_packages }}'
+  tags: ['r_software', 'r_pkg', r_unversioned_packages]
-      state: '{{ r_packages_state }}'
+  block:
-      cache_valid_time: 3600
+    - name: r-installation-deb | Install the R base packages, versioned.
-    tags: [ 'r_software', 'r_pkg', 'r_deps' ]
+      ansible.builtin.apt:
+        pkg: '{{ r_base_versioned_packages_list }}'
+        state: present
+        cache_valid_time: 3600
 
-  tags: [ 'r_software', 'r_pkg' ]
+    - name: r-installation-deb | Put some packages into hold state
+      ansible.builtin.dpkg_selections:
+        name: "{{ item }}"
+        selection: hold
+      with_items: '{{ r_base_packages_hold_list | default([]) }}'
+      tags: ['r_software', 'r_pkg', 'r_pkg_hold']
+
+- name: r-installation-deb | Manage additional packages
+  tags: ['r_software', 'r_pkg', r_unversioned_packages]
+  block:
+    - name: r-installation-deb | Install some additional R modules from the deb repo
+      ansible.builtin.apt:
+        pkg: '{{ r_plugins_packages_list }}'
+        state: '{{ r_packages_state }}'
+        cache_valid_time: 3600
+
+    - name: r-installation-deb | Install some packages required by R packages when installed from source
+      ansible.builtin.apt:
+        pkg: '{{ r_distribution_required_packages }}'
+        state: '{{ r_packages_state }}'
+        cache_valid_time: 3600
+      tags: ['r_software', 'r_pkg', 'r_deps']