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tools:rtools [2025/12/04 14:45]
vagudets [2025] 		tools:rtools [2026/06/10 10:52] (current)
vagudets [Presentations]
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 For example, to load CDO and R in the hub, you should load the corresponding modules with the 'module load' command: For example, to load CDO and R in the hub, you should load the corresponding modules with the 'module load' command:
     module load CDO/2.4.4-gompi-2023b     module load CDO/2.4.4-gompi-2023b
-    module load R/4.4.1-gfbf-2023b 
     module load R-bundle-CRAN/2024.06-foss-2023b     module load R-bundle-CRAN/2024.06-foss-2023b
  
 The currently maintained R module versions are: The currently maintained R module versions are:
  
-  * BSC-ES Hub: R/4.4.1-gfbf-2023b (+ R-bundle-CRAN/2024.06-foss-2023b for most CRAN Packages; and R-bundle-Bioconductor/3.19-foss-2023b-R-4.4.1 for Bioconductor packages. See: [[https://earth.bsc.es/wiki/doku.php?id=computing:bsceshub | Computing - Bsceshub]]) +  * BSC-ES Hub: R-bundle-CRAN/2024.06-foss-2023b for most CRAN Packages; and R-bundle-Bioconductor/3.19-foss-2023b-R-4.4.1 for Bioconductor packages. (See: [[https://earth.bsc.es/wiki/doku.php?id=computing:bsceshub | Computing - Bsceshub]] 
-  * Nord3v2: R/4.1.2-foss-2019b (See: [[https://earth.bsc.es/wiki/doku.php?id=computing:nord3-v2|Computing - Nord3v2]]) +  * Nord4: R-bundle-CRAN/2023.12-foss-2020b for most CRAN Packages; and R-bundle-Bioconductor/3.18-foss-2020b-R-4.3.3 for Bioconductor packages. (See: [[https://earth.bsc.es/wiki/doku.php?id=computing:nord4|Computing - Nord4]]) 
-  * CTE-AMD: R/4.1.2-foss-2019b (See: [[https://earth.bsc.es/wiki/doku.php?id=computing:amd|Computing - AMD]]) +  * MN5: R/4.3.3-gfbf-2023b (See: [[https://earth.bsc.es/wiki/doku.php?id=computing:mn5|Computing - MN5]]
-  * Nord4: R/4.1.2-foss-2019b (See: [[https://earth.bsc.es/wiki/doku.php?id=computing:nord4|Computing - Nord4]]) +
-  * BSC-ES Hub (deprecated): R/4.2.1-foss-2021b (See: [[https://earth.bsc.es/wiki/doku.php?id=computing:bsceshub|Computing - Bsceshub (Testing phase)]]) +
-  * Workstations (deprecated): R/4.1.2-foss-2015a-bare (See: [[https://earth.bsc.es/wiki/doku.php?id=computing:workstations| Computing - Workstations]])+
  
 Check the wiki page for each machine to see if you need to follow any additional steps to be able to load the correct modules. Check the wiki page for each machine to see if you need to follow any additional steps to be able to load the correct modules.
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   * To open an R session in the terminal, simply type ‘R’ after loading the R module.    * To open an R session in the terminal, simply type ‘R’ after loading the R module. 
-  * RStudio Server is available on the Workstations and Nord3v2. See the section ‘RStudio Server’ below. RStudio Server is not yet available on the Hub, but you can use VSCode. See the ‘R tips’ section below.  +  * RStudio Server is available on the Hub and Nord4. See the section ‘RStudio Server’ below. You may also use VSCode: see the ‘R tips’ section below.  
-  * To use Jupyter Notebooks in the BSC-ES Hub, see the [[https://earth.bsc.es/wiki/doku.php?id=computing:howto:jupyter_notebooks#r_experimental | Jupyter Notebook wiki page]]. For the workstations, the up-to-date R version is not working with Jupyter Notebooks.+  * To use Jupyter Notebooks in the BSC-ES Hub, see the [[https://earth.bsc.es/wiki/doku.php?id=computing:howto:jupyter_notebooks#r_experimental | Jupyter Notebook wiki page]].
      
 ===== In-house Packages ===== ===== In-house Packages =====
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 Brief Summary and links to in-house packages: {{ :tools:package_summary.pdf | Package Summary}} Brief Summary and links to in-house packages: {{ :tools:package_summary.pdf | Package Summary}}
  
-See specific information for each tool:+See specific information for some of the packages:
  
   * [[https://earth.bsc.es/wiki/doku.php?id=tools:startR&s[]=startR|startR]]   * [[https://earth.bsc.es/wiki/doku.php?id=tools:startR&s[]=startR|startR]]
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 ===== Presentations ===== ===== Presentations =====
 +  * {{ :tools:what_do_we_know_about_bsc-es_infrastructure_-_2026.pdf | Introduction to the BSC-ES infrastructure (2026)}}
   * {{ :tools:r_tool_roadmap_2024.pdf |R Tools Roadmap 2024}}   * {{ :tools:r_tool_roadmap_2024.pdf |R Tools Roadmap 2024}}
   * {{ :tools:day2_04_handson_r_tools.pdf | BSC Training (PATC) 2023 - Climate Forecast Analysis hands-on tutorial: R tools}}   * {{ :tools:day2_04_handson_r_tools.pdf | BSC Training (PATC) 2023 - Climate Forecast Analysis hands-on tutorial: R tools}}
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 A monthly meeting takes place in the department to discuss about the plans and priorities of the R tools (or any other topic we need to discuss). Here you can find a document were the minutes are being gathered: A monthly meeting takes place in the department to discuss about the plans and priorities of the R tools (or any other topic we need to discuss). Here you can find a document were the minutes are being gathered:
   * [[https://docs.google.com/document/d/1VqnwgeimqNLODfqAyPjIY9XprGD5JQ-NPqzQF6nNDS0/edit?usp=sharing&s|Minutes until June 2022]]   * [[https://docs.google.com/document/d/1VqnwgeimqNLODfqAyPjIY9XprGD5JQ-NPqzQF6nNDS0/edit?usp=sharing&s|Minutes until June 2022]]
-  * [[https://docs.google.com/document/d/1mdLCS7SC5-8NwAB_gAzUsEnJN4yYEYmAlVys0qT8Edk/edit?usp=sharing|Minutes since July 2022]]+  * [[https://docs.google.com/document/d/1mdLCS7SC5-8NwAB_gAzUsEnJN4yYEYmAlVys0qT8Edk/edit?usp=sharing|Minutes from July 2022 to April 2026]] 
 +  * [[https://nextcloud.bsc.es/index.php/apps/onlyoffice/73245547?filePath=%2FEarth%2FR-tools%2FR%20user%20meeting%20agenda%20and%20minutes.docx|Minutes from June 2026]]
  
 +====2026====
 +  * R tools user meeting (Hybrid Mode, 05/02/2026){{ :tools:r_user_meeting_20260205.pdf | Slides}}
 +  * R tools user meeting (Hybrid Mode, 16/04/2026){{ :tools:r_user_meeting_20260416.pdf | Slides}}
 +  * R tools user meeting (Hybrid Mode, 04/06/2026){{ :tools:r_user_meeting_20260604.pdf | Slides}}
 ====2025==== ====2025====
   * R tools user meeting (Hybrid Mode, 04/12/2025){{ :tools:r_user_meeting_20251204.pdf | Slides}}   * R tools user meeting (Hybrid Mode, 04/12/2025){{ :tools:r_user_meeting_20251204.pdf | Slides}}
tools/rtools.1764859557.txt.gz · Last modified: 2025/12/04 14:45 by vagudets

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