User Tools

Site Tools

Trace:
tools:rtools

Differences

This shows you the differences between two versions of the page.

Link to this comparison view

Both sides previous revision Previous revision
Next revision 		Previous revision
tools:rtools [2024/12/12 13:12]
vagudets [2024] 		tools:rtools [2025/06/13 12:33] (current)
vagudets [Environment Modules]
Line 9: Line 9:
 The Workstations, the BSC-ES Hub and the HPC machines use [[https://earth.bsc.es/wiki/doku.php?id=library:environment_modules | environment modules]], which are maintained by our IT team. Each module contains a set of software packages that can only be used if the module has been loaded in the environment.  The Workstations, the BSC-ES Hub and the HPC machines use [[https://earth.bsc.es/wiki/doku.php?id=library:environment_modules | environment modules]], which are maintained by our IT team. Each module contains a set of software packages that can only be used if the module has been loaded in the environment. 
  
-For example, to load CDO and R in the workstation, 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/1.9.8-foss-2015a +    module load CDO/2.4.4-gompi-2023b 
-    module load R/4.1.2-foss-2015a-bare+    module load R/4.4.1-gfbf-2023b 
 +    module load R-bundle-CRAN/2024.06-foss-2023b
  
 The currently maintained R module versions are: The currently maintained R module versions are:
  
-  * Workstations: R/4.1.2-foss-2015a-bare (See: [[https://earth.bsc.es/wiki/doku.php?id=computing:workstations| Computing - Workstations]]) +  * 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/4.2.1-foss-2021b (See: [[https://earth.bsc.es/wiki/doku.php?id=computing:bsceshub|Computing - Bsceshub (Testing phase)]])+
   * Nord3v2: R/4.1.2-foss-2019b (See: [[https://earth.bsc.es/wiki/doku.php?id=computing:nord3-v2|Computing - Nord3v2]])   * Nord3v2: R/4.1.2-foss-2019b (See: [[https://earth.bsc.es/wiki/doku.php?id=computing:nord3-v2|Computing - Nord3v2]])
   * CTE-AMD: R/4.1.2-foss-2019b (See: [[https://earth.bsc.es/wiki/doku.php?id=computing:amd|Computing - AMD]])   * CTE-AMD: R/4.1.2-foss-2019b (See: [[https://earth.bsc.es/wiki/doku.php?id=computing:amd|Computing - AMD]])
 +  * 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.
Line 69: Line 72:
   * [[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 since July 2022]]
 +
 +====2025====
 +  * R tools user meeting (Hybrid Mode, 05/06/2025){{ :tools:r_user_meeting_20250605.pdf | Slides}}
 +  * R tools user meeting (Hybrid Mode, 03/04/2025){{ :tools:r_user_meeting_20250403.pdf | Slides}}
 +  * R tools user meeting (Hybrid Mode, 06/02/2025){{ :tools:r_user_meeting_20250206.pdf | Slides}}
 +
  
 ====2024==== ====2024====
Line 79: Line 88:
   * R tools user meeting (Hybrid Mode, 04/04/2024){{ :tools:r_user_meeting_20240404.pdf | Slides}}   * R tools user meeting (Hybrid Mode, 04/04/2024){{ :tools:r_user_meeting_20240404.pdf | Slides}}
   * R tools user meeting (Hybrid Mode, 01/02/2024){{ :tools:r_user_meeting_20240201.pdf | Slides}}   * R tools user meeting (Hybrid Mode, 01/02/2024){{ :tools:r_user_meeting_20240201.pdf | Slides}}
- 
- 
- 
-  
- 
  
 ====2023==== ====2023====
Line 280: Line 284:
 This package could be used by loading the following modules (note that order may affect): This package could be used by loading the following modules (note that order may affect):
  
-(on workstation)   +(on nord4)
-    module load R/4.1.2-foss-2015a-bare +
-    module load GDAL/2.2.1-foss-2015a  +
-    module load PROJ/4.8.0-foss-2015a  +
-    module load GEOS/3.7.2-foss-2015a-Python-2.7.9 +
- +
-(on nord3v2)+
     module load R/4.1.2-foss-2019b     module load R/4.1.2-foss-2019b
     module load GDAL/3.3.2-foss-2019b-Python-3.7.4      module load GDAL/3.3.2-foss-2019b-Python-3.7.4 
     module load PROJ/7.2.1-foss-2019b      module load PROJ/7.2.1-foss-2019b 
     module load GEOS/3.7.2-foss-2019b-Python-3.7.4     module load GEOS/3.7.2-foss-2019b-Python-3.7.4
-  +
 (on hub) (on hub)
 +  module load R/4.4.1-gfbf-2023b
 +  module load R-bundle-CRAN/2024.06-foss-2023b
 +  module load GEOS/3.12.1-GCC-13.2.0
 +  module load GDAL/3.9.0-foss-2023b
 +  module load PROJ/9.3.1-GCCcore-13.2.0
 +
 +(on bsceshub02 (deprecated))
     module load R/4.2.1-foss-2021b       module load R/4.2.1-foss-2021b  
     module load GDAL/3.5.2-foss-2021b-Python-3.9.6      module load GDAL/3.5.2-foss-2021b-Python-3.9.6 
     module load PROJ/9.1.0-foss-2021b      module load PROJ/9.1.0-foss-2021b 
     module load GEOS/3.11.0-GCC-11.2.0     module load GEOS/3.11.0-GCC-11.2.0
 +    
 +(on workstation)  
 +    module load R/4.1.2-foss-2015a-bare
 +    module load GDAL/2.2.1-foss-2015a 
 +    module load PROJ/4.8.0-foss-2015a 
 +    module load GEOS/3.7.2-foss-2015a-Python-2.7.9
  
 Note: Avoid to include them in your bashrc, just load them when it is a requirement.   Note: Avoid to include them in your bashrc, just load them when it is a requirement.  
tools/rtools.1734009157.txt.gz · Last modified: 2024/12/12 13:12 by vagudets

Page Tools

Donate Powered by PHP Valid HTML5 Valid CSS Driven by DokuWiki