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tools:rtools [2023/12/14 13:34] aho [2023] |
tools:rtools [2024/09/12 12:27] (current) vagudets [2024] |
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- | The R tools can be used for postprocessing experiments: | + | At BSC-ES there is a collaborative effort to share resources for data analysis in R and develop some in-houseR tools that are maintained by the R developer team. The R tools can be used for postprocessing experiments: |
You can join the [[http:// | You can join the [[http:// | ||
- | The list of functions in each department R package and the R modules with library versions can be found [[https:// | + | ===== Getting started: using R at BSC-ES ===== |
- | A quarterly meeting is taking place in the department to discuss about the plans and priorities | + | ==== Environment Modules ==== |
- | * [[https://docs.google.com/document/d/1VqnwgeimqNLODfqAyPjIY9XprGD5JQ-NPqzQF6nNDS0/edit?usp=sharing& | + | |
- | * [[https:// | + | The Workstations, |
+ | |||
+ | For example, to load CDO and R in the workstation, | ||
+ | module load CDO/ | ||
+ | module load R/ | ||
+ | |||
+ | The currently maintained R module versions | ||
+ | |||
+ | * Workstations: | ||
+ | * BSC-ES Hub: R/4.2.1-foss-2021b (See: [[https:// | ||
+ | * Nord3v2: R/ | ||
+ | * CTE-AMD: R/ | ||
+ | |||
+ | 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. | ||
+ | |||
+ | ==== R packages ==== | ||
+ | |||
+ | The R modules contain the latest released version of our in-house R packages, as well as many other R packages that may be used by people in the department. | ||
+ | There is no need to install any packages locally by yourself; you can load the corresponding module and check if the R package is already installed. If it is not installed, you may open an issue in the Requests GitLab project (https:// | ||
+ | |||
+ | Some packages may require additional modules; see the ‘R tips’ section below. | ||
+ | |||
+ | The list of R packages installed in the latest maintained R modules (as of 2024-02-02) can be found {{ : | ||
+ | |||
+ | ==== Where to run R ==== | ||
+ | |||
+ | * 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. | ||
+ | * To use Jupyter Notebooks in the BSC-ES Hub, see the [[https:// | ||
===== R User Meeting ===== | ===== R User Meeting ===== | ||
+ | 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:// | ||
+ | * [[https:// | ||
+ | |||
+ | ====2024==== | ||
+ | * R tools user meeting (Hybrid Mode, 01/ | ||
+ | * R tools user meeting (Hybrid Mode, 04/ | ||
+ | * R tools user meeting (Hybrid Mode, 02/ | ||
+ | * R tools user meeting (Hybrid Mode, 01/ | ||
+ | * R tools user meeting (Hybrid Mode, 04/ | ||
+ | * R tools user meeting (Hybrid Mode, 09/ | ||
====2023==== | ====2023==== | ||
* R tools user meeting (Mix Mode, 14/ | * R tools user meeting (Mix Mode, 14/ | ||
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* R tools user meeting (BSC, 07/11/2019) {{ : | * R tools user meeting (BSC, 07/11/2019) {{ : | ||
| | ||
- | ===== Packages ===== | + | ===== In-house |
Brief Summary and links to in-house packages: {{ : | Brief Summary and links to in-house packages: {{ : | ||
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===== Presentations ===== | ===== Presentations ===== | ||
+ | * {{ : | ||
* {{ : | * {{ : | ||
* {{ : | * {{ : | ||
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- | How to access, what you will find (servers, machines, partitions, modules) and how to open RStudio: check the slides and share them with your colleagues. {{ : | + | How to access, what you will find (servers, machines, partitions, modules) and how to open RStudio: check the slides and share them with your colleagues. {{ : |
+ | |||
+ | How to access BSC Hub and run R from the terminal and using VSCode: {{ : | ||