¶ R / RStudio
R is a language and environment for statistical computing and graphics. It is a GNU project which is similar to the S language and environment which was developed at Bell Laboratories (formerly AT&T, now Lucent Technologies) by John Chambers and colleagues. R can be considered as a different implementation of S. There are some important differences, but much code written for S runs unaltered under R.
R provides a wide variety of statistical (linear and nonlinear modelling, classical statistical tests, time-series analysis, classification, clustering, …) and graphical techniques, and is highly extensible. The S language is often the vehicle of choice for research in statistical methodology, and R provides an Open Source route to participation in that activity.
RStudio integrated development environment (IDE) is a set of tools built to help you be more productive with R and Python. It includes a console, syntax-highlighting editor that supports direct code execution. It also features tools for plotting, viewing history, debugging and managing your workspace.
Supercomputer users can use R in one of the following usage modes described below depending on their needs.
¶ Available versions
- R/4.1.0-foss-2021a
- R/4.2.1-foss-2022a
- R/4.4.1-gfbf-2023b
- not available
¶ Access Conditions
The requirements are:
- Account on the e-science.pl platform
- Active "Process on Supercomputer" service.
If you do not meet the above requirements click here
¶ License
WCSS holds an annual license for its users on the bem2 cluster.
¶ How to use
The following commands is used to submit tasks to the queue system:
sub-r-4.1.0
sub-r-4.2.1
Running the script without specifying arguments will display a prompt on how to specify these arguments:
Usage: /usr/local/bin/bem2/sub-r FILE PARAMETERS
Parameters:
-p PARTITION Set partition (queue). Default = bem2-cpu
-n NODES Set number of nodes. Default = 1
-c CORES Up to 48. Default = 1
-m MEMORY In GB, up to 180 (must be integer value). Default = 2
-t TIME_LIMIT In hours. Default = 12
-o OTHER_PARAMETERS additional R parameters. If used must be the LAST option.
Sub- scripts should be run only at the access node
ui.wcss.pl.
To use an R package in an interactive or batch job, you need to load the appropriate module.
¶ Check available versions
To list all available modules:
You can only check modules during an interactive session,(after running an interactive task) not on the ui node ui.wcss.pl
module avail -i R
¶ module load
module load R/4.2.1-foss-2022a
¶ Command to start the main program:
R
¶ Graphic interface via the OpenOnDemand Platform
To use the Open OnDemand platform, go to https://ood.e-science.pl, and then log in using a certificate or your cluster login credentials.
After logging in, select the icon Studio R server
¶ Acknowledgments
All publications, including doctoral and diploma theses, using the results of calculations performed on WCSS computers should include acknowledgments to the character (respectively to the language of publication) in accordance with the current regulations
"Created using resources provided by Wroclaw Centre for Networking and Supercomputing (http://wcss.pl)"
"Opracowano przy użyciu zasobów udostępnionych przez Wrocławskie Centrum Sieciowo-Superkomputerowe (http://wcss.pl)”
¶ I have a problem with...
- No e-science account If you do not have an e-science account, register.
- No "Process on a Supercomputer" service Submit a request for a new service or modification of an existing one.
¶ See also
¶ Documentation Project R
¶ Documentation KDM
- Who can become a Supercomputer user?
- How to gain access to the Supercomputer?
- Service Requests Instructions on how to fill out online forms
- users.e-science.pl Manage teams, users, and access rights
- OpenOnDemand Graphical access to applications on the Supercomputer
- Resource usage register How to check available resources in a service
- HPC info Detailed information about resource usage in jobs and services
- set-default-service Change the default service when submitting jobs
- Sub-scripts Specially prepared scripts for launching specific versions of a given program
- Modules Use the module mechanism
The full version of the user documentation is available here.
If you do not find a solution in the above documentation, please contact kdm@wcss.pl.