R-Sapelo2 - Revision history

Shtsai at 01:25, 5 April 2026

2026-04-05T01:25:21Z

← Older revision		Revision as of 21:25, 4 April 2026
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	[[Category:Sapelo2]][[Category:Software]][[Category:Statistics]]		[[Category:Sapelo2]][[Category:Software]][[Category:Statistics]]
	=== Category ===		== Category ==
	Statistics		Statistics
	=== Program On ===		== Program On ==
	Sapelo2		Sapelo2
	=== Version ===		== Version ==
	4.2.1, 4.3.1, 4.3.2, 4.4.1, 4.4.2		4.2.1, 4.3.1, 4.3.2, 4.4.1, 4.4.2, 4.5.1

	===Author / Distributor===		==Author / Distributor==
	See http://www.r-project.org/		See http://www.r-project.org/
	===Description===		==Description==
	R is a language and environment for statistical computing and graphics. It provides a wide variety of statistical (linear and nonlinear modeling, classical statistical tests, time-series analysis, classification, clustering, ...) and graphical techniques.		R is a language and environment for statistical computing and graphics. It provides a wide variety of statistical (linear and nonlinear modeling, classical statistical tests, time-series analysis, classification, clustering, ...) and graphical techniques.

	=== Running Program ===		== Running Program ==

	Also refer to [[Running Jobs on Sapelo2]]		Also refer to [[Running Jobs on Sapelo2]]
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	</pre>		</pre>

	=== Documentation ===		== Documentation ==
	Please see http://www.r-project.org/		Please see http://www.r-project.org/

	=== Installation ===		== Installation ==
	Source code downloaded from https://www.r-project.org/		Source code downloaded from https://www.r-project.org/

	=== System ===		== System ==
	64-bit Linux		64-bit Linux

Shtsai: /* Running Program */

2026-01-09T20:27:32Z

Running Program

← Older revision		Revision as of 16:27, 9 January 2026
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	</pre>		</pre>

	~~'''~~R ~~version 4.3~~.~~1'''~~		Please note that when you load this R module, many other modules will be loaded as R depends on those other libraries and packages.

	R ~~version 4~~.~~3.2 is installed in /apps/eb/~~R~~/4.3.2~~-~~foss~~-~~2022b~~ and ~~add-on~~ packages are ~~installed in /apps/eb/~~R/4.~~3.2~~-~~foss~~-~~2022b/lib64/~~R~~/library~~. ~~You can list all files in this dir~~ to ~~see the packages installed with this version of R~~.		A number of R packages are provided by other module files. For example, many CRAN packages are provided by the R-bundle-CRAN modules and many Bioconductor packages are provided by the R-bundle-Bioconductor modules. When you load an R-bundle-CRAN or an R-bundle-Bioconductor, a compatible R module will be automatically loaded. So if you to use Bioconductor 3.20, it suffices to load the module with:

	~~To use this version of R~~, ~~please first~~ load the module with
	<pre class="gscript">		<pre class="gscript">
	module load R/4.3.2-foss-~~2022b~~		module load R-bundle-Bioconductor/3.20-foss-2024a-R-4.4.2
	</pre>		</pre>

	~~Please note that when you load this R module, many other modules will be loaded as R depends on those other libraries and packages.~~


	A number of R packages are provided by other module files. For example, many CRAN packages are provided by the R-bundle-CRAN modules and many Bioconductor packages are provided by the R-bundle-Bioconductor modules.

Shtsai: /* Running Program */

2026-01-09T20:22:44Z

Running Program

← Older revision		Revision as of 16:22, 9 January 2026
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	Also refer to [[Running Jobs on Sapelo2]]		Also refer to [[Running Jobs on Sapelo2]]

	'''R version 4.3.1'''		'''R version 4.4.2'''

	R version 4.4.1 is installed in /apps/eb/R/4.4.1-~~foss~~-~~2022b~~ and add-on packages are installed in /apps/eb/R/4.4.1-~~foss~~-~~2022b~~/lib64/R/library. You can list all files in this dir to see the packages installed with this version of R.		R version 4.4.2 is installed in /apps/eb/R/4.4.2-gfbf-2024a and add-on packages are installed in /apps/eb/R/4.4.2-gfbf-2024a/lib64/R/library. You can list all files in this dir to see the packages installed with this version of R.

	To use this version of R, please first load the module with		To use this version of R, please first load the module with
	<pre class="gscript">		<pre class="gscript">
	module load R/4.4.1-~~foss~~-~~2022b~~		module load R/4.4.2-gfbf-2024a
	</pre>		</pre>

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	</pre>		</pre>

			Please note that when you load this R module, many other modules will be loaded as R depends on those other libraries and packages.

	~~'''R version 4.3.1'''~~

	R version 4.3.1 is installed in /apps/eb/R/4.3.1-foss-2022a and add-on packages are installed in /apps/eb/R/4.3.1-foss-2022a/lib64/R/library. You can list all files in this dir to see the packages installed with this version of R.

	~~To use this version of R, please first load the module with~~
	~~<pre class="gscript">~~
	~~module load R/4.3.1-foss-2022a~~
	~~</pre>~~


	~~'''R version 4.2.1'''~~

	R version 4.2.1 is installed in /apps/eb/R/4.2.1-foss-2022a and add-on packages are installed in /apps/eb/R/4.2.1-foss-2022a/lib64/R/library. You can list all files in this dir to see the packages installed with this version of R.

	~~To use this version of R, please first load the module with~~
	~~<pre class="gscript">~~
	~~module load R/4.2.1-foss-2022a~~
	~~</pre>~~


	~~'''R version 4.1.2'''~~

	R version 4.1.2 is installed in /apps/eb/R/4.1.2-foss-2021b and add-on packages are installed in /apps/eb/R/4.1.2-foss-2021b/lib64/R/library. You can list all files in this dir to see the packages installed with this version of R.

	~~To use this version~~ of R, ~~please first load~~ the ~~module with~~		A number of R packages are provided by other module files. For example, many CRAN packages are provided by the R-bundle-CRAN modules and many Bioconductor packages are provided by the R-bundle-Bioconductor modules.
	~~<pre class="gscript">~~
	~~module load~~ R~~/4.1.2~~-~~foss~~-~~2021b~~
	~~</pre>~~
	~~Please note that when you load this R module, many other~~ modules ~~will be loaded as R depends on those other libraries~~ and packages.


	A number of R packages are provided by other module files. For example, many packages that depend on the JAGS library, such as rjags, are provided by the rjags/4-12-foss-2022a-R-4.3.1 module, which can be loaded with
	~~<pre class="gscript">~~
	~~module load rjags/4-12-foss-2022a-R-4.3.1~~
	~~</pre>~~


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	cd $SLURM_SUBMIT_DIR		cd $SLURM_SUBMIT_DIR

	module load R/4.3.1-~~foss~~-~~2022a~~		module load R/4.4.2-gfbf-2024a

	R CMD BATCH program.R		R CMD BATCH program.R
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	cd $SLURM_SUBMIT_DIR		cd $SLURM_SUBMIT_DIR

	module load R/4.3.1-~~foss~~-~~2022a~~		module load R/4.4.2-gfbf-2024a

	export OMP_NUM_THREADS=$SLURM_CPUS_PER_TASK		export OMP_NUM_THREADS=$SLURM_CPUS_PER_TASK

Shtsai: /* Version */

2026-01-09T20:17:28Z

Version

← Older revision		Revision as of 16:17, 9 January 2026
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	Sapelo2		Sapelo2
	=== Version ===		=== Version ===
	~~3.6~~.2~~, 4~~.1.2, 4.2.1, 4.3.1, 4.3.2, 4.4.1		4.2.1, 4.3.1, 4.3.2, 4.4.1, 4.4.2

	===Author / Distributor===		===Author / Distributor===
	See http://www.r-project.org/		See http://www.r-project.org/

Chelsea: /* Version */

2024-06-27T13:05:19Z

Version

@@ Line 5: / Line 5: @@
 Sapelo2
 === Version ===
-.6.2, 4.1.2, 4.2.1, 4.3.1, 4.3.2
+.6.2, 4.1.2, 4.2.1, 4.3.1, 4.3.2, 4.4.1
 ===Author / Distributor===
 See http://www.r-project.org/
@@ Line 14: / Line 14: @@
 Also refer to [[Running Jobs on Sapelo2]]

Chelsea: /* Version */

2024-05-14T12:36:14Z

Version

← Older revision		Revision as of 08:36, 14 May 2024
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	Sapelo2		Sapelo2
	=== Version ===		=== Version ===
	4.1.2, 4.2.1, 4.3.1		3.6.2, 4.1.2, 4.2.1, 4.3.1, 4.3.2
	===Author / Distributor===		===Author / Distributor===
	See http://www.r-project.org/		See http://www.r-project.org/

Shtsai at 18:30, 5 September 2023

2023-09-05T18:30:11Z

Show changes

Shtsai at 15:25, 3 July 2023

2023-07-03T15:25:05Z

← Older revision		Revision as of 11:25, 3 July 2023
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	Sapelo2		Sapelo2
	=== Version ===		=== Version ===
	3.5.0, 3.6.2, 4.0.0, 4.1.0, 4.1.3, 4.2.1		3.5.0, 3.6.2, 4.0.0, 4.1.0, 4.1.3, 4.2.1, 4.3.0
	===Author / Distributor===		===Author / Distributor===
	See http://www.r-project.org/		See http://www.r-project.org/
Line 14:		Line 14:

	Also refer to [[Running Jobs on Sapelo2]]		Also refer to [[Running Jobs on Sapelo2]]


			'''R version 4.3.0'''

			R version 4.3.0 is installed in /apps/eb/R/4.3.0-foss-2020b and add-on packages are installed in /apps/eb/R/4.3.0-foss-2020b/lib64/R/library. You can list all files in this dir to see the packages installed with this version of R.

			To use this version of R, please first load the module with
			<pre class="gscript">
			module load R/4.3.0-foss-2020b
			</pre>


	'''R version 4.2.1'''		'''R version 4.2.1'''
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	cd $SLURM_SUBMIT_DIR		cd $SLURM_SUBMIT_DIR

	module load R/4.0.0-foss-~~2019b~~		module load R/4.3.0-foss-2020b

	R CMD BATCH program.R		R CMD BATCH program.R
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	cd $SLURM_SUBMIT_DIR		cd $SLURM_SUBMIT_DIR

	module load R/4.0.0-foss-~~2019b~~		module load R/4.3.0-foss-2020b

	export OMP_NUM_THREADS=$SLURM_CPUS_PER_TASK		export OMP_NUM_THREADS=$SLURM_CPUS_PER_TASK

Shtsai at 19:06, 4 October 2022

2022-10-04T19:06:45Z

← Older revision		Revision as of 15:06, 4 October 2022
Line 23:		Line 23:
	module load R/4.2.1-foss-2020b		module load R/4.2.1-foss-2020b
	</pre>		</pre>
	Please note that when you load this R module, many other modules will be loaded as R depends on those other libraries and packages.		Please note that when you load this R module, many other modules will be loaded as R depends on those other libraries and packages. When you use this module, please add a '''--constraint=EDR''' option to sbatch to exclude Opteron processors. For batch jobs, you can add the header line:
			<pre class="gscript">
			#SBATCH --constraint=EDR
			</pre>

Shtsai at 19:04, 4 October 2022

2022-10-04T19:04:46Z

← Older revision		Revision as of 15:04, 4 October 2022
Line 114:		Line 114:

	<pre class="gscript">		<pre class="gscript">
	#!/bin/bash~~<br>~~		#!/bin/bash
	#SBATCH --job-name=testRjob		#SBATCH --job-name=testRjob
	#SBATCH --partition=batch		#SBATCH --partition=batch
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	<pre class="gscript">		<pre class="gscript">
	#!/bin/bash~~<br>~~		#!/bin/bash
	#SBATCH --job-name=testRjob		#SBATCH --job-name=testRjob
	#SBATCH --partition=batch		#SBATCH --partition=batch