R - Revision history

Wwarr@uab.edu: Added per-project libraries implementation

2021-06-24T21:55:17Z

Added per-project libraries implementation

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 {{Generic_stub}}
-R is a free software environment for statistical computing and graphics.
+R is a free software environment for statistical computing and graphics. Versions available on Cheaha can be found and loaded using the following commands, where <version> must be replaced by one of the versions shown by the spider command.
 ==SGE module files==

2016-02-05T19:03:46Z

SGE module files

@@ Line 16: / Line 16: @@
 </pre>
-The following libraries are available, additional libraries should be installed by the user under ~/R_exlibs
+The following libraries are available
 * /share/apps/R/R-<font color="red">X.X.X</font>/gnu/lib/R/library
 ** The default libraries that come with R
@@ Line 24: / Line 23: @@
 * /share/apps/R/R-<font color="red">X.X.X</font>/gnu/lib/R/bioc
 ** BioConductor libraries (default package set using getBioC)
 ==SGE Job script ==

2012-04-06T13:37:34Z

added category biostatistics

← Older revision		Revision as of 13:37, 6 April 2012
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	</pre>		</pre>

	[[Category:Software]]		[[Category:Software]][[Category:Bio-statistics]]

2012-04-04T14:14:52Z

added category software

2012-04-02T18:50:23Z

← Older revision		Revision as of 18:50, 2 April 2012
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	{{Generic_stub}}		{{Generic_stub}}


	R is a free software environment for statistical computing and graphics.		R is a free software environment for statistical computing and graphics.

2012-03-15T15:51:30Z

added SGE module file and job script

← Older revision		Revision as of 15:51, 15 March 2012
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	{{Generic_stub}}		{{Generic_stub}}

	R is a free software environment for statistical computing and graphics. ~~Please refer to the following page for additional instructions for running R on Cheaha [[R-userinfo\|Running R Jobs on a Rocks Cluster]].~~		R is a free software environment for statistical computing and graphics.

			==SGE module files==

	The following Modules files should be loaded for this package:		The following Modules files should be loaded for this package:
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	** BioConductor libraries (default package set using getBioC)		** BioConductor libraries (default package set using getBioC)

			==SGE Job script ==
	'''Sample R Grid Engine Job Script'''		'''Sample R Grid Engine Job Script'''
	This is an example of a serial (i.e. non parallel) R job that has a 2 hour run time limit requesting 256M of RAM		This is an example of a serial (i.e. non parallel) R job that has a 2 hour run time limit requesting 256M of RAM

2012-03-15T15:42:28Z

started page

← Older revision		Revision as of 15:42, 15 March 2012
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	{{Generic_stub}}		{{Generic_stub}}

			R is a free software environment for statistical computing and graphics. Please refer to the following page for additional instructions for running R on Cheaha [[R-userinfo\|Running R Jobs on a Rocks Cluster]].

			The following Modules files should be loaded for this package:
			<pre>
			module load R/R-2.7.2
			</pre>

			For other versions, simply replace the version number
			<pre>
			module load R/R-2.11.1
			</pre>

			The following libraries are available, additional libraries should be installed by the user under ~/R_exlibs

			* /share/apps/R/R-<font color="red">X.X.X</font>/gnu/lib/R/library
			** The default libraries that come with R
			** Rmpi
			** Snow
			* /share/apps/R/R-<font color="red">X.X.X</font>/gnu/lib/R/bioc
			** BioConductor libraries (default package set using getBioC)

			'''Sample R Grid Engine Job Script'''
			This is an example of a serial (i.e. non parallel) R job that has a 2 hour run time limit requesting 256M of RAM
			<pre>
			#!/bin/bash
			#$ -S /bin/bash
			#$ -cwd
			#
			#$ -j y
			#$ -N rtestjob
			# Use '#$ -m n' instead to disable all email for this job
			#$ -m eas
			#$ -M YOUR_EMAIL_ADDRESS
			#$ -l h_rt=2:00:00,s_rt=1:55:00
			#$ -l vf=256M
			. /etc/profile.d/modules.sh
			module load R/R-2.7.2

			#$ -v PATH,R_HOME,R_LIBS,LD_LIBRARY_PATH,CWD

			R CMD BATCH rscript.R
			</pre>

2012-03-15T15:32:36Z

Created page with "{{Generic_stub}}"

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