Hoffman2:R - Revision history

Hwang at 20:12, 22 November 2021

2021-11-22T20:12:15Z

← Older revision		Revision as of 20:12, 22 November 2021
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	*[http://www.r-project.org/ The R Project]		*[http://www.r-project.org/ The R Project]
	*[http://www.mayin.org/ajayshah/KB/R/html/b1.html Example R Script]		*[http://www.mayin.org/ajayshah/KB/R/html/b1.html Example R Script]
			*[http://stats.idre.ucla.edu/stat/data/intro_r/intro_r_interactive_flat.html#rstudio-console RStudio Console]

Hwang: /* Interactively */

2020-11-24T20:32:16Z

Interactively

← Older revision		Revision as of 20:32, 24 November 2020
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	# And you'll now be in an interactive R session. If you have no idea what to do with R, we suggest looking [http://www.r-project.org/ here]. To see all the installed packages, execute		# And you'll now be in an interactive R session. If you have no idea what to do with R, we suggest looking [http://www.r-project.org/ here]. To see all the installed packages, execute
	#: <pre>> library()</pre>		#: <pre>> library()</pre>
	# To use packages, we must install them first		# To use packages, we must install them first
	#:<pre>~~$ install.packages("installr", dependencies=TRUE)~~		#: <pre>install.packages("tidyverse", dependencies=TRUE)</pre>
	install.packages("tidyverse", dependencies=TRUE)</pre>
	# Then load the packages		# Then load the packages
	#: <pre>$Library(tidyverse~~)</pre>~~		#: <pre>Library(tidyverse)</pre>
	~~#: <pre>$Library(installr~~)</pre>

	==Batch==		==Batch==

Hwang: /* Interactively */

2020-11-24T20:13:19Z

Interactively

← Older revision		Revision as of 20:13, 24 November 2020
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	#: <pre>> library()</pre>		#: <pre>> library()</pre>
	# To use packages, we must install them first		# To use packages, we must install them first
	#:<pre>$ install.packages("installr", dependencies=TRUE)~~</pre>~~		#:<pre>$ install.packages("installr", dependencies=TRUE)
	~~#:<pre>$~~ install.packages("tidyverse", dependencies=TRUE)</pre>		install.packages("tidyverse", dependencies=TRUE)</pre>
	# Then load the packages		# Then load the packages
	#: <pre>$Library(tidyverse)</pre>		#: <pre>$Library(tidyverse)</pre>

Hwang: /* Interactively */

2020-11-24T20:12:56Z

Interactively

← Older revision		Revision as of 20:12, 24 November 2020
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	#: <pre>> library()</pre>		#: <pre>> library()</pre>
	# To use packages, we must install them first		# To use packages, we must install them first
	install.packages("installr", dependencies=TRUE)		#:<pre>$ install.packages("installr", dependencies=TRUE)</pre>
	install.packages("tidyverse", dependencies=TRUE)		#:<pre>$ install.packages("tidyverse", dependencies=TRUE)</pre>
	# Then load the packages		# Then load the packages
	Library(tidyverse)		#: <pre>$Library(tidyverse)</pre>
	Library(installr)		#: <pre>$Library(installr)</pre>

	==Batch==		==Batch==

Hwang: /* Interactively */

2020-11-24T20:11:03Z

Interactively

← Older revision		Revision as of 20:11, 24 November 2020
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	# And you'll now be in an interactive R session. If you have no idea what to do with R, we suggest looking [http://www.r-project.org/ here]. To see all the installed packages, execute		# And you'll now be in an interactive R session. If you have no idea what to do with R, we suggest looking [http://www.r-project.org/ here]. To see all the installed packages, execute
	#: <pre>> library()</pre>		#: <pre>> library()</pre>

	# To use packages, we must install them first		# To use packages, we must install them first
	install.packages("installr", dependencies=TRUE)		install.packages("installr", dependencies=TRUE)
	install.packages("tidyverse", dependencies=TRUE)		install.packages("tidyverse", dependencies=TRUE)

	# Then load the packages		# Then load the packages
	Library(tidyverse)		Library(tidyverse)

Hwang: /* Interactively */

2020-11-24T20:10:10Z

Interactively

← Older revision		Revision as of 20:10, 24 November 2020
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	#: <pre>> library()</pre>		#: <pre>> library()</pre>

			# To use packages, we must install them first
			install.packages("installr", dependencies=TRUE)
			install.packages("tidyverse", dependencies=TRUE)

			# Then load the packages
			Library(tidyverse)
			Library(installr)

	==Batch==		==Batch==

Jpdiaz: RStudio & shared R libraries

2020-06-16T18:42:34Z

RStudio & shared R libraries

@@ Line 27: / Line 27: @@
 ; <code>/path/to/output/file</code>
 : This argument is optional.  If you don't specify this argument, the output will be dumped into a file in the current working directory named for the script run with "out" appended to it. (e.g. if you ran the script <code>sampleRscript.R</code>, the generic output file would be named <code>sampleRscript.Rout</code>)
@@ Line 90: / Line 89: @@
   module load R/<version>
 where you replace <version> with the numerical version name e.g.
-  module load R/2.12.2
+  module load R/3.6.1
-will load version 2.12.2
+will load version 3.6.1

Jpdiaz: updated links to idre website

2020-03-18T19:04:50Z

updated links to idre website

← Older revision		Revision as of 19:04, 18 March 2020
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	[[Hoffman2\|Back to all things Hoffman2]]		[[Hoffman2\|Back to all things Hoffman2]]

	R is a great statistics and graphics tool. Here's how to run it on the cluster. See the official info from ~~ATS~~ [~~http~~://www.~~ats~~.ucla.edu~~/clusters/common~~/software/~~engineering~~/~~r.htm~~ here].		R is a great statistics and graphics tool. Here's how to run it on the cluster. See the official info from IDRE [https://www.hoffman2.idre.ucla.edu/software/r/ here].


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	==External Links==		==External Links==
	*[~~http~~://www.~~ats~~.ucla.edu~~/clusters/common~~/software/~~engineering~~/~~r.htm~~ R on Hoffman2, official description]		*[https://www.hoffman2.idre.ucla.edu/software/r/ R on Hoffman2, official description]
	*[http://www.r-project.org/ The R Project]		*[http://www.r-project.org/ The R Project]
	*[http://www.mayin.org/ajayshah/KB/R/html/b1.html Example R Script]		*[http://www.mayin.org/ajayshah/KB/R/html/b1.html Example R Script]

Dmargolis: /* Example */

2017-05-26T20:11:00Z

Example

← Older revision		Revision as of 20:11, 26 May 2017
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	# Type ''Build <ENTER>'' to begin creating an SGE command file.		# Type ''Build <ENTER>'' to begin creating an SGE command file.
	# The program now asks you which script you'd like to run, enter the following text to use our example script		# The program now asks you which script you'd like to run, enter the following text to use our example script
	#: <pre>/u/~~home~~/~~FMRI~~/apps/examples/qsub/sampleR.R</pre>		#: <pre>/u/project/CCN/apps/examples/qsub/sampleR.R</pre>
	# The program now asks how much memory the job will need (in [http://en.wikipedia.org/wiki/Megabyte Megabytes]). This script is really simple, but go ahead with the default value.		# The program now asks how much memory the job will need (in [http://en.wikipedia.org/wiki/Megabyte Megabytes]). This script is really simple, but go ahead with the default value.
	# The program now asks how long will the job take (in hours). Go with the minimum 1 hour; it will complete in much less than this.		# The program now asks how long will the job take (in hours). Go with the minimum 1 hour; it will complete in much less than this.
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	# The script you ran is an example taken from [http://www.mayin.org/ajayshah/KB/R/html/b1.html] which we found by Googling "R example scripts."		# The script you ran is an example taken from [http://www.mayin.org/ajayshah/KB/R/html/b1.html] which we found by Googling "R example scripts."
	# Finally, go check the inbox of the email you used to sign up for your Hoffman2 account. There will be two emails from "root@mail.hoffman2.idre.ucla.edu" that indicate when the job was started and when the job was completed. This is one of the neat features of the queue so that you can be alerted about the progress of your job without having to stay logged into Hoffman2 and checking on it constantly.		# Finally, go check the inbox of the email you used to sign up for your Hoffman2 account. There will be two emails from "root@mail.hoffman2.idre.ucla.edu" that indicate when the job was started and when the job was completed. This is one of the neat features of the queue so that you can be alerted about the progress of your job without having to stay logged into Hoffman2 and checking on it constantly.


	===By hand===		===By hand===

Ccn admin: 9 revisions

2014-01-16T03:15:02Z

9 revisions

← Older revision	Revision as of 03:15, 16 January 2014
(No difference)