Difference between revisions of "Website:Visualization with ggplot2 of the R-Project"
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| − | < | + | == Installation Instructions == |
| + | |||
| + | <pre> | ||
# Installation instructions based on Debian 7.1. | # Installation instructions based on Debian 7.1. | ||
| Line 7: | Line 9: | ||
# Installs Ruby and Ruby gems. Version 1.9 or newer required. | # Installs Ruby and Ruby gems. Version 1.9 or newer required. | ||
sudo apt-get install ruby ruby-dev rubygems | sudo apt-get install ruby ruby-dev rubygems | ||
| + | |||
| + | # ggplot2: plotting of many different scientific graphs using a | ||
| + | # single unified interface. Drawback: the instructions here | ||
| + | # require user input. | ||
| + | sudo R | ||
| + | # ...then type | ||
| + | # install.packages("ggplot2") | ||
| + | # ...and exit R after the installation has completed. | ||
| + | |||
| + | # Defaults: lets you tinker with R default settings. | ||
| + | wget http://cran.r-project.org/src/contrib/Defaults_1.1-1.tar.gz | ||
| + | sudo R CMD INSTALL Defaults_1.1-1.tar.gz | ||
# Rserve: R server that can be accessed via Ruby, Python, but not Perl. | # Rserve: R server that can be accessed via Ruby, Python, but not Perl. | ||
| Line 17: | Line 31: | ||
# Install Perl IPC::Run3 module, which is used to call the wrapper "script/rserve_client.rb". | # Install Perl IPC::Run3 module, which is used to call the wrapper "script/rserve_client.rb". | ||
sudo cpan install IPC::Run3 | sudo cpan install IPC::Run3 | ||
| − | </ | + | </pre> |
| + | |||
| + | == Starting the Rserve Daemon == | ||
| + | |||
| + | Applicable to <code>dev.wormbase.org</code> and <code>staging.wormbase.org</code> (same machine). | ||
| + | |||
| + | <pre> | ||
| + | sudo /etc/init.d/rserve-startup | ||
| + | </pre> | ||
| + | |||
| + | This is a wrapper for: | ||
| + | |||
| + | <pre> | ||
| + | sudo -u jenkins R_HOME=/usr/lib/R /usr/lib/R/bin/Rserve --no-save | ||
| + | </pre> | ||
| + | |||
| + | [[Category:Main Website (Web Dev)]] | ||
Latest revision as of 14:49, 19 June 2014
Installation Instructions
# Installation instructions based on Debian 7.1.
# Installs R. Version 2.14 or newer required.
sudo apt-get install r-base
# Installs Ruby and Ruby gems. Version 1.9 or newer required.
sudo apt-get install ruby ruby-dev rubygems
# ggplot2: plotting of many different scientific graphs using a
# single unified interface. Drawback: the instructions here
# require user input.
sudo R
# ...then type
# install.packages("ggplot2")
# ...and exit R after the installation has completed.
# Defaults: lets you tinker with R default settings.
wget http://cran.r-project.org/src/contrib/Defaults_1.1-1.tar.gz
sudo R CMD INSTALL Defaults_1.1-1.tar.gz
# Rserve: R server that can be accessed via Ruby, Python, but not Perl.
wget http://www.rforge.net/Rserve/snapshot/Rserve_1.8-0.tar.gz
sudo R CMD INSTALL Rserve_1.8-0.tar.gz
# Install Ruby gem that provides programmatic access to Rserve.
sudo gem install rserve-client
# Install Perl IPC::Run3 module, which is used to call the wrapper "script/rserve_client.rb".
sudo cpan install IPC::Run3
Starting the Rserve Daemon
Applicable to dev.wormbase.org and staging.wormbase.org (same machine).
sudo /etc/init.d/rserve-startup
This is a wrapper for:
sudo -u jenkins R_HOME=/usr/lib/R /usr/lib/R/bin/Rserve --no-save
