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Setup and Linux Install

Setup and Linux Install

Here there are how to install from an "fresh" linux installation. Here we assume an Ubuntu (gutsy) installation but and appropriate changes should be done for other Linux "flavors".

We will also assume you have root access to the system, altough many instructions can also use sudo

Installing the R software

1. Add the R repository in the source.list (alternativelly you may wish to use the synaptic tool).
1.1 Open the file:

$ sudo su -
root$ vim /etc/apt/sources.list

1.2 Add the repository by including the following line to the source.list file

deb http://cran.r-project.org/bin/linux/ubuntu gutsy/ 

1.3 Install the keys (Ubuntu specific)

root$ gpg --keyserver subkeys.pgp.net --recv-key E2A11821
root$ gpg -a --export E2A11821 | sudo apt-key add -
root$ apt-get update

1.4 Install R

root$ apt-get install r-base r-base-core r-base-html r-base-latex r-doc-html r-doc-info r-doc-pdf r-recommended

Install other tools

root$ sudo apt-get install g++ libpq-dev gfortran xemacs21 ess

Get the tools to install aRT dependencies

This includes installing a MySQL data base and compiling TerraLib

root$ wget http://www.leg.ufpr.br/aRT/install-aRT-dep.zip
root$ unzip install-aRT-dep.zip
root$ sudo ./install-aRT-dep.sh --add-system-variables

Neste ultimo passo uma série de programas do Ubuntu foram atualizados e/ou instalados. (Clicar em (S) qudo solicitado para instalar o programa). Em particular foi instalado o banco MySQL.
Nota: Na instalação é pedida a senha de "root" para o administrador do banco, que não é a mesma do sistema!

The last step takes a long time compiling Terralib. Ainda neste último passo, após a atualização dos programas do Ubuntu é automaticamente feita o download e compilação do TerraLib/TerraView (e isto demora MUITO!!!).

Create a symbolic link to call the terraView application

$ sudo ln -s /usr/local/terralib/aplicativos/terraView/linux/terraView /usr/bin
$ source /etc/bash.bashrc

Installing R packages: aRT and sp

Start R:

root$ R

At the R prompt ( > ) type the following commands to install the packages sp and aRT. aRT depends on sp since uses the representation of spatial objects defined by this package.

> install.packages("sp", dep=T, repos="http://cran.fiocruz.br/")
> install.packages("aRT", contrib="http://www.leg.ufpr.br/aRT")

Installing other R Spatial packages

You may wish to install other Spatial packages from the R-PROJECT. Required packages can be installed individually or the entire CRAN SPATIAL Task View can be installed as follows from the R prompt.

> install.packages("ctv", dep=T, repos="http://cran.fiocruz.br/")
> require(ctv)
> install.views("Spatial")  ## takes a loooooog time

Quit R with:

> q(save=T)

MySQL setup

Start the BDMS with root (DBMS root, not system root!!!) permissions from the linux prompt with:

root$ mysql -u root -p

You will be prompt for the DBMS root password. After typing it in you will the the mysql prompt (mysql >). To grant full privileges to a MySQL user (aluno in the example below) type:

> grant all privileges on *.* to aluno@localhost

Other user and permissions can be set. However we will use aRT tools to do this!!! Even the above instructions could be se from aRT (using the aRT function addPermissions()) if the DBMS root pasword is available.

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