Haas PhD Server Configuration

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Revision as of 19:03, 25 March 2011 by imported>Ed
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IP Addresses

During the configuration phase the servers will be on:

  • phd-pgsql: 128.32.66.163
  • phd-lamp: 128.32.66.164

Base configurations

Both servers are running CentOS release 5.5 (cat /etc/*release*), which uses the Yum package manager (yum list installed | more). Both have Gnome on Xwindows available, as well as the following common packages:

  • cpp 4.1.2-48.el5.
  • ftp 0.17-35.el5
  • httpd 2.2.3-43.el5.centos.3
  • iptables 1.3.5-5.3.el5_4.1
  • mysql 5.0.77-4.el5_5.4 (note that this is the client)
  • openssh 4.3p2-41.el5_5.1
  • pam 0.99.6.2-6.el5_5.2
  • perl 4:5.8.8-32.el5_5.2
  • python 2.4.3-27.el5_5.3
  • php 5.1.6-27.el5_5.3
  • samba 3.0.33-3.29.el5_5.1
  • squid 7:2.6.STABLE21-6.el5

Notable additional packages on pgsql are:

  • postgresql.x86_64 8.1.22-1.el5_5.1

Before we start

On Both Machines

Mounting bear

It is very useful to mount your R drive 

mkdir /mnt/ed
mount -t cifs //bear/ed_egan/ /mnt/ed -o user=ed_egan

for the inclusion into fstab or other more sophisticated approaches there is a Centos help page.

Package additions/upgrades/removals

On lamp:

  • Upgrade PhP to 5.2.17+
  • Install MySQL (the server)
  • Install Mediawiki
  • Remove ftp

On pgsql:

  • Remove httpd, mysql, ftp, sendmail, inn and other servers we don't need
  • Upgrade python to version 3.1
  • Install TrueCrypt

On the Wiki Server

Upgrading PhP

In order to upgrade PhP (or install a more recent version of MySQL) we will probably need access to a different repository.

You can automatically add the Atomicorp repository using: 

wget -q -O - http://www.atomicorp.com/installers/atomic | sh

It has PhP version 5.2.17-1.el5.art and MySQL version 5.1.55-1.el5.art. Also install pgp-mysql. 

yum list php   #We were running 5.1.6-27.el5_5.3
yum upgrade php
yum install php-mysql

Install MySQL

Install MySql (and update the client): 

yum install mysql mysql-server

Start the server: 

/etc/init.d/mysqld start

And make sure it starts automatically on reboot: 

/sbin/chkconfig --levels 235 mysqld on

Set a root password for the database: 

mysqladmin -u root password cheit

At this point you should configure and test the webserver and PhP, which is discussed below.

Install Mediawiki

There is no good version of mediawiki available from a yum repo. So you should do this manually. It isn't painful. Detailed instructions (you won't need them) are available from:

First change to your home directory (or somewhere 'safe') then 

wget http://download.wikimedia.org/mediawiki/1.16/mediawiki-1.16.2.tar.gz

Then untar the package, either using the --owner option or as a non-root user to force extracted file ownernship to be other than 1000 

su username
tar xvzf mediawiki-*.tar.gz
sudo su

Now copy the files into the 'right' location and change permissions 

mkdir /var/www/html/w
cp -r mediawiki-1.16.2/* /var/www/html/w/
chmod a+w /var/www/html/w/config

Install ImageMagick using Yum: 

yum install glib glib2 libpng libjpeg libtiff ghostscript freetype ImageMagick ImageMagick-perl

On Pgsql

Removing Unneeded Servers

Remove the web, mail, news and other unneeded servers. Consider removing MySQL (but leave it for now): 

yum groupremove "Web Server"
yum groupremove "Mail Server"
yum groupremove "News Server"

Upgrade Python?

Find out which version of Python is currently installed: 

yum list python       #lists version 2.4.3-27.el5_5.3

There are tarballs of version 3.2 available from Python.org's download area, but it seems to recent to have got rpm/yum support as yet.

Configuration

For both servers:

  • Mount bear
  • Configure Iptables

For lamp:

  • Configure Apache
  • Configure Mediawiki
  • Add Mediawiki extensions
  • Create new folder structure

For pgsql:

  • Configure Postgre

On the Wiki Server

Configure Apache

Edit the main config file: 

vi /etc/httpd/conf/httpd.conf
...
ServerName 128.32.66.164:80
...

To start Apache (to restart use 'restart'): 

/etc/init.d/httpd start

To set Apache to start at boot: 

/sbin/chkconfig --levels 235 httpd on

First, confirm your IP address: 

/sbin/ifconfig

Configure IP Tables

For lamp we need a hole for port 80 for the webserver. For pgsql we need a hole for our clientware. General documentation is available in iptables from Centos

Check that iptables is running: 

/sbin/lsmod | grep ip_tables

Backup the old rules: 

cp /etc/sysconfig/iptables /etc/sysconfig/iptables.bak

Add a hole (or two): 

vi /etc/sysconfig/iptables
...
 -A RH-Firewall-1-INPUT -m state --state NEW -m tcp -p tcp -s 128.32.66.0/24 --dport 80 -j ACCEPT
 -A RH-Firewall-1-INPUT -m state --state NEW -m tcp -p tcp -s 128.32.67.0/24 --dport 80 -j ACCEPT
 -A RH-Firewall-1-INPUT -m state --state NEW -m tcp -p tcp -s 128.32.74.0/24 --dport 80 -j ACCEPT
 -A RH-Firewall-1-INPUT -m state --state NEW -m tcp -p tcp -s 10.136.0.0/23 --dport 80 -j ACCEPT
...

Restart the service: 

/etc/init.d/iptables restart

Test the webserver and PhP

Browse to http://128.32.66.164/ you should see the test page. Write the following text file to /var/www/html/Test.php: 

<?php
  phpinfo();
?>

Browse to http://128.32.66.164/Test.php and you should see the PhP version page.

Configure MediaWiki

Browse to http://128.32.66.164/w/config/index.php, and set the following setting: 

WikiName: HaasPhDWiki
Contact: kimg@haas.berkeley.edu
Admin password and dbase password: cheit
All other settings as default (you do have superuser on the dbase so tick that box)

Now move the LocalSettings.php file, change the permissions, and remove the config directory. 

cp config/LocalSettings.php LocalSettings.php
chmod 600 LocalSettings.php
chown apache LocalSettings.php
mkdir /mnt/ed/configbak
cp -r ./config /mnt/ed/configbak/
rm -rf ./config

You can now view your Wiki at http://128.32.66.164/w/index.php

We will now do the extensions and fine detail configuration.

Data

For lamp:

  • Import Wiki pages
  • Change links to pdfs and repository files
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